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(-) Description

Title :  COOPERATIVE STABILIZATION OF ESCHERICHIA COLI RIBONUCLEASE HI BY INSERTION OF GLY-80B AND GLY-77-> ALA SUBSTITUTION
 
Authors :  K. Ishikawa, S. Kimura, H. Nakamura, K. Morikawa, S. Kanaya
Date :  10 May 93  (Deposition) - 31 Jan 94  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase(Endoribonuclease) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Ishikawa, H. Nakamura, K. Morikawa, S. Kimura, S. Kanaya
Cooperative Stabilization Of Escherichia Coli Ribonuclease Hi By Insertion Of Gly-80B And Gly-77-->Ala Substitution.
Biochemistry V. 32 7136 1993
PubMed-ID: 8393706  |  Reference-DOI: 10.1021/BI00079A010
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RIBONUCLEASE H
    Chains: A
    EC Number: 3.1.26.4
    Engineered: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1GOC)

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1MGUNKNOWNASP A:10 , GLU A:48 , ASP A:70NULL

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asn A:16 -Pro A:17

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RNASE_HPS50879 RNase H domain profile.RNH_ECOLI1-142  1A:1-142

(-) Exons   (0, 0)

(no "Exon" information available for 1GOC)

(-) 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:156
 aligned with RNH_ECOLI | P0A7Y4 from UniProtKB/Swiss-Prot  Length:155

    Alignment length:156
                                                                                                            81                                                                          
                                                                                                          80 |                                                                          
                                    10        20        30        40        50        60        70        80 |      89        99       109       119       129       139       149      
            RNH_ECOLI     1 MLKQVEIFTDGSCLGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHCEVILSTDSQYVRQGITQ-WIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLEDTGYQVEV 155
               SCOP domains d1goca_ A: RNase H (RNase HI)                                                                                                                                SCOP domains
               CATH domains 1gocA00 A:1-155  [code=3.30.420.10, no name defined]                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeeeee....eeeeeeeeee..eeeeeeeee...hhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhheeeeeee.....hhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE RNASE_H  PDB: A:1-142 UniProt: 1-142                                                                                                           ------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1goc A   1 MLKQVEIFTDGSCLGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHCEVILSTDSQYVRQAITQGWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLEDTGYQVEV 155
                                    10        20        30        40        50        60        70        80|       89        99       109       119       129       139       149      
                                                                                                          80B
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RNH_ECOLI | P0A7Y4)
molecular function
    GO:0004523    RNA-DNA hybrid ribonuclease activity    Catalysis of the endonucleolytic cleavage of RNA in RNA-DNA hybrids to 5'-phosphomonoesters.
    GO:0004519    endonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids 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:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0043137    DNA replication, removal of RNA primer    Removal of the Okazaki RNA primer from the lagging strand of replicating DNA, by a combination of the actions of DNA polymerase, DNA helicase and an endonuclease.
    GO:0006401    RNA catabolic process    The chemical reactions and pathways resulting in the breakdown of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.
    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:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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    Asn A:16 - Pro A:17   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        RNH_ECOLI | P0A7Y4: 1f21 1g15 1goa 1gob 1jl1 1jl2 1jxb 1kva 1kvb 1kvc 1lav 1law 1rbr 1rbs 1rbt 1rbu 1rbv 1rch 1rda 1rdb 1rdc 1rdd 1rnh 1wse 1wsf 1wsg 1wsh 1wsi 1wsj 2rn2 2yv0 2z1g 2z1h 2z1i 2z1j 3aa2 3aa3 3aa4 3aa5 3hyf 3qin 3qio 4z0u

(-) Related Entries Specified in the PDB File

2rn2 WILD TYPE PROTEIN