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(-) Description

Title :  MYCOBACTERIUM LEPRAE INHA BOUND WITH PTH-NAD ADDUCT
 
Authors :  F. Wang, J. C. Sacchettini
Date :  08 Nov 06  (Deposition) - 30 Jan 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Leprosy, Inha, Prothionamide, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Wang, R. Langley, G. Gulten, L. G. Dover, G. S. Besra, W. R. Jacobs, J. C. Sacchettini
Mechanism Of Thioamide Drug Action Against Tuberculosis And Leprosy.
J. Exp. Med. V. 204 73 2007
PubMed-ID: 17227913  |  Reference-DOI: 10.1084/JEM.20062100

(-) Compounds

Molecule 1 - ENOYL-[ACP] REDUCTASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET30B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: INHA
    Organism Scientific: MYCOBACTERIUM LEPRAE
    Organism Taxid: 1769

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1P1H2Ligand/Ion{(2R,3S,4R,5R)-5-[(4S)-3-(AMINOCARBONYL)-4-(2-PROPYLISONICOTINOYL)PYRIDIN-1(4H)-YL]-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL}METHYL [(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN DIPHOSPHATE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1P1H4Ligand/Ion{(2R,3S,4R,5R)-5-[(4S)-3-(AMINOCARBONYL)-4-(2-PROPYLISONICOTINOYL)PYRIDIN-1(4H)-YL]-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL}METHYL [(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN DIPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:14 , ILE A:15 , ILE A:16 , SER A:20 , ILE A:21 , PHE A:41 , LEU A:63 , ASP A:64 , VAL A:65 , SER A:94 , ILE A:95 , GLY A:96 , ILE A:122 , MET A:147 , ASP A:148 , PHE A:149 , MET A:155 , TYR A:158 , LYS A:165 , ALA A:191 , GLY A:192 , PRO A:193 , ILE A:194 , THR A:196 , TRP A:222 , HOH A:302 , HOH A:303 , HOH A:320 , HOH A:326 , HOH A:343 , HOH A:344 , HOH A:345 , HOH A:371 , HOH A:382 , HOH A:389BINDING SITE FOR RESIDUE P1H A 300
2AC2SOFTWAREGLY B:14 , ILE B:15 , ILE B:16 , SER B:20 , ILE B:21 , PHE B:41 , LEU B:63 , ASP B:64 , SER B:94 , ILE B:95 , GLY B:96 , ILE B:122 , MET B:147 , ASP B:148 , PHE B:149 , LYS B:165 , ALA B:191 , GLY B:192 , PRO B:193 , ILE B:194 , THR B:196 , ALA B:198 , MET B:199 , LEU B:218 , TRP B:222 , HOH B:402 , HOH B:413 , HOH B:420 , HOH B:425 , HOH B:430 , HOH B:452BINDING SITE FOR RESIDUE P1H B 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2NTV)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Val B:203 -Gly B:204
2Gly B:205 -Ala B:206
3Ala B:206 -Phe B:207
4Phe B:207 -Gly B:208

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2NTV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2NTV)

(-) Exons   (0, 0)

(no "Exon" information available for 2NTV)

(-) 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:268
 aligned with Q9CBM1_MYCLE | Q9CBM1 from UniProtKB/TrEMBL  Length:269

    Alignment length:268
                                    11        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        
         Q9CBM1_MYCLE     2 AGLLEGKRILVSGIITDSSIAFHIAKVAQEAGAQLVLTGFDRLRLIQRIADRLPDKAPLIELDVQNEEHLATLAERVTAEIGEGNKLDGVVHSIGFMPQTGMGTNQFFDAPYEDVSKGIHISTYSYASLAKALLLIMNSGGSIVGMDFDPTRAMPAYNWMTVAKSALESVNRFVAREAGKYGVRSNLVAAGPIRTLAMSAIVGGAFGEEAGAQMQLLEEGWDQRAPIGWNMKDPTPVAKTVCALLSEWLPATTGSIIYADGGASTQLL 269
               SCOP domains d2ntva_ A: Enoyl-ACP reductase                                                                                                                                                                                                                                               SCOP domains
               CATH domains 2ntvA00 A:2-269 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                          CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.......hhhhhhhhhhhhh..eeeeee..hhhhhhhhhh.......eee....hhhhhhhhhhhhhhhhh....eeeeee.....hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhh...hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh........eeeee..hhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntv A   2 AGLLEGKRILVSGIITDSSIAFHIAKVAQEAGAQLVLTGFDRLRLIQRIADRLPDKAPLIELDVQNEEHLATLAERVTAEIGEGNKLDGVVHSIGFMPQTGMGTNQFFDAPYEDVSKGIHISTYSYASLAKALLLIMNSGGSIVGMDFDPTRAMPAYNWMTVAKSALESVNRFVAREAGKYGVRSNLVAAGPIRTLAMSAIVGGAFGEEAGAQMQLLEEGWDQRAPIGWNMKDPTPVAKTVCALLSEWLPATTGSIIYADGGASTQLL 269
                                    11        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        


