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(-) Description

Title :  CRYSTAL STRUCTURE OF RNASE SA3, CYTOTOXIC MICROBIAL RIBONUCLEASE
 
Authors :  J. Sevcik, L. Urbanikova, P. A. Leland, R. T. Raines
Date :  16 Aug 02  (Deposition) - 04 Feb 03  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha/Beta Protein, Ub Rolls, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Sevcik, L. Urbanikova, P. A. Leland, R. T. Raines
Links X-Ray Structure Of Two Crystalline Forms Of A Streptomycete Ribonuclease With Cytotoxic Activity
J. Biol. Chem. V. 277 47325 2002
PubMed-ID: 12228255  |  Reference-DOI: 10.1074/JBC.M208425200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GUANYL-SPECIFIC RIBONUCLEASE SA3
    Chains: A
    EC Number: 3.1.27.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: STREPTOMYCES AUREOFACIENS
    Organism Taxid: 1894
    Strain: CCM3239
    Synonym: RNASE SA3

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1LI1Ligand/IonLITHIUM ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:82 , HOH A:906 , HOH A:909 , HOH A:920 , HOH A:945BINDING SITE FOR RESIDUE LI A 901

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:10 -A:99

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:29 -Pro A:30

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1MGW)

(-) 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:99
 aligned with RNS3_STRAU | P30289 from UniProtKB/Swiss-Prot  Length:141

    Alignment length:99
                                    52        62        72        82        92       102       112       122       132         
           RNS3_STRAU    43 ASVKAVGRVCYSALPSQAHDTLDLIDEGGPFPYSQDGVVFQNREGLLPAHSTGYYHEYTVITPGSPTRGARRIITGQQWQEDYYTADHYASFRRVDFAC 141
               SCOP domains d1mgwa_ A: Cytotoxic RNase Sa3                                                                      SCOP domains
               CATH domains 1mgwA00 A:1-99  [code=3.10.450.30, no name defined]                                                 CATH domains
               Pfam domains -------------Ribonuclease-1mgwA01 A:14-95                                                      ---- Pfam domains
         Sec.struct. author .......eee.hhhhhhhhhhhhhhhhh...........................eeee............eeee......eeee.......eeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                 1mgw A   1 ASVKAVGRVCYSALPSQAHDTLDLIDEGGPFPYSQDGVVFQNREGLLPAHSTGYYHEYTVITPGSPTRGARRIITGQQWQEDYYTADHYASFRRVDFAC  99
                                    10        20        30        40        50        60        70        80        90
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Ribonuclease] (57)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RNS3_STRAU | P30289)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0004519    endonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
    GO:0004521    endoribonuclease activity    Catalysis of the hydrolysis of ester linkages within ribonucleic acid by creating internal breaks.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
    GO:0046589    ribonuclease T1 activity    Catalysis of the endonucleolytic cleavage to nucleoside 3'-phosphates and 3'-phosphooligonucleotides ending in Gp with 2',3'-cyclic phosphate intermediates.
    GO:0004540    ribonuclease activity    Catalysis of the hydrolysis of phosphodiester bonds in chains of RNA.
biological process
    GO:0090501    RNA phosphodiester bond hydrolysis    The RNA metabolic process in which the phosphodiester bonds between ribonucleotides are cleaved by hydrolysis.
    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.
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        RNS3_STRAU | P30289: 1mgr

(-) Related Entries Specified in the PDB File

1mgr RNASE SA3 PRODUCED BY STREPTOMYCES AUREOFACIENS
1rgg RNASE SA PRODUCED BY STREPTOMYCES AUREOFACIENS