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(-) Description

Title :  CRYSTAL STRUCTURE OF SHEWANELLA ONEIDENSIS NRTR
 
Authors :  N. Huang, H. Zhang
Date :  06 Apr 09  (Deposition) - 09 Jun 09  (Release) - 28 Jul 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dna Binding Protein, Nudix Domain, Whth Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Huang, J. De Ingeniis, L. Galeazzi, C. Mancini, Y. D. Korostelev, A. B. Rakhmaninova, M. S. Gelfand, D. A. Rodionov, N. Raffaelli, H. Zhang
Structure And Function Of An Adp-Ribose-Dependent Transcriptional Regulator Of Nad Metabolism
Structure V. 17 939 2009
PubMed-ID: 19604474  |  Reference-DOI: 10.1016/J.STR.2009.05.012
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MUTT/NUDIX FAMILY PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NRTR, SO_1979
    Organism Scientific: SHEWANELLA ONEIDENSIS
    Organism Taxid: 70863

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1NA2Ligand/IonSODIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:119 , VAL A:122 , VAL A:125BINDING SITE FOR RESIDUE NA A 238
2AC2SOFTWAREILE B:119 , VAL B:122 , VAL B:125BINDING SITE FOR RESIDUE NA B 238

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3GZ5)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1His A:44 -Pro A:45
2Glu A:169 -Pro A:170
3Asp B:31 -Gln B:32
4His B:44 -Pro B:45
5Glu B:169 -Pro B:170

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3GZ5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3GZ5)

(-) Exons   (0, 0)

(no "Exon" information available for 3GZ5)

(-) Sequences/Alignments

Asymmetric/Biological 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:214
 aligned with Q8EFJ3_SHEON | Q8EFJ3 from UniProtKB/TrEMBL  Length:237

    Alignment length:218
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227        
         Q8EFJ3_SHEON    18 QLLTVDAVLFTYHDQQLKVLLVQRSNHPFLGLWGLPGGFIDETCDESLEQTVLRKLAEKTAVVPPYIEQLCTVGNNSRDARGWSVTVCYTALMSYQACQIQIASVSDVKWWPLADVLQMPLAFDHLQLIEQARERLTQKALYSLVPGFALSEPFTLPELQHVHEVLLGKPIQGKSFRRRVEQADLLIDTGLKRTERGRPANLYCLKPDTASYRFLRNL 235
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee..eeeeeeee.........ee..eee.......hhhhhhhhhhhhhhh....eeeeeeeeee........eeeeeeeee.hhhhhhhhhh....eeeeehhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhh...hhhhhhhhhhhhh.eeeeeeee.----.eeeeee.hhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gz5 A  18 QLLTVDAVLFTYHDQQLKVLLVQRSNHPFLGLWGLPGGFIDETCDESLEQTVLRKLAEKTAVVPPYIEQLCTVGNNSRDARGWSVTVCYTALMSYQACQIQIASVSDVKWWPLADVLQMPLAFDHLQLIEQARERLTQKALYSLVPGFALSEPFTLPELQHVHEVLLGKPIQGKSFRRRVEQADLLIDTGLKRT----PANLYCLKPDTASYRFLRNL 235
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207   |   217       227        
                                                                                                                                                                                                                           211  216                   


Chain B from PDB  Type:PROTEIN  Length:216
 aligned with Q8EFJ3_SHEON | Q8EFJ3 from UniProtKB/TrEMBL  Length:237

    Alignment length:218
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227        
         Q8EFJ3_SHEON    18 QLLTVDAVLFTYHDQQLKVLLVQRSNHPFLGLWGLPGGFIDETCDESLEQTVLRKLAEKTAVVPPYIEQLCTVGNNSRDARGWSVTVCYTALMSYQACQIQIASVSDVKWWPLADVLQMPLAFDHLQLIEQARERLTQKALYSLVPGFALSEPFTLPELQHVHEVLLGKPIQGKSFRRRVEQADLLIDTGLKRTERGRPANLYCLKPDTASYRFLRNL 235
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee..eeeeeeee.........ee..ee........hhhhhhhhhhhhhhh....eeeeeeeeee........eeeeeeeee..hhhhhh.......eeeeehhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhh...hhhhhhhhhhhhh.eeeeeeee.--...eeeeee.hhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gz5 B  18 QLLTVDAVLFTYHDQQLKVLLVQRSNHPFLGLWGLPGGFIDETCDESLEQTVLRKLAEKTAVVPPYIEQLCTVGNNSRDARGWSVTVCYTALMSYQACQIQIASVSDVKWWPLADVLQMPLAFDHLQLIEQARERLTQKALYSLVPGFALSEPFTLPELQHVHEVLLGKPIQGKSFRRRVEQADLLIDTGLKRT--GRPANLYCLKPDTASYRFLRNL 235
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207   |  |217       227        
                                                                                                                                                                                                                           211  |                     
                                                                                                                                                                                                                              214
   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  (0, 0)

(no "SCOP Domain" information available for 3GZ5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3GZ5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3GZ5)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8EFJ3_SHEON | Q8EFJ3)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.

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  3gz5
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 Related Entries

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

UniProtKB/TrEMBL
        Q8EFJ3_SHEON | Q8EFJ3: 3gz6 3gz8

(-) Related Entries Specified in the PDB File

3gz6 3gz8