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(-) Description

Title :  N-TERMINAL EDITING DOMAIN OF THREONYL-TRNA SYNTHETASE FROM AEROPYRUM PERNIX WITH L-SER3AA (SNAPSHOT 2)
 
Authors :  S. Ahmad, S. Muthukumar, A. S. K. Yerabham, V. Kamarthapu, R. Sankarana
Date :  06 Nov 14  (Deposition) - 15 Jul 15  (Release) - 15 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.86
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
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 - PROBABLE THREONINE--TRNA LIGASE 2
    Chains: A
    EC Number: 6.1.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-136
    Gene: THRS2, APE_0117.1
    Organism Scientific: AEROPYRUM PERNIX K1
    Organism Taxid: 272557
    Strain: ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1
    Synonym: THREONYL-TRNA SYNTHETASE 2, THRRS 2

 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
1A3S1Ligand/IonSERINE-3'-AMINOADENOSINE
2MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1A3S2Ligand/IonSERINE-3'-AMINOADENOSINE
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:19 , THR A:40 , VAL A:42 , PRO A:74 , TYR A:75 , ALA A:76 , HIS A:77 , LEU A:82 , ALA A:83 , ALA A:88 , PHE A:112 , GLY A:113 , TRP A:114 , LYS A:116 , GLU A:129 , HOH A:308 , HOH A:331 , HOH A:341 , HOH A:397 , HOH A:421 , HOH A:453BINDING SITE FOR RESIDUE A3S A 201
2AC2SOFTWAREHOH A:381 , HOH A:396 , HOH A:409 , HOH A:414 , HOH A:435BINDING SITE FOR RESIDUE MG A 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4RR7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4RR7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4RR7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4RR7)

(-) Exons   (0, 0)

(no "Exon" information available for 4RR7)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeeeee..........eeee..eeeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhhhhh....eeee....eeeeeeeee......eeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rr7 A   1 MRLLYLHADRFEYKTVKPALKNPPDPPGEASFGEALVVFTTVEDGDGPQTVMYAASDIASHSSRLKVTTVILYPYAHLSSRLAKPMAAHKRLIELEGALRTKFPGHVHRAPFGWYKSFSIACKGHPLAELSRSFTE 136
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
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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 4RR7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4RR7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4RR7)

(-) Gene Ontology  (8, 8)

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  SYT2_AERPE | Q9YFY3
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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
        SYT2_AERPE | Q9YFY3: 4rr6 4rr8 4rr9 4rra 4rrb 4rrc 4rrd 4rrh 4rri 4rrj 4rrk 4rrl 4rrm

(-) Related Entries Specified in the PDB File

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