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(-) Description

Title :  CRYSTAL STRUCTURE OF A GLUTAMYL-TRNA SYNTHETASE GLURS FROM BURKHOLDERIA THAILANDENSIS BOUND TO L-GLUTAMATE
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  19 Jul 12  (Deposition) - 01 Aug 12  (Release) - 29 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A
Keywords :  Aminoacyl-Trna Synthetase, Aars, Class 1B Aars, Atp-Dependent, Trna Charging, Protein Synthesis, Ligase, Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Ssgcid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. O. Moen, T. E. Edwards, D. M. Dranow, M. C. Clifton, B. Sankaran, W. C. Van Voorhis, A. Sharma, C. Manoil, B. L. Staker, P. J. Myler, D. D. Lorimer
Ligand Co-Crystallization Of Aminoacyl-Trna Synthetases Fro Infectious Disease Organisms.
Sci Rep V. 7 223 2017
PubMed-ID: 28303005  |  Reference-DOI: 10.1038/S41598-017-00367-6

(-) Compounds

Molecule 1 - GLUTAMATE-TRNA LIGASE
    Chains: A
    EC Number: 6.1.1.17
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAVA01421
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BTH_I1984, GLTX
    Organism Scientific: BURKHOLDERIA THAILANDENSIS
    Organism Taxid: 271848
    Strain: E264 / ATCC 700388 / DSM 13276 / CIP 106301
    Synonym: GLUTAMYL-TRNA SYNTHETASE, GLURS

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (5, 5)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GLU1Mod. Amino AcidGLUTAMIC ACID
3MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4NA1Ligand/IonSODIUM ION
5OCS1Mod. Amino AcidCYSTEINESULFONIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:8 , ALA A:10 , PRO A:11 , SER A:12 , GLU A:44 , TYR A:187 , ARG A:205 , HIS A:209 , HOH A:616 , HOH A:634 , HOH A:708BINDING SITE FOR RESIDUE GLU A 501
2AC2SOFTWAREARG A:83 , LEU A:223 , GLU A:281 , HOH A:743BINDING SITE FOR RESIDUE MPD A 502
3AC3SOFTWAREILE A:343 , GLU A:344 , GLY A:346 , PRO A:347 , HOH A:787 , HOH A:788BINDING SITE FOR RESIDUE NA A 503
4AC4SOFTWARELYS A:243 , HOH A:798BINDING SITE FOR RESIDUE CL A 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4G6Z)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:73 -Pro A:74

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4G6Z)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4G6Z)

(-) Exons   (0, 0)

(no "Exon" information available for 4G6Z)

(-) 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:381
                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4g6za1 A:3-304 automated matches                                                                                                                                                                                                                                                          d4g6za2 A:305-466 automated matches                                                              - SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee........hhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhhhhhh.....eeeee...hhhhhhhhhhhhhhh..eeee.........................eeee......eeeeee...eeeeee.hhh...eee......hhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh.....eeeee..ee..............hhhhhhhh..hhhhhhhhhhh...........hhhhhhhhhhhhhh....ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.hhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g6z A   3 RPVRTRFAPSPTGFIHLGNIRSALYPWAFARKMKGTFVLRIEDTDVERSSQEAVDAILEGMAWLGLDYDEGPYYQMQRMDRYREVLAQMQEKGLVYPcYMRYDGTWRPEPGKVLPEPPAGVAPVLRFRNPLTGTVAWDDAVKGRVEISNEELDDLVVARPDGTPMYNFCVVVDDLDMGITHVIRGDDHVNNTPRQINILRALGGEVPVYAHLPTVLNEQGEKMSKRHGAMSVMGYRDAGYLPEAVLNYLARLGWSHGDAEIFTREQFVEWFDLEHLGKSPAQYDHNKLNWLNNHYIKEADDARLAGLAKPFFAALGIDAGAIEQGPDLVSVMGLMKDRASTVKEIAENSAMFYRAPAHTPSIDAVLLLFGRDVVVSRIEAE 501
                                    12        22        32        42        52        62        72        82        92       102|      131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371      |446       456       466|
                                                                                                                           100-OCS                                                                                                                                                                                                                                                            378|                   466|
                                                                                                                             102|                                                                                                                                                                                                                                                              444                    501
                                                                                                                              122
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4G6Z)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4G6Z)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:73 - Pro A:74   [ RasMol ]  
 

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