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(-) Description

Title :  K121M MUTANT OF N-TERMINAL EDITING DOMAIN OF THREONYL-TRNA SYNTHETASE FROM PYROCOCCUS ABYSSI WITH L-THR3AA
 
Authors :  T. Hussain, V. Kamarthapu, R. Sankaranarayanan
Date :  06 Nov 14  (Deposition) - 15 Jul 15  (Release) - 15 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.86
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dtd-Like Fold, Proofreading, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Ahmad, S. Muthukumar, S. K. Kuncha, S. B. Routh, A. S. Yerabham, T. Hussain, V. Kamarthapu, S. P. Kruparani, R. Sankaranarayanan
Specificity And Catalysis Hardwired At The Rna-Protein Interface In A Translational Proofreading Enzyme.
Nat Commun V. 6 7552 2015
PubMed-ID: 26113036  |  Reference-DOI: 10.1038/NCOMMS8552

(-) Compounds

Molecule 1 - THREONINE--TRNA LIGASE
    Chains: A, B
    EC Number: 6.1.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-147
    Gene: THRS, PYRAB13430, PAB1490
    Mutation: YES
    Organism Scientific: PYROCOCCUS ABYSSI GE5
    Organism Taxid: 272844
    Strain: GE5 / ORSAY
    Synonym: THREONYL-TRNA SYNTHETASE, THRRS

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1A3T2Ligand/Ion3'-DEOXY-3'-(L-THREONYLAMINO)ADENOSINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:19 , ILE A:43 , VAL A:45 , PRO A:80 , PHE A:81 , ALA A:82 , ALA A:89 , ALA A:94 , PHE A:117 , GLY A:118 , TYR A:119 , TYR A:120 , MET A:121 , HOH A:5003 , HOH A:5010 , HOH A:5016 , HOH A:5020 , HOH A:5026 , HOH A:5029 , HOH A:5052 , GLU B:134BINDING SITE FOR RESIDUE A3T A 201
2AC2SOFTWAREGLU A:134 , HOH A:5001 , HOH A:5011 , ALA B:19 , LEU B:20 , ILE B:43 , VAL B:45 , PRO B:80 , PHE B:81 , ALA B:82 , ALA B:94 , PHE B:117 , GLY B:118 , TYR B:119 , TYR B:120 , MET B:121 , HOH B:301 , HOH B:312 , HOH B:314 , HOH B:319BINDING SITE FOR RESIDUE A3T B 201

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4RRR)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4RRR)

(-) 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:143
                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeeeee........hhhh.eeeeeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee.hhhh....hhhhhhhhhhhhhhhhhhh..eeee....eeeeeeeee......eeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rrr A   1 MRVLLIHSDYIEYEVKDKALKNPEPISEDMKRGRMEEVLVAFISVEKVDEKNPEEVSLKAIEEISKVAEQVKAENVFVYPFAHLSSELAKPSVAMDILNRVYQGLKERGFNVGKAPFGYYMAFKISCKGHPLAELSRTIVPEE 143
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140   


Chain B from PDB  Type:PROTEIN  Length:142
                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeeeee........hhhh.eeeeeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee.hhhh....hhhhhhhhhhhhhhhhhhh..eeee....eeeeeeeee......eeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rrr B   1 MRVLLIHSDYIEYEVKDKALKNPEPISEDMKRGRMEEVLVAFISVEKVDEKNPEEVSLKAIEEISKVAEQVKAENVFVYPFAHLSSELAKPSVAMDILNRVYQGLKERGFNVGKAPFGYYMAFKISCKGHPLAELSRTIVPE 142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 4RRR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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  6.1.1.3
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 Related Entries

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

UniProtKB/Swiss-Prot
        SYT_PYRAB | Q9UZ14: 1y2q 2hkz 2hl0 2hl1 2hl2 3pd2 3pd3 3pd4 3pd5 4rrq 4s02 4s03 4s0i 4s0j 4s0k 4s0l

(-) Related Entries Specified in the PDB File

4rr6 4rr7 4rr8 4rr9 4rra 4rrb 4rrc 4rrd 4rrf 4rrg 4rrh 4rri 4rrj 4rrk 4rrl 4rrm 4rrq