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(-) Description

Title :  THE THREE-DIMENSIONAL STRUCTURE AND X-RAY SEQUENCE REVEAL THAT TRICHOMAGLIN IS A NOVEL S-LIKE RIBONUCLEASE
 
Authors :  J. -H. Gan, L. Yu, J. Wu, H. Xu, J. S. Choudhary, W. P. Blackstock, W. -Y. Li X. Xia
Date :  24 Feb 04  (Deposition) - 22 Jun 04  (Release) - 18 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Trichomaglin, S-Like Ribonuclease, X-Ray Sequence, Mass Spectroscopic Analysis, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. H. Gan, L. Yu, J. Wu, H. Xu, J. S. Choudhary, W. P. Blackstock, W. Y. Liu Z. X. Xia
The Three-Dimensional Structure And X-Ray Sequence Reveal That Trichomaglin Is A Novel S-Like Ribonuclease.
Structure V. 12 1015 2004
PubMed-ID: 15274921  |  Reference-DOI: 10.1016/J.STR.2004.03.023

(-) Compounds

Molecule 1 - TRICHOMAGLIN
    Chains: A
    EC Number: 3.1.-.-
    Organ: ROOT TUBER
    Organism Scientific: TRICHOSANTHES LEPINIANA
    Organism Taxid: 282652
    Synonym: S-LIKE RIBONUCLEASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:43 , GLN A:101 , LYS A:104 , HIS A:105 , HOH A:348BINDING SITE FOR RESIDUE SO4 A 251
2AC2SOFTWAREGLN A:13 , HIS A:43 , THR A:81 , TYR A:82 , ARG A:83 , GLU A:87 , HOH A:352BINDING SITE FOR RESIDUE SO4 A 252
3AC3SOFTWAREARG A:46 , LYS A:167 , ARG A:169 , LYS A:178 , SER A:180BINDING SITE FOR RESIDUE SO4 A 253
4AC4SOFTWAREARG A:20 , ARG A:165 , ASP A:171 , GLU A:172 , GLU A:173 , ASP A:191BINDING SITE FOR RESIDUE SO4 A 254

(-) SS Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1A:19 -A:31
2A:25 -A:32
3A:26 -A:84
4A:57 -A:90
5A:58 -A:108
6A:170 -A:198
7A:182 -A:192

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:110 -Pro A:111

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SGL)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1SGL)

(-) Exons   (0, 0)

(no "Exon" information available for 1SGL)

(-) 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:206
 aligned with E0CX00_TRILE | E0CX00 from UniProtKB/TrEMBL  Length:209

    Alignment length:206
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203      
         E0CX00_TRILE     4 EFDYFILALQWAGTSCRSGGACCPYNGCCKADSPTQFTIHGLRPEYSGGERPSCCTGGSFDPDEIMPFFGKLVEYWPTYRCALEQSCNNRKEILWGQQYEKHGTCASPVIKGEWNYFKKTLKLFMKYNVDKALEDAGIVASNSKMYDLKDIVVAVESAVGARPKLRCDEEGLVQKLSLCFDKDFKPRDCVQVGSCPRYVSLPEIPD 209
               SCOP domains d1sgla_ A: Trichomaglin                                                                                                                                                                                        SCOP domains
               CATH domains 1sglA00 A:4-209 Ribonuclease Rh; Chain A                                                                                                                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
     Sec.struct. author (1) ...eeeeeeeehhhhh....................eeeeeeee................hhhhhhhhhhhhhhhh.......eee...eeehhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh........--hhhhhhhhhhhhh...eeee...eeeeeeeeeee...eee.........eee....... Sec.struct. author (1)
     Sec.struct. author (2) -------------------------------------------------------------------------------------------------------------------------------------------------eee---------------------------------------------------------- Sec.struct. author (2)
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sgl A   4 EFDYFILALQWAGTSCRSGGACCPYNGCCKADSPTQFTIHGLRPEYSGGERPSCCTGGSFDPDEIMPFFGKLVEYWPTYRCALEQSCNNRKEILWGQQYEKHGTCASPVIKGEWNYFKKTLKLFMKYNVDKALEDAGIVASNSKMYDLKDIVVAVESAVGARPKLRCDEEGLVQKLSLCFDKDFKPRDCVQVGSCPRYVSLPEIPD 209
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1SGL)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (E0CX00_TRILE | E0CX00)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0033897    ribonuclease T2 activity    Catalysis of the two-stage endonucleolytic cleavage to nucleoside 3'-phosphates and 3'-phosphooligonucleotides with 2',3'-cyclic phosphate intermediates.
biological process
    GO:0090502    RNA phosphodiester bond hydrolysis, endonucleolytic    The chemical reactions and pathways involving the hydrolysis of internal 3',5'-phosphodiester bonds in one or two strands of ribonucleotides.

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