Supplementary material for the paper
Origin and evolution of the archaeo-eukaryotic primase superfamily and related palm-domain proteins: structural insights and new members
Lakshminarayan M. Iyer, Eugene V. Koonin, Detlef D. Leipe and L. Aravind
Nucleic Acids Research 2005 33(12):3875-3896
Notes: Listed below are gis, co-occuring domains, protein length, operon structures and species names and additional descriptions for members
of the AEP superfamily. Also provided are gis of relevant members of the DNAG superfamily, the T1p09 like ATPases, the UL9 like helicases
and the SFI-ORF24 like proteins. The operon organization and domain architectures are given for many (not all) proteins. A variety of symbols
were used to distinguish different domains and genes and are listed below.
Notations:
L: DNA ligase
@: Predicted nuclease
Ku: Ku protein
LS: Large subunit of the AEP primases
MCM: MCM like AAA+ ATPases
RT: Reverse transcriptase
DNAB: DNAB like AAA+ ATPase
$: Primase C-terminal domain 2; PriCT-2
$': Primase C-terminal domain 1; PriCT-1
+: UL9 like helicase
~: D5N domain
*: D5 like SFIII ATPase
cys: Cysteine cluster found C-terminal to the AEP primase domain in NCLDV and herpesviruses
&: Operonic neighbor of D5N+D5
=: SFI-ORF24 like protein
II: SFII helicase
RecA: RecA like ATPase
Inac: Inactive primase
T1: Phage T1p09 like AAA ATPase
A18R: A18R like superfamily II helicase
|: operonic with a small protein of uncharacterized provenance
%: N-terminal Primase like finger
DNAG: DNAG like primase
1. AEP clade
^^^^^^^^^^^^^^
# NHEJ primase family *Primase fused to a ATP dependent DNA ligase at its N-terminus ; @- predicted nuclease note solo version in 21225629
GI fused domains length operons Species and additional descriptions
21111054 L @ 1001 Ku Xanthomonas_campestris_pv._campestris_str._atcc_33913
21229583 L @ 1001 Ku Xanthomonas_campestris_pv._campestris_str._atcc_33913
48783858 L @ 1001 Ku Burkholderia fungorum LB400
46324277 L @ 993 Ku Burkholderia cepacia R1808
53723228 1159 putative ATP-dependent DNA ligase Burkholderia pseudomallei K96243
16119283 L @ 941 Ku Agrobacterium_tumefaciens_str._c58_cereon
39650568 L @ 914 Ku Rhodopseudomonas palustris CGA009
39936712 L 914 Ku Rhodopseudomonas palustris CGA009
45518437 L @ 901 Ku Ralstonia eutropha JMP134
48853691 L @ 896 Ku Cytophaga_hutchinsonii
27381884 L @ 892 Ku Bradyrhizobium_japonicum_usda_110
17938643 L @ 884 Ku Agrobacterium_tumefaciens_str._c58_u._washington
13488470 L @ 883 Ku Mesorhizobium_loti
46193563 L @ 875 Rhodobacter_sphaeroides
21108669 L 872 Xanthomonas_axonopodis_pv._citri_str._306
21243148 L @ 872 Xanthomonas_axonopodis_pv._citri_str._306
47572438 L @ 867 Rubrivivax gelatinosus PM1
46188919 L @ 866 Ku Pseudomonas_syringae_pv._syringae_b728a
15966496 L @ 865 Sinorhizobium_meliloti
28853873 L 851 Ku Pseudomonas_syringae_pv._tomato_str._dc3000
36958970 L @ 850 Ku Rhizobium_sp_ngr234
21113450 L 849 Xanthomonas_campestris_pv._campestris_str._atcc_33913
21231745 L @ 849 Xanthomonas_campestris_pv._campestris_str._atcc_33913
48733014 L @ 848 Pseudomonas_fluorescens_pfo-1
45915696 L @ 845 Ku Mesorhizobium sp. BNC1
48849545 L @ 843 Ku Novosphingobium aromaticivorans DSM 12444
9948155 L 840 Pseudomonas_aeruginosa_pao1
15597334 L @ 840 Pseudomonas_aeruginosa_pao1
32042242 L @ 840 Pseudomonas_aeruginosa_ucbpp-pa14
13471944 L @ 833 Ku Mesorhizobium_loti
24984896 L 833 Ku Pseudomonas_putida_kt2440
26989978 L @ 833 Ku Pseudomonas_putida_kt2440
13473868 L @ 829 Ku Mesorhizobium_loti
46447467 L @ 828 Parachlamydia sp. UWE25
33601821 L @ 820 Ku Bordetella bronchiseptica RB50
16265140 L @ 818 Ku Sinorhizobium_meliloti
23114519 L 818 Desulfitobacterium_hafniense
46131219 L @ 788 Ralstonia eutropha JMP134
29542491 L 781 Ku Coxiella_burnetii_rsa_493
29655219 L @ 781 Ku Coxiella_burnetii_rsa_493
17938321 L @ 771 Ku Agrobacterium_tumefaciens_str._c58_u._washington
42523710 L @ 740 Ku Bdellovibrio bacteriovorus HD100
16264364 L 636 Sinorhizobium_meliloti
54033199 882 COG1793: ATP-dependent DNA ligase Polaromonas sp. JS666
52006132 846 COG1793: ATP-dependent DNA ligase Thiobacillus denitrificans ATCC 25259
53686192 801 COG1793: ATP-dependent DNA ligase Desulfitobacterium hafniense DCB-2
15890358 771 Hypothetical protein AGR_L_502 Agrobacterium tumefaciens str. C58
56479238 742 ATP-dependent DNA ligase Azoarcus sp. EbN1
52079887 616 ATP-dependent DNA ligase Bacillus licheniformis ATCC 14580
56963366 602 Hypothetical protein ABC1601 Bacillus clausii KSM-K16
54022644 808 Putative ATP-dependent DNA ligase Nocardia farcinica IFM 10152
31792127 759 POSSIBLE ATP DEPENDANT DNA LIGASE (ATP DEPENDANT POLYDEOXYRIBONUCLEOTIDE SYNTHASE) (THERMOSTABLE DNA LIGASE) (ATP DEPENDANT POLYNUCLEOTIDE LIGASE) (SEALASE) (DNA REPAIR ENZYME) (DNA JOINASE) Mycobacterium bovis AF2122/97
15614772 L 611 Ku Bacillus_halodurans
16078405 L 611 Ku Bacillus_subtilis_subsp._subtilis_str._168
23100489 L 595 Ku Oceanobacillus_iheyensis_hte831
## 14 primase-X-ligase order different primase fused to a predicted nuclease (marked as @)and a DNA ligase
41406978 @L 764 Ku Mycobacterium avium subsp. paratuberculosis str. k10
15608078 @L 759 Ku Mycobacterium_tuberculosis_h37rv fused to a DNA ligase
15840361 @L 759 Ku Mycobacterium_tuberculosis_cdc1551 fused to
## 3 Primase solo mostly operonic with DNa ligase one case operonic with Reverse transcriptase
46364634 341 Kineococcus radiotolerans SRS30216 op with ATP dep. DNA ligase (46364635)
46365537 408 Kineococcus radiotolerans SRS30216
45915588 301 Mesorhizobium sp. BNC1 island
49236469 306 Moorella thermoacetica ATCC 39073 island
49236486 312 Moorella thermoacetica ATCC 39073 island
41406438 342 Mycobacterium avium subsp. paratuberculosi op with ATP dep. DNA ligase (41406439)
41409811 426 Mycobacterium avium subsp. paratuberculosi op with a NarU transporter
31791447 397 Mycobacterium_bovis_subsp._bovis_af2122_97 in the vicinity of a NarU like transporter
15843351 346 Mycobacterium_tuberculosis_cdc1551 op with ATP dep. DNA ligase (15843352)
15839650 394 Mycobacterium_tuberculosis_cdc1551
15607410 397 Mycobacterium_tuberculosis_h37rv op with a NarU transporter
29828238 338 Streptomyces_avermitilis_ma-4680 op with ATP dep. DNA ligase (29828239)
5139565 341 Streptomyces_coelicolor_a3_2 op with 5139563 (ATP dependent DNA ligase)
21224801 319 Streptomyces_coelicolor_a3_2 3861430
21225003 341 Streptomyces_coelicolor_a3_2 op with ATP dep. DNA ligase (21225001)
51892933 307 Ku Symbiobacterium thermophilum IAM 14863 op with Retron Reverse Transcriptase (51892932) in the vicinity of ATP dependent DNA ligase (51892935) 51892936
5139598 293 Streptomyces_coelicolor_a3_2 operonic with Ku
21223671 293 Streptomyces_coelicolor_a3_2 operonic with Ku
29829488 293 Streptomyces_avermitilis_ma-4680 operonic with Ku
15610866 918 Hypothetical protein Rv3730c Mycobacterium tuberculosis H37Rv
