Conserved Protein Domain Family

cd00303: retropepsin_like 
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Retropepsins; pepsin-like aspartate proteases.
The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements, as well as eukaryotic dna-damage-inducible proteins (DDIs), and bacterial aspartate peptidases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
PSSM-Id: 133136
View PSSM: cd00303
Aligned: 206 rows
Threshold Bit Score: 41.9384
Threshold Setting Gi: 74012205
Created: 6-Mar-2002
Updated: 2-Oct-2020
Aligned Rows:
Conserved site includes 7 residues -Click on image for an interactive view with Cn3D
Feature 1:inhibitor binding site
  • Structure:1b11_a,Feline Immunodeficiency Virus Protease complexed with inhibitor Tl-3-093.
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Sequence Alignment
Format: Row Display: Color Bits: Type Selection:
Feature 1                         # # #                        ###                                
1B11_A         13 ILIFVng--yPIKFLLDTGADITILNrrdfqvk----nsiengrQNMIGVg---gGKRGTny---inVHLEIrdenyktq 80   Feline immuno...
XP_001249246  535 APVTInq--qELMVLINTGSEINLLSqkytemlnl-lmenkpqvTMVVQTg---eVTSFYvfc--dkVSVQIrd------ 600  Coccidioides ...
EAU87561      637 FRAQLgg--iDVVCLVDCGSELNLFPekllerahlaldlegscwALKGVNg---gPVGLRgvckdvsLVIGGh------- 704  Coprinopsis c...
EDQ67546      492 TYVRLedfkdPILALVDHGSEINIMSrkiyeknkw-pidinhdwVIRVVNn---qQGVLHgacpavkTRIGDv------- 560  Physcomitrell...
AAZ28941      700 VEGVFgg--eKVKFLLDSGSELNLVTrrvweqtgvpidedgkrwSLRGIGg---eSVSLLgcardapVQIGGk------- 767  Phanerochaete...
EDQ60060      530 VKVRDie--ePIVALVDHGCEINLMSkdlykkqkw-pidmehgwAIRAANn---tWGESYgac--ldVKIRIgd-----v 596  Physcomitrell...
ABD63103       90 TFTKIgd--kNYKVIVDSGSCINAVSsamiaklglkvvshpnpyKVSWINdtalnVQERClv----pLQFSIy------- 156  garden asparagus
ABG65972      494 IFFVInn--hRARVIIDGGSCKNLLSsdlvkklglttrthphpyHIQWLNd---sGRAKVtqvcrvlFSIGSy------- 561  Japanese rice
AAV88076      407 GKCKIpg--aTCSFIIDGGSCTNVISedvvnamkiptiqhpqpyKLQWLNd---dGELKVhkqalisISIGKy------- 474  sweet potato
ABG65972      973 TKFVVkd--rACRTIIVNESCNNFVSldlveklelltqpnpqpyYIKWFNs---cGKFKVnri--vrINFSIgd-----y 1040 Japanese rice
Feature 1                           #       
1B11_A         81 cIFGNVCVLedns-liqPLLGRDNMI 105  Feline immunodeficiency virus
XP_001249246  601 iITHTLFLIfkgg-dqqLILGRPWQF 625  Coccidioides immitis RS
EAU87561      705 nFDHYFFVSrddmethdCILGQPWIQ 730  Coprinopsis cinerea okayama7#130
EDQ67546      561 eVEQNFFVQnsa--typVILGQPYIT 584  Physcomitrella patens subsp. patens
AAZ28941      768 nFDHHFFVStrehgdydGILGQPWLD 793  Phanerochaete chrysosporium RP-78
EDQ60060      597 vTEQHFFVQhtt--sypLILGQPYIT 620  Physcomitrella patens subsp. patens
ABD63103      157 kDKVWCDILkmd--vgqVILGRPWLF 180  garden asparagus
ABG65972      562 aDSVDCDVVpmq--acsLLLGCPWEH 585  Japanese rice
AAV88076      475 qDDVLCDVIpmh--achILLGRPWQY 498  sweet potato
ABG65972     1041 hDTVNFDLVpmq--acsLLFGQPWVF 1064 Japanese rice

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