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(-) Description

Title :  CRYSTAL STRUCTURE OF DIHYDROOROTASE PYRC FROM VIBRIO CHOLERAE IN COMPLEX WITH ZINC AT 1.95 A RESOLUTION.
 
Authors :  J. Lipowska, I. G. Shabalin, C. D. Miks, J. Winsor, D. R. Cooper, L. Shuva K. Kwon, K. Lewinski, W. F. Anderson, W. Minor, Center For Structura Genomics Of Infectious Diseases (Csgid)
Date :  11 Apr 17  (Deposition) - 26 Apr 17  (Release) - 26 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Psi-Biology, Center For Structural Genomics Of Infectious Diseases, Csgid, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Lipowska, I. G. Shabalin, C. D. Miks, J. Winsor, D. R. Cooper, L. Shuvalova, K. Kwon, K. Lewinski, W. F. Anderson, W. Minor
Crystal Structure Of Dihydroorotase From Vibrio Cholerae In Complex With Zinc At 1. 95 A Resolution.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DIHYDROOROTASE
    Chains: A, B
    EC Number: 3.5.2.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSGC-HIS
    Expression System Strain: BL21 "MAGIC"
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: PYRC, BSN91_03690, EN12_18175, ERS013140_03537, ERS013198_00138, ERS013199_01662
    Organism Scientific: VIBRIO CHOLERAE
    Organism Taxid: 666
    Synonym: DHOASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 15)

Asymmetric/Biological Unit (5, 15)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2CL1Ligand/IonCHLORIDE ION
3CSX4Mod. Amino AcidS-OXY CYSTEINE
4KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
5ZN4Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREKCX A:98 , HIS A:135 , HIS A:173 , ZN A:402 , HOH A:536binding site for residue ZN A 401
2AC2SOFTWAREHIS A:13 , HIS A:15 , KCX A:98 , ASP A:246 , ZN A:401 , HOH A:536binding site for residue ZN A 402
3AC3SOFTWAREARG A:17 , ASP A:18 , THR A:42 , VAL A:43binding site for residue ACT A 403
4AC4SOFTWAREARG A:203 , ARG A:223 , ARG B:203 , ARG B:223binding site for residue ACT A 404
5AC5SOFTWAREARG A:303binding site for residue ACT A 405
6AC6SOFTWAREKCX B:98 , HIS B:135 , HIS B:173 , ZN B:402 , HOH B:556binding site for residue ZN B 401
7AC7SOFTWAREHIS B:13 , HIS B:15 , KCX B:98 , ASP B:246 , ZN B:401 , HOH B:556binding site for residue ZN B 402
8AC8SOFTWAREHOH B:508binding site for residue ACT B 403
9AC9SOFTWAREGLY B:282 , LYS B:283 , LEU B:284binding site for residue CL B 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5VGM)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Val A:43 -Pro A:44
2Leu A:218 -Pro A:219
3Val B:43 -Pro B:44
4Leu B:218 -Pro B:219

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5VGM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5VGM)

(-) Exons   (0, 0)

(no "Exon" information available for 5VGM)

(-) 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:331
                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee...eeee...hhhhhhhhhhhhh....eeee.........hhhhhhhhhhhhhhh...eeeeeee.....hhhhhhhhhhh..eeeeee.....hhhhhhhhhhhhhhhh.eeee.........hhhhhhhhhhhhhhhhhhhhh....eee....hhhhhhhhhhh...eeeee.hhhhhhhhhhhhh...hhhhh......hhhhhhhhhhhhhhh...eee.......hhhhhh............hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh......eeeeeeeeee....eee..eee.......eeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5vgm A   0 AMTTLTITRPDDWHVHLRDGDVLADTVRDISRYNGRALIMPNTVPPVTTTEMALAYRERIMAAQHFEPLMALYLTDNTSPEEIRKAKASGKVVAAkLYPGVTSAKNIYPVLQAMQEVGMLLLVHGEVTTHEVDIFDREKTFLDTVLAPIVNDFPQLKIVLEHITTADAVTFVQQAGDNVAATITAHHLLFNRNHMLVGGIRPHFYCLPILKRATHQHALVAAATSGSKKFFLGTDSAPHAKGRKEAAcGcAGSYTAHAALELYAEVFEKEGKLENLEAFASFNGPDFYGLPRNQETVTLTKQAWPVAESMPFGSDIVVPIRAGENIEWTVK 342
                                     9        19        29        39        49        59   ||   72        82        92     | 111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341 
                                                                                          63|                             98-KCX                                                                                                                                                 259-CSX                                                                               
                                                                                           67                               101|                                                                                                                                                   261-CSX                                                                             
                                                                                                                             111                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeee...eeee...hhhhhhhhhhhhhh...eeee.........hhhhhhhhhhhhhhh......eeeeeee.....hhhhhhhhhhh..eeeeee...........hhhhhhhhhhhhhhhh.eeee.........hhhhhhhhhhhhhhhhhhhhh....eee....hhhhhhhhhhh...eeeee.hhhhhhhhhhhhh...hhhhh......hhhhhhhhhhhhhh....eee.......hhhhhh............hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh......eeeeeeeeee....eee..eee.......eeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5vgm B  -2 SNAMTTLTITRPDDWHVHLRDGDVLADTVRDISRYNGRALIMPNTVPPVTTTEMALAYRERIMAAQPQAHFEPLMALYLTDNTSPEEIRKAKASGKVVAAkLYPAGNSDSGVTSAKNIYPVLQAMQEVGMLLLVHGEVTTHEVDIFDREKTFLDTVLAPIVNDFPQLKIVLEHITTADAVTFVQQAGDNVAATITAHHLLFNRNHMLVGGIRPHFYCLPILKRATHQHALVAAATSGSKKFFLGTDSAPHAKGRKEAAcGcAGSYTAHAALELYAEVFEKEGKLENLEAFASFNGPDFYGLPRNQETVTLTKQAWPVAESMPFGSDIVVPIRAGENIEWTVK 342
                                     7        17        27        37        47        57        67        77        87        97|    ||110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260|      270       280       290       300       310       320       330       340  
                                                                                                                               98-KCX3|                                                                                                                                                     259-CSX                                                                               
                                                                                                                                    107                                                                                                                                                       261-CSX
   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 5VGM)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5VGM)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5VGM)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5VGM)

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