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(-) Description

Title :  CRYSTAL STRUCTURE OF A NON-HEMORRHAGIC FIBRIN(OGEN)OLYTIC METALLOPROTEINASE FROM VENOM OF AGKISTRODON ACUTUS
 
Authors :  Z. Lou, J. Hou, J. Chen, X. Liang, P. Qiu, Y. Liu, M. Li, Z. Rao
Date :  28 Jan 05  (Deposition) - 17 Jan 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Fii Crystal Structure, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Lou, J. Hou, X. Liang, J. Chen, P. Qiu, Y. Liu, M. Li, Z. Rao, G. Yan
Crystal Structure Of A Non-Hemorrhagic Fibrin(Ogen)Olytic Metalloproteinase Complexed With A Novel Natural Tri-Peptide Inhibitor From Venom Of Agkistrodon Acutus
J. Struct. Biol. V. 152 195 2005
PubMed-ID: 16330227  |  Reference-DOI: 10.1016/J.JSB.2005.09.006
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FII
    Chains: A
    EC Number: 3.4.24.-
    Organism Common: CHINESE MOCCASIN
    Organism Scientific: DEINAGKISTRODON ACUTUS
    Organism Taxid: 36307
 
Molecule 2 - KNL
    Chains: B
    Engineered: YES
    Other Details: THIS SEQUENCE OCCURS NATURALLY SYNTHESIS
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:142 , HIS A:146 , HIS A:152 , LEU B:3 , HOH B:4BINDING SITE FOR RESIDUE ZN A 999

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:117 -A:196
2A:158 -A:180
3A:160 -A:163

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1YP1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1YP1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1YP1)

(-) Exons   (0, 0)

(no "Exon" information available for 1YP1)

(-) 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:199
                                                                                                                                                                                                                                       
               SCOP domains d1yp1a_ A: automated matches                                                                                                                                                                            SCOP domains
               CATH domains 1yp1A00 A:2-200 Collagenase (Catalytic Domain)                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeehhhhhhhh..hhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee...........hhhhhhhhhhhhhhhhhhhh....eeeeee.........eee...........eeeee....hhhhhhhhhhhhhhhhh.............................hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yp1 A   2 ASPQVSVTLQLVVDSSMFAKYNGDAKKIVTVLDTRVNIMKSIFKPLLLLITLSGIEMWTSKDLITVKPAGDLTLSLFADWRQTLLLSRILNDNAQLQTAVDFRGAVVGLAFVGTMCNAKYSAGIIQDFSAIPLLMAVVMAHELGHNLGMLHDDGYSCDCDVCIMAPSLSSDPTKVFSNCSLILYEDFLSNEEPDCIDNA 200
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191         


Chain B from PDB  Type:PROTEIN  Length:3
                                   
               SCOP domains --- SCOP domains
               CATH domains --- CATH domains
               Pfam domains --- Pfam domains
         Sec.struct. author ... Sec.struct. author
                 SAPs(SNPs) --- SAPs(SNPs)
                    PROSITE --- PROSITE
                 Transcript --- Transcript
                 1yp1 B   1 KNL   3
   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: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1YP1)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1YP1)

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  1yp1
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 Related Entries

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