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(-) Description

Title :  CRYSTAL STRUCTURE OF A PROBABLE DEHYDROGENASE PROTEIN
 
Authors :  S. Eswaramoorthy, S. Rice, S. Chamala, B. Evans, R. Foti, A. Gizzi, B. Hi A. Kar, J. Lafleur, R. Seidel, G. Villigas, W. Zencheck, S. C. Almo, S. Swaminathan, New York Structural Genomics Research Consort (Nysgrc)
Date :  04 Jun 12  (Deposition) - 15 Aug 12  (Release) - 15 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.76
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  A,D  (1x)
Biol. Unit 3:  A,B  (1x)
Biol. Unit 4:  B,C  (1x)
Biol. Unit 5:  C,D  (1x)
Keywords :  Psi-Biology, Nysgrc, Structural Genomics, New York Structural Genomics Research Consortium, Three Layer, Short Chain Dehydrogenase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Eswaramoorthy, S. Rice, S. C. Almo, S. Swaminathan
Crystal Structure Of A Probable Dehydrogenase Protein
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PROBABLE DEHYDROGENASE PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: RHE_CH00797
    Organism Scientific: RHIZOBIUM ETLI
    Organism Taxid: 347834
    Strain: CFN 42 / ATCC 51251

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): ABCD
Biological Unit 2 (1x): A  D
Biological Unit 3 (1x): AB  
Biological Unit 4 (1x):  BC 
Biological Unit 5 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
2SO42Ligand/IonSULFATE ION
Biological Unit 1 (2, 10)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
2SO42Ligand/IonSULFATE ION
Biological Unit 2 (2, 6)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2SO42Ligand/IonSULFATE ION
Biological Unit 3 (2, 5)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2SO41Ligand/IonSULFATE ION
Biological Unit 4 (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2SO4-1Ligand/IonSULFATE ION
Biological Unit 5 (2, 5)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2SO41Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:16 , ARG A:39 , ARG A:40BINDING SITE FOR RESIDUE SO4 A 301
2AC2SOFTWARETHR D:16 , GLY D:38 , ARG D:39 , ARG D:40 , HOH D:458 , HOH D:484BINDING SITE FOR RESIDUE SO4 D 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FGS)

(-) 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:240
                                                                                                                                                                                                                                                                                
               SCOP domains d4fgsa_ A: automated matches                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeee...hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhh.eeeeee.............hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeee.hhhhhh....hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee......hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.....eeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fgs A   3 QRLNAKIAVITGATSGIGLAAAKRFVAEGARVFITGRRKDVLDAAIAEIGGGAVGIQADSANLAELDRLYEKVKAEAGRIDVLFVNAGGGSmLPLGEVTEEQYDDTFDRNVKGVLFTVQKALPLLARGSSVVLTGSTAGSTGTPAFSVYAASKAALRSFARNWILDLKDRGIRINTLSPGPTETDPVQQQGLLNALAAQVPmGRVGRAEEVAAAALFLASDDSSFVTGAELFVDGGSAQV 251
                                    12        22        32        42        52        62        72        82        92 |     102       112       122       132       142       152       162       172       182   ||  201       211 |     221       231       241       251
                                                                                                                      94-MSE                                                                                     186|              213-MSE                                  
                                                                                                                                                                                                                  196                                                       


Chain B from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains d4fgsb_ B: automated matches                                                                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeee...hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhh..eeeeee.............hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeee.hhhhhh....hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee..............hhhhhhhhhhhhhhhhhh.....eeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fgs B   2 TQRLNAKIAVITGATSGIGLAAAKRFVAEGARVFITGRRKDVLDAAIAEIGGGAVGIQADSANLAELDRLYEKVKAEAGRIDVLFVNAGGGSmLPLGEVTEEQYDDTFDRNVKGVLFTVQKALPLLARGSSVVLTGSTAGSTGTPAFSVYAASKAALRSFARNWILDLKDRGIRINTLSPGPTEAAQVPmGRVGRAEEVAAAALFLASDDSSFVTGAELFVDGGSAQV 251
                                    11        21        31        41        51        61        71        81        91  |    101       111       121       131       141       151       161       171       181   ||  213       223       233       243        
                                                                                                                       94-MSE                                                                                    185|    |                                      
                                                                                                                                                                                                                  208    |                                      
                                                                                                                                                                                                                       213-MSE                                  


Chain C from PDB  Type:PROTEIN  Length:234
                                                                                                                                                                                                                                                                          
               SCOP domains d4fgsc_ C: automated matches                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeee...hhhhhhhhhhhhhh..eeeeee...hhhhhhhhhh...eeee....hhhhhhhhhhhhhhhh..eeeeee.............hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeee.hhhhhh....hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee......hhhhhhhhh......hhhhhhhhhhhhhhhhhh.....eeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fgs C   2 TQRLNAKIAVITGATSGIGLAAAKRFVAEGARVFITGRRDVLDAAIAEIGGGAVGIQADSANLAELDRLYEKVKAEAGRIDVLFVNAGGGSmLPLGEVTEEQYDDTFDRNVKGVLFTVQKALPLLARGSSVVLTGSTAGSTGTPAFSVYAASKAALRSFARNWILDLKDRGIRINTLSPGPTETGLLNALAAQVPmGRVGRAEEVAAAALFLASDDSSFVTGAELFVDGGSAQV 251
                                    11        21        31        42        52        62        72        82        92 |     102       112       122       132       142       152       162       172       182   ||  207     | 217       227       237       247    
                                                                 40|                                                  94-MSE                                                                                     186|        213-MSE                                  
                                                                  42                                                                                                                                              202                                                 


Chain D from PDB  Type:PROTEIN  Length:234
                                                                                                                                                                                                                                                                          
               SCOP domains d4fgsd_ D: automated matches                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeee...hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhh..eeeeee.............hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeee.hhhhhh....hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....hhhhhhhhh......hhhhhhhhhhhhhhhhhh.....eeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fgs D   2 TQRLNAKIAVITGATSGIGLAAAKRFVAEGARVFITGRRKDVLDAAIAEIGGGAVGIQADSANLAELDRLYEKVKAEAGRIDVLFVNAGGGSmLPLGEVTEEQYDDTFDRNVKGVLFTVQKALPLLARGSSVVLTGSTAGSTGTPAFSVYAASKAALRSFARNWILDLKDRGIRINTLSPGPTEGLLNALAAQVPmGRVGRAEEVAAAALFLASDDSSFVTGAELFVDGGSAQV 251
                                    11        21        31        41        51        61        71        81        91  |    101       111       121       131       141       151       161       171       181   ||  207     | 217       227       237       247    
                                                                                                                       94-MSE                                                                                    185|        213-MSE                                  
                                                                                                                                                                                                                  202
   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: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4FGS)

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