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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CRYPTOSPORIDIUM MURIS CYTOSOLIC LEUCYL-TRNA SYNTHETASE EDITING DOMAIN COMPLEX WITH THE ADDUCT AMP-AN6426
 
Authors :  A. Palencia, R. J. Liu, M. Lukarska, J. Gut, A. Bougdour, B. Touquet, E. D M. R. K. Alley, P. J. Rosenthal, M. A. Hakimi, S. Cusack
Date :  24 Nov 15  (Deposition) - 03 Aug 16  (Release) - 05 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ligase, Cryptosporidium, Leucine-Trna Ligase (Leurs) Activity, Atp + L-Leucine + Trna(Leucine) Give Amp + Diphosphate + L- Leucyl-Trna(Leucine), Post-Transfer Editing Activity Of Leurs, Aminoacyl-Trna Synthetase, Protein Biosynthesis, Novel Boron Inhibitors Of The Editing Site Of Leurs (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Palencia, R. Liu, M. Lukarska, J. Gut, A. Bougdour, B. Touquet, E. Wang, X. Li, M. R. K. Alley, Y. R. Freund, P. J. Rosenthal, M. Hakimi, S. Cusack
Cryptosporidium And Toxoplasma Parasites Are Inhibited By A Benzoxaborole Targeting Leucyl-Trna Synthetase.
Antimicrob. Agents Chemother. V. 60 5817 2016
PubMed-ID: 27431220  |  Reference-DOI: 10.1128/AAC.00873-16

(-) Compounds

Molecule 1 - LEUCYL-TRNA SYNTHETASE
    Chains: A
    EC Number: 6.1.1.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: RIL
    Expression System Vector: PETM-11
    Expression System Vector Type: PLASMID
    Fragment: EDITING DOMAIN
    Organism Scientific: CRYPTOSPORIDIUM MURIS
    Organism Taxid: 441375
    Strain: RN66

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1A2H1Ligand/Ion4-CHLORO-3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1,2]OXABOROL-1-OL MODIFIED ADENOSINE
2PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1A2H2Ligand/Ion4-CHLORO-3-AMINOMETHYL-7-[ETHOXY]-3H-BENZO[C][1,2]OXABOROL-1-OL MODIFIED ADENOSINE
2PO42Ligand/IonPHOSPHATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:258 , ALA A:286 , THR A:287 , LEU A:288 , ARG A:289 , THR A:292 , ILE A:414 , SER A:415 , LYS A:418 , VAL A:423 , THR A:424 , VAL A:426 , ASP A:429 , SER A:430 , ASP A:433 , LYS A:496 , HOH A:2008 , HOH A:2039BINDING SITE FOR RESIDUE A2H A1542
2AC2SOFTWARETYR A:335 , ILE A:380 , VAL A:381 , SER A:382 , ARG A:511BINDING SITE FOR RESIDUE PO4 A1543

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gly A:254 -Pro A:255

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FOM)

(-) 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:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee...hhhhhhhhh..eeeeeeee.hhhhhhhh.eeee....eeeeeee.......hhhhhhhhh.eeeeehhhhhhhhhhh....eee...........eee.eeeeee.hhhh..eee........eeeee...........eeee....hhhhhhhhhhhhhhhhhhhhh..hhhhh......ee......hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhhh..eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fom A 254 GPQEYTLIKLKIHLIPEFLGSIVKGREVFVVCATLRPETMYGQTNCWILPDGEYDLVLAFDQKIFDKYEDTMKECNTVYICSERSAYNMAYQGIVPLIHGREQGVSDKLLPRIVSLGKVYGEQLIGTPLSAPMTPYSLIFILPMFSISMEKGTGIVTSVPSDSPDDYAALRDIKTKPLLREKYSIKDEWILDPLEIIEVPGFGFMTAELLCNQYKIQSQNDSAKLKQAKEEIYKKEFYEGILIRGKYSGMKICDAKELIRESLIKDGYALIYLE 541
                                   263       273       283       293       303       313 ||    337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537    
                                                                                       315|                                                                                                                                                                                                                   
                                                                                        330
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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 5FOM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        B6AA20_CRYMR | B6AA20: 5fog 5fol 5fon

(-) Related Entries Specified in the PDB File

5fo4 CRYSTAL STRUCTURE OF THE P.FALCIPARUM CYTOSOLIC LEUCYL- TRNA SYNTHETASE EDITING DOMAIN (SPACE GROUP P1)
5foc CRYSTAL STRUCTURE OF THE P.FALCIPARUM CYTOSOLIC LEUCYL- TRNA SYNTHETASE EDITING DOMAIN (SPACE GROUP P21)
5fod CRYSTAL STRUCTURE OF THE P.FALCIPARUM CYTOSOLIC LEUCYL- TRNA SYNTHETASE EDITING DOMAIN (SPACE GROUP P1) CONTAINING DELETIONS OF INSERTIONS 1 AND 3
5fof CRYSTAL STRUCTURE OF THE P.KNOWLESI CYTOSOLIC LEUCYL- TRNA SYNTHETASE EDITING DOMAIN
5fog CRYSTAL STRUCTURE OF HTE CRYPTOSPORIDIUM MURIS CYTOSOLIC LEUCYL-TRNA SYNTHETASE EDITING DOMAIN COMPLEX WITH A POST-TRANSFER EDITING ANALOGUE OF NORVALINE (NV2AA)
5fol CRYSTAL STRUCTURE OF THE CRYPTOSPORIDIUM MURIS CYTOSOLIC LEUCYL-TRNA SYNTHETASE EDITING DOMAIN COMPLEX WITH A POST-TRANSFER EDITING ANALOGUE OF ISOEUCINE (ILE2AA)
5fon CRYSTAL STRUCTURE OF THE CRYPTOSPORIDIUM MURIS CYTOSOLIC LEUCYL-TRNA SYNTHETASE EDITING DOMAIN (APO STRUCTURE)