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(-) Description

Title :  CRYSTAL STRUCTURE OF A TAURINE DIOXYGENASE FROM BURKHOLDERIA XENOVORANS
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  10 Jun 16  (Deposition) - 22 Jun 16  (Release) - 22 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Biol. Unit 3:  A  (2x)
Biol. Unit 4:  B  (2x)
Keywords :  Ssgcid, Oxidoreductase, Dioxygenase, Burkholderia Xenovorans, Structural Genomics, Seattle Structural Genomics Center For Infectious Disease (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. M. Dranow, D. Lorimer, T. E. Edwards
Crystal Structure Of A Taurine Dioxygenase From Burkholderi Xenovorans
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - TAURINE DIOXYGENASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BXE_C0112
    Organism Scientific: BURKHOLDERIA XENOVORANS (STRAIN LB400)
    Organism Taxid: 266265
    Strain: LB400
    Synonym: BUXEA.00024.C

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (2x): AB
Biological Unit 3 (2x): A 
Biological Unit 4 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 26)

Asymmetric Unit (3, 26)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2FMT23Ligand/IonFORMIC ACID
3MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 24)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2FMT23Ligand/IonFORMIC ACID
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (2, 48)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2FMT46Ligand/IonFORMIC ACID
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (2, 16)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2FMT14Ligand/IonFORMIC ACID
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 4 (1, 32)
No.NameCountTypeFull Name
1EDO-1Ligand/Ion1,2-ETHANEDIOL
2FMT32Ligand/IonFORMIC ACID
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (26, 26)

Asymmetric Unit (26, 26)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU A:274 , ASP A:275binding site for residue FMT A 401
02AC2SOFTWARELEU A:108 , THR A:112 , GLY A:113 , LEU A:266 , THR A:269 , HOH A:505 , HOH A:527 , HOH A:602 , HOH A:652 , ARG B:241binding site for residue FMT A 402
03AC3SOFTWAREARG A:247 , HOH A:559 , HOH A:583 , HOH A:614 , HOH A:675 , ARG B:247binding site for residue FMT A 403
04AC4SOFTWAREGLN A:143 , HOH A:518 , HOH A:569 , HOH A:622 , HOH A:707 , GLN B:143 , PRO B:242 , THR B:245 , HOH B:567binding site for residue FMT A 404
05AC5SOFTWAREGLN A:63 , HOH A:520 , VAL B:286binding site for residue FMT A 405
06AC6SOFTWAREHOH A:504 , HOH A:575 , HOH A:662 , HOH B:626binding site for residue FMT A 406
07AC7SOFTWAREHIS A:20 , ARG A:48binding site for residue FMT A 407
08AC8SOFTWAREILE A:93 , THR A:142 , ALA A:267 , PRO A:268 , ARG A:278binding site for residue EDO A 408
09AC9SOFTWAREHIS A:115 , ASP A:117 , HIS A:265 , ASN A:315 , HOH A:533 , HOH A:648binding site for residue MG A 409
10AD1SOFTWAREHIS B:83 , VAL B:84 , ASP B:85 , FMT B:408binding site for residue FMT B 401
11AD2SOFTWAREGLN B:143 , HOH B:551 , HOH B:573binding site for residue FMT B 402
12AD3SOFTWAREPRO A:293 , ASP A:294 , ALA B:156 , ALA B:160 , HOH B:683binding site for residue FMT B 403
13AD4SOFTWARELYS B:218 , FMT B:405 , FMT B:411 , HOH B:596binding site for residue FMT B 404
14AD5SOFTWAREGLU B:229 , FMT B:404 , HOH B:617 , HOH B:712binding site for residue FMT B 405
15AD6SOFTWAREVAL B:221 , HOH B:728binding site for residue FMT B 406
16AD7SOFTWAREASP B:163 , LEU B:165 , ARG B:166 , PRO B:197 , GLY B:292 , ASP B:294 , HOH B:519 , HOH B:640binding site for residue FMT B 407
17AD8SOFTWARESER B:92 , TYR B:281 , FMT B:401 , HOH B:504binding site for residue FMT B 408
18AD9SOFTWARELEU B:107 , THR B:112 , HOH B:595 , HOH B:679 , HOH B:704binding site for residue FMT B 409
19AE1SOFTWAREARG A:241 , THR B:112 , GLY B:113 , THR B:269 , HOH B:582binding site for residue FMT B 410
20AE2SOFTWAREARG B:170 , LYS B:218 , FMT B:404 , FMT B:412binding site for residue FMT B 411
21AE3SOFTWARETHR B:172 , LYS B:218 , FMT B:411 , HOH B:644binding site for residue FMT B 412
22AE4SOFTWAREVAL B:291 , GLY B:295 , HOH B:547 , HOH B:682binding site for residue FMT B 413
23AE5SOFTWAREARG B:48 , HOH B:512binding site for residue FMT B 414
24AE6SOFTWARETHR B:142 , PRO B:268 , ARG B:278 , HOH B:543binding site for residue FMT B 415
25AE7SOFTWAREPHE B:58 , HOH B:507 , HOH B:651binding site for residue FMT B 416
26AE8SOFTWAREHIS B:115 , ASP B:117 , HIS B:265 , ASN B:315 , HOH B:561 , HOH B:676binding site for residue MG B 417

