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Conserved domains on  [gi|39930589|ref|NP_941022|]
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RUN domain-containing protein 3B isoform 2 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RUN_RUNDC3B cd17700
RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN ...
 36-186 8.69e-115

RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN domain-containing protein 3B (RUNDC3B), also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. RUNDC3B contains a RUN domain.


:

Pssm-ID: 439062  Cd Length: 151  Bit Score: 331.55  E-value: 8.69e-115
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  36 NLITVCRFSVKTLIDRSCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYESPRSFWDYIRVACRKVSQNCICSIEN 115
Cdd:cd17700   1 NLITVCRFSVKTLIDRSCFETIDDSSPEFVNFAAILEQILSHRLKGQVTWFGYESPRSFWDYIRVACSKVPHNCICSIEN 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 39930589 116 MENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 186
Cdd:cd17700  81 MENVSSSRAKGRAWIRVALMEKRLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 151
 
Name Accession Description Interval E-value
RUN_RUNDC3B cd17700
RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN ...
 36-186 8.69e-115

RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN domain-containing protein 3B (RUNDC3B), also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. RUNDC3B contains a RUN domain.


Pssm-ID: 439062  Cd Length: 151  Bit Score: 331.55  E-value: 8.69e-115
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  36 NLITVCRFSVKTLIDRSCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYESPRSFWDYIRVACRKVSQNCICSIEN 115
Cdd:cd17700   1 NLITVCRFSVKTLIDRSCFETIDDSSPEFVNFAAILEQILSHRLKGQVTWFGYESPRSFWDYIRVACSKVPHNCICSIEN 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 39930589 116 MENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 186
Cdd:cd17700  81 MENVSSSRAKGRAWIRVALMEKRLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 151
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 66-189 2.04e-38

RUN domain; This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could hence play important roles in multiple Ras-like GTPase signalling pathways. The domain is comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases.


Pssm-ID: 460679  Cd Length: 134  Bit Score: 135.10  E-value: 2.04e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589    66 NFAAVLEQILSHRLKGQVT----WFGYESPRSFWDYIRVACRKV--SQNCICSIENMENVSS---SRAKGRAWIRVALME 136
Cdd:pfam02759   1 QLCAALEALLSHGLKRSSLlilrAAGLLPERSFWALLERVGKLVppAEELLSSVQELEQIHTpysPDGRGRAWIRLALNE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 39930589   137 KHLSEYISTALRDFKTTRRFYEDGAIVLGEE-ANMLAGMLLGLNAIDFSFCLKG 189
Cdd:pfam02759  81 KLLDQWLKLLLSNKELLSEYYEPWALLADPEfGEILLGLLVGLSALDFNLCLKL 134
RUN smart00593
domain involved in Ras-like GTPase signaling;
126-188 9.30e-17

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 74.19  E-value: 9.30e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 39930589    126 GRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVL-GEEANMLAGMLLGLNAIDFSFCLK 188
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRdPEEGEQLLGLLVGLSALDFNLPVD 64
 
Name Accession Description Interval E-value
RUN_RUNDC3B cd17700
RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN ...
 36-186 8.69e-115

RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN domain-containing protein 3B (RUNDC3B), also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. RUNDC3B contains a RUN domain.


Pssm-ID: 439062  Cd Length: 151  Bit Score: 331.55  E-value: 8.69e-115
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  36 NLITVCRFSVKTLIDRSCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYESPRSFWDYIRVACRKVSQNCICSIEN 115
Cdd:cd17700   1 NLITVCRFSVKTLIDRSCFETIDDSSPEFVNFAAILEQILSHRLKGQVTWFGYESPRSFWDYIRVACSKVPHNCICSIEN 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 39930589 116 MENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 186
Cdd:cd17700  81 MENVSSSRAKGRAWIRVALMEKRLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 151
RUN_RUNDC3 cd17684
RUN domain found in RUN domain-containing protein 3 (RUNDC3) and similar proteins; RUNDC3 ...
 36-185 2.61e-99

RUN domain found in RUN domain-containing protein 3 (RUNDC3) and similar proteins; RUNDC3 contains two isoforms, RUNDC3A and RUNDC3B. RUNDC3A, also called Rap2-interacting protein 8 (RPIP8), may act as an effector of Rap2A GTPase in neuronal cells. RUNDC3B, also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. Both RUNDC3A and RUNDC3B contain a RUN domain.


