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(-) Description

Title :  THE CYTOCHROME C552/CUA COMPLEX FROM THERMUS THERMOPHILUS
 
Authors :  L. Muresanu, P. Pristovsek, F. Loehr, O. Maneg, M. D. Mukrasch, H. Ruete B. Ludwig, C. Luecke
Date :  02 Feb 06  (Deposition) - 28 Mar 06  (Release) - 13 Jul 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (3x)
NMR Structure *:  A,B  (1x)
Keywords :  Docking Calculations, Redox Protein Complex, Electron Transfer Pathway, Electron Transport-Oxidoreductase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Muresanu, P. Pristovsek, F. Loehr, O. Maneg, M. D. Mukrasch, H. Rueterjans, B. Ludwig, C. Luecke
The Electron Transfer Complex Between Cytochrome C552 And The Cua Domain Of The Thermus Thermophilus Ba3 Oxidase - A Combined Nmr And Computational Approach
J. Biol. Chem. V. 281 14503 2006
PubMed-ID: 16554303  |  Reference-DOI: 10.1074/JBC.M601108200

(-) Compounds

Molecule 1 - CYTOCHROME C-552
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-22B
    Expression System Strain: BL21(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8
    Synonym: CYTOCHROME C552
 
Molecule 2 - CYTOCHROME C OXIDASE SUBUNIT II
    Chains: B
    EC Number: 1.9.3.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-3D
    Expression System Strain: BL21(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8
    Synonym: CYTOCHROME C OXIDASE SUBUNIT 2, CYTOCHROME C OXIDASE POLYPEPTIDE II, BA3 OXIDASE SUBUNIT II, CUA DOMAIN

 Structural Features

(-) Chains, Units

  12
NMR Structure (3x): AB
NMR Structure * (1x): AB

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (2, 2)
No.NameCountTypeFull Name
1CUA1Ligand/IonDINUCLEAR COPPER ION
2HEC1Ligand/IonHEME C
NMR Structure * (2, 2)
No.NameCountTypeFull Name
1CUA1Ligand/IonDINUCLEAR COPPER ION
2HEC1Ligand/IonHEME C

(-) Sites  (2, 2)

NMR Structure (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:10 , CYS A:11 , CYS A:14 , HIS A:15 , ALA A:25 , PHE A:26 , PRO A:27 , HIS A:32 , TYR A:45 , LEU A:54 , GLN A:55 , GLY A:56 , GLY A:67 , VAL A:68 , MET A:69 , SER A:70 , PHE A:72 , ARG A:125 , ALA B:87BINDING SITE FOR RESIDUE HEC A 132
2AC2SOFTWAREHIS B:114 , CYS B:149 , GLN B:151 , TYR B:152 , CYS B:153 , HIS B:157 , MET B:160BINDING SITE FOR RESIDUE CUA B 169

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2FWL)

(-) Cis Peptide Bonds  (2, 6)

NMR Structure
No.ModelResidues
11, 2, 3Gln B:91 -Pro B:92
21, 2, 3Asn B:93 -Pro B:94

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2FWL)

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COX2_CUAPS50857 Cytochrome oxidase subunit II copper A binding domain profile.COX2_THETH33-135  1B:66-168
2COX2PS00078 CO II and nitrous oxide reductase dinuclear copper centers signature.COX2_THETH79-127  1B:112-160
NMR Structure * (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COX2_CUAPS50857 Cytochrome oxidase subunit II copper A binding domain profile.COX2_THETH33-135  1B:66-168
2COX2PS00078 CO II and nitrous oxide reductase dinuclear copper centers signature.COX2_THETH79-127  1B:112-160

(-) Exons   (0, 0)

(no "Exon" information available for 2FWL)

(-) Sequences/Alignments

NMR Structure
   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:129
 aligned with CY552_THETH | P04164 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:129
                                    12        22        32        42        52        62        72        82        92       102       112       122         
          CY552_THETH     3 DGAKIYAQCAGCHQQNGQGIPGAFPPLAGHVAEILAKEGGREYLILVLLYGLQGQIEVKGMKYNGVMSSFAQLKDEEIAAVLNHIATAWGDAKKVKGFKPFTAEEVKKLRAKKLTPQQVLAERKKLGLK 131
               SCOP domains d2fwla_ A: Cytochrome c552                                                                                                        SCOP domains
               CATH domains 2fwlA00 A:3-131 Cytochrome c                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhh...................hhhhhhh..hhhhhhhhhhhh......ee..ee...........hhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh...hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fwl A   3 DGAKIYAQCAGCHQQNGQGIPGAFPPLAGHVAEILAKEGGREYLILVLLYGLQGQIEVKGMKYNGVMSSFAQLKDEEIAAVLNHIATAWGDAKKVKGFKPFTAEEVKKLRAKKLTPQQVLAERKKLGLK 131
                                    12        22        32        42        52        62        72        82        92       102       112       122         


