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(-) Description

Title :  CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS CYP121 IN COMPLEX WITH LIG9
 
Authors :  M. E. Kavanagh, A. G. Coyne, K. J. Mclean, G. G. James, C. Levy, L. B. Marin L. P. D. Carvalho, D. S. H. Chan, S. A. Hudson, S. Surade, A. W. Munro, C. A
Date :  22 Oct 15  (Deposition) - 06 Apr 16  (Release) - 27 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.45
Chains :  Asym./Biol. Unit :  A
Keywords :  Cytochrome P450, Cyp121, Mycobacterium Tuberculosis, Fragment-Based Drug Discovery, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Kavanagh, A. G. Coyne, K. J. Mclean, G. G. James, C. W. Levy, L. B. Marino, L. P. De Carvalho, D. S. Chan, S. A. Hudson, S. Surade, D. Leys, A. W. Munro, C. Abell
Fragment-Based Approaches To The Development Of Mycobacterium Tuberculosis Cyp121 Inhibitors.
J. Med. Chem. V. 59 3272 2016
PubMed-ID: 27002486  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.6B00007

(-) Compounds

Molecule 1 - CYTOCHROME P450 121
    Chains: A
    EC Number: 1.14.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: C41
    Gene: CYP121, MB2299
    Organism Scientific: MYCOBACTERIUM BOVIS (STRAIN ATCC BAA-935 / AF2122/97)
    Organism Taxid: 233413
    Synonym: CYTOCHROME P450 MT2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric/Biological Unit (3, 12)
No.NameCountTypeFull Name
15MK1Ligand/Ion2-AZANYL-5-CHLORANYL-BENZAMIDE
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3SO410Ligand/IonSULFATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREMET A:62 , MET A:86 , HIS A:146 , PHE A:230 , ALA A:233 , GLY A:234 , SER A:237 , PHE A:280 , LEU A:284 , ARG A:286 , ALA A:337 , PHE A:338 , GLY A:339 , HIS A:343 , CYS A:345 , PRO A:346 , GLY A:347 , SO4 A:403 , HOH A:503 , HOH A:599binding site for residue HEM A 401
02AC2SOFTWARETHR A:77 , VAL A:78 , ALA A:167 , PHE A:168 , ALA A:178 , ASN A:181 , TRP A:182 , ASP A:185 , VAL A:228 , HOH A:600 , HOH A:638binding site for residue 5MK A 402
03AC3SOFTWAREALA A:233 , PHE A:280 , ARG A:386 , HEM A:401 , HOH A:503 , HOH A:539binding site for residue SO4 A 403
04AC4SOFTWAREARG A:58 , SER A:61 , MET A:62 , LYS A:63 , HIS A:343binding site for residue SO4 A 404
05AC5SOFTWAREARG A:134 , PHE A:161 , SER A:165 , ARG A:381 , ARG A:391 , HOH A:515 , HOH A:585binding site for residue SO4 A 405
06AC6SOFTWARELYS A:211 , PRO A:330 , ASN A:331 , PRO A:332 , THR A:333 , SER A:334 , HOH A:579binding site for residue SO4 A 406
07AC7SOFTWAREILE A:152 , PRO A:153 , GLN A:154 , HOH A:520binding site for residue SO4 A 407
08AC8SOFTWARESER A:219 , ARG A:252 , SER A:324 , ILE A:325binding site for residue SO4 A 408
09AC9SOFTWAREASP A:16 , ARG A:17 , ARG A:252 , ILE A:276 , PHE A:314binding site for residue SO4 A 409
10AD1SOFTWARESER A:12 , ARG A:14 , HOH A:618binding site for residue SO4 A 410
11AD2SOFTWAREPRO A:19 , ASP A:20 , ALA A:21binding site for residue SO4 A 411
12AD3SOFTWAREPRO A:158 , ARG A:162binding site for residue SO4 A 412

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Val A:9 -Pro A:10
2Ala A:129 -Pro A:130

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5EDT)

(-) 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:395
                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhh.eeeee.....eeeee.hhhhhhhhhhh..eehhhhhh...........hhhhhhhhhhhhhh.hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh..ee....hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.......eeeee...eee..eee....eeeehhhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee..hhhhh..............eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5edt A   2 TATVLLEVPFSARGDRIPDAVAELRTREPIRKVRTITGAEAWLVSSYALCTQVLEDRRFSMKETAAAGAPRLNALTVPPEVVNNMGNIADAGLRKAVMKAITPKAPGLEQFLRDTANSLLDNLITEGAPADLRNDFADPLATALHCKVLGIPQEDGPKLFRSLSIAFMSSADPIPAAKINWDRDIEYMAGILENPNITTGLMGELSRLRKDPAYSHVSDELFATIGVTFFGAGVISTGSFLTTALISLIQRPQLRNLLHEKPELIPAGVEELLRINLSFADGLPRLATADIQVGDVLVRKGELVLVLLEGANFDPEHFPNPGSIELDRPNPTSHLAFGRGQHFCPGSALGRRHAQIGIEALLKKMPGVDLAVPIDQLVWRTRFQRRIPERLPVLW 396
                                    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       271       281       291       301       311       321       331       341       351       361       371       381       391
   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 5EDT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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