Query 005785
Match_columns 677
No_of_seqs 358 out of 1593
Neff 6.2
Searched_HMMs 46136
Date Thu Mar 28 13:43:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005785.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005785hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2094 Predicted DNA damage i 100.0 1E-115 2E-120 900.1 33.9 450 4-457 2-457 (490)
2 PTZ00205 DNA polymerase kappa; 100.0 1E-101 3E-106 860.2 49.9 479 20-500 41-554 (571)
3 PRK03858 DNA polymerase IV; Va 100.0 1.1E-74 2.3E-79 635.2 38.7 371 104-487 3-379 (396)
4 PRK01216 DNA polymerase IV; Va 100.0 1.1E-73 2.3E-78 617.0 39.9 329 106-443 2-342 (351)
5 cd01701 PolY_Rev1 DNA polymera 100.0 2E-73 4.3E-78 626.7 39.4 371 65-440 8-404 (404)
6 PRK02794 DNA polymerase IV; Pr 100.0 1.3E-73 2.7E-78 631.2 38.0 372 104-487 35-412 (419)
7 PRK03103 DNA polymerase IV; Re 100.0 1.4E-73 3.1E-78 629.0 35.6 371 103-487 1-387 (409)
8 PRK01810 DNA polymerase IV; Va 100.0 3.1E-73 6.8E-78 625.8 37.7 371 104-487 4-386 (407)
9 PRK03352 DNA polymerase IV; Va 100.0 9E-72 1.9E-76 601.9 40.1 332 103-443 3-345 (346)
10 PRK14133 DNA polymerase IV; Pr 100.0 1.1E-71 2.3E-76 601.6 40.4 334 103-444 1-340 (347)
11 PRK03348 DNA polymerase IV; Pr 100.0 2.2E-70 4.8E-75 610.0 41.1 337 103-442 3-346 (454)
12 cd01703 PolY_Pol_iota DNA Poly 100.0 5.6E-70 1.2E-74 593.2 37.1 328 108-439 1-379 (379)
13 cd00424 PolY Y-family of DNA p 100.0 1.4E-69 3E-74 584.3 37.9 325 108-438 1-343 (343)
14 cd03586 PolY_Pol_IV_kappa DNA 100.0 7.4E-69 1.6E-73 575.3 38.4 328 108-440 1-334 (334)
15 PRK03609 umuC DNA polymerase V 100.0 3.6E-69 7.8E-74 596.2 36.3 368 106-487 1-391 (422)
16 cd01702 PolY_Pol_eta DNA Polym 100.0 1.5E-68 3.2E-73 578.9 34.4 317 108-439 1-359 (359)
17 PRK02406 DNA polymerase IV; Va 100.0 8.1E-68 1.7E-72 570.5 37.7 327 112-444 1-335 (343)
18 cd01700 PolY_Pol_V_umuC umuC s 100.0 1E-67 2.3E-72 569.9 33.9 327 108-439 1-344 (344)
19 COG0389 DinP Nucleotidyltransf 100.0 2.1E-63 4.5E-68 538.1 37.6 336 105-444 1-348 (354)
20 cd03468 PolY_like DNA Polymera 100.0 1.8E-57 4E-62 487.2 33.7 323 108-438 1-334 (335)
21 KOG2095 DNA polymerase iota/DN 100.0 1.8E-56 3.9E-61 494.4 21.7 287 101-389 12-375 (656)
22 KOG2093 Translesion DNA polyme 100.0 2.2E-56 4.8E-61 500.3 18.9 355 105-466 371-752 (1016)
23 PF00817 IMS: impB/mucB/samB f 100.0 2.1E-38 4.6E-43 303.0 13.5 144 110-254 1-149 (149)
24 PF11799 IMS_C: impB/mucB/samB 99.4 2.1E-12 4.6E-17 118.6 11.4 106 336-441 3-116 (127)
25 PF11798 IMS_HHH: IMS family H 98.4 2.6E-07 5.6E-12 65.8 3.0 31 269-300 2-32 (32)
26 PRK04301 radA DNA repair and r 97.3 0.00019 4E-09 77.4 3.4 79 274-353 2-88 (317)
27 TIGR02236 recomb_radA DNA repa 96.0 0.0062 1.4E-07 65.3 4.0 73 280-353 1-81 (310)
28 PF11731 Cdd1: Pathogenicity l 95.0 0.019 4.1E-07 51.0 2.8 38 279-317 13-51 (93)
29 PF14520 HHH_5: Helix-hairpin- 94.8 0.034 7.5E-07 45.1 3.7 46 281-327 8-56 (60)
30 PF04994 TfoX_C: TfoX C-termin 93.8 0.12 2.5E-06 44.9 5.1 49 279-328 4-57 (81)
31 PF08827 DUF1805: Domain of un 91.5 0.12 2.6E-06 42.1 1.9 27 138-164 32-58 (59)
32 PF10391 DNA_pol_lambd_f: Fing 91.4 0.16 3.5E-06 40.4 2.5 27 281-308 5-31 (52)
33 COG3743 Uncharacterized conser 90.5 0.28 6.1E-06 46.1 3.6 34 279-313 68-102 (133)
34 PF03118 RNA_pol_A_CTD: Bacter 87.4 0.99 2.2E-05 37.6 4.5 52 272-325 6-60 (66)
35 PRK12766 50S ribosomal protein 83.5 2.1 4.5E-05 44.3 5.5 50 279-329 4-56 (232)
36 PRK02362 ski2-like helicase; P 81.7 1.5 3.3E-05 52.8 4.5 50 278-328 652-702 (737)
37 KOG2093 Translesion DNA polyme 76.2 0.63 1.4E-05 55.5 -1.0 30 107-136 330-359 (1016)
38 PF14229 DUF4332: Domain of un 75.6 2.6 5.5E-05 39.4 3.1 25 284-309 1-25 (122)
39 PRK08609 hypothetical protein; 72.7 3.5 7.5E-05 48.4 3.9 44 281-324 91-138 (570)
40 smart00483 POLXc DNA polymeras 71.9 2.7 5.9E-05 45.9 2.6 29 280-309 91-119 (334)
41 PF02961 BAF: Barrier to autoi 70.7 4.3 9.4E-05 35.8 3.0 34 274-308 15-48 (89)
42 PF14229 DUF4332: Domain of un 69.5 5.5 0.00012 37.1 3.8 48 270-318 45-93 (122)
43 cd00141 NT_POLXc Nucleotidyltr 69.2 3.5 7.6E-05 44.5 2.7 29 280-309 87-115 (307)
44 PRK01172 ski2-like helicase; P 67.8 6.6 0.00014 46.8 4.9 48 277-325 611-661 (674)
45 PF13878 zf-C2H2_3: zinc-finge 65.0 2.7 5.9E-05 31.7 0.6 27 589-615 13-39 (41)
46 COG2251 Predicted nuclease (Re 63.7 9.3 0.0002 43.1 4.6 48 270-318 217-265 (474)
47 PRK10917 ATP-dependent DNA hel 62.8 5.5 0.00012 47.7 3.0 31 278-309 9-39 (681)
48 PRK07758 hypothetical protein; 59.6 16 0.00035 32.7 4.6 43 283-326 39-84 (95)
49 PRK00254 ski2-like helicase; P 58.7 11 0.00024 45.3 4.6 51 277-328 644-697 (720)
50 PF00633 HHH: Helix-hairpin-he 56.9 6 0.00013 27.8 1.1 16 280-295 13-28 (30)
51 COG1200 RecG RecG-like helicas 56.1 8.3 0.00018 45.6 2.8 31 278-309 10-40 (677)
52 PF12826 HHH_2: Helix-hairpin- 55.4 12 0.00025 30.8 2.8 41 283-325 8-51 (64)
53 PRK07956 ligA NAD-dependent DN 50.9 19 0.00041 43.1 4.7 47 280-326 447-496 (665)
54 KOG3014 Protein involved in es 50.4 8.7 0.00019 40.1 1.6 30 589-618 37-66 (257)
55 PF13894 zf-C2H2_4: C2H2-type 48.3 5.5 0.00012 25.1 -0.2 13 590-602 1-13 (24)
56 TIGR03491 RecB family nuclease 47.5 17 0.00037 41.5 3.5 38 272-310 201-238 (457)
57 PF02889 Sec63: Sec63 Brl doma 47.4 19 0.00042 38.3 3.8 41 277-318 147-188 (314)
58 PHA02768 hypothetical protein; 47.2 6.9 0.00015 31.6 0.2 27 587-615 3-29 (55)
59 COG3377 Uncharacterized conser 46.9 7.3 0.00016 34.4 0.3 27 138-164 68-94 (95)
60 cd07556 Nucleotidyl_cyc_III Cl 45.9 1.8E+02 0.004 25.5 9.5 63 180-245 30-97 (133)
61 smart00611 SEC63 Domain of unk 45.6 25 0.00054 37.5 4.3 41 277-318 150-191 (312)
62 PRK12311 rpsB 30S ribosomal pr 45.4 15 0.00033 40.0 2.6 30 280-310 265-294 (326)
63 COG5540 RING-finger-containing 45.2 8.6 0.00019 41.1 0.6 19 583-601 353-373 (374)
64 PRK12278 50S ribosomal protein 44.5 20 0.00044 37.0 3.2 31 279-310 159-189 (221)
65 TIGR00575 dnlj DNA ligase, NAD 44.0 29 0.00062 41.5 4.8 46 281-326 435-483 (652)
66 PTZ00035 Rad51 protein; Provis 41.5 24 0.00053 38.6 3.5 41 278-319 21-64 (337)
67 TIGR01916 F420_cofE F420-0:gam 39.1 1E+02 0.0022 32.4 7.3 90 157-250 56-155 (243)
68 smart00278 HhH1 Helix-hairpin- 37.0 23 0.0005 23.7 1.5 17 280-296 3-19 (26)
69 PLN03186 DNA repair protein RA 36.9 32 0.00069 37.8 3.4 42 278-320 26-70 (342)
70 TIGR01448 recD_rel helicase, p 36.7 57 0.0012 39.6 5.8 48 264-314 73-120 (720)
71 PLN03187 meiotic recombination 36.3 33 0.00072 37.8 3.5 42 277-319 28-72 (344)
72 PRK14351 ligA NAD-dependent DN 36.3 44 0.00095 40.3 4.7 46 281-326 465-513 (689)
73 TIGR02239 recomb_RAD51 DNA rep 35.8 40 0.00086 36.6 3.9 35 285-320 8-43 (316)
74 COG2199 c-di-GMP synthetase (d 35.8 94 0.002 29.8 6.3 62 181-245 77-148 (181)
75 PRK14667 uvrC excinuclease ABC 34.3 55 0.0012 38.5 5.0 50 277-328 513-564 (567)
76 TIGR02238 recomb_DMC1 meiotic 33.9 46 0.001 36.1 4.0 35 284-319 7-42 (313)
77 COG1734 DksA DnaK suppressor p 33.3 20 0.00043 33.6 1.0 12 589-600 79-91 (120)
78 PRK12373 NADH dehydrogenase su 31.9 39 0.00085 37.9 3.1 30 280-310 325-354 (400)
79 PF00096 zf-C2H2: Zinc finger, 31.3 13 0.00029 23.6 -0.4 12 590-601 1-12 (23)
80 COG1796 POL4 DNA polymerase IV 30.8 26 0.00055 38.1 1.4 32 279-310 94-125 (326)
81 PRK14668 uvrC excinuclease ABC 29.4 5E+02 0.011 30.8 11.7 130 176-325 418-573 (577)
82 PRK03922 hypothetical protein; 28.4 22 0.00048 32.6 0.4 42 588-634 48-106 (113)
83 KOG1478 3-keto sterol reductas 27.9 1.8E+02 0.004 31.1 6.9 93 151-254 10-111 (341)
84 PRK05182 DNA-directed RNA poly 27.8 64 0.0014 35.0 3.9 50 275-326 246-298 (310)
85 TIGR02027 rpoA DNA-directed RN 27.5 66 0.0014 34.7 3.9 50 275-326 232-284 (297)
86 PRK00116 ruvA Holliday junctio 27.2 66 0.0014 32.3 3.6 49 279-327 74-126 (192)
87 KOG2534 DNA polymerase IV (fam 26.8 52 0.0011 35.8 2.8 32 281-313 100-131 (353)
88 PF08004 DUF1699: Protein of u 26.5 1.5E+02 0.0032 28.1 5.4 36 155-190 30-65 (131)
89 TIGR02420 dksA RNA polymerase- 26.1 31 0.00067 31.5 0.9 10 591-600 82-91 (110)
90 TIGR00596 rad1 DNA repair prot 26.0 80 0.0017 38.9 4.6 47 280-328 759-807 (814)
91 PF12230 PRP21_like_P: Pre-mRN 25.6 23 0.0005 36.4 0.0 26 590-618 169-194 (229)
92 PHA00626 hypothetical protein 25.3 32 0.00069 27.9 0.7 18 585-602 19-36 (59)
93 PRK14669 uvrC excinuclease ABC 25.1 1.1E+02 0.0023 36.6 5.3 50 278-329 552-602 (624)
94 smart00355 ZnF_C2H2 zinc finge 25.1 31 0.00066 21.7 0.5 12 590-601 1-12 (26)
95 PF12171 zf-C2H2_jaz: Zinc-fin 24.7 38 0.00082 22.7 0.9 16 590-605 2-17 (27)
96 TIGR00615 recR recombination p 24.1 39 0.00084 34.3 1.3 16 280-295 13-28 (195)
97 PF06397 Desulfoferrod_N: Desu 23.7 29 0.00063 25.7 0.2 11 588-598 5-15 (36)
98 PRK14601 ruvA Holliday junctio 23.7 41 0.00089 33.7 1.4 16 280-295 110-125 (183)
99 PRK00076 recR recombination pr 23.5 40 0.00088 34.2 1.3 16 280-295 13-28 (196)
100 TIGR00532 HMG_CoA_R_NAD hydrox 22.0 90 0.0019 35.1 3.7 21 130-150 85-105 (393)
101 COG1885 Uncharacterized protei 22.0 35 0.00075 31.1 0.4 42 588-634 48-106 (115)
102 PRK14606 ruvA Holliday junctio 21.8 47 0.001 33.4 1.4 16 280-295 110-125 (188)
103 PRK05626 rpsO 30S ribosomal pr 21.7 2.7E+02 0.0059 24.7 5.9 43 35-77 3-45 (89)
104 COG2075 RPL24A Ribosomal prote 21.7 43 0.00094 28.0 0.9 14 589-602 3-16 (66)
105 COG0322 UvrC Nuclease subunit 21.5 5.4E+02 0.012 30.6 10.0 122 165-319 444-569 (581)
106 PRK13844 recombination protein 21.5 47 0.001 33.9 1.2 16 280-295 17-32 (200)
107 PF13240 zinc_ribbon_2: zinc-r 21.3 49 0.0011 21.8 0.9 12 591-602 1-12 (23)
108 PRK14666 uvrC excinuclease ABC 20.7 1.3E+02 0.0027 36.4 4.7 47 278-326 637-686 (694)
109 COG1540 Uncharacterized protei 20.6 2.2E+02 0.0049 29.8 5.9 107 123-240 136-250 (252)
110 PRK13901 ruvA Holliday junctio 20.4 52 0.0011 33.4 1.3 16 279-294 108-123 (196)
No 1
>KOG2094 consensus Predicted DNA damage inducible protein [Replication, recombination and repair]
Probab=100.00 E-value=1.1e-115 Score=900.06 Aligned_cols=450 Identities=55% Similarity=0.843 Sum_probs=432.2
Q ss_pred CCCCCCCCCCCCCCccccceecccccCCCCCcCHHHHHHHHHHhcCCCccchhHHHHHHHHHHHHHHHHHHHHhcCcchH
Q 005785 4 SDGECASSSENPRPWQSYHTVYTNAKAGMDGVDKEKVQKVVYEMSKGSKYFENEERKEAFIQQKIEHMRARCAKLTSPVI 83 (677)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~kag~~~~d~~~i~~ii~~~skgs~~~~~e~~~~~~~~~ri~~~~~~~~~l~~~~~ 83 (677)
||+......++..||..|...|+++||||+||||||||+||||+||||+||+||+||++++++||++|+.++++++..+|
T Consensus 2 dn~~~~~~~~ss~~~~~l~~~~nd~KaGmegvdkeKInkiI~E~skgSkff~~e~kke~~~~qrIe~m~~r~~k~ts~e~ 81 (490)
T KOG2094|consen 2 DNAIEDDGSSSSDEEATLKRRLNDNKAGMEGVDKEKINKIIYEASKGSKFFENEQKKERELRQRIEKMQVRVAKYTSREL 81 (490)
T ss_pred CccccCCCCCccChHHHHHhhccCccccccccCHHHHHHHHHHhcccchhhhhhHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 45666677777889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhccCCCCeEEEEeCCchhhhcccccCCCCCCCcEEEecCCeEEecCHHHHHcCCCCCCcHHHHHH
Q 005785 84 SHYQKVADKRILELEATRDLSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGTMSMICTANYEARRFGVRAAMPGFIARK 163 (677)
Q Consensus 84 ~~~~~~~d~~~~~le~~rd~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~~~V~taNY~ARk~GVr~GMp~~~Akk 163 (677)
...+..||..+++||++||++|+|+|||||||||+||+++||.|+++|+|||+.+|++|+||+||+||||+|||+|+|++
T Consensus 82 ~k~q~~vd~~~meleasRdLsr~~vhvDmDAfyAaVE~~dnP~lk~~PmAVGs~smlsTaNY~ARkFGVRaaMPgFIark 161 (490)
T KOG2094|consen 82 TKRQESVDTTVMELEASRDLSRIIVHVDMDAFYAAVEMLDNPKLKSKPMAVGSKSMLSTANYVARKFGVRAAMPGFIARK 161 (490)
T ss_pred HHHHHHHHHHHHHHHhhccccceEEEechHHHHHHHHhccCcccccCCccccchhhhhhhhHHHHHhhhhhcCchHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCcEEeCCChHHHHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCC------CHHHHHHHHHHHHHHHhCCe
Q 005785 164 LCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGI------SGIEIAEELRTSVYEEAGLT 237 (677)
Q Consensus 164 LCP~Lvvvp~d~~~Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~------~~~~la~~IR~~I~~~tGlt 237 (677)
|||+|++||.||.+|+.+|+++.+||.+|+|++.++|+||||||||.++++..+ +..+++++||.+|+++||+|
T Consensus 162 lCPdLiiVP~n~~kYt~~Ske~~~v~~~YDsn~~~~SlDEaylnlT~~l~~~~~g~l~~nG~~evveeiR~rV~qeTglT 241 (490)
T KOG2094|consen 162 LCPDLIIVPLNFSKYTIVSKEIQNVLAQYDSNFCAMSLDEAYLNLTSHLRERELGFLVENGITEVVEEIRFRVEQETGLT 241 (490)
T ss_pred cCCceEEeCCCcHHHHHHHHHHHHHHHHcCCccccchHHHHHHhHHHHHHHhhcchhhhccHHHHHHHHHHHHHHhcCce
Confidence 999999999999999999999999999999999999999999999999987622 26799999999999999999
Q ss_pred eEEEecCCHHHHHHHhcccCCCCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhchHHHHHhc
Q 005785 238 CSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKGSLLCAVF 317 (677)
Q Consensus 238 ~S~GIA~NklLAKLaS~~~KPnGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~~~L~~rF 317 (677)
||+|||+|++|||+||+.|||||||++++++.+++.||.+||||++.|||+++++.|. ++||.||||+.+....|...|
T Consensus 242 ~SaGIAaN~lLAKicSd~nKPNgQf~i~~dr~aim~F~kdLPvRkV~GIGrV~E~qLk-al~IkTcgdm~~k~~ll~~lF 320 (490)
T KOG2094|consen 242 CSAGIAANKLLAKICSDKNKPNGQFVIPNDRIAIMKFMKDLPVRKVSGIGRVTEQQLK-ALGIKTCGDMQQKLVLLSLLF 320 (490)
T ss_pred eeccccHhHHHHHHhccccCCCCceEecccHHHHHHHHhcCCcccccchhHHHHHHHH-hcCceeHHHHHHhhhHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999999 599999999999999999999
Q ss_pred ChhHHHHHHHhccCCCCCCCCCCCCCcceeeeecCCccccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCee
Q 005785 318 SHSTADFFLSVGLGLGSTNTPQARFRKSISSERTFSVTEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEV 397 (677)
Q Consensus 318 G~~~~~~L~~~a~G~~~~~~~~~~~rKSis~e~tf~~~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~ 397 (677)
.+..++.+++.++|.+.++.+....|||||.|+||..+++...++..+++||+.|+++|+++|+.++|||||++++.|++
T Consensus 321 sp~S~~~fLr~slG~g~t~~~~~~eRKsis~ErTFs~~sd~~il~~k~qel~~~lsedlqK~glv~rtvtiKlK~ssFev 400 (490)
T KOG2094|consen 321 SPKSFQNFLRCSLGLGTTILDEDGERKSISSERTFSSTSDPSILYSKLQELCQMLSEDLQKEGLVGRTVTIKLKTSSFEV 400 (490)
T ss_pred CchhHHHHHHHhhcCCCCcCccccccccccceeeecccCCHHHHHHHHHHHHHHHHHHHHhcCcccceEEEEEeccceee
Confidence 99999999999999999999989999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCCCCCCHHHHHHHHHHHHHhhCCCCEEEEEEEecCCCcCccCCCCCccccchh
Q 005785 398 RTRAVTLQKYISSSEDILKHASVLLKAELPVSLRLIGLRVTQFNEDKVRAPSDPTQKTLT 457 (677)
Q Consensus 398 ~trs~tl~~~t~~~~~L~~~a~~LLe~~lp~~VRlIGVrls~L~~~~~~~~~~~~Q~sl~ 457 (677)
.||+.++...+.+.++|+..|.+||++++|..||+||||+++|...+ .....|.++.
