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14 25 35 62 |||--|-||||||||||||||||||||||||||||||| 90 [L] COG0084 Mg-dependent DNase
7 12 19 32 -|---||||-|------|||---|||-|||||||---- 32 [L] COG0116 Predicted N6-adenine-specific DNA methylase
9 18 22 32 |-||-||---||||---||---|||-|||||-|--||- 41 [L] COG0122 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase
14 27 37 60 ||||||||||||||||||||||||||-||||||||||| 60 [L] COG0164 Ribonuclease HII
14 27 37 62 ||||||||||||||||||||||||||-||||||||||| 70 [L] COG0177 Predicted EndoIII-related endonuclease
11 19 27 52 |-||----------|||||||||||||||||||||||| 59 [L] COG0178 Excinuclease ATPase subunit
13 23 31 58 --|||-|----||||||||||||||||||||||||||| 94 [L] COG0187 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit
13 23 31 58 --|||-|----||||||||||||||||||||||||||| 96 [L] COG0188 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit
12 22 30 57 |-|||------||-|||||||||||||||||||||||| 123 [L] COG0210 Superfamily I DNA and RNA helicases
12 19 27 44 --|||------|||||||||||-|||-|||||||-||| 59 [L] COG0249 Mismatch repair ATPase (MutS family)
14 28 38 66 |||||||||||||||||||||||||||||||||||||| 90 [L] COG0258 5'-3' exonuclease (including N-terminal domain of PolI)
5 9 17 37 ----------------|||---|-||||||||||-||| 50 [L] COG0266 Formamidopyrimidine-DNA glycosylase
7 16 24 34 ||---|-||||-|---||----|||||-|||||||||- 63 [L] COG0270 Site-specific DNA methylase
10 16 24 50 --------------|||||||||||||||||||||||| 57 [L] COG0272 NAD-dependent DNA ligase (contains BRCT domain type II)
10 16 24 50 --------------|||||||||||||||||||||||| 63 [L] COG0305 Replicative DNA helicase
11 19 27 52 |-||----------|||||||||||||||||||||||| 63 [L] COG0322 Nuclease subunit of the excinuclease complex
12 18 26 44 --||-------|||||||||||-|||-|||||||-||| 49 [L] COG0323 DNA mismatch repair enzyme (predicted ATPase)
9 14 21 39 ---|----|--||---|||--||-|--||||||||||| 44 [L] COG0328 Ribonuclease HI
6 13 16 24 -|--||----------||-|-|-||---||||-||--| 29 [L] COG0338 Site-specific DNA methylase
12 24 34 55 ||||||||||||--|||--||||||||||||||||||| 83 [L] COG0350 Methylated DNA-protein cysteine methyltransferase
9 15 23 45 --------------|-|||||||||||||||||||||| 45 [L] COG0353 Recombinational DNA repair protein (RecF pathway)
12 25 35 63 |||||||||||---|||||||||||||||||||||||| 70 [L] COG0358 DNA primase (bacterial type)
8 15 21 39 --||-----|-||---||-|--|||||||-||||-||- 76 [L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair
7 12 16 23 |-||-----|-|----||----|-||-||-|--|-||- 28 [L] COG0415 Deoxyribodipyrimidine photolyase
6 14 18 24 ||||||||||||||--|----------||-|------- 47 [L] COG0417 DNA polymerase elongation subunit (family B)
12 22 27 36 ||||||||||||||||||||-|-|||-||-|------- 41 [L] COG0419 ATPase involved in DNA repair
13 24 29 42 ||||||||||||||||||||-|||||-||-|-----|- 47 [L] COG0420 DNA repair exonuclease
14 28 38 65 |||||||||||||||||||||||||||||||||||||| 87 [L] COG0468 RecA/RadA recombinase
14 27 37 64 |||||||||||||||||||||||-|||||||||||||| 108 [L] COG0470 ATPase involved in DNA replication
14 24 34 57 |-|||-|-||||||||||||||||||-||||||||||| 335 [LR] COG0494 NTP pyrophosphohydrolases including oxidative damage repair enzymes
8 13 21 41 --------------|-||||-|||||-||||||||||| 41 [L] COG0497 ATPase involved in DNA repair
9 15 20 37 -|---------||---|-|-||||||||||||-||-|- 52 [L] COG0507 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member
12 23 31 55 |||-|-|--|-||||-||||-||||||||||||||||| 218 [LKJ] COG0513 Superfamily II DNA and RNA helicases
11 16 23 34 --|-------||||--||||-|||||-|||||||-||- 46 [L] COG0514 Superfamily II DNA helicase
