1OPX - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE TRAFFIC ATPASE (HP0525) OF THE HELICOBACTER PYLORI TYPE IV SECRETION SYSTEM BOUND BY SULFATE

Authors :   S. N. Savvides, H. J. Yeo, M. R. Beck, F. Blaesing, R. Lurz, E. Lanka, R. Bu W. Fischer, R. Haas, G. Waksman

Date :   06 Mar 03 (Deposition) - 06 May 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (3x)
Biol. Unit 2: A,B  (6x)

Keywords :   Virb11 Atpase, Bacterial Type Iv Secretion, Sulfate, Hp0525, Helicobacter Pylori, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. N. Savvides, H. J. Yeo, M. R. Beck, F. Blaesing, R. Lurz, E. Lanka, R. Buhrdorf, W. Fischer, R. Haas, G. Waksman
Virb11 Atpases Are Dynamic Hexameric Assemblies: New Insights Into Bacterial Type Iv Secretion
Embo J. V. 22 1969 2003
PubMed-ID: 12727865 | Reference-DOI: 10.1093/EMBOJ/CDG223

Molecule 1 - VIRB11 HOMOLOG
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	HP0525
	Organism Scientific	:	HELICOBACTER PYLORI
	Organism Taxid	:	85962
	Strain	:	26695
	Synonym	:	TRAFFIC ATPASE

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (3x)	:	A	B
Biological Unit 2 (6x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 15)

No.	Name	Count	Type	Full Name
1	2PE	1	Ligand/Ion	NONAETHYLENE GLYCOL
2	MSE	12	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 1 (3, 45)

No.	Name	Count	Type	Full Name
1	2PE	3	Ligand/Ion	NONAETHYLENE GLYCOL
2	MSE	36	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	6	Ligand/Ion	SULFATE ION

Biological Unit 2 (3, 90)

No.	Name	Count	Type	Full Name
1	2PE	6	Ligand/Ion	NONAETHYLENE GLYCOL
2	MSE	72	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	12	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:133 , GLY A:179 , THR A:180 , GLY A:181 , SER A:182 , GLY A:183 , LYS A:184 , THR A:185 , HOH A:3004	BINDING SITE FOR RESIDUE SO4 A 4000
2	AC2	SOFTWARE	ARG B:1133 , THR B:1180 , GLY B:1181 , SER B:1182 , GLY B:1183 , LYS B:1184 , THR B:1185 , HOH B:3007	BINDING SITE FOR RESIDUE SO4 B 5000
3	AC3	SOFTWARE	ASP A:38 , LYS A:41 , PRO A:67 , PHE A:68 , ASP A:69 , ARG A:73 , ASP B:1038 , LYS B:1041 , PRO B:1067 , PHE B:1068 , ASP B:1069 , ARG B:1073	BINDING SITE FOR RESIDUE 2PE B 2000

(no "SS Bond" information available for 1OPX)

Asymmetric Unit

No.	Residues
1	Ser A:119	-	Pro A:120
2	Ser B:1119	-	Pro B:1120

(no "SAP(SNP)/Variant" information available for 1OPX)

(no "PROSITE Motif" information available for 1OPX)

(no "Exon" information available for 1OPX)

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:323
 aligned with Q7BK04_HELPX | Q7BK04 from UniProtKB/TrEMBL  Length:330

    Alignment length:323
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325   
        Q7BK04_HELPX      6 LSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKMENITEICYNGNKVVWVLKNNGEWQPFDVRDRKAFSLSRLMHFARCCASFKKKTIDNYENPILSSNLANGERVQIVLSPVTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELRSSEAYDFYNVLCSGHKGTLTTLHAGSSEEAFIRLANMSSSNSAARNIKFESLIEGFKDLIDMIVHINHHKQCDEFYIK  328
               SCOP domains d1opxa_ A: Hexameric traffic ATPase, HP0525                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------1opxA01 A:25-135  [code=3.30.450.90, no name defined]                                                          1opxA02 A:136-322 P-loop containing nucleotide triphosphate hydrolases                                                                                                                     ------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh...eeeeeee...eeeeee....eeeee...hhhhhhhhhhhhhhhhhhhh..........eeeee.....................eeeee.......hhhhhhhh.......hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhh.....eeeee............eeeee.....hhhhhhhhhh.....eeee....hhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.eeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1opx A    6 LSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKmENITEICYNGNKVVWVLKNNGEWQPFDVRDRKAFSLSRLmHFARCCASFKKKTIDNYENPILSSNLANGERVQIVLSPVTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSImEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRmRPDRIILGELRSSEAYDFYNVLCSGHKGTLTTLHAGSSEEAFIRLANmSSSNSAARNIKFESLIEGFKDLIDmIVHINHHKQCDEFYIK  328
                                    15        25        35      | 45        55        65        75      | 85        95       105       115       125       135       145       155       165       175       185      |195       205       215       225       235   |   245       255       265       275       285 |     295       305      |315       325   
                                                               42-MSE                                  82-MSE                                                                                                       192-MSE                                        239-MSE                                         287-MSE                  312-MSE

Chain B from PDB  Type:PROTEIN  Length:323
 aligned with Q7BK04_HELPX | Q7BK04 from UniProtKB/TrEMBL  Length:330

    Alignment length:323
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325   
        Q7BK04_HELPX      6 LSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKMENITEICYNGNKVVWVLKNNGEWQPFDVRDRKAFSLSRLMHFARCCASFKKKTIDNYENPILSSNLANGERVQIVLSPVTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELRSSEAYDFYNVLCSGHKGTLTTLHAGSSEEAFIRLANMSSSNSAARNIKFESLIEGFKDLIDMIVHINHHKQCDEFYIK  328
               SCOP domains d1opxb_ B: Hexameric traffic ATPase, HP0525                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------1opxB01 B:1025-1135  [code=3.30.450.90, no name defined]                                                       1opxB02 B:1136-1322 P-loop containing nucleotide triphosphate hydrolases                                                                                                                   ------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh...eeeeeee...eeeeee....eeeee...hhhhhhhhhhhhhhhhhhhh..........eeeee.....................eeeee.......hhhhhhhh.......hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhh.....eeeee............eeeee.....hhhhhhhhhh.....eeee....hhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.eeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1opx B 1006 LSAEDKKFLEVERALKEAALNPLRHATEELFGDFLKmENITEICYNGNKVVWVLKNNGEWQPFDVRDRKAFSLSRLmHFARCCASFKKKTIDNYENPILSSNLANGERVQIVLSPVTVNDETISISIRIPSKTTYPHSFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSImEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRmRPDRIILGELRSSEAYDFYNVLCSGHKGTLTTLHAGSSEEAFIRLANmSSSNSAARNIKFESLIEGFKDLIDmIVHINHHKQCDEFYIK 1328
                                  1015      1025      1035      1045      1055      1065      1075      1085      1095      1105      1115      1125      1135      1145      1155      1165      1175      1185      1195      1205      1215      1225      1235   |  1245      1255      1265      1275      1285 |    1295      1305      1315      1325   
                                                             1042-MSE                                1082-MSE                                                                                                      1192-MSE                                       1239-MSE                                        1287-MSE                 1312-MSE

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	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 '\|'

(no "Pfam Domain" information available for 1OPX)

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q7BK04_HELPX | Q7BK04)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	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).
biological process
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric Unit
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	Cis Peptide Bonds
		Ser A:119 - Pro A:120	[ RasMol ]
		Ser B:1119 - Pro B:1120	[ RasMol ]

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