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(-) Description

Title :  CRYSTAL STRUCTURE OF OLIGORIBONUCLEASE, THE LONE ESSENTIAL EXORIBONUCLEASE IN ESCHERICHIA COLI
 
Authors :  T. J. Fiedler, Y. Zuo, A. Malhotra
Date :  10 Feb 05  (Deposition) - 14 Feb 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Rnase; Exoribonuclease; Ribonuclease; Exonuclease; Nuclease; Hydrolase; Mrna Decay, Hydrolase, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. J. Fiedler, Y. Zuo, A. Malhotra
Crystal Structure Of Oligoribonuclease, The Lone Essential Exoribonuclease In Escherichia Coli
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - OLIGORIBONUCLEASE
    Chains: A, B, C, D
    EC Number: 3.1.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PUC19
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: ORN
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 25)

Asymmetric Unit (2, 25)
No.NameCountTypeFull Name
1FLC5Ligand/IonCITRATE ANION
2MSE20Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 13)
No.NameCountTypeFull Name
1FLC3Ligand/IonCITRATE ANION
2MSE10Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 12)
No.NameCountTypeFull Name
1FLC2Ligand/IonCITRATE ANION
2MSE10Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:106 , SER A:107 , SER A:134 , LYS A:137 , LYS A:153 , HOH A:1045 , HOH A:1055 , TYR B:128 , ARG B:129 , ARG D:63BINDING SITE FOR RESIDUE FLC A 1001
2AC2SOFTWARETYR A:128 , ARG A:129 , ASN B:106 , SER B:107 , SER B:134 , LYS B:137 , LYS B:153 , ARG C:63BINDING SITE FOR RESIDUE FLC B 1002
3AC3SOFTWAREALA B:67 , ASN C:106 , SER C:107 , SER C:134 , LYS C:137 , LYS C:153 , HOH C:1037 , HOH C:1054 , TYR D:128 , ARG D:129BINDING SITE FOR RESIDUE FLC C 1003
4AC4SOFTWAREARG A:63 , ALA A:67 , TYR C:128 , ARG C:129 , ASN D:106 , SER D:107 , SER D:134 , LYS D:137 , LYS D:153BINDING SITE FOR RESIDUE FLC D 1004
5AC5SOFTWAREGLU A:20 , LYS A:117BINDING SITE FOR RESIDUE FLC A 1005

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1YTA)

(-) 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:180
 aligned with ORN_ECOL6 | P0A785 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOL6     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytaa1 A:1-180 Oligoribonuclease                                                                                                                                                    SCOP domains
               CATH domains 1ytaA00 A:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhh..hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........eee.hhhhhhhhhhhhhhhhhhhh...eeehhhhhhhhhhhh.hhhhhh......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta A   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE                


Chain A from PDB  Type:PROTEIN  Length:180
 aligned with ORN_ECOLI | P0A784 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOLI     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytaa1 A:1-180 Oligoribonuclease                                                                                                                                                    SCOP domains
               CATH domains 1ytaA00 A:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhh..hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........eee.hhhhhhhhhhhhhhhhhhhh...eeehhhhhhhhhhhh.hhhhhh......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta A   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE                


Chain B from PDB  Type:PROTEIN  Length:180
 aligned with ORN_ECOL6 | P0A785 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOL6     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytab_ B: Oligoribonuclease                                                                                                                                                         SCOP domains
               CATH domains 1ytaB00 B:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........eee.hhhhhhhhhhhhhhhhhhhh...eeehhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta B   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE                


Chain B from PDB  Type:PROTEIN  Length:180
 aligned with ORN_ECOLI | P0A784 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOLI     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytab_ B: Oligoribonuclease                                                                                                                                                         SCOP domains
               CATH domains 1ytaB00 B:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........eee.hhhhhhhhhhhhhhhhhhhh...eeehhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta B   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE                


Chain C from PDB  Type:PROTEIN  Length:180
 aligned with ORN_ECOL6 | P0A785 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOL6     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytac_ C: Oligoribonuclease                                                                                                                                                         SCOP domains
               CATH domains 1ytaC00 C:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh........eee.hhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta C   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE                


Chain C from PDB  Type:PROTEIN  Length:180
 aligned with ORN_ECOLI | P0A784 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOLI     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytac_ C: Oligoribonuclease                                                                                                                                                         SCOP domains
               CATH domains 1ytaC00 C:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh........eee.hhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta C   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE                


Chain D from PDB  Type:PROTEIN  Length:180
 aligned with ORN_ECOL6 | P0A785 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOL6     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytad_ D: Oligoribonuclease                                                                                                                                                         SCOP domains
               CATH domains 1ytaD00 D:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
           Pfam domains (1) -------RNase_T-1ytaD01 D:8-170                                                                                                                                            ---------- Pfam domains (1)
           Pfam domains (2) -------RNase_T-1ytaD02 D:8-170                                                                                                                                            ---------- Pfam domains (2)
           Pfam domains (3) -------RNase_T-1ytaD03 D:8-170                                                                                                                                            ---------- Pfam domains (3)
           Pfam domains (4) -------RNase_T-1ytaD04 D:8-170                                                                                                                                            ---------- Pfam domains (4)
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhh..hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........eee.hhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta D   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE                


Chain D from PDB  Type:PROTEIN  Length:180
 aligned with ORN_ECOLI | P0A784 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:180
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
            ORN_ECOLI     2 SANENNLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAMDDIRESVAELAYYREHFIKL 181
               SCOP domains d1ytad_ D: Oligoribonuclease                                                                                                                                                         SCOP domains
               CATH domains 1ytaD00 D:1-180  [code=3.30.420.10, no name defined]                                                                                                                                 CATH domains
           Pfam domains (1) -------RNase_T-1ytaD01 D:8-170                                                                                                                                            ---------- Pfam domains (1)
           Pfam domains (2) -------RNase_T-1ytaD02 D:8-170                                                                                                                                            ---------- Pfam domains (2)
           Pfam domains (3) -------RNase_T-1ytaD03 D:8-170                                                                                                                                            ---------- Pfam domains (3)
           Pfam domains (4) -------RNase_T-1ytaD04 D:8-170                                                                                                                                            ---------- Pfam domains (4)
         Sec.struct. author ......eeeeeeee.........eeeeeeeee.....eeee...ee...hhhhhh..hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........eee.hhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1yta D   1 SANENNLIWIDLEmTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALmDDWNVRTHTASGLVERVKASTmGDREAELATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYmPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAmDDIRESVAELAYYREHFIKL 180
                                    10   |    20        30        40        50      | 60        70        80        90       100       110       120       130       140       150       160       170       180
                                        14-MSE                                     57-MSE                79-MSE                                 119-MSE                                  160-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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, 4)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: RNase_H (288)

(-) Gene Ontology  (17, 26)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (ORN_ECOL6 | P0A785)
molecular function
    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.

Chain A,B,C,D   (ORN_ECOLI | P0A784)
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: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.
    GO:0034611    oligoribonucleotidase activity    Catalysis of the exonucleolytic cleavage of oligoribonucleotides to yield ribonucleoside 5'-phosphates.
    GO:0008310    single-stranded DNA 3'-5' exodeoxyribonuclease activity    Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of a single-stranded DNA molecule.
biological process
    GO:0006259    DNA metabolic process    Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
    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:0090501    RNA phosphodiester bond hydrolysis    The RNA metabolic process in which the phosphodiester bonds between ribonucleotides are cleaved by hydrolysis.
    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.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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