11 19 25 41 ---||---||-||||-|||-|-|||||||||||-|-|- 407 [RTKL] COG0515 Serine/threonine protein kinase
14 28 38 66 |||||||||||||||||||||||||||||||||||||| 90 [L] COG0550 Topoisomerase IA
7 17 23 42 |||||||--------|---|||-||||||||||||--- 57 [L] COG0551 Zn-finger domain associated with topoisomerase type I
12 21 27 41 --|||||--|||||-||||||-||||||||||----|- 109 [KL] COG0553 Superfamily II DNA/RNA helicases, SNF2 family
11 19 27 52 |-||----------|||||||||||||||||||||||| 53 [L] COG0556 Helicase subunit of the DNA excision repair complex
11 23 32 56 |||||||--||---|||||||-|||||||||||||||| 371 [L] COG0582 Integrase
10 16 24 50 --------------|||||||||||||||||||||||| 67 [L] COG0587 DNA polymerase III, alpha subunit
14 28 38 66 |||||||||||||||||||||||||||||||||||||| 74 [L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog)
9 15 23 49 --------------|||||-|||||||||||||||||| 73 [L] COG0593 ATPase involved in DNA replication initiation
12 24 33 54 ||||||||||----||||||||||||-||||||||||| 76 [L] COG0608 Single-stranded DNA-specific exonuclease
11 18 26 52 -----------||-|||||||||||||||||||||||| 82 [L] COG0629 Single-stranded DNA-binding protein
9 15 23 48 ---------------||||||||||||||||||||||| 48 [L] COG0632 Holliday junction resolvasome, DNA-binding subunit
10 18 21 37 ||||||--||||||||----|-|||-|-|-|------- 39 [L] COG0648 Endonuclease IV
9 16 18 25 -|||||-|||----|||||--||-----||----|--- 189 [L] COG0675 Transposase and inactivated derivatives
9 14 20 42 -----------|||----|||||-|||||||||||-|- 43 [L] COG0692 Uracil DNA glycosylase
11 20 28 47 |-|-|-|--|-|||--||||-|||||-||||||||||| 65 [L] COG0708 Exonuclease III
9 15 23 46 ---------------||||||||||||||||||||||| 46 [L] COG0742 N6-adenine-specific methylase
11 16 24 46 -----------|--||||||||||||-||||||||||| 46 [L] COG0749 DNA polymerase I - 3'-5' exonuclease and polymerase domains
9 15 23 42 --------------||||||-||||||||||||||||| 46 [LU] COG0758 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake
11 17 25 51 ----|---------|||||||||||||||||||||||| 112 [L] COG0776 Bacterial nucleoid DNA-binding protein
9 13 19 33 --------------||||||-|||---||||||||||- 33 [L] COG0792 Predicted endonuclease distantly related to archaeal Holliday junction resolvase
9 15 23 47 --------------|||||||-|||||||||||||||| 47 [L] COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis)
8 12 19 35 ---------------||||||||----||||||||||| 35 [L] COG0817 Holliday junction resolvasome, endonuclease subunit
4 7 8 17 -|--------------------||||-----|--|-|- 22 [L] COG0827 Adenine-specific DNA methylase
12 18 26 47 ----|-|----|||||-||-||||||-||||||||||| 95 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases
7 13 19 29 -|-|||---------||-||----||--|||||||||- 63 [L] COG0863 DNA modification methylase
3 4 5 13 --------------|-----|---|||----------- 13 [L] COG1039 Ribonuclease HIII
3 11 13 15 |||||||||||||------------------------- 17 [L] COG1041 Predicted DNA modification methylase
5 7 7 8 -|--|-|--|----||---|------------------ 8 [L] COG1059 Thermostable 8-oxoguanine DNA glycosylase
11 17 21 32 --|||||-||||||--|-||-|||||--|-|------- 64 [KL] COG1061 DNA or RNA helicases of superfamily II
6 10 18 39 -------------------|||||||-||||||||||| 39 [L] COG1074 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains)
1 7 7 8 ||||-|||------------------------------ 9 [L] COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain
4 7 9 10 -|---||||||---||---------------------- 16 [L] COG1110 Reverse gyrase
2 10 10 12 ||||||||---||------------------------- 13 [L] COG1111 ERCC4-like helicases