Pssm-ID: 439046  Cd Length: 150  Bit Score: 291.99  E-value: 2.61e-99
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  36 NLITVCRFSVKTLIDRSCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYESPRSFWDYIRVACRKVSQNCICSIEN 115
Cdd:cd17684   1 NLVTVCRLSVKSLIDKACLETIDDSSEELINFAAILEQILSHRLKPVKPWYGSEEPRTFWDYIRVACKKVPQNCIASIEQ 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589 116 MENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSF 185
Cdd:cd17684  81 MENIKSPKAKGRAWIRVALMEKRLSEYLSTALKQTRLTRNFYQDGAIMLSEDATVLCGMLIGLNAIDFSF 150
RUN_RUNDC3A cd17699
RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN ...
 36-186 1.51e-86

RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN domain-containing protein 3A (RUNDC3A), also called Rap2-interacting protein 8 (RPIP8), may act as an effector of Rap2A GTPase in neuronal cells. It contains a RUN domain.


Pssm-ID: 439061  Cd Length: 151  Bit Score: 259.57  E-value: 1.51e-86
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  36 NLITVCRFSVKTLIDRSCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYESPRSFWDYIRVACRKVSQNCICSIEN 115
Cdd:cd17699   1 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFKGPVSWFSSDGQRGFWDYIRLACSKVPNNCISSIEN 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 39930589 116 MENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 186
Cdd:cd17699  81 MENISTSRAKGRAWIRVALMEKRLSEYIATALRDTRTTRRFYDDGAIMLREESTVLTGMLIGLSAIDFSFC 151
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 66-189 2.04e-38

RUN domain; This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could hence play important roles in multiple Ras-like GTPase signalling pathways. The domain is comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases.


Pssm-ID: 460679  Cd Length: 134  Bit Score: 135.10  E-value: 2.04e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589    66 NFAAVLEQILSHRLKGQVT----WFGYESPRSFWDYIRVACRKV--SQNCICSIENMENVSS---SRAKGRAWIRVALME 136
Cdd:pfam02759   1 QLCAALEALLSHGLKRSSLlilrAAGLLPERSFWALLERVGKLVppAEELLSSVQELEQIHTpysPDGRGRAWIRLALNE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 39930589   137 KHLSEYISTALRDFKTTRRFYEDGAIVLGEE-ANMLAGMLLGLNAIDFSFCLKG 189
Cdd:pfam02759  81 KLLDQWLKLLLSNKELLSEYYEPWALLADPEfGEILLGLLVGLSALDFNLCLKL 134
RUN_RUFY1_like cd17681
RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar ...
 33-185 2.55e-38

RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar proteins; This family includes RUN and FYVE domain-containing protein RUFY1, RUFY2, and RUFY3. RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY2, also called Rab4-interacting protein related, is a novel embryonic factor that is present in the nucleus at early stages of embryonic development. It may have both endosomal functions in the cytoplasm and nuclear functions. RUFY3, also called Rap2-interacting protein x (RIPx or RPIPx), or single axon-regulated protein (singar), is an N-terminal RUN domain and a C-terminal FYVE domain containing protein predominantly expressed in the brain. It suppresses formation of surplus axons for neuronal polarity. Unlike other RUFY proteins, RUFY3 can associate with the GTP-bound active form of Rab5. RUFY1, RUFY2, and RUFY3 contain an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439043  Cd Length: 155  Bit Score: 135.39  E-value: 2.55e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  33 ERRNLITVCRFSVKTLIDRSC-FE-TIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYEspRSFWDYIRVACRKVS--QN 108
Cdd:cd17681   1 ERRNLLNLAKLSIKELIESALsFGrTLDSDHVPLQQFFVILEHVLRHGLKVKKSFLGPN--KSFWPVLEHVEKLVPeaNE 78

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 39930589 109 CICSIENMENVSSSRAKGRAWIRVALMEKHLSEYIStALRDFKTTRR-FYEDGAIVLGEEANMLAGMLLGLNAIDFSF 185
Cdd:cd17681  79 ITASVRDLPGIKTPLGRARAWLRLALMQKKLADYFR-ALIENKDLLSeFYEPGALMMSEEAVVIAGLLVGLNVIDCNL 155
RUN cd17671
RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new ...
 44-185 1.01e-27

RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new molecule containing SH3 at the carboxyl-terminus), is a less conserved protein motif that comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases. RUN domains are often found in proteins linked particularly to the functions of GTPases in the Rap and Rab families, suggesting the RUN domain may be involved in Rab-mediated membrane trafficking, possibly as a Rab-binding site. RUN domain-containing proteins could hence play important roles in multiple Ras-like GTPase signalling pathways.


