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(-) Description

Title :  CRYSTAL STRUCTURE OF T. CRUZI HISTIDYL-TRNA SYNTHETASE IN COMPLEX WITH 2-AMINOQUINOLIN-8-OL (CHEM 89)
 
Authors :  C. -Y. Koh, W. G. J. Hol
Date :  15 Mar 15  (Deposition) - 12 Aug 15  (Release) - 12 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ligase, Aminoacyl-Trna Synthetase, Aars, Hisrs, Trypanosoma Cruzi, Protein-Inhibitor Complex, Ligase-Ligase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. -Y. Koh, L. Kallur Siddaramaiah, R. M. Ranade, J. Nguyen, T. Jian, Z. Zhang, J. R. Gillespie, F. S. Buckner, C. L. M. J. Verlinde, E. Fan, W. G. J. Hol
A Binding Hotspot In The Trypanosoma Cruzi Histidyl-Trna Synthetase Revealed By Fragment-Based Crystallographic Cocktail Screens
Acta Crystallogr. , Sect. D V. 71 1684 2015
PubMed: search  |  Reference-DOI: 10.1107/S1399004715007683

(-) Compounds

Molecule 1 - HISTIDYL-TRNA SYNTHETASE
    Chains: A
    EC Number: 6.1.1.21
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: AVA0421
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 45-478
    Gene: TC00.1047053507019.40
    Organism Scientific: TRYPANOSOMA CRUZI (STRAIN CL BRENER)
    Organism Taxid: 353153
    Strain: CL BRENER

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 9)

Asymmetric Unit (5, 9)
No.NameCountTypeFull Name
10P62Ligand/Ion2-AMINOQUINOLIN-8-OL
2DMS3Ligand/IonDIMETHYL SULFOXIDE
3EDO1Ligand/Ion1,2-ETHANEDIOL
4HIS1Mod. Amino AcidHISTIDINE
5SO42Ligand/IonSULFATE ION
Biological Unit 1 (5, 18)
No.NameCountTypeFull Name
10P64Ligand/Ion2-AMINOQUINOLIN-8-OL
2DMS6Ligand/IonDIMETHYL SULFOXIDE
3EDO2Ligand/Ion1,2-ETHANEDIOL
4HIS2Mod. Amino AcidHISTIDINE
5SO44Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:126 , THR A:128 , GLN A:170 , ASN A:172 , ASP A:174 , LEU A:316 , TYR A:318 , TYR A:319 , TYR A:342 , GLY A:359 , PHE A:360 , GLY A:361 , HOH A:606 , HOH A:635 , HOH A:674binding site for residue HIS A 501
2AC2SOFTWAREPRO A:125 , CYS A:154 , TRP A:155 , ARG A:156 , ARG A:165 , GLU A:167 , HIS A:168binding site for residue 0P6 A 502
3AC3SOFTWAREVAL A:383 , VAL A:384 , GLY A:433 , VAL A:435binding site for residue 0P6 A 503
4AC4SOFTWAREARG A:196 , SER A:201 , SER A:202 , TRP A:305 , HOH A:605binding site for residue SO4 A 504
5AC5SOFTWARELEU A:97 , ILE A:99 , ARG A:100 , THR A:348 , TYR A:349binding site for residue DMS A 505
6AC6SOFTWARELYS A:420 , GLN A:424 , ASN A:427binding site for residue DMS A 506
7AC7SOFTWARETRP A:193 , ARG A:196 , SER A:197 , TYR A:302binding site for residue DMS A 507
8AC8SOFTWARETHR A:115 , GLY A:117 , HIS A:119 , TYR A:157 , THR A:161 , ARG A:166binding site for residue EDO A 508
9AC9SOFTWAREARG A:69 , HIS A:76binding site for residue SO4 A 509

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YRC)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Leu A:144 -Pro A:145

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YRC)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YRC)

(-) Exons   (0, 0)

(no "Exon" information available for 4YRC)

(-) 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:420
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhhhhhhhh..ee.....eee.hhhh....hhhhhh.eeee.....eeee...hhhhhhhhhhhhhhhh...eeeee..eee.........eeeeeeeeee....hhhhhhhhhhhhhhhhhh......eeeeeeehhhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh.eee.............eeeeeee........eeeee..hhhhhh.......eeeeeee.hhhhhhhhhh...........eeeee.hhhhhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhh...eeeeehhhhhhh.eeeeee....eeee.hhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4yrc A  47 NMVETEPVQGCRDFPPEAMRCRRHLFDVFHATAKTFGFEEYDAPVLESEELYIRKAGEEITEQMFNFITKGGHRVALRPEMTPSLARLLLGKGRSLLLPAKWYSIPQCWRYEAITRRREHYQWNMDIVGVKSVSAEVELVCAACWAMRSLGLSSKDVGIKVNSRKVLQTVVEQAGVTSDKFAPVCVIVDKMEKIPREEVEAQLAVLGLEPTVVDAITTTLSLKSIDEIAQRVGEEHEAVKELRQFFEQVEAYGYGDWVLFDASVVRGLAYYTGIVFEGFDREGKFRALCGGGRYDNLLTTYGSPTPIPCAGFGFGDCVIVELLQEKRLLPDIPHVVDDVVIPFDESMRPHALAVLRRLRDAGRSADIILDKKKVVQAFNYADRVGAVRAVLVAPEEWERGEVQVKMLRRGFAVPLDRLVH 501
                                    56        66        76        86        96       106       116       126       136       146       156    || 168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       469       501
                                                                                                                                            161|                                                                                                                                                                                                                                                                                                 456|       478|
                                                                                                                                             164                                                                                                                                                                                                                                                                                                  468        501
   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 4YRC)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YRC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YRC)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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  6.1.1.21
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 Related Entries

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

UniProtKB/TrEMBL
        Q4DA54_TRYCC | Q4DA54: 3hrk 3lc0 4yp0 4ypf 4yre 4yrf 4yrg 4yri 4yrj 4yrk 4yrl 4yrm 4yrn 4yro 4yrp 4yrq 4yrr 4yrs 4yrt

(-) Related Entries Specified in the PDB File

4yp0 4ypf 4yre 4yrf 4yrg 4yri 4yrj 4yrk 4yrl 4yrm 4yrn 4yro 4yrp 4yrq 4yrr 4yrs 4yrt