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(-) Description

Title :  STAPHOSTATINS RESEMBLE LIPOCALINS, NOT CYSTATINS IN FOLD.
 
Authors :  M. Rzychon, R. Filipek, A. Sabat, K. Kosowska, A. Dubin, J. Potempa, M. B
Date :  12 Feb 03  (Deposition) - 30 Sep 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Staphostatin B, Sspc, Cysteine Protease Inhibitor, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Rzychon, R. Filipek, A. Sabat, K. Kosowska, A. Dubin, J. Potempa, M. Bochtler
Staphostatins Resemble Lipocalins, Not Cystatins In Fold.
Protein Sci. V. 12 2252 2003
PubMed-ID: 14500882  |  Reference-DOI: 10.1110/PS.03247703
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYSTEINE PROTEASE INHIBITOR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-5T-SSPC
    Expression System Strain: BL21(DE3)[PLYSS]
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: STAPHOSTATIN B (SSPC)
    Organism Scientific: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS
    Organism Taxid: 196620
    Strain: MW2
    Synonym: STAPHOSTATIN B

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2SO41Ligand/IonSULFATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2SO4-1Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:50 , ASN A:51 , GLY B:-1BINDING SITE FOR RESIDUE CL A 261
2AC2SOFTWAREGLY A:-1 , ASN B:51 , ARG B:101BINDING SITE FOR RESIDUE CL A 262
3AC3SOFTWARETHR A:22 , ASN A:25 , HOH A:271 , HOH A:312 , TYR B:81 , ASP B:83 , THR B:84BINDING SITE FOR RESIDUE SO4 A 263

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1NYC)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1NYC)

(-) Sequences/Alignments

Asymmetric 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:111
 aligned with SSPC_STAAW | Q7A189 from UniProtKB/Swiss-Prot  Length:109

    Alignment length:111
                              1                                                                                                            
                              |      8        18        28        38        48        58        68        78        88        98       108 
           SSPC_STAAW     - --MYQLQFINLVYDTTKLTHLEQTNINLFIGNWSNHQLQKSICIRHGDDTSHNQYHILFIDTAHQRIKFSSIDNEEIIYILDYDDTQHILMQTSSKQGIGTSRPIVYERLV 109
               SCOP domains d1nyca_ A: Staphostatin B (SspC)                                                                                SCOP domains
               CATH domains 1nycA00 A:-1-109 Staphostatins                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhhhh..eeeee....eeeeeeee......eeeeeeee....eeeeee..eeeeeeeeeeee..eeeeeeee.........eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 1nyc A  -1 GSMYQLQFINLVYDTTKLTHLEQTNINLFIGNWSNHQLQKSICIRHGDDTSHNQYHILFIDTAHQRIKFSSFDNEEIIYILDYDDTQHILMQTSSKQGIGTSRPIVYERLV 109
                                     8        18        28        38        48        58        68        78        88        98       108 


Chain B from PDB  Type:PROTEIN  Length:111
 aligned with SSPC_STAAW | Q7A189 from UniProtKB/Swiss-Prot  Length:109

    Alignment length:111
                              1                                                                                                            
                              |      8        18        28        38        48        58        68        78        88        98       108 
           SSPC_STAAW     - --MYQLQFINLVYDTTKLTHLEQTNINLFIGNWSNHQLQKSICIRHGDDTSHNQYHILFIDTAHQRIKFSSIDNEEIIYILDYDDTQHILMQTSSKQGIGTSRPIVYERLV 109
               SCOP domains d1nycb_ B: Staphostatin B (SspC)                                                                                SCOP domains
               CATH domains 1nycB00 B:-1-109 Staphostatins                                                                                  CATH domains
           Pfam domains (1) --Staphostatin_B-1nycB01 B:1-107                                                                             -- Pfam domains (1)
           Pfam domains (2) --Staphostatin_B-1nycB02 B:1-107                                                                             -- Pfam domains (2)
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhhhh..eeeee....eeeeeee.......eeeeeeee....eeeeee..eeeeeeeeeeee..eeeeeeee.........eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 1nyc B  -1 GSMYQLQFINLVYDTTKLTHLEQTNINLFIGNWSNHQLQKSICIRHGDDTSHNQYHILFIDTAHQRIKFSSFDNEEIIYILDYDDTQHILMQTSSKQGIGTSRPIVYERLV 109
                                     8        18        28        38        48        58        68        78        88        98       108
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: bBprotInhib (5)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (SSPC_STAAW | Q7A189)
molecular function
    GO:0004869    cysteine-type endopeptidase inhibitor activity    Stops, prevents or reduces the activity of a cysteine-type endopeptidase, any enzyme that hydrolyzes peptide bonds in polypeptides by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    GO:0004866    endopeptidase inhibitor activity    Stops, prevents or reduces the activity of an endopeptidase, any enzyme that hydrolyzes nonterminal peptide bonds in polypeptides.
    GO:0030414    peptidase inhibitor activity    Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
biological process
    GO:0010951    negative regulation of endopeptidase activity    Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
    GO:0010466    negative regulation of peptidase activity    Any process that stops or reduces the rate of peptidase activity, the hydrolysis of peptide bonds within proteins.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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        SSPC_STAAW | Q7A189: 1qwx

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