54024528 346 Hypothetical protein nfa25590 Nocardia farcinica IFM 10152
54023332 333 Hypothetical protein nfa13650 Nocardia farcinica IFM 10152
54026348 320 Hypothetical protein nfa43770 Nocardia farcinica IFM 10152
16262675 330 Sinorhizobium_meliloti >16262675|ref|NP_435468.1| conserved hypothetical protein Sinorhizobium meliloti
Archaeo-eukaryotic primase family
## Eukaryotic primase subfamily
31215873 433 Anopheles_gambiae_str._pest 55238877 408 ENSANGG00000017925_Anga_55238877 Anopheles gambiae str. PEST ENSANGP00000020414
48098131 556 Apis_mellifera
10177372 407 Arabidopsis_thaliana
40744428 521 Aspergillus_nidulans_fgsc_a4
17554400 410 Caenorhabditis_elegans, F58A4.4
32452969 318 Caenorhabditis_elegans 17555268 412 3B492_Ce_17555268 Caenorhabditis_elegans
39590788 411 Caenorhabditis_briggsae
46444047 452 Candida_albicans_sc5314
50293547 410 Candida glabrata CBS138 49528498 410 CAGL0L09471g_Cgla_49528498 Candida glabrata CBS138 unnamed protein product
57092421 723 Canis familiaris PREDICTED: similar to DNA primase small subunit (DNA primase 49 kDa subunit) (p49)
30984125 416 Coprinopsis_cinerea 57207862 243 Pri1p_Ccin_57207862 Coprinopsis cinerea DNA primase
57227461 429 Cryptococcus neoformans var. neoformans JEC21 conserved hypothetical protein
50258107 429 Cryptococcus neoformans var. neoforman
54655360 192 Cryptosporidium hominis small subunit DNA primase
46226731 402 Cryptosporidium_parvum
41393065 425 Danio_rerio
50421069 440 Debaryomyces hansenii CBS767 49654746 440 DEHA0D15114g_Dhan_49654746 Debaryomyces hansenii CBS767
54641085 438 Drosophila pseudoobscura GA20108 -PA
24660826 438 Drosophila melanogaster CG7108-PA 17945575 438 DNApol-alpha50_Dm_17945575 Drosophila_melanogaster 666989 438 _Dm_666989 Drosophila_melanogaster 627159 438 _Dm_627159 Drosophila_melanogaster
19173389 298 Encephalitozoon_cuniculi >19173389|ref|NP_597192.1| DNA POLYMERASE ALPHA COMPLEX Encephalitozoon cuniculi
56465902 365 Entamoeba histolytica HM-1:IMSS DNA primase small subunit, putative
56474331 372 Entamoeba histolytica HM-1:IMSS DNA primase small subunit, putative
56467819 361 Entamoeba histolytica HM-1:IMSS DNA primase small subunit, putative
45184841 436 Eremothecium_gossypii 44980450 436 AAR018W_Agos_44980450 Eremothecium_gossypii
50803347 212 Gallus_gallus >50803347|ref|XP_424273.1| PREDICTED: similar to DNA primase small subunit (DNA primase 49 kDa subunit) (p49) Gallus gallus
29246206 449 Giardia_lamblia_atcc_50803, GLP_228_30110_28761 >29246206|gb|EAA37812.1| GLP_228_30110_28761 Giardia lamblia ATCC 50803
42552113 498 Gibberella_zeae_ph-1
4506051 420 Homo_sapiens 2353692 50 Homo_sapiens >2353692|gb|AAC51726.1| DNA primase 1 Homo sapiens
50304201 436 Kluyveromyces lactis NRRL Y-1140
38102378 507 Magnaporthe grisea 70-15
22037275 441 Moneuplotes_crassus
6679459 417 Mus_musculus 110830 417 _Mmus_110830 Mus_musculus
32421129 576 Neurospora_crassa
42601437 391 Oikopleura_dioica
47777403 166 Oryza_sativa_japonica_cultivar-group >47777403|gb|AAT38037.1| unknown protein Oryza sativa (japonica cultivar-group)
55167985 166 Oryza sativa (japonica cultivar-group) unknown protein
55638287 820 Pan troglodytes PREDICTED: similar to unactive progesterone receptor, 23 kD; likely ortholog of mouse telomerase binding protein, p23
56511894 126 /Plasmodium chabaudi small subunit DNA primase, putative \possibly separated by introns
56524942 143 \Plasmodium chabaudi hypothetical protein PC000150.02.0 /
56486937 142 Plasmodium berghei hypothetical protein PB301421.00.0
56501173 368 Plasmodium berghei small subunit DNA primase, putative
23509588 452 Plasmodium_falciparum_3d7
23481440 435 Plasmodium_yoelii_yoelii
3676248 415 Rattus_norvegicus 56789492 296 Prim1_Rnor_56789492 Rattus norvegicus DNA primase, p49 subunit
6322198 409 Saccharomyces_cerevisiae 4225 409 _Sc_4225 Saccharomyces_cerevisiae
2440193 454 Schizosaccharomyces_pombe 19114677 454 SPAC6B12.10c_Sp_19114677 Schizosaccharomyces_pombe
45708855 420 Silurana_tropicalis
47182664 145 Tetraodon_nigroviridis >47182664|emb|CAG14143.1| unnamed protein product Tetraodon nigroviridis
19920257 394 Trypanosoma_cruzi
46098969 492 Ustilago_maydis_521
29612475 420 Xenopus_laevis
50546577 441 Yarrowia lipolytica CLIB99 49646624 441 YALI0B11396g_Ylip_49646624 Yarrowia lipolytica CLIB99
## Archaeal primase subfamily --Done , Most common neighbors L44, S27, eIF2 (superoperon members)
2649873 360 Archaeoglobus_fulgidus_dsm_4304
11498348 360 Archaeoglobus_fulgidus_dsm_4304
34395917 335 Archaeoglobus_fulgidus
34395815 333 Thermoplasma_volcanium
13541952 332 Thermoplasma_volcanium
16082576 327 Thermoplasma_acidophilum
10640290 322 Thermoplasma_acidophilum
18313779 312 Pyrobaculum_aerophilum_str._im2
34395977 391 Halobacterium_sp_nrc-1
15790470 424 Halobacterium_sp_nrc-1
21227913 414 Methanosarcina_mazei_goe1
20906332 414 Methanosarcina_mazei_goe1
20089535 414 Methanosarcina_acetivorans_c2a
41719040 390 Methanococcoides burtonii DSM 6242
48840381 414 Methanosarcina barkeri str. fusaro
48852137 374 Ferroplasma_acidarmanus
48477874 370 Picrophilus torridus DSM 9790
15897915 330 Sulfolobus_solfataricus
15921179 323 Sulfolobus_tokodaii
14600710 353 Aeropyrum_pernix
47169421 366 Pyrococcus_horikoshii
11360907 357 Thermophilic_archaeon_bonch-osmolovskaya
18976482 347 Pyrococcus_furiosus_dsm_3638
14590130 346 Pyrococcus_horikoshii
14520400 345 Pyrococcus_abyssi
2621663 323 Methanothermobacter_thermautotrophicus_str._delta_h
15678613 323 Methanothermobacter_thermautotrophicus_str._delta_h
45047194 357 Methanococcus_maripaludis
45357634 357 Methanococcus maripaludis S2
2128540 355 Methanocaldococcus_jannaschii
15669029 350 Methanocaldococcus_jannaschii
3342819 357 Thermophilic archaeon 'Bonch-Osmolovskaya'
41615183 LS 393 Nanoarchaeum equitans Kin4-M fused to the large subunit >41615183|ref|NP_963681.1| NEQ395 Nanoarchaeum equitans Kin4-M
19886998 316 Methanopyrus_kandleri_av19
34395795 296 Methanopyrus_kandleri
1522639 441 Methanocaldococcus_jannaschii plasmid, operonic with MCM different from above >1522639|gb|AAC37065.1| M. jannaschii predicted coding region MJECS07 Methanococcus jannaschii
56295568 400 Eukaryotic type DNA primase, small subunit uncultured archaeon
55377204 392 Eukaryotic-type DNA primase small subunit Haloarcula marismortui ATCC 43049
57160050 346 Eukaryotic-type DNA primase, small subunit Thermococcus kodakaraensis
14325383 333 Thermoplasma volcanium GSS1 DNA primase 49 KD subunit
---Versions closer to Archaeal versions-----
# 33 fused to an MCM and large primase subunit
29895550 LS MCM 1028 Bacillus_cereus_atcc_14579 Bacteriophage phBC6A51 primase fused to an MCM like AAA+ ATPase
30020005 LS MCM 1028 Bacillus cereus ATCC 14579 MCM domain family protein
42524098 RT 1572 Bdellovibrio bacteriovorus HD100 primase fused to a reverse transcriptase
32477383 322 DNAB pirellula_sp, operonic with DNAB >32477383|ref|NP_870377.1| hypothetical protein Pirellula sp.
