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(-) Description

Title :  CRYSTAL STRUCTURE OF THE P50G MUTANT OF FERREDOXIN I AT 1.8 A RESOLUTION
 
Authors :  R. Camba, Y. S. Jung, K. Chen, L. M. Hunsicker-Wang, B. K. Burgess, C. D. Stout, J. Hirst, F. A. Armstrong
Date :  15 May 03  (Deposition) - 30 Sep 03  (Release) - 24 Mar 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Electron Transport, Iron-Sulfur Protein, Ferredoxin, Mutant (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Camba, Y. S. Jung, L. M. Hunsicker-Wang, B. K. Burgess, C. D. Stout, J. Hirst, F. A. Armstrong
Mechanisms Of Redox-Coupled Proton Transfer In Proteins: Role Of The Proximal Proline In Reactions Of The [3Fe-4S] Cluster In Azotobacter Vinelandii Ferredoxin I
Biochemistry V. 42 10589 2003
PubMed-ID: 12962482  |  Reference-DOI: 10.1021/BI035021V
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FERREDOXIN I
    Chains: A
    Engineered: YES
    Expression System: AZOTOBACTER VINELANDII
    Expression System Taxid: 354
    Mutation: YES
    Organism Scientific: AZOTOBACTER VINELANDII
    Organism Taxid: 354
    Synonym: FDI

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1F3S1Ligand/IonFE3-S4 CLUSTER
2SF41Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:20 , VAL A:22 , CYS A:24 , PHE A:25 , ILE A:34 , CYS A:39 , ILE A:40 , CYS A:42 , ALA A:43 , CYS A:45BINDING SITE FOR RESIDUE SF4 A 107
2AC2SOFTWAREVAL A:4 , CYS A:8 , TYR A:13 , THR A:14 , ASP A:15 , CYS A:16 , CYS A:49BINDING SITE FOR RESIDUE F3S A 108

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1PC5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1PC5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1PC5)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
14FE4S_FER_2PS51379 4Fe-4S ferredoxin-type iron-sulfur binding domain profile.FER1_AZOVI31-60
1-30		  1A:30-59
-
24FE4S_FER_1PS00198 4Fe-4S ferredoxin-type iron-sulfur binding region signature.FER1_AZOVI40-51  1A:39-49

(-) Exons   (0, 0)

(no "Exon" information available for 1PC5)

(-) 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 FER1_AZOVI | P00214 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:106
                                    11        21        31        41        51        61        71        81        91       101      
           FER1_AZOVI     2 AFVVTDNCIKCKYTDCVEVCPVDCFYEGPNFLVIHPDECIDCALCEPECPAQAIFSEDEVPEDMQEFIQLNAELAEVWPNITEKKDPLPDAEDWDGVKGKLQHLER 107
               SCOP domains d1pc5a_ A: Ferredoxin                                                                                      SCOP domains
               CATH domains 1pc5A00 A:1-106  [code=3.30.70.20, no name defined]                                                        CATH domains
           Pfam domains (1) ------------------------------Fer4_10-1pc5A01 A:31-67              --------------------------------------- Pfam domains (1)
           Pfam domains (2) ------------------------------Fer4_10-1pc5A02 A:31-67              --------------------------------------- Pfam domains (2)
           Pfam domains (3) ---------------------------------------------------------------DUF3470-1pc5A03 A:64-106                    Pfam domains (3)
         Sec.struct. author .eee.hhhh......hhhhh....eeee..eeee..........hhhhh....eee.hhhhhhhhhhhhhhhhhhh.............hhhhhh...hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) 4FE4S_FER_2  PDB: -          4FE4S_FER_2  PDB: A:30-59     ----------------------------------------------- PROSITE (1)
                PROSITE (2) --------------------------------------4FE4S_FER_1 -------------------------------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 1pc5 A   1 AFVVTDNCIKCKYTDCVEVCPVDCFYEGPNFLVIHPDECIDCALCEPECGAQAIFSEDEVPEDMQEFIQLNAELAEVWPNITEKKDPLPDAEDWDGVKGKLQHLER 106
                                    10        20        30        40        50        60        70        80        90       100
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (2, 3)

Asymmetric/Biological Unit
(-)
Clan: 4Fe-4S (51)
(-)
Clan: no clan defined [family: DUF3470] (2)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (FER1_AZOVI | P00214)
molecular function
    GO:0051538    3 iron, 4 sulfur cluster binding    Interacting selectively and non-covalently with a 3 iron, 4 sulfur (3Fe-4S) cluster; this cluster consists of three iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands. It is essentially a 4Fe-4S cluster with one iron missing.
    GO:0051539    4 iron, 4 sulfur cluster binding    Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    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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  FER1_AZOVI | P00214
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        FER1_AZOVI | P00214: 1a6l 1axq 1b0t 1b0v 1d3w 1f5b 1f5c 1fd2 1fda 1fdb 1fdd 1fer 1ff2 1frh 1fri 1frj 1frk 1frl 1frm 1frx 1ftc 1g3o 1g6b 1gao 1pc4 2fd2 5fd1 6fd1 6fdr 7fd1 7fdr

(-) Related Entries Specified in the PDB File

1pc4 CRYSTAL STRUCTURE OF THE P50A MUTANT OF FERREDOXIN I AT 1.65 A RESOLUTION