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(-) Description

Title :  CRYSTAL STRUCTURE MYCOBACTERIUM TUBERCULOSIS CYP121 IN COMPLEX WITH INHIBITOR FRAGMENT 25B
 
Authors :  C. Levy
Date :  22 Feb 16  (Deposition) - 06 Apr 16  (Release) - 27 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Mycobacterium Tuberculosis Cyp121 Fragment Based Inhibitor Screening, 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 CYP121
    Chains: A
    EC Number: 1.14.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CYP121, CYP121_1, EI32_2700, ERS007657_00455, ERS007661_00083, ERS007663_02869, ERS007665_01035, ERS007670_00377, ERS007672_00334, ERS007679_00173, ERS007681_01277, ERS007703_02339, ERS007720_01219, ERS007722_01069, ERS013447_00077, ERS013471_02812, ERS023446_00317, ERS024276_01833, ERS027644_00398, ERS027652_00994, ERS027654_01464, ERS027656_01022, ERS027659_00311, ERS027666_00100, ERS031537_01827, ERS075357_02976, ERS075361_02508, ERS075387_01689, ERS124361_02646, HX90_2763
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: P450 HEME-THIOLATE PROTEIN CYP121

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
169S2Ligand/Ion3'-AMINO-5-[5-AMINO-3-(4-HYDROXYPHENYL)-1H-PYRAZOL-4-YL][1,1'-BIPHENYL]-2-OL
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3SO42Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:211 , PRO A:330 , ASN A:331 , PRO A:332 , THR A:333 , SER A:334 , HOH A:529 , HOH A:714binding site for residue SO4 A 401
2AC2SOFTWAREARG A:58 , SER A:61 , MET A:62 , LYS A:63 , HIS A:343 , HOH A:505 , HOH A:582binding site for residue SO4 A 402
3AC3SOFTWAREMET A:62 , MET A:86 , HIS A:146 , GLY A:234 , SER A:237 , THR A:238 , PHE A:241 , 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 , 69S A:404 , HOH A:528 , HOH A:574 , HOH A:614 , HOH A:618 , HOH A:640binding site for residue HEM A 403
4AC4SOFTWARETHR A:77 , VAL A:78 , ALA A:167 , PHE A:168 , VAL A:228 , THR A:229 , ALA A:233 , SER A:237 , GLN A:385 , ARG A:386 , HEM A:403 , HOH A:526 , HOH A:611 , HOH A:617 , HOH A:674binding site for residue 69S A 404
5AC5SOFTWARETHR A:77 , PRO A:79 , LYS A:179 , TRP A:182 , ASP A:183 , GLN A:251 , PRO A:253 , ASP A:370 , HOH A:575 , HOH A:634binding site for residue 69S A 405

(-) SS Bonds  (0, 0)

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

(-) 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 5IBG)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5IBG)

(-) 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:390
                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhhhhhhhhhh.eeeee.....eeeee.hhhhhhhhhh...eehhhhhh...........hhhhhhhhhhhhhh.hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh..ee....hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.......eeeee...eee..eee....eeeehhhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee..hhhhh..............eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ibg A   7 LEVPFSARGDRIPDAVAELRTREPIRKVRTITGAEAWLVSSYALCTQVLEDRRFSMKETAAAGAPRLNALTVPPEVVNNMGNIADAGLRKAVMKAITPKAPGLEQFLRDTANSLLDNLITEGAPADLRNDFADPLATALHCKVLGIPQEDGPKLFRSLSIAFMSSADPIPAAKINWDRDIEYMAGILENPNITTGLMGELSRLRKDPAYSHVSDELFATIGVTFFGAGVISTGSFLTTALISLIQRPQLRNLLHEKPELIPAGVEELLRINLSFADGLPRLATADIQVGDVLVRKGELVLVLLEGANFDPEHFPNPGSIELDRPNPTSHLAFGRGQHFCPGSALGRRHAQIGIEALLKKMPGVDLAVPIDQLVWRTRFQRRIPERLPVLW 396
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396
   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:129 - Pro A:130   [ RasMol ]  
    Val A:9 - Pro A:10   [ RasMol ]  
 

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  CP121_MYCTU | P9WPP7
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  1.14.-.-
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CP121_MYCTU | P9WPP7: 1n40 1n4g 2ij5 2ij7 3cxv 3cxx 3cxy 3cxz 3cy0 3cy1 3g5f 3g5h 4g1x 4g2g 4g44 4g45 4g46 4g47 4g48 4ict 4ips 4ipw 4iq7 4iq9 5ibd 5ibe 5ibf 5ibh 5ibi 5ibj

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5IBG)