# 2 Lef1 like primase family Baculovirus primase - Lef-1 -done
9630822 270 Bombyx_mori_nuclear_polyhedrosis_virus
23476523 267 Rachiplusia_ou_multiple_nucleopolyhedrovirus
1170750 266 Autographa_californica_nucleopolyhedrovirus
46309390 253 Agrotis_segetum_granulovirus
11036850 251 Plutella_xylostella_granulovirus
15213136 251 Epiphyas_postvittana_nucleopolyhedrovirus
37574038 251 Choristoneura_fumiferana_def_nucleopolyhedrovirus
30387246 246 Choristoneura_fumiferana_mnpv
8745504 245 Helicoverpa_armigera_nuclear_polyhedrosis_virus
15426381 245 Helicoverpa_armigera_nuclear_polyhedrosis_virus
18028698 245 Helicoverpa_zea_single_nucleocapsid_nucleopolyhedrovirus
1911259 243 Orgyia_pseudotsugata_multicapsid_nucleopolyhedrovirus
37039664 242 Ecotropis_obliqua_nuclear_polyhedrosis_virus
6175726 238 Xestia_c-nigrum_granulovirus
14591829 235 Cydia_pomonella_granulovirus
33622266 235 Cryptophlebia_leucotreta_granulovirus
3822358 234 Lymantria_dispar_nucleopolyhedrovirus
21637047 233 Phthorimaea_operculella_granulovirus
32526756 233 Adoxophyes_orana_granulovirus
15553333 231 Spodoptera_litura_nucleopolyhedrovirus
29567209 226 Adoxophyes_honmai_nucleopolyhedrovirus
6960474 216 Spodoptera_exigua_nucleopolyhedrovirus
20043308 215 Mamestra_configurata_nucleopolyhedrovirus
22476611 215 Mamestra_configurata_nucleopolyhedrovirus_b
33331746 215 Mamestra_configurata_nucleopolyhedrovirus_a
22138092 159 Spodoptera_littoralis_nucleopolyhedrovirus
48843694 211 Neodiprion lecontei nucleopolyhedrovirus
48843602 190 Neodiprion_sertifer_nucleopolyhedrovirus
15278301 235 Culex_nigripalpus_baculovirus
3745841 270 Bombyx mori nuclear polyhedrosis virus LEF-1=AcMNPV orf14
57233517 90 Antheraea pernyi nucleopolyhedrovirus late expression factor 1
--------------------------------------------------------------------------------------------------------------------
2. NCLDV/Herpesvirus primase clade
----
# $ fused to PriCT2, + UL9 like helicase
9366817 $ 1249 Trypanosoma_brucei
5852135 $ 679 Leishmania_major
3063549 $ 633 Trypanosoma_cruzi
# 10 D5 like primase ~: D5N * : fused to a D5 ATPase, + fused to a UL9 like helicase, $, PriCT2, cys fused to the cysteine cluster
19773719 ~*$ 921 Infectious_spleen_and_kidney_necrosis_virus
13358409 ~*$ 874 Lymphocystis_disease_virus_1
51870034 ~*$ 865 Lymphocystis disease virus - isolate China
37722513 ~*$ 975 Ambystoma tigrinum stebbensi virus
49237319 ~*$ 973 Frog_virus_3
2738452 ~*$ 971 Chilo_iridescent_virus
9628179$ ~*$ 962 African_swine_fever_virus
42517401 ~*$ 968 Singapore grouper iridovirus
55819086 $ 582 Mimivirus (apparent neighbor of D5 ATPase)
9628155 + cys 1055 African_swine_fever_virus fused to a UL9 like helicase, 420401 1102 african_swine_fever_virus
55818889 + cys 1052 55818889 helicase similar to origin binding protein Mimivirus C-terminal cysteine cluster
cys 55818882 + 795 N-terminal Cys cluster Mimivirus fused to a UL9 helicase and a mimivirus specific alpha helical domain at the C
41057504 cys~* 788 Bovine_papular_stomatitis_virus
19718057 cys~* 785 Camelpox_virus_cms
18483018 cys~* 785 Camelpox_virus_m-96
40556020 cys~* 794 Canarypox_virus
20153103 cys~* 785 Cowpox_virus
30519484 cys~* 785 Cowpox_virus
22123840 cys~* 785 Ectromelia_virus
61228 cys~* 791 Fowlpox_virus
22595618 cys~* 786 Lumpy_skin_disease_virus
22595776 cys~* 786 Lumpy_skin_disease_virus
1492037 cys~* 791 Molluscum_contagiosum_virus_subtype_1
17529882 cys~* 785 Monkeypox_virus
6523935 cys~* 786 Myxoma_virus
41023349 cys~* 791 Fowlpox virus (isolate HP-438 Munich )
30230665 cys~* 781 Orf_virus , FRAGmenT:924983 30 Orf virus
41018555 cys~* 787 Orf_virus
41057131 cys~* 787 Orf_virus
6578610 cys~* 786 Rabbit_fibroma_virus
320288 cys~* 786 Rabbit_fibroma_virus
46402000 cys~* 785 Rabbitpox_virus
21492536 cys~* 786 Sheeppox_virus
18448573 cys~* 786 Swinepox_virus
9791038 cys~* 785 Vaccinia_virus 12831533 Vaccinia virus
2772775 cys~* 785 Vaccinia_virus, 938301 60 Vaccinia virus
29692216 cys~* 785 Vaccinia_virus
6969760 cys~* 785 Vaccinia_virus_strain_tian_tan
5830656 cys~* 785 Variola_minor_virus
2120039 cys~* 785 Variola_virus
9627616 cys~* 785 Variola_virus
12056242 cys~* 786 Yaba-like_disease_virus
38000516 cys~* 786 Yaba_monkey_tumor_virus
4049849 cys~* 834 Melanoplus_sanguinipes_entomopoxvirus
9964401 cys~* 726 Amsacta_moorei_entomopoxvirus
13876693 cys 84 Lumpy_skin_disease_virus
# Solo primases the D5, ATPases of these viruses are fused to a D5N domain
55819407 cys 470 Mimivirus, 55819085 (Mimivirus D5 has a D5N), MIMI_L537
55819660 cys 364 Mimivirus hypothetical protein MIMI_L794 Mimivirus ,MIMI_L794
38683693 cys 586 Feldmannia irregularis virus a
13177327 cys 566 Ectocarpus_siliculosus_virus
1620139 cys 443 A468R Paramecium bursaria Chlorella virus 1, In PBCV A456L is the D5 ATPase
# 11 D5 like Eukaryotic primase, C-terminal cysteine cluster
22749373 cys 560 Homo_sapiens
50746467 cys 557 Gallus_gallus
47564100 cys 537 Mus_musculus
34878429 cys 499 Rattus_norvegicus
47219988 cys 443 Tetraodon_nigroviridis
26326769 cys 328 Mus_musculus
10177094 cys 618 Arabidopsis_thaliana
50509466 cys 612 Oryza_sativa_japonica_cultivar-group
23509271 cys 1025 Plasmodium_falciparum_3d7
23483897 cys 815 Plasmodium_yoelii_yoelii
46228152 cys 502 Cryptosporidium_parvum
48098405 cys 405 Apis_mellifera
28829960 cys 140 Dictyostelium_discoideum
48696728 + cys 1181 Ostreid herpesvirus 1 fused to a UL9 like SF II helicase
48696769 + cys 1138 Ostreid herpesvirus 1 fused to a UL9 like SF II helicase
# 12 Herpesvirus primase
48696782 Ostreid herpesvirus 1 ORF66
40787874 cys 1085 Bovine_herpesvirus_5 40787874 UL52 component of DNA helicase/primase complex Bovine herpesvirus 5
2653295 cys 1074 Bovine_herpesvirus_type_1.1 2653295 component of DNA helicase/primase complex Bovine herpesvirus type 1.1
28804689 cys 1058 Cercopithecine_herpesvirus_1 28804689 component of DNA helicase-primase complex Cercopithecine herpesvirus 1
30844295 cys 1058 Cercopithecine_herpesvirus_1 30844295 component of helicase-primase complex Cercopithecine herpesvirus 1
11036606 cys 1081 Cercopithecine_herpesvirus_7 11036606 AF275348_56 DNA helicase-primase complex component Cercopithecine herpesvirus 7
50313248 cys 1081 Equine_herpesvirus_1 50313248 ORF 7 Equid herpesvirus 1
9629799 cys 1080 Equine_herpesvirus_4 9629799 7 Equid herpesvirus 4
4115414 cys 1071 Gallid_herpesvirus_1 4115414 UL52 protein Gallid herpesvirus 1
9635087 cys 1075 Gallid_herpesvirus_2 9635087 UL52 Gallid herpesvirus 2
10180758 cys 1074 Gallid_herpesvirus_2 10180758 AF243438_61 UL52 DNA helicase-primase-like protein associated protein Gallid herpesvirus 2
59552 cys 1058 Human_herpesvirus_1 59552 UL52 Human herpesvirus 1
1869876 cys 1066 Human_herpesvirus_2 1869876 UL52 Human herpesvirus 2
9625881 cys 1083 Human_herpesvirus_3 9625881 primase Human herpesvirus 3
11095886 cys 1078 Meleagrid_herpesvirus_1 11095886 AF282130_56 UL52 DNA helicase/primase complex protein Meleagrid herpesvirus 1
993017 cys 958 Pseudorabies_virus 993017 UL52 Suid herpesvirus 1 strain Kaplan
51557488 cys 962 Pseudorabies_virus 51557488 UL52 protein; primase subunit of the heterotrimeric UL5/UL8/UL52 helicase-primase complex Suid herpesvirus 1
2338019 cys 837 Alcelaphine_herpesvirus_1 primase Alcelaphine herpesvirus 1
4019283 cys 835 Ateline_herpesvirus_3 primase Ateline herpesvirus 3
12802583 cys 843 Bovine_herpesvirus_4 3 AF318573_55 DNA replication protein Bovine herpesvirus 4
24943142 cys 840 Callitrichine_herpesvirus_3 2 ORF50 Callitrichine herpesvirus 3
51518033 cys 874 Cercopithecine_herpesvirus_15 3 BSLF1 Cercopithecine herpesvirus 15
9628059 cys 884 Equine_herpesvirus_2 DNA helicase-primase complex component Equid herpesvirus 2
9625608 cys 874 Human_herpesvirus_4 DNA helicase-primase complex component Human herpesvirus 4
2246489 cys 843 Human_herpesvirus_8 DNA replication protein Human herpesvirus 8
18653862 cys 828 Macaca_mulatta_rhadinovirus 2 DNA replication protein Cercopithecine herpesvirus 17
9629585 cys 835 Murid_herpesvirus_4 DNA replication protein Murid herpesvirus 4
30348560 cys 835 Saimiriine_herpesvirus_2 0 primase Saimiriine herpesvirus 2
6689295 cys 543 Saimiriine_herpesvirus_2 hypothetical protein Saimiriine herpesvirus 2
9626011 cys 835 Saimiriine_herpesvirus_2 ORF 56~EDRF4~sim. to other HV Saimiriine herpesvirus 2
1780848 cys 1062 Human_herpesvirus_5 HCMVUL70 Human herpesvirus 5
19881089 cys 984 Chimpanzee_cytomegalovirus AF480884_61 DNA helicase-primase complex protein UL70 chimpanzee cytomegalovirus
14210752 cys 970 Tupaia_herpesvirus T70 Tupaia herpesvirus
291528 cys 964 Mouse_cytomegalovirus_1 helicase/primase
31377976 cys 950 Rhesus_cytomegalovirus_strain_68-1 rh100 Rhesus cytomegalovirus strain 68-1
27808796 cys 946 Human_herpesvirus_5 TPA: UL70 Human herpesvirus 5
39842080 cys 946 Human_herpesvirus_5 UL70 Human herpesvirus 5
44903282 cys 946 Human_herpesvirus_5 UL70 Human herpesvirus 5
9845352 cys 936 Rat_cytomegalovirus pR70 Murid herpesvirus 2
51874265 cys 861 Human_herpesvirus_7 primase Human herpesvirus 7
405161 cys 860 Human_herpesvirus_6b U43 Human herpesvirus 6B