Chain B from PDB  Type:PROTEIN  Length:134
 aligned with COX2_THETH | P98052 from UniProtKB/Swiss-Prot  Length:135

    Alignment length:134
                                    11        21        31        41        51        61        71        81        91       101       111       121       131    
           COX2_THETH     2 YTLATHTAGVIPAGKLERVDPTTVRQEGPWADPAQAVVQTGPNQYTVYVLAFAFGYQPNPIEVPQGAEIVFKITSPDVIHGFHVEGTNINVEVLPGEVSTVRYTFKRPGEYRIICNQYCGLGHQNMFGTIVVKE 135
               SCOP domains d2fwlb_ B: Cytochrome c oxidase                                                                                                        SCOP domains
               CATH domains ------------2fwlB02 B:47-168 Cupredoxins -  blue copper proteins                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhh.........................eeeee..eeeeeeeee..eee...eeee...eeeeeee.....eeeee.....eeee.....eeeeee....eeeeee.......hhhh.eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -------------------------------COX2_CUA  PDB: B:66-168 UniProt: 33-135                                                                 PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------COX2  PDB: B:112-160 UniProt: 79-127             -------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fwl B  35 YTLATHTAGVIPAGKLERVDPTTVRQEGPWADPAQAVVQTGPNQYTVYVLAFAFGYQPNPIEVPQGAEIVFKITSPDVIHGFHVEGTNINVEVLPGEVSTVRYTFKRPGEYRIICNQYCGLGHQNMFGTIVVKE 168
                                    44        54        64        74        84        94       104       114       124       134       144       154       164
   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  (2, 2)

NMR Structure
(-)
Class: All alpha proteins (14657)
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 2)

NMR Structure
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2FWL)

(-) Gene Ontology  (12, 14)

NMR Structure(hide GO term definitions)
Chain A   (CY552_THETH | P04164)
molecular function
    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:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    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.

Chain B   (COX2_THETH | P98052)
molecular function
    GO:0005507    copper ion binding    Interacting selectively and non-covalently with copper (Cu) ions.
    GO:0004129    cytochrome-c oxidase activity    Catalysis of the reaction: 4 ferrocytochrome c + O2 + 4 H+ = 4 ferricytochrome c + 2 H2O.
    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.
biological process
    GO:1902600    hydrogen ion transmembrane transport    The directed movement of hydrogen ion (proton) across a membrane.
    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.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0070469    respiratory chain    The protein complexes that form the electron transport system (the respiratory chain), associated with a cell membrane, usually the plasma membrane (in prokaryotes) or the inner mitochondrial membrane (on eukaryotes). The respiratory chain complexes transfer electrons from an electron donor to an electron acceptor and are associated with a proton pump to create a transmembrane electrochemical gradient.

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  CY552_THETH | P04164
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 Related Entries

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

UniProtKB/Swiss-Prot
        COX2_THETH | P98052: 1xme 2cua 2lln
        CY552_THETH | P04164: 1c52 1foc 1qyz 1r0q 3vnw

(-) Related Entries Specified in the PDB File

5819 CHEMICAL SHIFT ASSIGNMENTS FOR THE REDUCED STATE OF CHAIN B
6965 CHEMICAL SHIFT ASSIGNMENTS FOR THE OXIDIZED STATE OF CHAIN B
6966 CHEMICAL SHIFT ASSIGNMENTS FOR THE REDUCED STATE OF CHAIN A
6967 CHEMICAL SHIFT ASSIGNMENTS FOR THE OXIDIZED STATE OF CHAIN A
1dt1 ATOM COORDINATES OF THE CYTOCHROME C552 FROM THERMUS THERMOPHILUS
1ehk ATOM COORDINATES OF THE BA3 OXIDASE FROM THERMUS THERMOPHILUS