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(-) Description

Title :  1.80 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF A PUTATIVE TRANSLATION INITIATION INHIBITOR FROM VIBRIO VULNIFICUS CMCP6
 
Authors :  A. S. Halavaty, G. Minasov, E. V. Filippova, I. Dubrovska, J. Winsor, L. Shuvalova, L. Papazisi, W. F. Anderson, Center For Structural G Of Infectious Diseases (Csgid)
Date :  04 Jan 12  (Deposition) - 25 Jan 12  (Release) - 25 Jan 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  A,B,C  (2x)
Keywords :  Virulence, Pathogenesis, Infectious Diseases, Center For Structural Genomics Of Infectious Diseases, Csgid, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. S. Halavaty, G. Minasov, E. V. Filippova, I. Dubrovska, J. Winsor, L. Shuvalova, L. Papazisi, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
1. 80 Angstrom Resolution Crystal Structure Of A Putative Translation Initiation Inhibitor From Vibrio Vulnificus Cmcp6
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ENDORIBONUCLEASE L-PSP
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21/MAGIC
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: VV1_1463
    Organism Scientific: VIBRIO VULNIFICUS
    Organism Taxid: 216895
    Strain: CMCP6
    Synonym: PUTATIVE TRANSLATION INITIATION INHIBITOR

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): ABC
Biological Unit 2 (2x): ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric Unit (3, 12)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2GOL9Ligand/IonGLYCEROL
3MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 9)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GOL9Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 18)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GOL18Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:96 , VAL A:100 , HIS A:102 , TYR A:103 , GOL A:202 , HOH A:310BINDING SITE FOR RESIDUE GOL A 201
02AC2SOFTWAREGLU A:89 , ASP A:96 , ASN A:99 , GOL A:201 , HOH A:386BINDING SITE FOR RESIDUE GOL A 202
03AC3SOFTWARELEU A:81 , ARG C:113 , LYS C:116BINDING SITE FOR RESIDUE GOL A 203
04AC4SOFTWAREALA B:112 , HOH B:307 , HOH B:383 , HOH C:304BINDING SITE FOR RESIDUE CA B 201
05AC5SOFTWAREASP B:80 , ASN B:82 , ASP B:83 , HOH B:378BINDING SITE FOR RESIDUE MG B 202
06AC6SOFTWAREARG B:51 , ASP B:55 , LYS B:58 , GLU B:97 , HIS B:98 , HOH B:335BINDING SITE FOR RESIDUE GOL B 203
07AC7SOFTWAREASP B:96 , VAL B:100 , ALA B:101 , HIS B:102 , TYR B:103 , HOH B:320 , HOH B:354BINDING SITE FOR RESIDUE GOL B 204
08AC8SOFTWAREPRO B:115 , LYS B:116 , HOH B:348 , HOH B:374 , PHE C:84BINDING SITE FOR RESIDUE GOL B 205
09AC9SOFTWAREASN B:36 , GLU B:41 , VAL B:42 , PRO B:43 , HOH B:341 , HOH B:386BINDING SITE FOR RESIDUE GOL B 206
10BC1SOFTWAREASN B:93 , ASN C:93 , HOH C:312 , HOH C:315 , HOH C:324 , HOH C:371 , HOH C:372BINDING SITE FOR RESIDUE CA C 201
11BC2SOFTWAREASP C:96 , VAL C:100 , ALA C:101 , HIS C:102 , TYR C:103 , HOH C:308 , HOH C:379BINDING SITE FOR RESIDUE GOL C 202
12BC3SOFTWAREPRO B:115 , GLU B:121 , HOH B:334 , PHE C:84 , ARG C:106 , CYS C:108BINDING SITE FOR RESIDUE GOL C 203

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3VCZ)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3VCZ)

(-) 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:127
                                                                                                                                                               
               SCOP domains d3vcza_ A: automated matches                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eee...eeee...............hhhhhhhhhhhhhhhhhhh...hhh.eeeeeeee.hhhhhhhhhhhhhhhhhhh......eeeeee...hhhhh.eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vcz A   2 TKVLHTDSAPAAIGPYIQGVDLGNMVLTSGQIPVNPATGEVPADIAAQARQSLDNVKAVVEASGLTVGDIVKMTVFVKDLNDFGTVNEVYGNFFDEHNVAHYPARSCVEVARLPKDVGIEIEAIAVR 128
                                    11        21        31        41        51        61        71        81        91       101       111       121       


Chain B from PDB  Type:PROTEIN  Length:127
                                                                                                                                                               
               SCOP domains d3vczb_ B: automated matches                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eee...eeee...............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhhhhh......eeeeee...hhhhh.eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vcz B   2 TKVLHTDSAPAAIGPYIQGVDLGNMVLTSGQIPVNPATGEVPADIAAQARQSLDNVKAVVEASGLTVGDIVKMTVFVKDLNDFGTVNEVYGNFFDEHNVAHYPARSCVEVARLPKDVGIEIEAIAVR 128
                                    11        21        31        41        51        61        71        81        91       101       111       121       


Chain C from PDB  Type:PROTEIN  Length:127
                                                                                                                                                               
               SCOP domains d3vczc_ C: automated matches                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eee...eeee...............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhhhhh......eeeeee...hhhhh.eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vcz C   2 TKVLHTDSAPAAIGPYIQGVDLGNMVLTSGQIPVNPATGEVPADIAAQARQSLDNVKAVVEASGLTVGDIVKMTVFVKDLNDFGTVNEVYGNFFDEHNVAHYPARSCVEVARLPKDVGIEIEAIAVR 128
                                    11        21        31        41        51        61        71        81        91       101       111       121
   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  (1, 3)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3VCZ)

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