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(-) Description

Title :  CRYSTAL STRUCTURE OF RTCA, THE RNA 3'-TERMINAL PHOSPHATE CYCLASE FROM PYROCOCCUS HORIKOSHII.
 
Authors :  K. K. Desai, C. A. Bingman, G. N. Phillips Jr, R. T. Raines
Date :  26 Dec 13  (Deposition) - 10 Sep 14  (Release) - 01 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Rna 3'-Cyclase, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. K. Desai, C. A. Bingman, C. L. Cheng, G. N. Phillips, R. T. Raines
Structure Of Rna 3'-Phosphate Cyclase Bound To Substrate Rna.
Rna V. 20 1560 2014
PubMed-ID: 25161314  |  Reference-DOI: 10.1261/RNA.045823.114

(-) Compounds

Molecule 1 - RNA 3'-TERMINAL PHOSPHATE CYCLASE
    Chains: A, B
    EC Number: 6.5.1.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Gene: PH1529, PHCV028, RTCA
    Organism Scientific: PYROCOCCUS HORIKOSHII
    Organism Taxid: 70601
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3
    Synonym: RNA CYCLASE, RNA-3'-PHOSPHATE CYCLASE

 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  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1CIT2Ligand/IonCITRIC ACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:13 , GLN A:14 , ARG A:17 , ARG A:36 , ARG A:39 , HIS A:48 , TRP A:125 , HOH A:504 , HOH A:787 , PRO B:198 , HIS B:200BINDING SITE FOR RESIDUE CIT A 401
2AC2SOFTWAREGLY B:12 , GLY B:13 , ARG B:17 , ARG B:36 , ARG B:39 , GLN B:47 , HIS B:48 , HOH B:691 , HOH B:730BINDING SITE FOR RESIDUE CIT B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4O89)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Tyr A:157 -Pro A:158
2Tyr B:157 -Pro B:158

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O89)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O89)

(-) Exons   (0, 0)

(no "Exon" information available for 4O89)

(-) 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:341
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhh.eee........eeee........eeee.....hhhhhhhhhhhhhh.....eeeeeee........hhhhhhhhhhhhhhh....eeeeeee........eeeeeee........eee.....eeeeeeeeeee..hhhhhhhhhhhhhhhhhhhh..eeeeeeee.....eeeeeeeeee...eeeeeee.....hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhheeeee...hhhhhhhhhhhhhhhh..eeee......eeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o89 A   1 MITIDGSYGEGGGQILRTSVALSTITGEPVRIVNIRANRPNPGLRPQHLHAILALKHLANAEVKGAHVGSRELVFIPKKLEAKEISIDIGTAGSITLVLQALLPAMVFAREKVKFRITGGTDVSWSPPVDYLSNVTLFALEKIGIHGEIRVIRRGHYPKGGGIVEGYVEPWNEKRELVAKEYSRIIKIEGISHATNLPSHVAERQARAAKDELLQLKVPIEIRTEISRSIGPGSGIVVWAETDCLRLGGDALGKKGKPAEIVGKEAAQELLDQLKPGHCVDKFLGDQLIPFLAFSGGVIWVSEITNHLKTNIWVVESFLGRIFDVDGNVGEPGKIRVIRRV 341
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Chain B from PDB  Type:PROTEIN  Length:341
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhh.eee........eeee.......eeeee.....hhhhhhhhhhhhhh.....eeeeeee........hhhhhhhhhhhhhhhh...eeeeeee........eeeeeee........eee.....eeeeeeeeeee..hhhhhhhhhhhhhhhhhhhh..eeeeeeee.....eeeeeeeeee...eeeeeee.....hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhheeeee...hhhhhhhhhhhhhhhh..eeee......eeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o89 B   1 MITIDGSYGEGGGQILRTSVALSTITGEPVRIVNIRANRPNPGLRPQHLHAILALKHLANAEVKGAHVGSRELVFIPKKLEAKEISIDIGTAGSITLVLQALLPAMVFAREKVKFRITGGTDVSWSPPVDYLSNVTLFALEKIGIHGEIRVIRRGHYPKGGGIVEGYVEPWNEKRELVAKEYSRIIKIEGISHATNLPSHVAERQARAAKDELLQLKVPIEIRTEISRSIGPGSGIVVWAETDCLRLGGDALGKKGKPAEIVGKEAAQELLDQLKPGHCVDKFLGDQLIPFLAFSGGVIWVSEITNHLKTNIWVVESFLGRIFDVDGNVGEPGKIRVIRRV 341
                                    10        20        30        40        50        60        70        80        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
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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 4O89)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4O89)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O89)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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  4o89
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  RTCA_PYRHO | O59198
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  6.5.1.4
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 Related Entries

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

UniProtKB/Swiss-Prot
        RTCA_PYRHO | O59198: 4o8j

(-) Related Entries Specified in the PDB File

4o8j