Pssm-ID: 439038  Cd Length: 154  Bit Score: 107.13  E-value: 1.01e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  44 SVKTLIDR---------SCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGyesPRSFWDYIRVACRKVSQNCICS-- 112
Cdd:cd17671   2 AVKELLESfadngeaddSAALTLTDDDPVVGRLCAALEAILSHGLKPKRFGGG---KVSFWDFLEALEKLLPAPSLKQai 78

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 39930589 113 --IENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLG-EEANMLAGMLLGLNAIDFSF 185
Cdd:cd17671  79 rdINSLSNVKTDDGRGRAWIRLALNEKSLESYLAALLSDQSLLRKYYEPWALLRDpEEAELFLSLLVGLSSLDFNL 154
RUN_RUFY1 cd17694
RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; ...
 33-186 2.00e-23

RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY1 contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439056  Cd Length: 156  Bit Score: 95.36  E-value: 2.00e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  33 ERRNLITVCRFSVKTLIDR--SCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYEspRSFW---DYIRVACRKVSq 107
Cdd:cd17694   1 ERANLMNMMKLSIKVLIQSalSLGRTLDSDYPPLQQFFVVLEHCLKHGLKVKKSFIGQN--KSFFgplELVEKLCPEAS- 77

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 39930589 108 NCICSIENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 186
Cdd:cd17694  78 DIATSARNLPELKTAVGRGRAWLHLALMQKKLADYLKVLIDRKDLLSEFYEPGALMMEEEGAVIVGLLVGLNVIDANLC 156
RUN_RUFY3 cd17696
RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; ...
 33-186 3.80e-23

RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; RUFY3, also called Rap2-interacting protein x (RIPx or RPIPx), or single axon-regulated protein (singar), is an N-terminal RUN domain and a C-terminal FYVE domain containing protein predominantly expressed in the brain. It suppresses formation of surplus axons for neuronal polarity. Unlike other RUFY proteins, RUFY3 can associate with the GTP-bound active form of Rab5. This model represents the RUN domain of RUFY3.


Pssm-ID: 439058  Cd Length: 156  Bit Score: 94.68  E-value: 3.80e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  33 ERRNLITVCRFSVKTLIDRSCF--ETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYEspRSFWDYIRVACRKVSQ--N 108
Cdd:cd17696   1 ERMNLMNMAKLSIKGLIESALNlgRTLDSDYAPLQQFFVVMEHCLKHGLKAKKTFLGQN--KSFWGPLELVEKLVPEaaE 78

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 39930589 109 CICSIENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 186
Cdd:cd17696  79 ITASVKDLPGLKTPVGRGRAWLRLALMQKKLSEYMKALINRKDLLSEFYEPNALMMEEEGAIIAGLLVGLNVIDANFC 156
RUN_RUFY2 cd17695
RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; ...
 33-186 7.96e-23

RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; RUFY2, also called Rab4-interacting protein related, is a novel embryonic factor that contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between. It is present in the nucleus at early stages of embryonic development. It may have both endosomal functions in the cytoplasm and nuclear functions. This model represents the RUN domain of RUFY2.


Pssm-ID: 439057  Cd Length: 156  Bit Score: 93.89  E-value: 7.96e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  33 ERRNLITVCRFSVKTLIDR--SCFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYEspRSFW---DYIRVACRKVSQ 107
Cdd:cd17695   1 ERANLLNMAKLSIKGLIESalSFGRTLDSDYPPLQQFFVVMEHCLKHGLKVRKSFLSYN--KTIWgplELVEKLCPEAEE 78

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 39930589 108 nCICSIENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 186
Cdd:cd17695  79 -IAASVRDLPGLKTPLGRARAWLRLALMQKKLADYLRCLIIRRDLLSEFYEYHALMMEEEGAVIVGLLVGLNVIDANLC 156
RUN smart00593
domain involved in Ras-like GTPase signaling;
126-188 9.30e-17

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 74.19  E-value: 9.30e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 39930589    126 GRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVL-GEEANMLAGMLLGLNAIDFSFCLK 188
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRdPEEGEQLLGLLVGLSALDFNLPVD 64
RUN_SNX29 cd17689
RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN ...
 59-184 1.85e-13

RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN domain-containing protein 2A (RUNDC2A), belongs to the sorting nexin family. Sorting nexins are a large group of proteins that are localized in the cytoplasm and have the potential for membrane association either through their lipid-binding PX domain, a phospholipid-binding motif, or through protein-protein interactions with membrane-associated protein complexes. Some sorting nexin family members have been shown to facilitate protein sorting. This model contains the RUN domain of SNX29.