9628345 cys 860 Human_herpesvirus_6 helicase /primase complex Human herpesvirus 6
34500205 cys 1293 Psittacid_herpesvirus_1
6065853 cys 1110 Gallid_herpesvirus_1
11878253 cys 312 Pseudorabies_virus_ea
11527594 cys 220 Marek_s_disease_herpesvirus_strain_ga
138079 cys 662 Ictalurid_herpesvirus_1
1857421 cys 494 Gallid_herpesvirus_1
1311489 cys 262 Phocid_herpesvirus_2
1066182 cys 144 Canine_herpesvirus
3. Prim-pol clade
A. Primpol family
## Primase-polymerases, next to CopG
1930088C *~ 979 Sulfolobus_islandicus
3059074 ~* 909 Acidianus_ambivalens
1345114 ~* 904 Sulfolobus_islandicus, 42543570: sulfolobus_islandicus (pdb:1RNI), 42543572: sulfolobus_islandicus (pdb: 1RO2)
15921192 ~* 902 Sulfolobus_tokodaii
11137542 ~* 896 Sulfolobus_islandicus
15920509 ~* 862 Sulfolobus_tokodaii
7288084 ~* 699 Sulfolobus_islandicus
15897097 405 Sulfolobus_solfataricus
48853281 ~* 980 Ferroplasma_acidarmanus
48477428 ~* 1004 Picrophilus torridus DSM 9790, pass 3
31983840 896 RepA protein Sulfolobus islandicus
56562187 866 Sulfolobus neozealandicus
49188486 915 Sulfolobus solfataricus
# Primase solo domain that is usually fused to D5 in other proteins and is a neighbor of D5 in these,
$': PRICT-1, &:Neighbor of D5 ATPase that is usually fused to D5N, operonic with "=" SFI-ORF24 like protein and a II: SFII helicase
18266757 $' 292 Staphylococcus_aureus
31616151 $' 290 Staphylococcus_aureus
11094389 $' 289 Staphylococcus_aureus
15625519 $' 289 & Staphylococcus_aureus neighbor of 15625518: D5 like AAA+ ATPase, (note distinct nature of AAA+)
15923780 289 & Staphylococcus_aureus_subsp._aureus_mu50 neighbor of 15923781: D5 like AAA+
15925012 289 Staphylococcus_aureus_subsp._aureus_mu50
49482607 $' 289 Staphylococcus aureus subsp. aureus MRSA252
14246559 $' 289 Staphylococcus aureus subsp. aureus Mu50 Hypothetical protein
15927597 289 Staphylococcus aureus subsp. aureus N315 Hypothetical protein SA1829
57284355 289 Staphylococcus aureus subsp. aureus COL Pathogenicity island protein
15675883 285 & Streptococcus_pyogenes_m1_gas, neighbor of 15675884 D5N, D5 like AAA+ ATPase
50915162 $' 285 & Streptococcus pyogenes MGAS10394, neighbor of 50915163: D5N D5 like AAA+ ATPase
455527 $' 271 & Streptococcus_thermophilus_bacteriophage_sfi18, neighbor of 455527: D5 like AAA+ ATPase 455528 277 Streptococcus thermophilus bacteriophage SFi18 no primase, D5N 455528 277 Streptococcus thermophilus bacteriophage SFi18 no primase, D5N
4530171 271 &II Streptococcus_thermophilus_bacteriophage_dt1, neighbor 4530172: D5 like AAA+ ATPase
5524054 $' 271 II&= Streptococcus_thermophilus_bacteriophage_sfi21, neigbor 5524055:D5 like AAA+ and D5N (trunc)
7523555 $' 271 &=II Streptococcus_thermophilus_bacteriophage_sfi11 neighbor of 7523556: D5N D5 like AAA+ ATPase
28895435 $' 270 II Streptococcus_pyogenes_ssi-1
2444092 $' 269II = Streptococcus_thermophilus_temperate_bacteriophage_o1205
9885250 $' 268&= II Lactococcus_bacteriophage_phi31, neighbor of 9885251: D5N D5 like AAA+ ATPase
50591499 $' 268 &= Streptococcus suis 89/1591 , neighbor of 50591498: D5 like AAA+ ATPase, D5N
28876423 $' 267 &=II Streptococcus_pyogenes_phage_315.5, neighbor of 28876421: D5 like AAA+ ATPase and 28876422: D5N solo, op with 28876424 =
32481504 $' 236 Streptococcus_suis
28895807 $' 195 & II Streptococcus_pyogenes_ssi-1
50590369 $' 259 & Streptococcus suis 8 neighbor of 50590370: D5N D5 like AAA+ ATpase
27764346 $' 287 Streptococcus thermophilus
19746259 $' 293 =II Streptococcus_pyogenes_mgas8232 >19746259|ref|NP_607395.1| hypothetical phage protein Streptococcus pyogenes MGAS8232
55822743 $' 286 Replication protein, phage-plasmid associated Streptococcus thermophilus CNRZ1066
56808602 $' 285 Hypothetical protein SpyoM01000395 Streptococcus pyogenes M49 591
9632451 $' 271 = Hypothetical protein DT1p35 Streptococcus thermophilus bacteriophage DT1
48825867 $' 282 Enterococcus_faecium neighbor of 48825866 (D5 like AAA+ ATPase), pass 3
971479 $' 318 & Lactobacillus delbrueckii neighbor of 971480: D5N, D5 like AAA+ ATpase
28379720 $' 259 & Lactobacillus_plantarum_wcfs1, neighbor of 28379719 D5N D5 like AAA+ ATPase
28379033 $' 266 Lactobacillus_plantarum_wcfs1, pass 3
15672012 $' 264 Lactococcus_lactis_subsp._lactis , neigbor of 15672011: D5N, D5 like AAA+ ATpase, pass 4
## fused to D5 like AAA+, operonic with "=" possible origin binding protein, and a SFII helicase
22855035 ~* 806 = Bacteriophage phi-105
48858577 $ 843 ** Distinct AAA+ clostridium_thermocellum_atcc_27405 >48858577|ref|ZP_00312528.1| COG4983: Uncharacterized conserved protein Clostridium thermocellum ATCC 27405
48890249 $ 498 Trichodesmium erythraeum IMS101
56963140 Bacteriophage phi-105
52005139 ~* 805 Bacillus licheniformis ATCC 14580 , 52787314 >52787314|ref|YP_093143.1| hypothetical protein BLi03629 Bacillus licheniformis DSM 13
6599326 ~* 770 =II Lactobacillus casei bacteriophage A2
5730280 ~* 771 = Lactobacillus bacteriophage phi adh
16801649 ~* 757 =II Listeria innocua Clip11262 op with 16801650 (A little protein)
17402460 ~* 757 =II Bacteriophage PSA op with =
15789518 $~ 857 Halobacterium_sp_nrc-1 >15789518|ref|NP_279342.1| Vng0215c Halobacterium sp. NRC-1
15674737 $ 757 II Streptococcus_pyogenes_m1_gas >15674737|ref|NP_268911.1| hypothetical protein, phage associated Streptococcus pyogenes
20090414 $' 729 Methanosarcina_acetivorans_c2a >20090414|ref|NP_616489.1| hypothetical protein (multi-domain) Methanosarcina acetivorans str. C2A
## fused to a D5 like AAA+
50914497 $'~* 761 II Streptococcus pyogenes MGAS10394, op with a SWI/SNF2 like SFII helicase 50914495
50843066 $'~*C 752 II Propionibacterium acnes KPA171202 , operonic with a SWI/SNF2 like SFII helicase
23003015 $' 749 lactobacillus_gasseri, 52857990 >52857990|ref|ZP_00046685.2| COG3378: Predicted ATPase Lactobacillus gasseri
52857990 788 Lactobacillus gasseri
57233571 $' 757 Dehalococcoides ethenogenes 195
##
29374967 812 II Enterococcus faecalis V583, operonic with a SFII helicase 29374969
49483702 815 II Staphylococcus aureus subsp. aureus MRSA252 49483700 SWI/SNFII like SFII helicase
21283137 815 II Staphylococcus aureus subsp. aureus MW2 , 21283134 SWI/SNFII like SF II helicase
49485832 815 II Staphylococcus aureus subsp. aureus MSSA476, op with a SWI/SFII helicase 49485834
28876472 794 II Streptococcus pyogenes phage 315.6, 28895335: 28876470: SWI/SF II helicase putative DNA primase (phage associated) Streptococcus pyogenes SSI-1
42779465 788 II Bacillus cereus ATCC 10987 , op with a SFII helicase, 42779467
29377412 ~ 794 Enterococcus faecalis V583
## fused to a D5 like AAA+, or in the neighborhood ###conserved cysteine cluster -1###
48857652 $' 281 Clostridium_thermocellum_atcc_27405
48858879 ~*$' 717 Clostridium_thermocellum_atcc_27405
48857599 $' 266 Clostridium_thermocellum_atcc_27405
48857606 ~*$' 715 Clostridium_thermocellum_atcc_27405 , pass 3
48857210 $' 240 Clostridium_thermocellum_atcc_27405 , pass 3
48857378 ~*$' 717 Clostridium_thermocellum_atcc_27405, 48859006 94 clostridium_thermocellum_atcc_27405, pass 4 >48859006|ref|ZP_00312948.1| hypothetical protein Chte02001732 Clostridium thermocellum ATCC 27405
48860540 ~*C 624 = Clostridium thermocellum ATCC 27405 operonic with 48860542 (RAD52), 48860541 (DNA polymerase B subunit)
48857371 225 Clostridium_thermocellum_atcc_27405 , pass 3
29830757 $' 305 Streptomyces avermitilis_ma-4680, 29607870 29607870
23978907 $' 250 Streptomyces laurentii plasmid pSLS neighbor of T1oorf9 like ATPase 23978907 >23978907|dbj|BAC21270.1| hyphotheical protein Streptomyces laurentii
46198964 $' 293 & Thermus thermophilus HB27 operonic with D5 46198964 >46198964|ref|YP_004631.1| hypothetical protein TTC0656 Thermus thermophilus HB27
21222404 $' 291 Streptomyces coelicolor_a3_2, 13122165 13122165
21223967 $'~ 756 Streptomyces coelicolor_a3_2 >21223967|ref|NP_629746.1| putative ATP binding protein Streptomyces coelicolor A3(2)
21223001 283 & Streptomyces coelicolor A3(2), 10129714 pass 4, operonic with D5 like AAA+ no $' 10129714
29830255 286 & Streptomyces avermitilis MA-4680 operonic with D5 like AAA+ 29607366, pass 4 29607366
23014441 $' 286 & Magnetospirillum_magnetotacticum, operonic with 46201836 D5N, D5 like AAA+ ATPase, good starting point, pass 3
56708874 $' RecA 603 Silicibacter pomeroyi DSS-3 hypothetical protein SPOA0086 , pass 4 fused to **DNAB/RecA**
## Inactive versions, modifications in the DxD motif ### conserved cysteine cluster, but lost $' , inac: inactive primase
29830771 221 inac Streptomyces avermitilis MA-4680, 29607884 29607884
29829195 220 inac Streptomyces avermitilis MA-4680 29606301
29830394 217 inac Streptomyces avermitilis MA-4680 29607505
29831782 215 inac Streptomyces avermitilis MA-4680 29608899
29831239 233 inac Streptomyces avermitilis MA-4680 29608354
29832465 242 inac streptomyces_avermitilis_ma-4680, 29609584 29609584
21224022 152 Streptomyces coelicolor A3(2) 3413305
21222376 221 inac Streptomyces coelicolor A3(2) 15021255
21221803 233 inac Streptomyces coelicolor A3(2) 4585606
21222788 217 inac Streptomyces coelicolor A3(2), 8894748 8894748