11 23 25 34 ||||||||-|-|||||-|-|--|||-||||----|--| 60 [L] COG1112 Superfamily I DNA and RNA helicases and helicase subunits
9 14 15 23 |-||-|--------||||||-|-|||--------|--- 26 [L] COG1193 Mismatch repair ATPase (MutS family)
9 14 22 43 |--|----|-|-|-----|-||||||-||||||||||- 44 [L] COG1194 A/G-specific DNA glycosylase
9 12 19 36 --------|-------||||||||||-|||||---||| 36 [L] COG1195 Recombinational DNA repair ATPase (RecF pathway)
9 14 22 45 ---------------|||||||||||-||||||||||| 45 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase)
10 15 23 46 --------------||||||||||||-||||||||||| 47 [L] COG1198 Primosomal protein N' (replication factor Y) - superfamily II helicase
10 20 28 43 ||||||--|||||||-||-|--||||-|||||||-|-- 61 [KL] COG1199 Rad3-related DNA helicases
9 14 22 43 --------------||||||-|||||-||||||||||| 43 [LK] COG1200 RecG-like helicase
4 12 14 16 ||||||||||||||------------------------ 45 [L] COG1241 Predicted ATPase involved in replication control, Cdc46/Mcm family
3 11 11 13 ||||||||---|||------------------------ 13 [L] COG1311 Archaeal DNA polymerase II, small subunit/DNA polymerase delta, subunit B
4 5 5 6 ---------------|-----|-||-----|------- 6 [L] COG1315 Predicted polymerase, most proteins contain PALM domain, HD hydrolase domain and Zn-ribbon domain
4 5 9 18 --------------------|||----|||||-|---- 18 [L] COG1330 Exonuclease V gamma subunit
3 7 7 8 |||-||---------|------|--------------- 8 [L] COG1332 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
5 7 7 7 |-----||-|----||--------|------------- 11 [L] COG1336 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
5 10 11 12 |||-||-|||-----||-----|--------------- 17 [L] COG1337 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
7 12 14 15 |||-|-||||-----||--|--|-||------------ 18 [L] COG1343 Uncharacterized protein predicted to be involved in DNA repair
4 4 4 4 ------|-------||--------|------------- 4 [L] COG1367 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
8 12 12 16 -|--||-|--||--|-|||---|-|------------- 77 [L] COG1372 Intein/homing endonuclease
8 13 21 41 ----------------||||||||||||||||||-||| 41 [L] COG1381 Recombinational DNA repair protein (RecF pathway)
2 8 10 11 ||||-||||||--------------------------- 11 [L] COG1389 DNA topoisomerase VI, subunit B
2 6 6 6 ||--||-|-------|---------------------- 6 [L] COG1421 Uncharacterized protein predicted to be involved in DNA repair
3 8 8 9 |||--|||--|---|----------------------- 9 [L] COG1423 ATP-dependent DNA ligase, homolog of eukaryotic ligase III
9 15 23 49 --------------|||||-|||||||||||||||||| 50 [L] COG1466 DNA polymerase III, delta subunit
4 12 14 16 ||||||||||||||------------------------ 17 [L] COG1467 Eukaryotic-type DNA primase, catalytic (small) subunit
7 11 14 15 |||--||-|||---|||--|----||------------ 23 [L] COG1468 RecB family exonuclease
4 10 12 14 |-|||||-||||||------------------------ 41 [LO] COG1474 Cdc6-related protein, AAA superfamily ATPase
5 9 10 23 --|-----------|-------|||||-|---|---|- 125 [L] COG1484 DNA replication protein
9 14 17 23 ---||||||||-|-|||-|----||---||-------- 23 [L] COG1515 Deoxyinosine 3'endonuclease (endonuclease V)
3 5 6 6 -|--||--||----|----------------------- 12 [L] COG1517 Uncharacterized protein predicted to be involved in DNA repair
9 17 21 28 |||-|||||||---|||--|--|-||--|--|-||--- 36 [L] COG1518 Uncharacterized protein predicted to be involved in DNA repair
7 16 17 26 ||-|-|-|---||-|-|-----|-|-||---|-||-|- 50 [L] COG1525 Micrococcal nuclease (thermonuclease) homologs
8 16 20 26 -||-|||||||----|-|-|--|||--|----|--||| 36 [L] COG1533 DNA repair photolyase
