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(-) Description

Title :  CRYSTAL STRUCTURE OF SALIVARY CYSTATIN FROM THE SOFT TICK ORNITHODOROS MOUBATA
 
Authors :  P. Rezacova, J. Brynda, J. F. Andersen, J. Salat, Z. Kovarova, M. Mares
Date :  10 Dec 09  (Deposition) - 30 Jun 10  (Release) - 30 Jun 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.45
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Soft Tick, Cystatin, Protease Inhibitor, Thiol Protease Inhibitor, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Salat, G. C. Paesen, P. Rezacova, M. Kotsyfakis, Z. Kovarova, M. Sanda, J. Majtan, L. Grunclova, H. Horka, J. F. Andersen, J. Brynda, M. Horn, M. A. Nunn, P. Kopacek, J. Kopecky, M. Mares
Crystal Structure And Functional Characterization Of An Immunomodulatory Salivary Cystatin From The Soft Tick Ornithodoros Moubata
Biochem. J. V. 429 103 2010
PubMed-ID: 20545626  |  Reference-DOI: 10.1042/BJ20100280

(-) Compounds

Molecule 1 - CYSTATIN-2
    Chains: A, B
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Plasmid: PBACPAK9
    Expression System Strain: SF9
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Gene: OMC2
    Organism Common: SOFT TICK
    Organism Scientific: ORNITHODOROS MOUBATA
    Organism Taxid: 6938
    Synonym: OMC2

 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, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2GOL3Ligand/IonGLYCEROL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:7BINDING SITE FOR RESIDUE CL A 116
2AC2SOFTWAREARG A:16 , HIS A:94BINDING SITE FOR RESIDUE GOL A 117
3AC3SOFTWAREHIS B:94 , ASN B:99 , LYS B:101BINDING SITE FOR RESIDUE GOL B 117
4AC4SOFTWARETHR B:29 , GLU B:30 , GLY B:31BINDING SITE FOR RESIDUE GOL B 118

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:65 -A:77
2A:88 -A:108
3B:65 -B:77
4B:88 -B:108

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3L0R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L0R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3L0R)

(-) Exons   (0, 0)

(no "Exon" information available for 3L0R)

(-) 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:108
 aligned with Q6QD55_ORNMO | Q6QD55 from UniProtKB/TrEMBL  Length:128

    Alignment length:108
                                                                                                                                    128 
                                    31        41        51        61        71        81        91       101       111       121      | 
         Q6QD55_ORNMO    22 IPGGWTRQDPTEARFLELAHFATSSQTEGREFYDTVVTVKEVETQVVAGMNYKLTIEISPSVCKIGEVQYSAEQCVPKDAQQKSTCVAVIYHVPWQNQKSVTSYRCE-   -
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eee...hhhhhhhhhhhhh.......eeeeeeeeeeeeeee...eeeeeeeeeeeeeee...................eeeeeeeeeehhhheeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 3l0r A   3 IPGGWTRQDPTEARFLELAHFATSSQTEGREFYDTVVTVKEVETQVVAGMNYKLTIEISPSVCKIGEVQYSAEQCVPKDAQQKSTCVAVIYHVPWQNQKSVTSYRCEH 110
                                    12        22        32        42        52        62        72        82        92       102        


Chain B from PDB  Type:PROTEIN  Length:108
 aligned with Q6QD55_ORNMO | Q6QD55 from UniProtKB/TrEMBL  Length:128

    Alignment length:108
                                                                                                                                    128 
                                    31        41        51        61        71        81        91       101       111       121      | 
         Q6QD55_ORNMO    22 IPGGWTRQDPTEARFLELAHFATSSQTEGREFYDTVVTVKEVETQVVAGMNYKLTIEISPSVCKIGEVQYSAEQCVPKDAQQKSTCVAVIYHVPWQNQKSVTSYRCE-   -
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) --Cystatin-3l0rB01 B:5-97                                                                      ------------- Pfam domains (1)
           Pfam domains (2) --Cystatin-3l0rB02 B:5-97                                                                      ------------- Pfam domains (2)
         Sec.struct. author .....eee...hhhhhhhhhhhhhh......eeeeeeeeeeeeeee...eeeeeeeeeeeeeee...................eeeeeeeeeehhhheeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 3l0r B   3 IPGGWTRQDPTEARFLELAHFATSSQTEGREFYDTVVTVKEVETQVVAGMNYKLTIEISPSVCKIGEVQYSAEQCVPKDAQQKSTCVAVIYHVPWQNQKSVTSYRCEH 110
                                    12        22        32        42        52        62        72        82        92       102
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 3L0R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L0R)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Cystatin (20)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q6QD55_ORNMO | Q6QD55)
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: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.

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