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(-) Description

Title :  STRUCTURE OF COMB10 OF THE COM TYPE IV SECRETION SYSTEM OF HELICOBACTER PYLORI
 
Authors :  L. Terradot, C. Oomen, R. Bayliss, G. Leonard, G. Waksman
Date :  18 Jan 05  (Deposition) - 16 Mar 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,E  (1x)
Biol. Unit 2:  B,C  (1x)
Biol. Unit 3:  D,F  (1x)
Keywords :  Bacterial Protein, Bacterial Type Iv Secretion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Terradot, R. Bayliss, C. Oomen, G. Leonard, C. Baron, G. Waksman
Structures Of Two Core Subunits Of The Bacterial Type Iv Secretion System, Virb8 From Brucella Suis And Comb10 From Helicobacter Pylori
Proc. Natl. Acad. Sci. Usa V. 102 4596 2005
PubMed-ID: 15764702  |  Reference-DOI: 10.1073/PNAS.0408927102

(-) Compounds

Molecule 1 - COMB10
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEXHTC
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: PERIPLASMIC DOMAIN, RESIDUES 131-376
    Organism Scientific: HELICOBACTER PYLORI
    Organism Taxid: 210

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A   E 
Biological Unit 2 (1x):  BC   
Biological Unit 3 (1x):    D F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2BHV)

(-) Sites  (0, 0)

(no "Site" information available for 2BHV)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2BHV)

(-) 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:191
 aligned with O24883_HELPY | O24883 from UniProtKB/TrEMBL  Length:233

    Alignment length:211
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232 
         O24883_HELPY    23 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNAKGADIKGYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSALNNRGNKEGATNFFGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 233
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhheeee.eeeeeee..eee...eeeeeeee..eeee....eeee...eeeeeeeeeee...eeeeeeeeeeeee...eeeee...-------hhhhhhhhhhhhhhhhh...eeeeee...eeeee..-------------...hhhhhhhhh...hhhhhhhhhhhhhhhh..eeee...eeeeeee.eeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bhv A 166 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNA-------YNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSA-------------FGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 376
                                   175       185       195       205       215       225       235       245       | -     | 265       275       285       295|        -    |  315       325       335       345       355       365       375 
                                                                                                                 253     261                                296           310                                                                  


Chain B from PDB  Type:PROTEIN  Length:192
 aligned with O24883_HELPY | O24883 from UniProtKB/TrEMBL  Length:233

    Alignment length:212
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231  
         O24883_HELPY    22 ENKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNAKGADIKGYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSALNNRGNKEGATNFFGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 233
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhheeee.eeeeeee..eee...eeeeeeee..eeee....eeee...eeeeeeeeeee...eeeeeeeeeeeee...eeeee.....------.hhhhhhhhhhhhhhh...eeeeee...eeeee...--------------.hhhhhhhhh...hhhhhhhhhhhhhhhh..eeee...eeeeeee.eeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bhv B 165 ENKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNAKG------NGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSAL--------------DYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 376
                                   174       184       194       204       214       224       234       244       254|      264       274       284       294  |      -       314       324       334       344       354       364       374  
                                                                                                                    255    262                                297            312                                                                


Chain C from PDB  Type:PROTEIN  Length:188
 aligned with O24883_HELPY | O24883 from UniProtKB/TrEMBL  Length:233

    Alignment length:211
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232 
         O24883_HELPY    23 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNAKGADIKGYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSALNNRGNKEGATNFFGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 233
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhheeee.eeeeeee..eee...eeeeeeee..eeee....eeee...eeeeeeeeeee...eeeeeeeeeeeee...eeeee...-------hhhhhhhhhhhhhhhhh...eeeeee...eeeee----------------hhhhhhhhhhh...hhhhhhhhhhhhhhhh..eeee...eeeeeee.eeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bhv C 166 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNA-------YNGLVGELIERNFQRYGVPLLLSTLTNGLLIGIT----------------GDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 376
                                   175       185       195       205       215       225       235       245       | -     | 265       275       285        |-         -     | 315       325       335       345       355       365       375 
                                                                                                                 253     261                              294              311                                                                 


Chain D from PDB  Type:PROTEIN  Length:189
 aligned with O24883_HELPY | O24883 from UniProtKB/TrEMBL  Length:233

    Alignment length:211
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232 
         O24883_HELPY    23 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNAKGADIKGYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSALNNRGNKEGATNFFGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 233
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhheeee.eeeeeee..eee...eeeeeeee..eeee....eeee...eeeeeeeeeee...eeeeeeeeeeeee...eeeee..-------.hhhhhhhhhhhhhhhhh...eeeeee...eeeee---------------.hhhhhhhhhhh...hhhhhhhhhhhhhhhh..eeee...eeeeeee.eeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bhv D 166 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTN-------GYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGIT---------------FGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 376
                                   175       185       195       205       215       225       235       245      |  -    |  265       275       285        |-         -    |  315       325       335       345       355       365       375 
                                                                                                                252     260                               294             310                                                                  


Chain E from PDB  Type:PROTEIN  Length:190
 aligned with O24883_HELPY | O24883 from UniProtKB/TrEMBL  Length:233

    Alignment length:211
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232 
         O24883_HELPY    23 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNAKGADIKGYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSALNNRGNKEGATNFFGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 233
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhheeee.eeeeeee..eee...eeeeeeee..eeee....eeee...eeeeeeeeeee...eeeeeeeeeeeee...eeeee...---------hhhhhhhhhhhhhhh...eeeeee...eeeee...------------.hhhhhhhhhhh...hhhhhhhhhhhhhhhh..eeee...eeeeeee.eeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bhv E 166 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNA---------GLVGELIERNFQRYGVPLLLSTLTNGLLIGITSAL------------FGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 376
                                   175       185       195       205       215       225       235       245       | -       265       275       285       295 |       -    |  315       325       335       345       355       365       375 
                                                                                                                 253       263                               297          310                                                                  


Chain F from PDB  Type:PROTEIN  Length:188
 aligned with O24883_HELPY | O24883 from UniProtKB/TrEMBL  Length:233

    Alignment length:211
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232 
         O24883_HELPY    23 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNAKGADIKGYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSALNNRGNKEGATNFFGDYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 233
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhheeee.eeeeeee..eee...eeeeeeee..eeee....eeee...eeeeeeeeeee...eeeeeeeeeeeee...eeeee...------.hhhhhhhhhhhhhhhhh...eeeeee...eeeee-----------------hhhhhhhhhh...hhhhhhhhhhhhhhhh..eeee...eeeeeee.eeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bhv F 166 NKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFAHMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRIITPHGINIMLTNA------GYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGIT-----------------DYLLMQLMRQSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK 376
                                   175       185       195       205       215       225       235       245       | -    |  265       275       285        |-         -      |315       325       335       345       355       365       375 
                                                                                                                 253    260                               294               312
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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 2BHV)

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2BHV)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (O24883_HELPY | O24883)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).

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