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(-) Description

Title :  RED COPPER PROTEIN NITROSOCYANIN FROM NITROSOMONAS EUROPAEA
 
Authors :  R. L. Lieberman, D. M. Arciero, A. B. Hooper, A. C. Rosenzweig
Date :  29 Mar 01  (Deposition) - 06 Jun 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D  (3x)
Biol. Unit 3:  A (6x),B (6x),C (6x),D (6x)
Biol. Unit 4:  A (3x),B (3x),C (3x),D (3x)
Keywords :  Red Copper, Cupredoxin, Beta Hairpin, Nitrosocyanin, Nitrosomonas Europaea, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. L. Lieberman, D. M. Arciero, A. B. Hooper, A. C. Rosenzweig
Crystal Structure Of A Novel Red Copper Protein From Nitrosomonas Europaea.
Biochemistry V. 40 5674 2001
PubMed-ID: 11341832  |  Reference-DOI: 10.1021/BI0102611
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NITROSOCYANIN
    Chains: A, B, C, D
    Organism Scientific: NITROSOMONAS EUROPAEA
    Organism Taxid: 915

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): ABC 
Biological Unit 2 (3x):    D
Biological Unit 3 (6x): A (6x)B (6x)C (6x)D (6x)
Biological Unit 4 (3x): A (3x)B (3x)C (3x)D (3x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1CU4Ligand/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
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU D:60 , CYS D:95 , HIS D:98 , HIS D:103BINDING SITE FOR RESIDUE CU D 401
2AC2SOFTWAREGLU A:60 , CYS A:95 , HIS A:98 , HIS A:103BINDING SITE FOR RESIDUE CU A 402
3AC3SOFTWAREGLU B:60 , CYS B:95 , HIS B:98 , HIS B:103BINDING SITE FOR RESIDUE CU B 403
4AC4SOFTWAREGLU C:60 , CYS C:95 , HIS C:98 , HIS C:103BINDING SITE FOR RESIDUE CU C 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1IBZ)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Glu A:36 -Pro A:37
2Glu B:36 -Pro B:37
3Glu C:36 -Pro C:37
4Glu D:36 -Pro D:37

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IBZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1IBZ)

(-) Exons   (0, 0)

(no "Exon" information available for 1IBZ)

(-) 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:111
 aligned with Q820S6_NITEU | Q820S6 from UniProtKB/TrEMBL  Length:136

    Alignment length:111
                                    35        45        55        65        75        85        95       105       115       125       135 
         Q820S6_NITEU    26 HNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 136
               SCOP domains d1ibza_ A: Red copper protein nitrosocyanin                                                                     SCOP domains
               CATH domains 1ibzA00 A:2-112 Cupredoxins -  blue copper proteins                                                             CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeeeeeeee..eeeeeeeeeeeeee..eeeee...eeeeeeee.....eeeeehhhheeeee....eeeeeee....eeeee............eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 1ibz A   2 HNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    11        21        31        41        51        61        71        81        91       101       111 


Chain B from PDB  Type:PROTEIN  Length:112
 aligned with Q820S6_NITEU | Q820S6 from UniProtKB/TrEMBL  Length:136

    Alignment length:112
                                    34        44        54        64        74        84        94       104       114       124       134  
         Q820S6_NITEU    25 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 136
               SCOP domains d1ibzb_ B: Red copper protein nitrosocyanin                                                                      SCOP domains
               CATH domains 1ibzB00 B:1-112 Cupredoxins -  blue copper proteins                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeeeeeeeee..eeeeeeeeeeeeee..eeeee...eeeeeeee.....eeeeehhhheeeee....eeeeeee....eeeee............eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 1ibz B   1 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    10        20        30        40        50        60        70        80        90       100       110  


Chain C from PDB  Type:PROTEIN  Length:110
 aligned with Q820S6_NITEU | Q820S6 from UniProtKB/TrEMBL  Length:136

    Alignment length:110
                                    36        46        56        66        76        86        96       106       116       126       136
         Q820S6_NITEU    27 NFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 136
               SCOP domains d1ibzc_ C: Red copper protein nitrosocyanin                                                                    SCOP domains
               CATH domains 1ibzC00 C:3-112 Cupredoxins -  blue copper proteins                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeeeee..eeeeeeeeeeeeee..eeeee...eeeeeeee.....eeeeehhhheeeee....eeeeeee....eeeee............eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 1ibz C   3 NFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    12        22        32        42        52        62        72        82        92       102       112


Chain D from PDB  Type:PROTEIN  Length:112
 aligned with Q820S6_NITEU | Q820S6 from UniProtKB/TrEMBL  Length:136

    Alignment length:112
                                    34        44        54        64        74        84        94       104       114       124       134  
         Q820S6_NITEU    25 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 136
               SCOP domains d1ibzd_ D: Red copper protein nitrosocyanin                                                                      SCOP domains
               CATH domains 1ibzD00 D:1-112 Cupredoxins -  blue copper proteins                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeeeeeeeee..eeeeeeeeeeeeee..eeeee...eeeeeeee.....eeeeehhhheeeee....eeeeeee....eeeee............eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 1ibz D   1 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    10        20        30        40        50        60        70        80        90       100       110
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 4)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IBZ)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q820S6_NITEU | Q820S6)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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 Related Entries

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

UniProtKB/TrEMBL
        Q820S6_NITEU | Q820S6: 1iby 1ic0

(-) Related Entries Specified in the PDB File

1iby RED COPPER PROTEIN NITROSOCYANIN FROM NITROSOMONAS EUROPAEA
1ic0 RED COPPER PROTEIN NITROSOCYANIN FROM NITROSOMONAS EUROPAEA