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(-) Description

Title :  OLIGORIBONUCLEASE
 
Authors :  N. Bonander, M. Tordova, J. E. Ladner, E. Eisenstein, G. L. Gilliland, S 2 Function Project (S2F)
Date :  24 May 01  (Deposition) - 24 Jun 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ribonuclease, Exoribonuclease, Oligoribonuclease, Haemophilus Influenzae, Structure 2 Function Project, S2F, Structural Genomics, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Bonander, M. Tordova, J. E. Ladner, E. Eisenstein, G. L. Gilliland
The Crystal Structure Of Haemophilus Influenzae Hi1715, An Oligoribonuclease
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - OLIGORIBONUCLEASE
    Chains: A
    EC Number: 3.1.-.-
    Organism Scientific: HAEMOPHILUS INFLUENZAE
    Organism Taxid: 727
    Other Details: GENE HI1715
    Synonym: EXORIBONUCLEASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
1MSE5Mod. Amino AcidSELENOMETHIONINE
2SO42Ligand/IonSULFATE ION
Biological Unit 1 (2, 14)
No.NameCountTypeFull Name
1MSE10Mod. Amino AcidSELENOMETHIONINE
2SO44Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:110 , SER A:111 , TYR A:132 , ARG A:133 , SER A:138 , HOH A:1110 , HOH A:1134BINDING SITE FOR RESIDUE SO4 A 190
2AC2SOFTWAREVAL A:48 , ALA A:50 , ARG A:77BINDING SITE FOR RESIDUE SO4 A 200

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1J9A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1J9A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1J9A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1J9A)

(-) Exons   (0, 0)

(no "Exon" information available for 1J9A)

(-) 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    
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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:184
 aligned with ORN_HAEIN | P45340 from UniProtKB/Swiss-Prot  Length:182

    Alignment length:184
                              1                                                                                                                                                                                      
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178    
            ORN_HAEIN     - --MSFDKQNLIWIDLEMTGLDPEKERIIEIATIVTDKNLNILAEGPVLAVHQSDELLNKMNDWCQKTHSENGLIERIKASKLTERAAELQTLDFLKKWVPKGASPICGNSIAQDKRFLVKYMPDLADYFHYRHLDVSTLKELAARWKPEILEGFKKENTHLALDDIRESIKELAYYREHFMKLD 182
               SCOP domains d1j9aa_ A: Oligoribonuclease                                                                                                                                                             SCOP domains
               CATH domains 1j9aA00 A:2-185  [code=3.30.420.10, no name defined]                                                                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeee.........eeeeeeeee.....eeee........hhhhhhh.hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhh.........eee.hhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1j9a A   2 SHmSFDKQNLIWIDLEmTGLDPEKERIIEIATIVTDKNLNILAEGPVLAVHQSDELLNKmNDWCQKTHSENGLIERIKASKLTERAAELQTLDFLKKWVPKGASPICGNSIAQDKRFLVKYmPDLADYFHYRHLDVSTLKELAARWKPEILEGFKKENTHLALDDIRESIKELAYYREHFmKLD 185
                              |     11      | 21        31        41        51        61        71        81        91       101       111       121 |     131       141       151       161       171       181|   
                              |            18-MSE                                     61-MSE                                                       123-MSE                                                    182-MSE
                              4-MSE
   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 Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1J9A)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A   (ORN_HAEIN | P45340)
molecular function
    GO:0000175    3'-5'-exoribonuclease activity    Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule.
    GO:0004527    exonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end.
    GO:0016896    exoribonuclease activity, producing 5'-phosphomonoesters    Catalysis of the hydrolysis of ester linkages within ribonucleic acids by removing nucleotide residues from the 3' or 5' end to yield 5' phosphomonoesters.
    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:0016788    hydrolase activity, acting on ester bonds    Catalysis of the hydrolysis of any ester bond.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
biological process
    GO:0090503    RNA phosphodiester bond hydrolysis, exonucleolytic    The chemical reactions and pathways involving the hydrolysis of terminal 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:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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