21221269 204 Streptomyces coelicolor A3(2) 14799965
21223937 223 inac Streptomyces coelicolor A3(2) 4007740
21220748 243 inac Streptomyces_coelicolor_a3_2 6469264, pass 7 6469264
29425605 219 Mycobacteriophage_omega 29425605 >29425605|gb|AAN12787.1| gp145 Mycobacteriophage Omega
48836009 202 inac Thermobifida_fusca, pass 5 48836009
## fused to D5 and PriCT-1
29425808 ~*$' 916 Mycobacteriophage_barnyard fused to D5 and PriCT, pass 4
29425031 *$' 786 Mycobacteriophage_corndog , pass 3 >29425031|gb|AAN01954.1| gp22 Mycobacteriophage Corndog
## Fused to PriCT-2
58220032 $ T1 815 Listonella pelagia phage phiHSIC next to RAD52 like SSB
48696649 $* 762 Vibriophage VP2 Primase (1-446) fused to a D5 like AAA+ ATPase , operonic with polI and SSB pass 3
48696691 $ 762 Vibriophage VP5 , pass 3 operonic with PolI and SSB
37626154 *$ 791 Vibrio parahaemolyticus phage VP16T, pass 3
37626216 *$ 791 Vibrio parahaemolyticus phage VP16C, pass 3
# SPy0671 family Primase fused to **DNAB/RecA**,
29424972 $' RecA 920 II Mycobacteriophage_rosebush operonic with a SF II helicase, pass 3 fused to **DNAB/RecA**
33334077 $' RecA 915 Mycobacteriophage PG1, pass 4 fused to **DNAB/RecA**
b) # E. coli Z1568-like family, some of them are fused to a A18R/RAD25 like superfamily II helicase/phage T5/ A18R (Repair)
23474120 A18R 799 Desulfovibrio_desulfuricans_g20
15801056 A18R 794 Escherichia_coli_o157:h7_edl933
15830559 A18R 786 Escherichia_coli_o157:h7
12514445 794 Escherichia coli O157:H7 AE005307_1 putative helicase
52548725 716 uncultured archaeon GZfos18F2 DNA or RNA helicases of superfamily II
19552783 A18R 783 Corynebacterium_glutamicum_atcc_13032
A18R Corynebacterium_glutamicum_atcc_13032 missing primase domain 21324339 * 543
53714233 A18 970 Bacteroides fragilis YCH46 probable helicase
54295402 A18R 925 Legionella pneumophila str. Lens hypothetical protein lpl2488
15900484 276 Streptococcus_pneumoniae_tigr4, neighbor of RAD25/A18 like SFII helicase
15902543 355 Streptococcus_pneumoniae_r6, next to transposases
48861895 175 microbulbifer_degradans_2-40 , 48861894 >48861895|ref|ZP_00315794.1| COG4951: Uncharacterized protein conserved in bacteria Microbulbifer degradans 2-40
48861894 100 microbulbifer_degradans_2-40 >48861894|ref|ZP_00315793.1| COG4951: Uncharacterized protein conserved in bacteria Microbulbifer degradans 2-40
46311299 $* 666 Burkholderia cepacia R18194 Burkholderia Primase fused to a D5 like AAA+ ATPase
48697236 ~$* 888 Burkholderia cepacia complex phage BcepC6B , check grouping >48697236|ref|YP_024966.1| putative primase/helicase protein Burkholderia cepacia complex phage BcepC6B
# 20 Primases that share a C-terminal region, best hits, primases fused to A18R/RAD25 , plasmid encoded
23127101 744 Nostoc_punctiforme, pass 7
17227422 655 Nostoc_sp_pcc_7120, pass 8 pCC7120gamma plasmid, next to TraG
17158795 731 Nostoc_sp_pcc_7120 plasmid pCC7120beta, MinD , transposase >17158795|ref|NP_478306.1| ORF_ID:all7659~unknown protein Nostoc sp. PCC 7120
53763964 733 Anabaena variabilis ATCC 29413 operonic with MinD and a transposase
38505794 575 Synechocystis sp. PCC 6803 plasmid encoded
38505793 530 Synechocystis sp. PCC 6803
##
57241810 170 Campylobacter lari RM2100 conserved hypothetical protein
15791770 181 campylobacter_jejuni_subsp._jejuni_nctc_11168
32267163 181 helicobacter_hepaticus_atcc_51449
34556539 181 Wolinella succinogenes DSM 1740
15611242 180 helicobacter_pylori_j99
15644813 180 helicobacter_pylori_26695
c) # D. radiodurans DR0530-like family $: PriCT-2, Phages
missing Histidine, characteristic histidine downstream
6118000 $* 752 Acyrthosiphon_pisum_bacteriophage_apse-1
45580773 ~$* 854 Bordetella phage BIP-1 , pass 3 , op with methylase and cI repressor >45580773|ref|NP_996639.1| primase Bordetella phage BIP-1
34304558 $ 719 Burkholderia cepecia phage BcepNazgul, pass 6 >34304558|gb|AAQ63375.1| conserved hypothetical protein Burkholderia cepecia phage BcepNazgul
27383370 223 Bradyrhizobium japonicum USDA 110,solo primase operonic with 27383368 ~ 475 , pass 7 (D5N + AAA) Bradyrhizobium japonicum USDA 110
48697531 $~* 919 Burkholderia cenocepacia phage BcepB1A riC + D5N+ D5 ATPase
15805557 * 891 Deinococcus_radiodurans, 6458224 pass 5
46202140 *$ 1185 Magnetospirillum_magnetotacticum PriCT + D5 ATPase, pass 3
54029731 $* Polaromonas sp. JS666 fused to D5Predicted ATPase , pass 4
39937604 $ RecA 770 Rhodopseudomonas palustris CGA009 fused to a RecA like ATPase , pass 7 39651463 >39937604|ref|NP_949880.1| hypothetical protein RPA4546 Rhodopseudomonas palustris CGA009
48832477 $ T1 765 = Magnetococcus_sp_mc-1 , fused to a phage T1 like helicase in the neighborhood of a SFII helicase
17158691 $ 332 /Nostoc_sp_pcc_7120, pass 6 , in the vicinity of RepS HTH plasmid pCC7120beta
45506180 $ 332 \Anabaena variabilis ATCC 29413 , possible plasmid pass 6 , neighbor of RepS HTH
46118046 $ 280 Synechocystis_sp_wh_8501 , pass 5, possible plasmid
46119288 $ T1 956 Synechocystis_sp_wh_8501 fused to a T1 phage ATPase, pass 5, op with a HTH
247792 $+UL9 876 Synechococcus_sp_pcc_7942, plasmid pUH24 32455419 fused to a UL9 like SF II helicase pass 4
46118335 $ 372 Synechocystis_sp_wh_8501 >46118335|ref|ZP_00174977.2| hypothetical protein Cwat03006182 Crocosphaera watsonii WH 8501
33865636 * 688 Synechococcus sp. WH 8102 fused to D5N
33864892 * 656 Synechococcus_sp_wh_8102 >33864892|ref|NP_896451.1| conserved hypothetical protein Synechococcus sp. WH 8102
--------------------
d) # all3500�like family Primase + Primase type finger + distinct T1 phage ATPase Atpase (The primase type finger is usually fused N-terminal to the DNAG like primase)
17230992 1025 Anabaena sp. PCC 7120 : Run more searches (1d0q investigate)
45509658 947 Anabaena variabilis ATCC 29413
45526009 1169 Crocosphaera watsonii WH 8501 COG0419: ATPase involved in DNA repair
17132633 1025 Nostoc sp. PCC 7120 all3500 , fused to D5 25382357
## 1 fused to a D5 like ATPase PriCT1
23128476 $'* 761 Nostoc punctiforme
53765479 $'* 697 Anabaena variabilis ATCC 29413
53763381 * 662 Anabaena variabilis ATCC 29413
## neighbor of **DNAB/RecA**
33865721 $ 304 DNAB Synechococcus_sp_wh_8102 neighbor of 33865720 RadA/RecA like ATPase
33866108 $ 204 DNAB Synechococcus_sp_wh_8102 + 33866107
## PriCT-primase-RecA like helicase : Note inversion of order of PriCT and primase
13621860 $ RecA 757 Streptococcus pyogenes M1 GAS hypothetical protein, phage associated
56694890 $ RecA22 740 Bacillus clarkii bacteriophage BCJA1c
------------------
e) #bll5242 family
#** Phages fused to a D5 ATPase (this divergent D5 is in turn fused to a DNAG primase and polI like polymerase in 48697456)
46192876 ?* 895 Rhodobacter sphaeroides fused to a divergent ATPase that is most likely D5, Clp protease in the neighborhood have a domain C-terminal to the primase
27380353 ?* 1064 Bradyrhizobium japonicum USDA 110
48697456: 48697456|ref|YP_024841.1| PDNAG primase + ATPase + Polymerase I is fused to the divergent ATPase and PolI
47842852 * 873 Burkholderia cepacia phage Bcep43
38638662 * 824 Burkholderia cenocepacia phage Bcep1 in the neighborhood of an SFII helicase
23752361 * 873 Burkholderia cepacia phage Bcep781 in the neighborhood of an SFII helicase
51244030 305 Desulfotalea psychrophila LSv54 operonic with 51244031 D5N, not divergent D5 652
-----------------------
f) ---ColE2 like Rep family
# 37 Plasmid ColE2 like RepA primases fused to a HTH at the C-terminus, Most common neighbors ParA like MinD, TnpR Resolvase, TnpA transposase (conjugative transpostion/aided by replication)
32186821 $' 328 h Aeromonas salmonicida subsp. salmonicida
32186812 $' 335 h Aeromonas salmonicida subsp. salmonicida
23897240 $' 324 h Aeromonas salmonicida subsp. salmonicida
23194418 $' 303 Bifidobacterium longum
23336702 307 Bifidobacterium longum DJO10A
1212783 $' 306 Bifidobacterium longum biovar Longum
1903030 $' 317 Brevibacterium linens
1079742 $' 310 Brevibacterium linens
9957871 $' 320 Brevibacterium linens
421594 $' 248 Corynebacterium glutamicum
10956613 247 Corynebacterium glutamicum
10957081 $' 313 Edwardsiella ictaluri
809495 $' 311 Escherichia coli
809494 $' 311 Escherichia coli
809498 $' 308 Escherichia coli
809493 $' 311 Escherichia coli
78571 $' 304 Escherichia coli
78570 $' 297 Escherichia coli
809497 $' 304 Escherichia coli
809496 $' 304 Escherichia coli
19718322 $' 339 RepSalmonella enteritidis
48868970 $' 272 Haemophilus influenzae 86-028NP
42630609 296 Haemophilus influenzae R2866
4803669 $' 278 Halomonas elongata
20514398 289 Klebsiella sp. KCL-2
19070667 $' 289 Klebsiella sp. KCL2
37726746 $' 305 Moraxella catarrhalis
58219331 $' 296 Vibrio cholerae O1 replicase Vibrio cholerae O1
149985 $' 177 Mycobacterium fortuitum
5921539 $' 297 Plesiomonas shigelloides
7635901 302 Propionibacterium jensenii
11095365 $' 295 Rhodococcus erythropolis
7262573 $' 306 Rhodococcus rhodochrous
2460013 $' 310 Rhodococcus erythropolis
32128474 $' 296 Rhodococcus sp. B264-1
19526576 339 h Salmonella enteritidis
809524 $' 308 Shigella sonnei
809525 $' 308 Shigella sonnei
809523 $' 296 Shigella sonnei
4138626 $' 341 h Thiobacillus sp.