T Consensus 401 ~Tr~~t~s~vv~S~edi~k~aleLLk~e~~~~iRLlGvR~sqlv~ee---d~~~~~~tv~ 457 (490)
T KOG2094|consen 401 HTRQKTISQVVHSEEDILKPALELLKQEYPMTIRLLGVRASQLVSEE---DRKLAQQTVS 457 (490)
T ss_pred eeccCchhhhhccHHHHHHHHHHHHHhhcCceEeeeeeeHhhccchh---ccchhhcchh
Confidence 99999999999999999999999999999999999999999999875 3445555555
No 2
>PTZ00205 DNA polymerase kappa; Provisional
Probab=100.00 E-value=1.2e-101 Score=860.17 Aligned_cols=479 Identities=31% Similarity=0.486 Sum_probs=424.2
Q ss_pred ccceecccccCCCCCcCHHHHHHHHHHhcCCCccchhHHHHHHHHHHHHHHHHHHHHhcCc--------chHHHHHHHHH
Q 005785 20 SYHTVYTNAKAGMDGVDKEKVQKVVYEMSKGSKYFENEERKEAFIQQKIEHMRARCAKLTS--------PVISHYQKVAD 91 (677)
Q Consensus 20 ~~~~~~~~~kag~~~~d~~~i~~ii~~~skgs~~~~~e~~~~~~~~~ri~~~~~~~~~l~~--------~~~~~~~~~~d 91 (677)
.|+++|+++||||++|||+|||+||||+||||+||+||+||++.+++||+.|+++.+..+. .+..+++..||
T Consensus 41 ~~~~~~~~~KAG~~~vD~~ki~~ii~~~skgs~f~~~e~~k~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~vd 120 (571)
T PTZ00205 41 AFQLTLDCNKAGMGNVDKERVEAIIRNVSEGSSFLMNEQRLAEGREKQLQELKRKSSLFTQLLGGERNAAQRKQWELKVS 120 (571)
T ss_pred ccccccCccccccchhhHHHHHHHHHHhcCCchhHhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHH
Confidence 6999999999999999999999999999999999999999999999999999998876332 23455667899
Q ss_pred HHHHHHhhccCCCCeEEEEeCCchhhhcccccCCCCCCCcEEEecCCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEe
Q 005785 92 KRILELEATRDLSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGTMSMICTANYEARRFGVRAAMPGFIARKLCPELIFV 171 (677)
Q Consensus 92 ~~~~~le~~rd~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvv 171 (677)
+++.+||++||+ ++|+||||||||||||++++|+|+++||||+++|+|+||||+||+||||+|||+++|++|||+|++|
T Consensus 121 ~~~~~le~~Rdl-~~I~HVDmDaFYASVE~~~~PeLrgkPvaVg~~gvV~TaSYeARk~GVrsgMp~~~AkkLCP~Liiv 199 (571)
T PTZ00205 121 KIEQELEATRRL-GTYIHLDMDMFYAAVEIKKHPEYAAIPLAIGTMTMLQTANYVARGRGIRQGMPGFLALKICPNLLIL 199 (571)
T ss_pred HHHHHHHhcccC-CeEEEEecCcHhhhhheccCccccCCcEEEccCCEEEEcCHHHHhhCCCcCCcHHHHHHhCCCCcEe
Confidence 999999999999 5999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCChHHHHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcC--CCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHH
Q 005785 172 PTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERG--ISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLA 249 (677)
Q Consensus 172 p~d~~~Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g--~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLA 249 (677)
|+||+.|.++|.++++||.+|+|+++++||||+|||||+++..|+ .++.++|++||++|+++||||||||||+|++||
T Consensus 200 p~d~~~Y~~~S~~I~~il~~ysp~ve~~SIDEafLDlT~~~~~~~~~~~~~~iA~~IR~~I~~~tgLt~SiGIA~NklLA 279 (571)
T PTZ00205 200 PPDFDAYNEESNTVRRIVAEYDPNYISFGLDELTLEVSAYIERFEGTKTAEDVASELRVRVFGETKLTASAGIGPTAALA 279 (571)
T ss_pred cCCHHHHHHHHHHHHHHHHhcCCcEEEeechhceeccCCchhhccCCCCHHHHHHHHHHHHHHHHCCcEEEEEcCCHHHH
Confidence 999999999999999999999999999999999999999987663 378999999999999999999999999999999
Q ss_pred HHHhcccCCCCeEEec-CChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhchHH---------HHHhcCh
Q 005785 250 KVCSDINKPNGQFVLP-NDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKGSL---------LCAVFSH 319 (677)
Q Consensus 250 KLaS~~~KPnGq~~l~-~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~~~---------L~~rFG~ 319 (677)
||||+++||||+++++ .+++++++||++|||++|||||++++++|+. +||+||+||++.+.. +..+||.
T Consensus 280 KiASd~~KPnG~~vl~l~~~~~v~~fL~~LpV~ki~GIG~~t~~~L~~-~GI~TigDLa~~~~~l~~~f~~k~l~~llG~ 358 (571)
T PTZ00205 280 KIASNINKPNGQHDLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKG-LGITTLSDIYNRRVELCYILHNNLFRFLLGA 358 (571)
T ss_pred HHhhhccCCCCCeEEecCCHHHHHHHHhCCCcceeCCcCHHHHHHHHH-cCCCcHHHHhcCCHHHHHHhHHHHHHHHhCc
Confidence 9999999999999985 3566899999999999999999999999996 999999999998743 4566776
Q ss_pred hHHHHHHHhccCCCCCC-CC--CCCCCcceeeeecCCccccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCe
Q 005785 320 STADFFLSVGLGLGSTN-TP--QARFRKSISSERTFSVTEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFE 396 (677)
Q Consensus 320 ~~~~~L~~~a~G~~~~~-~~--~~~~rKSis~e~tf~~~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~ 396 (677)
..+.++|..++|++..+ +. ...++||||+++||..+.+.++|...|..|++.|+.+|++.++.+++|+|++++.+|.
T Consensus 359 ~~G~~l~~~a~G~d~~~~v~~~~~~~rKSIg~ErTF~~~~d~~el~~~L~~L~~~v~~rLrk~~l~artVtlKlK~~dF~ 438 (571)
T PTZ00205 359 SIGIMQWPDAATAANTENCEGATGGQRKAISSERSFTTPRTKEGLQEMVDTVFNGAYEEMRKSELMCRQISLTIRWASYR 438 (571)
T ss_pred hhhHHHHHHhcCCCCCCccCCCCCCCCceeEEeEeCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCccEEEEEEEECCCC
Confidence 66677778889988763 32 2457899999999999889999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCCHHHHHHHHHHHHHhh-C-CCCEEEEEEEecCCCcCccC--CCCCccccchhHhhcCCcccc-----
Q 005785 397 VRTRAVTLQKYISSSEDILKHASVLLKAE-L-PVSLRLIGLRVTQFNEDKVR--APSDPTQKTLTNFMTSGHASK----- 467 (677)
Q Consensus 397 ~~trs~tl~~~t~~~~~L~~~a~~LLe~~-l-p~~VRlIGVrls~L~~~~~~--~~~~~~Q~sl~~fF~~~~~~~----- 467 (677)
+.+++.+++.||++...|+..+..||+.. + +.+||+|||++++|...+.. ...+++|.+|.+|..++.+..
T Consensus 439 ~~trs~tL~~pT~d~~~I~~aa~~Ll~~~~~~~~~vRLlGV~ls~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 518 (571)
T PTZ00205 439 YQQYTKSLIQYSDDSATLRRAVDGLLLPHAAKYSEMCLLGVRFLDLISAKDFHMKRKGGNQLSISQFIRPKKPGEVTATT 518 (571)
T ss_pred ceEEEEECCCCcCCHHHHHHHHHHHHHhccccCCCEEEEEEEEcccCcHHHHHHHhcCCceeeHHHHcCCCCCCceeecc
Confidence 99999999999999999999999999876 3 46899999999999987632 345789999999999887542
Q ss_pred ---ccccccccccccccccccCCCccCccccccccC
Q 005785 468 ---KIVGDQNSLGSDINDDCLIDDKETSVSLDVSET 500 (677)
Q Consensus 468 ---~~~~l~~~L~arlg~~~~~~~~~~~~~~~~~~~ 500 (677)
...+....-...+--.+.+++.+++|++..++|
T Consensus 519 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 554 (571)
T PTZ00205 519 GIKRERTTEPKQVVEIIISSDDEDENDSVGLASSST 554 (571)
T ss_pred cccCCCcCCCCceEEEEEecCCcccCcceeecccce
Confidence 122222222333334445557777888776644
No 3
>PRK03858 DNA polymerase IV; Validated
Probab=100.00 E-value=1.1e-74 Score=635.17 Aligned_cols=371 Identities=30% Similarity=0.520 Sum_probs=344.2
Q ss_pred CCeEEEEeCCchhhhcccccCCCCCCCcEEEecCCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHHHH
Q 005785 104 SRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGTMSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSD 183 (677)
Q Consensus 104 ~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~ 183 (677)
.++|+||||||||||||++.||+|+++||||++ ++|+||||+||++||++|||+++|+++||+|+++|+|++.|.++|+
T Consensus 3 ~~~i~hiD~d~Fyas~e~~~~p~l~~~Pv~V~~-~~V~a~sy~Ar~~GV~~gm~~~~A~~lcP~l~~~~~d~~~y~~~s~ 81 (396)
T PRK03858 3 DASILHADLDSFYASVEQRDDPALRGRPVIVGG-GVVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRASK 81 (396)
T ss_pred CCEEEEEccChHHHHHHhhhCccccCCcEEEeC-CEEEEeCHHHHHhCCCCCChHHHHHHHCCCeEEECCCHHHHHHHHH
Confidence 478999999999999999999999999999984 8999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCeEE
Q 005785 184 LTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFV 263 (677)
Q Consensus 184 ~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq~~ 263 (677)
+++.|+++|+|.||++|+||+|||||++.++|| ++.++|+.||++|++++|+|||+|||+|+++||||++.+||||+++
T Consensus 82 ~i~~~l~~~s~~ve~~siDe~~ldvt~~~~~~~-~~~~la~~ir~~i~~~~gl~~svGia~n~~lAklas~~~Kp~g~~~ 160 (396)
T PRK03858 82 AVFEVFRDTTPLVEGLSIDEAFLDVGGLRRISG-TPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLV 160 (396)
T ss_pred HHHHHHHHhCCceEEecCCeEEEEccccccccC-CHHHHHHHHHHHHHHHHCCCeEEEEcCChHHHHHhhcccCCCceEE
Confidence 999999999999999999999999999999998 8999999999999999999999999999999999999999999999
Q ss_pred ecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCCCCCC
Q 005785 264 LPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTPQARF 342 (677)
Q Consensus 264 l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~~~~~ 342 (677)
++++ ++..||+++||++|||||+++.++|++ +||+||+||++++ ..|.++||...+.+|+.+++|++..++....+
T Consensus 161 i~~~--~~~~~L~~lpl~~l~Gig~~~~~~L~~-~Gi~t~~dl~~l~~~~L~~~fG~~~~~~l~~~a~G~d~~~v~~~~~ 237 (396)
T PRK03858 161 VPPD--RELAFLHPLPVRRLWGVGPVTAAKLRA-HGITTVGDVAELPESALVSLLGPAAGRHLHALAHNRDPRRVETGRR 237 (396)
T ss_pred ECcH--HHHHHHhcCChhhcCCCCHHHHHHHHH-hCCCcHHHHhcCCHHHHHHHhCcHHHHHHHHHhCCCCCCCCCCCCC
Confidence 9875 578999999999999999999999997 9999999999997 88999999888899988999999888877778
Q ss_pred CcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHHHHHHH
Q 005785 343 RKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILKHASVL 421 (677)
Q Consensus 343 rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~~a~~L 421 (677)
+|||+.+++|.. +.+.+++...|++|+++|+.+|+++++.+++|+|++++.+|...+++++++.||++...|+.+++.+
T Consensus 238 ~ksi~~~~t~~~~~~~~~~l~~~l~~L~~~l~~rLr~~~~~~~~l~l~l~~~~~~~~~~~~~l~~~t~~~~~l~~l~~~l 317 (396)
T PRK03858 238 RRSVGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRTVVLRLRFDDFTRATRSHTLPRPTASTATLLAAARDL 317 (396)
T ss_pred CccccceeEcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEEEeCCCCEEEEEEECCCCcCCHHHHHHHHHHH
Confidence 899999999987 7899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhC----CCCEEEEEEEecCCCcCccCCCCCccccchhHhhcCCccccccccccccccccccccccCC
Q 005785 422 LKAEL----PVSLRLIGLRVTQFNEDKVRAPSDPTQKTLTNFMTSGHASKKIVGDQNSLGSDINDDCLID 487 (677)
Q Consensus 422 Le~~l----p~~VRlIGVrls~L~~~~~~~~~~~~Q~sl~~fF~~~~~~~~~~~l~~~L~arlg~~~~~~ 487 (677)
|+..+ +.+||++||++++|.+.. ..|.++ ||..........+++++|++|+|.+++.-
T Consensus 318 l~~~~~~~~~~~irligv~~~~l~~~~------~~q~~L--~f~~~~~~~~l~~~id~l~~r~G~~~i~~ 379 (396)
T PRK03858 318 VAAAAPLIAERGLTLVGFAVSNLDDDG------AQQLEL--PFGLRRPGSALDAALDAVRDRFGNAAVTR 379 (396)
T ss_pred HHhhhhccCCCCeEEEEEEeecCCccc------ccccCC--CccchhhHHHHHHHHHHHHHhhCchhhhh
Confidence 98853 357999999999998643 234444 36543333456789999999999998765
No 4
>PRK01216 DNA polymerase IV; Validated
Probab=100.00 E-value=1.1e-73 Score=616.98 Aligned_cols=329 Identities=30% Similarity=0.469 Sum_probs=310.9
Q ss_pred eEEEEeCCchhhhcccccCCCCCCCcEEEe---c----CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHH
Q 005785 106 SWLHVDMDAFYAAVETLSNPSLKGKPMAVG---T----MSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKY 178 (677)
Q Consensus 106 ~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~---~----~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y 178 (677)
+|+||||||||||||++++|+|+++||||+ + .|+|+||||+||+|||++|||+++|++|||+|+++|+|++.|
T Consensus 2 ~i~hiD~daFfasve~~~~P~L~~kPv~V~~~~~~~~~~gvV~aasy~Ar~~GV~sgM~~~~A~~lcP~li~v~~d~~~y 81 (351)
T PRK01216 2 IILFVDFDYFFAQVEEVLNPSLKGKPVVVCVYSGRFEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVY 81 (351)
T ss_pred EEEEEecchHHHHHHhHhChhhcCCcEEEEecCCCCCCCeEEEECCHHHHHhCCCCCCcHHHHHHHCCCeEEECCCHHHH
Confidence 699999999999999999999999999997 2 379999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCC
Q 005785 179 TYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKP 258 (677)
Q Consensus 179 ~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KP 258 (677)
+++|++++.|+++|+|.|+++|+||+|||||++.++|| ++.++|++||++|++++|+|||+|||+|+++|||||+.+||
T Consensus 82 ~~~s~~i~~~l~~~tp~ve~~siDE~~LDvt~~~~l~g-~~~~la~~ir~~I~~~~glt~siGia~nk~lAKlas~~~KP 160 (351)
T PRK01216 82 QQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKNYQ-DAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKP 160 (351)
T ss_pred HHHHHHHHHHHHHhCCceEEccCCeEEEEcccchhccC-CHHHHHHHHHHHHHHHHCCcEEEEecCCHHHHHHHHhccCC
Confidence 99999999999999999999999999999999999999 89999999999999999999999999999999999999999
Q ss_pred CCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCC
Q 005785 259 NGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNT 337 (677)
Q Consensus 259 nGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~ 337 (677)
||+++++++ ++.+||++|||+++||||++++++|++ +||+|||||+++| ..|.++||...+.+|+++++|++..++
T Consensus 161 ~g~~vi~~~--~~~~~L~~LPi~~l~giG~~~~~~L~~-~Gi~TigdL~~~~~~~L~~rfG~~~~~~L~~~a~G~d~~pv 237 (351)
T PRK01216 161 NGIKVIDDE--EVKRFINELDIADIPGIGDITAEKLKK-LGVNKLVDTLRIEFDELKGIIGEAKAKYLFSLARNEYNEPV 237 (351)
T ss_pred CCEEEeCHH--HHHHHHhcCCcccccCCCHHHHHHHHH-cCCCcHHHHhcCCHHHHHHHHCHHHHHHHHHHhCCCCCCCC
Confidence 999999764 689999999999999999999999997 9999999999998 899999999878899998999998888
Q ss_pred CCCCCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHH
Q 005785 338 PQARFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILK 416 (677)
Q Consensus 338 ~~~~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~ 416 (677)
.+ .++|||+.++||.. +.+.+++...|.+|+++++.+|+. .++++++++++.+|.+.+++.+++.|++ .++++.
