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(-) Description

Title :  STRUCTURE OF THE YERSINIA ENTEROCOLITICA TYPE III SECRETION TRANSLOCATOR CHAPERONE SYCD
 
Authors :  C. R. Buttner, I. Sorg, G. R. Cornelis, D. W. Heinz, H. H. Niemann
Date :  16 Nov 07  (Deposition) - 04 Dec 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Alternative Dimer Assembly, Chaperone, Sycd, Tetratricopeptide Repeat, Type Iii Secretion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. R. Buttner, I. Sorg, G. R. Cornelis, D. W. Heinz, H. H. Niemann
Structure Of The Yersinia Enterocolitica Type Iii Secretion Chaperone Sycd
J. Mol. Biol. V. 375 997 2008
PubMed-ID: 18054956  |  Reference-DOI: 10.1016/J.JMB.2007.11.009

(-) Compounds

Molecule 1 - CHAPERONE SYCD
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 21-163
    Organism Scientific: YERSINIA ENTEROCOLITICA
    Organism Taxid: 630
    Other Details: YERSINIA ENTEROCOLITICA VIRULENCE PLASMID PYVE227 FROM STRAIN W22703
 
Molecule 2 - CHAPERONE SYCD
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 21-163
    Organism Scientific: YERSINIA ENTEROCOLITICA
    Organism Taxid: 630
    Other Details: YERSINIA ENTEROCOLITICA VIRULENCE PLASMID PYVE227 FROM STRAIN W22703

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 15)

Asymmetric Unit (1, 15)
No.NameCountTypeFull Name
1MLY15Mod. Amino AcidN-DIMETHYL-LYSINE
Biological Unit 1 (1, 15)
No.NameCountTypeFull Name
1MLY15Mod. Amino AcidN-DIMETHYL-LYSINE
Biological Unit 2 (1, 30)
No.NameCountTypeFull Name
1MLY30Mod. Amino AcidN-DIMETHYL-LYSINE

(-) Sites  (0, 0)

(no "Site" information available for 2VGX)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VGX)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2VGX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VGX)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VGX)

(-) Exons   (0, 0)

(no "Exon" information available for 2VGX)

(-) 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:134
 aligned with O87496_YEREN | O87496 from UniProtKB/TrEMBL  Length:168

    Alignment length:134
                                    30        40        50        60        70        80        90       100       110       120       130       140       150    
         O87496_YEREN    21 GGGTIAMLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIKEPRFPFHAAECLLQKGELAEAESGLFLAQELIANKPEFKELSTRVSSMLEAI 154
               SCOP domains ----------------d2vgxa1 A:37-100 automated matches                              ------------------------------------------------------ SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh...hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vgx A  21 GGGTIAMLNEISSDTLEQLYSLAFNQYQSGkYEDAHkVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIkEPRFPFHAAECLLQkGELAEAESGLFLAQELIANkPEFkELSTRVSSMLEAI 154
                                    30        40        50|     | 60        70        80        90       100 |     110      |120       130      |140|      150    
                                                         51-MLY |                                          102-MLY        117-MLY             137-MLY             
                                                               57-MLY                                                                             141-MLY         


Chain B from PDB  Type:PROTEIN  Length:145
 aligned with O87496_YEREN | O87496 from UniProtKB/TrEMBL  Length:168

    Alignment length:145
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155     
         O87496_YEREN    16 ESFLKGGGTIAMLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIKEPRFPFHAAECLLQKGELAEAESGLFLAQELIANKPEFKELSTRVSSMLEAIKLKKEM 160
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------TPR_3-2vgxB01 B:36-69             ------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) --------------------TPR_3-2vgxB02 B:36-69             ------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ......hhhhhhhh.......hhhhhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vgx B  -5 GPLGSGGGTIAMLNEISSDTLEQLYSLAFNQYQSGkYEDAHkVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIkEPRFPFHAAECLLQkGELAEAESGLFLAQELIANkPEFkELSTRVSSMLEAIkLkkEM 160
                                ||  25        35        45     |  55 |      65        75        85        95      |105       115 |     125       135 |   | 145       155 ||  
                               -1|                            51-MLY |                                          102-MLY        117-MLY             137-MLY           155-MLY 
                                21                                  57-MLY                                                                             141-MLY         157-MLY
                                                                                                                                                                        158-MLY
   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, 1)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2VGX)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: TPR (230)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (O87496_YEREN | O87496)
biological process
    GO:0006950    response to stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).

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  2vgx
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 Related Entries

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

UniProtKB/TrEMBL
        O87496_YEREN | O87496: 2vgy 4am9

(-) Related Entries Specified in the PDB File

2vgy CRYSTAL STRUCTURE OF THE YERSINIA ENTEROCOLITICA TYPE III SECRETION TRANSLOCATOR CHAPERONE SYCD (ALTERNATIVE DIMER)