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(-) Description

Title :  CRYSTAL STRUCTURES OF E.COLI ARGINYL-TRNA SYNTHETASE (ARGRS) IN COMPLEX WITH SUBSTRATE TRNA(ARG)
 
Authors :  M. Zhou, S. Ye, P. Stephen, R. Zhang, E. D. Wang, R. Giege, S. X. Lin
Date :  24 May 16  (Deposition) - 31 May 17  (Release) - 31 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  A,B  (1x)
Biol. Unit 3:  C,D  (1x)
Keywords :  Bacterial Aminoacyl-Trna Synthetases, Trna Arginylation, Degenerated Class I Signature Sequences, Trna(Arg) Identity Elements, Conformational Adaptation, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Zhou, S. Ye, P. Stephen, R. Zhang, E. D. Wang, R. Giege, S. X. Lin
Crystal Structures Of E. Coli Arginyl-Trna Synthetase (Argrs In Complex With Substrate Trna(Arg)
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ARGININE--TRNA LIGASE
    Chains: A, C
    EC Number: 6.1.1.19
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ARGS, B1876, JW1865
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: ARGINYL-TRNA SYNTHETASE,ARGRS
 
Molecule 2 - GEOBACILLUS STEAROTHERMOPHILUS 10, COMPLETE GENOME
    Chains: B, D
    Engineered: YES
    Expression System: GEOBACILLUS STEAROTHERMOPHILUS
    Expression System Taxid: 1422
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS 10
    Organism Taxid: 272567

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): ABCD
Biological Unit 2 (1x): AB  
Biological Unit 3 (1x):   CD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5B63)

(-) Sites  (0, 0)

(no "Site" information available for 5B63)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5B63)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu A:202 -Asp A:203

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5B63)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5B63)

(-) Exons   (0, 0)

(no "Exon" information available for 5B63)

(-) 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:563
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh........ee...hhhhh.eee.hhhhhh.....hhhhhhhhhhh.......eeeeeee...eeeeeehhhhhhhhhhhhhh............eeeee..........hhhhhhhhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhhhhh......hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh.........hhhhhhhhhh................................hhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhh.........eeee....ee...............hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh..........ee.hhhhhh.....hhhhhhhhhhhhhhhhhhh..hhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b63 A   1 MNIQALLSEKVRQAMIAAGAPADCEPQVRQSAKVQFGDYQANGMMAVAKKLGMAPRQLAEQVLTHLDLNGIASKVEIAGPGFINIFLDPAFLAEHVQQALASDRLGVATPEKQTIVVDYSAPNVAKEMHVGHLRSTIIGDAAVRTLEFLGHKVIRANHVGDWGTQFGMLIAWLEKQQQENDLEGFYRDAKKHYDEDEEFAERARNYVVKLQSGDEYFREMWRKLVDITMTQNQITYDRLNVTLTRDDVMGESLYNPMLPGIVADLKAKGLAVESEGATVVFLDEFKNKEGEPMGVIILYTTTDIACAKYRYETLHADRVLYYIDSRQHQHLMQAWAIVRKAGYVPESVPLEHHMFGMMLGKDGKPFKTRAGGTVKLADLLDEALERARRLVAEKNPDMPADELEKLANAVGIGAVKYADLSKNRTTDYIFDWDNMLAFEGNTAPYMQYAYTRVLSVFRKAEIDEEQLAAAPVIIREDREAQLAARLLQFEETLTVVAREGTPHVMCAYLYDLAGLFSGFYEHCPILSAENEEVRNSRLKLAQLTAKTLKLGLDTLGIETVERM 577
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180|      197       207       217       227       237       247       257       267       277       287       297      |314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574   
                                                                                                                                                                                                             180|                                                                                                                 304|                                                                                                                                                                                                                                                                         
                                                                                                                                                                                                              188                                                                                                                  312                                                                                                                                                                                                                                                                         


Chain B from PDB  Type:RNA  Length:63
                                                                                               
                 5b63 B 901 GCGCUCGUAGCUCAAUUGGAUAGAGCAUCAGAAGGUUAGGGGUUCGAAUCCUCUCGAGCGCGC 975
                                   910       920       942       952       962       972   
                                                      929|                                 
                                                       942                                 


Chain C from PDB  Type:PROTEIN  Length:553
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh...........eee..hhhhh.eee.hhhhhhhhh..hhhhhhhhhhh.......eeeeeee...eeeeee..hhhhhhhhhhhh............eeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee........hhhhhhhhhh......................hhhhhhhh...........hhhhhhhhhhhhhhhhhh................hhhhhhhhh.....ee......ee.......ee........hhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhh.........eeee....ee...............hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.......ee.hhhhhh.....hhhhhhhhhhhhhhhh.....hhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b63 C   1 MNIQALLSEKVRQAMIAAGAPADCEPQVRQSAKVQFGDYQANGMMAVAKKLGMAPRQLAEQVLTHLDLNGIASKVEIAGPGFINIFLDPAFLAEHVQQALASDRLGVATPEKQTIVVDYSAPNVAKEMHVGHLRSTIIGDAAVRTLEFLGHKVIRANHVGDWGTQFGMLIAWLEKQQQENAGEMELADLEGFAERARNYVVKLQSGDEYFREMWRKLVDITMTQNQITYDRLNVTLTRDDVMGESLYNPMLPGIVADLKAKGLAVESEGATVVFLDEPMGVIIQKKDGGYLYTTTDIACAKYRYETLHADRVLYYIDSRQHQHLMQAWAIVRKAGYVPESVPLEHHMFGMMLGKDGKPFKTRAGGTVKLADLLDEALERARRLVAEKNPDMPADELEKLANAVGIGAVKYADLSKNDYIFDWDNMLAFEGNTAPYMQYAYTRVLSVFRKAEIDEEQLAAAPVIIREDREAQLAARLLQFEETLTVVAREGTPHVMCAYLYDLAGLFSGFYEHCPILSAENEEVRNSRLKLAQLTAKTLKLGLDTLGIETVERM 577
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 ||    214       224       234       244       254       264       274       284      |301       311       321       331       341       351       361       371       381       391       401       411       421       431     ||444       454       464       474       484       494       504       514       524       534       544       554       564       574   
                                                                                                                                                                                                                         192|                                                                                 291|                                                                                                                                       437|                                                                                                                                        
                                                                                                                                                                                                                          207                                                                                  299                                                                                                                                        441                                                                                                                                        


Chain D from PDB  Type:RNA  Length:64
                                                                                                
                 5b63 D 901 GCGCUCGUAGCUCAAUUGGAUAGAGCAUUCAGAAGGUUAGGGGUUCGAAUCCUCUCGAGCGCGC 975
                                   910       920       941       951       961       971    
                                                     928|                                   
                                                      940
   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  (0, 0)

(no "SCOP Domain" information available for 5B63)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5B63)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5B63)

(-) Gene Ontology  (10, 10)

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  Cis Peptide Bonds
    Glu A:202 - Asp A:203   [ RasMol ]  
 
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