T Consensus 238 ~~-~~~ksi~~~~tl~~di~~~~~l~~~l~~L~~~~~~rl~~---~~~~~~~~~~~~df~~~t~~~tl~~~~~-~~~~~~ 312 (351)
T PRK01216 238 RA-RVRKSIGRYVTLPRNTRDLEEIKPYLKRAIEEAYYKLDG---IPKAIHVVAIMEDLDIVSRGRTFTHGIS-KETAYR 312 (351)
T ss_pred CC-CCCCCCcCeEECCCccCCHHHHHHHHHHHHHHHHHHHHh---CCCEEEEEEEcCCCCEEEEEEECCCCCC-HHHHHH
Confidence 76 45699999999987 789999999999999999999996 6899999999999999999999999997 688999
Q ss_pred HHHHHHHhhC---CCCEEEEEEEecCCCcC
Q 005785 417 HASVLLKAEL---PVSLRLIGLRVTQFNED 443 (677)
Q Consensus 417 ~a~~LLe~~l---p~~VRlIGVrls~L~~~ 443 (677)
.+..||++.+ ..+||+|||++++|.+.
T Consensus 313 ~a~~Ll~~~~~~~~~~vRllGv~~~~l~~~ 342 (351)
T PRK01216 313 EAVRLLQKILEEDERKIRRIGVRFSKIIEA 342 (351)
T ss_pred HHHHHHHhhhhcCCCCeeEEEEEEeccccc
Confidence 9999998863 24899999999999775
No 5
>cd01701 PolY_Rev1 DNA polymerase Rev1. Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.
Probab=100.00 E-value=2e-73 Score=626.66 Aligned_cols=371 Identities=29% Similarity=0.431 Sum_probs=333.7
Q ss_pred HHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHhhccCCCCeEEEEeCCchhhhcccccCCCCCCCcEEEec----CCeE
Q 005785 65 QQKIEHMRARCAKLTSPVISHYQKVADKRILELEATRDLSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT----MSMI 140 (677)
Q Consensus 65 ~~ri~~~~~~~~~l~~~~~~~~~~~~d~~~~~le~~rd~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~----~~~V 140 (677)
++|++.|-.|+..++.- +..+.......-.-....++..|+|+||||||||||||++++|+|+++||||++ .++|
T Consensus 8 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~r~i~hiD~d~FyasvE~~~~p~L~~kPv~V~~~~~~~~~V 86 (404)
T cd01701 8 HSRLHHISTWKARLKDF-FRELSNGSKEADPSNSIHPDLQRIIMHVDFDCFFVSVSIRNRPDLKGKPVAVCHGKGPNSEI 86 (404)
T ss_pred hhhHHHHHHHHHHHHHH-HHHHHhhcccCCCCCCCCCCCCcEEEEEeCchHHHHHHhhhCccccCCCEEEecCCCCCeEE
Confidence 67899999999876431 111111100000012445788899999999999999999999999999999986 3789
Q ss_pred EecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHHHHHHHHHHHhcCCceEEeccCceEEecchhhh-hcCCCH
Q 005785 141 CTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCR-ERGISG 219 (677)
Q Consensus 141 ~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~-~~g~~~ 219 (677)
+||||+||++||++|||+++|+++||+|+++++|++.|.++|+++++|+++|+|.||++||||+|||||++.+ .++ ++
T Consensus 87 ~a~sy~AR~~GV~~gM~~~~A~~lcP~l~vv~~~~~~Y~~~s~~i~~il~~~s~~ve~~SiDE~~lDvt~~~~~~~~-~~ 165 (404)
T cd01701 87 ASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETYE-LP 165 (404)
T ss_pred EecCHHHHhcCCCCCCcHHHHHHHCCCcEEECCChHHHHHHHHHHHHHHHHhCCceEEcccceEEEEcccccccccC-CH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999985 677 89
Q ss_pred HHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcC
Q 005785 220 IEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFG 299 (677)
Q Consensus 220 ~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lG 299 (677)
..+|++||++|++++|+|||+|||+|+++|||||+.+||||+++++++ ++.+||++|||++|||||+++.++|.+ +|
T Consensus 166 ~~la~~ir~~I~~~~gl~~siGia~nk~lAKlAs~~aKP~g~~~i~~~--~~~~~L~~lPv~~l~GIG~~~~~~L~~-~G 242 (404)
T cd01701 166 EELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDGQYHLSAE--KVEEFLSQLKVGDLPGVGSSLAEKLVK-LF 242 (404)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEcCCHHHHHHHhcccCCCcEEEECHH--HHHHHhhcCCHhHhCCCCHHHHHHHHH-cC
Confidence 999999999999999999999999999999999999999999999864 688999999999999999999999997 99
Q ss_pred CCcHHHHHhch---HHHHHhcChhHHHHHHHhccCCCCCCCCCCCCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHH
Q 005785 300 INTCEEMLQKG---SLLCAVFSHSTADFFLSVGLGLGSTNTPQARFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSAD 375 (677)
Q Consensus 300 I~T~gDL~~~~---~~L~~rFG~~~~~~L~~~a~G~~~~~~~~~~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~r 375 (677)
|+|++||++++ ..|.++||...+.+|+..++|++..++....++|||+.+++|+. +.+.+++..+|.+|+++|+.+
T Consensus 243 i~t~~dl~~~~~~~~~L~~~fG~~~g~~L~~~a~G~d~~~v~~~~~~ksi~~~~tf~~~~~~~~~l~~~l~~L~~~l~~r 322 (404)
T cd01701 243 GDTCGGLELRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKR 322 (404)
T ss_pred CcchHHHHhCcccHHHHHHHHCHHHHHHHHHHhCCcCCCCCCCCCCCccccceeeCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 99999999985 68999999877888889999999999888888999999999987 689999999999999999999
Q ss_pred HHHhCCcccEEEEEEEEc---------------CCeeeEEEEEcCCCCCCHHHHHHHHHHHHHhhC--CCCEEEEEEEec
Q 005785 376 MQKEGLRGRTLTLKLKTA---------------SFEVRTRAVTLQKYISSSEDILKHASVLLKAEL--PVSLRLIGLRVT 438 (677)
Q Consensus 376 Lr~~~l~~rtltLklk~~---------------~f~~~trs~tl~~~t~~~~~L~~~a~~LLe~~l--p~~VRlIGVrls 438 (677)
|+.+++.+++|+|++++. +|...+++++++.||++...|+..+..||++.+ ..+||+|||+++
T Consensus 323 Lr~~~~~~~~l~l~l~~~~~~~~~~~~~y~g~~~~~~~~~~~~l~~pT~d~~~i~~~a~~ll~~~~~~~~~vR~lgv~~~ 402 (404)
T cd01701 323 LEESNVTGRQITLKLMKRAPGAPIEPPKYMGHGICDSFSKSSTLGVATDDSGVIGTEAKKLFRDLSIPPEELRGVGIQVT 402 (404)
T ss_pred HHHcCCceeeEEEEEEeccccCccccccccccCCCcEEeeeeECCCCCCCHHHHHHHHHHHHHhccCCCCCeeEEEEEEe
Confidence 999999999999999972 256789999999999999999999999999874 369999999999
Q ss_pred CC
Q 005785 439 QF 440 (677)
Q Consensus 439 ~L 440 (677)
+|
T Consensus 403 ~l 404 (404)
T cd01701 403 KL 404 (404)
T ss_pred cC
Confidence 86
No 6
>PRK02794 DNA polymerase IV; Provisional
Probab=100.00 E-value=1.3e-73 Score=631.21 Aligned_cols=372 Identities=31% Similarity=0.466 Sum_probs=342.7
Q ss_pred CCeEEEEeCCchhhhcccccCCCCCCCcEEEec--CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHH
Q 005785 104 SRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT--MSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYY 181 (677)
Q Consensus 104 ~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~--~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~ 181 (677)
+++|+||||||||||||++.+|+|+++||||++ .++|+||||+||++||++|||+++|+++||+|+++|+||+.|.++
T Consensus 35 ~~~i~hiD~d~Fyasve~~~~p~l~~~Pv~v~~~~~~~V~a~ny~Ar~~GV~~GM~~~~A~~lcP~l~~v~~d~~~y~~~ 114 (419)
T PRK02794 35 TLSIAHIDCDAFYASVEKRDNPELRDKPVIIGGGKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRV 114 (419)
T ss_pred CCEEEEEcCCcHHHHHHhhhCccccCCcEEEecCCCeEEEecCHHHHHhCCCcCCHHHHHHHHCCCcEEECCCHHHHHHH
Confidence 478999999999999999999999999999975 489999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCe
Q 005785 182 SDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQ 261 (677)
Q Consensus 182 s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq 261 (677)
|+++++|+++|+|.|+++|+||+|||||++.++||..+..++++||++|++++|+|||+|||+|+++||||++.+||||+
T Consensus 115 s~~i~~~l~~~sp~ve~~siDe~~ldvt~~~~l~g~~~~~~~~~i~~~i~~~~gl~~svGIa~n~~lAKlas~~~KP~g~ 194 (419)
T PRK02794 115 GREVRAMMQALTPLVEPLSIDEAFLDLSGTERLHGAPPAVVLARFARRVEREIGITVSVGLSYNKFLAKIASDLDKPRGF 194 (419)
T ss_pred HHHHHHHHHHhCcceeeccCCeEEEeccchhhhcCCCHHHHHHHHHHHHHHHHCCceEEEEcCCHHHHHHHHhhhCCCCe
Confidence 99999999999999999999999999999999998556668999999999999999999999999999999999999999
Q ss_pred EEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCCCC
Q 005785 262 FVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTPQA 340 (677)
Q Consensus 262 ~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~~~ 340 (677)
+++.+ +.+.+||++|||++|||||+++.++|.+ +||+||+||++++ ..|.++||.. +.++|..++|++..++.+.
T Consensus 195 ~ii~~--~~~~~~L~~lPl~~L~GiG~~~~~~L~~-~GI~tigdL~~l~~~~L~~rfG~~-g~~l~~~a~G~d~~~v~~~ 270 (419)
T PRK02794 195 SVIGR--AEALAFLAPKPVGIIWGVGPATAARLAR-DGIRTIGDLQRADEADLMRRFGSM-GLRLWRLARGIDDRKVSPD 270 (419)
T ss_pred EecCH--HHHHHHHhcCChhhhCCCCHHHHHHHHH-hccchHHHHhhCCHHHHHHHHhHH-HHHHHHHhCCCCCCCCccC
Confidence 99875 3689999999999999999999999997 9999999999998 8999999985 6778899999999998888
Q ss_pred CCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHHHHH
Q 005785 341 RFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILKHAS 419 (677)
Q Consensus 341 ~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~~a~ 419 (677)
.++|||+.+.+|.. +.+.+++..+|.+|+++|+.+|+.+++.+++|+|++++.+|...+++++++.|+++.+.|+.+++
T Consensus 271 ~~~ksi~~~~tl~~~~~~~~~l~~~l~~L~~~l~~rL~~~~~~~~~l~l~l~~~~~~~~~~~~~l~~pt~~~~~l~~~~~ 350 (419)
T PRK02794 271 REAKSVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLKTADFRLRTRRRTLEDPTQLADRIFRTAR 350 (419)
T ss_pred CCCceeeeeEECCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEEEECCCCceEEEEECCCCcCCHHHHHHHHH
Confidence 88999999999987 78999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhC-CCCEEEEEEEecCCCcCccCCCCCccccchhHhhcCCc-cccccccccccccccccccccCC
Q 005785 420 VLLKAEL-PVSLRLIGLRVTQFNEDKVRAPSDPTQKTLTNFMTSGH-ASKKIVGDQNSLGSDINDDCLID 487 (677)
Q Consensus 420 ~LLe~~l-p~~VRlIGVrls~L~~~~~~~~~~~~Q~sl~~fF~~~~-~~~~~~~l~~~L~arlg~~~~~~ 487 (677)
.+|++.+ +.+||+|||++++|.+.. ...| .+||.... ...+..++++.|.+|+|.+++.-
T Consensus 351 ~ll~~~~~~~~vr~igv~~~~l~~~~-----~~~q---~~LF~~~~~~~~~l~~~id~l~~r~G~~ai~~ 412 (419)
T PRK02794 351 ELLEKETDGTAFRLIGIGVSDLSPAD-----EADP---PDLLDPQATRRAAAERAIDALRAKFGAAAVET 412 (419)
T ss_pred HHHHhcccCCCEEEEEEEEecCCCcc-----cccc---ccccCcchhhHHHHHHHHHHHHHhhCcchhhh
Confidence 9999884 579999999999998754 0023 45686533 23356789999999999998654
No 7
>PRK03103 DNA polymerase IV; Reviewed
Probab=100.00 E-value=1.4e-73 Score=628.98 Aligned_cols=371 Identities=25% Similarity=0.404 Sum_probs=341.6
Q ss_pred CCCeEEEEeCCchhhhcccccCCCCCCCcEEEecC-----CeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHH
Q 005785 103 LSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGTM-----SMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTK 177 (677)
Q Consensus 103 ~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~-----~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~ 177 (677)
|.|+|+||||||||||||+..+|+|+++||||+++ ++|++|||+||++||++|||+++|++|||+|+++++||+.
T Consensus 1 m~r~i~hiD~d~Ffasve~~~~P~l~~~Pv~V~~~~~~~~~~v~a~sy~Ar~~GV~~gm~~~~A~~lcP~l~~~~~d~~~ 80 (409)
T PRK03103 1 MERVILLVDMQSFYASVEKAANPELKGRPVIVSGDPERRSGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQR 80 (409)
T ss_pred CCCEEEEEecchHHHhHhcccChhhcCCcEEEeccCCCCCEEEEEcCHHHHHhCCCCCChHHHHHHHCCCeEEECCCHHH
Confidence 46899999999999999999999999999999852 6899999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcc--
Q 005785 178 YTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDI-- 255 (677)
Q Consensus 178 Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~-- 255 (677)
|.++|+++++|+++|+|.|+++|+||+|||||++.++|| ++.++|++||++|++++|+|||+|||+|+++||||++.