Chain B from PDB  Type:PROTEIN  Length:268
 aligned with Q9CBM1_MYCLE | Q9CBM1 from UniProtKB/TrEMBL  Length:269

    Alignment length:268
                                    11        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        
         Q9CBM1_MYCLE     2 AGLLEGKRILVSGIITDSSIAFHIAKVAQEAGAQLVLTGFDRLRLIQRIADRLPDKAPLIELDVQNEEHLATLAERVTAEIGEGNKLDGVVHSIGFMPQTGMGTNQFFDAPYEDVSKGIHISTYSYASLAKALLLIMNSGGSIVGMDFDPTRAMPAYNWMTVAKSALESVNRFVAREAGKYGVRSNLVAAGPIRTLAMSAIVGGAFGEEAGAQMQLLEEGWDQRAPIGWNMKDPTPVAKTVCALLSEWLPATTGSIIYADGGASTQLL 269
               SCOP domains d2ntvb_ B: Enoyl-ACP reductase                                                                                                                                                                                                                                               SCOP domains
               CATH domains 2ntvB00 B:2-269 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                          CATH domains
           Pfam domains (1) ------------adh_short_C2-2ntvB01 B:14-265                                                                                                                                                                                                                               ---- Pfam domains (1)
           Pfam domains (2) ------------adh_short_C2-2ntvB02 B:14-265                                                                                                                                                                                                                               ---- Pfam domains (2)
         Sec.struct. author .......eeeee......hhhhhhhhhhhhh..eeeeee..hhhhhhhhhh.......eee....hhhhhhhhhhhhhhhhh....eeeeee.....hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee......hhhhhh........hhhhhhhhhhhhhhh........hhhhhhhhhhhhh........eeeee..hhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntv B   2 AGLLEGKRILVSGIITDSSIAFHIAKVAQEAGAQLVLTGFDRLRLIQRIADRLPDKAPLIELDVQNEEHLATLAERVTAEIGEGNKLDGVVHSIGFMPQTGMGTNQFFDAPYEDVSKGIHISTYSYASLAKALLLIMNSGGSIVGMDFDPTRAMPAYNWMTVAKSALESVNRFVAREAGKYGVRSNLVAAGPIRTLAMSAIVGGAFGEEAGAQMQLLEEGWDQRAPIGWNMKDPTPVAKTVCALLSEWLPATTGSIIYADGGASTQLL 269
                                    11        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
   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, 2)

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

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9CBM1_MYCLE | Q9CBM1)
molecular function
    GO:0004318    enoyl-[acyl-carrier-protein] reductase (NADH) activity    Catalysis of the reaction: acyl-[acyl-carrier protein] + NAD+ = trans-2,3-dehydroacyl-[acyl-carrier protein] + NADH + H+.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0006633    fatty acid biosynthetic process    The chemical reactions and pathways resulting in the formation of a fatty acid, any of the aliphatic monocarboxylic acids that can be liberated by hydrolysis from naturally occurring fats and oils. Fatty acids are predominantly straight-chain acids of 4 to 24 carbon atoms, which may be saturated or unsaturated; branched fatty acids and hydroxy fatty acids also occur, and very long chain acids of over 30 carbons are found in waxes.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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 Related Entries

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(-) Related Entries Specified in the PDB File

2h9i MYCOBACTERIUM TUBERCULOSIS INHA BOUND WITH ETH-NAD ADDUCT
2ntj MYCOBACTERIUM TUBERCULOSIS INHA BOUND WITH PTH-NAD ADDUCT