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Conserved domains on  [gi|25148622|ref|NP_741135|]
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Putative RNA exonuclease pqe-1 [Caenorhabditis elegans]

Protein Classification

RNA exonuclease( domain architecture ID 10150223)

RNA exonuclease is a 3'-5' exonuclease that catalyzes the excision of nucleoside monophosphates at the RNA terminus in the 3'-5' direction; belongs to the DnaQ-like (or DEDD) 3'-5' exonuclease superfamily

CATH:  3.30.420.10
EC:  3.1.-.-
Gene Ontology:  GO:0008408|GO:0003676|GO:0006396
PubMed:  11988770|11222749
SCOP:  4000547

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
REX1_like cd06145
DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins; This ...
 272-422 6.17e-72

DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins; This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing 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. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of Escherichia coli RNase T.


:

Pssm-ID: 99848  Cd Length: 150  Bit Score: 223.13  E-value: 6.17e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 272 YALDCEMVYTIAGPALARLTMVDMQRNRVLDVFVKPPTDVLDPNTEFSGLTMEQINSAPDTLKTCHQKLFKYVNADTILI 351
Cdd:cd06145   1 FALDCEMCYTTDGLELTRVTVVDENGKVVLDELVKPDGEIVDYNTRFSGITEEMLENVTTTLEDVQKKLLSLISPDTILV 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25148622 352 GHSLESDLKAMRVVHKNVIDTAILFRSTRD--TKVALKVLSAKLLHKNIQgdnEDAIGHDSMEDALTCVDLIF 422
Cdd:cd06145  81 GHSLENDLKALKLIHPRVIDTAILFPHPRGppYKPSLKNLAKKYLGRDIQ---QGEGGHDSVEDARAALELVK 150
 
Name Accession Description Interval E-value
REX1_like cd06145
DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins; This ...
 272-422 6.17e-72

DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins; This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing 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. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of Escherichia coli RNase T.


Pssm-ID: 99848  Cd Length: 150  Bit Score: 223.13  E-value: 6.17e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 272 YALDCEMVYTIAGPALARLTMVDMQRNRVLDVFVKPPTDVLDPNTEFSGLTMEQINSAPDTLKTCHQKLFKYVNADTILI 351
Cdd:cd06145   1 FALDCEMCYTTDGLELTRVTVVDENGKVVLDELVKPDGEIVDYNTRFSGITEEMLENVTTTLEDVQKKLLSLISPDTILV 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25148622 352 GHSLESDLKAMRVVHKNVIDTAILFRSTRD--TKVALKVLSAKLLHKNIQgdnEDAIGHDSMEDALTCVDLIF 422
Cdd:cd06145  81 GHSLENDLKALKLIHPRVIDTAILFPHPRGppYKPSLKNLAKKYLGRDIQ---QGEGGHDSVEDARAALELVK 150
EXOIII smart00479
exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other ...
 270-429 2.58e-31

exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases;


Pssm-ID: 214685 [Multi-domain]  Cd Length: 169  Bit Score: 117.79  E-value: 2.58e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622    270 RVYALDCEMVYTIAGPA-LARLTMVDMQRNR---VLDVFVKPPTDVLDPNTEFSGLTMEQINSAPdTLKTCHQKLFKYVN 345
Cdd:smart00479   1 TLVVIDCETTGLDPGKDeIIEIAAVDVDGGEiieVFDTYVKPDRPITDYATEIHGITPEMLDDAP-TFEEVLEELLEFLR 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622    346 ADTILIGHSLESDLKAMRVVHKN----------VIDTAILFRSTRD--TKVALKVLSAKLLHKNIQGdnedaiGHDSMED 413
Cdd:smart00479  80 GRILVAGNSAHFDLRFLKLEHPRlgikqppklpVIDTLKLARATNPglPKYSLKKLAKRLLLEVIQR------AHRALDD 153

                          170
                   ....*....|....*.
gi 25148622    414 ALTCVDLIFYGLRNPE 429
Cdd:smart00479 154 ARATAKLFKKLLERLE 169
DnaQ COG0847
DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination ...
 270-420 2.59e-06

DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair];


Pssm-ID: 440608 [Multi-domain]  Cd Length: 163  Bit Score: 47.10  E-value: 2.59e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 270 RVYALDCEMvyTIAGPALARLT---MVDMQRNRVLDVF---VKPPTDVLDPNTEFSGLTMEQINSAPdTLKTCHQKLFKY 343
Cdd:COG0847   1 RFVVLDTET--TGLDPAKDRIIeigAVKVDDGRIVETFhtlVNPERPIPPEATAIHGITDEDVADAP-PFAEVLPELLEF 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 344 VnADTILIGHSLESDLKAMR---------VVHKNVIDTAILFRSTRDTKVALKvLSAKLLHKNIqgDNEDAigHDSMEDA 414
Cdd:COG0847  78 L-GGAVLVAHNAAFDLGFLNaelrraglpLPPFPVLDTLRLARRLLPGLPSYS-LDALCERLGI--PFDER--HRALADA 151


