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(-) Description

Title :  CRYSTAL STRUCTURE OF THE LEURS EDITING DOMAIN OF MYCOBACTERIUM TUBERCULOSIS IN COMPLEX WITH THE ADDUCT 3-(AMINOMETHYL)-4-BROMO-7-ETHOXYBENZO[C][1,2]OXABOROL-1(3H)-OL -AMP
 
Authors :  A. Palencia, X. Li, M. R. K. Alley, C. Ding, E. E. Easom, V. Hernandez, M. M M. Mohan, F. L. Rock, S. G. Franzblau, Y. Wang, A. J. Lenaerts, T. Parish C. B. Cooper, M. G. Waters, Z. Ma, A. Mendoza, D. Barros, S. Cusack, J. J.
Date :  03 Feb 15  (Deposition) - 09 Mar 16  (Release) - 05 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.47
Chains :  Asym./Biol. Unit :  A
Keywords :  Ligase, M. Tuberculosis, Leucine-Trna Ligase Activity, Atp + L- Leucine + Trna(Leu) Gives Amp + Diphosphate + L-Leucyl- Trna(Leu) Aminoacyl-Trna Editing Activity, Aminoacyl-Trna Synthetase, Protein Biosynthesis, Novel Boron Inhibitors Of Leurs (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Palencia, X. Li, W. Bu, W. Choi, C. Z. Ding, E. E. Easom, L. Feng, V. Hernandez, P. Houston, L. Liu, M. Meewan, M. Mohan, F. L. Rock, H. Sexton, S. Zhang, Y. Zhou, B. Wan, Y. Wang, S. G. Franzblau, L. Woolhiser, V. Gruppo, A. J. Lenaerts, T. O'Malley, T. Parish, C. B. Cooper, M. G. Waters, Z. Ma, T. R. Ioerger, J. C. Sacchettini, J. Rullas, I. Angulo-Barturen, E. Perez-Herran, A. Mendoza, D. Barros, S. Cusack, J. J. Plattner, M. R. K. Alley
Discovery Of Novel Oral Protein Synthesis Inhibitors Of Mycobacterium Tuberculosis That Target Leucyl-Trna Synthetase.
Antimicrob. Agents Chemother. V. 60 6271 2016
PubMed-ID: 27503647  |  Reference-DOI: 10.1128/AAC.01339-16

(-) Compounds

Molecule 1 - LEUCYL-TRNA SYNTHETASE
    Atcc: 25618
    Chains: A
    EC Number: 6.1.1.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI K-12
    Expression System Plasmid: PETM-11
    Expression System Taxid: 83333
    Expression System Variant: DE3 RIL
    Expression System Vector Type: PLASMID
    Fragment: EDITING DOMAIN (CP1, RESIDUES 309-513
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: H37RV

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
138Y1Ligand/Ion3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1,2]OXABOROL-1-OL MODIFIED ADENOSINE
2MET1Mod. Amino AcidMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:335 , THR A:336 , THR A:337 , ARG A:338 , THR A:341 , TYR A:430 , VAL A:431 , LEU A:432 , TYR A:435 , ILE A:440 , MET A:441 , HIS A:446 , ASP A:447 , ARG A:449 , ASP A:450 , HOH A:2014 , HOH A:2131 , HOH A:2148 , HOH A:2150 , HOH A:2272BINDING SITE FOR RESIDUE 38Y A1514
2AC2SOFTWAREPRO A:417 , LEU A:503 , ALA A:506 , HOH A:2107 , HOH A:2256 , HOH A:2275BINDING SITE FOR RESIDUE MET A1515

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5AGS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AGS)

(-) 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    
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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:193
                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...eeeeee.hhhhhhhh.eeee.....hhhhhh........hhhhh....hhhhhhhhhhhhhh..hhhhhhh....eeeeeeee......eeeeee...........eeee....hhhhhhhhhhhh......ee.............ee..hhhhh..hhhhhhhhhhhhhhhh..eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5ags A  313 GAVALFSARAVDIEVFTTRPDTLFGATYLVLAPEHDLVDELVAASWPAGVNPLWTYGGGTPGEAIAAYRRAIAAKSDLERQEEKTGVFLGSYAINPANGEPVPIFIADYVLAGYGTGAIMAVPGHDQRDWDFARAFGLPIVEVIAGGNISESAYTGDGILVNSDYLNGMSVPAAKRAIVDRLESAGRGRARIM 1515
                                   322|      339       349       359       369       379       389       399 ||    411       421       431       441       451       461       471       481       491       501       511 ||
                                   322|                                                                    401|                                                                                                          513|
                                    330                                                                     404                                                                                                          1515
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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 5AGS)

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (15, 15)

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 Related Entries

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        SYL_MYCTU | P9WFV1: 5agr 5agt

(-) Related Entries Specified in the PDB File

5agr CRYSTAL STRUCTURE OF THE LEURS EDITING DOMAIN OF MYCOBACTERIUM TUBERCULOSIS IN COMPLEX WITH THE ADDUCT AN4452-AMP
5agt CRYSTAL STRUCTURE OF THE LEURS EDITING DOMAIN OF MYCOBACTERIUM TUBERCULOSIS IN COMPLEX WITH THE ADDUCT AN6426-AMP