8 12 18 31 --|------------|||||--||||-||||||||--- 40 [L] COG1555 DNA uptake protein and related DNA-binding proteins
3 7 7 8 |||-||---------|------|--------------- 8 [L] COG1567 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
8 12 20 41 ---------------||-|||-||||-||||||||||| 42 [L] COG1570 Exonuclease VII, large subunit
11 20 26 39 --|||||-|||---||||||-|||-|----|||||||| 59 [L] COG1573 Uracil-DNA glycosylase
3 8 8 9 |||-|||-------||---------------------- 14 [L] COG1583 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
2 7 9 10 ||-|-||||||--------------------------- 11 [L] COG1591 Holliday junction resolvase - archaeal type
4 12 13 15 ||||||||-|||||------------------------ 26 [L] COG1599 Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins
5 6 6 6 ------||-|----||--------|------------- 7 [L] COG1604 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
4 8 10 14 ||-|-|-||||-----|-----|--------------- 15 [L] COG1637 Predicted nuclease of the RecB family
6 9 15 25 -----------|||----|--||----|||||||-||- 54 [L] COG1643 HrpA-like helicases
5 12 13 22 |||-|||-------|----|-|-||||----------- 24 [L] COG1658 Small primase-like proteins (Toprim domain)
5 5 6 9 --|------|----|--|----------|--|------ 46 [L] COG1662 Transposase and inactivated derivatives, IS1 family
4 8 10 11 |||--||-|||---||---------------------- 15 [L] COG1688 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
4 11 13 14 ||||-|||||||||------------------------ 14 [L] COG1697 DNA topoisomerase VI, subunit A
7 11 19 39 ---------------||-||--||||-||||||||||| 39 [L] COG1722 Exonuclease VII small subunit
4 6 6 7 -----|||--|----|--------------------|- 10 [L] COG1743 Adenine-specific DNA methylase containing a Zn-ribbon
3 3 3 3 ------|-------||---------------------- 3 [L] COG1769 Uncharacterized protein predicted to be involved in DNA repair (RAMP superfamily)
8 19 24 31 |||||||||||||||-------|-|--|--||-||||- 66 [L] COG1793 ATP-dependent DNA ligase
5 8 8 12 |-|-|------||-|---|-----|------------- 12 [L] COG1796 DNA polymerase IV (family X)
4 8 10 11 |||--||-|||---|----|------------------ 17 [L] COG1857 Uncharacterized protein predicted to be involved in DNA repair
1 8 8 10 ||||||||------------------------------ 12 [L] COG1933 Archaeal DNA polymerase II, large subunit
9 15 21 28 --|||----|-----||-||--||||-||-|||||||- 153 [L] COG1943 Transposase and inactivated derivatives
4 11 13 14 ||||-|||||||||------------------------ 18 [L] COG1948 ERCC4-type nuclease
7 12 17 30 ----||--|-------|||---||||-||||-|--||- 84 [L] COG1961 Site-specific recombinases, DNA invertase Pin homologs
7 11 18 32 --|-----------||||-|---|||-|||||||--|| 45 [L] COG2003 DNA repair proteins
8 10 11 18 ----------|--|----|-|||||--|--------|| 19 [L] COG2094 3-methyladenine DNA glycosylase
3 5 6 14 ---------------|---|---||||----------- 14 [L] COG2176 DNA polymerase III, alpha subunit (gram-positive type)
5 10 13 17 ----|-|------------|--|-|||-||-|-||-|- 33 [L] COG2189 Adenine specific DNA methylase Mod
4 12 14 16 ||||||||||||||------------------------ 16 [L] COG2219 Eukaryotic-type DNA primase, large subunit
6 9 9 13 |||-|----|----||--------|---------|--- 13 [L] COG2231 Uncharacterized protein related to Endonuclease III
2 4 6 7 -|---||-|||--------------------------- 11 [L] COG2254 Predicted HD superfamily hydrolase, possibly a nuclease
9 15 23 48 ---------------||||||||||||||||||||||| 49 [L] COG2255 Holliday junction resolvasome, helicase subunit
7 13 20 39 -----------||--|--||--|||||||||||||||- 40 [L] COG2256 ATPase related to the helicase subunit of the Holliday junction resolvase