                ....*.
gi 25148622 415 LTCVDL 420
Cdd:COG0847 152 EATAEL 157
RNase_T pfam00929
Exonuclease; This family includes a variety of exonuclease proteins, such as ribonuclease T ...
 273-420 1.64e-05

Exonuclease; This family includes a variety of exonuclease proteins, such as ribonuclease T and the epsilon subunit of DNA polymerase III.;


Pssm-ID: 395743 [Multi-domain]  Cd Length: 164  Bit Score: 45.03  E-value: 1.64e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622   273 ALDCEMvyTIAGPALARLTM-----VDMQRNRVLDVFVKPPTDVLDPN-----TEFSGLTMEQINSAPdTLKTCHQKLFK 342
Cdd:pfam00929   2 VIDLET--TGLDPEKDEIIEiaavvIDGGENEIGETFHTYVKPTRLPKltdecTKFTGITQAMLDNKP-SFEEVLEEFLE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622   343 YVNADTILIGHSLESDLK----AMRVVHKN-------VIDTAILFRSTRdTKVALKVLsAKLLHKniQGDNEDAIGHDSM 411
Cdd:pfam00929  79 FLRKGNLLVAHNASFDVGflryDDKRFLKKpmpklnpVIDTLILDKATY-KELPGRSL-DALAEK--LGLEHIGRAHRAL 154


                  ....*....
gi 25148622   412 EDALTCVDL 420
Cdd:pfam00929 155 DDARATAKL 163
 
Name Accession Description Interval E-value
REX1_like cd06145
DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins; This ...
 272-422 6.17e-72

DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins; This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing 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. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of Escherichia coli RNase T.


Pssm-ID: 99848  Cd Length: 150  Bit Score: 223.13  E-value: 6.17e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 272 YALDCEMVYTIAGPALARLTMVDMQRNRVLDVFVKPPTDVLDPNTEFSGLTMEQINSAPDTLKTCHQKLFKYVNADTILI 351
Cdd:cd06145   1 FALDCEMCYTTDGLELTRVTVVDENGKVVLDELVKPDGEIVDYNTRFSGITEEMLENVTTTLEDVQKKLLSLISPDTILV 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25148622 352 GHSLESDLKAMRVVHKNVIDTAILFRSTRD--TKVALKVLSAKLLHKNIQgdnEDAIGHDSMEDALTCVDLIF 422
Cdd:cd06145  81 GHSLENDLKALKLIHPRVIDTAILFPHPRGppYKPSLKNLAKKYLGRDIQ---QGEGGHDSVEDARAALELVK 150
DEDDh_RNase cd06137
DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX) ...
 272-421 2.49e-39

DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX)-1,-3, and -4, ISG20, and similar proteins; This group is composed of eukaryotic exoribonucleases that include PAN2, RNA exonuclease 1 (REX1 or Rex1p), REX3 (Rex3p), REX4 (or Rex4p), ISG20, and similar proteins. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing 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. PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. REX proteins are required for the processing and maturation of many RNA species, and ISG20 is an interferon-induced antiviral exonuclease with a strong preference for single-stranded RNA.


Pssm-ID: 99840  Cd Length: 161  Bit Score: 138.95  E-value: 2.49e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 272 YALDCEMVYTIAGPA-LARLTMVDMQRNRVL-DVFVKPPTDVLDPNTEFSGLT---MEQINSAPDTL-KTCHQK--LFKY 343
Cdd:cd06137   1 VALDCEMVGLADGDSeVVRISAVDVLTGEVLiDSLVRPSVRVTDWRTRFSGVTpadLEEAAKAGKTIfGWEAARaaLWKF 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 344 VNADTILIGHSLESDLKAMRVVHKNVIDTAILFRSTR-----DTKVALKVLSAKLLHKNIQGDNEdaiGHDSMEDALTCV 418
Cdd:cd06137  81 IDPDTILVGHSLQNDLDALRMIHTRVVDTAILTREAVkgplaKRQWSLRTLCRDFLGLKIQGGGE---GHDSLEDALAAR 157


                ...
gi 25148622 419 DLI 421
Cdd:cd06137 158 EVV 160
EXOIII smart00479
exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other ...
 270-429 2.58e-31

exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases;


