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Title :   CRYSTAL STRUCTURE OF BORDETELLA PERTUSSIS HOLO FERRIC BINDING PROTEIN WITH BOUND SYNERGISTIC CARBONATE ANION

Authors :   S. A. L. Tom-Yew, M. E. P. Murphy

Date :   16 Feb 07 (Deposition) - 26 Feb 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym./Biol. Unit : A

Keywords :   Alpha-Beta-Alpha Units, Anti-Parallel Beta-Strands Hinge Region, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. A. L. Tom-Yew, B. H. Shilton, E. G. Bekker, E. I. Tocheva, M. E. P. Murphy
Anion-Dependent Hinge Motion In Ferric Binding Proteins
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - PUTATIVE IRON BINDING PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	BFBPA
	Organism Scientific	:	BORDETELLA PERTUSSIS TOHAMA I
	Organism Taxid	:	257313
	Strain	:	TOHAMA I

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 2)

No.	Name	Count	Type	Full Name
1	CO3	1	Ligand/Ion	CARBONATE ION
2	FE	1	Ligand/Ion	FE (III) ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:105 , TYR A:143 , TYR A:199 , TYR A:200	BINDING SITE FOR RESIDUE FE A 324
2	AC2	SOFTWARE	ARG A:14 , GLU A:15 , LEU A:18 , ARG A:105 , TYR A:143 , TYR A:199 , TYR A:200 , HOH A:335	BINDING SITE FOR RESIDUE CO3 A 325

Asymmetric/Biological Unit

No.	Residues
1	A:135	-	A:191

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

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

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

(no "Exon" information available for 2OWT)

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

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:315
 aligned with Q7VXW9_BORPE | Q7VXW9 from UniProtKB/TrEMBL  Length:349

    Alignment length:319
                                    40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340         
         Q7VXW9_BORPE    31 SDEVSLYTTREPKLIQPLLDAFAKDSGIKVNTVFVKDGLLERVRAEGDKSPADVLMTVDIGNLIDLVNGGVTQKIQSQTLDSVVPANLRGAEGSWYALSLRDRVLYVEKDLKLDSFRYGDLADPKWKGKVCIRSGQHPYNTALVAAMIAHDGAEATEKWLRGVKANLARKAAGGDRDVARDILGGICDIGLANAYYVGHMKNAEPGTDARKWGDAIKVVRPTFATAKDGGTHVNISGAAVAAHAPNKANAVKLLEYLVSEPAQTLYAQANYEYPVRAGVKLDAVVASFGPLKVDTLPVAEIAKYRKQASELVDKVGFDN 349
               SCOP domains d2owta_ A: automated matches                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 2owtA01 A:5-102,A:234-283 Periplasmic binding protein-like II                                     2owtA02 A:103-233,A:284-323 Periplasmic binding protein-like II                                                                    2owtA01 A:5-102,A:234-283                         2owtA02 A:103-233,A:284-323              CATH domains
               Pfam domains ------------------------------------------------SBP_bac_6-2owtA01 A:53-298                                                                                                                                                                                                                            ------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhhhhh.eeeeee...hhhhhhhhhhhhh...eeee.hhhhhhhhhhh..ee...hhhhhhhhhhhhhhhhhh.eeeeeeeeeeeee........hhhhhhhhhhh..ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh....eeeeehhhhhhhhh....hhhhhhhhheeee.....----....eeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhh...ee.......hhhhhh.........hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2owt A   5 SDEVSLYTTREPKLIQPLLDAFAKDSGIKVNTVFVKDGLLERVRAEGDKSPADVLMTVDIGNLIDLVNGGVTQKIQSQTLDSVVPANLRGAEGSWYALSLRDRVLYVEKDLKLDSFRYGDLADPKWKGKVCIRSGQHPYNTALVAAMIAHDGAEATEKWLRGVKANLARKAAGGDRDVARDILGGICDIGLANAYYVGHMKNAEPGTDARKWGDAIKVVRPTFA----GGTHVNISGAAVAAHAPNKANAVKLLEYLVSEPAQTLYAQANYEYPVRAGVKLDAVVASFGPLKVDTLPVAEIAKYRKQASELVDKVGFDN 323
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224   |   234       244       254       264       274       284       294       304       314         
                                                                                                                                                                                                                                                         228  233

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Periplasmic binding protein-like II (813)

Superfamily: Periplasmic binding protein-like II (813)

Family: Phosphate binding protein-like (463)

Protein domain: automated matches (76)

Bordetella pertussis [TaxId: 257313] (2)

d2owta_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: D-Maltodextrin-Binding Protein; domain 2 (600)

Homologous Superfamily: Periplasmic binding protein-like II (486)

Bordetella pertussis tohama i. Organism_taxid: 257313. Strain: tohamai. (2)

1a	2owtA01	A:5-102,A:234-283
1b	2owtA02	A:103-233,A:284-323

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PBP (391)

Family: SBP_bac_6 (7)

Bordetella pertussis (2)

SBP_bac_6-2owtA01

A:53-298

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q7VXW9_BORPE | Q7VXW9)

molecular function
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.

Asymmetric/Biological Unit
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	Q7VXW9_BORPE \| Q7VXW9	:	1y9u 2ows

1y9u	APO FORM OF SAME PROTEIN

Description

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Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

SS Bonds (1, 1)

Cis Peptide Bonds (0, 0)

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