Pssm-ID: 439051  Cd Length: 166  Bit Score: 68.03  E-value: 1.85e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  59 DSSPEFNNFAAVLEQILSHRLK----------------GQVTWFGYESPR-SFWDYIRVACRKVSQNCICSIENmenVSS 121
Cdd:cd17689  22 ESDSRVSCLCAQLEAVLQHGLKtsrspnlvssavtqvsGLAGSLGSAETEpTFWPFVKEHLTKHELERFELLKN---IWT 98

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 39930589 122 SRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEE-ANMLAGMLLGLNAIDFS 184
Cdd:cd17689  99 DIGRGRAWLRSALNEHSLERYLHILLSNENLLRQYYEDWAFLRDEErSSMLPNMAAGLGSILFA 162
RUN_RUFY4_like cd17682
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil ...
 55-185 7.28e-13

RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil domain-containing protein 1 (FYCO1), and similar proteins; The family includes RUFY4 and FYCO1. RUFY4 acts as a positive regulator that enhances autophagy and lysosome tethering in response to Interleukin-4. It is expressed in a cell-specific manner or under specific immunological conditions associated with IL4 expression such as allergic asthma. FYCO1, also called zinc finger FYVE domain-containing protein 7 (ZFYVE7), is a multidomain autophagy adaptor protein that interacts with kinesin motor proteins and with the autophagosomal membrane components microtubule-associated protein 1 light chain 3 (LC3), Rab7, and phosphatidylinositol 3-phosphate (PI3P), to mediate microtubule plus-end-directed autophagosome transport. Both RUFY4 and FYCO1 contain an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439044  Cd Length: 150  Bit Score: 65.71  E-value: 7.28e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  55 ETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGYEspRSFWDYIRvACRKVSQ-------NCICSIENMENVSSSRAKGR 127
Cdd:cd17682  15 EITDPDNPYLRPFCETLEKILRKGLKEKVSLGGRR--KDYWDWLE-ELLKKLNkipkslsDAVKFVKSCKKVKTNQGRGR 91

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 39930589 128 AWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANM-LAGMLLGLNAIDFSF 185
Cdd:cd17682  92 LFIRYALNKKCLHDPVQQLVKNPKLLSDYYSPDSILGNEILSEiLLSLLYQLNEINFDL 150
RUN_PLEKHM2 cd17680
RUN domain found in pleckstrin homology domain-containing family M member 2 (PLEKHM2) and ...
 71-185 5.65e-12

RUN domain found in pleckstrin homology domain-containing family M member 2 (PLEKHM2) and similar proteins; PLEKHM2, also called PH domain-containing family M member 2, or Salmonella-induced filaments A (SifA) and Kinesin-Interacting Protein (SKIP), is the lysosome, melanosome and lytic granule cargo adaptor that controls lysosome positioning using a composite kinesin-1 heavy and light chain-binding domain. In addition to kinesin-1, it also interacts with several Rabs to affect endosomal trafficking. This model represents the RUN domain of PLEKHM2.


Pssm-ID: 439042  Cd Length: 145  Bit Score: 63.03  E-value: 5.65e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  71 LEQILSHRLKgQVTWfGYesprsfWDYIRVACRKvsqNCICSIENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDF 150
Cdd:cd17680  41 LDHALLHGLR-RGNR-GY------WPFVKEFTHK---ETIKQIENLPNVTTDLGRGRAWLYLALNEGSLESYLRSFLENR 109

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 39930589 151 KTTRRFYEDGAIVLGEEA-NMLAGMLLGLNAIDFSF 185
Cdd:cd17680 110 KLVKKFYHKHALLRDSQRlELLLTLLSGLEFVQFDL 145
RUN_PLEKHM1 cd17679
RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and ...
 44-185 5.70e-12

RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and similar proteins; PLEKHM1, also called PH domain-containing family M member 1, or 162 kDa adapter protein (AP162), may act as a multivalent adapter protein that regulates Rab7-dependent and HOPS complex-dependent fusion events in the endolysosomal system and couples autophagic and the endocytic trafficking pathways. This model represents the RUN domain of PLEKHM1.