Pssm-ID: 214685 [Multi-domain]  Cd Length: 169  Bit Score: 117.79  E-value: 2.58e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622    270 RVYALDCEMVYTIAGPA-LARLTMVDMQRNR---VLDVFVKPPTDVLDPNTEFSGLTMEQINSAPdTLKTCHQKLFKYVN 345
Cdd:smart00479   1 TLVVIDCETTGLDPGKDeIIEIAAVDVDGGEiieVFDTYVKPDRPITDYATEIHGITPEMLDDAP-TFEEVLEELLEFLR 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622    346 ADTILIGHSLESDLKAMRVVHKN----------VIDTAILFRSTRD--TKVALKVLSAKLLHKNIQGdnedaiGHDSMED 413
Cdd:smart00479  80 GRILVAGNSAHFDLRFLKLEHPRlgikqppklpVIDTLKLARATNPglPKYSLKKLAKRLLLEVIQR------AHRALDD 153

                          170
                   ....*....|....*.
gi 25148622    414 ALTCVDLIFYGLRNPE 429
Cdd:smart00479 154 ARATAKLFKKLLERLE 169
REX4_like cd06144
DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product ...
 273-414 2.99e-23

DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins; This subfamily is composed of RNA exonuclease 4 (REX4 or Rex4p), XPMC2, Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20), and similar proteins. REX4 is involved in pre-rRNA processing. It controls the ratio between the two forms of 5.8S rRNA in yeast. XPMC2 is a Xenopus gene which was identified through its ability to correct a mitotic defect in fission yeast. The human homolog of XPMC2 (hPMC2) may be involved in angiotensin II-induced adrenal cell cycle progression and cell proliferation. ISG20 is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. These proteins are DEDDh-type DnaQ-like 3'-5' exonucleases containing 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. REX proteins function in the processing and maturation of many RNA species, similar to the function of Escherchia coli RNase T.


Pssm-ID: 99847  Cd Length: 152  Bit Score: 95.28  E-value: 2.99e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 273 ALDCEMVYTiaGP-----ALARLTMVDMQRNRVLDVFVKPPTDVLDPNTEFSGLTMEQINSAPDtLKTCHQKLFKYVNaD 347
Cdd:cd06144   2 ALDCEMVGV--GPdgsesALARVSIVNEDGNVVYDTYVKPQEPVTDYRTAVSGIRPEHLKDAPD-FEEVQKKVAELLK-G 77

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 25148622 348 TILIGHSLESDLKAMRVVH--KNVIDTA--ILFRST-RDTKVALKVLSAKLLHKNIQGDnedaiGHDSMEDA 414
Cdd:cd06144  78 RILVGHALKNDLKVLKLDHpkKLIRDTSkyKPLRKTaKGKSPSLKKLAKQLLGLDIQEG-----EHSSVEDA 144
PAN2_exo cd06143
DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2; PAN2 is the catalytic ...
 286-420 1.03e-18

DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2; PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. PAN catalyzes the deadenylation of poly(A) tails, which are initially synthesized to default lengths of 70 to 90, to mRNA-specific lengths of 55 to 71. Pab1p and PAN also play a role in the export and decay of mRNA. PAN2 contains a DEDDh-type DnaQ-like 3'-5' exonuclease domain with 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.


Pssm-ID: 99846  Cd Length: 174  Bit Score: 83.05  E-value: 1.03e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 286 ALARLTMVDMQRNR----VLDVFVKPPTDVLDPNTEFSGLT---MEQINS--APDTLKTCHQKLFKYVNADTILIGHSLE 356
Cdd:cd06143  32 SLARVSVVRGEGELegvpFIDDYISTTEPVVDYLTRFSGIKpgdLDPKTSskNLTTLKSAYLKLRLLVDLGCIFVGHGLA 111

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 25148622 357 SDLKA--MRVVHKNVIDTAILFRSTRDTKVALKVLSAKLLHKNIQGDNedaigHDSMEDALTCVDL 420
Cdd:cd06143 112 KDFRVinIQVPKEQVIDTVELFHLPGQRKLSLRFLAWYLLGEKIQSET-----HDSIEDARTALKL 172
ISG20 cd06149
DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar ...
 273-420 1.12e-17

DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins; Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20) is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. It was also independently identified by its response to estrogen and was called HEM45 (human estrogen regulated transcript). ISG20 is a DEDDh-type DnaQ-like 3'-5' exonuclease containing 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. ISG20 may be a major effector of innate immunity against pathogens including viruses, bacteria, and parasites. It is located in promyelocytic leukemia (PML) nuclear bodies, sites for oncogenic DNA viral transcription and replication. It may carry out its function by degrading viral RNAs as part of the IFN-regulated antiviral response.


