1GGM,1G5H


Conserved Protein Domain Family
GlyRS-like_core

?
cd00774: GlyRS-like_core 
Click on image for an interactive view with Cn3D
Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with GlyRS, Pol gamma b lacks conservation of several class II functional residues.
Statistics
?
PSSM-Id: 238397
Aligned: 37 rows
Threshold Bit Score: 274.468
Created: 24-Sep-2002
Updated: 2-Oct-2020
Structure
?
Program:
Drawing:
Aligned Rows:
 
Conserved site includes 17 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:1GGM_A; T. thermophilus GlyRS bound to Glycyl-adenylate using 3.5A
    View structure with Cn3D
  • Comment:These class II aaRS functional residues are not conseved in pol gamma B

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                     
1GGM_A      8 LVALCKRRGFIfqsseiy----gglqgvyDYGPLGVELKNNLKQAWWRRNVYErddMEGLDASVLTHRlvlhysgheatf 83  Thermus thermophilus
1G5H_A     27 LVDLCRRRHFLsgtpqqlstaallsgchaRFGPLGVELRKNLASQWWSSXVVFreqVFAVDSLHQEPGssq--------- 97  house mouse
O83678      4 IVGLCKRRGFVfpsseiy----ggqggvwDYGPMGIALKNNIAHAWWQDMTRLhdhIVGLDAAILMHPnvwrtsghvdhf 79  Treponema pallidum
Q9PPZ7     11 LVNHLKSVGFVfanseiy----nglanawDYGPLGVLLKNNLKNLWWKEFVTKqknIVGLDSAIILNPlvwkasghldnf 86  Ureaplasma parvum
O51344      7 IISLAKRKGFVfqssevy----gglsgawDYGPLGVELKKNIKKEWWKSMVYLhenIVGLDSAIFMRPeiwrasghvdgf 82  Lyme disease spiro...
NP_326282  12 ISNHLKNFGFIfqgseiy----gglantwDYGPVGFLLKQKIEEFWRKFFILKqdnSVEIDSKILMNPnvwkasghvsnf 87  Mycoplasma pulmonis
NP_906216  11 IVSHCKEYGFVfpsseiy----dglaavyDYAQYGSELKNNIKRYWWESMTLLhdnVVGIDSAIFMHPsiwkasghvdaf 86  Porphyromonas ging...
NP_663128   4 LVSLAKRRGFIfpsseiy----gglsscfDYGPLGSEMKKNIKDLWWNAMTRRhqnIVGIDASIMMNPtvweasghvasf 79  Chlorobium tepidum...
NP_757728  10 IVNHFKNYGFVyqnseiy----nglanawDFGPLGSLIKNNLKNLWLKHFIYSkkeMHLIDTNIILNPlvwkasghidnf 85  Mycoplasma penetrans
P75425     10 YVQYLKRYGFVfqssely----nglanswDFGPLGAVLKQQIKTALYNFFIKNkrdVLLIDTPIILNEqiwkasghlanf 85  Mycoplasma pneumoniae
Feature 1                                                                                     
1GGM_A     84 adpm---------------------------------------------------------------------------- 87  Thermus thermophilus
1G5H_A        --------------------------------------------------------------------------------     house mouse
O83678     80 sdplvdctvcksrfr----------------------------------------------------------------- 94  Treponema pallidum
Q9PPZ7     87 sdplidckscktryradkliesfnkd----------------------------------------------ihiaenst 120 Ureaplasma parvum
O51344     83 sdsmvdckdcksrfr----------------------------------------------------------------- 97  Lyme disease spiro...