3 3 5 10 ------------------|-----|--||-|------- 10 [L] COG2356 Endonuclease I
5 7 7 9 -|--||---|------|-----|------|-------- 42 [L] COG2452 Predicted site-specific integrase-resolvase
8 15 21 37 --|-|-|----||---||||--|-|||||-||||-||- 415 [L] COG2801 Transposase and inactivated derivatives
10 16 24 50 --------------|||||||||||||||||||||||| 55 [L] COG2812 DNA polymerase III, gamma/tau subunits
6 8 12 22 --|--------||-----|---||---||-||---||- 23 [L] COG2816 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding
3 5 11 27 ----------------------|-||-||-||||-||- 30 [L] COG2818 3-methyladenine DNA glycosylase
3 6 9 16 ----------------------|-|||-|---||-||- 66 [L] COG2826 Transposase and inactivated derivatives, IS30 family
4 6 10 22 ---|---------------|----||-||-|--|-||- 30 [L] COG2827 Predicted endonuclease containing a URI domain
5 7 9 18 --|-------|----------||---------|-|||| 24 [L] COG2887 RecB family exonuclease
1 2 7 14 ---------------------------|||||||---- 14 [KL] COG2901 Factor for inversion stimulation Fis, transcriptional activator
1 2 6 12 ---------------------------||||||----- 12 [L] COG2925 Exonuclease I
1 3 10 20 ---------------------------|||||||-||| 20 [L] COG2927 DNA polymerase III, chi subunit
2 3 4 5 ------------------------|----||--|---- 10 [L] COG2946 Putative phage replication protein RstA
6 8 13 26 ----|-------------||--|-||-||-|||--||- 233 [L] COG2963 Transposase and inactivated derivatives
1 2 5 11 ----------------------------|-||||---- 11 [L] COG2965 Primosomal replication protein N
1 2 7 13 ---------------------------|||||||---- 13 [L] COG2974 DNA recombination-dependent growth factor C
3 7 9 14 --|||-----------------|-----|-|-||--|- 86 [L] COG3039 Transposase and inactivated derivatives, IS5 family
1 1 3 8 ----------------------------|-||------ 8 [L] COG3050 DNA polymerase III, psi subunit
1 1 3 8 ----------------------------|-||------ 8 [L] COG3057 Negative regulator of replication initiationR
1 1 3 8 ----------------------------|-||------ 8 [L] COG3066 DNA mismatch repair protein
3 4 8 14 -------------------|-----|--||||----|| 16 [L] COG3077 DNA-damage-inducible protein J
4 6 10 19 ------------|---|-----|----||||-|--||- 23 [L] COG3145 Alkylated DNA repair protein
3 4 4 8 ----------------------|-|--|--------|- 18 [L] COG3285 Predicted eukaryotic-type DNA primase
6 8 9 12 --|-------------|||---|--|------|--||- 148 [L] COG3293 Transposase and inactivated derivatives
1 2 2 5 ---------------------------------||--- 6 [L] COG3298 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB
5 8 10 12 -|-|--|-------|-------|-|---||-----||- 37 [L] COG3316 Transposase and inactivated derivatives
6 11 12 18 --|-|----|-------|----|||||-|---|---|- 106 [L] COG3328 Transposase and inactivated derivatives
7 12 14 17 --|-|-|--|------|||---|-||--|---||--|- 155 [L] COG3335 Transposase and inactivated derivatives
3 3 3 3 ------|-------|---------|------------- 3 [L] COG3337 Uncharacterized protein predicted to be involved in DNA repair
7 10 12 16 --|--------|----||-|--|||--||-|-----|- 47 [L] COG3344 Retron-type reverse transcriptase
2 5 5 6 |-||-------------------||------------- 6 [L] COG3359 Predicted exonuclease
6 11 11 11 --|||----|------|||-----|---|---|---|- 183 [L] COG3385 FOG: Transposase and inactivated derivatives
3 3 3 5 -------------------|----|---------|--- 6 [L] COG3392 Adenine-specific DNA methylase
6 7 7 8 ---|--|--|------|-|-----|-----------|- 61 [L] COG3415 Transposase and inactivated derivatives
4 7 7 13 --|||-------------|------|--|-------|- 109 [L] COG3436 Transposase and inactivated derivatives
