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(-) Description

Title :  CRYSTAL STRUCTURE OF HYPE FROM THERMOCOCCUS KODAKARAENSIS (INWARD FORM)
 
Authors :  S. Watanabe, R. Matsumi, T. Arai, H. Atomi, T. Imanaka, K. Miki
Date :  08 May 07  (Deposition) - 17 Jul 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  [Nife] Hydrogenase Maturation, Atpase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Watanabe, R. Matsumi, T. Arai, H. Atomi, T. Imanaka, K. Miki
Crystal Structures Of [Nife] Hydrogenase Maturation Protein Hypc, Hypd, And Hype: Insights Into Cyanation Reaction By Thiol Redox Signaling
Mol. Cell V. 27 29 2007
PubMed-ID: 17612488  |  Reference-DOI: 10.1016/J.MOLCEL.2007.05.039

(-) Compounds

Molecule 1 - HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A(+)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HYPE
    Organism Scientific: THERMOCOCCUS KODAKARENSIS
    Organism Taxid: 69014
    Strain: KOD1

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2Z1F)

(-) Sites  (0, 0)

(no "Site" information available for 2Z1F)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Z1F)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Lys A:64 -Pro A:65
2Val A:124 -Pro A:125

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Z1F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Z1F)

(-) Exons   (0, 0)

(no "Exon" information available for 2Z1F)

(-) 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 A from PDB  Type:PROTEIN  Length:304
 aligned with Q5JII7_THEKO | Q5JII7 from UniProtKB/TrEMBL  Length:338

    Alignment length:334
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334    
         Q5JII7_THEKO     5 IKLEHGAGGEIMEELLRDVILKTLTLKSAGGIGLDALDDGATIPFGDKHIVFTIDGHTVKPLFFPGGDIGRLAVSGTVNDLAVMGAEPIALANSMIIGEGLDMEVLKRVLKSMDETAREVPVPIVTGDTKVVEDKIEMFVITAGIGIAEHPVSDAGAKVGDAVLVSGTIGDHGIALMSHREGIAFETELKSDVAPIWDVVKAVAETIGWENIHAMKDPTRAGLSNALNEIARKSNVGILVREADIPIRPEVRAASEMLGISPYDVANEGKVVMVVAREYAEEALEAMRKTEKGRNAAIIGEVIADYRGKVLLETGIGGKRFMEPPEGDPVPRIC 338
               SCOP domains --------------------------------------d2z1fa1 A:43-155 Hydrogenase expression/formation protein HypE                                                   d2z1fa2 A:156-338 Hydrogenase expression/formation protein HypE                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...--.....----------------------------..eeeee..eeeeeeeeee.....ee..eehhhhhhhhhhhhhhh...eeeeeeeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeeeee.....eeeeeeeeee..............eeee....hhhhhhhhhhhh..............hhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhh.eeeee.hhh..hhhhhhhhhhhh.hhhhh......eeee...hhhhhhhhhhh.......eeeeeee......eeee.....eee............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z1f A   5 IKL--GAGGE----------------------------DGATIPFGDKHIVFTIDGHTVKPLFFPGGDIGRLAVSGTVNDLAVMGAEPIALANSMIIGEGLDMEVLKRVLKSMDETAREVPVPIVTGDTKVVEDKIEMFVITAGIGIAEHPVSDAGAKVGDAVLVSGTIGDHGIALMSHREGIAFETELKSDVAPIWDVVKAVAETIGWENIHAMKDPTRAGLSNALNEIARKSNVGILVREADIPIRPEVRAASEMLGISPYDVANEGKVVMVVAREYAEEALEAMRKTEKGRNAAIIGEVIADYRGKVLLETGIGGKRFMEPPEGDPVPRIC 338
                              |  |  14         -         -        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334    
                              7 10  14                           43
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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  (2, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2Z1F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2Z1F)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q5JII7_THEKO | Q5JII7)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.

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  Cis Peptide Bonds
    Lys A:64 - Pro A:65   [ RasMol ]  
    Val A:124 - Pro A:125   [ RasMol ]  
 
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 Related Entries

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UniProtKB/TrEMBL
        Q5JII7_THEKO | Q5JII7: 2z1e 3vys 3vyt 3vyu 3wjp 3wjq 3wjr

(-) Related Entries Specified in the PDB File

2z1c 2z1d 2z1e