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(-) Description

Title :  X-RAY ANALYSES OF ASPARTIC PROTEINASES. V. STRUCTURE AND REFINEMENT AT 2.0 ANGSTROMS RESOLUTION OF THE ASPARTIC PROTEINASE FROM MUCOR PUSILLUS
 
Authors :  M. Newman, F. Watson, P. Roychowdhury, H. Jones, M. Badasso, A. Cleasby, S. P. Wood, I. J. Tickle, T. L. Blundell
Date :  19 Feb 92  (Deposition) - 31 Oct 93  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase(Acid Proteinase) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Newman, F. Watson, P. Roychowdhury, H. Jones, M. Badasso, A. Cleasby, S. P. Wood, I. J. Tickle, T. L. Blundell
X-Ray Analyses Of Aspartic Proteinases. V. Structure And Refinement At 2. 0 A Resolution Of The Aspartic Proteinase From Mucor Pusillus.
J. Mol. Biol. V. 230 260 1993
PubMed-ID: 8450540  |  Reference-DOI: 10.1006/JMBI.1993.1141
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PEPSIN
    Chains: A
    EC Number: 3.4.23.23
    Engineered: YES
    Organism Scientific: RHIZOMUCOR PUSILLUS
    Organism Taxid: 4840

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:86 , TYR A:133 , ASN A:134 , ASN A:139 , HOH A:562 , HOH A:564BINDING SITE FOR RESIDUE SO4 A 501
2CATAUTHORASP A:32 , ASP A:215THE ACTIVE SITE

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:45 -A:50
2A:249 -A:282

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Thr A:22 -Pro A:23

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MPP)

(-) PROSITE Motifs  (2, 3)

Asymmetric/Biological Unit (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PEPTIDASE_A1PS51767 Peptidase family A1 domain profile.CARP_RHIPU86-418  1A:14-323
2ASP_PROTEASEPS00141 Eukaryotic and viral aspartyl proteases active site.CARP_RHIPU101-112
300-311		  2A:29-40
A:212-223

(-) Exons   (0, 0)

(no "Exon" information available for 1MPP)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:357
 aligned with CARP_RHIPU | P09177 from UniProtKB/Swiss-Prot  Length:427

    Alignment length:357
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       
          CARP_RHIPU     71 GSVDTPGLYDFDLEEYAIPVSIGTPGQDFYLLFDTGSSDTWVPHKGCDNSEGCVGKRFFDPSSSSTFKETDYNLNITYGTGGANGIYFRDSITVGGATVKQQTLAYVDNVSGPTAEQSPDSELFLDGMFGAAYPDNTAMEAEYGDTYNTVHVNLYKQGLISSPVFSVYMNTNDGGGQVVFGGANNTLLGGDIQYTDVLKSRGGYFFWDAPVTGVKIDGADAVSFDGAQAFTIDTGTNFFIAPSSFAEKVVKAALPDATESQQGYTVPCSKYQDSKTTFSLVLQKSGSSSDTIDVSVPISKMLLPVDKSGETCMFIVLPDGGNQFIVGNLFLRFFVNVYDFGKNRIGFAPLASGYENN  427
               SCOP domains d1mppa_ A: Pepsin                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -1mppA01 A:1-169 Acid Proteases                                                                                                                                                       1mppA02 A:170-332 Acid Proteases                                                                                                                                                CATH domains
               Pfam domains --------------Asp-1mppA01 A:13-325                                                                                                                                                                                                                                                                                                                            ------- Pfam domains
         Sec.struct. author ..eeeeeeee....eeeeeeee....eeeeeeee......eee.....hhh.........hhh....ee...eeeee....eeeeeeeeeeeee..eeeeeeeeeeeeeee.hhhh..........eeee...hhh.hhhhhh......hhhhhhh.......eeeee.....eeeeeee....hhh.....eeee...........eeeeeeeee..eeeee....eeeee......eee.hhhhhhhhhhh....eee..eeeeehhh......eeeeeee.......eeeeeeehhhheee......eeee.eee......ee.hhhh..eeeeee....eeeeee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------------PEPTIDASE_A1  PDB: A:14-323 UniProt: 86-418                                                                                                                                                                                                                                                                                                  --------- PROSITE (1)
                PROSITE (2) ------------------------------ASP_PROTEASE-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASP_PROTEASE-------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1mpp A   -1 GSVDTPGLYDFDLEEYAIPVSIGTPGQDFYLLFDTGSSDTWVPHKGCDNSEGCVGKRFFDPSSSSTFKETDYNLNITYGTGGANGIYFRDSITVGGATVKQQTLAYVDNVSGPTAEQSPDSELFLDGIFGAAYPDNTAMEAEYGDTYNTVHVNLYKQGLISSPVFSVYMNTNDGGGQVVFGGVNNTLLGGDIQYTDVLKSRGGYFFWDAPVTGVKIDGSDAVSFDGAQAFTIDTGTNFFIAPSSFAEKVVKAALPDATESQQGYTVPCSKYQDSKTTFSLVLQKSGSSSDTIDVSVPISKMLLPVDKSGETCMFIVLPDGGNQFIVGNLFLRFFVNVYDFGKNRIGFAPLASGYEND  332
                            ||       9  |     18        28        38       47A        57        67        77        87        97       107||    115C|||    122      131A|||||  136       146       156  ||   167       177      186A|||    193       203  |    212       222       232   ||  240||     251    |  260   |||263G       273     ||280       290||     305       315       325       
                            ||        11A                                  47A                                                          108|  115A|||||             131A|||||                         159|                      186A|||                205A                           235A|   241|         255A     263A||||||            278A||          291|                                   
                           -1|                                                                                                           110   115B||||              131B||||                          161                       186B||                                                235B    243                   263B|||||             278B|           297                                   
                             1                                                                                                                  115C|||               131C|||                                                     186C|                                                                               263C||||              278C                                                 
                                                                                                                                                 115D||                131D||                                                      186D                                                                                263D|||                                                                   
                                                                                                                                                  115E|                 131E|                                                                                                                                           263E||                                                                   
                                                                                                                                                   115F                  131F                                                                                                                                            263F|                                                                   
                                                                                                                                                                                                                                                                                                                          263G
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Peptidase_AA (368)
(-)
Family: Asp (155)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CARP_RHIPU | P09177)
molecular function
    GO:0004190    aspartic-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which a water molecule bound by the side chains of aspartic residues at the active center acts as a nucleophile.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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