1PO3 - JenaLib

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Title :   CRYSTAL STRUCTURE OF FERRIC CITRATE TRANSPORTER FECA IN COMPLEX WITH FERRIC CITRATE

Authors :   W. W. Yue, S. Grizot, S. K. Buchanan

Date :   13 Jun 03 (Deposition) - 18 Nov 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.40

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

Keywords :   Outer Membrane Protein, Beta Barrel, Tonb-Dependent Transport, Citrate, Siderophore, Iron (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. W. Yue, S. Grizot, S. K. Buchanan
Structural Evidence For Iron-Free Citrate And Ferric Citrate Binding To The Tonb-Dependent Outer Membrane Transporter Feca
J. Mol. Biol. V. 332 353 2003
PubMed-ID: 12948487 | Reference-DOI: 10.1016/S0022-2836(03)00855-6
(for further references see the PDB file header)

Molecule 1 - IRON(III) DICITRATE TRANSPORT PROTEIN FECA PRECURSOR
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET20B
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	FECA RESIDUES 95-741
	Gene	:	FECA OR B4291
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 8)

No.	Name	Count	Type	Full Name
1	FE	4	Ligand/Ion	FE (III) ION
2	FLC	4	Ligand/Ion	CITRATE ANION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION
2	FLC	2	Ligand/Ion	CITRATE ANION

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION
2	FLC	2	Ligand/Ion	CITRATE ANION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:138 , ARG A:365 , GLN A:371 , ARG A:380 , ARG A:419 , ARG A:438 , GLN A:570 , ASP A:573 , ASN A:721 , FLC A:743 , FE A:744 , FE A:745	BINDING SITE FOR RESIDUE FLC A 742
2	AC2	SOFTWARE	GLN A:178 , SER A:180 , ARG A:365 , ARG A:380 , SER A:521 , SER A:568 , GLN A:570 , FLC A:742 , FE A:744 , FE A:745	BINDING SITE FOR RESIDUE FLC A 743
3	AC3	SOFTWARE	FLC A:742 , FLC A:743 , FE A:745	BINDING SITE FOR RESIDUE FE A 744
4	AC4	SOFTWARE	GLN A:570 , FLC A:742 , FLC A:743 , FE A:744	BINDING SITE FOR RESIDUE FE A 745
5	AC5	SOFTWARE	THR B:138 , ARG B:365 , ARG B:380 , ARG B:438 , GLN B:570 , ASN B:721 , FLC B:743 , FE B:744 , FE B:745	BINDING SITE FOR RESIDUE FLC B 742
6	AC6	SOFTWARE	GLN B:176 , GLN B:178 , SER B:180 , ARG B:365 , ARG B:380 , SER B:521 , GLN B:570 , FLC B:742 , FE B:744 , FE B:745	BINDING SITE FOR RESIDUE FLC B 743
7	AC7	SOFTWARE	FLC B:742 , FLC B:743 , FE B:745	BINDING SITE FOR RESIDUE FE B 744
8	AC8	SOFTWARE	GLN B:570 , FLC B:742 , FLC B:743 , FE B:744	BINDING SITE FOR RESIDUE FE B 745

(no "SS Bond" information available for 1PO3)

Asymmetric Unit

No.	Residues
1	Gly A:204	-	Pro A:205
2	Glu A:533	-	Pro A:534
3	Gly B:204	-	Pro B:205
4	Glu B:533	-	Pro B:534

(no "SAP(SNP)/Variant" information available for 1PO3)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TONB_DEPENDENT_REC_2	PS01156	TonB-dependent receptor proteins signature 2.	FECA_ECOLI	757-774	2	A:724-741 B:724-741

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TONB_DEPENDENT_REC_2	PS01156	TonB-dependent receptor proteins signature 2.	FECA_ECOLI	757-774	1	A:724-741 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TONB_DEPENDENT_REC_2	PS01156	TonB-dependent receptor proteins signature 2.	FECA_ECOLI	757-774	1	- B:724-741

(no "Exon" information available for 1PO3)

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:647
 aligned with FECA_ECOLI | P13036 from UniProtKB/Swiss-Prot  Length:774