32455922 $' 491 Micrococcus sp. 28 C-terminal low complexity
28856040 $' 457 Pseudomonas syringae pv. tomato str. DC3000 >28856040|gb|AAO59096.1| RepA protein, putative Pseudomonas syringae pv. tomato str. DC3000
2664218 $' 437 Pseudomonas syringae >2664218|emb|CAA10908.1| Replication protein Pseudomonas syringae
4456753 $' 437 Pseudomonas syringae pv. tomato >4456753|emb|CAB37316.1| RepA Pseudomonas syringae pv. tomato
13926125 $' 437 Pseudomonas syringae pv. maculicola >13926125|gb|AAK49536.1|AF359557_1 replicase Pseudomonas syringae pv. maculicola
28855972 $' 437 Pseudomonas syringae pv. tomato str. DC3000 >28855972|gb|AAO59029.1| replication protein RepA Pseudomonas syringae pv. tomato str. DC3000
38257033 $' 437 Pseudomonas syringae pv. syringae >38257033|ref|NP_940687.1| major replication protein Pseudomonas syringae pv. syringae
49188521 436 Pseudomonas syringae pv. maculicola >49188521|ref|YP_025619.1| replication protein Pseudomonas syringae pv. maculicola
49188572 433 Pseudomonas syringae pv. maculicola >49188572|ref|YP_025669.1| replication protein Pseudomonas syringae pv. maculicola
21264244 $' 406 Xanthomonas axonopodis pv. citri str. 306 >21264244|ref|NP_644744.1| replication protein A Xanthomonas axonopodis pv. citri str. 306
27358692 $' 392 Vibrio vulnificus CMCP6 >27358692|gb|AAO07641.1|AE016810_144 Conserved hypothetical protein Vibrio vulnificus CMCP6
557211 $' 320 Thiobacillus intermedius K12 >557211|gb|AAC12677.1| putative replication protein Thiobacillus intermedius K12
56578552 $' 437 Pseudomonas syringae pv. aesculi RepA
56578554 $' 437 Pseudomonas syringae pv. aesculi RepA
56578556 $' 437 Pseudomonas savastanoi RepA
56578558 $' 437 Pseudomonas savastanoi RepA
56578560 $' 437 Pseudomonas savastanoi RepA
56578562 $' 437 Pseudomonas savastanoi RepA
56578564 $' 437 Pseudomonas syringae pv. maculicola RepA
56578566 $' 437 Pseudomonas savastanoi RepA
56578568 $' 437 Pseudomonas syringae pv. maculicola RepA
56578570 $' 437 Pseudomonas syringae pv. maculicola RepA
56578572 $' 437 Pseudomonas syringae pv. tabaci RepA
56578574 $' 437 Pseudomonas syringae pv. syringae RepA
56578576 $' 437 Pseudomonas syringae pv. syringae RepA
56578578 $' 437 Pseudomonas syringae pv. tomato RepA
56578580 $' 437 Pseudomonas syringae pv. syringae RepA
55275347 $' 398 replicase uncultured bacterium
27367124 $' 392 Vibrio vulnificus CMCP6 hypothetical protein VV20706
51492514 459 Aeromonas punctata putative replication protein
23494823 547 Corynebacterium efficiens conserved hypothetical protein
27657780 542 Corynebacterium glutamicum RepA
14141962 524 Corynebacterium jeikeium RepA
32455772 524 Corynebacterium jeikeium RepA
15278131 521 Corynebacterium jeikeium AF401314_1 RepA
30349475 521 Corynebacterium jeikeium RepA
19482140 519 Corynebacterium jeikeium RepA
19848305 516 Corynebacterium jeikeium RepA
30349353 516 Corynebacterium jeikeium RepA
9945803 514 Corynebacterium striatum RepB
20502470 492 Corynebacterium efficiens replication initiation protein
17059601 489 Corynebacterium glutamicum RepA protein
54400285 486 Corynebacterium glutamicum Rep protein
6705943 485 Corynebacterium glutamicum REP
23577983 485 Corynebacterium efficiens hypothetical protein CE2P013
23577975 484 Corynebacterium efficiens hypothetical protein CE2P005
4583394 482 Corynebacterium glutamicum AF121000_5 replicase RepA
9836711 479 Corynebacterium glutamicum AF164956_7 replicase RepA
4958941 464 Corynebacterium glutamicum replication protein
580988 332 Corynebacterium glutamicum Rep
37993852 296 Arcanobacterium pyogenes RepA
44003918 $' 302 Propionibacterium jensenii putative theta replicase
53690296 $' 293 Bifidobacterium longum DJO10A hypothetical protein Blon03001888
55978436 $' 387 Thermus thermophilus HB8 putative RepA protein
45368403 *$' 417 Thermus thermophilus fused to a HTH
55378248 Haloarcula marismortui ATCC 43049
11036629 $' 303 Propionibacterium freudenreichii
-----------------
g) # RepE/RepS family fusea to a wHTH most common neighbors: ParA, transposases, occasionally TopoI
18450352 549 pA > Listeria innocua 18450352|ref|NP_569223.1| pli0070 Listeria innocua
47093912 $' 549 pA Listeria monocytogenes str. 4b H7858 >47093912|ref|ZP_00231652.1| plasmid replication protein Listeria monocytogenes str. 4b H7858
4884028 $' 513 pA Bacillus thuringiensis >4884028|emb|CAB43191.1| replication protein Rep63A Bacillus thuringiensis
6470189 $' 512 pA Bacillus anthracis >6470189|gb|AAF13643.1|AF188935_41 pXO2-38 Bacillus anthracis
29377894 $' 501 pA Enterococcus faecalis V583 >29377894|ref|NP_817021.1| repS protein, putative Enterococcus faecalis V583
48826595 $' 499 Enterococcus faecium >48826595|ref|ZP_00287783.1| hypothetical protein Efae03000059 Enterococcus faecium
25011064 $' 497 Streptococcus agalactiae NEM316 >25011064|ref|NP_735459.1| Unknown Streptococcus agalactiae NEM316
48825803 $' 497 pA Enterococcus faecium >48825803|ref|ZP_00287041.1| hypothetical protein Efae03000933 Enterococcus faecium
12956991 $' 496 Enterococcus faecalis >12956991|emb|CAC29162.1| putative RepS protein Enterococcus faecalis
29377853 $' 496 Enterococcus faecalis V583 >29377853|ref|NP_816981.1| repE protein Enterococcus faecalis V583
34558753 $' 496 Shuttle vector pMSP3535-RT >34558753|gb|AAQ75109.1| RepE Shuttle vector pMSP3535-RT
38707197 $' 496 pA Streptococcus pyogenes >38707197|gb|AAR27207.1| RepS Streptococcus pyogenes
17227197 $' 524 pA Staphylococcus aureus Staphylococcus aureus
2127285 $' 510 Bacillus thuringiensis Bacillus thuringiensis
56899916 $' 518 pA Bacillus thuringiensis serovar konkukian str. 97-27 replication protein Bacillus thuringiensis serovar konkukian str. 97-27
10956428 $' 512 pA Bacillus anthracis pxo2-38 Bacillus anthracis
16415853 $' 549 Listeria innocua Listeria innocua pli0070 Listeria innocua
6690327 151 Staphylococcus aureus incomplete AF117258_1 replication protein RepE Staphylococcus aureus
48696458 537 Staphylococcus phage K putative Rep protein Staphylococcus phage K
809763 61 Streptococcus pyogenes fragment protein Rep(19035) Streptococcus pyogenes
12383034 481 Treponema denticola Rep Treponema denticola
34328038 453 Staphylococcus sciuri putative replication protein Staphylococcus sciuri
51209437 382 Campylobacter coli repa Campylobacter coli
57505192 343 Campylobacter coli RM2228 replication protein Campylobacter coli RM2228
152676 303 Selenomonas ruminantium ORF A
321984 303 Selenomonas ruminantium JQ1751 hypothetical 35.5K protein - Selenomonas ruminantium plasmid pJDB23
28208757 462 Clostridium tetani AF528097_45 putative replication protein Clostridium tetani
28208716 461 Clostridium tetani AF528097_1 putative replication protein Clostridium tetani
56410441 439 Geobacillus kaustophilus HTA426 replication protein Geobacillus kaustophilus HTA426
14278873 432 Bacillus sp. KSM-KP43 replication protein Bacillus sp. KSM-KP43
48859983 464 Clostridium thermocellum ATCC 27405 COG1961: Site-specific recombinases, DNA invertase Pin homologs Clostridium thermocellum ATCC 27405
--------------------------------
# BT4734 family *fused to a D5 like ATPase
53714955 $' 719 inactive Bacteroides fragilis YCH46 53714955 Probably hypothetical protein BF3670 Bacteroides fragilis YCH46
53715570 667 inactive Bacteroides fragilis YCH46 53715570 Probably putative helicase Bacteroides fragilis YCH46
29340700 696 inactive Bacteroides thetaiotaomicron VPI-5482 29348794 Probably hypothetical protein BT3385 Bacteroides thetaiotaomicron VPI-5482
29340087 702 inactive Bacteroides thetaiotaomicron VPI-5482 29348184 Probably putative helicase Bacteroides thetaiotaomicron VPI-5482
29341829 651 inactive Bacteroides thetaiotaomicron VPI-5482 29349918 Probably putative helicase Bacteroides thetaiotaomicron VPI-5482
29341610 697 inactive Bacteroides thetaiotaomicron VPI-5482 29349700 Probably hypothetical protein BT4292 Bacteroides thetaiotaomicron VPI-5482
29341480 692 inactive Bacteroides thetaiotaomicron VPI-5482 29349570 Probably hypothetical protein BT4162 Bacteroides thetaiotaomicron VPI-5482
29342054 688 Bacteroides thetaiotaomicron VPI-5482 29350142 hypothetical protein BT4734 Bacteroides thetaiotaomicron VPI-5482
