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(-) Description

Title :  CRYSTAL STRUCTURE OF TRICHODERMA REESEI ASPARTIC PROTEINASE
 
Authors :  A. S. Nascimento, S. Krauchenco, A. M. Golubev, A. Gustchina, A. Wlodaw I. Polikarpov
Date :  19 Feb 08  (Deposition) - 19 Aug 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Aspartic Proteinase, Aspartyl Protease, Hydrolase, Protease (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. S. Nascimento, S. Krauchenco, A. M. Golubev, A. Gustchina, A. Wlodawer, I. Polikarpov
Statistical Coupling Analysis Of Aspartic Proteinases Based On Crystal Structures Of The Trichoderma Reesei Enzyme And Its Complex With Pepstatin A.
J. Mol. Biol. V. 382 763 2008
PubMed-ID: 18675276  |  Reference-DOI: 10.1016/J.JMB.2008.07.043

(-) Compounds

Molecule 1 - TRICHODERMA REESEI ASPARTIC PROTEASE
    Chains: A
    EC Number: 3.4.23.18
    Fragment: UNP RESIDUES 79-407
    Organism Common: HYPOCREA JECORINA
    Organism Scientific: TRICHODERMA REESEI
    Other Details: COMMERCIAL CULTURE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1GOL5Ligand/IonGLYCEROL
2PCA1Mod. Amino AcidPYROGLUTAMIC ACID

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:76 , GLY A:217 , THR A:218 , HOH A:1065 , HOH A:1404BINDING SITE FOR RESIDUE GOL A 1001
2AC2SOFTWAREGLN A:243 , PHE A:284 , HOH A:1468BINDING SITE FOR RESIDUE GOL A 1002
3AC3SOFTWAREGLU A:13 , ASP A:77 , SER A:79 , PHE A:111 , ASP A:114 , HOH A:1103 , HOH A:1184 , HOH A:1405BINDING SITE FOR RESIDUE GOL A 1003
4AC4SOFTWAREASP A:215 , HOH A:1473BINDING SITE FOR RESIDUE GOL A 1004
5AC5SOFTWAREGLY A:34 , SER A:35 , SER A:36 , ALA A:124 , GLY A:128 , GLN A:187 , GLY A:188 , PHE A:189 , HOH A:1145 , HOH A:1362BINDING SITE FOR RESIDUE GOL A 1005

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:250 -A:283

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Thr A:22 -Pro A:23
2Arg A:132 -Pro A:133

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3C9X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3C9X)

(-) Exons   (0, 0)

(no "Exon" information available for 3C9X)

(-) 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:329
 aligned with Q2WBH2_HYPJE | Q2WBH2 from UniProtKB/TrEMBL  Length:407

    Alignment length:329
                                    88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398         
        Q2WBH2_HYPJE     79 QTGSAPNHPSDSADSEYITSVSIGTPAQVLPLDFDTGSSDLWVFSSETPKSSATGHAIYTPSKSSTSKKVSGASWSISYGDGSSSSGDVYTDKVTIGGFSVNTQGVESATRVSTEFVQDTVISGLVGLAFDSGNQVRPHPQKTWFSNAASSLAEPLFTADLRHGQNGSYNFGYIDTSVAKGPVAYTPVDNSQGFWEFTASGYSVGGGKLNRNSIDGIADTGTTLLLLDDNVVDAYYANVQSAQYDNQQEGVVFDCDEDLPSFSFGVGSSTITIPGDLLNLTPLEEGSSTCFGGLQSSSGIGINIFGDVALKAALVVFDLGNERLGWAQK  407
               SCOP domains d3c9xa_ A: automated matches                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----3c9xA01 A:2-170 Acid Proteases                                                                                                                                            3c9xA02 A:171-326 Acid Proteases                                                                                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.......eeeeeee....eeeeeeee......ee.....hhhhhh.....hhhhh...eeeeeeeeeee.....eeeeeeeeeeeee..eeeeeeeeeeeeeehhhhhhh....eeee..hhhhh........hhhhhhhh.....eeeee......eeeee...hhhhh....eeee........eeee..eee.........eeeee......eeehhhhhhhhhh.....eee....eeeee.......eeeee..eeeeehhhh.eeee......eeee.eee......eeehhhhhh.eeeeee....eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3c9x A   -2 xTGSAPNHPSDSADSEYITSVSIGTPAQVLPLDFDTGSSDLWVFSSETPKSSATGHAIYTPSKSSTSKKVSGASWSISYGDGSSSSGDVYTDKVTIGGFSVNTQGVESATRVSTEFVQDTVISGLVGLAFDSGNQVRPHPQKTWFSNAASSLAEPLFTADLRHGQNGSYNFGYIDTSVAKGPVAYTPVDNSQGFWEFTASGYSVGGGKLNRNSIDGIADTGTTLLLLDDNVVDAYYANVQSAQYDNQQEGVVFDCDEDLPSFSFGVGSSTITIPGDLLNLTPLEEGSSTCFGGLQSSSGIGINIFGDVALKAALVVFDLGNERLGWAQK  326
                            |        7        17        27        37        47        57      | 66        76    |   85        95       105       115       125      134A       144       154    || 166       176       185       195       204|  ||  216       226       236  |    245       255       265       275       283     ||297       307       317         
                            |                                                               63A               80A                                                   134A                      159|                   184A                203A |  ||                        238A                                         282A|    289|                                
                           -2-PCA                                                                                                                                                              162                                         204A  ||                                                                      282B     294                                
                                                                                                                                                                                                                                               207|                                                                                                                  
                                                                                                                                                                                                                                                211
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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  (0, 0)

(no "Pfam Domain" information available for 3C9X)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q2WBH2_HYPJE | Q2WBH2)
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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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q2WBH2_HYPJE | Q2WBH2: 3emy

(-) Related Entries Specified in the PDB File

3c9y STRUCTURE OF TRICHODERMA REESEI ASPARTIC PROTEINASE COMPLEXED WITH PEPSTATIN A