    Alignment length:647
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       
           FECA_ECOLI   128 NDVFEHAGARDVIRREDFAKTGATTMREVLNRIPGVSAPENNGTGSHDLAMNFGIRGLNPRLASRSTVLMDGIPVPFAPYGQPQLSLAPVSLGNMDAIDVVRGGGAVRYGPQSVGGVVNFVTRAIPQDFGIEAGVEGQLSPTSSQNNPKETHNLMVGGTADNGFGTALLYSGTRGSDWREHSATRIDDLMLKSKYAPDEVHTFNSLLQYYDGEADMPGGLSRADYDADRWQSTRPYDRFWGRRKLASLGYQFQPDSQHKFNIQGFYTQTLRSGYLEQGKRITLSPRNYWVRGIEPRYSQIFMIGPSAHEVGVGYRYLNESTHEMRYYTATSSGQLPSGSSPYDRDTRSGTEAHAWYLDDKIDIGNWTITPGMRFEHIESYQNNAITGTHEEVSYNAPLPALNVLYHLTDSWNLYANTEGSFGTVQYSQIGKAVQSGNVEPEKARTWELGTRYDDGALTAEMGLFLINFNNQYDSNQTNDTVTARGKTRHTGLETQARYDLGTLTPTLDNVSIYASYAYVNAEIREKGDTYGNLVPFSPKHKGTLGVDYKPGNWTFNLNSDFQSSQFADNANTVKESADGSTGRIPGFMLWGARVAYDFGPQMADLNLAFGVKNIFDQDYFIRSYDDNNKGIYAGQPRTLYMQGSLKF 774
               SCOP domains d1po3a_ A: Outer membrane transporter FecA                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1po3A01 A:95-222 Ferric Hydroxamate Uptake Protein; Chain A, domain 1                                                           1po3A02 A:223-741  [code=2.40.170.20, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh...eeeee.hhhhhhh..hhhhhhh....ee....hhhhh.......ee....hhhhh..eeee..ee................hhh.eeeeeee..........hhhh.eeeeee......eeeeeeeeeee.........eeeeeeeeeeee...eeeeeeeeeeee........eeeeeeeeeeee.....eeeeeeeeeeeeeee.....hhhhhhhh.........eeeeeeeeeeeeeee.....eeeeeeeeeeeeeee.eee....eee..eeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee.............eeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeeeee..eeeeeeeeeeee..hhhhh...........eeeeeeeeeeeee...eeeeeeeeeeee..................eeeeeeeeeeeee....hhhhh.eeeeeeeeeeeeee.................eeeeeeee....eeeeeeeeee........................eeeeeeeeeee........eeeeeee.......eeee......eeee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TONB_DEPENDENT_REC PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1po3 A  95 NDVFEHAGARDVIRREDFAKTGATTMREVLNRIPGVSAPENNGTGSHDLAMNFGIRGLNPRLASRSTVLMDGIPVPFAPYGQPQLSLAPVSLGNMDAIDVVRGGGAVRYGPQSVGGVVNFVTRAIPQDFGIEAGVEGQLSPTSSQNNPKETHNLMVGGTADNGFGTALLYSGTRGSDWREHSATRIDDLMLKSKYAPDEVHTFNSLLQYYDGEADMPGGLSRADYDADRWQSTRPYDRFWGRRKLASLGYQFQPDSQHKFNIQGFYTQTLRSGYLEQGKRITLSPRNYWVRGIEPRYSQIFMIGPSAHEVGVGYRYLNESTHEMRYYTATSSGQLPSGSSPYDRDTRSGTEAHAWYLDDKIDIGNWTITPGMRFEHIESYQNNAITGTHEEVSYNAPLPALNVLYHLTDSWNLYANTEGSFGTVQYSQIGKAVQSGNVEPEKARTWELGTRYDDGALTAEMGLFLINFNNQYDSNQTNDTVTARGKTRHTGLETQARYDLGTLTPTLDNVSIYASYAYVNAEIREKGDTYGNLVPFSPKHKGTLGVDYKPGNWTFNLNSDFQSSQFADNANTVKESADGSTGRIPGFMLWGARVAYDFGPQMADLNLAFGVKNIFDQDYFIRSYDDNNKGIYAGQPRTLYMQGSLKF 741
                                   104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734

Chain B from PDB  Type:PROTEIN  Length:645
 aligned with FECA_ECOLI | P13036 from UniProtKB/Swiss-Prot  Length:774

