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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 :  1.65
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1CU4Ligand/IonCOPPER (II) ION
2HEZ4Ligand/IonHEXANE-1,6-DIOL
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION
2HEZ3Ligand/IonHEXANE-1,6-DIOL
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION
2HEZ3Ligand/IonHEXANE-1,6-DIOL

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:60 , CYS A:95 , HIS A:98 , HIS A:103 , HOH A:1238BINDING SITE FOR RESIDUE CU A 601
2AC2SOFTWAREGLU C:60 , CYS C:95 , HIS C:98 , HIS C:103 , HOH C:1269BINDING SITE FOR RESIDUE CU C 602
3AC3SOFTWAREGLU B:60 , CYS B:95 , HIS B:98 , HIS B:103 , HOH B:1310BINDING SITE FOR RESIDUE CU B 603
4AC4SOFTWAREGLU D:60 , CYS D:95 , HIS D:98 , HIS D:103 , HOH D:1270BINDING SITE FOR RESIDUE CU D 604
5AC5SOFTWAREPHE A:31 , VAL A:33 , ILE A:58 , GLU A:60 , HIS A:98 , PRO A:99 , HOH A:1238 , HOH A:1245 , ILE C:15 , HEZ D:1171BINDING SITE FOR RESIDUE HEZ A 1169
6AC6SOFTWARELEU A:18 , VAL B:33 , LYS B:49 , LEU B:97 , ILE B:102 , HOH B:1310BINDING SITE FOR RESIDUE HEZ B 1170
7AC7SOFTWAREHEZ A:1169 , LEU D:18 , PHE D:31 , VAL D:33 , LEU D:97 , HIS D:98 , PRO D:99 , ILE D:102 , HOH D:1270 , HOH D:1300BINDING SITE FOR RESIDUE HEZ D 1171
8AC8SOFTWARELEU B:18 , HOH B:1281 , PHE C:31 , VAL C:33 , ILE C:58 , GLU C:60 , LEU C:97 , HIS C:98 , PRO C:99 , HOH C:1269 , HOH C:1271BINDING SITE FOR RESIDUE HEZ C 1172

(-) SS Bonds  (0, 0)

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

(-) 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 1IBY)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1IBY)

(-) 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: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 d1ibya_ A: Red copper protein nitrosocyanin                                                                      SCOP domains
               CATH domains 1ibyA00 A: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
                 1iby A   1 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    10        20        30        40        50        60        70        80        90       100       110  


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 d1ibyb_ B: Red copper protein nitrosocyanin                                                                      SCOP domains
               CATH domains 1ibyB00 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
                 1iby B   1 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    10        20        30        40        50        60        70        80        90       100       110  


Chain C 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 d1ibyc_ C: Red copper protein nitrosocyanin                                                                      SCOP domains
               CATH domains 1ibyC00 C: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
                 1iby C   1 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    10        20        30        40        50        60        70        80        90       100       110  


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 d1ibyd_ D: Red copper protein nitrosocyanin                                                                      SCOP domains
               CATH domains 1ibyD00 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
                 1iby D   1 EHNFNVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKAGETKTISFTADKAGAFTIWCQLHPKNIHLPGTLNVVE 112
                                    10        20        30        40        50        60        70        80        90       100       110
   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, 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 1IBY)

(-) 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: 1ibz 1ic0

(-) Related Entries Specified in the PDB File

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