NP_326282  88 sdplienkvngkryradkiieenfp------------------------------------------------evnvqsm 119 Mycoplasma pulmonis
NP_906216  87 ndplidnkdskkryradvlvedhlakidekiakevakaakrfgeafdeaqfratnarvieyqqkrdqiherfatalndnn 166 Porphyromonas ging...
NP_663128  80 ndpmiddkttkrryradhlienhieklhrdgkeae----------------------------aaaikvayeaaggtedp 131 Chlorobium tepidum...
NP_757728  86 sdplidckecksrfradklilentke-----------------------------------------------eineqtd 118 Mycoplasma penetrans
P75425     86 tdalvdckscklrfrvdhld-----------------------------------------------------------e 106 Mycoplasma pneumoniae
Feature 1                                                                            # #      
1GGM_A     88 --------------vdnakarywtppryfnMMFQDLrgpr--------------------ggrgLLAYLRPETAQGIFVN 133 Thermus thermophilus
1G5H_A     98 ---------------------------prdSAFRLVspesireilqdrepskeqlvaflenllkTSGKLRATLLHGALEH 150 house mouse
O83678     95 ---adqvavpsaggpcpqcggaltgvrnfnLMFSTHmgpt--------------------deraSLLYLRPETAQGIYVN 151 Treponema pallidum
Q9PPZ7    121 neefmkvlndhkifcptckqfnwtdirhfnLMFKTHqgvi--------------------edpkNIVYLRPETAQGIFVN 180 Ureaplasma parvum
O51344     98 ----adfidlskncpnckvgnnftsprsfnLMFKTHigvv--------------------edssSEVYLRPETAQGIFVN 153 Lyme disease spiro...
NP_326282 120 sekeihafivehvkeyensktswseirkfqLMFQTSqgvv--------------------edskNLVYLRPETAQGIFIN 179 Mycoplasma pulmonis
NP_906216 167 leeirqiildceivcpisgtrnwtevrqfnLMFATEmgst--------------------adgaMKVYLRPETAQGIFVN 226 Porphyromonas ging...
NP_663128 132 nrtlyniiieagikapdtgsadwtevrqfnLMFQCNmgav--------------------adsaGVVYLRPETAQGIFVN 191 Chlorobium tepidum...
NP_757728 119 sdtlikiisdnkikcpnckksnwteirkfnLMFDTSigvv--------------------ddkkDLVYLRPETAQGIFIN 178 Mycoplasma penetrans
P75425    107 qiksatqwnpkqvncpnckannwsevrdfnLLFQTEigvv--------------------nsekRLVYLRPETAQGIFIN 166 Mycoplasma pneumoniae
Feature 1                            # #          ###  # # #                                  
1GGM_A    134 FKNVLDATsrKLGFGIAQIGKAFRNEItpr---nfIFRVREFEQMEIEYFVRPgEDEYWHRYWVEERLKWWQemgl-sre 209 Thermus thermophilus
1G5H_A    151 YVNCLDLVnrKLPFGLAQIGVCFHPVSnsnqtpssVTRVGEKTEASLVWFTPTrTSSQWLDFWLRHRLLWWRkfax-sps 229 house mouse
O83678    152 YKNVLQTTrlKVPFGIAQIGKAFRNEIvtk---nfIFRTCEFEQMEMQFFVRPaEDTHWFEYWCAQRWAFYQkygv-rmn 227 Treponema pallidum
Q9PPZ7    181 FKNVQRSMrlHLPFGIAQIGKSFRNEItpg---nfIFRTREFEQMEIEFFLKEeIAYDVFDKYLNQIQNWLVtccgldln 257 Ureaplasma parvum
O51344    154 FRNVLDSSrlKIPFGIAQVGKAFRNEIvtk---nfIFRTCEFEQMEMQFFVHPkQIDEWFCYWQQNRMNFFIetlkispd 230 Lyme disease spiro...