Pssm-ID: 439041 [Multi-domain]  Cd Length: 171  Bit Score: 63.76  E-value: 5.70e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  44 SVKTLIDRSCF--ETIDDSSPEFNNFAAVLEQILSHRLKGQVT--WFGYESPR-------SFWDYIRVACRKvsqNCICS 112
Cdd:cd17679  11 SVKELQLEYVSsdEVVTSSDDGANTLCCVLEAIFLHGLKDKFIskVSSVFSGDvdklpepNFWPLLLKFSHR---DVIDQ 87

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 39930589 113 IENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVL-GEEANMLAGMLLGLNAIDFSF 185
Cdd:cd17679  88 IEHLSQITTDVGRCRAWIRLALNDGLLESYLEAILKDKSALKSYYNPSAFLRdPEQLDILKSLLQGLESFQFEL 161
RUN_RUFY4 cd17697
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4) and similar proteins; ...
 57-183 2.15e-08

RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4) and similar proteins; RUFY4 acts as a positive regulator that enhances autophagy and lysosome tethering in response to Interleukin-4. It is expressed in a cell-specific manner or under specific immunological conditions associated with IL4 expression such as allergic asthma. RUFY4 belongs to the FUFY protein family which is characterized by the presence of an N-terminal RUN domain and a C-terminal FYVE domain; this model represents the RUN domain of RUFY4.


Pssm-ID: 439059  Cd Length: 150  Bit Score: 52.88  E-value: 2.15e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  57 IDDSSPEFNNFAAVLEQILSHRLKGQVTWFGyeSPRSFWDYIRVACRKVSQ--NCICSIENMENVSSSRAKGRAWIRVAL 134
Cdd:cd17697  21 ITDGSPELHRLCARLEYLLQFDQKEKKSFFG--SRKDYWDFLCLCLNRHRGgtEGIHFVNSTDKLKTPLGKGRAFIRYCL 98

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 39930589 135 MEKHLSEYISTALRDFKTTRRFYEDGAIVLGEE-ANMLAGMLLGLNAIDF 183
Cdd:cd17697  99 VQQQLAESLQLCLLNPELTGEWYYARSPFLSPElRSDILDSLYELNGVNF 148
RUN1_DENND5B cd17691
RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 113-187 2.46e-07

RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, also called Rab6-interacting protein 1 (Rab6IP1)-like protein, functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the first RUN domain of DENND5B.


Pssm-ID: 439053 [Multi-domain]  Cd Length: 206  Bit Score: 50.82  E-value: 2.46e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 39930589 113 IENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIV-LGEEANMLAGMLLGLNAIDFsFCL 187
Cdd:cd17691 127 IQNMSEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQALTKKLYKRYAFLrCEEEKEQFLYHLLSLNAVDY-FCF 201
RUN_FYCO1 cd17698
RUN domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar ...
 55-183 3.75e-07

RUN domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins; FYCO1, also called zinc finger FYVE domain-containing protein 7 (ZFYVE7), is a multidomain autophagy adaptor protein that interacts with kinesin motor proteins and with the autophagosomal membrane components microtubule-associated protein 1 light chain 3 (LC3), Rab7, and Phosphatidylinositol 3-phosphate (PI3P), to mediate microtubule plus-end-directed autophagosome transport. This model represents the RUN domain of FYCO1.


Pssm-ID: 439060  Cd Length: 158  Bit Score: 49.31  E-value: 3.75e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  55 ETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFGyeSPRSFWDYIRVACRKV--SQNCICSIENMENVSSSRAKGRAWIRV 132
Cdd:cd17698  27 EPITDDSTTLHKFCAKLEYLLQFDQKEKTTLLG--GRKDYWDYFCECLAKVkgLNDGIRFVKSLKEVRTSLGKGRAFIRY 104

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 39930589 133 ALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGEEANM-LAGMLLGLNAIDF 183
Cdd:cd17698 105 SLVHQRLADTLQQCVMNGKVTSDWYYPRSVFLNHKYSSdIINSLYDLNEVQF 156
RUN_SGSM1_like cd17687
RUN domain found in small G protein signaling modulators, SGSM1, SGSM2, and similar proteins; ...
 44-184 6.57e-07

RUN domain found in small G protein signaling modulators, SGSM1, SGSM2, and similar proteins; SGSM1, also called RUN and TBC1 domain-containing protein 2 (RUTBC2), interacts with numerous Rab family members, functioning as Rab effector for some, and as GTPase activator for others. It is a Rab9A effector and GTPase-activating protein for Rab36, and links Rab9A function to Rab36 function in the endosomal system. SGSM2, also called RUN and TBC1 domain-containing protein 1 (RUTBC1), is a GTPase-activating protein for Rab32/38, and regulates melanogenic enzyme trafficking in melanocytes. It also acts as a Rab9A effector that activates GTP hydrolysis by Rab32 and Rab33B proteins. This model contains the RUN domain of SGSM1 and SGSM2.