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5KEU)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5KEU)

(-) 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:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee......eeee........hhhhhhhhhhhhhhhheeee.....hhhhhhhhhhh.......ee..eeeeeeee...........ee...........eeeeeeee.......eeeeehhhhhhhhhhhhhhhhhh.eeeeee...eeeeee.eee......eee......eeee...hhhhhhhhhhhhhhhhhhhh.eeee......eeeee...eeee..hhhhhh....eeeeeee.............eeee..hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5keu A  10 PSIQVKPLSAHIGAELHGVDLTRKLDPSEVAQIRAALLRWRVVFFREQFLTHEQHVAFSAQFGEPTLGHVDGHPEVYSISKYQALLRPWTGWHTDVTAALNPPWASILRGVTIPPYGGDTQWTNLALAYEKLSAPLRAFVDGLRGVHRFTPVLVTEHPLVRVHPETGERVLYVSPSFLKSIVGVTPRESEALLELLWEHATRPEFTVRFKWEAGSVAFWDNRATAHLAPTDIFDLDFDRQLYRTTLVGDVPVGPDGRQSVAIEGAAAVALN 315
                                    19        29        39        49        59        69      ||84        94 ||    112       122       132       142       152       162       172||     199       209       219       229       239       249       259       269       279       289       299   ||  314 
                                                                                             76|            96|                                                                 173|                                                                                                             303|      
                                                                                              82            105                                                                  191                                                                                                              309      


Chain B from PDB  Type:PROTEIN  Length:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee......eeee........hhhhhhhhhhhhhhhheeee.....hhhhhhhhhhh....................eee..........ee...........eeeeeeee.......eeeeehhhhhhhhhhhhhhhhhh.eeeeee....eeeeee.eee......eee......eeee...hhhhhhhhhhhhhhhhhhhh.eeee......eeeee...eeee..hhhhhh....eeeeeee.............eeee.hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5keu B  10 PSIQVKPLSAHIGAELHGVDLTRKLDPSEVAQIRAALLRWRVVFFREQFLTHEQHVAFSAQFGEPTLGHPVFGHVDGHPEVYSISQALLRPWTGWHTDVTAALNPPWASILRGVTIPPYGGDTQWTNLALAYEKLSAPLRAFVDGLRGVHRFTPPVLVTEHPLVRVHPETGERVLYVSPSFLKSIVGVTPRESEALLELLWEHATRPEFTVRFKWEAGSVAFWDNRATAHLAPTDIFDLDFDRQLYRTTLVGDVPVGPDGRQSVAIEGSPVSAAAAVALN 315
                                    19        29        39        49        59        69        79        89    || 109       119       129       139       149       159       169    || 195       205       215       225       235       245       255       265       275       285       295       305       315
                                                                                                               94|                                                                  174|                                                                                                                            
                                                                                                               105                                                                   191
   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  (0, 0)

(no "SCOP Domain" information available for 5KEU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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