60494363 719 Bacteroides fragilis NCTC 9343 conserved hypothetical protein Bacteroides fragilis NCTC 9343
Fused to or in the vicinity of a a T1-phage like ATPase
60493694 791 Bacteroides fragilis NCTC 9343 conserved hypothetical protein Bacteroides fragilis NCTC 9343
53714065 $' 767 Bacteroides fragilis YCH46 53714065 hypothetical protein BF2773 Bacteroides fragilis YCH46
29339297 811 Bacteroides thetaiotaomicron VPI-5482 29347397 hypothetical protein BT1987 Bacteroides thetaiotaomicron VPI-5482
29339010 208 Bacteroides thetaiotaomicron VPI-5482 29347112 hypothetical protein BT1702 Bacteroides thetaiotaomicron VPI-5482 29339011: $: vicinity of T1 ATPase and PriCT-2
29338945 208 Bacteroides thetaiotaomicron VPI-5482 29347047 hypothetical protein BT1637 Bacteroides thetaiotaomicron VPI-5482 29338946 $: vicinity of T1- ATPase fused to PriCT-2
29338013 $' 791 Bacteroides thetaiotaomicron VPI-5482 29346119 hypothetical protein BT0709 Bacteroides thetaiotaomicron VPI-5482
29337707 $' 775 Bacteroides thetaiotaomicron VPI-5482 29345814 hypothetical protein BT0404 Bacteroides thetaiotaomicron VPI-5482
29341939 199 Bacteroides thetaiotaomicron VPI-5482 29350027 hypothetical protein BT4619 Bacteroides thetaiotaomicron VPI-5482 29341940: vicinity of T1-ATPase
------------------------------ No primase 29345692 431 Probably inactive hypothetical protein BT0282 Bacteroides thetaiotaomicron VPI-5482
#1 ~ fused to D5N and AAA+ closely related to versions that do not have Primase such as 21234191
4336104 ~ 867 Mycobacteriophage TM4
#Tail
38423817 530 Synechocystis_sp_pcc_6803 >38423817|dbj|BAD02026.1| sll8018 Synechocystis sp. PCC 6803
15922049 430 Sulfolobus_tokodaii >15922049|ref|NP_377718.1| 430aa long hypothetical protein Sulfolobus tokodaii
2648218 280 Archaeoglobus_fulgidus_dsm_4304 >2648218|gb|AAB88954.1| conserved hypothetical protein Archaeoglobus fulgidus DSM 4304
13310498 105 Shigella_flexneri >13310498|gb|AAK18322.1|AF348706_11 orf, hypothetical Shigella flexneri
27657769 622 Corynebacterium_glutamicum, pass 3 >27657769|gb|AAO18199.1| hypothetical protein Corynebacterium glutamicum
16120092 294 Halobacterium_sp_nrc-1 >16120092|ref|NP_395680.1| Vng6142c Halobacterium sp. NRC-1
23012376 543 Magnetospirillum_magnetotacticum, pass 7 >23012376|ref|ZP_00052477.1| hypothetical protein Magnetospirillum magnetotacticum
48788632 412 Burkholderia fungorum LB400 >48788632|ref|ZP_00284611.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases Burkholderia fungorum LB400
#Singletons
21282480 ~ 790 Staphylococcus aureus subsp. aureus MW2
13470708 * 780 Mesorhizobium loti MAFF303099 (Does not have D5N)
48853306 324 Ferroplasma acidarmanus , pass 7
13541532 180 Thermoplasma volcanium GSS1 neighbor of 13541531 (solo D5N) , pass 7
2642194 157 Pseudomonas sp. PyR19 neighbor of 2642195 $ PriCT 239 Pseudomonas sp. PyR19 unknown protein Pseudomonas sp. PyR19
46916864 125 Photobacterium profundum
29830764 118 Streptomyces avermitilis MA-4680 , 29607877
41057063 545 Clostridium difficile Divergent RepA essential for plasmid replication.
30043995 461 Bacteriophage RM 378 Divergent primase hypothetical protein Rm378p005
#tail
38423818 $ 575 Synechocystis_sp_pcc_6803 >38423818|dbj|BAD02027.1| sll8019 Synechocystis sp. PCC 6803
33603114 $ 700 Bordetella bronchiseptica >33603114|ref|NP_890674.1| phage-related hypothetical protein Bordetella bronchiseptica
25028716 $' 293 Corynebacterium_efficiens_ys-314 >25028716|ref|NP_738770.1| conserved hypothetical protein Corynebacterium efficiens YS-314
23015921 $'~ 796 Magnetospirillum magnetotacticum divergent the D5 ATPase is close in sequence to the P4 Primase ATPase
# 22 **fused to a GntR like wHTH (solo in 46205616) ,
25169161 653 Arthrobacter_nicotinovorans plasmid="pAO1
42558833 623 Arthrobacter_aurescens, plasmid="pAA1, 42558835: MinD
54027812 622 Nocardia farcinica IFM 10152, plasmid pNF2, neighbor of 54027811: MinD ATPase
Proteins that do not contain the AEP primase but of interest
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
#
45527516 268 Crocosphaera watsonii WH 8501 53735978 solo D5N
Solo PriCT
48857332 $' 102 Clostridium_thermocellum_atcc_27405 solo PriCT >48857332|ref|ZP_00311348.1| hypothetical protein Chte02003491 Clostridium thermocellum ATCC 27405
-------------------------
# 15 $: DNAG like primase Fused to PriCT + D5
48781924 $ 644 Burkholderia fungorum LB400
48787622 $ 621 Burkholderia fungorum LB400
48781315 $ 620 Burkholderia fungorum LB400
#
46578606 ~ 561 Desulfovibrio vulgaris subsp. vulgaris str
46581285 ~ 561 Desulfovibrio vulgaris subsp. vulgaris str
51245423 ~* 593 primase domain Desulfotalea psychrophila LSv54
## 8 DNAG like Primase fused to a D5 like ATPase
22997884 ~* 849 Xylella fastidiosa Ann-1, 52856540 >52856540|ref|ZP_00042163.2| COG3378: Predicted ATPase Xylella fastidiosa Ann-1
22997962 ~* 848 Xylella fastidiosa Ann-1 52856579 >52856579|ref|ZP_00042097.2| COG3378: Predicted ATPase Xylella fastidiosa Ann-1
22994076 ~* 847 Xylella fastidiosa Dixon, 53800954 >53800954|ref|ZP_00038597.2| COG3378: Predicted ATPase Xylella fastidiosa Dixon
22996303 ~* 847 Xylella fastidiosa Ann-1 52857421 >52857421|ref|ZP_00040564.2| COG3378: Predicted ATPase Xylella fastidiosa Ann-1
15837307 ~* 845 Xylella fastidiosa 9a5c
15839095 ~* 819 Xylella fastidiosa 9a5c
28199007 ~* 819 Xylella fastidiosa Temecula1
22993619 585 Xylella fastidiosa Dixon, 53801199 - no ATPase >53801199|ref|ZP_00038186.2| COG3378: Predicted ATPase Xylella fastidiosa Dixon
--------------------
D5N solos or in non-primase contexts
13541531 117 Thermoplasma volcanium
28876422 184 = D5N solo neighbor of D5 and Primase op with = Streptococcus pyogenes phage 315.5 , 28895808 >28895808|ref|NP_802158.1| putative primase Streptococcus pyogenes SSI-1
53688781 715 Nostoc punctiforme PCC 73102
55819085 391 D5N + AAA ATPase helicase III/ VV D5-type ATPase (C-term) Mimivirus
55822742 500 D5N + AAA ATPase phage associated Streptococcus thermophilus CNRZ1066
#1 DNAG +D5N (other members of the N-terminal domain fused to UL9 like helicase: eg see Unknown DNAG-Ul9 46134466)
45526817 ~ 912 Unknown N-terminal domain + DNAG + D5N+ D5 ATPase + unknown C Crocosphaera watsonii WH 8501, fused to D5 53735500 >53735500|ref|ZP_00178019.2| COG3378: Predicted ATPase Crocosphaera watsonii WH 8501
46119657 ~ 514 DNAG + D5N Crocosphaera watsonii WH 8501
# 3 D5N, AAA No primase at N,
26247364 ~ 584 Escherichia coli CFT073
30062663 ~ 582 Shigella flexneri 2a str. 2457T
24112536 ~ 535 Shigella flexneri 2a str. 301
6739647 ~ 589 Haemophilus influenzae
23467851 ~ 636 Haemophilus somnus 129PT
15830836 321 Escherichia coli O157:H7
14531026 96 Escherichia coli
16421291 689 Salmonella typhimurium LT2
15603647 725 Pasteurella multocida subsp. multocida str. Pm70
53728330 729 Haemophilus somnus 2336
# 13 D5N- AAA+, No primase, | operonic with a small protein
24575142 ~* 511 | Streptomyces globisporus op with 24575141
24575081 ~* 509 | Streptomyces globisporus op with 24575080
21234191 ~* 506 | Streptomyces coelicolor A3(2) op with 21234192
30698439 ~* 485 | Streptomyces rochei op with 24575138 op with 30698438
27383368 ~* 475 | Bradyrhizobium japonicum USDA 110, operonic with 27383370 (solo primase) 223 Bradyrhizobium japonicum USDA 110
24575137 ~* 474 | Streptomyces globisporus
15843066 ~* 472 Mycobacterium tuberculosis CDC1551
15608720 ~* 471 Mycobacterium tuberculosis H37Rv
30698434 ~* 471 | Streptomyces rochei op with 30698432
31792768 ~* 471 Mycobacterium bovis AF212
46192392 ~* 429 Rhodobacter sphaeroides
6960323 * 426 Streptomyces coelicolor A3(2)
46323887 ~* 365 Burkholderia cepacia R1808
#
53803176 755 ~ $$$$$ fused to a DNAG like primase prophage LambdaMc01, DNA primase, P4 family Methylococcus capsulatus str. Bath , D5N, AAA+
#1 no primase domain
21226253 ~ 628 Methanosarcina mazei Go1
------------DNAG like primases in similar contexts------------
# 3 ~: DNAG like primase + D5N region
25532010 ~*! 1097 Nostoc sp. !! C-term domain shared with ( Nostoc, similar configuration with a DNAG primase) and 17232888 (solo) 17227468 >17227468|ref|NP_478650.1| ORF_ID:all9003~unknown protein Nostoc sp. PCC 7120
