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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF THE RIESKE PROTEIN II (SOXF) FROM SULFOLOBUS ACIDOCALDARIUS
 
Authors :  H. Boenisch, C. L. Schmidt, G. Schaefer, R. Ladenstein
Date :  17 Jul 01  (Deposition) - 17 Jul 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.11
Chains :  Asym./Biol. Unit :  A
Keywords :  Rieske Iron-Sulfur Protein, Electron Transport, Respiratory Chain, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Bonisch, C. L. Schmidt, G. Schafer, R. Ladenstein
The Structure Of The Soluble Domain Of An Archaeal Rieske Iron-Sulfur Protein At 1. 1 A Resolution.
J. Mol. Biol. V. 319 791 2002
PubMed-ID: 12054871  |  Reference-DOI: 10.1016/S0022-2836(02)00323-6
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RIESKE IRON-SULFUR PROTEIN SOXF
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET3A
    Expression System Strain: BL21DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: SOLUBLE DOMAIN, C-TERMINAL RESIDUES 47 - 250
    Gene: SOXF
    Organism Scientific: SULFOLOBUS ACIDOCALDARIUS
    Organism Taxid: 2285
    Synonym: RIESKE PROTEIN, SOXF, QUINOL OXIDASE-2

 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
1FES1Ligand/IonFE2/S2 (INORGANIC) CLUSTER
2MG1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:167 , HOH A:657 , HOH A:658 , HOH A:692 , HOH A:802 , HOH A:813BINDING SITE FOR RESIDUE MG A 601
2AC2SOFTWARECYS A:140 , HIS A:142 , LEU A:143 , CYS A:145 , CYS A:170 , HIS A:173 , GLY A:174 , SER A:175BINDING SITE FOR RESIDUE FES A 501

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:76 -A:247
2A:145 -A:172

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Tyr A:83 -Pro A:84
2Gly A:116 -Pro A:117
3Asn A:244 -Pro A:245

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1JM1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1JM1)

(-) Exons   (0, 0)

(no "Exon" information available for 1JM1)

(-) 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:202
 aligned with Q53766_9CREN | Q53766 from UniProtKB/TrEMBL  Length:250

    Alignment length:202
                                    58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248  
         Q53766_9CREN    49 NTDGLAGFPRYKVANIQQVQQQIKSSGCAVYFFAYPLTDEPCFLVDLQALTGQQITEIPNPYYGKYAGPLGQIQTIKGVGPNGTIFAFSDVCVHLGCQLPAQVIVSSESDPGLYAKGADLHCPCHGSIYALKDGGVVVSGPAPRPLPIVILDYDSSTGDIYAVGTNAPYFSAGIPRTTPQDNLLYDPRYSYSVPNNPSCSNG 250
               SCOP domains d1jm1a_ A: Rieske protein II (SoxF)                                                                                                                                                                        SCOP domains
               CATH domains 1jm1A00 A:49-250 'Rieske'-like iron-sulphur domains                                                                                                                                                        CATH domains
               Pfam domains -----------------------------------------------Rieske-1jm1A01 A:96-204                                                                                      ---------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeehhhhhhhhhhhh..eeeee......eeeeeehhhhhh....eee.........hhhhh.eee.......eeeee.............eee......eee....eee......eee.hhh..eee.........eeeee.....eeeeeee............hhhhhhh...............ee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jm1 A  49 NTDGLAGFPRYKVANIQQVQQQIKSSGCAVYFFAYPLTDEPCFLVDLQALTGQQITEIPNPYYGKYAGPLGQIQTIKGVGPNGTIFAFSDVCVHLGCQLPAQVIVSSESDPGLYAKGADLHCPCHGSIYALKDGGVVVSGPAPRPLPIVILDYDSSTGDIYAVGTNAPYFSAGIPRTTPQDNLLYDPRYSYSVPNNPSCSNG 250
                                    58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248
   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
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: ISP-domain (54)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q53766_9CREN | Q53766)
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: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.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016679    oxidoreductase activity, acting on diphenols and related substances as donors    Catalysis of an oxidation-reduction (redox) reaction in which a diphenol or related substance acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
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.
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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