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(-) Description

Title :  CRYSTAL STRUCTURE MYCOBACTERIUM TUBERCULOSIS CYP121 IN COMPLEX WITH INHIBITOR FRAGMENT 25A
 
Authors :  C. Levy
Date :  22 Feb 16  (Deposition) - 06 Apr 16  (Release) - 27 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.62
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 - MYCOCYCLOSIN SYNTHASE
    Chains: A
    EC Number: 1.14.21.9
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CYP121, MT2336
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: CYTOCHROME P450 121,CYTOCHROME P450 MT2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 8)

Asymmetric/Biological Unit (4, 8)
No.NameCountTypeFull Name
169M1Ligand/Ion4-[5-AMINO-4-(3'-AMINO[1,1'-BIPHENYL]-3-YL)-1H-PYRAZOL-3-YL]PHENOL
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3MES1Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID
4SO45Ligand/IonSULFATE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:58 , SER A:61 , MET A:62 , LYS A:63 , HIS A:343 , HOH A:514 , HOH A:542 , HOH A:544binding site for residue SO4 A 401
2AC2SOFTWAREMET A:62 , MET A:86 , HIS A:146 , PHE A:230 , GLY A:234 , SER A:237 , PHE A:241 , PHE A:280 , ARG A:286 , ALA A:337 , PHE A:338 , GLY A:339 , HIS A:343 , CYS A:345 , PRO A:346 , 69M A:403 , HOH A:551 , HOH A:571 , HOH A:597 , HOH A:627 , HOH A:740binding site for residue HEM A 402
3AC3SOFTWARETHR A:77 , VAL A:78 , VAL A:83 , ALA A:167 , PHE A:168 , THR A:229 , ALA A:233 , SER A:237 , PHE A:280 , ARG A:386 , HEM A:402 , HOH A:517 , HOH A:538 , HOH A:702 , HOH A:802binding site for residue 69M A 403
4AC4SOFTWAREARG A:134 , PHE A:161 , ARG A:381 , ARG A:391 , HOH A:505 , HOH A:509 , HOH A:615binding site for residue SO4 A 404
5AC5SOFTWARESER A:12 , HOH A:511 , HOH A:670 , HOH A:701 , HOH A:859binding site for residue SO4 A 405
6AC6SOFTWARELYS A:211 , PRO A:330 , ASN A:331 , PRO A:332 , THR A:333 , SER A:334 , HOH A:731binding site for residue SO4 A 406
7AC7SOFTWAREARG A:17 , ASP A:20 , ALA A:21binding site for residue SO4 A 407
8AC8SOFTWAREASP A:91 , ALA A:92 , GLY A:93 , ALA A:214 , HIS A:217 , HOH A:855binding site for residue MES A 408

(-) SS Bonds  (0, 0)

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

(-) 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 5IBE)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5IBE)

(-) 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:394
                                                                                                                                                                                                                                                                                                                                                                                                                                          
               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......hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.......eeeee...eee..eee....eeeehhhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee..hhhhh..............eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ibe A   3 ATVLLEVPFSARGDRIPDAVAELRTREPIRKVRTITGAEAWLVSSYALCTQVLEDRRFSMKETAAAGAPRLNALTVPPEVVNNMGNIADAGLRKAVMKAITPKAPGLEQFLRDTANSLLDNLITEGAPADLRNDFADPLATALHCKVLGIPQEDGPKLFRSLSIAFMSSADPIPAAKINWDRDIEYMAGILENPNITTGLMGELSRLRKDPAYSHVSDELFATIGVTFFGAGVISTGSFLTTALISLIQRPQLRNLLHEKPELIPAGVEELLRINLSFADGLPRLATADIQVGDVLVRKGELVLVLLEGANFDPEHFPNPGSIELDRPNPTSHLAFGRGQHFCPGSALGRRHAQIGIEALLKKMPGVDLAVPIDQLVWRTRFQRRIPERLPVLW 396
                                    12        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       282       292       302       312       322       332       342       352       362       372       382       392
   Legend:   → Mismatch (orange background)
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  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 5IBE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 21)

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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  1.14.21.9
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 Related Entries

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

UniProtKB/Swiss-Prot
        CP121_MYCTO | P9WPP6: 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 5ibf
        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 5ibf 5ibg 5ibh 5ibi 5ibj

(-) Related Entries Specified in the PDB File

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