    Alignment length:645
                                   139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689       699       709       719       729       739       749       759       769     
           FECA_ECOLI   130 VFEHAGARDVIRREDFAKTGATTMREVLNRIPGVSAPENNGTGSHDLAMNFGIRGLNPRLASRSTVLMDGIPVPFAPYGQPQLSLAPVSLGNMDAIDVVRGGGAVRYGPQSVGGVVNFVTRAIPQDFGIEAGVEGQLSPTSSQNNPKETHNLMVGGTADNGFGTALLYSGTRGSDWREHSATRIDDLMLKSKYAPDEVHTFNSLLQYYDGEADMPGGLSRADYDADRWQSTRPYDRFWGRRKLASLGYQFQPDSQHKFNIQGFYTQTLRSGYLEQGKRITLSPRNYWVRGIEPRYSQIFMIGPSAHEVGVGYRYLNESTHEMRYYTATSSGQLPSGSSPYDRDTRSGTEAHAWYLDDKIDIGNWTITPGMRFEHIESYQNNAITGTHEEVSYNAPLPALNVLYHLTDSWNLYANTEGSFGTVQYSQIGKAVQSGNVEPEKARTWELGTRYDDGALTAEMGLFLINFNNQYDSNQTNDTVTARGKTRHTGLETQARYDLGTLTPTLDNVSIYASYAYVNAEIREKGDTYGNLVPFSPKHKGTLGVDYKPGNWTFNLNSDFQSSQFADNANTVKESADGSTGRIPGFMLWGARVAYDFGPQMADLNLAFGVKNIFDQDYFIRSYDDNNKGIYAGQPRTLYMQGSLKF 774
               SCOP domains d1po3b_ B: Outer membrane transporter FecA                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 1po3B01 B:97-222 Ferric Hydroxamate Uptake Protein; Chain A, domain 1                                                         1po3B02 B:223-741  [code=2.40.170.20, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CATH domains
           Pfam domains (1) Plug-1po3B03 B:97-211                                                                                              ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TonB_dep_Rec-1po3B01 B:492-740                                                                                                                                                                                                                           - Pfam domains (1)
           Pfam domains (2) Plug-1po3B04 B:97-211                                                                                              ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TonB_dep_Rec-1po3B02 B:492-740                                                                                                                                                                                                                           - Pfam domains (2)
         Sec.struct. author .......eeeee.hhhhhhh..hhhhhhh....ee................ee....hhhhh..eeee..ee................hhh.eeeeeee...............eeeeee.......eeeeeeeeee.........eeeeeeeeeee....eeeeeeeeeeee........eeeeeeeeeeee.....eeeeeeeeeeeeeee.....hhhhhhhh.........eeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeeeee..eeee..eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeeeeeeee............eeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeeeee..eeeeeeeeeeee..................eeeeeeeeeeeee...eeeeeeeeeeee......hhhhh.......eeeeeeeeeeee.hhhh......eeeeeeeeeeeeee.................eeeeeeee....eeeeeeeeee..ee................ee..eeeeeeeeeeee......eeeeeeee.......eee........eee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TONB_DEPENDENT_REC PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1po3 B  97 VFEHAGARDVIRREDFAKTGATTMREVLNRIPGVSAPENNGTGSHDLAMNFGIRGLNPRLASRSTVLMDGIPVPFAPYGQPQLSLAPVSLGNMDAIDVVRGGGAVRYGPQSVGGVVNFVTRAIPQDFGIEAGVEGQLSPTSSQNNPKETHNLMVGGTADNGFGTALLYSGTRGSDWREHSATRIDDLMLKSKYAPDEVHTFNSLLQYYDGEADMPGGLSRADYDADRWQSTRPYDRFWGRRKLASLGYQFQPDSQHKFNIQGFYTQTLRSGYLEQGKRITLSPRNYWVRGIEPRYSQIFMIGPSAHEVGVGYRYLNESTHEMRYYTATSSGQLPSGSSPYDRDTRSGTEAHAWYLDDKIDIGNWTITPGMRFEHIESYQNNAITGTHEEVSYNAPLPALNVLYHLTDSWNLYANTEGSFGTVQYSQIGKAVQSGNVEPEKARTWELGTRYDDGALTAEMGLFLINFNNQYDSNQTNDTVTARGKTRHTGLETQARYDLGTLTPTLDNVSIYASYAYVNAEIREKGDTYGNLVPFSPKHKGTLGVDYKPGNWTFNLNSDFQSSQFADNANTVKESADGSTGRIPGFMLWGARVAYDFGPQMADLNLAFGVKNIFDQDYFIRSYDDNNKGIYAGQPRTLYMQGSLKF 741
                                   106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706       716       726       736

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Membrane and cell surface proteins and peptides (2046)

Fold: Transmembrane beta-barrels (143)

Superfamily: Porins (99)

Family: Ligand-gated protein channel (29)

Protein domain: Outer membrane transporter FecA (5)

Escherichia coli [TaxId: 562] (5)

1a	d1po3a_	A:
1b	d1po3b_	B:

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: MBB (97)

Family: TonB_dep_Rec (26)

Escherichia coli (strain K12) (16)

1a	TonB_dep_Rec-1po3B01	B:492-740
1b	TonB_dep_Rec-1po3B02	B:492-740

Clan: Ubiquitin (279)

Family: Plug (26)

Escherichia coli (strain K12) (16)

2a	Plug-1po3B03	B:97-211
2b	Plug-1po3B04	B:97-211

Asymmetric Unit(hide GO term definitions)

Chain A,B (FECA_ECOLI | P13036)

molecular function
	GO:0015091	ferric iron transmembrane transporter activity	Enables the transfer of ferric iron (Fe(III) or Fe3+) ions from one side of a membrane to the other.
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0004872	receptor activity	Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
biological process
	GO:0015682	ferric iron transport	The directed movement of ferric iron (Fe(III) or Fe3+) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006811	ion transport	The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0055072	iron ion homeostasis	Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell.
	GO:0015891	siderophore transport	The directed movement of siderophores, low molecular weight Fe(III)-chelating substances, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	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:0009279	cell outer membrane	A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0019867	outer membrane	The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites.

Asymmetric Unit
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	Cis Peptide Bonds
		Glu A:533 - Pro A:534	[ RasMol ]
		Glu B:533 - Pro B:534	[ RasMol ]
		Gly A:204 - Pro A:205	[ RasMol ]
		Gly B:204 - Pro B:205	[ RasMol ]

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	1po3
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	FECA_ECOLI \| P13036	:	1kmo 1kmp 1pnz 1po0 1zzv 2d1u

1pnz	1PNZ IS THE SAME PROTEIN IN THE UNLIGANDED FORM
1po0	1PO0 IS THE SAME PROTEIN IN COMPLEX WITH IRON-FREE CITRATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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