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(-) Description

Title :  CRYSTAL STRUCTURE OF HELICOBACTER PYLORI T4SS PROTEIN CAGL IN A CUBIC CRYSTAL FORM WITH A DISTORTED HELICAL CONFORMATION OF THE RGD-MOTIF
 
Authors :  S. Barden, H. H. Niemann
Date :  20 Nov 12  (Deposition) - 09 Oct 13  (Release) - 27 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Protein Binding, Kkqek, Ser Mutant, Adhesion, Rgd Motif, Integrin Binding, Type Iv Secretion, T4S, Virulence, Cag18, Hp0539 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Barden, S. Lange, N. Tegtmeyer, J. Conradi, N. Sewald, S. Backert, H. H. Niemann
A Helical Rgd Motif Promoting Cell Adhesion: Crystal Structures Of The Helicobacter Pylori Type Iv Secretion System Pilus Protein Cagl
Structure V. 21 1931 2013
PubMed-ID: 24076404  |  Reference-DOI: 10.1016/J.STR.2013.08.018

(-) Compounds

Molecule 1 - CAG PATHOGENICITY ISLAND PROTEIN (CAG18)
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: CODONPLUS RIL
    Expression System Vector: PETM11
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 21-237
    Mutation: YES
    Organism Scientific: HELICOBACTER PYLORI
    Organism Taxid: 85962
    Strain: 26695
    Synonym: CAGL

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 15)

Asymmetric/Biological Unit (5, 15)
No.NameCountTypeFull Name
1BU93Ligand/IonMESO-2,3-BUTANEDIOL
2CL1Ligand/IonCHLORIDE ION
3DIO3Ligand/Ion1,4-DIETHYLENE DIOXIDE
4MSE5Mod. Amino AcidSELENOMETHIONINE
5SO43Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:194 , LYS A:195 , HOH A:2111 , HOH A:2112BINDING SITE FOR RESIDUE SO4 A1230
02AC2SOFTWARELYS A:187 , LYS A:191 , ARG A:194 , BU9 A:1235BINDING SITE FOR RESIDUE SO4 A1231
03AC3SOFTWAREMSE A:20 , ASN A:206BINDING SITE FOR RESIDUE SO4 A1232
04AC4SOFTWAREASP A:31 , TYR A:34 , LEU A:79 , LYS A:83 , PHE A:86 , PHE A:189BINDING SITE FOR RESIDUE DIO A1233
05AC5SOFTWAREVAL A:41 , GLU A:182 , ASN A:186 , HOH A:2086BINDING SITE FOR RESIDUE DIO A1234
06AC6SOFTWARELEU A:160 , TYR A:163 , LYS A:187 , LEU A:198 , ASN A:201 , SO4 A:1231 , HOH A:2071 , HOH A:2094 , HOH A:2103BINDING SITE FOR RESIDUE BU9 A1235
07AC7SOFTWAREASP A:22BINDING SITE FOR RESIDUE DIO A1236
08AC8SOFTWAREARG A:153 , LYS A:185BINDING SITE FOR RESIDUE CL A1237
09AC9SOFTWARESER A:177 , GLN A:178 , HOH A:2083BINDING SITE FOR RESIDUE BU9 A1238
10BC1SOFTWARELYS A:187BINDING SITE FOR RESIDUE BU9 A1239

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 3ZCI)

(-) Sequences/Alignments

Asymmetric/Biological 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    
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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 O25272_HELPY | O25272 from UniProtKB/TrEMBL  Length:237

    Alignment length:212
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227  
         O25272_HELPY    18 LMAEDITSGLKQLDSTYQETNQQVLKNLDEIFSTTSPSANNEMGEEDALNIKKAAIALRGDLALLKANFEANELFFISEDVIFKTYMSSPELLLTYMKINPLDQNTAEQQCGISDKVLVLYCEGKLKIEQEKQNIRERLETSLKAYQSNIGGTASLITASQTLVESLKNKNFIKGIRKLMLAHNKVFLNYLEELDALERSLEQSKRQYLQER 229
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.--------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh-------------...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zci A  18 GAmEDITSGLKQLDSTYQETNQQVLKNLDEIFS--------EmGEEDALNIATAAIALRGDLALLKANFEANELFFISEDVIFKTYmSSPELLLTYmKIN-------------SDKVLVLYCEGKLKIEATAQNIRERLETSLKAYQSNIGGTASLITASQTLVESLKNKNFIKGIRKLmLAHNKVFLNYLEELDALERSLEQSKRQYLQER 229
                              |     27        37        47  |      - ||     67        77        87        97      |107      |117         -   |   137       147       157       167       177       187       197       207       217       227  
                              |                            50       59|                                         104-MSE   114-MSE          131                                                               197-MSE                            
                             20-MSE                                  60-MSE                                                  117
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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 3ZCI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

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 Related Entries

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

UniProtKB/TrEMBL
        O25272_HELPY | O25272: 3zcj 4cii 4x5u

(-) Related Entries Specified in the PDB File

3zcj CRYSTAL STRUCTURE OF HELICOBACTER PYLORI T4SS PROTEIN CAGL IN A TETRAGONAL CRYSTAL FORM WITH A HELICAL RGD -MOTIF (6 MOL PER ASU)