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(-) Description

Title :  CRYSTAL STRUCTURE OF NADP-DEPENDENT DEHYDROGENASE FROM SINORHIZOBIUM MELILOTI IN COMPLEX WITH NADP AND SULFATE
 
Authors :  P. Sroka, O. A. Gasiorowska, K. B. Handing, I. G. Shabalin, T. Osinski, B. S. Hillerich, J. Bonanno, S. C. Almo, W. Minor, New York Structura Genomics Research Consortium (Nysgrc)
Date :  10 Sep 14  (Deposition) - 24 Sep 14  (Release) - 14 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Nadp-Dependent Dehydrogenase, Structural Genomics, Nysgrc, Psi- Biology, New York Structural Genomics Research Consortium, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Sroka, O. A. Gasiorowska, K. B. Handing, I. G. Shabalin, T. Osinski, W. Minor
Crystal Structure Of Nadp-Dependent Dehydrogenase From Sinorhizobium Meliloti In Complex With Nadp And Sulfate
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NAD-DEPENDENT DEHYDROGENASE
    Chains: A
    EC Number: 1.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSGC-HIS
    Expression System Strain: BL21 (DE3) RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: R00152, SMC02828, CAC41539.1
    Organism Common: ENSIFER MELILOTI
    Organism Scientific: RHIZOBIUM MELILOTI
    Organism Taxid: 266834
    Other Details: THE PROTEIN WAS SUBJECTED TO LIMITED PROTEOLYSIS BY CHYMOTRYPSIN RIGHT BEFORE CRYSTALLIZATION. SUPPOSINGLY THE HIS-TAG WAS CLEAVED.
    Strain: 1021

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 7)

Asymmetric Unit (5, 7)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
3NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
5SO43Ligand/IonSULFATE ION
Biological Unit 1 (4, 12)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
4PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
5SO46Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:75 , ARG A:92 , MET A:102 , MET A:147 , GLY A:148 , VAL A:149 , LEU A:150 , TRP A:168 , SER A:169 , ARG A:170 , SER A:171 , ARG A:173 , LEU A:199 , LEU A:200 , PRO A:201 , ALA A:232 , GLY A:233 , ARG A:234 , ASP A:258 , HIS A:282 , ALA A:284 , ALA A:285 , TYR A:319 , SO4 A:402 , HOH A:601 , HOH A:607 , HOH A:608 , HOH A:610 , HOH A:626 , HOH A:627 , HOH A:628 , HOH A:663 , HOH A:719binding site for residue NAP A 401
2AC2SOFTWARETRP A:53 , GLY A:73 , ALA A:74 , GLY A:75 , ARG A:234 , HIS A:282 , NAP A:401binding site for residue SO4 A 402
3AC3SOFTWAREARG A:92 , HIS A:311 , HOH A:665 , HOH A:667binding site for residue SO4 A 403
4AC4SOFTWAREHIS A:117 , ARG A:118 , GLU A:121 , TYR A:278 , HOH A:510binding site for residue SO4 A 404
5AC5SOFTWAREGLY A:28 , GLU A:30binding site for residue PEG A 405
6AC6SOFTWAREHIS A:113 , GLN A:116 , VAL A:228 , HOH A:616 , HOH A:617binding site for residue GOL A 406
7AC7SOFTWAREPRO A:275 , ASN A:276binding site for residue CL A 407

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu A:263 -Pro A:264

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4WEQ)

(-) 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:316
                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..hhhhhhhhhh.......eee..hhhhh........eeeee....hhhhhh....eeee......hhhhh.......ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhh.eeeee..hhhhhhhhhhhhhhh.eeeee..........eeehhhhhhhhhhhh.eeee............hhhhhhhh.........eeee..hhhhhhhhhhhhhhhhh...eeee...........hhhhhh..eee........hhhhhhhhhhhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4weq A   4 KSPVIVDLKFIPEEVEAALAGAFPGREVIDLADPAHQERDLSGIDYAVVWKSAPDLFSRAPDLKVVFSGGAGVDHVLTLPGLPDVPLVRFVDRTLTTRMSEWVMMQCLLHLRQHRAYEALAKKHEWRDLSQPEAADVTVGIMGMGVLGQDAARKLAAMGFKVIGWSRSKRVIEGVETYDAAGLDAFLGRTDFLVGLLPLTPDTRGIFNAALFAKLSRNGPFGAPVFINAGRGGSQVEADILECLDSGVLGGASLDVFEREPLSPESRFWDMPNVYVTPHVAASSDVRALFVHVEHQIARFESGLPLEHVVDKVAGY 319
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313
   Legend:   → Mismatch (orange background)
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  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 4WEQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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