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(-) Description

Title :  CRYSTAL STRUCTURE OF A DIHYDROOROTASE FROM BURKHOLDERIA CENOCEPACIA J2315
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  27 Jun 13  (Deposition) - 10 Jul 13  (Release) - 17 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Structural Genomics, Niaid, National Institute Of Allergy And Infectious Diseases, Seattle Structural Genomics Center For Infectious Disease, Ssgcid, Carboxylated Lysine, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. M. Lukacs, J. W. Fairman, T. E. Edwards, D. Lorimer
Crystal Structure Of A Dihydroorotase From Burkholderia Cenocepacia J2315
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 Taxid: 562
    Gene: PYRC, BCEJ2315_32910, BCAL3351
    Organism Scientific: BURKHOLDERIA CENOCEPACIA
    Organism Taxid: 216591
    Strain: J2315
    Synonym: DHOASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric Unit (4, 12)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2EDO2Ligand/Ion1,2-ETHANEDIOL
3KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
4ZN4Ligand/IonZINC ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
3KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
4ZN-1Ligand/IonZINC ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
3KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
4ZN-1Ligand/IonZINC ION
Biological Unit 3 (2, 4)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO2Ligand/Ion1,2-ETHANEDIOL
3KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
4ZN-1Ligand/IonZINC ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:31 , HIS A:33 , KCX A:117 , ASP A:268 , ZN A:402 , HOH A:656BINDING SITE FOR RESIDUE ZN A 401
02AC2SOFTWAREKCX A:117 , HIS A:154 , HIS A:192 , ZN A:401 , HOH A:656BINDING SITE FOR RESIDUE ZN A 402
03AC3SOFTWAREARG A:108 , GLY A:148 , LYS A:187 , PHE A:320 , TYR A:321 , HOH A:701 , HOH A:788BINDING SITE FOR RESIDUE EDO A 403
04AC4SOFTWAREARG A:225 , ARG A:245 , ARG B:225 , ARG B:245BINDING SITE FOR RESIDUE CA A 404
05AC5SOFTWAREARG A:245 , HOH B:689BINDING SITE FOR RESIDUE CA A 405
06AC6SOFTWAREHIS B:31 , HIS B:33 , KCX B:117 , ASP B:268 , ZN B:402 , HOH B:636BINDING SITE FOR RESIDUE ZN B 401
07AC7SOFTWAREKCX B:117 , HIS B:154 , HIS B:192 , ZN B:401 , HOH B:636BINDING SITE FOR RESIDUE ZN B 402
08AC8SOFTWAREARG B:108 , GLY B:148 , LYS B:187 , PHE B:320 , TYR B:321 , GLY B:322 , HOH B:754BINDING SITE FOR RESIDUE EDO B 403
09AC9SOFTWAREARG A:225 , ARG A:245 , ARG B:225 , ARG B:245BINDING SITE FOR RESIDUE CA B 404
10BC1SOFTWAREHOH A:573 , ARG B:245 , THR B:247 , HOH B:687BINDING SITE FOR RESIDUE CA B 405

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Lys A:61 -Pro A:62
2Leu A:240 -Pro A:241
3Lys B:61 -Pro B:62
4Leu B:240 -Pro B:241

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LFY)

(-) 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:349
                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4lfya_ A: automated matches                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeee...eeee...hhhhhhhhhhhhhhhh.eeee.........hhhhhhhhhhhhhhh.......eeeeeee.....hhhhhhhhhhhh.eeeeee.........hhhhhhhhhhhhhhhh..eee.........hhhhhhhhhhhhhhhhhhhhh....eee....hhhhhhhhhhh......eeeee.hhhhhhhhhhhh....hhhhh......hhhhhhhhhhhhh.....eee.......hhhhhh............hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.......eeeee...ee....eee..eee.......ee..ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lfy A   9 PPMTASNSPATLSLARPDDWHLHLRDGDMLAAVLPHTARQFGRAIVMPNLKPPVTTTAQAQAYRERILAALPAGMTFEPLMTLYLTDNTPPDEIRRARESGFVHGVkLYPASDHGVTDLAKCAKTLEAMQETGMPLLVHGEVTDASIDLFDREKVFIDRVMTPLRRDFPGLKVVFEHITTKDAADYVRDADAAPGLLGATITAHHLLYNRNALFVGGIRPHYYCLPVLKRETHRVALVEAATSGNPRFFLGTDSAPHARDAKETACGCAGCYTALHALELYAEAFDTAGALDKLEGFASFFGADFYGLPRSAETVTLRREPWELPREIFAGETPVVPLRGGETIGWKLA 364
                                  ||20        30        40        50        60        70        80        90       100       110      |120||     135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355         
                                 15|                                                                                                117-KCX|                                                                                                                                                                                                                                             
                                  18                                                                                                     127                                                                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:353
                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains d4lfyb_ B: automated matches                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh...eeeee...eeee...hhhhhhhhhhhhhhhh.eeee.........hhhhhhhhhhhhhhh.......eeeeeee.....hhhhhhhhhhhh.eeeeee............hhhhhhhhhhhhhhhh..eee.........hhhhhhhhhhhhhhhhhhhhh....eee....hhhhhhhhhhh......eeeeehhhhhhhhhhhhhh...hhhhh......hhhhhhhhhhhhh.....eee.......hhhhhh............hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.......eeeee...ee....eee..eee.......ee..ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lfy B  10 PMTASNASSPATLSLARPDDWHLHLRDGDMLAAVLPHTARQFGRAIVMPNLKPPVTTTAQAQAYRERILAALPAGMTFEPLMTLYLTDNTPPDEIRRARESGFVHGVkLYPAGTNSDHGVTDLAKCAKTLEAMQETGMPLLVHGEVTDASIDLFDREKVFIDRVMTPLRRDFPGLKVVFEHITTKDAADYVRDADAAPGLLGATITAHHLLYNRNALFVGGIRPHYYCLPVLKRETHRVALVEAATSGNPRFFLGTDSAPHARDAKETACGCAGCYTALHALELYAEAFDTAGALDKLEGFASFFGADFYGLPRSAETVTLRREPWELPREIFAGETPVVPLRGGETIGWKLA 364
                                    19        29        39        49        59        69        79        89        99       109       119  ||   131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361   
                                                                                                                                     117-KCX2|                                                                                                                                                                                                                                               
                                                                                                                                           125
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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1j79
3pnu RELATED ID: SSGCID-BUCEA.00043.A RELATED DB: TARGETTRACK