2 5 6 11 -----------------------||---|---|--||- 17 [L] COG3449 DNA gyrase inhibitor
6 8 9 14 --|-|-----------|--|--|-||------|---|- 98 [L] COG3464 Transposase and inactivated derivatives
7 9 12 19 --|------|------|--|--|-||-||----|-||- 177 [L] COG3547 Transposase and inactivated derivatives
3 5 5 7 -----------||-----|--------|--------|- 8 [L] COG3569 Topoisomerase IB
4 6 9 14 -||--------------|-|-------||-||----|- 15 [L] COG3593 Predicted ATP-dependent endonuclease of the OLD family
3 4 4 4 --------------|----------|---|------|- 4 [L] COG3598 RecA-family ATPase
1 2 3 10 ------------------------|||----------- 10 [L] COG3611 Replication initiation/membrane attachment protein
2 2 3 3 ---------------|--------||------------ 3 [L] COG3649 Uncharacterized protein predicted to be involved in DNA repair
4 7 9 13 --|---------|-----|---------|--|||||-- 13 [L] COG3663 G:T/U mismatch-specific DNA glycosylase
5 7 9 12 --|-------------|--|---|||-|-------||- 67 [L] COG3666 Transposase and inactivated derivatives
2 3 3 4 ---|---------------------------|-|---- 30 [L] COG3676 Transposase and inactivated derivatives
5 8 8 13 --||-|---|-------|-----|----|---|----- 51 [L] COG3677 Transposase and inactivated derivatives
5 5 8 14 ------------|-----|---|-||-||-|------- 14 [L] COG3695 Predicted methylated DNA-protein cysteine methyltransferase
2 2 3 9 ------------------------||--|--------- 10 [L] COG3723 Recombinational DNA repair protein (RecE pathway)
1 3 5 8 ----------------------------|---||-||- 8 [L] COG3727 DNA G:T-mismatch repair endonuclease
2 3 5 10 ------------------------||-||-------|- 16 [L] COG3728 Phage terminase, small subunit
3 4 4 6 ----------------------||-|--|--------- 9 [L] COG3747 Phage terminase, small subunit
2 4 4 5 -|---|-|--|--------------------------- 6 [L] COG3780 DNA endonuclease related to intein-encoded endonucleases
1 2 3 8 -----------------------|||------------ 8 [L] COG3857 ATP-dependent nuclease, subunit B
5 7 7 8 --|----------------|--|||-----|---|--- 8 [L] COG3886 Predicted HKD family nuclease
1 3 4 9 --------------------------------|-|||- 9 [L] COG3893 Inactivated superfamily I helicase
1 1 3 8 ----------------------------|-||------ 8 [L] COG3923 Primosomal replication protein N''
1 2 3 8 -----------------------|||------------ 15 [L] COG3935 Putative primosome component and related proteins
2 3 5 5 -|-----||||--------------------------- 6 [L] COG4080 RecB-family nuclease
1 1 2 7 ------------------------||------------ 7 [L] COG4098 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein)
2 2 2 4 ----------------------|-------------|- 4 [LR] COG4119 Predicted NTP pyrophosphohydrolase
1 2 3 6 ----------------------------||------|- 14 [L] COG4220 Phage DNA packaging protein, Nu1 subunit of terminase
1 2 2 3 -----------------------------|------|- 6 [L] COG4227 Antirestriction protein
4 4 4 5 ------------|---|-|-----|------------- 5 [L] COG4294 UV damage repair endonuclease
2 3 3 3 ------------------------|------|----|- 4 [L] COG4335 DNA alkylation repair enzyme
1 2 3 4 -------------------------------|||---- 4 [L] COG4389 Site-specific recombinase
3 3 4 9 --------------|---------||--|--------- 22 [L] COG4570 Holliday junction resolvase
4 6 6 9 -----------|||--||----|--------------- 16 [L] COG4581 Superfamily II RNA helicase
4 6 6 13 --|-------------------|-|---|---|---|- 97 [L] COG4584 Transposase and inactivated derivatives
3 4 4 5 ------------------|----|----|-------|- 12 [L] COG4644 Transposase and inactivated derivatives, TnpA family
