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(-) Description

Title :  PSEUDOAZURIN M16F
 
Authors :  S. Yanagisawa, P. B. Crowley, S. J. Firbank, A. T. Lawler, D. M. Hunter, W. Mcfarlane, C. Li, T. Kohzuma, M. J. Banfield, C. Dennison
Date :  01 Sep 08  (Deposition) - 04 Nov 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Copper, Periplasm, Transport, Cupredoxin, Electron Transfer, Electron Transport, Pseudoazurin, Metal-Binding, Pi- Interactions (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Yanagisawa, P. B. Crowley, S. J. Firbank, A. T. Lawler, D. M. Hunter, W. Mcfarlane, C. Li, T. Kohzuma, M. J. Banfield, C. Dennison
Pi-Interaction Tuning Of The Active Site Properties Of Metalloproteins.
J. Am. Chem. Soc. V. 130 15420 2008
PubMed-ID: 18939838  |  Reference-DOI: 10.1021/JA8038135

(-) Compounds

Molecule 1 - PSEUDOAZURIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRC99A
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: ACHROMOBACTER CYCLOCLASTES
    Organism Taxid: 223
    Synonym: PSEUDOAZURIN M16F, BLUE COPPER PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1CU2Ligand/IonCOPPER (II) ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:40 , CYS A:78 , HIS A:81 , MET A:86BINDING SITE FOR RESIDUE CU A 125
2AC2SOFTWAREHIS B:40 , CYS B:78 , HIS B:81 , MET B:86BINDING SITE FOR RESIDUE CU B 125

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Glu A:19 -Pro A:20
2Glu B:19 -Pro B:20

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COPPER_BLUEPS00196 Type-1 copper (blue) proteins signature.AZUP_ACHCY100-114
 		  2A:72-86
B:72-86
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COPPER_BLUEPS00196 Type-1 copper (blue) proteins signature.AZUP_ACHCY100-114
 		  1A:72-86
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COPPER_BLUEPS00196 Type-1 copper (blue) proteins signature.AZUP_ACHCY100-114
 		  1-
B:72-86

(-) Exons   (0, 0)

(no "Exon" information available for 2JKW)

(-) 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:124
 aligned with AZUP_ACHCY | P19567 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:124
                                    38        48        58        68        78        88        98       108       118       128       138       148    
           AZUP_ACHCY    29 ADFEVHMLNKGKDGAMVFEPASLKVAPGDTVTFIPTDKGHNVETIKGMIPDGAEAFKSKINENYKVTFTAPGVYGVKCTPHYGMGMVGVVQVGDAPANLEAVKGAKNPKKAQERLDAALAALGN 152
               SCOP domains d2jkwa_ A: automated matches                                                                                                 SCOP domains
               CATH domains 2jkwA00 A:1-124 Cupredoxins -  blue copper proteins                                                                          CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..eeeeee..eeee....eeeee........ee...................eeee....eeeeee...hhhhh.eeeeee.....hhhhhhhh..hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------COPPER_BLUE    -------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jkw A   1 ADFEVHMLNKGKDGAFVFEPASLKVAPGDTVTFIPTDKGHNVETIKGMIPDGAEAFKSKINENYKVTFTAPGVYGVKCTPHYGMGMVGVVQVGDAPANLEAVKGAKNPKKAQERLDAALAALGN 124
                                    10        20        30        40        50        60        70        80        90       100       110       120    


Chain B from PDB  Type:PROTEIN  Length:124
 aligned with AZUP_ACHCY | P19567 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:124
                                    38        48        58        68        78        88        98       108       118       128       138       148    
           AZUP_ACHCY    29 ADFEVHMLNKGKDGAMVFEPASLKVAPGDTVTFIPTDKGHNVETIKGMIPDGAEAFKSKINENYKVTFTAPGVYGVKCTPHYGMGMVGVVQVGDAPANLEAVKGAKNPKKAQERLDAALAALGN 152
               SCOP domains d2jkwb_ B: automated matches                                                                                                 SCOP domains
               CATH domains 2jkwB00 B:1-124 Cupredoxins -  blue copper proteins                                                                          CATH domains
           Pfam domains (1) ----Copper-bind-2jkwB01 B:5-93                                                               ------------------------------- Pfam domains (1)
           Pfam domains (2) ----Copper-bind-2jkwB02 B:5-93                                                               ------------------------------- Pfam domains (2)
         Sec.struct. author .eeeeeeeeee..eeeeee..eeee....eeeeee.......ee...................eeee....eeeeee...hhhhh.eeeeee.....hhhhhh....hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------COPPER_BLUE    -------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jkw B   1 ADFEVHMLNKGKDGAFVFEPASLKVAPGDTVTFIPTDKGHNVETIKGMIPDGAEAFKSKINENYKVTFTAPGVYGVKCTPHYGMGMVGVVQVGDAPANLEAVKGAKNPKKAQERLDAALAALGN 124
                                    10        20        30        40        50        60        70        80        90       100       110       120
   Legend:   → Mismatch (orange background)
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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 Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: CU_oxidase (192)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (AZUP_ACHCY | P19567)
molecular function
    GO:0005507    copper ion binding    Interacting selectively and non-covalently with copper (Cu) ions.
    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: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.
cellular component
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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  2jkw
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  AZUP_ACHCY | P19567
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 Related Entries

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

UniProtKB/Swiss-Prot
        AZUP_ACHCY | P19567: 1bqk 1bqr 1zia 1zib 2ux6 2ux7 2uxf 2uxg 4yl4

(-) Related Entries Specified in the PDB File

1bqk OXIDIZED PSEUDOAZURIN
1bqr REDUCED PSEUDOAZURIN
1zia OXIDIZED PSEUDOAZURIN
1zib REDUCED PSEUDOAZURIN
2ux6 PSEUDOAZURIN WITH ENGINEERED AMICYANIN LIGAND LOOP, OXIDIZED FORM, PH 7.5
2ux7 PSEUDOAZURIN WITH ENGINEERED AMICYANIN LIGAND LOOP, REDUCED FORM, PH 7.5
2uxf PSEUDOAZURIN WITH ENGINEERED AMICYANIN LIGAND LOOP, OXIDIZED FORM, PH 5.5
2uxg PSEUDOAZURIN WITH ENGINEERED AMICYANIN LIGAND LOOP, REDUCED FORM, PH 5.5