Pssm-ID: 99852  Cd Length: 157  Bit Score: 79.79  E-value: 1.12e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 273 ALDCEMVYTiaGP-----ALARLTMVDMQRNRVLDVFVKPPTDVLDPNTEFSGLTMEQ-INSAPdtLKTCHQKLFKYVNA 346
Cdd:cd06149   2 AIDCEMVGT--GPggresELARCSIVNYHGDVLYDKYIRPEGPVTDYRTRWSGIRRQHlVNATP--FAVAQKEILKILKG 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 347 dTILIGHSLESDLKAMRVVHKNVIdtailfrsTRDT----------------KVALKVLSAKLLHKNIQGDNEdaiGHDS 410
Cdd:cd06149  78 -KVVVGHAIHNDFKALKYFHPKHM--------TRDTstipllnrkagfpencRVSLKVLAKRLLHRDIQVGRQ---GHSS 145

                       170
                ....*....|
gi 25148622 411 MEDALTCVDL 420
Cdd:cd06149 146 VEDARATMEL 155
DEDDh cd06127
DEDDh 3'-5' exonuclease domain family; DEDDh exonucleases, part of the DnaQ-like (or DEDD) ...
 273-420 5.67e-07

DEDDh 3'-5' exonuclease domain family; DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDh exonucleases are classified as such because of the presence of specific Hx(4)D conserved pattern at the ExoIII motif. The four conserved acidic residues are clustered around the active site and serve as ligands for the two metal ions required for catalysis. Most DEDDh exonucleases are the proofreading subunits (epsilon) or domains of bacterial DNA polymerase III, the main replicating enzyme in bacteria, which functions as the chromosomal replicase. Other members include other DNA and RNA exonucleases such as RNase T, Oligoribonuclease, and RNA exonuclease (REX), among others.


Pssm-ID: 176648 [Multi-domain]  Cd Length: 159  Bit Score: 49.22  E-value: 5.67e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 273 ALDCEMvyTIAGPALARLT---MVDMQRNRVL----DVFVKPPTDVLDPNTEFSGLTMEQINSAPdTLKTCHQKLFKYVn 345
Cdd:cd06127   2 VFDTET--TGLDPKKDRIIeigAVKVDGGIEIverfETLVNPGRPIPPEATAIHGITDEMLADAP-PFEEVLPEFLEFL- 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 346 ADTILIGHSLESDLKAMR---------VVHKNVIDTAILFRSTRDTKVALKVLSAKLLHKNIqgDNEDAigHDSMEDALT 416
Cdd:cd06127  78 GGRVLVAHNASFDLRFLNrelrrlggpPLPNPWIDTLRLARRLLPGLRSHRLGLLLAERYGI--PLEGA--HRALADALA 153


                ....
gi 25148622 417 CVDL 420
Cdd:cd06127 154 TAEL 157
DnaQ COG0847
DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination ...
 270-420 2.59e-06

DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair];


Pssm-ID: 440608 [Multi-domain]  Cd Length: 163  Bit Score: 47.10  E-value: 2.59e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 270 RVYALDCEMvyTIAGPALARLT---MVDMQRNRVLDVF---VKPPTDVLDPNTEFSGLTMEQINSAPdTLKTCHQKLFKY 343
Cdd:COG0847   1 RFVVLDTET--TGLDPAKDRIIeigAVKVDDGRIVETFhtlVNPERPIPPEATAIHGITDEDVADAP-PFAEVLPELLEF 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622 344 VnADTILIGHSLESDLKAMR---------VVHKNVIDTAILFRSTRDTKVALKvLSAKLLHKNIqgDNEDAigHDSMEDA 414
Cdd:COG0847  78 L-GGAVLVAHNAAFDLGFLNaelrraglpLPPFPVLDTLRLARRLLPGLPSYS-LDALCERLGI--PFDER--HRALADA 151


                ....*.
gi 25148622 415 LTCVDL 420
Cdd:COG0847 152 EATAEL 157
RNase_T pfam00929
Exonuclease; This family includes a variety of exonuclease proteins, such as ribonuclease T ...
 273-420 1.64e-05

Exonuclease; This family includes a variety of exonuclease proteins, such as ribonuclease T and the epsilon subunit of DNA polymerase III.;


Pssm-ID: 395743 [Multi-domain]  Cd Length: 164  Bit Score: 45.03  E-value: 1.64e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622   273 ALDCEMvyTIAGPALARLTM-----VDMQRNRVLDVFVKPPTDVLDPN-----TEFSGLTMEQINSAPdTLKTCHQKLFK 342
Cdd:pfam00929   2 VIDLET--TGLDPEKDEIIEiaavvIDGGENEIGETFHTYVKPTRLPKltdecTKFTGITQAMLDNKP-SFEEVLEEFLE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148622   343 YVNADTILIGHSLESDLK----AMRVVHKN-------VIDTAILFRSTRdTKVALKVLsAKLLHKniQGDNEDAIGHDSM 411
Cdd:pfam00929  79 FLRKGNLLVAHNASFDVGflryDDKRFLKKpmpklnpVIDTLILDKATY-KELPGRSL-DALAEK--LGLEHIGRAHRAL 154


                  ....*....
gi 25148622   412 EDALTCVDL 420
Cdd:pfam00929 155 DDARATAKL 163
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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