Conserved Protein Domain Family
Orn

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cd06135: Orn 
Click on image for an interactive view with Cn3D
DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins
Oligoribonuclease (Orn) is a DEDDh-type DnaQ-like 3'-5' exoribonuclease that is responsible for degrading small oligoribonucleotides to mononucleotides. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Orn is essential for Escherichia coli survival. The human homolog, also called Sfn (small fragment nuclease), is able to hydrolyze short single-stranded RNA and DNA oligomers. It plays a role in cellular nucleotide recycling.
Statistics
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PSSM-Id: 99838
View PSSM: cd06135
Aligned: 60 rows
Threshold Bit Score: 173.116
Threshold Setting Gi: 46190895
Created: 9-Jan-2008
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:putative active site [active site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1            #### #                                                                      
2IGI_A         7 LIWIDLEMTGLDp---------eRDRIIEIATLVTDAnLNILAEGPTIAVHQSd-----eQLALMDDWNVRTHTASGLVE 72
gi 145295978   7 FIGLDLETTGLDa---------hSGVILEVGIIIFDDdLMPIAARSWLTNELVe-----kESIVSAPVVEVMHEESGLWE 72
gi 149198226   4 LFWIDMEMTGLDp---------dENRILEIAILITDH-KLDIIDRFHAVIRTPk-----aILDGMDEWNTRTHTSNGLVK 68
gi 152999287   5 FLFGDLETGGLNgrldngmlgmeYYPIFELAFIVTDSeLNQVGEALHIVVHQDd-----eHIARSHEWAIDVHTKSGLLA 79
gi 115373916   8 FVWLDLEMTGLDp---------eTCAIIEIGVIITGP-DLVPLAEIERVIWQPe-----eALARMEPVVREMHTRNGLLT 72
gi 146344208  13 LPWLDLETTGFTelfd---rrvyEHRILEIGAVVTDE-HFTVLASTSIVIQQPmv----rVLELSDEAVTRMHTNNGLFD 84
gi 169173789  10 ILWVDYEATGLMsd--------pFTVPLEGAAIITDGqLNELAVLEGITIHATe-----eELAYMGDFVRDMHTKTGLLD 76
gi 42522865    4 LFWIDMEMTGLDv---------eKEVIIEVAAIVTDL-NFKELETFETVVKQPq-----kYLDSMDAWNTEHHKKSGLTA 68
gi 148927126  13 LLWLDLEMTGLDp---------qRDRVLEVAAIATDW-NFEEMAVIESVVHQSp-----kVLDLMDDWVRSQHASSGLTE 77
gi 167957555   6 ILWVDLEMTGLDp---------tKDKILEVAAIATDW-DFNEVGRFESAVKVDdslisarFKAGHNFWDANPDARDGLIL 75
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                     ## ###                             
2IGI_A        73 RVk-aSTMGDREAELATLEFLKQwv-----------pAGKSPICGNSIGQDRRFLFKYMPELEAYFHYRYLDVSTLKELA 140
gi 145295978  73 DLktgHTQPLRQVEAEASAWILEa------------gANKLPMLGSSVTFDRTWLDHHMPQLHRMFHYRSVDATSVLLAS 140
gi 149198226  69 EAv--NGRFIQEVEIDLLNLADKhf-----------aNKQIFLCGSSLSLDRMFIEKFMPSFAKKLHYRIVDVSSWKAIF 135
gi 152999287  80 AVr-aSSVSLAQAEQMVLEHLKAlgipk----hdrkaKTGVVFAGNSIMLDRSFIMCQMPELHEYMHYRQLDISALGLAA 154
gi 115373916  73 KVr-aSTTSLRVAERDVMALVASyc-----------aLGEGILCGNSIHTDRRFLIRYMPMLERFLHYRMVDVTSLKVLS 140
gi 146344208  85 EVv-kSFTTLKAAEHQLIQFYRQng----------vsKKVEPLCGSGIHFDRMFIEAQMPELHDFLYYRNLDISSVKEFL 153
gi 169173789  77 KVr-aSTVTRDQFDNALASFAAPyfptkgeeladgtkYRGMVIGGNSVKFDFDVTEKFFPQTRKNMDYRVIDISGLGELV 155
gi 42522865   69 KVp--NGMDPDQVEAKLVDMVKKhfp---------dpKDKPVLAGNSIMQDRLFINKYMPEFAGRLHYRMVDVSSWKVII 137
gi 148927126  78 RVr-aSDVSETDAEDILLQFIDSvy----------kdGDPVVLAGNSIHQDRRFIRQYWQRLDARLHYRMLDVSAWKVVF 146
gi 167957555  76 QNs-qAKLTSKQVEEDILKFTKEyf----------thDEPILLAGNSIHQDRKFIDREWPNLGSLLHYRMLDVSAWKVVF 144
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
Feature 1                                       #    #                
2IGI_A       141 RRWKPeil---------------dgfTKQGTHQAMDDIRESVAELAYYREHFI 178
gi 145295978 141 TSLYDfinindqqtllvldmlehlkrWDLKPHRALYDLCQSAALVKATLNAVA 193
gi 149198226 136 QTFLDlr------------------fHKQDAHRAMNDIEESLRELKLYLSYID 170
gi 152999287 155 RAWAPever-------------naikAKQYQHEALADIRESIAELKYYRDELF 194
gi 115373916 141 RAWYPevf---------------eprKGSAGHTALADIRASITELSFYRDTFF 178
gi 146344208 154 KTISPsf-----------------epSKRQQHRALPDILESVAEAKTYRALLA 189
gi 169173789 156 RRWSYdywk--------------ampPKLSDHTALTDIRAGVNELRYYRAGMH 194
gi 42522865  138 NNKFKyv------------------yQKANKHRALEDIRESIQELRHYTDKMH 172
gi 148927126 147 EGKYQkr------------------fPKPEDHRALEDIRGSIMELKYYLTKVR 181
gi 167957555 145 DGKYGkr------------------fAKPEAHRALDDIKGSIMELKYYLTKVR 179

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