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Description

Title :   REDUCED FERREDOXIN 6 FROM RHODOBACTER CAPSULATUS

Authors :   G. Sainz, J. Jakoncic, L. C. Sieker, V. Stojanoff, N. Sanishvili, M. Asso, P. Bertrand, J. Armengaud, Y. Jouanneau

Date :   05 Feb 04 (Deposition) - 18 Jan 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym./Biol. Unit : A

Keywords :   Ferredoxin, Electron Transport, Metal-Binding, Iron-Sulfur, Iron, 2Fe-2S (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Sainz, J. Jakoncic, L. C. Sieker, V. Stojanoff, N. Sanishvili, M. Asso, P. Bertrand, J. Armengaud, Y. Jouanneau
Structure Of A [2Fe-2S] Ferredoxin From Rhodobacter Capsulatus Likely Involved In Fe-S Cluster Biogenesis And Conformational Changes Observed Upon Reduction.
J. Biol. Inorg. Chem. V. 11 235 2006
PubMed-ID: 16402206 | Reference-DOI: 10.1007/S00775-005-0069-2

Compounds

Molecule 1 - FERREDOXIN VI
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PAJ66
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Organism Scientific	:	RHODOBACTER CAPSULATUS
	Organism Taxid	:	1061
	Strain	:	B10
	Synonym	:	FDVI

Structural Features

Chains, Units

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 1)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	FES	1	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER

Sites (1, 1)

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MET A:24 , ALA A:37 , CYS A:39 , GLY A:41 , CYS A:43 , ALA A:44 , CYS A:45 , SER A:46 , CYS A:48 , CYS A:86	BINDING SITE FOR RESIDUE FES A1107

SS Bonds (0, 0)

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

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 1UWM)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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

PROSITE Motifs (2, 2)

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	2FE2S_FER_2	PS51085	2Fe-2S ferredoxin-type iron-sulfur binding domain profile.	FER6_RHOCA	2-106	1	A:1-105
2	ADX	PS00814	Adrenodoxin family, iron-sulfur binding region signature.	FER6_RHOCA	40-50	1	A:39-49

Exons (0, 0)

(no "Exon" information available for 1UWM)

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

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:106
 aligned with FER6_RHOCA | P80306 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:106
                                    11        21        31        41        51        61        71        81        91       101      
           FER6_RHOCA     2 AKIIFIEHNGTRHEVEAKPGLTVMEAARDNGVPGIDADCGGACACSTCHAYVDPAWVDKLPKALPTETDMIDFAYEPNPATSRLTCQIKVTSLLDGLVVHLPEKQI 107
               SCOP domains d1uwma_ A: 2Fe-2S ferredoxin                                                                               SCOP domains
               CATH domains 1uwmA00 A:1-106  [code=3.10.20.30, no name defined]                                                        CATH domains
               Pfam domains ----Fer2-1uwmA01 A:5-90                                                                   ---------------- Pfam domains
         Sec.struct. author .eeeee.....eeeee.....hhhhhhhh...................eeeehhhhhh.....hhhhhhhhh.........eee.hhh..hhhhh.eeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) 2FE2S_FER_2  PDB: A:1-105 UniProt: 2-106                                                                 - PROSITE (1)
                PROSITE (2) --------------------------------------ADX        --------------------------------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 1uwm A   1 AKIIFIEHNGTRHEVEAKPGLTVMEAARDNGVPGIDADCGGACACSTCHAYVDPAWVDKLPKALPTETDMIDFAYEPNPATSRLTCQIKVTSLLDGLVVHLPEKQI 106
                                    10        20        30        40        50        60        70        80        90       100

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: beta-Grasp (ubiquitin-like) (1032)

Superfamily: 2Fe-2S ferredoxin-like (174)

Family: 2Fe-2S ferredoxin-related (74)

Protein domain: 2Fe-2S ferredoxin (54)

Rhodobacter capsulatus, ferredoxin VI [TaxId: 1061] (2)

d1uwma_

CATH Domains (1, 1)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: Ubiquitin-like (UB roll) (674)

Homologous Superfamily: [code=3.10.20.30, no name defined] (153)

Rhodobacter capsulatus. Organism_taxid: 1061. Strain: b10. (1)

1uwmA00

A:1-106

Pfam Domains (1, 1)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Fer2 (69)

Family: Fer2 (60)

Rhodobacter capsulatus (Rhodopseudomonas capsulata) (7)

Fer2-1uwmA01

A:5-90

Gene Ontology (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (FER6_RHOCA | P80306)

molecular function
	GO:0051537	2 iron, 2 sulfur cluster binding	Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	GO:0051536	iron-sulfur cluster binding	Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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	Cis Peptide Bonds
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	1uwm
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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
	FER6_RHOCA \| P80306	:	1e9m

Related Entries Specified in the PDB File

1e9m	FERREDOXIN VI FROM RHODOBACTER CAPSULATUS