|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07983 |
PRK07983 |
exodeoxyribonuclease X; Provisional |
1-219 |
3.54e-180 |
|
exodeoxyribonuclease X; Provisional
Pssm-ID: 181186 [Multi-domain] Cd Length: 219 Bit Score: 491.93 E-value: 3.54e-180
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 1 MLRIIDTETCGLQGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYGSEWYVAH 80
Cdd:PRK07983 1 MLRVIDTETCGLQGGIVEIASVDVIDGKIVNPMSHLVRPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYGSEWYVAH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 81 NASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKTRKLNVQTPPGLHHHRALYDCYITAALLIDIMNTSGWTAEQ 160
Cdd:PRK07983 81 NASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKSRKLNVQTPPGLHHHRALYDCYITAALLIDIMNTSGWTAEE 160
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 15831808 161 MADITGRPSLMTTFTFGKYRGKAVSDVAERDPGYLRWLFNNLDSMSPELRLTLKHYLEN 219
Cdd:PRK07983 161 MADITGRPSLLTTFTFGKYRGKAVSDVAERDPGYLRWLFNNLDDMSPELRLTLKHYLEN 219
|
|
| DEDDh |
cd06127 |
DEDDh 3'-5' exonuclease domain family; DEDDh exonucleases, part of the DnaQ-like (or DEDD) ... |
4-148 |
1.48e-45 |
|
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: 148.60 E-value: 1.48e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QGGIVEIASVDVIDG-KIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEW 76
Cdd:cd06127 2 VFDTETTGLdpkKDRIIEIGAVKVDGGiEIVERFETLVNPGRPIPPEATAIHGITDEMLADAPPFEEVLPeflEFLGGRV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 77 YVAHNASFDRRVL---------PEMPGEWICTMKLARRLWPGIKYSNMALYKTRKLNVqtpPGLHHHRALYDCYITAALL 147
Cdd:cd06127 82 LVAHNASFDLRFLnrelrrlggPPLPNPWIDTLRLARRLLPGLRSHRLGLLLAERYGI---PLEGAHRALADALATAELL 158
|
.
gi 15831808 148 I 148
Cdd:cd06127 159 L 159
|
|
| DnaQ |
COG0847 |
DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination ... |
4-152 |
1.19e-43 |
|
DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair];
Pssm-ID: 440608 [Multi-domain] Cd Length: 163 Bit Score: 143.78 E-value: 1.19e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEWY 77
Cdd:COG0847 4 VLDTETTGLdpaKDRIIEIGAVKVDDGRIVETFHTLVNPERPIPPEATAIHGITDEDVADAPPFAEVLPellEFLGGAVL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 78 VAHNASFDRRVL---------PEMPGEWICTMKLARRLWPGI-KYSNMALYKtrKLNVqtpPGLHHHRALYDCYITAALL 147
Cdd:COG0847 84 VAHNAAFDLGFLnaelrraglPLPPFPVLDTLRLARRLLPGLpSYSLDALCE--RLGI---PFDERHRALADAEATAELF 158
|
....*
gi 15831808 148 IDIMN 152
Cdd:COG0847 159 LALLR 163
|
|
| EXOIII |
smart00479 |
exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other ... |
1-152 |
1.36e-40 |
|
exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases;
Pssm-ID: 214685 [Multi-domain] Cd Length: 169 Bit Score: 136.28 E-value: 1.36e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 1 MLRIIDTETCGLQGG---IVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY----G 73
Cdd:smart00479 1 TLVVIDCETTGLDPGkdeIIEIAAVDVDGGEIIEVFDTYVKPDRPITDYATEIHGITPEMLDDAPTFEEVLEELLeflrG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 74 SEWYVAHNASFDRRVL-PEMP---------GEWICTMKLARRLWPGI-KYSNMALYKTRKLNVQTppglHHHRALYDCYI 142
Cdd:smart00479 81 RILVAGNSAHFDLRFLkLEHPrlgikqppkLPVIDTLKLARATNPGLpKYSLKKLAKRLLLEVIQ----RAHRALDDARA 156
|
170
....*....|
gi 15831808 143 TAALLIDIMN 152
Cdd:smart00479 157 TAKLFKKLLE 166
|
|
| RNase_T |
pfam00929 |
Exonuclease; This family includes a variety of exonuclease proteins, such as ribonuclease T ... |
4-147 |
7.19e-19 |
|
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: 80.09 E-value: 7.19e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGLQGG---IVEIASVDVIDG--KIVNPMSHLVHPDRP--ISPQAMAIHRITEAMVADKPWIEDVIPHY----- 71
Cdd:pfam00929 2 VIDLETTGLDPEkdeIIEIAAVVIDGGenEIGETFHTYVKPTRLpkLTDECTKFTGITQAMLDNKPSFEEVLEEFleflr 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 72 YGSEWyVAHNASFD--------RRVL----PEMPgEWICTMKLARRLWPGIKYSNM-ALYKTRKLNVQTppglHHHRALY 138
Cdd:pfam00929 82 KGNLL-VAHNASFDvgflryddKRFLkkpmPKLN-PVIDTLILDKATYKELPGRSLdALAEKLGLEHIG----RAHRALD 155
|
....*....
gi 15831808 139 DCYITAALL 147
Cdd:pfam00929 156 DARATAKLF 164
|
|
| dnaq |
TIGR00573 |
exonuclease, DNA polymerase III, epsilon subunit family; All proteins in this family for which ... |
5-150 |
1.37e-16 |
|
exonuclease, DNA polymerase III, epsilon subunit family; All proteins in this family for which functions are known are components of the DNA polymerase III complex (epsilon subunit). There is, however, an outgroup that includes paralogs in some gamma-proteobacteria and the n-terminal region of DinG from some low GC gram positive bacteria. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, Degradation of DNA]
Pssm-ID: 129663 [Multi-domain] Cd Length: 217 Bit Score: 75.18 E-value: 1.37e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 5 IDTETCGLQGG--IVEIASVDVIDGKIVNPMSH-LVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEWYV 78
Cdd:TIGR00573 12 GDNETTGLYAGhdIIEIGAVEIINRRITGNKFHtYIKPDRPIDPDAIKIHGITDDMLKDKPDFKEIAEdfaDYIRGAELV 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 79 AHNASFD--------RRVLPEMPG-----EWICTMKLARRLWPGIKYSNMALYKTRKLNVqtppglhHHRALYDCYITAA 145
Cdd:TIGR00573 92 IHNASFDvgflnyefSKLYKVEPKtndviDTTDTLQYARPEFPGKRNTLDALCKRYEITN-------SHRALHGALADAF 164
|
....*
gi 15831808 146 LLIDI 150
Cdd:TIGR00573 165 ILAKL 169
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07983 |
PRK07983 |
exodeoxyribonuclease X; Provisional |
1-219 |
3.54e-180 |
|
exodeoxyribonuclease X; Provisional
Pssm-ID: 181186 [Multi-domain] Cd Length: 219 Bit Score: 491.93 E-value: 3.54e-180
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 1 MLRIIDTETCGLQGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYGSEWYVAH 80
Cdd:PRK07983 1 MLRVIDTETCGLQGGIVEIASVDVIDGKIVNPMSHLVRPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYGSEWYVAH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 81 NASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKTRKLNVQTPPGLHHHRALYDCYITAALLIDIMNTSGWTAEQ 160
Cdd:PRK07983 81 NASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKSRKLNVQTPPGLHHHRALYDCYITAALLIDIMNTSGWTAEE 160
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 15831808 161 MADITGRPSLMTTFTFGKYRGKAVSDVAERDPGYLRWLFNNLDSMSPELRLTLKHYLEN 219
Cdd:PRK07983 161 MADITGRPSLLTTFTFGKYRGKAVSDVAERDPGYLRWLFNNLDDMSPELRLTLKHYLEN 219
|
|
| DEDDh |
cd06127 |
DEDDh 3'-5' exonuclease domain family; DEDDh exonucleases, part of the DnaQ-like (or DEDD) ... |
4-148 |
1.48e-45 |
|
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: 148.60 E-value: 1.48e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QGGIVEIASVDVIDG-KIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEW 76
Cdd:cd06127 2 VFDTETTGLdpkKDRIIEIGAVKVDGGiEIVERFETLVNPGRPIPPEATAIHGITDEMLADAPPFEEVLPeflEFLGGRV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 77 YVAHNASFDRRVL---------PEMPGEWICTMKLARRLWPGIKYSNMALYKTRKLNVqtpPGLHHHRALYDCYITAALL 147
Cdd:cd06127 82 LVAHNASFDLRFLnrelrrlggPPLPNPWIDTLRLARRLLPGLRSHRLGLLLAERYGI---PLEGAHRALADALATAELL 158
|
.
gi 15831808 148 I 148
Cdd:cd06127 159 L 159
|
|
| DnaQ |
COG0847 |
DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination ... |
4-152 |
1.19e-43 |
|
DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair];
Pssm-ID: 440608 [Multi-domain] Cd Length: 163 Bit Score: 143.78 E-value: 1.19e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEWY 77
Cdd:COG0847 4 VLDTETTGLdpaKDRIIEIGAVKVDDGRIVETFHTLVNPERPIPPEATAIHGITDEDVADAPPFAEVLPellEFLGGAVL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 78 VAHNASFDRRVL---------PEMPGEWICTMKLARRLWPGI-KYSNMALYKtrKLNVqtpPGLHHHRALYDCYITAALL 147
Cdd:COG0847 84 VAHNAAFDLGFLnaelrraglPLPPFPVLDTLRLARRLLPGLpSYSLDALCE--RLGI---PFDERHRALADAEATAELF 158
|
....*
gi 15831808 148 IDIMN 152
Cdd:COG0847 159 LALLR 163
|
|
| EXOIII |
smart00479 |
exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other ... |
1-152 |
1.36e-40 |
|
exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases;
Pssm-ID: 214685 [Multi-domain] Cd Length: 169 Bit Score: 136.28 E-value: 1.36e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 1 MLRIIDTETCGLQGG---IVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY----G 73
Cdd:smart00479 1 TLVVIDCETTGLDPGkdeIIEIAAVDVDGGEIIEVFDTYVKPDRPITDYATEIHGITPEMLDDAPTFEEVLEELLeflrG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 74 SEWYVAHNASFDRRVL-PEMP---------GEWICTMKLARRLWPGI-KYSNMALYKTRKLNVQTppglHHHRALYDCYI 142
Cdd:smart00479 81 RILVAGNSAHFDLRFLkLEHPrlgikqppkLPVIDTLKLARATNPGLpKYSLKKLAKRLLLEVIQ----RAHRALDDARA 156
|
170
....*....|
gi 15831808 143 TAALLIDIMN 152
Cdd:smart00479 157 TAKLFKKLLE 166
|
|
| PolC |
COG2176 |
DNA polymerase III, alpha subunit (gram-positive type) [Replication, recombination and repair]; ... |
4-152 |
8.76e-38 |
|
DNA polymerase III, alpha subunit (gram-positive type) [Replication, recombination and repair];
Pssm-ID: 441779 [Multi-domain] Cd Length: 181 Bit Score: 129.49 E-value: 8.76e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY----GSEW 76
Cdd:COG2176 12 VFDLETTGLspkKDEIIEIGAVKVENGEIVDRFSTLVNPGRPIPPFITELTGITDEMVADAPPFEEVLPEFLeflgDAVL 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 77 yVAHNASFDRRVLP--------EMPGEWICTMKLARRLWPGIK-YSNMALykTRKLNVQTPPglhHHRALYDCYITAALL 147
Cdd:COG2176 92 -VAHNASFDLGFLNaalkrlglPFDNPVLDTLELARRLLPELKsYKLDTL--AERLGIPLED---RHRALGDAEATAELF 165
|
....*
gi 15831808 148 IDIMN 152
Cdd:COG2176 166 LKLLE 170
|
|
| DNA_pol_III_epsilon_like |
cd06130 |
an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with ... |
5-149 |
5.05e-29 |
|
an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; This subfamily is composed of uncharacterized bacterial proteins with similarity to the epsilon subunit of DNA polymerase III (Pol III), a multisubunit polymerase which is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. The Pol III holoenzyme is a complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. 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. The epsilon subunit of Pol III also functions as a stabilizer of the holoenzyme complex.
Pssm-ID: 99834 [Multi-domain] Cd Length: 156 Bit Score: 106.06 E-value: 5.05e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 5 IDTET-CGLQGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEWYVAH 80
Cdd:cd06130 4 IDFETaNADRASACSIGLVKVRDGQIVDTFYTLIRPPTRFDPFNIAIHGITPEDVADAPTFPEVWPeikPFLGGSLVVAH 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 81 NASFDRRVL---------PEMPGEWICTMKLARRLWPGIKysNMALyKT--RKLNVQtppgLHHHRALYDCYITAALLID 149
Cdd:cd06130 84 NASFDRSVLraaleayglPPPPYQYLCTVRLARRVWPLLP--NHKL-NTvaEHLGIE----LNHHDALEDARACAEILLA 156
|
|
| DNA_pol_III_epsilon_Ecoli_like |
cd06131 |
DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III ... |
4-144 |
1.17e-25 |
|
DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; This subfamily is composed of the epsilon subunit of Escherichia coli DNA polymerase III (Pol III) and similar proteins. Pol III is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. It is a holoenzyme complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. 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. The epsilon subunit of Pol III also functions as a stabilizer of the holoenzyme complex.
Pssm-ID: 99835 [Multi-domain] Cd Length: 167 Bit Score: 97.60 E-value: 1.17e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL--QGG--IVEIASVDVIDGKIVNPMSH-LVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY----GS 74
Cdd:cd06131 3 VLDTETTGLdpREGhrIIEIGCVELINRRLTGNTFHvYINPERDIPEEAFKVHGITDEFLADKPKFAEIADEFLdfirGA 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 75 EwYVAHNASFD---------RRVLPEMPGE---WICTMKLARRLWPGIKYSNMAL---YKTRKLNVQTppglhhHRALYD 139
Cdd:cd06131 83 E-LVIHNASFDvgflnaelsLLGLGKKIIDfcrVIDTLALARKKFPGKPNSLDALckrFGIDNSHRTL------HGALLD 155
|
....*
gi 15831808 140 CYITA 144
Cdd:cd06131 156 AELLA 160
|
|
| PRK07883 |
PRK07883 |
DEDD exonuclease domain-containing protein; |
4-147 |
4.18e-23 |
|
DEDD exonuclease domain-containing protein;
Pssm-ID: 236123 [Multi-domain] Cd Length: 557 Bit Score: 96.53 E-value: 4.18e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYygSEW---- 76
Cdd:PRK07883 19 VVDLETTGGspaGDAITEIGAVKVRGGEVLGEFATLVNPGRPIPPFITVLTGITTAMVAGAPPIEEVLPAF--LEFarga 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 77 -YVAHNASFD---------RRVLPEMPGEWICTMKLARRLW-----PGIKYSNMALYktrkLNVQTPPglhHHRALYDCY 141
Cdd:PRK07883 97 vLVAHNAPFDigflraaaaRCGYPWPGPPVLCTVRLARRVLprdeaPNVRLSTLARL----FGATTTP---THRALDDAR 169
|
....*.
gi 15831808 142 ITAALL 147
Cdd:PRK07883 170 ATVDVL 175
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
4-148 |
3.65e-21 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 91.05 E-value: 3.65e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGLQG---GIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYgsEWY--- 77
Cdd:PRK00448 423 VFDVETTGLSAvydEIIEIGAVKIKNGEIIDKFEFFIKPGHPLSAFTTELTGITDDMVKDAPSIEEVLPKFK--EFCgds 500
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 78 --VAHNASFDRRVL-----------PEMPgeWICTMKLARRLWPgiKYSNMALYK-TRKLNVqtppGL-HHHRALYDCYI 142
Cdd:PRK00448 501 ilVAHNASFDVGFIntnyeklglekIKNP--VIDTLELSRFLYP--ELKSHRLNTlAKKFGV----ELeHHHRADYDAEA 572
|
....*.
gi 15831808 143 TAALLI 148
Cdd:PRK00448 573 TAYLLI 578
|
|
| PRK06310 |
PRK06310 |
DNA polymerase III subunit epsilon; Validated |
5-197 |
5.78e-21 |
|
DNA polymerase III subunit epsilon; Validated
Pssm-ID: 180525 [Multi-domain] Cd Length: 250 Bit Score: 87.58 E-value: 5.78e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 5 IDTETCGL---QGGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPH---YYGSEWY- 77
Cdd:PRK06310 12 LDCETTGLdvkKDRIIEFAAIRFTFDEVIDSVEFLINPERVVSAESQRIHHISDAMLRDKPKIAEVFPQikgFFKEGDYi 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 78 VAHNASFDRRVLP---EMPGE--------WICTMKLARRLwpGIKYSNMALYKTRKLNVqtpPGLHHHRALYDCYITAAL 146
Cdd:PRK06310 92 VGHSVGFDLQVLSqesERIGEtflskhyyIIDTLRLAKEY--GDSPNNSLEALAVHFNV---PYDGNHRAMKDVEINIKV 166
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|..
gi 15831808 147 LIDImnTSGW-TAEQMADITGRPSLMTTFTFGKYRGKAVSDVAERdpgYLRW 197
Cdd:PRK06310 167 FKHL--CKRFrTLEQLKQILSKPIKMKYMPLGKHKGRLFSEIPLE---YLQW 213
|
|
| PRK06807 |
PRK06807 |
3'-5' exonuclease; |
4-149 |
4.43e-20 |
|
3'-5' exonuclease;
Pssm-ID: 235864 [Multi-domain] Cd Length: 313 Bit Score: 86.41 E-value: 4.43e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGLQ---GGIVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEWY 77
Cdd:PRK06807 12 VIDFETTGFNpynDKIIQVAAVKYRNHELVDQFVSYVNPERPIPDRITSLTGITNYRVSDAPTIEEVLPlflAFLHTNVI 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 78 VAHNASFDRRVL---------PEMPGEWICTMKLARRLWPGIKYSNMALYKtRKLNVQtppgLHHHRALYDCYITAALLI 148
Cdd:PRK06807 92 VAHNASFDMRFLksnvnmlglPEPKNKVIDTVFLAKKYMKHAPNHKLETLK-RMLGIR----LSSHNAFDDCITCAAVYQ 166
|
.
gi 15831808 149 D 149
Cdd:PRK06807 167 K 167
|
|
| PRK06195 |
PRK06195 |
DNA polymerase III subunit epsilon; Validated |
19-150 |
6.10e-20 |
|
DNA polymerase III subunit epsilon; Validated
Pssm-ID: 235735 [Multi-domain] Cd Length: 309 Bit Score: 85.99 E-value: 6.10e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 19 IASVDVIDGKIVNPMSHLVHPdRPI--SPQAMAIHRITEAMVADKPWIEDV---IPHYYGSEWYVAHNASFDRRVLP--- 90
Cdd:PRK06195 21 IGIVVVKDGEIVEKVHYLIKP-KEMrfMPINIGIHGIRPHMVEDELEFDKIwekIKHYFNNNLVIAHNASFDISVLRktl 99
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15831808 91 -----EMPG-EWICTMKLARRLWPGIK------YSNMALYKTRklnvqtppglhHHRALYDCYITAALLIDI 150
Cdd:PRK06195 100 elyniPMPSfEYICTMKLAKNFYSNIDnarlntVNNFLGYEFK-----------HHDALADAMACSNILLNI 160
|
|
| PRK08074 |
PRK08074 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
4-152 |
2.80e-19 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 236148 [Multi-domain] Cd Length: 928 Bit Score: 85.77 E-value: 2.80e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCG---LQGG-IVEIASVDVIDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY----GSe 75
Cdd:PRK08074 7 VVDLETTGnspKKGDkIIQIAAVVVEDGEILERFSSFVNPERPIPPFITELTGISEEMVKQAPLFEDVAPEIVelleGA- 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 76 WYVAHNASFD---------RRVLPEMPGEWICTMKLARRLWPGIKYsnmalYKTRKLNVQTppGLHH---HRALYDCYIT 143
Cdd:PRK08074 86 YFVAHNVHFDlnflneeleRAGYTEIHCPKLDTVELARILLPTAES-----YKLRDLSEEL--GLEHdqpHRADSDAEVT 158
|
....*....
gi 15831808 144 AALLIDIMN 152
Cdd:PRK08074 159 AELFLQLLN 167
|
|
| RNase_T |
pfam00929 |
Exonuclease; This family includes a variety of exonuclease proteins, such as ribonuclease T ... |
4-147 |
7.19e-19 |
|
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: 80.09 E-value: 7.19e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGLQGG---IVEIASVDVIDG--KIVNPMSHLVHPDRP--ISPQAMAIHRITEAMVADKPWIEDVIPHY----- 71
Cdd:pfam00929 2 VIDLETTGLDPEkdeIIEIAAVVIDGGenEIGETFHTYVKPTRLpkLTDECTKFTGITQAMLDNKPSFEEVLEEFleflr 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 72 YGSEWyVAHNASFD--------RRVL----PEMPgEWICTMKLARRLWPGIKYSNM-ALYKTRKLNVQTppglHHHRALY 138
Cdd:pfam00929 82 KGNLL-VAHNASFDvgflryddKRFLkkpmPKLN-PVIDTLILDKATYKELPGRSLdALAEKLGLEHIG----RAHRALD 155
|
....*....
gi 15831808 139 DCYITAALL 147
Cdd:pfam00929 156 DARATAKLF 164
|
|
| PRK05711 |
PRK05711 |
DNA polymerase III subunit epsilon; Provisional |
4-117 |
6.94e-18 |
|
DNA polymerase III subunit epsilon; Provisional
Pssm-ID: 235574 [Multi-domain] Cd Length: 240 Bit Score: 79.13 E-value: 6.94e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL--QGG--IVEIASVDVIDGKIVNPMSHL-VHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY----GS 74
Cdd:PRK05711 8 VLDTETTGLnqREGhrIIEIGAVELINRRLTGRNFHVyIKPDRLVDPEALAVHGITDEFLADKPTFAEVADEFLdfirGA 87
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 15831808 75 EWyVAHNASFD--------RRVLPEMPG-EWIC----TMKLARRLWPGIKYSNMAL 117
Cdd:PRK05711 88 EL-IIHNAPFDigfmdyefALLGRDIPKtNTFCkvtdTLAMARRMFPGKRNSLDAL 142
|
|
| dnaq |
TIGR00573 |
exonuclease, DNA polymerase III, epsilon subunit family; All proteins in this family for which ... |
5-150 |
1.37e-16 |
|
exonuclease, DNA polymerase III, epsilon subunit family; All proteins in this family for which functions are known are components of the DNA polymerase III complex (epsilon subunit). There is, however, an outgroup that includes paralogs in some gamma-proteobacteria and the n-terminal region of DinG from some low GC gram positive bacteria. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, Degradation of DNA]
Pssm-ID: 129663 [Multi-domain] Cd Length: 217 Bit Score: 75.18 E-value: 1.37e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 5 IDTETCGLQGG--IVEIASVDVIDGKIVNPMSH-LVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEWYV 78
Cdd:TIGR00573 12 GDNETTGLYAGhdIIEIGAVEIINRRITGNKFHtYIKPDRPIDPDAIKIHGITDDMLKDKPDFKEIAEdfaDYIRGAELV 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 79 AHNASFD--------RRVLPEMPG-----EWICTMKLARRLWPGIKYSNMALYKTRKLNVqtppglhHHRALYDCYITAA 145
Cdd:TIGR00573 92 IHNASFDvgflnyefSKLYKVEPKtndviDTTDTLQYARPEFPGKRNTLDALCKRYEITN-------SHRALHGALADAF 164
|
....*
gi 15831808 146 LLIDI 150
Cdd:TIGR00573 165 ILAKL 169
|
|
| PRK06309 |
PRK06309 |
DNA polymerase III subunit epsilon; Validated |
1-208 |
4.62e-14 |
|
DNA polymerase III subunit epsilon; Validated
Pssm-ID: 180524 [Multi-domain] Cd Length: 232 Bit Score: 68.68 E-value: 4.62e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 1 MLRII--DTETCGLQ---GGIVEIASVDVIDGKivnPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY--- 72
Cdd:PRK06309 1 MPALIfyDTETTGTQidkDRIIEIAAYNGVTSE---SFQTLVNPEIPIPAEASKIHGITTDEVADAPKFPEAYQKFIefc 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 73 -GSEWYVAHNA-SFD---------RRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKtrklNVQTPPGLHHHRALYDCY 141
Cdd:PRK06309 78 gTDNILVAHNNdAFDfpllrkecrRHGLEPPTLRTIDSLKWAQKYRPDLPKHNLQYLR----QVYGFEENQAHRALDDVI 153
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15831808 142 IT----AALLIDImntsgwTAEQMADITGRPSLMTTFT--FGKYRGKAVSDVAerdPGYLRWLFNNLDSMSPE 208
Cdd:PRK06309 154 TLhrvfSALVGDL------SPQQVYDLLNESCHPRIFKmpFGKYKGKPLSEVP---KSYIAWLEKQGALDKPE 217
|
|
| PRK09182 |
PRK09182 |
DNA polymerase III subunit epsilon; Validated |
4-158 |
1.74e-11 |
|
DNA polymerase III subunit epsilon; Validated
Pssm-ID: 236397 [Multi-domain] Cd Length: 294 Bit Score: 61.92 E-value: 1.74e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QGGIVEIASVDV---IDGKI---VNPMSHLVHPDRPISPQAMAIHRITEAMVADK--PWIE------- 65
Cdd:PRK09182 41 ILDTETTGLdprKDEIIEIGMVAFeydDDGRIgdvLDTFGGLQQPSRPIPPEITRLTGITDEMVAGQtiDPAAvdaliap 120
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 66 -DVIphyygsewyVAHNASFDRRVL----PEMPGE-WICTMKLARrlWPGIKYSNMAL-YktrkLNVQTppGLHH--HRA 136
Cdd:PRK09182 121 aDLI---------IAHNAGFDRPFLerfsPVFATKpWACSVSEID--WSARGFEGTKLgY----LAGQA--GFFHegHRA 183
|
170 180
....*....|....*....|..
