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(-) Description

Title :  CRYSTAL STRUCTURE OF CARNITINYL-COA HYDRATASE FROM MYCOBACTERIUM AVIUM
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  08 Mar 11  (Deposition) - 16 Mar 11  (Release) - 22 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Ssgcid, Fatty Acid Biosynthesis, Fab, Coenzyme A, Ortholog, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Baugh, I. Phan, D. W. Begley, M. C. Clifton, B. Armour, D. M. Dranow, B. M. Taylor, M. M. Muruthi, J. Abendroth, J. W. Fairman, D. Fox, S. H. Dieterich, B. L. Staker, A. S. Gardberg, R. Choi, S. N. Hewitt, A. J. Napuli, J. Myers, L. K. Barrett, Y. Zhang, M. Ferrell, E. Mundt, K. Thompkins, N. Tran, S. Lyons-Abbott, A. Abramov, A. Sekar, D. Serbzhinskiy, D. Lorimer, G. W. Buchko, R. Stacy, L. J. Stewart, T. E. Edwards, W. C. Van Voorhis, P. J. Myler
Increasing The Structural Coverage Of Tuberculosis Drug Targets.
Tuberculosis (Edinb) V. 95 142 2015
PubMed-ID: 25613812  |  Reference-DOI: 10.1016/J.TUBE.2014.12.003

(-) Compounds

Molecule 1 - CARNITINYL-COA DEHYDRATASE
    Chains: A, B, C
    EC Number: 4.2.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAVA0421
    Expression System Taxid: 562
    Gene: MAV_2597
    Organism Scientific: MYCOBACTERIUM AVIUM
    Organism Taxid: 243243
    Strain: 104
    Synonym: CARNITINYL-COA HYDRATASE

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1EDO5Ligand/Ion1,2-ETHANEDIOL
2GOL1Ligand/IonGLYCEROL
3K1Ligand/IonPOTASSIUM ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:97 , HIS A:100 , THR A:106 , ALA A:124 , HOH A:280BINDING SITE FOR RESIDUE EDO A 270
2AC2SOFTWARETYR B:97 , HIS B:100 , THR B:106 , ALA B:124 , HOH B:300BINDING SITE FOR RESIDUE EDO B 270
3AC3SOFTWARETYR C:97 , HIS C:100 , ILE C:102 , THR C:106 , ALA C:124 , HOH C:279 , HOH C:311BINDING SITE FOR RESIDUE EDO C 270
4AC4SOFTWAREASN B:186 , GLU B:187 , ARG B:204 , HOH B:552 , GLU C:166BINDING SITE FOR RESIDUE EDO B 271
5AC5SOFTWAREARG A:181 , TRP A:182 , ARG B:181 , ARG C:181BINDING SITE FOR RESIDUE EDO A 271
6AC6SOFTWAREPHE B:94 , GLY B:117 , GLU B:120 , GLU B:140 , ILE B:146 , GLY B:148 , ALA B:149 , PHE B:242BINDING SITE FOR RESIDUE GOL B 272
7AC7SOFTWAREGLU C:120 , GLU C:140BINDING SITE FOR RESIDUE K C 271

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3R0O)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3R0O)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3R0O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3R0O)

(-) Exons   (0, 0)

(no "Exon" information available for 3R0O)

(-) 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:262
 aligned with A0A0H2ZXF2_M | A0A0H2ZXF2 from UniProtKB/TrEMBL  Length:269

    Alignment length:262
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267  
         A0A0H2ZXF2_M     8 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
               SCOP domains d3r0oa_ A: automated matches                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeeee..........hhhhhhh........hhhhhhhhh........eeeee...eehhhhhhhhhh.eeeee...eeehhhhhh......hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhh....eee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhee..ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r0o A   8 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267  


Chain A from PDB  Type:PROTEIN  Length:262
 aligned with A0A0M3KKU0_M | A0A0M3KKU0 from UniProtKB/TrEMBL  Length:273

    Alignment length:262
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271  
         A0A0M3KKU0_M    12 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 273
               SCOP domains d3r0oa_ A: automated matches                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeeee..........hhhhhhh........hhhhhhhhh........eeeee...eehhhhhhhhhh.eeeee...eeehhhhhh......hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhh....eee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhee..ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r0o A   8 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267  


Chain B from PDB  Type:PROTEIN  Length:261
 aligned with A0A0H2ZXF2_M | A0A0H2ZXF2 from UniProtKB/TrEMBL  Length:269

    Alignment length:261
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268 
         A0A0H2ZXF2_M     9 TRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
               SCOP domains d3r0ob_ B: automated matches                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeeee..........hhhhhhh........hhhhhhhhh........eeeee...eehhhhhhhhhh.eeeee...eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhh....eee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhee..ee..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r0o B   9 TRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268 


Chain B from PDB  Type:PROTEIN  Length:261
 aligned with A0A0M3KKU0_M | A0A0M3KKU0 from UniProtKB/TrEMBL  Length:273

    Alignment length:261
                                    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 
         A0A0M3KKU0_M    13 TRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 273
               SCOP domains d3r0ob_ B: automated matches                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeeee..........hhhhhhh........hhhhhhhhh........eeeee...eehhhhhhhhhh.eeeee...eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhh....eee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhee..ee..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r0o B   9 TRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268 


Chain C from PDB  Type:PROTEIN  Length:262
 aligned with A0A0H2ZXF2_M | A0A0H2ZXF2 from UniProtKB/TrEMBL  Length:269

    Alignment length:262
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267  
         A0A0H2ZXF2_M     8 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
               SCOP domains d3r0oc_ C: automated matches                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeeee..........hhhhhhh........hhhhhhhhh........eeeee...eehhhhhhhhhh.eeeee...eeehhhhhh......hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhh....eee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhee..ee..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r0o C   8 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267  


Chain C from PDB  Type:PROTEIN  Length:262
 aligned with A0A0M3KKU0_M | A0A0M3KKU0 from UniProtKB/TrEMBL  Length:273

    Alignment length:262
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271  
         A0A0M3KKU0_M    12 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 273
               SCOP domains d3r0oc_ C: automated matches                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeeee..........hhhhhhh........hhhhhhhhh........eeeee...eehhhhhhhhhh.eeeee...eeehhhhhh......hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhh....eee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhee..ee..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r0o C   8 VTRQAAVVERRGNVALITIDRPDARNAVNGAVSTAVGDALEEAQRDPEVWAVVITGAGDKSFCAGADLKAISRGENLYHAEHPEWGFAGYVHHFIDKPTIAAVNGTALGGGSELALASDLVIACESASFGLPEVKRGLIAGAGGVFRIVEQLPRKVALELVLTGEPMTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLSVQASKRVAYGADDGIIGAEEPKWERTIREFTELLKSEDAKEGPLAFAEKRQPVWKAR 269
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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, 3)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3R0O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3R0O)

(-) Gene Ontology  (0, 0)

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  A0A0M3KKU0_M | A0A0M3KKU0
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