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(-) Description

Title :  CRYSTAL STRUCTURE OF A FUMARATE HYDRATASE
 
Authors :  S. Eswaramoorthy, B. Evans, R. Foti, A. Gizzi, B. Hillerich, A. Kar, J. L R. Seidel, G. Villigas, W. Zencheck, S. C. Almo, S. Swaminathan, New Y Structural Genomics Research Consortium (Nysgrc)
Date :  08 Oct 12  (Deposition) - 31 Oct 12  (Release) - 31 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Nysgrc, Psi-Biology, Structural Genomics, New York Structural Genomics Research Consortium, Small Molecule Metabolism, Energy, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Eswaramoorthy, S. C. Almo, S. Swaminathan
Crystal Structure Of A Fumarate Hydratase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - FUMARATE HYDRATASE CLASS II
    Chains: A, B, C, D
    EC Number: 4.2.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: FUMC, R01859, SMC00149
    Organism Scientific: SINORHIZOBIUM MELILOTI
    Organism Taxid: 266834
    Strain: 1021
    Synonym: FUMARASE C

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 45)

Asymmetric/Biological Unit (2, 45)
No.NameCountTypeFull Name
1MSE42Mod. Amino AcidSELENOMETHIONINE
2SO43Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:197 , ASN B:151 , HOH B:511 , HOH B:549 , LYS C:334 , ASN C:336BINDING SITE FOR RESIDUE SO4 C 501
2AC2SOFTWAREASN D:113 , MSE D:114 , ASN D:145 , SER D:149 , SER D:150BINDING SITE FOR RESIDUE SO4 D 501
3AC3SOFTWAREASN A:151 , THR B:197 , HIS B:198 , LYS D:334 , ASN D:336BINDING SITE FOR RESIDUE SO4 D 502

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1Lys A:136 -Pro A:137
2Gly A:311 -Pro A:312
3Pro A:326 -Gly A:327
4Lys B:136 -Pro B:137
5Gly B:311 -Pro B:312
6Lys C:136 -Pro C:137
7Gly C:311 -Pro C:312
8Lys D:136 -Pro D:137
9Gly D:311 -Pro D:312

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HGV)

(-) 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:456
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4hgva_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee..eeeeee.....hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..hhhhh.........hhhhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhee...............hhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........ee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh....hhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4hgv A  13 STRTETDTFGPIEVASDRYWGAQAQRSLGNFKIGWEKQPLAIVRALGIVKQAAARANmALGRLDPAIGDAIVKAAQEVIDGKLDEHFPLVVWQTGSGTQSNmNANEVVSNRAIELLGGVmGSKKPVHPNDHVNmSQSSNDTYPTAmHIACAERVIHDLLPALKHLHKALEEKVKAFDHIIKIGRTHTQDATPLTLGQEFSGYAAQVASSIKRIEmTLPGLCELAQGGTAVGTGLNAPVGFAEKVAEEIAAITGIGFTSAPNKFEALAAHDSmVFSHGAINATAAALFKIANDIRFLGSGPRSGLGELSLPENEPGSKVNPTQCEALTQVCVQVFGNHAALTFAGSQGHFELNVYNPLmAYNFLQSVQLLADAAISFTDNCVVGIEAREDNIKAALDRSLmLVTALAPKIGYDNAAKIAKTAHKNGTTLREEAVGGGYVTDEEFDAVVRPETmIGPA 473
                                    22        32        42        52        62       |72        82        92       102       112 |     122       132       142   |   152     | 162       172       182       192       202       212       222    |  232       242       252       262       272       282 |     292       302       312       322     ||337       347       357       367       377       387       397       407       417       427       437       447       457       467 |    
                                                                                    70-MSE                                     114-MSE           132-MSE       146-MSE     158-MSE                                                              227-MSE                                                  284-MSE                                     328|                                      375-MSE                                   417-MSE                                             469-MSE
                                                                                                                                                                                                                                                                                                                                                      334                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:453
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4hgvb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..eeeeee.....hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..hhhhh.........hhhhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhee...............hhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh....hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hgv B  13 STRTETDTFGPIEVASDRYWGAQAQRSLGNFKIGWEKQPLAIVRALGIVKQAAARANmALGRLDPAIGDAIVKAAQEVIDGKLDEHFPLVVWQTGSGTQSNmNANEVVSNRAIELLGGVmGSKKPVHPNDHVNmSQSSNDTYPTAmHIACAERVIHDLLPALKHLHKALEEKVKAFDHIIKIGRTHTQDATPLTLGQEFSGYAAQVASSIKRIEmTLPGLCELAQGGTAVGTGLNAPVGFAEKVAEEIAAITGIGFTSAPNKFEALAAHDSmVFSHGAINATAAALFKIANDIRFLGSGPRSGLGELSLPENEPKVNPTQCEALTQVCVQVFGNHAALTFAGSQGHFELNVYNPLmAYNFLQSVQLLADAAISFTDNCVVGIEAREDNIKAALDRSLmLVTALAPKIGYDNAAKIAKTAHKNGTTLREEAVGGGYVTDEEFDAVVRPETmIGP 472
                                    22        32        42        52        62       |72        82        92       102       112 |     122       132       142   |   152     | 162       172       182       192       202       212       222    |  232       242       252       262       272       282 |     292       302       312       322   ||  339       349       359       369     | 379       389       399       409       419       429       439       449       459       469   
                                                                                    70-MSE                                     114-MSE           132-MSE       146-MSE     158-MSE                                                              227-MSE                                                  284-MSE                                   326|                                      375-MSE                                   417-MSE                                             469-MSE
                                                                                                                                                                                                                                                                                                                                                    334                                                                                                                                          