T Consensus 81 y~~~s~~i~~~l~~~sp~ve~~siDe~~lDvt~~~~~~~-~~~~la~~ir~~i~~~~gl~~svGia~n~~lAklas~~~~ 159 (409)
T PRK03103 81 YIDVSLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLFG-SPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDNFA 159 (409)
T ss_pred HHHHHHHHHHHHHHhCccceecCCCeeEeeccchhhcCC-CHHHHHHHHHHHHHHHHCceEEEeecCCHHHHHHHhcchh
Confidence 999999999999999999999999999999999999998 89999999999999999999999999999999999998
Q ss_pred -cCCCCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCC
Q 005785 256 -NKPNGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLG 333 (677)
Q Consensus 256 -~KPnGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~ 333 (677)
+||+|++++.++ ++.+||++|||++|||||+++.++|++ +||+|||||++++ ..|.++||.. +.++|..++|++
T Consensus 160 k~kp~g~~v~~~~--~~~~~L~~lpi~~l~gig~~~~~~L~~-~Gi~tigdl~~~~~~~L~~~fG~~-~~~l~~~a~G~d 235 (409)
T PRK03103 160 KKNPDGLFTLDKE--DVPADLWPLPVRKLFGVGSRMEKHLRR-MGIRTIGQLANTPLERLKKRWGIN-GEVLWRTANGID 235 (409)
T ss_pred hcCCCcEEEECHH--HHHHHHHcCCHhhcCCccHHHHHHHHH-cCCCCHHHHhcCCHHHHHHHHCHH-HHHHHHHhcCCC
Confidence 999999999763 688999999999999999999999997 9999999999998 7899999975 567778999999
Q ss_pred CCCCCCCCC--CcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCee---eEEEEEcCCC
Q 005785 334 STNTPQARF--RKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEV---RTRAVTLQKY 407 (677)
Q Consensus 334 ~~~~~~~~~--rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~---~trs~tl~~~ 407 (677)
.+++.+..+ +|||+.+.+|+. +.+.++|...|.+|+++|+.+|++.++.+++|+|++++.+|.. .+++++++.|
T Consensus 236 ~~~v~~~~~~~~ksi~~~~t~~~~~~~~~~l~~~l~~L~~~l~~rLr~~~~~~~~l~l~lr~~~~~~~~~~~~~~~l~~p 315 (409)
T PRK03103 236 YSPVTPHSLDRQKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRRARAKGYMGRTVSVSLRGADFDWPTGFSRQMTLPEP 315 (409)
T ss_pred CCcCCcccCCCCCccCCCeECCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCceeEEEEEEEeCCCcCCCCcceeeecCCC
Confidence 988876544 689999999987 6899999999999999999999999999999999999999988 9999999999
Q ss_pred CCCHHHHHHHHHHHHHhhC-CCCEEEEEEEecCCCcCccCCCCCccccchhHhhcCCccccccccccccccccccccccC
Q 005785 408 ISSSEDILKHASVLLKAEL-PVSLRLIGLRVTQFNEDKVRAPSDPTQKTLTNFMTSGHASKKIVGDQNSLGSDINDDCLI 486 (677)
Q Consensus 408 t~~~~~L~~~a~~LLe~~l-p~~VRlIGVrls~L~~~~~~~~~~~~Q~sl~~fF~~~~~~~~~~~l~~~L~arlg~~~~~ 486 (677)
|++...|+.++..+|++.+ +.+||+|||++++|.+.. ..|. +||..........+++++|.+|+|.+++.
T Consensus 316 t~~~~~l~~~~~~ll~~~~~~~~vr~lgv~~~~l~~~~------~~q~---~LF~~~~~~~~l~~~ld~l~~r~G~~av~ 386 (409)
T PRK03103 316 TNLAMEVYEAACKLFHRHWDGKPVRRVGVTLSNLVSDD------VWQL---SLFGDRERKRSLGYVMDDIKNRFGPTAIL 386 (409)
T ss_pred CCCHHHHHHHHHHHHHhcccCCCceEEEEEEeCCCCCc------ccCC---CcccchhhHHHHHHHHHHHHHhhChhHHh
Confidence 9999999999999999885 578999999999998753 2343 56755433445678899999999999876
Q ss_pred C
Q 005785 487 D 487 (677)
Q Consensus 487 ~ 487 (677)
-
T Consensus 387 ~ 387 (409)
T PRK03103 387 R 387 (409)
T ss_pred h
Confidence 5
No 8
>PRK01810 DNA polymerase IV; Validated
Probab=100.00 E-value=3.1e-73 Score=625.85 Aligned_cols=371 Identities=29% Similarity=0.464 Sum_probs=337.7
Q ss_pred CCeEEEEeCCchhhhcccccCCCCCCCcEEEec-----CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHH
Q 005785 104 SRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT-----MSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKY 178 (677)
Q Consensus 104 ~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~-----~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y 178 (677)
+|+|+||||||||||||++++|+|+++||||++ .++|+||||+||++||++|||+++|++|||+|+++|+||+.|
T Consensus 4 ~r~i~hiD~d~Fyasve~~~~p~l~~~Pv~V~~~~~~~~~~v~a~ny~Ar~~GV~~Gm~~~~A~~lcP~l~~~~~d~~~y 83 (407)
T PRK01810 4 GRVIFHVDMNSFFASVEIAYDPSLQGKPLAVAGNEKERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRY 83 (407)
T ss_pred CCEEEEEecCcHHHhHHhhhCccccCCcEEEeCCCCCCCeEEEEcCHHHHHhCCCCCChHHHHHHHCCCeEEECCChHHH
Confidence 489999999999999999999999999999985 379999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCC
Q 005785 179 TYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKP 258 (677)
Q Consensus 179 ~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KP 258 (677)
.++|+.+++|+++|+|.|+++|+||+|||||++.+++ ++.++|+.||++|++++|+|||+|||+|+++||||++.+||
T Consensus 84 ~~~s~~i~~~l~~~sp~ve~~siDe~~ldvt~~~~~~--~~~~~a~~i~~~i~~~~gl~~svGia~n~~lAklas~~~Kp 161 (407)
T PRK01810 84 REASRQMFQILSEFTPLVQPVSIDEGYLDITDCYALG--SPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKP 161 (407)
T ss_pred HHHHHHHHHHHHHhCCceEEecCCeEEEeccCccccC--CHHHHHHHHHHHHHHHHCCceEEEEcCCHHHHHHHhcCCCC
Confidence 9999999999999999999999999999999988765 58899999999999999999999999999999999999999
Q ss_pred CCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCC
Q 005785 259 NGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNT 337 (677)
Q Consensus 259 nGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~ 337 (677)
||++++.++ .+..||+++||++|||||+++.++|.+ +||+|++||+++| ..|.++||.. +.++|..++|++..++
T Consensus 162 ~g~~vi~~~--~~~~~L~~lpv~~l~giG~~~~~~L~~-~Gi~tigdL~~~~~~~L~~rfG~~-g~~l~~~a~G~d~~~v 237 (407)
T PRK01810 162 LGITVLRKR--DVPEMLWPLPVGEMHGIGEKTAEKLKD-IGIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPV 237 (407)
T ss_pred CCEEEECHH--HHHHHHHhCCHhhcCCcCHHHHHHHHH-cCCCcHHHHHhCCHHHHHHHHhHH-HHHHHHHhcCCCCCCC
Confidence 999998764 688999999999999999999999996 9999999999998 8999999975 6677789999999887
Q ss_pred CCCC--CCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHH
Q 005785 338 PQAR--FRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDI 414 (677)
Q Consensus 338 ~~~~--~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L 414 (677)
.+.. .+|||+.+++|+. +.+.++|..+|.+|+++|+.+|+++++.+++|+|++++.+|...+++++++.||++...|
T Consensus 238 ~~~~~~~~ksi~~~~~~~~~~~~~~~l~~~l~~L~~~l~~rLr~~~~~~~~l~l~lr~~~~~~~~~~~~l~~pt~~~~~l 317 (407)
T PRK01810 238 DPEAIYQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRTITRSKTLKNPIWEKRDI 317 (407)
T ss_pred CCCCCCCCceecceEECCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCccceeEEEEEECCCCceEEEEECCCCCCCHHHH
Confidence 6544 3699999999997 789999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhC-CCCEEEEEEEecCCCcCccCCCCCccccchhHhhcCCc--cccccccccccccccccccccCC
Q 005785 415 LKHASVLLKAEL-PVSLRLIGLRVTQFNEDKVRAPSDPTQKTLTNFMTSGH--ASKKIVGDQNSLGSDINDDCLID 487 (677)
Q Consensus 415 ~~~a~~LLe~~l-p~~VRlIGVrls~L~~~~~~~~~~~~Q~sl~~fF~~~~--~~~~~~~l~~~L~arlg~~~~~~ 487 (677)
+.+++.+|++.+ +.+||++||++++|.+.. ....| .+||.... ......++++.|.+|+|.+++.-
T Consensus 318 ~~~~~~ll~~~~~~~~vr~lgv~~~~l~~~~----~~~~q---~~Lf~~~~~~~~~~l~~~id~l~~r~G~~ai~~ 386 (407)
T PRK01810 318 FQAASRLFKQHWNGDPVRLLGVTATDLEWKT----EAVKQ---LDLFSFEEDAKEEPLLAVIDQINDKYGMPLLQR 386 (407)
T ss_pred HHHHHHHHHhccCCCCEEEEEEEEecCcccc----ccccc---cccccchhhhhHHHHHHHHHHHHHhcCcchhhh
Confidence 999999999885 468999999999998753 11234 34565221 22346788999999999998765
No 9
>PRK03352 DNA polymerase IV; Validated
Probab=100.00 E-value=9e-72 Score=601.93 Aligned_cols=332 Identities=32% Similarity=0.476 Sum_probs=314.8
Q ss_pred CCCeEEEEeCCchhhhcccccCCCCCCCcEEEec-------CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCCh
Q 005785 103 LSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT-------MSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDF 175 (677)
Q Consensus 103 ~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~-------~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~ 175 (677)
++|+|+||||||||||||++.+|+|+++||||++ .++|++|||+||++||++|||+++|++|||+|+++|+|+
T Consensus 3 ~~r~i~hiD~d~F~as~e~~~~p~l~~~Pvvv~~~~~~~~~~~~V~~~sy~Ar~~GV~~gM~~~~A~~lcP~l~~v~~~~ 82 (346)
T PRK03352 3 MPRWVLHVDLDQFIAAVELLRRPELAGLPVIVGGNGDPTEPRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDP 82 (346)
T ss_pred CCcEEEEEccchHHHHHHhhhCccccCCCEEEecCCCCCCCceEEEECCHHHHHhCCCcCChHHHHHHHCCCeEEECCCc
Confidence 6799999999999999999999999999999985 378999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcc
Q 005785 176 TKYTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDI 255 (677)
Q Consensus 176 ~~Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~ 255 (677)
+.|..+|++++.|+++|+|.||.+|+||+|||+|+. ++..+|+.||++|++++|+|||+|||+|+++||||++.
T Consensus 83 ~~y~~~s~~i~~~l~~~s~~ve~~siDe~~ld~t~~------~~~~la~~ir~~i~~~~gl~~siGia~nk~lAklaa~~ 156 (346)
T PRK03352 83 AAYDAASEEVMATLRDLGVPVEVWGWDEAFLGVDTD------DPEALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGF 156 (346)
T ss_pred HHHHHHHHHHHHHHHHhCCceEEecCccEEEeCCCC------CHHHHHHHHHHHHHHHHCCCEEEeecCCHHHHHHHHhh
Confidence 999999999999999999999999999999999975 68999999999999999999999999999999999999
Q ss_pred cCCCCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCC
Q 005785 256 NKPNGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGS 334 (677)
Q Consensus 256 ~KPnGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~ 334 (677)
+||+|++++.++ .+.+||+++||++|||||+++.++|++ +||+||+||++++ ..|.++||...+.+|+.+++|++.
T Consensus 157 ~Kp~g~~~~~~~--~~~~~L~~lpl~~l~gig~~~~~~L~~-~Gi~ti~dl~~l~~~~L~~~fG~~~~~~l~~~a~G~d~ 233 (346)
T PRK03352 157 AKPAGVFRLTDA--NWMAVMGDRPTDALWGVGPKTAKRLAA-LGITTVADLAAADPAELAATFGPTTGPWLLLLARGGGD 233 (346)
T ss_pred cCCCcEEEECHH--HHHHHHhcCCHHHcCCCCHHHHHHHHH-cCCccHHHHhcCCHHHHHHHhChHHHHHHHHHhCCCCC
Confidence 999999998764 678999999999999999999999997 9999999999997 899999998878889999999999
Q ss_pred CCCCCC-CCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHH
Q 005785 335 TNTPQA-RFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSE 412 (677)
Q Consensus 335 ~~~~~~-~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~ 412 (677)
.+++.. ..+||++.+.+|+. +.+.+++..+|++|+++|+.+|+.+++.+++|+|++++.+|...+++++++.||++.+
T Consensus 234 ~~~~~~~~~~ksi~~~~tf~~~~~~~~~l~~~l~~L~~~l~~rLr~~~~~~~~l~l~l~~~~~~~~~~~~~l~~pt~d~~ 313 (346)
T PRK03352 234 TEVSAEPWVPRSRSREVTFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTATFYTRTKIRKLPEPTTDPD 313 (346)
T ss_pred CCCCCCCCCCceEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCccceEEEEEEeCCCceeEEEEECCCCcCCHH
Confidence 887654 34799999999987 7899999999999999999999999999999999999999998999999999999999
Q ss_pred HHHHHHHHHHHhh-CCCCEEEEEEEecCCCcC
Q 005785 413 DILKHASVLLKAE-LPVSLRLIGLRVTQFNED 443 (677)
Q Consensus 413 ~L~~~a~~LLe~~-lp~~VRlIGVrls~L~~~ 443 (677)
.|+.+++.+|++. ++.+||+|||++.+|.+.
T Consensus 314 ~l~~~~~~ll~~~~~~~~vr~igl~~~~~~~~ 345 (346)
T PRK03352 314 VIEAAALDVLDRFELDRPVRLLGVRLELAMPD 345 (346)
T ss_pred HHHHHHHHHHHhccCCCCEEEEEEEEeccCCC
Confidence 9999999999987 468999999999999875
No 10
>PRK14133 DNA polymerase IV; Provisional
Probab=100.00 E-value=1.1e-71 Score=601.64 Aligned_cols=334 Identities=38% Similarity=0.624 Sum_probs=317.1
Q ss_pred CCCeEEEEeCCchhhhcccccCCCCCCCcEEEec---CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHH
Q 005785 103 LSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT---MSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYT 179 (677)
Q Consensus 103 ~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~---~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~ 179 (677)
|+|+|+||||||||||||+..+|+|+++||||++ .++|++|||+||++||++|||+++|+++||+|+++|+|++.|.
T Consensus 1 ~~r~i~hiD~d~F~as~e~~~~p~l~~~Pvvv~~~~~~~~V~a~n~~Ar~~GV~~Gm~~~~A~~lcP~l~~~~~d~~~y~ 80 (347)
T PRK14133 1 MDRVIIHVDMDAFFASVEQMDNPKLKGKPVIVGGISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYK 80 (347)
T ss_pred CCCEEEEEecChHHHHHHhhhCccccCCCEEEecCCCCcEEEECCHHHHhcCCCCCChHHHHHHHCCCcEEECCCHHHHH
Confidence 4689999999999999999999999999999985 4899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCC
Q 005785 180 YYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPN 259 (677)
Q Consensus 180 ~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPn 259 (677)
++|++++.|+++|+|.|+++|+||+|||+|++. + ++..+|+.||++|++++|+|||+|||+|+++||||++.+||+
T Consensus 81 ~~s~~i~~~l~~~s~~ve~~siDe~~ldv~~~~---~-~~~~la~~i~~~i~~~~gl~~siGia~n~~~Aklas~~~kp~ 156 (347)
T PRK14133 81 EVSKNIFKILYEVTPIVEPVSIDEAYLDITNIK---E-EPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPD 156 (347)
T ss_pred HHHHHHHHHHHHhCCceEEccCCeEEEEccCCC---C-CHHHHHHHHHHHHHHHHCCcEEEEEcCcHHHHHHHhccCCCC
Confidence 999999999999999999999999999999986 4 789999999999999999999999999999999999999999
Q ss_pred CeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCC
Q 005785 260 GQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTP 338 (677)
Q Consensus 260 Gq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~ 338 (677)
|+++++++ ++.+||++|||++|||||+.+.++|++ +||+||+||++++ ..|.++||.. +..+|..++|++..++.
T Consensus 157 g~~~~~~~--~~~~~L~~lpv~~l~gig~~~~~~L~~-~Gi~ti~dl~~l~~~~L~~rfG~~-g~~l~~~a~G~d~~~v~ 232 (347)
T PRK14133 157 GIKIITED--MIPDILKPLPISKVHGIGKKSVEKLNN-IGIYTIEDLLKLSREFLIEYFGKF-GVEIYERIRGIDYREVE 232 (347)
T ss_pred ceEEECHH--HHHHHHHhCCccccCCCCHHHHHHHHH-cCCccHHHHhhCCHHHHHHHHhHH-HHHHHHHhCCCCCCCCC
Confidence 99998764 688999999999999999999999997 9999999999998 8999999975 56677889999999998
Q ss_pred CCCCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHHH
Q 005785 339 QARFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILKH 417 (677)
Q Consensus 339 ~~~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~~ 417 (677)
+..++|||+.+.+|.. +.+.+.+.++|++|+++|+.+|+.+++.+++|+|++++.+|...+++++++.|+++.+.|+.+
T Consensus 233 ~~~~~ksi~~~~~~~~~~~~~~~l~~~l~~L~~~l~~rL~~~~~~~~~l~l~l~~~~~~~~~~~~~l~~~t~~~~~l~~l 312 (347)
T PRK14133 233 VSRERKSIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTSDFQTHTKSKTLNDYIRDKEEIYNV 312 (347)
T ss_pred CCCCCcceEeeEEcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEEEECCCCeeEEEEECCCCcCCHHHHHHH
Confidence 8888999999999987 789999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhh-CCCCEEEEEEEecCCCcCc
Q 005785 418 ASVLLKAE-LPVSLRLIGLRVTQFNEDK 444 (677)
Q Consensus 418 a~~LLe~~-lp~~VRlIGVrls~L~~~~ 444 (677)
++.+|++. .+.+||+|||++++|.+..