NP_326282 180 FKNILRSTraKLPLAVGQVGKSFRNEVtpg---nfIFRTREFEQMELEVFCLPeEAEEIYQKYINLCWEFLLelgi-nkn 255 Mycoplasma pulmonis
NP_906216 227 FLNVQKTGrmKIPFGICQIGKAFRNEIvar---qfIFRMREFEQMEMQFFVRPgEELQWFEKWKNLRMQWHRalgf-gdd 302 Porphyromonas ging...
NP_663128 192 FHNVREASrmKVPFGIAQIGKAFRNEIvkg---nfIFRMVEFEQMEMQYFVKPgTQLEAFEAWREERFRWYSetlgmske 268 Chlorobium tepidum...
NP_757728 179 FKNIQRTQrqKLPFGVGQIGKAFRNEItpg---nfIFRTREFEQMEIEYFCDKkDSPKVFDNFLESIKTFLFktlkihen 255 Mycoplasma penetrans
P75425    167 FKQLLQLKkrPLPFGVAQFGKSFRNEVtpg---nfLFRVREFEQFEMEWFCNPqASLSVFESQQQAIAHFLFkvlqlnpa 243 Mycoplasma pneumoniae
Feature 1                                    ##     #                                         
1GGM_A    210 NLVPYQQPPEssahyakATVDILYRFPHGSLELEGIAQRTDFDLGSHTkdqealgitarvlrnehstqrlAYRDPETgKW 289 Thermus thermophilus
1G5H_A    230 NFSSADCQDElg----rKGSKLYYSFPWGKEPIETLWNLGDQELLHTYpgn----------------vstIQGRDGR-KN 288 house mouse
O83678    228 HMRWRTHAAHelahyarAACDIEYAFPMGFRELEGVHNRGDFDLTRHAqhsgkdl---------cyvdpdPNLDAAA-RR 297 Treponema pallidum
Q9PPZ7    258 NLRKHEHPKEelshyskKTIDFEYNFLHGFSELYGIAYRTNYDLSVHMnlsk---------------kdlTYFDEETkQK 322 Ureaplasma parvum
O51344    231 RLRFKAHDSTqlahyakAAFDIEYEFPFGFQEVEGIHNRGNYDLTQHAkfsnk-------------pkvfEYHDLLTkEK 297 Lyme disease spiro...
NP_326282 256 SIRKRIHQKEelahyskGTCDYEFNFPFGWGELLGIANRGDFDLKNHShfsq---------------edlSYLNPLDnQR 320 Mycoplasma pulmonis
NP_906216 303 KYRFHDHDKLahy--anAATDIEFEMPFGFKEVEGIHSRTDFDLSRHEefsg---------------kklQYFDPEQnKS 365 Porphyromonas ging...
NP_663128 269 KLHWYKHDKLahy--adLAYDIKFEFPFGIEEIEGIHSRTDFDLSQHQkysg---------------ksmEYIDQTTnER 331 Chlorobium tepidum...
NP_757728 256 NIKIIDYPKEelahyssRTVDFLYNFPHGYSELWGLADRGEFDLTAHQnlsk---------------kslEYLNEETkEK 320 Mycoplasma penetrans
P75425    244 LVKQYEYDKNelahyanKTVDFLFQFPHGLRELWGLADRGTFDLEQHQkyak---------------kplDFFDGENnEH 308 Mycoplasma pneumoniae
Feature 1           # # #  #      
1GGM_A    290 FVPYVIEPSAGVDRGVLALL 309 Thermus thermophilus
1G5H_A    289 VVPCVLSVSGDVDLGTLAYL 308 house mouse
O83678    298 YVPCVVETSAGLTRCVLMFL 317 Treponema pallidum
Q9PPZ7    323 YIPHVIEPSVGVERLLYAIL 342 Ureaplasma parvum
O51344    298 YVPYVIETSAGLTRSVLMTL 317 Lyme disease spirochete
NP_326282 321 IIPYVIEPSIGLDRLMLALL 340 Mycoplasma pulmonis
NP_906216 366 YVPYVVETSIGLDRMFLTIL 385 Porphyromonas gingivalis W83
NP_663128 332 YIPYVVETSSGCDRTFLALL 351 Chlorobium tepidum TLS
NP_757728 321 FVPSVIEPSVGVERLLYAIL 340 Mycoplasma penetrans
P75425    309 FIPAVVEPSVGIERLFYALI 328 Mycoplasma pneumoniae

| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap