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Conserved domains on  [gi|493854738|ref|WP_006801627|]
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MULTISPECIES: endonuclease III [Dysgonomonas]

Protein Classification

endonuclease III domain-containing protein( domain architecture ID 11415064)

endonuclease III domain-containing protein such as endonuclease III, a DNA repair enzyme that has both DNA N-glycosylase and AP-lyase activities

CATH:  1.10.1670.10
Gene Ontology:  GO:0016798|GO:0006284|GO:0051539
PubMed:  10908318|1411536
SCOP:  4001141

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nth COG0177
Endonuclease III [Replication, recombination and repair];
11-208 1.13e-120

Endonuclease III [Replication, recombination and repair];


:

Pssm-ID: 439947 [Multi-domain]  Cd Length: 198  Bit Score: 340.15  E-value: 1.13e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  11 ISWFEKKMPVAETELHYDNPFHLLIAVILSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSVSYPNNKAKNL 90
Cdd:COG0177    1 LERLKELYPDAKTELDYRDPFELLVATILSAQTTDERVNKATPRLFARYPTPEALAAADLEELEELIRPIGLYRNKAKNI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  91 LGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDnSKNPEQTERELIKYIP 170
Cdd:COG0177   81 IALARILVEKYGGEVPETREELESLPGVGRKTANVVLNFAFGKPAIAVDTHVHRVSNRLGLVP-GKDPEEVEKDLMKLIP 159

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 493854738 171 TKYLSKAHHWLILHGRYICVARKPKCEECGLTPYCKFF 208
Cdd:COG0177  160 KEYWGDLHHLLILHGRYICKARKPKCEECPLADLCPYY 197
 
Name Accession Description Interval E-value
Nth COG0177
Endonuclease III [Replication, recombination and repair];
11-208 1.13e-120

Endonuclease III [Replication, recombination and repair];


Pssm-ID: 439947 [Multi-domain]  Cd Length: 198  Bit Score: 340.15  E-value: 1.13e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  11 ISWFEKKMPVAETELHYDNPFHLLIAVILSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSVSYPNNKAKNL 90
Cdd:COG0177    1 LERLKELYPDAKTELDYRDPFELLVATILSAQTTDERVNKATPRLFARYPTPEALAAADLEELEELIRPIGLYRNKAKNI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  91 LGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDnSKNPEQTERELIKYIP 170
Cdd:COG0177   81 IALARILVEKYGGEVPETREELESLPGVGRKTANVVLNFAFGKPAIAVDTHVHRVSNRLGLVP-GKDPEEVEKDLMKLIP 159

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 493854738 171 TKYLSKAHHWLILHGRYICVARKPKCEECGLTPYCKFF 208
Cdd:COG0177  160 KEYWGDLHHLLILHGRYICKARKPKCEECPLADLCPYY 197
nth TIGR01083
endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily ...
 4-196 5.67e-96

endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273434 [Multi-domain]  Cd Length: 192  Bit Score: 277.34  E-value: 5.67e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738    4 KERYTGVISWFEKKMPVAETELHYDNPFHLLIAVILSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSVSYP 83
Cdd:TIGR01083   1 RQKAQEILERLRKNYPHPTTELDFNNPFELLVATILSAQATDKRVNKATPKLFEVYPTPQALAQAGLEELEEYIKSIGLY 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   84 NNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTdNSKNPEQTER 163
Cdd:TIGR01083  81 RNKAKNIIELCRKLVERYGGEVPEDREELVKLPGVGRKTANVVLNVAFGIPAIAVDTHVFRVSNRLGLS-KGKDPIKVEE 159

                         170       180       190
                  ....*....|....*....|....*....|...
gi 493854738  164 ELIKYIPTKYLSKAHHWLILHGRYICVARKPKC 196
Cdd:TIGR01083 160 DLMKLVPREFWVKLHHWLILHGRYTCKARKPLC 192
PRK10702 PRK10702
endonuclease III; Provisional
 1-210 3.02e-64

endonuclease III; Provisional


Pssm-ID: 182661 [Multi-domain]  Cd Length: 211  Bit Score: 197.93  E-value: 3.02e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   1 MTKKERYTgVISWFEKKMPVAETELHYDNPFHLLIAVILSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSV 80
Cdd:PRK10702   1 MNKAKRLE-ILTRLRDNNPHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIKTI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  81 SYPNNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDnSKNPEQ 160
Cdd:PRK10702  80 GLYNSKAENVIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAP-GKNVEQ 158

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 493854738 161 TERELIKYIPTKYLSKAHHWLILHGRYICVARKPKCEECGLTPYCKFFSK 210
Cdd:PRK10702 159 VEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPRCGSCIIEDLCEYKEK 208
ENDO3c cd00056
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 31-185 2.66e-60

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 238013 [Multi-domain]  Cd Length: 158  Bit Score: 185.91  E-value: 2.66e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  31 FHLLIAVILSAQCTDKRVNMITPPLFEAY-PTPEVMAVSSTDAIYHYIKSVSYpNNKAKNLLGMAKKLVDDFGGKV---P 106
Cdd:cd00056    1 FEVLVSEILSQQTTDKAVNKAYERLFERYgPTPEALAAADEEELRELIRSLGY-RRKAKYLKELARAIVEGFGGLVlddP 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493854738 107 DSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIPTKYLSKAHHWLILHG 185
Cdd:cd00056   80 DAREELLALPGVGRKTANVVLLFALGPDAFPVDTHVRRVLKRLGLIPKKKTPEELEELLEELLPKPYWGEANQALMDLG 158
ENDO3c smart00478
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 39-187 1.24e-58

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 214684 [Multi-domain]  Cd Length: 149  Bit Score: 181.31  E-value: 1.24e-58
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738    39 LSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSVSYPNNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGV 118
Cdd:smart00478   1 LSQQTTDERVNKATERLFEKFPTPEDLAAADEEELEELIRGLGFYRRKARYLIELARILVEEYGGEVPDDREELLKLPGV 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493854738   119 GRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIPTKYLSKAHHWLILHGRY 187
Cdd:smart00478  81 GRKTANAVLSFALGKPFIPVDTHVLRIAKRLGLVDKKSTPEEVEKLLEKLLPEEDWRELNLLLIDFGRT 149
HhH-GPD pfam00730
HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of ...
 35-170 2.49e-46

HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of structurally related DNA repair proteins. The superfamily is called the HhH-GPD family after its hallmark Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate. This includes endonuclease III, EC:4.2.99.18 and MutY an A/G-specific adenine glycosylase, both have a C terminal 4Fe-4S cluster. The family also includes 8-oxoguanine DNA glycosylases. The methyl-CPG binding protein MBD4 also contains a related domain that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II EC:3.2.2.21 and other members of the AlkA family.


Pssm-ID: 425841 [Multi-domain]  Cd Length: 141  Bit Score: 149.74  E-value: 2.49e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   35 IAVILSAQCTDKRVNMITPPLFEA-YPTPEVMAVSSTDAIYHYIKSVSYPNNKAKNLLGMAKKLVDDFGGKVPDSMEELE 113
Cdd:pfam00730   1 VSAILSQQTSDKAVNKITERLFEKfFPTPEDLADADEEELRELIRGLGFYRRKAKYLKELARILVEGYGGEVPLDEEELE 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  114 T-IPGVGRKTANVMLIVAF--NKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIP 170
Cdd:pfam00730  81 AlLKGVGRWTAEAVLIFALgrPDPLPVVDTHVRRVLKRLGLIKEKPTPKEVERELEELWP 140
 
Name Accession Description Interval E-value
Nth COG0177
Endonuclease III [Replication, recombination and repair];
11-208 1.13e-120

Endonuclease III [Replication, recombination and repair];


Pssm-ID: 439947 [Multi-domain]  Cd Length: 198  Bit Score: 340.15  E-value: 1.13e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  11 ISWFEKKMPVAETELHYDNPFHLLIAVILSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSVSYPNNKAKNL 90
Cdd:COG0177    1 LERLKELYPDAKTELDYRDPFELLVATILSAQTTDERVNKATPRLFARYPTPEALAAADLEELEELIRPIGLYRNKAKNI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  91 LGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDnSKNPEQTERELIKYIP 170
Cdd:COG0177   81 IALARILVEKYGGEVPETREELESLPGVGRKTANVVLNFAFGKPAIAVDTHVHRVSNRLGLVP-GKDPEEVEKDLMKLIP 159

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 493854738 171 TKYLSKAHHWLILHGRYICVARKPKCEECGLTPYCKFF 208
Cdd:COG0177  160 KEYWGDLHHLLILHGRYICKARKPKCEECPLADLCPYY 197
nth TIGR01083
endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily ...
 4-196 5.67e-96

endonuclease III; This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273434 [Multi-domain]  Cd Length: 192  Bit Score: 277.34  E-value: 5.67e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738    4 KERYTGVISWFEKKMPVAETELHYDNPFHLLIAVILSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSVSYP 83
Cdd:TIGR01083   1 RQKAQEILERLRKNYPHPTTELDFNNPFELLVATILSAQATDKRVNKATPKLFEVYPTPQALAQAGLEELEEYIKSIGLY 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   84 NNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTdNSKNPEQTER 163
Cdd:TIGR01083  81 RNKAKNIIELCRKLVERYGGEVPEDREELVKLPGVGRKTANVVLNVAFGIPAIAVDTHVFRVSNRLGLS-KGKDPIKVEE 159

                         170       180       190
                  ....*....|....*....|....*....|...
gi 493854738  164 ELIKYIPTKYLSKAHHWLILHGRYICVARKPKC 196
Cdd:TIGR01083 160 DLMKLVPREFWVKLHHWLILHGRYTCKARKPLC 192
PRK10702 PRK10702
endonuclease III; Provisional
 1-210 3.02e-64

endonuclease III; Provisional


Pssm-ID: 182661 [Multi-domain]  Cd Length: 211  Bit Score: 197.93  E-value: 3.02e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   1 MTKKERYTgVISWFEKKMPVAETELHYDNPFHLLIAVILSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSV 80
Cdd:PRK10702   1 MNKAKRLE-ILTRLRDNNPHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIKTI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  81 SYPNNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDnSKNPEQ 160
Cdd:PRK10702  80 GLYNSKAENVIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAP-GKNVEQ 158

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 493854738 161 TERELIKYIPTKYLSKAHHWLILHGRYICVARKPKCEECGLTPYCKFFSK 210
Cdd:PRK10702 159 VEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPRCGSCIIEDLCEYKEK 208
ENDO3c cd00056
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 31-185 2.66e-60

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 238013 [Multi-domain]  Cd Length: 158  Bit Score: 185.91  E-value: 2.66e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  31 FHLLIAVILSAQCTDKRVNMITPPLFEAY-PTPEVMAVSSTDAIYHYIKSVSYpNNKAKNLLGMAKKLVDDFGGKV---P 106
Cdd:cd00056    1 FEVLVSEILSQQTTDKAVNKAYERLFERYgPTPEALAAADEEELRELIRSLGY-RRKAKYLKELARAIVEGFGGLVlddP 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493854738 107 DSMEELETIPGVGRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIPTKYLSKAHHWLILHG 185
Cdd:cd00056   80 DAREELLALPGVGRKTANVVLLFALGPDAFPVDTHVRRVLKRLGLIPKKKTPEELEELLEELLPKPYWGEANQALMDLG 158
ENDO3c smart00478
endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), ...
 39-187 1.24e-58

endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases


Pssm-ID: 214684 [Multi-domain]  Cd Length: 149  Bit Score: 181.31  E-value: 1.24e-58
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738    39 LSAQCTDKRVNMITPPLFEAYPTPEVMAVSSTDAIYHYIKSVSYPNNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGV 118
Cdd:smart00478   1 LSQQTTDERVNKATERLFEKFPTPEDLAAADEEELEELIRGLGFYRRKARYLIELARILVEEYGGEVPDDREELLKLPGV 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493854738   119 GRKTANVMLIVAFNKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIPTKYLSKAHHWLILHGRY 187
Cdd:smart00478  81 GRKTANAVLSFALGKPFIPVDTHVLRIAKRLGLVDKKSTPEEVEKLLEKLLPEEDWRELNLLLIDFGRT 149
HhH-GPD pfam00730
HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of ...
 35-170 2.49e-46

HhH-GPD superfamily base excision DNA repair protein; This family contains a diverse range of structurally related DNA repair proteins. The superfamily is called the HhH-GPD family after its hallmark Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate. This includes endonuclease III, EC:4.2.99.18 and MutY an A/G-specific adenine glycosylase, both have a C terminal 4Fe-4S cluster. The family also includes 8-oxoguanine DNA glycosylases. The methyl-CPG binding protein MBD4 also contains a related domain that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II EC:3.2.2.21 and other members of the AlkA family.


Pssm-ID: 425841 [Multi-domain]  Cd Length: 141  Bit Score: 149.74  E-value: 2.49e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   35 IAVILSAQCTDKRVNMITPPLFEA-YPTPEVMAVSSTDAIYHYIKSVSYPNNKAKNLLGMAKKLVDDFGGKVPDSMEELE 113
Cdd:pfam00730   1 VSAILSQQTSDKAVNKITERLFEKfFPTPEDLADADEEELRELIRGLGFYRRKAKYLKELARILVEGYGGEVPLDEEELE 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  114 T-IPGVGRKTANVMLIVAF--NKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIP 170
Cdd:pfam00730  81 AlLKGVGRWTAEAVLIFALgrPDPLPVVDTHVRRVLKRLGLIKEKPTPKEVERELEELWP 140
HP0602 COG2231
3-Methyladenine DNA glycosylase, HhH-GPD/Endo3 superfamily [Replication, recombination and ...
 61-207 8.07e-21

3-Methyladenine DNA glycosylase, HhH-GPD/Endo3 superfamily [Replication, recombination and repair];


Pssm-ID: 441832 [Multi-domain]  Cd Length: 220  Bit Score: 86.05  E-value: 8.07e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  61 TPEVMAVSSTDAIYHYIKSVSYPNNKAKNLLGMAKKLVDDFGGKvPDSMEELET---------IPGVGRKTANVMLIVAF 131
Cdd:COG2231   61 DPEALAALDPEELAELIRPSGFYNQKAKRLKNLARWLVERYGGG-LEKLKALPTeelreellsLKGIGPETADSILLYAF 139

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 493854738 132 NKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIP-TKYLSKAHHWLIL-HGRYICvARKPKCEECGLTPYCKF 207
Cdd:COG2231  140 NRPVFVVDAYTRRIFSRLGLIEEDASYDELQRLFEENLPpDVALYNEFHALIVeHGKEYC-KKKPKCEECPLRDLCPY 216
ogg TIGR00588
8-oxoguanine DNA-glycosylase (ogg); All proteins in this family for which functions are known ...
 29-177 3.77e-12

8-oxoguanine DNA-glycosylase (ogg); All proteins in this family for which functions are known are 8-oxo-guanaine DNA glycosylases that function in base excision repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is distantly realted to the Nth-MutY superfamily. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 211589 [Multi-domain]  Cd Length: 310  Bit Score: 63.78  E-value: 3.77e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   29 NPFHLLIAVILSAQCTDKRV---------------NMITPPLFEAYPTPEVMAVSSTDAiyHYIK-SVSYpnnKAKNLLG 92
Cdd:TIGR00588 118 DPFECLISFICSSNNNIARItrmverlcqafgprlITLDGVTYHGFPSLHALTGPEAEA--HLRKlGLGY---RARYIRE 192

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738   93 MAKKLVDDFGGKVP----------DSMEELETIPGVGRKTANVMLIVAFNKP-AMPVDTHVFRVSNRI----GLTDNSKN 157
Cdd:TIGR00588 193 TARALLEEQGGRAWlqqirgasyeDAREALCELPGVGPKVADCICLMGLDKPqAVPVDVHVWRIANRDypwhPKTSRAKG 272

                         170       180
                  ....*....|....*....|.
gi 493854738  158 P-EQTERELIKYIPTKYLSKA 177
Cdd:TIGR00588 273 PsPFARKELGNFFRSLWGPYA 293
PRK13910 PRK13910
DNA glycosylase MutY; Provisional
 54-205 1.13e-11

DNA glycosylase MutY; Provisional


Pssm-ID: 172427 [Multi-domain]  Cd Length: 289  Bit Score: 62.35  E-value: 1.13e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  54 PLFEAYPTPEVMAVSSTDAIYHYIKSVSYpNNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIVAFNK 133
Cdd:PRK13910  17 PFLEAFPTLKDLANAPLEEVLLLWRGLGY-YSRAKNLKKSAEICVKEHHSQLPNDYQSLLKLPGIGAYTANAILCFGFRE 95

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 493854738 134 PAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKYIPTKYLSKAHHWLILHGRYICvARKPKCEECGLTPYC 205
Cdd:PRK13910  96 KSACVDANIKRVLLRLFGLDPNIHAKDLQIKANDFLNLNESFNHNQALIDLGALIC-SPKPKCAICPLNPYC 166
PRK10880 PRK10880
adenine DNA glycosylase;
54-205 9.91e-10

adenine DNA glycosylase;


Pssm-ID: 182805 [Multi-domain]  Cd Length: 350  Bit Score: 57.03  E-value: 9.91e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  54 PLFEAY----PTPEVMAVSSTDAIYHYIKSVSYpNNKAKNLLGMAKKLVDDFGGKVPDSMEELETIPGVGRKTANVMLIV 129
Cdd:PRK10880  50 PYFERFmarfPTVTDLANAPLDEVLHLWTGLGY-YARARNLHKAAQQVATLHGGEFPETFEEVAALPGVGRSTAGAILSL 128

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738 130 AFNKPAMPVDTHVFRVSNRIGLTDNSKNPEQTERELIKY----IPTKYLSKAHHWLILHGRYICVARKPKCEECGLTPYC 205
Cdd:PRK10880 129 SLGKHFPILDGNVKRVLARCYAVSGWPGKKEVENRLWQLseqvTPAVGVERFNQAMMDLGAMVCTRSKPKCELCPLQNGC 208
AlkA COG0122
3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [Replication, recombination and ...
 29-142 4.48e-09

3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [Replication, recombination and repair];


Pssm-ID: 439892 [Multi-domain]  Cd Length: 255  Bit Score: 54.51  E-value: 4.48e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  29 NPFHLLIAVILSAQCTDKR--------------VNMITPPLFEAYPTPEVMAVSSTDAIyhyiKSVSYPNNKAKNLLGMA 94
Cdd:COG0122   83 DPFEALVRAILGQQVSVAAartiwrrlvalfgePIEGPGGGLYAFPTPEALAAASEEEL----RACGLSRRKARYLRALA 158

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  95 KKLVDdfgGKVP----------DSMEELETIPGVGRKTANVMLIVAFNKP-AMPV-DTHV 142
Cdd:COG0122  159 RAVAD---GELDlealaglddeEAIARLTALPGIGPWTAEMVLLFALGRPdAFPAgDLGL 215
HHH pfam00633
Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated ...
 100-131 8.40e-07

Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated in the central domain of RuvA. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain.


Pssm-ID: 425789 [Multi-domain]  Cd Length: 30  Bit Score: 43.94  E-value: 8.40e-07
                          10        20        30
                  ....*....|....*....|....*....|..
gi 493854738  100 DFGGKVPDSMEELETIPGVGRKTANVmlIVAF 131
Cdd:pfam00633   1 SLEGLIPASVEELLALPGVGPKTAEA--ILSY 30
PRK10308 PRK10308
3-methyl-adenine DNA glycosylase II; Provisional
 34-124 4.69e-06

3-methyl-adenine DNA glycosylase II; Provisional


Pssm-ID: 236671 [Multi-domain]  Cd Length: 283  Bit Score: 45.91  E-value: 4.69e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  34 LIAVILSAQCTDKRVNMITPPLFEA-----YPTPEVMAVSSTDAIyhyiKSVSYPNNKAKNLLGMAKKLVDdfgGKVP-- 106
Cdd:PRK10308 125 LVSVAMAAKLTAKVAQLYGERLDDFpeyvcFPTPERLAAADPQAL----KALGMPLKRAEALIHLANAALE---GTLPlt 197

                         90       100
                 ....*....|....*....|....
gi 493854738 107 ------DSMEELETIPGVGRKTAN 124
Cdd:PRK10308 198 ipgdveQAMKTLQTFPGIGRWTAN 221
EndIII_4Fe-2S pfam10576
Iron-sulfur binding domain of endonuclease III; Escherichia coli endonuclease III (EC 4.2.99. ...
 189-205 1.65e-04

Iron-sulfur binding domain of endonuclease III; Escherichia coli endonuclease III (EC 4.2.99.18) is a DNA repair enzyme that acts both as a DNA N-glycosylase, removing oxidized pyrimidines from DNA, and as an apurinic/apyrimidinic (AP) endonuclease, introducing a single-strand nick at the site from which the damaged base was removed. Endonuclease III is an iron-sulfur protein that binds a single 4Fe-4S cluster. The 4Fe-4S cluster does not seem to be important for catalytic activity, but is probably involved in the proper positioning of the enzyme along the DNA strand. The 4Fe-4S cluster is bound by four cysteines which are all located in a 17 amino acid region at the C-terminal end of endonuclease III. A similar region is also present in the central section of mutY and in the C-terminus of ORF-10 and of the Micro-coccus UV endonuclease.


Pssm-ID: 463153 [Multi-domain]  Cd Length: 17  Bit Score: 37.37  E-value: 1.65e-04
                          10
                  ....*....|....*..
gi 493854738  189 CVARKPKCEECGLTPYC 205
Cdd:pfam10576   1 CTARKPKCEECPLADLC 17
FES smart00525
iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); ...
 188-205 1.06e-03

iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3);


Pssm-ID: 197771 [Multi-domain]  Cd Length: 21  Bit Score: 35.22  E-value: 1.06e-03
                           10
                   ....*....|....*...
gi 493854738   188 ICVARKPKCEECGLTPYC 205
Cdd:smart00525   1 ICTARKPRCDECPLKDLC 18
DUF2400 pfam09674
Protein of unknown function (DUF2400); Members of this uncharacterized protein family are ...
 136-165 1.57e-03

Protein of unknown function (DUF2400); Members of this uncharacterized protein family are found sporadically, so far only among spirochetes, epsilon and delta proteobacteria, and Bacteroides. The function is unknown and its gene neighbourhoods show little conservation.


Pssm-ID: 430745  Cd Length: 228  Bit Score: 38.28  E-value: 1.57e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 493854738  136 MPVDTHVFRVSNRIGLTDNSKNPEQTEREL 165
Cdd:pfam09674 174 IPLDTHVGRVARKLGLLKRKQNDWKAALEL 203
PRK13913 PRK13913
3-methyladenine DNA glycosylase; Provisional
 63-150 3.10e-03

3-methyladenine DNA glycosylase; Provisional


Pssm-ID: 184390  Cd Length: 218  Bit Score: 37.52  E-value: 3.10e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493854738  63 EVMAVSSTDAIYHYIKSVSYPNNKAKNLLGMAKKLVDDFGG----KVPDSMEELETIPGVGRKTANVMLIVAFNKPAMPV 138
Cdd:PRK13913  70 KKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSENILKDFGSfenfKQEVTREWLLDQKGIGKESADAILCYVCAKEVMVV 149

                         90
                 ....*....|..
gi 493854738 139 DTHVFRVSNRIG 150
Cdd:PRK13913 150 DKYSYLFLKKLG 161
 
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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