T Consensus 313 ~~~lle~~~~~~~vr~lgl~~~~l~~~~ 340 (347)
T PRK14133 313 ACEILEHINIKEPIRLIGLSVSNLSENK 340 (347)
T ss_pred HHHHHHhccCCCCEEEEEEEEecCCCCc
Confidence 99999987 4689999999999998653
No 11
>PRK03348 DNA polymerase IV; Provisional
Probab=100.00 E-value=2.2e-70 Score=609.96 Aligned_cols=337 Identities=31% Similarity=0.482 Sum_probs=318.5
Q ss_pred CCCeEEEEeCCchhhhcccccCCCCCCCcEEEec---CCeEEecCHHHHHcCCCCCCcHHHHHHhCCC-cEEeCCChHHH
Q 005785 103 LSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT---MSMICTANYEARRFGVRAAMPGFIARKLCPE-LIFVPTDFTKY 178 (677)
Q Consensus 103 ~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~---~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~-Lvvvp~d~~~Y 178 (677)
+.|+|+||||||||||||++.+|+|+++||+|++ .++|++|||+||+|||++|||+++|++|||+ ++++++|++.|
T Consensus 3 ~~r~I~hiDmDaFfasvE~~~~P~L~g~PvvV~~~~~~gvV~aasyeAR~~GVrsgMp~~~A~~lcP~~lv~v~~d~~~Y 82 (454)
T PRK03348 3 AQRWVLHLDMDAFFASVEQLTRPTLRGRPVLVGGLGGRGVVAGASYEARVFGARSAMPMHQARRLVGNGAVVLPPRFVVY 82 (454)
T ss_pred CCCEEEEEecChHHHhhhhhhCccccCCcEEEEcCCCCeEEEeCCHHHHhcCCCCCCcHHHHHHhCCCCEEEECCChHHH
Confidence 4589999999999999999999999999999985 4799999999999999999999999999999 99999999999
Q ss_pred HHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCC
Q 005785 179 TYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKP 258 (677)
Q Consensus 179 ~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KP 258 (677)
..+|+++++|+++|+|.||++|+||+|||++++......++..+|++||++|++++||+||+|||+||++|||||+.+||
T Consensus 83 ~~~s~~i~~~l~~~sp~VE~~SiDE~flD~~~l~~~~~~~~~~~a~~lr~~I~~~~Gl~~SvGIa~nk~lAKlAs~~aKP 162 (454)
T PRK03348 83 RAASRRVFDTLRELSPVVEQLSFDEAFVEPAELAGASAEEVEAFAERLRARVREETGLPASVGAGSGKQIAKIASGLAKP 162 (454)
T ss_pred HHHHHHHHHHHHHhCCceEEecCCeEEEEccccccccCCCHHHHHHHHHHHHHHHHCCCeEEEEcCCHHHHHHhhccCCC
Confidence 99999999999999999999999999999887654322368899999999999999999999999999999999999999
Q ss_pred CCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCC
Q 005785 259 NGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNT 337 (677)
Q Consensus 259 nGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~ 337 (677)
||+++++++ .+.+||++|||++|||||+++.++|++ +||+||+||++++ ..|.++||...+.+||..++|++..++
T Consensus 163 ~G~~vi~~~--~~~~~L~~LPv~~L~GIG~~t~~~L~~-lGI~TigDLa~l~~~~L~~~fG~~~g~~L~~~a~G~d~~pv 239 (454)
T PRK03348 163 DGIRVVPPG--EERELLAPLPVRRLWGIGPVTEEKLHR-LGIETIGDLAALSEAEVANLLGATVGPALHRLARGIDDRPV 239 (454)
T ss_pred CcEEEEEch--HHHHHHHhCCccccCCCCHHHHHHHHH-cCCccHHHHhcCCHHHHHHHHCHHHHHHHHHHHcCCCCCCc
Confidence 999999875 578999999999999999999999997 9999999999997 899999998788899999999999998
Q ss_pred CCCCCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHH
Q 005785 338 PQARFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILK 416 (677)
Q Consensus 338 ~~~~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~ 416 (677)
.+..++|||+.+.+|.. +.+.+.|..+|++|+++|+.+|+++++.+++|+|++++.+|...+++++++.||++...|++
T Consensus 240 ~~~~~~ksis~e~tf~~~i~~~~~l~~~L~~L~~~l~~rL~~~g~~~r~v~l~l~~~d~~~~srs~~l~~pt~d~~~L~~ 319 (454)
T PRK03348 240 AERAEAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFSTLTRSATLPYATDDAAVLAA 319 (454)
T ss_pred ccCCCCceEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCCccEEEEEEEeCCCCccEEEEECCCCCCCHHHHHH
Confidence 88888999999999987 78999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh-CCCCEEEEEEEecCCCc
Q 005785 417 HASVLLKAE-LPVSLRLIGLRVTQFNE 442 (677)
Q Consensus 417 ~a~~LLe~~-lp~~VRlIGVrls~L~~ 442 (677)
+++.+|++. ...+||++||++++|.+
T Consensus 320 la~~ll~~~~~~~~vRllgV~~s~l~~ 346 (454)
T PRK03348 320 TARRLLLDPDEIGPIRLVGVGFSGLSD 346 (454)
T ss_pred HHHHHHHhhccCCCeEEEEEEECCCCc
Confidence 999999986 35789999999999974
No 12
>cd01703 PolY_Pol_iota DNA Polymerase iota. Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol iota is thought to be one of the least efficient polymerases, particularly when opposite pyrimidines; it can incorporate the correct nucleotide opposite a purine much more efficiently than opposite a pyrimidine, and prefers to insert guanosine instead of adenosine opposite thymidine. Pol iota is believed to use Hoogsteen rather than Watson-Crick base pairing, which may explain the varying efficiency for different template nucleotides.
Probab=100.00 E-value=5.6e-70 Score=593.21 Aligned_cols=328 Identities=30% Similarity=0.494 Sum_probs=305.1
Q ss_pred EEEeCCchhhhcccccCCCCCCCcEEEecCCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCC-ChHHHHHHHHHHH
Q 005785 108 LHVDMDAFYAAVETLSNPSLKGKPMAVGTMSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPT-DFTKYTYYSDLTR 186 (677)
Q Consensus 108 ~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~-d~~~Y~~~s~~i~ 186 (677)
+||||||||||||++++|+|+++||||+++++|+||||+||+|||++|||+++|+++||+|+++++ |++.|+++|++++
T Consensus 1 ~HiD~DaFyasve~~~~P~L~~kPv~V~~~~~V~aasy~AR~~GV~~gm~~~~A~~lcP~li~v~~~~~~~Y~~~S~~i~ 80 (379)
T cd01703 1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVY 80 (379)
T ss_pred CeeecccHHHHHHhhhccccCCCcEEECCCCEEEEcCHHHHHhCCCCCCcHHHHHHhCCCeEEEcCCChHHHHHHHHHHH
Confidence 699999999999999999999999999999999999999999999999999999999999999996 9999999999999
Q ss_pred HHHHhcCC--ceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCeEEe
Q 005785 187 KVFCKYDP--NFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL 264 (677)
Q Consensus 187 ~il~~y~p--~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq~~l 264 (677)
+|+.+|+| .||.+|+||+|||+|++...+ +.++|++||++|+++||||||+|||+|+++||||++.+||||++++
T Consensus 81 ~~l~~~sp~~~ve~~SiDE~~lDvt~~~~~~---g~~la~~ir~~I~~~~Glt~siGIa~nk~lAKlas~~~KP~g~~~i 157 (379)
T cd01703 81 RLLRSYSWNDRVERLGFDENFMDVTEMRLLV---ASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTL 157 (379)
T ss_pred HHHHHcCCHhhEEecCCCcEEEEccCccchh---HHHHHHHHHHHHHHHhCCeEEEEEcCCHHHHHHHhhhcCCCCeEEE
Confidence 99999999 999999999999999986544 3789999999999999999999999999999999999999999988
Q ss_pred cC-ChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch----------------HHHHHhcChhHHHHHHH
Q 005785 265 PN-DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG----------------SLLCAVFSHSTADFFLS 327 (677)
Q Consensus 265 ~~-~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~----------------~~L~~rFG~~~~~~L~~ 327 (677)
.+ +.+.+.+||+++||++|||||+++.++|++ +||+|++||++.+ ..|.++||...+.+||.
T Consensus 158 ~~~~~~~~~~fl~~lpv~~l~GiG~~~~~kL~~-~GI~tigdl~~~~~~~~~~~~~~~~~~s~~~L~~~fG~~~g~~l~~ 236 (379)
T cd01703 158 LPPSCADLMDFMDLHDLRKIPGIGYKTAAKLEA-HGISSVRDLQEFSNRNRQTVGAAPSLLELLLMVKEFGEGIGQRIWK 236 (379)
T ss_pred cCCchHHHHHHhccCCccccCCcCHHHHHHHHH-cCCCcHHHHHhCCcccccccccccccccHHHHHHHHCHHHHHHHHH
Confidence 54 444678899999999999999999999997 9999999999876 37899999877889999
Q ss_pred hccCCCCCCC-CCCCCCcceeeeecCCc--cccHHHHHHHHHHHHHHHHHHHHH--------hCCcccEEEEEEEEcC--
Q 005785 328 VGLGLGSTNT-PQARFRKSISSERTFSV--TEDKALLYRKLAEIAEMLSADMQK--------EGLRGRTLTLKLKTAS-- 394 (677)
Q Consensus 328 ~a~G~~~~~~-~~~~~rKSis~e~tf~~--~~d~~~L~~~L~~La~~L~~rLr~--------~~l~~rtltLklk~~~-- 394 (677)
.++|++..++ ....++|||+.++||.. +.+..++..+|..|+++|+.||++ .+..++||+|++++.+
T Consensus 237 ~a~G~d~~~V~~~~~~~ksis~e~tf~~~~~~~~~~~~~~l~~l~~~l~~rl~~~l~~~~~~~~~~~~tv~l~vr~~~~~ 316 (379)
T cd01703 237 LLFGRDTSPVKPASDFPQQISIEDSYKKCSLEEIREARNKIEELLASLLERMKQDLQEVKAGDGRRPHTLRLTLRRYTST 316 (379)
T ss_pred HHCCCCCCccCCCCCCCceeEEeeccCCCCCCCHHHHHHHHHHHHHHHHHHHHhhhhccchhcCeeeeEEEEEEEECCCC
Confidence 9999999998 55567899999999975 467889999999999999999999 9999999999999999
Q ss_pred ---CeeeEEEEEcCCCCC---------CHHHHHHHHHHHHHhhCC------CCEEEEEEEecC
Q 005785 395 ---FEVRTRAVTLQKYIS---------SSEDILKHASVLLKAELP------VSLRLIGLRVTQ 439 (677)
Q Consensus 395 ---f~~~trs~tl~~~t~---------~~~~L~~~a~~LLe~~lp------~~VRlIGVrls~ 439 (677)
|...+++.+++.|++ +...|+..+..||++.++ .+||+|||++++
T Consensus 317 ~~~~~~~sr~~~l~~~~~~~~~~~~~~~~~~i~~~~~~L~~~~~~~~~~~~~~irl~gv~~~~ 379 (379)
T cd01703 317 KKHYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKNVKGFNLTLLNVCFTN 379 (379)
T ss_pred CCccceeeeccccCchhhccccccchhhHHHHHHHHHHHHHHhcccccCCCCceEEEEEEeeC
Confidence 999999999999998 678999999999998743 279999999975
No 13
>cd00424 PolY Y-family of DNA polymerases. Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in ord
Probab=100.00 E-value=1.4e-69 Score=584.32 Aligned_cols=325 Identities=32% Similarity=0.516 Sum_probs=307.3
Q ss_pred EEEeCCchhhhcccccCCCCCCCcEEEecC----CeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHHHH
Q 005785 108 LHVDMDAFYAAVETLSNPSLKGKPMAVGTM----SMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSD 183 (677)
Q Consensus 108 ~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~----~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~ 183 (677)
+||||||||||||++++|+|+++||||+++ ++|+||||+||+|||++|||+++|++|||+|+++++|++.|.++|+
T Consensus 1 ~hiD~d~F~as~e~~~~p~l~~~Pv~V~~~~~~~~~V~a~sy~Ar~~GV~~gm~~~~A~~lcP~l~~~~~~~~~y~~~s~ 80 (343)
T cd00424 1 LHIDFDNFFASVEQLARPELKGRPVVVVPFNSDSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSE 80 (343)
T ss_pred CeEecchHHHHHHhhhCccccCCCEEEecCCCCCeEEEEeCHHHHHhCCCCCCcHHHHHHhCCCeEEECCCcHHHHHHHH
Confidence 699999999999999999999999999863 5799999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhC-CeeEEEecCCHHHHHHHhcccCCCCeE
Q 005785 184 LTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAG-LTCSAGVAPNRLLAKVCSDINKPNGQF 262 (677)
Q Consensus 184 ~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tG-lt~S~GIA~NklLAKLaS~~~KPnGq~ 262 (677)
++++|+++|+|.|+++||||+|||+|++.++|+ ++.++|+.||++|++++| +|||+|||+|+++||||++.+||||++
T Consensus 81 ~i~~~l~~~sp~ve~~siDE~~ldvt~~~~~~~-~~~~la~~i~~~i~~~~ggl~~siGia~n~~lAKlAs~~~KP~g~~ 159 (343)
T cd00424 81 RLLSELEEVAPLVEVASIDELFLDLTGSARLLG-LGSEVALRIKRHIAEQLGGITASIGIASNKLLAKLAAKYAKPDGLT 159 (343)
T ss_pred HHHHHHHHhCCcEEEccCCEEEEECCCchhccC-CHHHHHHHHHHHHHHHhCCceEEEeecccHHHHHHHhccCCCCCEE
Confidence 999999999999999999999999999999888 799999999999999998 999999999999999999999999999
Q ss_pred EecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch--HHHHHhcChhHHHHHHHhccCCCCCCCCCC
Q 005785 263 VLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG--SLLCAVFSHSTADFFLSVGLGLGSTNTPQA 340 (677)
Q Consensus 263 ~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~--~~L~~rFG~~~~~~L~~~a~G~~~~~~~~~ 340 (677)
+++++ ++.+||++|||++|||||+++.++|++ +||+|++||++++ ..|.++||.. +.++|..++|++..++...
T Consensus 160 v~~~~--~~~~~L~~lpi~~l~giG~~~~~~L~~-~Gi~ti~dl~~~~~~~~l~~~fg~~-~~~l~~~a~G~d~~~v~~~ 235 (343)
T cd00424 160 ILDPE--DLPGFLSKLPLTDLPGIGAVTAKRLEA-VGINPIGDLLAASPDALLALWGGVS-GERLWYALRGIDDEPLSPP 235 (343)
T ss_pred EEcHH--HHHHHHhcCChhhcCCCCHHHHHHHHH-cCCCcHHHHhcCCHHHHHHHHhhHH-HHHHHHHhCCcCCCCCCCC
Confidence 99765 678999999999999999999999997 9999999999997 5778899966 5677789999999999888
Q ss_pred CCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcC------CeeeEEEEEcCCCCCCHHH
Q 005785 341 RFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTAS------FEVRTRAVTLQKYISSSED 413 (677)
Q Consensus 341 ~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~------f~~~trs~tl~~~t~~~~~ 413 (677)
.++|||+.+++|+. +.+.+++..+|++|+++|+.+|+.+++.+++|+|++++.+ |...+++.+++.|| +...
