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(-) Description

Title :  CRYSTAL STRUCTURE OF FERREDOXIN ISOFORM II FROM E. ARVENSE
 
Authors :  G. Kurisu, D. Nishiyama, M. Kusunoki, S. Fujikawa, M. Katoh, G. T. Hanke, T. Hase, K. Teshima
Date :  18 Oct 04  (Deposition) - 02 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Kurisu, D. Nishiyama, M. Kusunoki, S. Fujikawa, M. Katoh, G. T. Hanke, T. Hase, K. Teshima
A Structural Basis Of Equisetum Arvense Ferredoxin Isoform Ii Producing An Alternative Electron Transfer With Ferredoxin-Nadp+ Reductase.
J. Biol. Chem. V. 280 2275 2005
PubMed-ID: 15513928  |  Reference-DOI: 10.1074/JBC.M408904200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FERREDOXIN II
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRC99A
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: FIELD HORSETAIL
    Organism Scientific: EQUISETUM ARVENSE
    Organism Taxid: 3258
    Synonym: FERREDOXIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric/Biological Unit (2, 8)
No.NameCountTypeFull Name
1BEN7Ligand/IonBENZAMIDINE
2FES1Ligand/IonFE2/S2 (INORGANIC) CLUSTER

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:36 , CYS A:37 , GLN A:38 , GLY A:40 , ALA A:41 , CYS A:42 , CYS A:45 , LEU A:73 , CYS A:75BINDING SITE FOR RESIDUE FES A 96
2AC2SOFTWARETYR A:2 , ILE A:49 , GLY A:52 , GLU A:68 , GLN A:69 , GLY A:70 , GLU A:80 , BEN A:502 , HOH A:1043 , HOH A:1075BINDING SITE FOR RESIDUE BEN A 501
3AC3SOFTWARETYR A:2 , GLY A:20 , THR A:53 , ASP A:55 , ILE A:78 , PRO A:79 , GLU A:80 , BEN A:501 , HOH A:1024 , HOH A:1100BINDING SITE FOR RESIDUE BEN A 502
4AC4SOFTWARELYS A:3 , THR A:14 , ASP A:16 , GLU A:18 , HOH A:1115 , HOH A:1116 , HOH A:1119 , HOH A:1151BINDING SITE FOR RESIDUE BEN A 503
5AC5SOFTWAREASP A:10 , PHE A:61 , ASP A:63 , GLN A:66 , BEN A:506BINDING SITE FOR RESIDUE BEN A 504
6AC6SOFTWAREPRO A:9 , HIS A:88 , GLU A:90 , ASP A:91 , HOH A:1133BINDING SITE FOR RESIDUE BEN A 505
7AC7SOFTWARELYS A:30 , SER A:60 , PHE A:61 , LEU A:62 , BEN A:504 , HOH A:1106BINDING SITE FOR RESIDUE BEN A 506
8AC8SOFTWAREGLN A:38 , ASP A:91BINDING SITE FOR RESIDUE BEN A 507

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
12FE2S_FER_2PS51085 2Fe-2S ferredoxin-type iron-sulfur binding domain profile.FER2_EQUAR2-91  1A:2-91
22FE2S_FER_1PS00197 2Fe-2S ferredoxin-type iron-sulfur binding region signature.FER2_EQUAR37-45  1A:37-45

(-) Exons   (0, 0)

(no "Exon" information available for 1WRI)

(-) 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:93
 aligned with FER2_EQUAR | P00237 from UniProtKB/Swiss-Prot  Length:93

    Alignment length:93
                                    10        20        30        40        50        60        70        80        90   
            FER2_EQUAR    1 AYKVTLKTPDGDITFDVEPGERLIDIGSEKADLPLSCQAGACSTCLGKIVSGTVDQSEGSFLDDEQIEQGYVLTCIAIPESDVVIETHKEDEL 93
               SCOP domains d1wria_ A: 2Fe-2S ferredoxin                                                                  SCOP domains
               CATH domains 1wriA00 A:1-93  [code=3.10.20.30, no name defined]                                            CATH domains
               Pfam domains ------Fer2-1wriA01 A:7-80                                                       ------------- Pfam domains
         Sec.struct. author .eeeeeee..eeeeeee.....hhhhhhhhh..............eeeeee..ee.......hhhhhhh.eee....ee...eeee..hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -2FE2S_FER_2  PDB: A:2-91 UniProt: 2-91                                                    -- PROSITE (1)
                PROSITE (2) ------------------------------------2FE2S_FER------------------------------------------------ PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  1wri A  1 AYKVTLKTPDGDITFDVEPGERLIDIGSEKADLPLSCQAGACSTCLGKIVSGTVDQSEGSFLDDEQIEQGYVLTCIAIPESDVVIETHKEDEL 93
                                    10        20        30        40        50        60        70        80        90
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Fer2 (69)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (FER2_EQUAR | P00237)
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:0022900    electron transport chain    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: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.
cellular component
    GO:0009507    chloroplast    A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
    GO:0009536    plastid    Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

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1frr CRYSTAL STRUCTURE OF FERREDOXIN ISOFORM I FROM E. ARVENSE