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(-) Description

Title :  LOW PH STRUCTURE OF THE RIESKE PROTEIN FROM THERMUS THERMOPHILUS AT 2.1 A
 
Authors :  L. M. Hunsicker-Wang, A. B. Taylor
Date :  02 Jan 09  (Deposition) - 20 Oct 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Rieske Protein, Pr, [2Fe-2S], Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Konkle, S. K. Muellner, A. L. Schwander, M. M. Dicus, R. Pokhrel, R. D. Britt, A. B. Taylor, L. M. Hunsicker-Wang
Effects Of Ph On The Rieske Protein From Thermus Thermophilus: A Spectroscopic And Structural Analysis
Biochemistry V. 48 9848 2009
PubMed-ID: 19772300  |  Reference-DOI: 10.1021/BI901126U

(-) Compounds

Molecule 1 - QUINOL-CYTOCHROME C REDUCTASE, RIESKE IRON-SULFUR SUBUNIT
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET17B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TTHA1931
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric/Biological Unit (4, 12)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2CA2Ligand/IonCALCIUM ION
3FES2Ligand/IonFE2/S2 (INORGANIC) CLUSTER
4PR6Ligand/IonPRASEODYMIUM ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:132 , HIS A:134 , LEU A:135 , CYS A:151 , HIS A:154 , GLY A:156BINDING SITE FOR RESIDUE FES A 204
02AC2SOFTWAREGLU A:66 , HOH A:203 , HOH A:227 , GLU B:116 , GLN B:119BINDING SITE FOR RESIDUE PR A 205
03AC3SOFTWAREASP A:109 , GLU A:111 , HOH A:210 , ACT A:213 , GLU B:112 , GLU B:147BINDING SITE FOR RESIDUE PR A 206
04AC4SOFTWAREGLU A:116 , GLN A:119 , HOH A:216 , HOH A:228BINDING SITE FOR RESIDUE PR A 207
05AC5SOFTWAREGLU A:112 , GLU A:147 , HOH A:211 , HOH A:233 , ASP B:109 , GLU B:111BINDING SITE FOR RESIDUE PR A 208
06AC6SOFTWAREGLU A:183 , ASP A:184 , ACT A:214 , ASP B:184 , HOH B:239BINDING SITE FOR RESIDUE PR A 209
07AC7SOFTWAREGLU A:73BINDING SITE FOR RESIDUE CA A 212
08AC8SOFTWAREHOH A:20 , ASP A:109 , GLU A:111 , PR A:206 , HOH A:210 , GLU B:147BINDING SITE FOR RESIDUE ACT A 213
09AC9SOFTWAREASP A:184 , PR A:209 , PR B:210BINDING SITE FOR RESIDUE ACT A 214
10BC1SOFTWARECYS B:132 , HIS B:134 , LEU B:135 , CYS B:151 , HIS B:154 , GLY B:156BINDING SITE FOR RESIDUE FES B 204
11BC2SOFTWAREGLU A:183 , ACT A:214 , HOH A:231 , GLU B:183 , GLN B:200 , HOH B:240BINDING SITE FOR RESIDUE PR B 210
12BC3SOFTWAREGLU B:73BINDING SITE FOR RESIDUE CA B 211

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:137 -A:153
2B:137 -B:153

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3FOU)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3FOU)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3FOU)

(-) Exons   (0, 0)

(no "Exon" information available for 3FOU)

(-) 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:156
 aligned with Q5SGZ9_THET8 | Q5SGZ9 from UniProtKB/TrEMBL  Length:210

    Alignment length:156
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195      
         Q5SGZ9_THET8    46 TPEKEPLKPGDILVYAQGGGEPKPIRLEELKPGDPFVLAYPMDPKTKVVKSGEAKNTLLVARFDPEELAPEVAQHAAEGVVAYSAVCTHLGCIVSQWVADEEAALCPCHGGVYDLRHGAQVIAGPPPRPVPQLPVRVEDGVLVAAGEFLGPVGVQA 201
               SCOP domains d3foua_ A: automated matches                                                                                                                                 SCOP domains
               CATH domains 3fouA00 A:46-201 'Rieske'-like iron-sulphur domains                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhh......eeee..........hhhhh......eeeeee..........hhhh.eeeee.hhhhhhhhhhh.....eeeee...........eee....eee......ee.......eee........ee.eeee..eeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3fou A  46 TPEKEPLKPGDILVYAQGGGEPKPIRLEELKPGDPFVLAYPMDPKTKVVKSGEAKNTLLVARFDPEELAPEVAQHAAEGVVAYSAVCTHLGCIVSQWVADEEAALCPCHGGVYDLRHGAQVIAGPPPRPVPQLPVRVEDGVLVAAGEFLGPVGVQA 201
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195      


Chain B from PDB  Type:PROTEIN  Length:156
 aligned with Q5SGZ9_THET8 | Q5SGZ9 from UniProtKB/TrEMBL  Length:210

    Alignment length:156
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195      
         Q5SGZ9_THET8    46 TPEKEPLKPGDILVYAQGGGEPKPIRLEELKPGDPFVLAYPMDPKTKVVKSGEAKNTLLVARFDPEELAPEVAQHAAEGVVAYSAVCTHLGCIVSQWVADEEAALCPCHGGVYDLRHGAQVIAGPPPRPVPQLPVRVEDGVLVAAGEFLGPVGVQA 201
               SCOP domains d3foub_ B: automated matches                                                                                                                                 SCOP domains
               CATH domains 3fouB00 B:46-201 'Rieske'-like iron-sulphur domains                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhh......eeee..........hhhhh......eeeeee..........hhhh.eeeee.hhhhhhhhhhh.....eeeee...........eee....eee......ee.......eee........ee.eeee..eeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3fou B  46 TPEKEPLKPGDILVYAQGGGEPKPIRLEELKPGDPFVLAYPMDPKTKVVKSGEAKNTLLVARFDPEELAPEVAQHAAEGVVAYSAVCTHLGCIVSQWVADEEAALCPCHGGVYDLRHGAQVIAGPPPRPVPQLPVRVEDGVLVAAGEFLGPVGVQA 201
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195
   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, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3FOU)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q5SGZ9_THET8 | Q5SGZ9)
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:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    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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 Related Entries

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        Q5SGZ9_THET8 | Q5SGZ9: 1nyk

(-) Related Entries Specified in the PDB File

1nyk HIGH PH STRUCTURE OF THE RIESKE PROTEIN FROM THERMUS THERMOPHILUS AT 1.3A