T Consensus 236 ~~~ksi~~~~tf~~~~~~~~~l~~~l~~l~~~l~~rL~~~~~~~~~l~l~lr~~~~~~~~~~~~~~~~~~l~~~t-~~~~ 314 (343)
T cd00424 236 RPRKSFSHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGRWSGHADIPSRSAPRPIST-EDGE 314 (343)
T ss_pred CCCCceeeeEECCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCceeEEEEEEEeCCCcccccceeeeeeeeCCCCC-CHHH
Confidence 88999999999987 7899999999999999999999999999999999999998 77899999999999 9999
Q ss_pred HHHHHHHHHHhhC----CCCEEEEEEEec
Q 005785 414 ILKHASVLLKAEL----PVSLRLIGLRVT 438 (677)
Q Consensus 414 L~~~a~~LLe~~l----p~~VRlIGVrls 438 (677)
|+..+..||++.+ +.+||++||+++
T Consensus 315 l~~~~~~l~~~~~~~~~~~~ir~~gv~~~ 343 (343)
T cd00424 315 LLHALDKLWRALLDDKGPRRLRRLGVRLS 343 (343)
T ss_pred HHHHHHHHHHhhhhccCCCCeeEEEEEeC
Confidence 9999999999885 368999999985
No 14
>cd03586 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa. Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a
Probab=100.00 E-value=7.4e-69 Score=575.35 Aligned_cols=328 Identities=47% Similarity=0.737 Sum_probs=313.1
Q ss_pred EEEeCCchhhhcccccCCCCCCCcEEEecC---CeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHHHHH
Q 005785 108 LHVDMDAFYAAVETLSNPSLKGKPMAVGTM---SMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDL 184 (677)
Q Consensus 108 ~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~---~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~~ 184 (677)
+||||||||||||++++|+|+++||||+++ ++|++|||+||++||++||++++|+++||+|+++++|++.|.++|++
T Consensus 1 ~hiD~d~Ffas~e~~~~p~l~~~Pv~V~~~~~~~~v~a~n~~Ar~~GV~~Gm~~~~A~~lcp~l~~~~~~~~~y~~~s~~ 80 (334)
T cd03586 1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80 (334)
T ss_pred CeeccchHHHHHHhhhCccccCCCEEEEeCCCCeEEEEcCHHHHhcCCCcCCcHHHHHHHCCCeEEECCCcHHHHHHHHH
Confidence 699999999999999999999999999976 49999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCeEEe
Q 005785 185 TRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL 264 (677)
Q Consensus 185 i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq~~l 264 (677)
+++++++|+|.|+.+|+||+|||+|++.++|+ ++..+|++||++|++++|++||+|||+|+++||+|++.+||||++++
T Consensus 81 i~~~l~~~~~~ve~~s~De~~ldv~~~~~~~~-~~~~la~~ir~~i~~~~g~~~siGia~n~~lAklaa~~~kp~g~~i~ 159 (334)
T cd03586 81 IMEILREYTPLVEPLSIDEAYLDVTDYVRLFG-SATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159 (334)
T ss_pred HHHHHHHcCCceEEecccceeEccccccccCC-CHHHHHHHHHHHHHHHHCCceEEEEhhcHHHHHHHhcCCCCCcEEEE
Confidence 99999999999999999999999999999998 89999999999999999999999999999999999999999999999
Q ss_pred cCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCCCCCCC
Q 005785 265 PNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTPQARFR 343 (677)
Q Consensus 265 ~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~~~~~r 343 (677)
+++ .+.+||+++||++|||||+++.++|.+ +||+||+||++++ ..|.++||.. +.+++..++|++..++.+..++
T Consensus 160 ~~~--~~~~~L~~lpl~~l~gig~~~~~~L~~-~Gi~ti~dl~~~~~~~L~~~~g~~-~~~l~~~~~G~~~~~v~~~~~~ 235 (334)
T cd03586 160 PPE--DVEEFLAPLPVRKIPGVGKVTAEKLKE-LGIKTIGDLAKLDVELLKKLFGKS-GRRLYELARGIDNRPVEPDRER 235 (334)
T ss_pred CHH--HHHHHHhcCCchhhCCcCHHHHHHHHH-cCCcCHHHHHcCCHHHHHHHHhHH-HHHHHHHhCCCCCCCCCCCCCC
Confidence 764 689999999999999999999999996 9999999999998 8899999976 4566688999999998878899
Q ss_pred cceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHHHHHHHH
Q 005785 344 KSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILKHASVLL 422 (677)
Q Consensus 344 KSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~~a~~LL 422 (677)
|||+.+.+|+. +.+.+++.++|..|+++|+.||+.+++.+++|+|++++.++...+++++++.|+++...|++++..+|
T Consensus 236 ks~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~rL~~~~~~~~~l~l~l~~~~~~~~~~~~~l~~~t~~~~~l~~~~~~~l 315 (334)
T cd03586 236 KSIGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELL 315 (334)
T ss_pred CeeeeeEECCCCCCCHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEECCCCeEEEEEECCCCCCCHHHHHHHHHHHH
Confidence 99999999987 68899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhh-CCCCEEEEEEEecCC
Q 005785 423 KAE-LPVSLRLIGLRVTQF 440 (677)
Q Consensus 423 e~~-lp~~VRlIGVrls~L 440 (677)
++. .+.+||+|||++++|
T Consensus 316 ~~~~~~~~vr~igv~~~~l 334 (334)
T cd03586 316 EELLDGRPIRLLGVRLSGL 334 (334)
T ss_pred HhccCCCCEEEEEEEeecC
Confidence 988 467999999999986
No 15
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed
Probab=100.00 E-value=3.6e-69 Score=596.23 Aligned_cols=368 Identities=21% Similarity=0.302 Sum_probs=327.9
Q ss_pred eEEEEeCCchhhhcccccCCCCCCCcEEEec--CCeEEecCHHHHHcCCCCCCcHHHHHHhCC--CcEEeCCChHHHHHH
Q 005785 106 SWLHVDMDAFYAAVETLSNPSLKGKPMAVGT--MSMICTANYEARRFGVRAAMPGFIARKLCP--ELIFVPTDFTKYTYY 181 (677)
Q Consensus 106 ~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~--~~~V~taNY~ARk~GVr~GMp~~~AkkLCP--~Lvvvp~d~~~Y~~~ 181 (677)
+|+||||||||||||++.||+|+|+||||++ .|+|++|||+||++||++|||+++|+++|| +|+++++||+.|.++
T Consensus 1 ~~~hvD~d~FfaS~E~~~~p~l~g~Pv~V~~~~~g~V~aasyeAr~~GV~~gmp~~~a~~l~~~~~l~~~~~d~~~y~~~ 80 (422)
T PRK03609 1 MFALCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVIARSAEAKALGIKMGDPWFKQKDLFRRCGVVCFSSNYELYADM 80 (422)
T ss_pred CEEEEecCcceeeeeeccCccccCCcEEEEECCCcEEEEcCHHHHHhCCCCCCcHHHHHHHhccCCeEEeCCCHHHHHHH
Confidence 4899999999999999999999999999986 379999999999999999999999999994 399999999999999
Q ss_pred HHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCC---
Q 005785 182 SDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKP--- 258 (677)
Q Consensus 182 s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KP--- 258 (677)
|+++++|+.+|+|.||++||||+|||||++.++ + ++..++++||++|++++|+|||+|||+|+++|||||+.+||
T Consensus 81 s~~i~~~l~~~tp~ve~~siDE~~lDvt~~~~l-~-~~~~~a~~i~~~I~~~~gl~~siGia~n~~lAK~As~~~k~~~k 158 (422)
T PRK03609 81 SNRVMSTLEELSPRVEIYSIDEAFCDLTGVRNC-R-DLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKWQR 158 (422)
T ss_pred HHHHHHHHHHhCCCceEeccccceecCCCCcCC-C-CHHHHHHHHHHHHHHHHCCceEEEecCCHHHHHHHHHHhCCCCC
Confidence 999999999999999999999999999999776 3 68999999999999999999999999999999999998776
Q ss_pred --CCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCC
Q 005785 259 --NGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGST 335 (677)
Q Consensus 259 --nGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~ 335 (677)
+|++++.. .+.+.+||++|||++|||||++++++|++ +||+|+|||++++ ..|.++||... ..++..++|++..
T Consensus 159 ~~~g~~~i~~-~~~~~~~L~~lPv~~l~GiG~~~~~~L~~-lGi~TigdL~~~~~~~L~~~fG~~~-~~l~~~a~G~~~~ 235 (422)
T PRK03609 159 QTGGVVDLSN-LERQRKLLSLQPVEEVWGVGRRISKKLNA-MGIKTALDLADTNIRFIRKHFNVVL-ERTVRELRGEPCL 235 (422)
T ss_pred CCCcEEEcCC-HHHHHHHhhcCChhhcCCccHHHHHHHHH-cCCCcHHHHhcCCHHHHHHHHCHHH-HHHHHHhCCCCCC
Confidence 58877742 24688999999999999999999999997 9999999999998 89999999875 4555788999988
Q ss_pred CCCCCCC-CcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCee------eEEEEEcCCC
Q 005785 336 NTPQARF-RKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEV------RTRAVTLQKY 407 (677)
Q Consensus 336 ~~~~~~~-rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~------~trs~tl~~~ 407 (677)
++....+ +|||+.++||+. +.+.+++...+.+|+++|+.+|+++++.+++|+|++++++|.. .+++++++.|
T Consensus 236 ~~~~~~~~~ksi~~~~tf~~~~~~~~~l~~~l~~l~~~l~~rLr~~~~~~~~l~l~ir~~~~~~~~~~~~~~~~~~l~~p 315 (422)
T PRK03609 236 SLEEFAPTKQEIVCSRSFGERITDYESMRQAICSYAARAAEKLRGEHQYCRFISTFVKTSPFALNEPYYGNSASVKLLTP 315 (422)
T ss_pred CccccCCCCceEEEeeECCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCcccEEEEEEEcCCccccCCCcCceeEEeCCCC
Confidence 7765555 479999999987 7899999999999999999999999999999999999999863 5788899999
Q ss_pred CCCHHHHHHHHHHHHHhhCC--CCEEEEEEEecCCCcCccCCCCCccccchhHhhcCC---ccccccccccccccccccc
Q 005785 408 ISSSEDILKHASVLLKAELP--VSLRLIGLRVTQFNEDKVRAPSDPTQKTLTNFMTSG---HASKKIVGDQNSLGSDIND 482 (677)
Q Consensus 408 t~~~~~L~~~a~~LLe~~lp--~~VRlIGVrls~L~~~~~~~~~~~~Q~sl~~fF~~~---~~~~~~~~l~~~L~arlg~ 482 (677)
|++...|+++++.+|++.+. .++|++||.+++|.+.. ..|.+ +|... ....+...+++.|.+|+|.
T Consensus 316 t~d~~~l~~~a~~ll~~~~~~~~~~r~~GV~~~~l~~~~------~~q~~---LF~~~~~~~~~~~l~~~iD~i~~r~G~ 386 (422)
T PRK03609 316 TQDSRDIIAAATRALDAIWRDGHRYQKAGVMLGDFFSQG------VAQLN---LFDDNAPRPGSEQLMKVLDTLNAKSGK 386 (422)
T ss_pred CCCHHHHHHHHHHHHHHHhCCCCceEEeeEEEEeeccCC------CcCcc---CccccccccchHHHHHHHHHHHHhhCC
Confidence 99999999999999999753 47999999999998643 23433 46542 1234567889999999999
Q ss_pred cccCC
Q 005785 483 DCLID 487 (677)
Q Consensus 483 ~~~~~ 487 (677)
+++.-
T Consensus 387 ~~i~~ 391 (422)
T PRK03609 387 GTLYF 391 (422)
T ss_pred CeEEE
Confidence 88765
No 16
>cd01702 PolY_Pol_eta DNA Polymerase eta. Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced lesions. Its activity is initiated by two simultaneous interactions: the PIP box in pol eta interacting with PCNA, and the UBZ (ubiquitin-binding zinc finger) in pol eta interacting with monoubiquitin attached to PCNA. Pol eta is more efficient in copying damaged DNA than undamaged DNA and seems to recognize when a lesion has been passed, facilitating a lesion-dependent dissociation from the DNA.
Probab=100.00 E-value=1.5e-68 Score=578.88 Aligned_cols=317 Identities=34% Similarity=0.496 Sum_probs=293.5
Q ss_pred EEEeCCchhhhcccccCCCCCCCcEEEecCCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCC-------------
Q 005785 108 LHVDMDAFYAAVETLSNPSLKGKPMAVGTMSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTD------------- 174 (677)
Q Consensus 108 ~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d------------- 174 (677)
+||||||||||||++++|+|+++||||++++.|+||||+||+|||++|||+++|+++||+|++++++
T Consensus 1 ~hiD~D~FfasvE~~~~p~l~~~PvvV~~~~~V~a~syeAR~~GV~~gm~~~~A~~lcP~l~~v~~~~~~~~~~~~~~~~ 80 (359)
T cd01702 1 AHIDMDAFFAQVEQVRLGLLRNDPVAVVQWNSIIAVSYAARAFGVTRFMTIDEAKKKCPDLILAHVATYKKGEDEADYHE 80 (359)
T ss_pred CccccchHHHHHHhHhcccccCCcEEEecCCcEEEECHHHHhcCCCCCCcHHHHHHHCCCcEEECCcccccccccccccc
Confidence 5999999999999999999999999999877799999999999999999999999999999999976
Q ss_pred ----------hHHHHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecC
Q 005785 175 ----------FTKYTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAP 244 (677)
Q Consensus 175 ----------~~~Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~ 244 (677)
++.|.++|++++.++.+|+|.||.+||||+|||+ +.++|++||++|++++|+|||+|||+
T Consensus 81 ~~~~~~~~~~~~~Y~~~S~~i~~~l~~~sp~vE~~SiDE~flDv----------~~~la~~ir~~I~~~~glt~SiGIa~ 150 (359)
T cd01702 81 NPSPARHKVSLDPYRRASRKILNILKRFGDVVEKASIDEAYLDL----------GSRIVEEIRQQVYDELGYTCSAGIAH 150 (359)
T ss_pred ccccccccccHHHHHHHHHHHHHHHHHcCCceEECcCCeeHHHH----------HHHHHHHHHHHHHHHhCccEEeeecC
Confidence 9999999999999999999999999999999999 35799999999999999999999999
Q ss_pred CHHHHHHHhcccCCCCeEEecCChhHHHHhhhcCCCccccCCCHHHHHH-HHhhcCCCcHHHHHhc--h-HHHHHhcChh
Q 005785 245 NRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHI-LRDVFGINTCEEMLQK--G-SLLCAVFSHS 320 (677)
Q Consensus 245 NklLAKLaS~~~KPnGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~-L~~~lGI~T~gDL~~~--~-~~L~~rFG~~ 320 (677)
|+++|||||+++||||+++++++ .+.+||++|||++|||||+++..+ |+. +||+|++||+++ + ..|.++||..
T Consensus 151 nk~lAKlAs~~~KP~g~~v~~~~--~~~~~L~~lpv~~l~GiG~~~~~~ll~~-~Gi~ti~dl~~~~~~~~~L~~~fG~~ 227 (359)
T cd01702 151 NKMLAKLASGMNKPNAQTILRND--AVASFLSSLPITSIRGLGGKLGEEIIDL-LGLPTEGDVAGFRSSESDLQEHFGEK 227 (359)
T ss_pred CHHHHHHHhcccCCCCeEEECHH--HHHHHhhcCcHHHhCCcCHHHHHHHHHH-cCCcCHHHHHhccCCHHHHHHHHHHH
Confidence 99999999999999999999764 689999999999999999999766 575 999999999999 7 7899999987
Q ss_pred HHHHHHHhccCCCCCCCCCCCCCcceeeeecCCc-cccH-HHHHHHHHHHHHHHHHHHHHh----CCcccEEEEEEEEcC
Q 005785 321 TADFFLSVGLGLGSTNTPQARFRKSISSERTFSV-TEDK-ALLYRKLAEIAEMLSADMQKE----GLRGRTLTLKLKTAS 394 (677)
Q Consensus 321 ~~~~L~~~a~G~~~~~~~~~~~rKSis~e~tf~~-~~d~-~~L~~~L~~La~~L~~rLr~~----~l~~rtltLklk~~~ 394 (677)
.+.++|..++|++..++....++|||+.++||.. +.+. +++..+|..|+++|+.||++. ++.+++|+|++++.+
T Consensus 228 ~g~~l~~~a~G~d~~~v~~~~~~ksi~~~~tf~~~~~~~~~~l~~~l~~L~~~l~~rL~~~~~~~~~~~~~v~v~lr~~~ 307 (359)
T cd01702 228 LGEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFPGKTALSTEDVQHWLLVLASELNSRLEDDRYENNRRPKTLVLSLRQRG 307 (359)
T ss_pred HHHHHHHHhCCCCCCCCCCCCCCceeeeeeecCCCCCChHHHHHHHHHHHHHHHHHHHHhhhhhcCceeeEEEEEEEECC
Confidence 8899999999999999887778999999999997 5666 899999999999999999997 999999999999999
Q ss_pred -CeeeEEEEEcCCCCCCHHHHHHHHHHHHHhhC--------CCCEEEEEEEecC
Q 005785 395 -FEVRTRAVTLQKYISSSEDILKHASVLLKAEL--------PVSLRLIGLRVTQ 439 (677)
Q Consensus 395 -f~~~trs~tl~~~t~~~~~L~~~a~~LLe~~l--------p~~VRlIGVrls~ 439 (677)
+...+++.+++.++ .+.|+..+..||++.+ ..+||+|||++++
T Consensus 308 ~~~~~sr~~~~~~~~--~~~i~~~~~~l~~~~~~~~~~~~~~~~~rl~g~~~~~ 359 (359)
T cd01702 308 DGVRRSRSCALPRYD--AQKIVKDAFKLIKAINEEGLGLAWNYPLTLLSLSFTK 359 (359)
T ss_pred CcEEEEEEecCCCCC--HHHHHHHHHHHHHHhhhhccccccCCCeEEEEEEecC
Confidence 56667777766655 9999999999998764 2689999999975
No 17
>PRK02406 DNA polymerase IV; Validated
Probab=100.00 E-value=8.1e-68 Score=570.52 Aligned_cols=327 Identities=42% Similarity=0.615 Sum_probs=308.3
Q ss_pred CCchhhhcccccCCCCCCCcEEEecC----CeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHHHHHHHH
Q 005785 112 MDAFYAAVETLSNPSLKGKPMAVGTM----SMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRK 187 (677)
Q Consensus 112 mDaFyAsVE~~~~PeLr~kPvAV~~~----~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~~i~~ 187 (677)
|||||||||++.+|+|+++||||++. ++|++|||+||++||++|||+++|+++||+|+++++|++.|.+++++++.
T Consensus 1 ~d~Ffasve~~~~p~l~~~Pv~v~~~~~~~~~v~a~n~~Ar~~GV~~gm~~~~A~~lcP~l~~~~~d~~~y~~~s~~i~~ 80 (343)
T PRK02406 1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80 (343)
T ss_pred CCchHHHHHhhhCccccCCCEEEecCCCCCeEEEecCHHHHHhCCCCCCcHHHHHHHCCCeEEECCChHHHHHHHHHHHH
Confidence 89999999999999999999999864 79999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCeEEecCC
Q 005785 188 VFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPND 267 (677)
Q Consensus 188 il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq~~l~~~ 267 (677)
|+++|+|.|+++|+||+|||+|++.++|| ++.++|+.||++|++++|+|||+|||+|+++||||++.+||+|+++++++
T Consensus 81 ~l~~~sp~ve~~siDe~~ldvt~~~~~~~-~~~~la~~i~~~i~~~~gl~~siGia~n~~lAklas~~~Kp~g~~~~~~~ 159 (343)
T PRK02406 81 IFRRYTDLIEPLSLDEAYLDVTDNKLCIG-SATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPE 159 (343)
T ss_pred HHHHhCCceEEccCCeEEEeccCccccCC-CHHHHHHHHHHHHHHHHCCCeEEEeccCHHHHHHHhcCCCCCCEEEECHH
Confidence 99999999999999999999999999998 88999999999999999999999999999999999999999999998764
Q ss_pred hhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCCCCCCCcce
Q 005785 268 RMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTPQARFRKSI 346 (677)
Q Consensus 268 ~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~~~~~rKSi 346 (677)
++.+||+++||.+|||||+++.++|++ +||+||+||++++ ..|.++||.. +.++|+.++|++..++.+..++|||
T Consensus 160 --~~~~~L~~lpi~~l~giG~~~~~~L~~-~Gi~ti~dl~~l~~~~L~~~fG~~-~~~l~~~a~G~d~~~v~~~~~~ksi 235 (343)
T PRK02406 160 --EVDAFLATLPVEKIPGVGKVTAEKLHA-LGIYTCADLQKYDLAELIRHFGKF-GRRLYERARGIDERPVKPDRERKSV 235 (343)
T ss_pred --HHHHHHHcCCcchhcCCCHHHHHHHHH-cCCCcHHHHHhCCHHHHHHHHhHH-HHHHHHHhCCCCCCccccCCCCcce
Confidence 689999999999999999999999997 9999999999998 8999999975 5667789999999998888889999
Q ss_pred eeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhC--CcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHHHHHHHHH
Q 005785 347 SSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEG--LRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILKHASVLLK 423 (677)
Q Consensus 347 s~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~--l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~~a~~LLe 423 (677)
+.+++|+. +.+.+++..+|++|+++|+.+|++++ +.+++|+|++++.+|...+++++ ..++++...+...+..|++
T Consensus 236 ~~~~~~~~~~~~~~~l~~~l~~l~~~l~~rL~~~~~~~~~~~l~l~l~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~L~~ 314 (343)
T PRK02406 236 GVERTFAEDLYDLEACLAELPRLAEKLERRLERAKPDKRIKTVGVKLKFADFQQTTKEHT-ADPLDKADLIELLAQALLR 314 (343)
T ss_pred eeeeeCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCccceeEEEEEEeCCCCeEEEecC-CCCCCcHHHHHHHHHHHHh
Confidence 99999986 78999999999999999999999999 99999999999999999899888 6677777777788888887
Q ss_pred hhCCCCEEEEEEEecCCCcCc
Q 005785 424 AELPVSLRLIGLRVTQFNEDK 444 (677)
Q Consensus 424 ~~lp~~VRlIGVrls~L~~~~ 444 (677)
..++.+||+|||++++|.+..