Pssm-ID: 439049  Cd Length: 161  Bit Score: 48.82  E-value: 6.57e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  44 SVKTLIDRS-CFETIDDSSPEFNNFAAVLEQILSHRLKGQVTWFgYESPRSFWDYIRVA-----CRKVSQNCICSIENME 117
Cdd:cd17687   2 EVKQLMEEAvTRKFIHEDSSSVTSLCGAVDACLLHGLRKRALGL-FRSSSTFSLLQKVAkscppAADILRKVQEIENLSE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589 118 NVSSSRAKGRA---------------WIRVALMEKHLS---EYIStalrdfKTTRRFYEDGAIVL-GEEANMLAGMLLGL 178
Cdd:cd17687  81 NKRSSSSSGSNssnshgnsssnrkilWIRIALFEKVLDkivDYLV------ENASKYYEKEALMAdPVDGPLLASLLVGP 154


                ....*.
gi 39930589 179 NAIDFS 184
Cdd:cd17687 155 CALDYT 160
RUN1_DENND5 cd17677
RUN1 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 ...
 112-186 7.73e-07

RUN1 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 has been characterized as Rab6-interacting protein which is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. It functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. DENND5 has two isoforms, DENND5A and DENND5B. This model represents the first RUN domain of DENND5.


Pssm-ID: 439039  Cd Length: 183  Bit Score: 48.93  E-value: 7.73e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 39930589 112 SIENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIVLGE-EANMLAGMLLGLNAIDFsFC 186
Cdd:cd17677 103 NVQNMKEIKTDVGYARAWIRLALEKKLLSKHLKTLLSNQDLLRSLYKRYAFLRCEdEREQFLYHLLSLNAVDY-FC 177
RUN_RUBCN cd17686
RUN domain found in Run domain Beclin-1-interacting and cysteine-rich domain-containing ...
 64-181 7.56e-06

RUN domain found in Run domain Beclin-1-interacting and cysteine-rich domain-containing protein (RUBCN) and similar proteins; RUBCN, also called rubicon, or beclin-1 associated RUN domain containing protein (Baron), is part of a Beclin-1-Vps34-containing autophagy complex. It negatively regulates endosome maturation and degradative endocytic trafficking and impairs autophagosome maturation process. It is also an important negative regulator of the innate immune response, enhances viral replication and may play a role in viral immune evasion. This model contains the RUN domain of RUBCN.


Pssm-ID: 439048  Cd Length: 151  Bit Score: 45.72  E-value: 7.56e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 39930589  64 FNNFAAVLEQILSHRLKGQVtwfGYESPRSFWDYIRVACRK--VSQNCICSIENM-ENVSSSRAKGRAWIRVALMEKHLS 140
Cdd:cd17686  21 LQRLCRAVENILQHGLKEFQ---GLNKEIDDWEFVQGLRWLqpTLAPSIEQQSRSsPSESEVSDKGRLWLRQSLQQHCLS 97

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 39930589 141 EYISTALRDFKTTRRFYEDGAIvLGEEANMLAgMLLGLNAI 181
Cdd:cd17686  98 SQLQWLVSDKELLRKYYEDEAF-LRQEGYATA-LLICLTAV 136
RUN1_DENND5A cd17690
RUN1 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, ...
 113-187 2.33e-05

RUN1 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, also called Rab6-interacting protein 1 (Rab6IP1), is present predominantly in developing neuronal tissue, and functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the first RUN domain of DENND5A.


Pssm-ID: 439052 [Multi-domain]  Cd Length: 209  Bit Score: 45.00  E-value: 2.33e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 39930589 113 IENMENVSSSRAKGRAWIRVALMEKHLSEYISTALRDFKTTRRFYEDGAIV-LGEEANMLAGMLLGLNAIDFsFCL 187
Cdd:cd17690 130 IQNIGEIKTDVGKARAWVRLSMEKKLLSRHLKQLLSDHELTKKLYKRYAFLrCDDEKEQFLYHLLSFNAVDY-FCF 204
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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