23129343 ~* 1019 Nostoc punctiforme
23129742 ~* 1002 Nostoc punctiforme
17232892 ~*! 836 Anabaena sp. PCC 7120
# 1 PriCT-DNAG-D5 or distinct AAA+
46321344 $ 953 Burkholderia cepacia R1808
# DNAG primase + D5 specific region + D5N + AAA+ ATPase, %: Primase type finger at N-terminus
29243104 %~* 808 Bacteriophage phi-BT1 (1-67 finger) run searches with this fellow to find more like him
40313246 %~* 805 Bacteriophage phi-C31
432620 ~* 519 Bacteriophage phi-C31
46580593 %~* 830 Desulfovibrio vulgaris subsp. vulgaris str
23129552 * 733 Nostoc punctiforme
51597435 %~* 763 Yersinia pseudotuberculosis IP 32953
15799978 %~ 796 Escherichia coli O157:H7 EDL933
15829557 %~* 777 Escherichia coli O157:H7
45443313 %~* 763 Yersinia pestis biovar Medievalis str. 91001
22127140 ~* 697 Yersinia pestis KIM
29143025 %~* 777 Salmonella enterica subsp. enterica serova
93819 %~* 777 Bacteriophage phi-R73
17545558 ~* 765 Ralstonia solanacearum GMI1000
9627512 %~* 777 Bacteriophage P4 fused to D5N
16763293 %~* 777 Salmonella enterica subsp. enterica serova
17547948 ~* 759 Ralstonia solanacearum GMI1000
50121678 %~* 868 Erwinia caratovora
DNAG primase fused to a UL9 like helicase
42718151 1239 putative replication protein RepA Bacteriophage VP882
33770544 1330 relication protein RepA Bacteriophage PY54
46402121 1328 Gp35 Bacteriophage phiKO2
3192713 1324 gp37 Bacteriophage N15
2529380 1228 primase Bacteriophage N15
------------------------SFI-ORF24, RAD52-like origin binding protein------------------
16801650 160 Listeria innocua Clip11262
17402459 161 Bacteriophage PSA
2444091 151 Streptococcus thermophilus temperat
9632450 151 Streptococcus thermophilus bacteriophage DT1
5524019 151 Streptococcus thermophilus bacteriophage Sfi19
5524053 151 Streptococcus thermophilus bacteriophage Sfi21
7523554 151 Streptococcus thermophilus bacteriophage Sfi11
9885249 150 Lactococcus bacteriophage phi31
28876424 152 Streptococcus pyogenes phage 315.5
50591500 156 Streptococcus suis 8 op with a Sf II helicase
5730278 175 Lactobacillus bacteriophage phi adh
19746261 160 Streptococcus pyogenes MGAS8232
2120163 158 Lactococcus phage mi7-9
48697289 **** 185 Bacteriophage phi AT3
6599325 180 Lactobacillus casei bacteriophage A2
2352438 124 Streptococcus thermophilus bacteriophage Sfi21
22855034 145 Bacteriophage phi-105
52081929 145 Bacillus licheniformis ATCC 14580
23455784 224 Bacteriophage phig1e
28379003 221 Lactobacillus plantarum WCFS1
48832482 172 Magnetococcus sp. MC-1
23475268 157 Desulfovibrio desulfuricans G20
48866342 114 Oenococcus oeni PSU-1
48860542 152 Clostridium thermocellum ATCC 27405 op with DNA polymerase elongation subunit 48860541, 48860543: RecB exonuclease
--------------------------------------------
UL9 like helicases: AEP: Fused to AEP, DNAG: Fused to DNAG , Nt: unknown N-terminal domain
2529380 DNAG 1228 primase Bacteriophage N15
3192713 DNAG 1324 gp37 Bacteriophage N15
46402121 DNAG 1328 Gp35 Bacteriophage phiKO2
33770544 DNAG 1330 relication protein RepA Bacteriophage PY54
42718151 DNAG 1239 putative replication protein RepA Bacteriophage VP882
26891737 857 ORF4 Vibrio harveyi bacteriophage VHML
45507489 1039 COG5008: Tfp pilus assembly protein, ATPase PilU Anabaena variabilis ATCC 29413
46134762 1227 hypothetical protein Avar03005489 Anabaena variabilis ATCC 29413
17233243 1210 hypothetical protein all7227 Nostoc sp. PCC 7120
17133059 987 alr3925 Nostoc sp. PCC 7120
53688634 973 COG0621: 2-methylthioadenine synthetase Nostoc punctiforme PCC 73102
23128374 1157 hypothetical protein Npun02004018 Nostoc punctiforme PCC 73102
53688214 1239 hypothetical protein Npun02003175 Nostoc punctiforme PCC 73102
17233046 1132 hypothetical protein all7030 Nostoc sp. PCC 7120
38505705 958 hypothetical protein Synechocystis sp. PCC 6803
47060312 999 pANL1 Synechococcus elongatus PCC 7942
21230917 1187 phage-related protein Xanthomonas campestris pv. campestris str. ATCC 33913
21107852 1181 phage-related protein Xanthomonas axonopodis pv. citri str. 306
32470517 943 hypothetical protein Synechococcus sp. PCC 7002
53734852 1412 COG1156: Archaeal/vacuolar-type H+-ATPase subunit B Crocosphaera watsonii WH 8501
48891251 1011 COG1112: Superfamily I DNA and RNA helicases and helicase subunits Trichodesmium erythraeum IMS101
46134466 Nt 1065 COG1198: Primosomal protein N' (replication factor Y) - superfamily II helicase Anabaena variabilis ATCC 29413
16332075 1036 hypothetical protein slr0554 Synechocystis sp. PCC 6803
46117606 691 hypothetical protein Cwat03007438 Crocosphaera watsonii WH 8501
46119958 959 COG0556: Helicase subunit of the DNA excision repair complex Crocosphaera watsonii WH 8501
51512046 928 putative DEAD/DEAH box helicase Bacteriophage T5
46401844 928 putative replication origin binding protein Bacteriophage T5
247792 AEP 876 247792 repA Synechococcus sp. PCC 7942
1709433 787 OBP_HHV7J Replication origin binding protein (OBP)
51874295 787 origin-binding protein Human herpesvirus 7
420401 AEP 1102 S35617probable origin-binding protein - African swine fever virus
9628155 AEP 1055 helicase African swine fever virus
55818889 AEP 1052 helicase similar to origin binding protein Acanthomoeba polyphaga mimivirus
2653339 859 replication origin binding protein Bovine herpesvirus type 1.1 (strain Cooper)
40787918 823 UL9 origin-binding protein Bovine herpesvirus 5
325513 703 origin-binding protein
9628375 780 originbinding protein Human herpesvirus 6
46119153 609 COG0552: Signal recognition particle GTPase Crocosphaera watsonii WH 8501
4996061 780 originbinding protein Human herpesvirus 6B
405176 780 U73 Human herpesvirus 6B
50313294 887 origin-binding protein Equid herpesvirus 1
9629781 887 53 Equid herpesvirus 4
32455419 876 hypothetical protein Synechococcus elongatus PCC 7942
27363868 832 Phage-related protein Vibrio vulnificus CMCP6
9629278 867 UL9 Human herpesvirus 2
30844251 874 Ori binding protein Cercopithecine herpesvirus 1
9629389 851 UL9 Human herpesvirus 1
56694731 879 origin binding protein Cercopithecine herpesvirus 2
662096 659 replication origin-binding protein
7385024 835 AF206304_3 ORF51 Human herpesvirus 3
9625924 835 helicase Human herpesvirus 3
743484 834 2012335ADNA replication origin-binding protein
12025120 839 AF291866_13 UL9 Ori binding protein Meleagrid herpesvirus 1
10180713 841 AF243438_16 UL9 ori binding protein-like protein Gallid herpesvirus 2
9635044 841 OBP Gallid herpesvirus 2
11095841 839 AF282130_11 origin of replication binding protein Meleagrid herpesvirus 1
971247 841 UL9 homolog Gallid herpesvirus 1
52551078 830 UL9 Fibropapilloma-associated turtle herpesvirus
1478256 843 UL9 Suid herpesvirus 1 strain Kaplan
11036597 816 AF275348_47 origin binding protein Cercopithecine herpesvirus 7
5708117 892 origin-binding protein Gallid herpesvirus 1
10834878 875 UL9 protein Gallid herpesvirus 3
34500254 880 ICP9 Psittacid herpesvirus 1
55818882 795 replication origin binding protein Acanthomoeba polyphaga mimivirus
48696728 AEP 1181 ORF7 Ostreid herpesvirus 1
48696783 596 ORF67 Ostreid herpesvirus 1
48696728 1181 ORF49 Ostreid herpesvirus 1
-------------------------------------
Phage T1p09 like ATPase
29341940 380 Bacteroides thetaiotaomicron VPI-5482
29338946 615 Bacteroides thetaiotaomicron VPI-5482
29339011 612 Bacteroides thetaiotaomicron VPI-5482
29339297 811 Bacteroides thetaiotaomicron VPI-5482
53714065 767 Bacteroides fragilis YCH46
60493694 791 Bacteroides fragilis NCTC 9343
29337707 775 Bacteroides thetaiotaomicron VPI-5482
29338013 791 Bacteroides thetaiotaomicron VPI-5482
60494935 490 Bacteroides fragilis NCTC 9343
53715554 499 Bacteroides fragilis YCH46
34396954 458 Porphyromonas gingivalis W83
29337532 452 Bacteroides thetaiotaomicron VPI-5482
17983721 509 Brucella melitensis 16M
57545655 500 Escherichia coli
57434420 494 Escherichia coli
26249487 502 Escherichia coli CFT073
33865879 806 Synechococcus sp. WH 8102
34102556 469 Chromobacterium violaceum ATCC 12472
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