Chain C from PDB  Type:PROTEIN  Length:411
                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4hgvc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..eeeeee.....hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..hhhhh.........hhhhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhee...............hhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........ee..............hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheehhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hgv C  13 STRTETDTFGPIEVASDRYWGAQAQRSLGNFKIGWEKQPLAIVRALGIVKQAAARANmALGRLDPAIGDAIVKAAQEVIDGKLDEHFPLVVWQTGSGTQSNmNANEVVSNRAIELLGGVmGSKKPVHPNDHVNmSQSSNDTYPTAmHIACAERVIHDLLPALKHLHKALEEKVKAFDHIIKIGRTHTQDATPLTLGQEFSGYAAQVASSIKRIEmTLPGLCELAQGGTAVGTGLNAPVGFAEKVAEEIAAITGIGFTSAPNKFEALAAHDSmVFSHGAINATAAALFKIANDIRFLGSGPRSGLGELSLPENEPGSmPGKVNPTQCEALTQVCVQVFGNHAALTFAGSQGHFELNVYNPLmAYNFLQSVQLLADAAISFTDNCVVGIEAREDNIKAALDRSLmLPETmIGP 472
                                    22        32        42        52        62       |72        82        92       102       112 |     122       132       142   |   152     | 162       172       182       192       202       212       222    |  232       242       252       262       272       282 |     292       302       312       322     ||334       344       354       364       374|      384       394       404       414  |||  471 
                                                                                    70-MSE                                     114-MSE           132-MSE       146-MSE     158-MSE                                                              227-MSE                                                  284-MSE                                     328|                                         375-MSE                                   417-MSE|   
                                                                                                                                                                                                                                                                                                                                                      331-MSE                                                                                418|  |   
                                                                                                                                                                                                                                                                                                                                                                                                                                              466  |   
                                                                                                                                                                                                                                                                                                                                                                                                                                                 469-MSE


Chain D from PDB  Type:PROTEIN  Length:454
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4hgvd_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..eeeeee.....hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..hhhhh.........hhhhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhee...............hhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........ee................hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheehhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhh.....hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hgv D  13 STRTETDTFGPIEVASDRYWGAQAQRSLGNFKIGWEKQPLAIVRALGIVKQAAARANmALGRLDPAIGDAIVKAAQEVIDGKLDEHFPLVVWQTGSGTQSNmNANEVVSNRAIELLGGVmGSKKPVHPNDHVNmSQSSNDTYPTAmHIACAERVIHDLLPALKHLHKALEEKVKAFDHIIKIGRTHTQDATPLTLGQEFSGYAAQVASSIKRIEmTLPGLCELAQGGTAVGTGLNAPVGFAEKVAEEIAAITGIGFTSAPNKFEALAAHDSmVFSHGAINATAAALFKIANDIRFLGSGPRSGLGELSLPENEPGSSImPGKVNPTQCEALTQVCVQVFGNHAALTFAGSQGHFELNVYNPLmAYNFLQSVQLLADAAISFTDNCVVGIEAREDNIKAALDRSLmLVTGYDNAAKIAKTAHKNGTTLREEAVGGGYVTDEEFDAVVRPETmIGP 472
                                    22        32        42        52        62       |72        82        92       102       112 |     122       132       142   |   152     | 162       172       182       192       202       212       222    |  232       242       252       262       272       282 |     292       302       312       322       332       342       352       362       372  |    382       392       402       412    |  428       438       448       458       468|   
                                                                                    70-MSE                                     114-MSE           132-MSE       146-MSE     158-MSE                                                              227-MSE                                                  284-MSE                                        331-MSE                                     375-MSE                                   417-MSE                                       469-MSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                 420|                                             
                                                                                                                                                                                                                                                                                                                                                                                                                                                  427
   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/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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