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(-) Description

Title :  CRYSTAL STRUCTURE OF ARGINYL-TRNA SYNTHETASE
 
Authors :  H. S. Kim, C. H. Jo, S. Y. Cha, A. R. Han, K. Y. Hwang
Date :  10 Apr 14  (Deposition) - 23 Jul 14  (Release) - 23 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  High Region, Arginine-Trna Ligase, Atp Binding, Trna Binding, Arginine Binding, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. S. Kim, S. Y. Cha, C. H. Jo, A. R. Han, K. Y. Hwang
The Crystal Structure Of Arginyl-Trna Synthetase From Homo Sapiens
Febs Lett. V. 588 2328 2014
PubMed-ID: 24859084  |  Reference-DOI: 10.1016/J.FEBSLET.2014.05.027

(-) Compounds

Molecule 1 - ARGININE--TRNA LIGASE, CYTOPLASMIC
    Chains: A, B
    EC Number: 6.1.1.19
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: ROSETTA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RARS
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ARGINYL-TRNA SYNTHETASE, ARGRS

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4Q2Y)

(-) Sites  (0, 0)

(no "Site" information available for 4Q2Y)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Q2Y)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Ser A:50 -Gln A:51
2Ser A:191 -Pro A:192
3Glu A:407 -Lys A:408
4Asp A:541 -Ser A:542
5Pro B:26 -Pro B:27
6Glu B:407 -Lys B:408

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Q2Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Q2Y)

(-) Exons   (0, 0)

(no "Exon" information available for 4Q2Y)

(-) 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:565
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhh...........eee.....eee.........................eee..hhhhhhhhhhhhhhhh..........eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh....ee.hhhhhhhhhhhhhhhhhhh..eeee..eeee........eeee......hhhhhhhhhhhhhhh.....eeee..hhhhhhhhhhhhhhhhhh........eeee.....ee...............hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh......ee.hhhhhhh....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.....ee...eee.hhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q2y A -10 GLVPRMASMINIISRLQEVFGHAYPDLENPPLLVTPSQFGDYQCNSAMGISQMITKHLPDNECIAGPGFINVHLRKDFVSEQLTSLLVNGVQLPALGENKKVIVDFSSPNIAKEMHVGHLRSTIIGESISRLFEFAGYDVLRLNHVGDWGTQFGMLIAHLQDKFPDYLTVSPPIGDLQVFYKESKKRFDTEEEFKKRAYQCVVLLQGKNPDITKAWKLICDVSRQELNKIYDALDVSLIERGESFYQDRMNDIVKEFEDRGFVQVDDGRKIVFVPGCSIPLTIVKSDGGYTYDTSDLAAIKQRLFEEKADMIIYVVDNGQSVHFQTIFAAAQMIGWYDPKVTRVFHAGFGVVLGEDKKKFKTRSGETVRLMDLLGEGLKRSMDKLKEKERDKVLTAEELNAAQTSVAYGCIKYADLSRNRLNDYIFSFDKMLDDRGNTAAYLLYAFTRIRSIARLANIDEEMLQKAARETKILLDHEKEWKLGRCILRFPEILQKILDDLFLHTLCDYIYELATAFTEFYDSCYCVEKDRKILKVNMWRMLLCEAVAAVMAKGFDILGIKPVQRM 588
                                ||   2        12  ||    26       |39        49  ||    75   ||   90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550|      563       573       583     
                               -6|               15|            34|            52|        79|                                                                                                                                                                                                                                                                                                                                                                                                                                                                              550|                                  
                                -2                20             38             69         85                                                                                                                                                                                                                                                                                                                                                                                                                                                                               554                                  


Chain B from PDB  Type:PROTEIN  Length:577
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh........eee..hhhhh.eeehhhhhh.......hhhhhhhh.....eeee......eeeeehhhhhhhhhhhhhhhh..........eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh....ee.hhhhhhhhhhhhhhhhhhh..eeee..eeee........eeee......hhhhhhhhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhhh........eeee.....ee...............hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh......ee.hhhhhhh....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh....eee......eeeehhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q2y B  -1 ASMINIISRLQEVFGHAIKAAYPNPPLLVTPSQQAKFGDYQCNSAMGISQMLREIAENITKHLPDNECIEKVEIAGPFINVHLRKDFVSEQLTSLLVNGVQLPALGENKKVIVDFSSPNIAKEMHVGHLRSTIIGESISRLFEFAGYDVLRLNHVGDWGTQFGMLIAHLQDKFPDYLTVSPPIGDLQVFYKESKKRFDTEEEFKKRAYQCVVLLQGKNPDITKAWKLICDVSRQELNKIYDALDVSLIERGESFYQDRMNDIVKEFEDRGFVQVDDGRKIVFVPGCSIPLTIVKSDGGYTYDTSDLAAIKQRLFEEKADMIIYVVDNGQSVHFQTIFAAAQMIGWYDPKVTRVFHAGFGVVLGEDKKKFKTRSGETVRLMDLLGEGLKRSMDKLKEKERDKVLTAEELNAAQTSVAYGCIKYADLSRNRLNDYIFSFDKMLDDRGNTAAYLLYAFTRIRSIARLANIDEEMLQKAARETKILLDHEKEWKLGRCILRFPEILQKILDDLFLHTLCDYIYELATAFTEFYDSCYCVEKDRQTGKILKVNMWRMLLCEAVAAVMAKGFDILGIKPVQRM 588
                                     8        18  ||    31        41        51 ||     70        80      ||91       101       111       121       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       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       
                                                 21|                          53|                      87|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
                                                  25                           63                       89
   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 4Q2Y)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Q2Y)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Q2Y)

(-) Gene Ontology  (18, 18)

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  Cis Peptide Bonds
    Asp A:541 - Ser A:542   [ RasMol ]  
    Glu A:407 - Lys A:408   [ RasMol ]  
    Glu B:407 - Lys B:408   [ RasMol ]  
    Pro B:26 - Pro B:27   [ RasMol ]  
    Ser A:191 - Pro A:192   [ RasMol ]  
    Ser A:50 - Gln A:51   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        SYRC_HUMAN | P54136: 4q2t 4q2x 4r3z 4zaj

(-) Related Entries Specified in the PDB File

4q2t 4q2x