gi 15831808 137 LYDCYITAALLIDIMNTSGWTA 158
Cdd:PRK09182 184 VDDCQALLELLARPLPETGQPP 205
|
|
| PRK06063 |
PRK06063 |
DEDDh family exonuclease; |
4-106 |
2.79e-11 |
|
DEDDh family exonuclease;
Pssm-ID: 180377 [Multi-domain] Cd Length: 313 Bit Score: 61.64 E-value: 2.79e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGLQGGIVEIASVDVI----DGKIVNPMSHLVHPDRpiSPQAMAIHRITEAMVADKPWIEDVIPHYYG---SEW 76
Cdd:PRK06063 19 VVDVETSGFRPGQARIISLAVLgldaDGNVEQSVVTLLNPGV--DPGPTHVHGLTAEMLEGQPQFADIAGEVAEllrGRT 96
|
90 100 110
....*....|....*....|....*....|....*....
gi 15831808 77 YVAHNASFDRRVLP--------EMPGEW-ICTMKLARRL 106
Cdd:PRK06063 97 LVAHNVAFDYSFLAaeaeragaELPVDQvMCTVELARRL 135
|
|
| PRK07740 |
PRK07740 |
hypothetical protein; Provisional |
4-152 |
6.06e-11 |
|
hypothetical protein; Provisional
Pssm-ID: 236085 [Multi-domain] Cd Length: 244 Bit Score: 60.07 E-value: 6.06e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGL---QG-GIVEIASVDVIDGKIVNPMSH-LVHPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYY---GSE 75
Cdd:PRK07740 63 VFDLETTGFspqQGdEILSIGAVKTKGGEVETDTFYsLVKPKRPIPEHILELTGITAEDVAFAPPLAEVLHRFYafiGAG 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 76 WYVAHNASFDRRVLPE-------MPGEW--ICTMKLARRLWPGIKYSNM----ALYKTrklnvqTPPGLHHhrALYDCYI 142
Cdd:PRK07740 143 VLVAHHAGHDKAFLRHalwrtyrQPFTHrlIDTMFLTKLLAHERDFPTLddalAYYGI------PIPRRHH--ALGDALM 214
|
170
....*....|
gi 15831808 143 TAALLIDIMN 152
Cdd:PRK07740 215 TAKLWAILLV 224
|
|
| ExoX-like_C |
pfam20600 |
Exodeoxyribonuclease X-like C-terminal; This short domain is found at the C-terminal of ... |
174-201 |
1.50e-10 |
|
Exodeoxyribonuclease X-like C-terminal; This short domain is found at the C-terminal of Exodeoxyribonuclease 10 (ExoX) from Escherichia coli (strain K12) and it is functionally uncharacterized. This domain is found in bacteria and eukaryotes There is a conserved FGKY/H sequence motif.
Pssm-ID: 466749 [Multi-domain] Cd Length: 28 Bit Score: 54.41 E-value: 1.50e-10
10 20
....*....|....*....|....*...
gi 15831808 174 FTFGKYRGKAVSDVAERDPGYLRWLFNN 201
Cdd:pfam20600 1 FNFGKYKGKTLKEVAEIDPTYIEWCIEN 28
|
|
| PRK08517 |
PRK08517 |
3'-5' exonuclease; |
4-145 |
6.24e-10 |
|
3'-5' exonuclease;
Pssm-ID: 236281 [Multi-domain] Cd Length: 257 Bit Score: 57.34 E-value: 6.24e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCG---LQGGIVEIASVDVIDGKIVNPMSHLVHPDRpISPQAMAIHRITEAMVADKPWIEDVIPH---YYGSEWY 77
Cdd:PRK08517 72 FVDIETNGskpKKHQIIEIGAVKVKNGEIIDRFESFVKAKE-VPEYITELTGITYEDLENAPSLKEVLEEfrlFLGDSVF 150
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15831808 78 VAHNASFDRRVLPEMPGEW---------ICTMKLARRLWPGIKYSNMALYKTRKLNVQTppglhHHRALYDCyITAA 145
Cdd:PRK08517 151 VAHNVNFDYNFISRSLEEIglgpllnrkLCTIDLAKRTIESPRYGLSFLKELLGIEIEV-----HHRAYADA-LAAY 221
|
|
| PRK09145 |
PRK09145 |
3'-5' exonuclease; |
5-146 |
5.72e-08 |
|
3'-5' exonuclease;
Pssm-ID: 236391 [Multi-domain] Cd Length: 202 Bit Score: 51.06 E-value: 5.72e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 5 IDTETCGL---QGGIVEIASVDVIDGKIV--NPMSHLVHPDRPISPQAMAIHRITEAMVADKPWIEDVIP---HYYGSEW 76
Cdd:PRK09145 34 LDCETTGLdprRAEIVSIAAVKIRGNRILtsERLELLVRPPQSLSAESIKIHRLRHQDLEDGLSEEEALRqllAFIGNRP 113
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 77 YVAHNASFDRRVLPempgewictmKLARRLW------PGIKYSnmALYKtRKLNVQTPPG-----------------LHH 133
Cdd:PRK09145 114 LVGYYLEFDVAMLN----------RYVRPLLgiplpnPLIEVS--ALYY-DKKERHLPDAyidlrfdailkhldlpvLGR 180
|
170
....*....|...