T Consensus 315 ~~~~~~vr~lgv~~~~l~~~~ 335 (343)
T PRK02406 315 RLGGRGVRLLGVGVTLLEPQL 335 (343)
T ss_pred hCcCCCEEEEEEEEecCCcCc
Confidence 778889999999999998653
No 18
>cd01700 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V. umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage.
Probab=100.00 E-value=1e-67 Score=569.86 Aligned_cols=327 Identities=26% Similarity=0.397 Sum_probs=301.0
Q ss_pred EEEeCCchhhhcccccCCCCCCCcEEEec--CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCc--EEeCCChHHHHHHHH
Q 005785 108 LHVDMDAFYAAVETLSNPSLKGKPMAVGT--MSMICTANYEARRFGVRAAMPGFIARKLCPEL--IFVPTDFTKYTYYSD 183 (677)
Q Consensus 108 ~HIDmDaFyAsVE~~~~PeLr~kPvAV~~--~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~L--vvvp~d~~~Y~~~s~ 183 (677)
+||||||||||||++.+|+|+++||||++ .+.|++|||+||++||++|||+++|+++||+| +++++|++.|.++|+
T Consensus 1 ~hiD~d~Ffasve~~~~p~l~~~Pv~V~~~~~~~i~~~ny~Ar~~GV~~gm~~~~A~~lcP~l~~~~v~~~~~~y~~~s~ 80 (344)
T cd01700 1 ALVDCNSFYASCERVFRPLLLGRPLVVLSNNDGCVIARSPEAKALGIKMGSPYFKVPDLLERHGVAVFSSNYALYGDMSR 80 (344)
T ss_pred CccccccceeeehhhhCCCcCCCeEEEEECCCCEEEECCHHHHHhCCCCCCcHHHhHhhccccCeEEEcCchHHHHHHHH
Confidence 69999999999999999999999999986 36899999999999999999999999999999 999999999999999
Q ss_pred HHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCC----
Q 005785 184 LTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPN---- 259 (677)
Q Consensus 184 ~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPn---- 259 (677)
++++|+++|+|.||.+|+||+|||+|++.+ |+ ++..+|++||++|++++|+|||+|||+|+++|||||+++||+
T Consensus 81 ~i~~~l~~~~~~ve~~s~De~~ldvt~~~~-~~-~~~~la~~i~~~i~~~~gl~~s~Gia~~~~lAklas~~~kp~~~~~ 158 (344)
T cd01700 81 RIMSILERFSPDVEVYSIDESFLDLTGSLR-FG-DLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAKKKNPYG 158 (344)
T ss_pred HHHHHHHhcCCcceEeecchhhccCcCCCC-CC-CHHHHHHHHHHHHHHHhCCceEEEecCCHHHHHHHHHHhcCCCCCC
Confidence 999999999999999999999999999998 87 899999999999999999999999999999999999999984
Q ss_pred CeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCC
Q 005785 260 GQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTP 338 (677)
Q Consensus 260 Gq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~ 338 (677)
|+++++.+ +...+||+++||++|||||+++.++|++ +||+||+||++++ ..|.++||.. +.++|..++|++..++.
T Consensus 159 g~~~~~~~-~~~~~~l~~lpl~~l~gig~~~~~~L~~-~Gi~ti~dL~~~~~~~L~~rfG~~-~~~l~~~a~G~d~~~v~ 235 (344)
T cd01700 159 GVVDLTDE-EVRDKLLKILPVGDVWGIGRRTAKKLNA-MGIHTAGDLAQADPDLLRKKFGVV-GERLVRELNGIDCLPLE 235 (344)
T ss_pred eEEEecCh-hHHHHHhccCChhhcCccCHHHHHHHHH-cCCCcHHHHhcCCHHHHHHHHHHH-HHHHHHHhCCCCCCcCC
Confidence 77777553 2334899999999999999999999997 9999999999998 7999999975 56677889999999886
Q ss_pred CCCC-CcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEE----EEEcCCCCCCHH
Q 005785 339 QARF-RKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTR----AVTLQKYISSSE 412 (677)
Q Consensus 339 ~~~~-rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~tr----s~tl~~~t~~~~ 412 (677)
...+ +|||+.+.+|.. +.+.+++..+|++|+++|+.+|+++++.+++|+|++++.+|...+. +++++.|+++..
T Consensus 236 ~~~~~~ks~~~~~~~~~~~~~~~~l~~~l~~L~~~l~~~L~~~~~~~~~l~l~l~~~~~~~~~~~~~~~~~~~~~t~~~~ 315 (344)
T cd01700 236 EYPPPKKSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSGFSRQPKYYSATNTLPYPTNDTR 315 (344)
T ss_pred CCCCCCcEEEEeeEcCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCcccEEEEEEEcCCCCCCCCccccccccCCcchhHH
Confidence 5444 599999999987 6899999999999999999999999999999999999999876443 357789999999
Q ss_pred HHHHHHHHHHHhhC--CCCEEEEEEEecC
Q 005785 413 DILKHASVLLKAEL--PVSLRLIGLRVTQ 439 (677)
Q Consensus 413 ~L~~~a~~LLe~~l--p~~VRlIGVrls~ 439 (677)
.|++.+..+|++.+ ..+||+|||++++
T Consensus 316 ~l~~~~~~ll~~~~~~~~~iR~iGV~~~~ 344 (344)
T cd01700 316 EIVKAALRLLYAIYRPGYAYRKAGVMLSD 344 (344)
T ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEEeeC
Confidence 99999999999885 3589999999975
No 19
>COG0389 DinP Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.1e-63 Score=538.14 Aligned_cols=336 Identities=38% Similarity=0.589 Sum_probs=317.4
Q ss_pred CeEEEEeCCchhhhcccccCCCCCCCcEEEec---CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHH
Q 005785 105 RSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT---MSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYY 181 (677)
Q Consensus 105 r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~---~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~ 181 (677)
+.|+||||||||||||++++|+|+++||||++ .|+|++|||+||+|||++|||+++|+++||+++++|++|+.|..+
T Consensus 1 ~~i~hvD~Daf~Asve~~~~p~l~~~Pvvv~~~~~~gvV~~~sy~Ar~~Gv~sam~~~~A~~~cp~~~~~~~~~~~y~~~ 80 (354)
T COG0389 1 RKILHVDMDAFYASVEERDNPELKGKPVVVGGGAPRGVVLAASYEARAFGVRSAMPLFEALKLCPRAIVAPPNFAAYRLA 80 (354)
T ss_pred CeEEEEeccchhhhhhhhcCccccCCCeEEEecCCCCEEEecCHHHHHhCCcccChHHHHHHHCCCCEEeCCcHHHHHHH
Confidence 57999999999999999999999999999997 699999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCceEEeccCceEEecchhhhhcCC-CHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCC
Q 005785 182 SDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGI-SGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNG 260 (677)
Q Consensus 182 s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~-~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnG 260 (677)
|..+..|+.+|+|.|+++||||+|||+|+....+|. .+..+|.+||..|+.++|+|||+||++||++|||||+++||+|
T Consensus 81 s~~i~~i~~~~~~~ve~lSIDE~~ldvt~~~~~~g~~~~~~~a~~ir~~i~~~~~l~~s~Gi~~nk~laKiAs~~~kp~g 160 (354)
T COG0389 81 SAEIRAILERYTPLVEPLSIDEAFLDLTDALRLLGLADAPRIALEIRFGILLELGLTASVGISDNKFLAKIASDLNKPDG 160 (354)
T ss_pred HHHHHHHHHhccccceeeeccceeeecccccccCCcccHHHHHHHHHHHHHHhhCCEEEEEecCcHHHHHHHhcccCCCC
Confidence 999999999999999999999999999998888875 6889999999999999999999999999999999999999999
Q ss_pred eEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCCC
Q 005785 261 QFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTPQ 339 (677)
Q Consensus 261 q~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~~ 339 (677)
++++.+ +.+.+||++|||.++||||+++..+|+. +||.|++||++.+ ..|.++||... .+||..+.|++.+++..
T Consensus 161 i~~~~~--~~~~~~l~~Lpv~~~~GvG~~~~~~l~~-~Gi~ti~dl~~~~~~~L~~~~g~~~-~~l~~~a~Gid~~~v~~ 236 (354)
T COG0389 161 ITVIEP--EEVPALLWQLPVLEFWGVGKVTAEKLRR-LGISTIGDLAETDLDALKKRFGKLG-ERLYRLARGIDNRPVRE 236 (354)
T ss_pred EEEECH--HHHHHHHhcCChhhhCCCCHHHHHHHHH-cCChhHHHHHhcCHHHHHHHHhHhH-HHHHHHhcCCCcccccc
Confidence 999984 5799999999999999999999999996 9999999999975 88999999987 88988999999999988
Q ss_pred CCCC-cceeeeecCCc-cccHHHHHHHHHH-HHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHH
Q 005785 340 ARFR-KSISSERTFSV-TEDKALLYRKLAE-IAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILK 416 (677)
Q Consensus 340 ~~~r-KSis~e~tf~~-~~d~~~L~~~L~~-La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~ 416 (677)
...+ ||++.+.||+. ..+.+.+...|.. |+++++.+|+..+..++++++++++.+|...+++.+++.|+.+..+++.
T Consensus 237 ~~~~~ksi~~~~t~~~d~~~~~~~~~~l~~~l~e~~~~rl~~~~~~~r~v~~~~~~~df~~~t~~~~l~~p~~~~~~i~~ 316 (354)
T COG0389 237 QALRAKSIGAESTFEEDLTDAEELIERLRARLGEEVVSRLRKSGRHGRTVSVKLKTADFPTNTRSRKLAQPTSDPIEIYA 316 (354)
T ss_pred ccccCccccceeeccccccCHHHHHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEecCCCcceeecccCCcCCCHHHHHH
Confidence 8777 99999999998 5788877777777 9999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhC----CCCEEEEEEEecCCCcCc
Q 005785 417 HASVLLKAEL----PVSLRLIGLRVTQFNEDK 444 (677)
Q Consensus 417 ~a~~LLe~~l----p~~VRlIGVrls~L~~~~ 444 (677)
.+..++...+ +.++|++||++++|.+..
T Consensus 317 ~~~~l~~~~~~~~~~~~~rl~gv~~~~~~~~~ 348 (354)
T COG0389 317 AALPLLPPLLFRGRGRRIRLLGVSGPELIDSE 348 (354)
T ss_pred HHHHHHHHhhccCCCceEEEEEEEecCccccc
Confidence 9999998775 458999999999998753
No 20
>cd03468 PolY_like DNA Polymerase Y-family. Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.
Probab=100.00 E-value=1.8e-57 Score=487.19 Aligned_cols=323 Identities=21% Similarity=0.189 Sum_probs=296.6
Q ss_pred EEEeCCchhhhcccccCCCCCCCcEEEecC---CeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHHHHH
Q 005785 108 LHVDMDAFYAAVETLSNPSLKGKPMAVGTM---SMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDL 184 (677)
Q Consensus 108 ~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~---~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~~ 184 (677)
+.|+|+.||++++.+.+|+|+++||||++. ++|++|||+||++||++|||+++|+++||+|+++++|++.|.+++++
T Consensus 1 l~~~~p~~~l~~~~~~~p~l~~~Pv~V~~~~~~~~V~~~s~~Ar~~GV~~Gm~~~~A~~lcP~l~~~~~~~~~y~~~s~~ 80 (335)
T cd03468 1 LALWFPRLPLDALLRNRPADDEAPLAVVERKKAGRILACNAAARAAGVRPGMPLAEALALCPNLQVVEYDPEADARALQE 80 (335)
T ss_pred CeeeCCcCHHHHHhhcCCcccCCCeEEEEeCCCCEEEecCHHHHHcCCCCCCcHHHHHHhCCCCeeecCChHHHHHHHHH
Confidence 468999999999999999999999999984 89999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCeEEe
Q 005785 185 TRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL 264 (677)
Q Consensus 185 i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq~~l 264 (677)
+.+++++|+|.|+.+|+||+|||+|++.++|| ++..+|+.|++.+ .++|++||+|||+|+++||||++.+||+|.+.+
T Consensus 81 i~~~l~~~s~~ve~~s~de~~ldvs~~~~~~~-~~~~~a~~i~~~~-~~~gl~~siGia~n~~~Aklas~~~kp~~~~~~ 158 (335)
T cd03468 81 LALWLLRFTPLVALDGPDGLLLDVTGCLHLFG-GEDALAASLRAAL-ATLGLSARAGIADTPGAAWLLARAGGGRGVLRR 158 (335)
T ss_pred HHHHHHhcCCccccCCCCeEEEEcccchhhcC-CHHHHHHHHHHHH-HHcCCeEEEEecCCHHHHHHHhccCCCCccCCc
Confidence 99999999999999999999999999999998 8999999999999 578999999999999999999999999998776
Q ss_pred cCChhHHH-HhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCC--CCC
Q 005785 265 PNDRMAVM-TFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNT--PQA 340 (677)
Q Consensus 265 ~~~~~~i~-~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~--~~~ 340 (677)
... ... .|++++|+. +||||+++.++|.+ +||+|++||++++ ..|.++||... ..++..+.|++..++ ...
T Consensus 159 ~~~--~~~~~~l~~lp~~-~~gig~~~~~~L~~-~Gi~t~~dl~~~~~~~l~~rfG~~~-~~l~~~~~G~d~~~~~~~~~ 233 (335)
T cd03468 159 EAL--AAALVLLAPLPVA-ALRLPPETVELLAR-LGLRTLGDLAALPRAELARRFGLAL-LLRLDQAYGRDPEPLLFSPP 233 (335)
T ss_pred hHH--HHHhhccCCCChh-HhCCCHHHHHHHHH-hCcccHHHHHhCChHHHHhhcCHHH-HHHHHHHCCCCCCCCCCCCC
Confidence 543 233 389999995 99999999999997 9999999999998 89999999874 456688999999888 445
Q ss_pred CCCcceeeeecCCccccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCeeeEEEEEcCCCCCCHHHHHHHHHH
Q 005785 341 RFRKSISSERTFSVTEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFEVRTRAVTLQKYISSSEDILKHASV 420 (677)
Q Consensus 341 ~~rKSis~e~tf~~~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~~~trs~tl~~~t~~~~~L~~~a~~ 420 (677)
.++|+++.+.+|+....... ...+.+|+++|+.+|+.+++.+++|+|++++.++...++++++..|+++...|+++++.
T Consensus 234 ~~~~~~~~~~~~~~~~~~~~-~~~l~~l~~~l~~~L~~~~~~~~~l~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~ 312 (335)
T cd03468 234 PPAFDFRLELQLEEPIARGL-LFPLRRLLEQLCAFLALRGLGARRLSLTLFREDGRVTRVLVGLARPSRDDLPLLRLLRE 312 (335)
T ss_pred CCChhhhhhcCCCCCcchhH-HHHHHHHHHHHHHHHHHcCCeeeEEEEEEEEECCceEEEEEeccCCccCHHHHHHHHHh
Confidence 57899999999987433233 88999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhCC----CCEEEEEEEec
Q 005785 421 LLKAELP----VSLRLIGLRVT 438 (677)
Q Consensus 421 LLe~~lp----~~VRlIGVrls 438 (677)
+|++... .+||++||++.
T Consensus 313 ~l~~~~~~~~~~~v~~~~v~~~ 334 (335)
T cd03468 313 RLERLALPRGIAPVRLLALTAE 334 (335)
T ss_pred hhhccCCCCCeeeEEEEEeecc
Confidence 9998754 68999999875
No 21
>KOG2095 consensus DNA polymerase iota/DNA damage inducible protein [Replication, recombination and repair]
Probab=100.00 E-value=1.8e-56 Score=494.37 Aligned_cols=287 Identities=37% Similarity=0.558 Sum_probs=259.5
Q ss_pred cCCCCeEEEEeCCchhhhcccccCCCCCCCcEEEecCCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCC-------
Q 005785 101 RDLSRSWLHVDMDAFYAAVETLSNPSLKGKPMAVGTMSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPT------- 173 (677)
Q Consensus 101 rd~~r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~------- 173 (677)
....|+|+|||||||||+||++++|+|+++|+||+++..|+||||+||++||+.+|++.+|+++||+|+++..
