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(-) Description

Title :  CRYSTAL STRUCTURE OF PTDH R301K
 
Authors :  S. K. Nair, J. R. Chekan
Date :  03 Dec 13  (Deposition) - 12 Mar 14  (Release) - 12 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Protein, Rossmann Fold, Phosphite Dehydrogenase, Dehydrogenation, Cystoplasm, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. E. Hung, E. J. Fogle, N. Garg, J. R. Chekan, S. K. Nair, W. A. Van Der Donk
Chemical Rescue And Inhibition Studies To Determine The Rol Of Arg301 In Phosphite Dehydrogenase.
Plos One V. 9 87134 2014
PubMed-ID: 24498026  |  Reference-DOI: 10.1371/JOURNAL.PONE.0087134

(-) Compounds

Molecule 1 - PHOSPHONATE DEHYDROGENASE
    Chains: A, B
    EC Number: 1.20.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: PTXD
    Mutation: YES
    Organism Scientific: PSEUDOMONAS STUTZERI
    Organism Taxid: 316
    Synonym: NAD-DEPENDENT PHOSPHITE DEHYDROGENASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1NAD2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
2SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:76 , GLY A:77 , THR A:104 , MET A:153 , GLY A:154 , ALA A:155 , ILE A:156 , GLU A:175 , ALA A:176 , ALA A:207 , LEU A:208 , PRO A:209 , PRO A:235 , CYS A:236 , ARG A:237 , ASP A:261 , HIS A:292 , SO4 A:501 , HOH A:602 , HOH A:607BINDING SITE FOR RESIDUE NAD A 500
2AC2SOFTWARELEU A:75 , LYS A:76 , GLY A:77 , LEU A:100 , ARG A:237 , NAD A:500BINDING SITE FOR RESIDUE SO4 A 501
3AC3SOFTWARELYS B:76 , GLY B:77 , THR B:104 , GLY B:152 , MET B:153 , GLY B:154 , ALA B:155 , ILE B:156 , GLU B:175 , ALA B:176 , ALA B:207 , LEU B:208 , PRO B:209 , THR B:214 , PRO B:235 , CYS B:236 , ARG B:237 , ASP B:261 , HIS B:292 , GLY B:294 , SO4 B:501 , HOH B:602 , HOH B:613 , HOH B:620BINDING SITE FOR RESIDUE NAD B 500
4AC4SOFTWARELEU B:75 , LYS B:76 , GLY B:77 , LEU B:100 , ARG B:237 , NAD B:500BINDING SITE FOR RESIDUE SO4 B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NU6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4NU6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NU6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NU6)

(-) Exons   (0, 0)

(no "Exon" information available for 4NU6)

(-) 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:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee....hhhhhhhhh...eee........hhhhhhhhhh...eeee......hhhhhhhh....eeee........hhhhhhhh..eee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..................eeeee..hhhhhhhhhhhhhhh.eeeee.....hhhhhhhhheee.hhhhhhhhh.eeee............hhhhhhh....eeeee..hhhhhhhhhhhhhhhh..eeeeee..hhhhh..........hhhhhhh..eee.......hhhhhhhhhhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nu6 A   1 MLPKLVITHRVHEEILQLLAPHCELITNQTDSTLTREEILRRCRDAQAMMAFMPDRVDADFLQACPELRVIGCALKGFDNFDVDACTARGVWLTFVPDLLTVPTAELAIGLAVGLGRHLRAADAFVRSGKFRGWQPRFYGTGLDNATVGFLGMGAIGLAMADRLQGWGATLQYHEAKALDTQTEQRLGLRQVACSELFASSDFILLALPLNADTLHLVNAELLALVRPGALLVNPCRGSVVDEAAVLAALERGQLGGYAADVFEMEDWARADRPQQIDPALLAHPNTLFTPHIGSAVRAVKLEIERCAAQNILQALAGERPINAVNRLP 329
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320         


Chain B from PDB  Type:PROTEIN  Length:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee....hhhhhhhhh...eee........hhhhhhhhhh...eeee......hhhhhhh.....eeee........hhhhhhhh..eee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..................eeeee..hhhhhhhhhhh.....eeeee.....hhhhhhhhheee.hhhhhhhh..eeee............hhhhhh.....eeeee..hhhhhhhhhhhhhhhh..eeeeee..hhhhh..........hhhhhh...eee.......hhhhhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nu6 B   1 MLPKLVITHRVHEEILQLLAPHCELITNQTDSTLTREEILRRCRDAQAMMAFMPDRVDADFLQACPELRVIGCALKGFDNFDVDACTARGVWLTFVPDLLTVPTAELAIGLAVGLGRHLRAADAFVRSGKFRGWQPRFYGTGLDNATVGFLGMGAIGLAMADRLQGWGATLQYHEAKALDTQTEQRLGLRQVACSELFASSDFILLALPLNADTLHLVNAELLALVRPGALLVNPCRGSVVDEAAVLAALERGQLGGYAADVFEMEDWARADRPQQIDPALLAHPNTLFTPHIGSAVRAVKLEIERCAAQNILQALAGERPINAVNRLP 329
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320
   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 4NU6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NU6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NU6)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PTXD_PSEST | O69054: 4e5k 4e5m 4e5n 4e5p 4ebf 4nu5

(-) Related Entries Specified in the PDB File

4nu5