gi 15831808 134 HRALYDCyITAAL 146
Cdd:PRK09145 181 HDALNDA-IMAAL 192
|
|
| PRK07246 |
PRK07246 |
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated |
4-151 |
4.10e-06 |
|
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Pssm-ID: 180905 [Multi-domain] Cd Length: 820 Bit Score: 46.99 E-value: 4.10e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCG-------LQGGIVEIAsvdviDGKIVNPMSHLVHPDRPISPQAMAIHRITEAMVADKP-----------WIE 65
Cdd:PRK07246 11 VVDLEATGagpnasiIQVGIVIIE-----GGEIIDSYTTDVNPHEPLDEHIKHLTGITDQQLAQAPdfsqvarhiydLIE 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 66 DVIphyygsewYVAHNASFDRRVLPE---MPG-----EWICTMKLARRLWPGI-KYSNMALykTRKLNVqtpPGLHHHRA 136
Cdd:PRK07246 86 DCI--------FVAHNVKFDANLLAEalfLEGyelrtPRVDTVELAQVFFPTLeKYSLSHL--SRELNI---DLADAHTA 152
|
170
....*....|....*
gi 15831808 137 LYDCYITAALLIDIM 151
Cdd:PRK07246 153 IADARATAELFLKLL 167
|
|
| ERI-1_3'hExo_like |
cd06133 |
DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and ... |
4-148 |
9.80e-05 |
|
DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; This subfamily is composed of Caenorhabditis elegans ERI-1, human 3' exonuclease (3'hExo), Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These 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. ERI-1 has been implicated in the degradation of small interfering RNAs (RNAi). 3'hExo participates in the degradation of histone mRNAs. Snp is a non-essential exonuclease that efficiently degrades structured RNA and DNA substrates as long as there is a minimum of 2 nucleotides in the 3' overhang to initiate degradation. Snp is not a functional homolog of either ERI-1 or 3'hExo.
Pssm-ID: 99836 [Multi-domain] Cd Length: 176 Bit Score: 41.44 E-value: 9.80e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 4 IIDTETCGLQGG--------IVEIASV--DVIDGKIVNPMSHLVHP-DRP-ISPQAMAIHRITEAMVADKPWIEDVIPHY 71
Cdd:cd06133 3 VIDFEATCWEGNskpdypneIIEIGAVlvDVKTKEIIDTFSSYVKPvINPkLSDFCTELTGITQEDVDNAPSFPEVLKEF 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 72 YgsEWYVAHNA-------SFDRRVLpeMPGEwiCTMKLARRLWPGIKYSNMALYKTRKLNVQTPPGL------------- 131
Cdd:cd06133 83 L--EWLGKNGKyafvtwgDWDLKDL--LQNQ--CKYKIINLPPFFRQWIDLKKEFAKFYGLKKRTGLskaleylglefeg 156
|
170
....*....|....*..
gi 15831808 132 HHHRALYDCYITAALLI 148
Cdd:cd06133 157 RHHRGLDDARNIARILK 173
|
|
| PRK07942 |
PRK07942 |
DNA polymerase III subunit epsilon; Provisional |
6-89 |
9.53e-03 |
|
DNA polymerase III subunit epsilon; Provisional
Pssm-ID: 181176 [Multi-domain] Cd Length: 232 Bit Score: 36.11 E-value: 9.53e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15831808 6 DTETCG---LQGGIVEiASVDVID--GKIVNPMSHLVHPDRPISPQAMAIHRI-TEAMVADKPWIEDV---IPHYYGSEW 76
Cdd:PRK07942 12 DLETTGvdpETARIVT-AALVVVDadGEVVESREWLADPGVEIPEEASAVHGItTEYARAHGRPAAEVlaeIADALREAW 90
|
90
....*....|....*...
gi 15831808 77 -----YVAHNASFDRRVL 89
Cdd:PRK07942 91 argvpVVVFNAPYDLTVL 108
|
|
| |