1 2 2 3 ----------------------------------|-|- 4 [KL] COG4646 DNA methylase
5 5 7 8 --|----------------|--|-||----------|| 9 [L] COG4912 Predicted DNA alkylation repair enzyme
1 2 7 13 ---------------------------|||||||---- 13 [L] COG4973 Site-specific recombinase XerC
5 8 15 31 -------------------|-||||--|||||||-||| 37 [L] COG4974 Site-specific recombinase XerD
2 2 3 3 -------||-|--------------------------- 3 [L] COG4998 Predicted endonuclease (RecB family)
2 3 3 3 -----------|||------------------------ 22 [TDBLU] COG5032 Phosphatidylinositol kinase and protein kinases of the PI-3 kinase family
2 3 3 3 -----------|||------------------------ 5 [LDA] COG5049 5'-3' exonuclease
2 3 3 3 -----------|||------------------------ 5 [L] COG5055 Recombination DNA repair protein (RAD52 pathway)
2 3 3 3 -----------|||------------------------ 4 [LD] COG5067 Protein kinase essential for the initiation of DNA replication
2 3 3 3 -----------|||------------------------ 3 [L] COG5142 Oxidation resistance protein
2 3 3 3 -----------|||------------------------ 3 [KL] COG5144 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2
2 3 3 3 -----------|||------------------------ 3 [L] COG5145 DNA excision repair protein
2 3 3 3 -----------|||------------------------ 3 [KL] COG5151 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1
2 3 3 3 -----------|||------------------------ 3 [KLB] COG5165 Nucleosome-binding factor SPN, POB3 subunit
2 3 3 3 -----------|||------------------------ 3 [L] COG5214 DNA polymerase alpha-primase complex, polymerase-associated subunit B
2 3 3 3 -----------|||------------------------ 3 [DKL] COG5220 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3
2 3 3 3 -----------|||------------------------ 3 [L] COG5235 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit
2 3 3 3 -----------|||------------------------ 3 [L] COG5241 Nucleotide excision repair endonuclease NEF1, RAD10 subunit
2 3 3 3 -----------|||------------------------ 3 [KL] COG5242 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4
2 3 3 3 -----------|||------------------------ 9 [L] COG5260 DNA polymerase sigma
2 3 3 3 -----------|||------------------------ 9 [DKL] COG5333 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit
2 2 2 4 ------------------------|----|-------- 5 [L] COG5377 Phage-related protein, predicted endonuclease
2 3 3 3 -----------|||------------------------ 3 [KLB] COG5406 Nucleosome binding factor SPN, SPT16 subunit
2 3 3 3 --|-|-----------|--------------------- 24 [L] COG5421 Transposase
3 4 4 6 ----------------|--------|--|-------|- 33 [L] COG5433 Transposase
3 3 4 7 --|---------------------|---|--|------ 12 [L] COG5519 Superfamily II helicase and inactivated derivatives
2 3 3 4 -----------------------||--------|---- 4 [L] COG5527 Protein involved in initiation of plasmid replication
2 3 3 3 ------------------|-------------|---|- 4 [L] COG5534 Plasmid replication initiator protein
2 3 3 3 -----------|||------------------------ 5 [L] COG5535 DNA repair protein RAD4
2 3 3 3 ----|-|--|---------------------------- 9 [L] COG5558 Transposase
2 3 3 3 -----------|||------------------------ 3 [L] COG5575 Origin recognition complex, subunit 2
2 3 3 3 -----------|||------------------------ 5 [L] COG5600 Transcription-associated recombination protein
2 3 3 3 -----------|||------------------------ 3 [L] COG5627 DNA repair protein MMS21
1 2 2 4 -----------------------||------------- 6 [L] COG5655 Plasmid rolling circle replication initiator protein and truncated derivatives
2 3 3 3 -----------------|--------------|---|- 18 [L] COG5659 FOG: Transposase