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(-) Description

Title :  CO2 BOUND TO CLUSTER C OF NI,FE-CO DEHYDROGENASE AT TRUE-ATOMIC RESOLUTION
 
Authors :  J. Fesseler, J. -H. Jeoung, H. Dobbek
Date :  12 Dec 14  (Deposition) - 13 May 15  (Release) - 05 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.03
Chains :  Asym. Unit :  X
Biol. Unit 1:  X  (2x)
Keywords :  Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Fesseler, J. H. Jeoung, H. Dobbek
How The [Nife4 S4 ] Cluster Of Co Dehydrogenase Activates Co2 And Nco(. )
Angew. Chem. Int. Ed. Engl. V. 54 8560 2015
PubMed-ID: 25926100  |  Reference-DOI: 10.1002/ANIE.201501778

(-) Compounds

Molecule 1 - CARBON MONOXIDE DEHYDROGENASE 2
    Chains: X
    EC Number: 1.2.99.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: CARBOXYDOTHERMUS HYDROGENOFORMANS
    Organism Taxid: 129958
    Synonym: CODH 2, NI, FE-CO DEHYDROGENASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : X
Biological Unit 1 (2x): X

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 5)

Asymmetric Unit (5, 5)
No.NameCountTypeFull Name
1CO21Ligand/IonCARBON DIOXIDE
2FE21Ligand/IonFE (II) ION
3FES1Ligand/IonFE2/S2 (INORGANIC) CLUSTER
4SF41Ligand/IonIRON/SULFUR CLUSTER
5WCC1Ligand/IonFE(3)-NI(1)-S(4) CLUSTER
Biological Unit 1 (5, 10)
No.NameCountTypeFull Name
1CO22Ligand/IonCARBON DIOXIDE
2FE22Ligand/IonFE (II) ION
3FES2Ligand/IonFE2/S2 (INORGANIC) CLUSTER
4SF42Ligand/IonIRON/SULFUR CLUSTER
5WCC2Ligand/IonFE(3)-NI(1)-S(4) CLUSTER

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS X:48 , CYS X:51 , GLY X:54 , CYS X:56 , CYS X:70 , ARG X:80 , MET X:199BINDING SITE FOR RESIDUE SF4 X 1001
2AC2SOFTWARECYS X:39 , GLY X:42 , CYS X:47BINDING SITE FOR RESIDUE FES X 1002
3AC3SOFTWAREHIS X:261 , CYS X:294 , CYS X:295 , SER X:312 , CYS X:333 , GLY X:445 , CYS X:446 , CYS X:476 , CYS X:526 , MET X:560 , HIS X:561 , LYS X:563 , FE2 X:1004 , CO2 X:1005 , HOH X:2702BINDING SITE FOR RESIDUE WCC X 1003
4AC4SOFTWAREHIS X:261 , CYS X:295 , CYS X:526 , WCC X:1003 , CO2 X:1005BINDING SITE FOR RESIDUE FE2 X 1004
5AC5SOFTWAREHIS X:93 , HIS X:261 , CYS X:295 , CYS X:526 , LYS X:563 , ILE X:567 , WCC X:1003 , FE2 X:1004 , HOH X:2230 , HOH X:2702BINDING SITE FOR RESIDUE CO2 X 1005

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4UDX)

(-) Cis Peptide Bonds  (3, 4)

Asymmetric Unit
No.Residues
1Lys X:36 -Pro X:37
2Gly X:54 -Pro X:55
3Glu X:64 -Pro X:65

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4UDX)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4UDX)

(-) Exons   (0, 0)

(no "Exon" information available for 4UDX)

(-) Sequences/Alignments

Asymmetric 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 X from PDB  Type:PROTEIN  Length:633
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhh..hhhhhhhhhh..hhhhhhh.ee.......ee...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.......hhhhhh..hhhhhhhhhhh.....hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeehhhhh....eeeeee..hhhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhh..eeehhhhhhhhhhh..eeeeee.......hhhhhhhhhh.eeee..........ee...hhhhhhhhhhhhhhhhhhhhhhh...........eeeee..hhhhhhhhhhh.....hhhhhhhhhhh.....eeee..........hhhhhhhhhhhhhh..eeeeehhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh........eeeee...hhhhhhhhhhhhhhhhh.hhhhh.eeeee....hhhhhhhhhhhhhhh.eeee........hhhhhhhhhh.hhhhhh.eeee..hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4udx X   4 QNLKSTDRAVQQMLDKAKREGIQTVWDRYEAMKPQCGFGETGLCCRHCLQGPCRINPFGDEPKVGICGATAEVIVARGLDRSIAAGAAGHSGHAKHLAHTLKKAVQGKAASYMIKDRTKLHSIAKRLGIPTEGQKDEDIALEVAKAALADFHEKDTPVLWVTTVLPPSRVKVLSAHGLIPAGIDHEIAEIMHRTSMGCDADAQNLLLGGLRCSLADLAGCYMGTDLADILFGTPAPVVTESNLGVLKADAVNVAVHGHNPVLSDIIVSVSKEMENEARAAGATGINVVGICCTGNEVLMRHGIPACTHSVSQEMAMITGALDAMILDYQCIQPSVATIAECTGTTVITTMEMSKITGATHVNFAEEAAVENAKQILRLAIDTFKRRKGKPVEIPNIKTKVVAGFSTEAIINALSKLNANDPLKPLIDNVVNGNIRGVCLFAGCNNVKVPQDQNFTTIARKLLKQNVLVVATGCGAGALMRHGFMDPANVDELCGDGLKAVLTAIGEANGLGGPLPPVLHMGSCVDNSRAVALVAALANRLGVDLDRLPVVASAAEAMHEKAVAIGTWAVTIGLPTHIGVLPPITGSLPVTQILTSSVKDITGGYFIVELDPETAADKLLAAINERRAGLGLPW 636
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4UDX)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4UDX)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4UDX)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        COOS2_CARHZ | Q9F8A8: 1su6 1su7 1su8 1suf 2yiv 3b51 3b52 3b53 3i39 4udy 5fle

(-) Related Entries Specified in the PDB File

4udy NCO- BOUND TO CLUSTER C OF NI,FE-CO DEHYDROGENASE AT TRUE-ATOMIC RESOLUTION