1JMJ,1JMO


Conserved Protein Domain Family
HCII
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cd02047: HCII (this model, PSSM-Id:239002 is obsolete and has been replaced by 381004)
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Heparin cofactor II (HCII) inhibits thrombin, the final protease of the coagulation cascade. HCII is allosterically activated by binding to cell surface glycosaminoglycans (GAGs). The specificity of HCII for thrombin is conferred by a highly acidic hirudin-like N-terminal tail, which becomes available after GAG binding for interaction with the anion-binding exosite I of thrombin. This subgroup corresponds to clade D of the serpin superfamily.
Links
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Statistics
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PSSM-Id: 239002
Aligned: 5 rows
Threshold Bit Score: 782.87
Created: 9-Nov-2004
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
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reactive center
Conserved site includes 26 residues -Click on image for an interactive view with Cn3D
Feature 1:reactive center loop
Evidence:
  • Structure:1JMO, HCII-thrombin complex
    - View structure with Cn3D
  • Comment:depending on the conformational state, the RC loop is surface accessible in the active form or buried and inserted as the central beta strand in the inactive form.
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1                                                                                     
1JMJ_B     43 ENTVTNDWiPEGEEDDDYLDLEKIFSEDdDYI--DIVDSLSvs---------ptDSDVSAGnILQLFHGKSRIQRLNILN 111 human
1JMO_A     43 ENTVTNDWiPEGEEDDDXLDLEKIFSEDdDXI--DIVDSLSvs---------ptDSDVSAGnILQLFHGKSRIQRLNILN 111 Homo sapiens
AAC16324   39 ENTITNDLiPEEEEEEDYLDLDKILGED-DYS--DIIDAAPh-----------iVSEIQQGnILELFQGKTRIQRLNILN 104 chicken
AAC16323   49 DDTVTNDLsTEGEDEEDYLDFDKIFGEDeDYI--DIIDAAPei----------kNSETQQGnIFELFHGKTRVQRLNIIN 116 African clawed frog
NP_878300  61 ENTVTNDL-PEGQDDEDYVDFDKILGED-DYSegDHIDEIStpapdldlfyepsDPKIRRArLLRLFHGQTRLQRINVVN 138 zebrafish

Feature 1                                                                                     
1JMJ_B    112 AKFAFNLYRVLKDQvntfDNIFIAPVGISTAMGMISLGLkGETHEQVHSILHFKDFVNASsKYEITTIHNLFRKLTHRLF 191 human
1JMO_A    112 AKFAFNLYRVLKDQvntfDNIFIAPVGISTAMGMISLGLkGETHEQVHSILHFKDFVNASsKYEITTIHNLFRKLTHRLF 191 Homo sapiens
AAC16324  105 ANFGFNLYRSVADKanssDNILMAPVGISTAMAMISLGLkGQTQQEVLSVLGFEDFINASaKYELMTVHNLFRKLTHRLF 184 chicken
AAC16323  117 ANFGFNLYRAIKNNtdasENILLAPVGISTAMATISLGTkGQTLEQVLLTLGFKDFLNASsKYEILTLHNVFRKLTHRLF 196 African clawed frog
NP_878300 139 ARFGFRLYRKLRNRlnqtDNILLAPVGISIAMGMMGLGVgPNTQEQLFQTVGFAEFVNASnHYDNSTVHKLFRKLTHRLF 218 zebrafish

Feature 1                                                                                     
1JMJ_B    192 RRNFGYTLRSVNDLYIQKQFPILLDFKTKVREYYFAEAQIADFSdpaFISKTNNHIMKLTKGLIKDALenidPATQMMIL 271 human
1JMO_A    192 RRNFGYTLRSVNDLYIQKQFPILLDFKTKVREYYFAEAQIADFSdpaFISKTNNHIMKLTKGLIKDALenidPATQMMIL 271 Homo sapiens
AAC16324  185 RRNFGYTLRSVNDLYIRKDFSILNDFRNNMKTYYFADAQPADFSdpnFITKTNERILKLTKGLIKEALvnvnPTTLMMIL 264 chicken
AAC16323  197 RRNFGYTLRSVNDIYVKRDFLIREPFKNNLKNYYFAEAQTVDFGykdFLTKANKRIQQLTKGLIEEALtnvdPALLMLLV 276 African clawed frog
NP_878300 219 RRNFGYTLRSVNDLYVKRNVQIQDSFRADAKTYYFAEPQSVDFAdpaFLVKANQRIQKITKGLIKEPLksvdPNMAVMLL 298 zebrafish

Feature 1                                                                                     
1JMJ_B    272 NCIYFKGSWVNKFPVEMTHNHNFRLNEREVVKVSMMQTKgnFLAANDqeldCDILQLEYVggISMLIVVPHkmSGMKTLE 351 human
1JMO_A    272 NCIYFKGSWVNKFPVEMTHNHNFRLNEREVVKVSMMQTKgnFLAANDqeldCDILQLEYVggISMLIVVPHkmSGMKTLE 351 Homo sapiens
AAC16324  265 NCLYFKGTWENKFPVEMTTKRSFRLNEKQTIKVPMMQTKgnFLAAADpeldCGVIQLPFVgnISMLIVLPHklSGMKALE 344 chicken
AAC16323  277 NCIYFKGTWENKFPVEYTQNMNFRLNEKELVKVPMMKTKgnFLVAADpeldCAVLQLPYVgnISMLIVLPHklSGMKLLE 356 African clawed frog
NP_878300 299 NYLYFKGTWEQKFPKELTHHRQFRVNEKKQVRVLMMQNKgsYLAAADhelnCDILQLPYAgnISMLIAVPQklSGMRSLE 378 zebrafish

Feature 1                                                                                   ##
1JMJ_B    352 AQLTPRVVERWQKSMTNRTREVLLPKFKLEKNYNLVESLKlMGIRMLFDkngnmagisdqrIAIDLFKHQGTITVNEEGT 431 human
1JMO_A    352 AQLTPRVVERWQKSMTNRTREVLLPKFKLEKNYNLVESLKlMGIRMLFDkngnmagisdqrIAIDLFKHQGTITVNEEGT 431 Homo sapiens
AAC16324  345 KQITPQVVEKWQKSMTNRTREVVLPKFKLEKNYNLIGFLRsMGIEELFSekgnycgvseekVSIDRFNHQGTITVNEEGT 424 chicken
AAC16323  357 KQISPQVVERWQNIMTNRTREVFLPRFKLEKSYDLQKVLSnMGATDLFThgdfsg-vsdkdINIGLFQHQGTITVNEEGT 435 African clawed frog
NP_878300 379 QEISPTLVNKWLSNMTNRTREVVFPRFKLEQNYDLIEHLKeMGMTDIFTekgdfspmtsekVIINWFKHQGSITVNEEGT 458 zebrafish

Feature 1     ########################                       
1JMJ_B    432 QATTVTTVGFMPLSTQVRFTVDRPFLFLIYEHRTSCLLFMGRVANPS 478 human
1JMO_A    432 QATTVTTVGFMPLSTQVRFTVDRPFLFLIYEHRTSCLLFMGRVANPS 478 Homo sapiens
AAC16324  425 EAGAITNVGFMPLSTQIRFIVDRPFLFLIYEHRTNCLLFMGRVVNPA 471 chicken
AAC16323  436 EAAAVTVVGFMPLSTQARFVADRPFLFLIYEHRTNCLVFMGRVANPT 482 African clawed frog
NP_878300 459 EAAAMTHIGFMPLSTQTRFIVDRPFLFLIYEHRTGCVVFMGRVVDPS 505 zebrafish

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