2LLN - JenaLib

Title :   SOLUTION STRUCTURE OF THERMUS THERMOPHILUS APO-CUA

Authors :   M. Zaballa, L. Abriata, A. Donaire, A. Vila

Date :   15 Nov 11 (Deposition) - 30 May 12 (Release) - 30 May 12 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)
NMR Structure *: A  (1x)

Keywords :   Entatic State, Electron Transfer, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Zaballa, L. Abriata, A. Donaire, A. Vila
Flexibility Of The Metal Binding Region In Apo-Cupredoxins And Its Implications On The Entatic State And In Vivo Metallation
Proc. Natl. Acad. Sci. Usa 2012
PubMed: search

Compounds

Molecule 1 - CYTOCHROME C OXIDASE SUBUNIT 2
	Chains	:	A
	EC Number	:	1.9.3.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21
	Expression System Taxid	:	469008
	Expression System Variant	:	(DE3)
	Expression System Vector	:	PET9ACUA
	Fragment	:	UNP RESIDUES 11-135
	Gene	:	CBAB, CTAC
	Organism Scientific	:	THERMUS THERMOPHILUS
	Organism Taxid	:	274
	Synonym	:	CYTOCHROME C BA(3) SUBUNIT II, CYTOCHROME C OXIDASE POLYPEPTIDE II, CYTOCHROME CBA3 SUBUNIT 2

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

NMR Structure (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COX2_CUA	PS50857	Cytochrome oxidase subunit II copper A binding domain profile.	COX2_THETH	33-135	1	A:24-126
2	COX2	PS00078	CO II and nitrous oxide reductase dinuclear copper centers signature.	COX2_THETH	79-127	1	A:70-118

NMR Structure * (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COX2_CUA	PS50857	Cytochrome oxidase subunit II copper A binding domain profile.	COX2_THETH	33-135	1	A:24-126
2	COX2	PS00078	CO II and nitrous oxide reductase dinuclear copper centers signature.	COX2_THETH	79-127	1	A:70-118

Exons (0, 0)

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

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Chain A from PDB  Type:PROTEIN  Length:126
 aligned with COX2_THETH | P98052 from UniProtKB/Swiss-Prot  Length:135

    Alignment length:126
                                    19        29        39        49        59        69        79        89        99       109       119       129      
           COX2_THETH    10 GVIPAGKLERVDPTTVRQEGPWADPAQAVVQTGPNQYTVYVLAFAFGYQPNPIEVPQGAEIVFKITSPDVIHGFHVEGTNINVEVLPGEVSTVRYTFKRPGEYRIICNQYCGLGHQNMFGTIVVKE 135
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........ee.............hhhhh.ee....eeeeeee.................eeeeeee......................ee..ee.......ee..................ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -----------------------COX2_CUA  PDB: A:24-126 UniProt: 33-135                                                                 PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------COX2  PDB: A:70-118 UniProt: 79-127              -------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2lln A   1 MVIPAGKLERVDPTTVRQEGPWADPAQAVVQTGPNQYTVYVLAFAFGYQPNPIEVPQGAEIVFKITSPDVIHGFHVEGTNINVEVLPGEVSTVRYTFKRPGEYRIICNQYCGLGHQNMFGTIVVKE 126
                                    10        20        30        40        50        60        70        80        90       100       110       120

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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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (10, 10)

NMR Structure(hide GO term definitions)

Chain A (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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