3ZCI - JenaLib

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

Ligands, Modified Residues, Ions (5, 15)

Asymmetric/Biological Unit (5, 15)

No.	Name	Count	Type	Full Name
1	BU9	3	Ligand/Ion	MESO-2,3-BUTANEDIOL
2	CL	1	Ligand/Ion	CHLORIDE ION
3	DIO	3	Ligand/Ion	1,4-DIETHYLENE DIOXIDE
4	MSE	5	Mod. Amino Acid	SELENOMETHIONINE
5	SO4	3	Ligand/Ion	SULFATE ION

Sites (10, 10)

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:194 , LYS A:195 , HOH A:2111 , HOH A:2112	BINDING SITE FOR RESIDUE SO4 A1230
02	AC2	SOFTWARE	LYS A:187 , LYS A:191 , ARG A:194 , BU9 A:1235	BINDING SITE FOR RESIDUE SO4 A1231
03	AC3	SOFTWARE	MSE A:20 , ASN A:206	BINDING SITE FOR RESIDUE SO4 A1232
04	AC4	SOFTWARE	ASP A:31 , TYR A:34 , LEU A:79 , LYS A:83 , PHE A:86 , PHE A:189	BINDING SITE FOR RESIDUE DIO A1233
05	AC5	SOFTWARE	VAL A:41 , GLU A:182 , ASN A:186 , HOH A:2086	BINDING SITE FOR RESIDUE DIO A1234
06	AC6	SOFTWARE	LEU 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:2103	BINDING SITE FOR RESIDUE BU9 A1235
07	AC7	SOFTWARE	ASP A:22	BINDING SITE FOR RESIDUE DIO A1236
08	AC8	SOFTWARE	ARG A:153 , LYS A:185	BINDING SITE FOR RESIDUE CL A1237
09	AC9	SOFTWARE	SER A:177 , GLN A:178 , HOH A:2083	BINDING SITE FOR RESIDUE BU9 A1238
10	BC1	SOFTWARE	LYS A:187	BINDING SITE FOR RESIDUE BU9 A1239

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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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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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	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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