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(-) Description

Title :  CRYSTAL STRUCTURE OF RHODOFERAX FERMENTANS HIGH POTENTIAL IRON-SULFUR PROTEIN REFINED TO 1.45 A
 
Authors :  A. Gonzalez, S. Ciurli, S. Benini
Date :  01 Dec 00  (Deposition) - 03 Jun 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.45
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Iron Sulfur Cluster, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Gonzalez, S. Benini, S. Ciurli
Structure Of Rhodoferax Fermentans High-Potential Iron-Sulfur Protein Solved By Mad.
Acta Crystallogr. , Sect. D V. 59 1582 2003
PubMed-ID: 12925788  |  Reference-DOI: 10.1107/S0907444903014604
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HIGH-POTENTIAL IRON-SULFUR PROTEIN
    Chains: A, B, C
    Organism Scientific: RHODOFERAX FERMENTANS
    Organism Taxid: 28066
    Synonym: HIPIP

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 8)
No.NameCountTypeFull Name
1SF43Ligand/IonIRON/SULFUR CLUSTER
2SO45Ligand/IonSULFATE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:26 , LYS A:31 , THR A:33 , LYS A:34 , HOH A:170 , THR B:33BINDING SITE FOR RESIDUE SO4 A 77
2AC2SOFTWARELYS A:23 , HOH A:133 , LYS B:23 , LYS C:13BINDING SITE FOR RESIDUE SO4 A 78
3AC3SOFTWARELYS A:31 , LYS A:34 , HOH A:151 , HOH A:159 , LYS B:31 , LYS B:34 , HOH B:1125 , HOH B:1131BINDING SITE FOR RESIDUE SO4 A 79
4AC4SOFTWARETHR A:33 , HOH A:159 , LYS B:26 , LYS B:31 , THR B:33 , LYS B:34 , HOH B:1124BINDING SITE FOR RESIDUE SO4 B 1077
5AC5SOFTWARELYS C:26 , THR C:33 , LYS C:34BINDING SITE FOR RESIDUE SO4 C 2077
6AC6SOFTWARECYS A:38 , CYS A:41 , TYR A:44 , CYS A:54 , LEU A:56 , PHE A:57 , CYS A:68BINDING SITE FOR RESIDUE SF4 A 76
7AC7SOFTWARECYS B:38 , CYS B:41 , CYS B:54 , CYS B:68 , TRP B:71BINDING SITE FOR RESIDUE SF4 B 1076
8AC8SOFTWARECYS C:38 , CYS C:41 , TYR C:44 , CYS C:54 , PHE C:57 , CYS C:68BINDING SITE FOR RESIDUE SF4 C 2076

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HIPIPPS51373 High potential iron-sulfur proteins family profile.HIP_RHOFE1-75
 		  2A:1-75
C:1-74

(-) Exons   (0, 0)

(no "Exon" information available for 1HLQ)

(-) 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:75
 aligned with HIP_RHOFE | P80882 from UniProtKB/Swiss-Prot  Length:75

    Alignment length:75
                                    10        20        30        40        50        60        70     
             HIP_RHOFE    1 AAPLVAETDANAKSLGYVADTTKADKTKYPKHTKDQSCSTCALYQGKTAPQGACPLFAGKEVVAKGWCSAWAKKA 75
               SCOP domains d1hlqa_ A: HIPIP (high potential iron protein)                              SCOP domains
               CATH domains 1hlqA00 A:1-75 High-Potential Iron-Sulfur Protein, subunit A                CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhh....hhhhh............hhhhh.........ee.........ee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE HIPIP  PDB: A:1-75 UniProt: 1-75                                            PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  1hlq A  1 AAPLVAETDANAKSLGYVADTTKADKTKYPKHTKDQSCSTCALYQGKTAPQGACPLFAGKEVVAKGWCSAWAKKA 75
                                    10        20        30        40        50        60        70     


Chain B from PDB  Type:PROTEIN  Length:74
 aligned with HIP_RHOFE | P80882 from UniProtKB/Swiss-Prot  Length:75

    Alignment length:74
                                    11        21        31        41        51        61        71    
             HIP_RHOFE    2 APLVAETDANAKSLGYVADTTKADKTKYPKHTKDQSCSTCALYQGKTAPQGACPLFAGKEVVAKGWCSAWAKKA 75
               SCOP domains d1hlqb_ B: HIPIP (high potential iron protein)                             SCOP domains
               CATH domains 1hlqB00 B:2-75 High-Potential Iron-Sulfur Protein, subunit A               CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhh....hhhhh............hhhh..........ee.........ee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE HIPIP  PDB: - UniProt: 1-75                                                PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                  1hlq B  2 APLVAETDANAKSLGYVADTTKADKTKYPKHTKDQSCSTCALYQGKTAPQGACPLFAGKEVVAKGWCSAWAKKA 75
                                    11        21        31        41        51        61        71    


Chain C from PDB  Type:PROTEIN  Length:74
 aligned with HIP_RHOFE | P80882 from UniProtKB/Swiss-Prot  Length:75

    Alignment length:74
                                    10        20        30        40        50        60        70    
             HIP_RHOFE    1 AAPLVAETDANAKSLGYVADTTKADKTKYPKHTKDQSCSTCALYQGKTAPQGACPLFAGKEVVAKGWCSAWAKK 74
               SCOP domains d1hlqc_ C: HIPIP (high potential iron protein)                             SCOP domains
               CATH domains 1hlqC00 C:1-74 High-Potential Iron-Sulfur Protein, subunit A               CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhh...hhhhh............hhhh..........ee.hhhhh...ee........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE HIPIP  PDB: C:1-74 UniProt: 1-75                                           PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                  1hlq C  1 AAPLVAETDANAKSLGYVADTTKADKTKYPKHTKDQSCSTCALYQGKTAPQGACPLFAGKEVVAKGWCSAWAKK 74
                                    10        20        30        40        50        60        70
   Legend:   → Mismatch (orange background)
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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, 3)

Asymmetric/Biological Unit
(-)
Class: Small proteins (3458)

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Few Secondary Structures (1120)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1HLQ)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (HIP_RHOFE | P80882)
molecular function
    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: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:0019646    aerobic electron transport chain    A process in which a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to oxygen 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.

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  1hlq
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