T Consensus 12 ~s~~RVIahVDMDcFyaQVEq~r~P~lr~~PlaVvQ~ngIIAVsYeARa~GV~R~M~v~EAK~kCPqLvlv~v~~~~~ka 91 (656)
T KOG2095|consen 12 NSSLRVIAHVDMDCFYAQVEQRRNPELRSKPLAVVQYNGIIAVSYEARAFGVKRLMTVDEAKKKCPQLVLVHVPVAREKA 91 (656)
T ss_pred ccccceEEEecchhhHHHHHhhcCchhccCceEEEEeeeEEEEehhhhhhCCchhhhHHHHHhhCCceEEeecccccccc
Confidence 3467999999999999999999999999999999999999999999999999999999999999999998764
Q ss_pred ChHHHHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhc----------------------CC--------------
Q 005785 174 DFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRER----------------------GI-------------- 217 (677)
Q Consensus 174 d~~~Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~----------------------g~-------------- 217 (677)
|-.+|+.++.++..+|..|+|.+|..+.||+|+|+|.+..+. +.
T Consensus 92 ~~~~YR~as~ev~~~L~~y~~viek~~~dea~ld~tasvder~q~L~s~~~~~~~~~~p~~~~~~~~s~~~~~~~~~~~e 171 (656)
T KOG2095|consen 92 DLPKYREASEEVKESLEPYRPVIEKASKDEAFLDLTASVDERLQDLQSDEFNMLLEEPPYGLIYGLPSALPNTREATNSE 171 (656)
T ss_pred hhhhhhhhHHHHHHHHhhhHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhhhccchhcccCCccccchhhhhhhhc
Confidence 345699999999999999999999999999999999875321 00
Q ss_pred ------------------C--------HHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccCCCCeEEecCChhHH
Q 005785 218 ------------------S--------GIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAV 271 (677)
Q Consensus 218 ------------------~--------~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~KPnGq~~l~~~~~~i 271 (677)
+ +..+|++||++|+.+||+|||||||+||+|||||+.+||||.|++|+.+ .+
T Consensus 172 ~~~~~ee~~~~~~~~~d~~~~d~~L~iGa~Iv~EiR~~i~~elg~tCSAGIa~NKmLAKLvsg~nKPnqQTil~~~--~v 249 (656)
T KOG2095|consen 172 NPLMREEIVSLWIENDDFDWDDVRLLIGAQIVKEIRDAIKLELGYTCSAGIAHNKMLAKLVSGRNKPNQQTILPNT--YV 249 (656)
T ss_pred cccchhhHhhhhhhccccCchhhhhHHHHHHHHHHHHHHHHHhCceeeccccccHHHHHHHhccCCCCcceecchH--HH
Confidence 0 2458999999999999999999999999999999999999999999986 69
Q ss_pred HHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCCCCCCCCCcceeeee
Q 005785 272 MTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTNTPQARFRKSISSER 350 (677)
Q Consensus 272 ~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~~~~~~~rKSis~e~ 350 (677)
.+||..|||.+++++|.+..+.|...+||.++|||++.. ..|.+.||.+.+.||+.+++|++.+++.+...+|||+.+.
T Consensus 250 ~~ll~slpi~k~~~lGGk~G~~lie~LGi~~vgdl~~fse~~L~~~fg~~~g~~l~~la~Gid~s~V~pr~~pkSig~~K 329 (656)
T KOG2095|consen 250 QDLLDSLPITKIRTLGGKLGEELIEVLGIDSVGDLQQFSETQLQKKFGEKNGTWLRNLARGIDNSPVRPRGLPKSIGSEK 329 (656)
T ss_pred HHHHHhCCCceeeeccchHHHHHHHHhCCchHHHHHhcCHHHHHHhhCcchhHHHHHHhcccCCCccccCCCCcchhhhh
Confidence 999999999999988777666665679999999999997 8999999999999999999999999999999999999999
Q ss_pred cCCc---cccHHHHHHHHHHHHHHHHHHHHHh----CCcccEEEEE
Q 005785 351 TFSV---TEDKALLYRKLAEIAEMLSADMQKE----GLRGRTLTLK 389 (677)
Q Consensus 351 tf~~---~~d~~~L~~~L~~La~~L~~rLr~~----~l~~rtltLk 389 (677)
+|+. +.+.+.+..||.++++++..||..+ ...+.+++++
T Consensus 330 ~Fpg~~~~~~~~~l~~wl~~la~el~~Rl~~d~~en~r~as~l~~~ 375 (656)
T KOG2095|consen 330 NFPGKRSRKSLEELQRWLNQLAEELAERLGKDRNENKRRASTLVVS 375 (656)
T ss_pred cCCCccccccHHHHHHHHHHHHHHHHHHHHhhhhhhccccceEEee
Confidence 9995 5678889999999999999998765 4567777777
No 22
>KOG2093 consensus Translesion DNA polymerase - REV1 deoxycytidyl transferase [Replication, recombination and repair]
Probab=100.00 E-value=2.2e-56 Score=500.26 Aligned_cols=355 Identities=26% Similarity=0.397 Sum_probs=320.2
Q ss_pred CeEEEEeCCchhhhcccccCCCCCCCcEEEec-------CCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHH
Q 005785 105 RSWLHVDMDAFYAAVETLSNPSLKGKPMAVGT-------MSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTK 177 (677)
Q Consensus 105 r~I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~-------~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~ 177 (677)
...+|+++||||.+|+...+++++++|+||.. ++.|++|||+||.||||+||.+..|++|||+|++|||||+.
T Consensus 371 ~~~~~v~~dcf~~sv~~~n~~D~k~kpvav~hg~d~~~s~sEIASCsY~AR~~GIKNGMfV~~A~klCPqL~~lPY~FE~ 450 (1016)
T KOG2093|consen 371 FASVKVELDCFFVSVVIKNRLDLKDKPVAVCHGSDNPKSTSEIASCSYEARAYGIKNGMFVRHAKKLCPQLVILPYDFEA 450 (1016)
T ss_pred cchhHHHHHHhhhhheeccccccccCcceeeccCCCCcchhhhhccccHHHHhCcccceeHHHHHHhCcccEeecccHHH
Confidence 34566677888999999999999999999975 47999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhcccC
Q 005785 178 YTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINK 257 (677)
Q Consensus 178 Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~~~K 257 (677)
|.++++.+++.|.+|+-+|+++||||+|+|+|..+..+..++..+|..||++|++.|||+||||||.|++||+||++.+|
T Consensus 451 Ykevs~tlYetlasytl~I~aVSCDEa~vd~s~~~~~~~~tp~~la~~IRqEI~e~TgC~aS~Gig~t~LLARlATr~AK 530 (1016)
T KOG2093|consen 451 YKEVSETLYETLASYTLNIEAVSCDEAFVDVSDLSDEENETPAVLAEHIRQEILEKTGCPASAGIGGTMLLARLATRVAK 530 (1016)
T ss_pred HHHHHHHHHHHHHhhccceeeecchhhhhhhhhhhhhhccCHHHHHHHHHHHHHhccCCceeeccchHHHHHHHHHhhcC
Confidence 99999999999999999999999999999999999999889999999999999999999999999999999999999999
Q ss_pred CCCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhccCCCCCC
Q 005785 258 PNGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVGLGLGSTN 336 (677)
Q Consensus 258 PnGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a~G~~~~~ 336 (677)
|||||++.+. .+.+||+.++|.+|||||..+..+|.. .||+|||||+... ..|.+.||++.+..++..|+|++.+|
T Consensus 531 P~Gq~~l~a~--~veeFis~~~v~~LPGVG~sm~~kL~s-~~i~tCgdLq~~T~~kl~k~~G~Klgq~i~~~CrG~Dd~P 607 (1016)
T KOG2093|consen 531 PNGQFYLSAE--KVEEFISQLKVDDLPGVGSSMKSKLVS-QFIQTCGDLQLITLIKLRKVFGPKLGQKIYRGCRGIDDDP 607 (1016)
T ss_pred CCceeeecHH--HHHHHhhhcccccCCCccHHHHHHHHH-hccchhHHHHHHHHHHHHhhhcccHHHHHHHhcCCCcCCh
Confidence 9999999775 789999999999999999999999996 9999999998876 88999999999999999999999988
Q ss_pred CCCCCCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcC---------------CeeeEE
Q 005785 337 TPQARFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTAS---------------FEVRTR 400 (677)
Q Consensus 337 ~~~~~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~---------------f~~~tr 400 (677)
......|||++.+.+|+. ..+..++...|..++++|..+|..-++.++.+||+++.+. .+..++
T Consensus 608 ~~~~~~RKSvS~dIN~GIRFtn~~ev~~fl~~~~eEl~rkL~ei~k~~~sitLKlMvR~~~APietaK~mGhGiCD~~~r 687 (1016)
T KOG2093|consen 608 RSIEQVRKSVSADINYGIRFTNIKEVEQFLCLLSEELRRKLLEISKTASSITLKLMVRTAKAPIETAKYMGHGICDDFVR 687 (1016)
T ss_pred HHHhhhhcceeeeeecceeeccHHHHHHHHHHHHHHHHHHHHHhhccccchhHHHHhhcCCCCCccccccceeeccchhh
Confidence 877778999999999997 5788889999999999999999999999999999987653 134678
Q ss_pred EEEcCCCCCCHHHHHHHHHHHHHhh--CCCCEEEEEEEec-CCCcCccCCCCCccccchhHhhcCCccc
Q 005785 401 AVTLQKYISSSEDILKHASVLLKAE--LPVSLRLIGLRVT-QFNEDKVRAPSDPTQKTLTNFMTSGHAS 466 (677)
Q Consensus 401 s~tl~~~t~~~~~L~~~a~~LLe~~--lp~~VRlIGVrls-~L~~~~~~~~~~~~Q~sl~~fF~~~~~~ 466 (677)
+.++..||+....|...+..|++.. .|..+|++||.+. +|.+.- ....+.-+...|......
T Consensus 688 s~~l~~~Td~~~iItt~~~~L~~t~~~~~~elRG~gi~~ntkL~~~~----~~~~~~~l~e~Fgt~s~~ 752 (1016)
T KOG2093|consen 688 SSKLREPTDCNRIITTEVLRLYETNSEPPSELRGLGIHSNTKLMDVL----ENLPPELLSEMFGTYSGK 752 (1016)
T ss_pred hhhccCccccccchHHHHHHHHHhcCCChHHhccchhhccccccccc----cCCcHHHHHhhccccccc
Confidence 8999999999999999999999876 3567999999995 887754 223345666677655443
No 23
>PF00817 IMS: impB/mucB/samB family; InterPro: IPR001126 In Escherichia coli, UV and many chemicals appear to cause mutagenesis by a process of translesion synthesis that requires DNA polymerase III and the SOS-regulated proteins UmuD, UmuC and RecA. This machinery allows the replication to continue through DNA lesion, and therefore avoid lethal interruption of DNA replication after DNA damage []. UmuC is a well conserved protein in prokaryotes, with a homologue in yeast species. Proteins currently known to belong to this family are listed below: E. coli MucB protein. Plasmid-born analogue of the UmuC protein. Saccharomyces cerevisiae (Baker's yeast) Rev1 protein. Homologue of UmuC also required for normal induction of mutations by physical and chemical agents. Salmonella typhimurium ImpB protein. Plasmid-born analogue of the UmuC protein. Bacterial UmuC protein. E. coli DNA-damage-inducible protein P (DinP). S. typhimurium SamB homologue of UmuC plasmid associated. ; GO: 0003684 damaged DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006281 DNA repair; PDB: 3BJY_A 2AQ4_A 3OSP_A 4DL7_A 4DL6_A 3TQ1_A 3MR2_A 4EEY_A 3MR3_A 4DL4_A ....
Probab=100.00 E-value=2.1e-38 Score=303.05 Aligned_cols=144 Identities=43% Similarity=0.681 Sum_probs=137.6
Q ss_pred EeCCchhhhcccccCCCCCCCcEEEecC----CeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCChHHHHHHHHHH
Q 005785 110 VDMDAFYAAVETLSNPSLKGKPMAVGTM----SMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLT 185 (677)
Q Consensus 110 IDmDaFyAsVE~~~~PeLr~kPvAV~~~----~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~~i 185 (677)
||||+||||||++.+|+|+++|+||++. ++|++|||+||++||++||++++|++|||+++++++|++.|+++++.+
T Consensus 1 iD~~~F~as~e~~~~p~L~~~PvaV~~~~~~~~~V~a~n~~Ar~~GV~~Gm~~~~A~~lcp~l~~~~~d~~~~~~~~~~l 80 (149)
T PF00817_consen 1 IDMDAFFASVERRRDPELRGRPVAVVSGQGNRGRVIAANYEARAAGVRPGMPLAEALALCPDLVVVPPDPERYREASERL 80 (149)
T ss_dssp EEETTHHHHHHHHHSGGGTTSSEEEEECTSSTCEEEEE-HHHHTTTSTTTSBHHHHHHHSTTSEEEEEEHHHHHHHHHHH
T ss_pred CccccHHHHHHhhhCccccCCCEEEEecccccchhhhhHHHHHhhccccchhhhhHhhhccceeeccccHHHHHHHHHHH
Confidence 7999999999999999999999999976 999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhc-CCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCeeEEEecCCHHHHHHHhc
Q 005785 186 RKVFCKY-DPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSD 254 (677)
Q Consensus 186 ~~il~~y-~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~S~GIA~NklLAKLaS~ 254 (677)
..++++| +|.|+.+|+||+|||+|++.++|| +...++++||++|.+++|++||+|||+|+++||||++
T Consensus 81 ~~~l~~~~sp~ve~~s~de~~ldv~~~~~l~~-~~~~~~~~l~~~i~~~~gl~~s~Gia~~~~~Aklaa~ 149 (149)
T PF00817_consen 81 AEILYRFSSPRVEVYSPDELFLDVTGSLRLFG-GEEALARRLRQAIAEETGLTASIGIAPNPLLAKLAAD 149 (149)
T ss_dssp HHHHHTTTCSEEEEEETTEEEEEEHHHHHHHH-HHHHHHHHHHHHHHHHHS--EEEEEESSHHHHHHHHH
T ss_pred HHHHHhcccccceecccccccccCCcchhhcc-hHHHHHHHHHHHHHHHhCCEEEEEEeCCHHHHHHhcC
Confidence 9999999 789999999999999999999998 7899999999999999999999999999999999985
No 24
>PF11799 IMS_C: impB/mucB/samB family C-terminal domain; InterPro: IPR017961 This entry represents the little finger domain found in Y-family (lesion bypass) DNA polymerases. Y-family polymerases were originally known as UmuC/DinB/Rev1/Rad30 after each branch of the family. These enzymes are characterised by their low-fidelity synthesis on undamaged DNA templates and by their ability to traverse replication-blocking lesions. By contrast, high-fidelity polymerases (such as DNA polymerase III) are sensitive to distortions in the DNA template. As a result, Y-family polymerases can extend primer strands across DNA strand lesions that would otherwise stall replicative polymerases. To minimize mutations through their low fidelity synthesis, these enzymes are regulated, and are thought to interact with processivity factors, beta-clamp or proliferating cell nuclear antigen (PCNA), which are also essential for the function of replicative DNA polymerases []. Organisms can contain more than one Y-family polymerase, each with a unique DNA damage bypass and fidelity profile. For example, humans posses four Y-family polymerases: DNA polymerases kappa, iota, eta and Rev1. Y-family polymerases show no homology to DNA polymerases from the A-, B-, C-, D- or X-families []. The Y-family of DNA polymerases includes the following enzymes: Prokaryotic DNA polymerase IV (DinB) []. Archaeal DinB homologue DNA polymerase IV []. Eukaryotic DinB homologue DNA polymerase kappa []. Prokarytoic DNA repair proteins UmuC and UmuD []. Eukaryotic Rad30 homologues DNA polymerase eta and iota [, ]. Eukaryotic DNA repair protein Rev1 []. Human DNA polymerase kappa is a right-handed shaped molecule with palm, fingers, thumb, little finger and wrist subdomains []. This entry represents the little finger domain.; GO: 0003684 damaged DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006281 DNA repair; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 3GV8_B 3G6V_A 4EBC_A 3GV5_B ....
Probab=99.39 E-value=2.1e-12 Score=118.64 Aligned_cols=106 Identities=33% Similarity=0.462 Sum_probs=95.9
Q ss_pred CCC-CCCCCcceeeeecCCc-cccHHHHHHHHHHHHHHHHHHHHHhCCcccEEEEEEEEcCCe---eeEEEEEcCCCCCC
Q 005785 336 NTP-QARFRKSISSERTFSV-TEDKALLYRKLAEIAEMLSADMQKEGLRGRTLTLKLKTASFE---VRTRAVTLQKYISS 410 (677)
Q Consensus 336 ~~~-~~~~rKSis~e~tf~~-~~d~~~L~~~L~~La~~L~~rLr~~~l~~rtltLklk~~~f~---~~trs~tl~~~t~~ 410 (677)
++. +..++|||+.+++|+. +.+.+.+..+|..|+++|+.+|++.++.+++|+|++++.++. ..+++.+++.|+++
T Consensus 3 pV~~~~~~~ksi~~~~t~~~~~~~~~~i~~~l~~l~~~l~~rL~~~~~~~~~i~l~l~~~~~~~~~~~~~~~~l~~p~~~ 82 (127)
T PF11799_consen 3 PVQQPRPPPKSIGSERTFPEPISDREEIEEWLRELAEELAERLRERGLAARTITLKLRYSDFGRCSSRSRSIRLPFPTND 82 (127)
T ss_dssp ----SCSS-SEEEEEEEECEEESSHHHHHHHHHHHHHHHHHHHHHCTEEEEEEEEEEEETTSCSCEEEEEEEEECCCEHC
T ss_pred CCCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHhhCcCCceEEEEEEecCCcccceeeEEEeccCCcCC
Confidence 444 6678999999999997 789999999999999999999999999999999999999998 89999999999999
Q ss_pred HHHHHHHHHHHHHhh-C--CCCEEEEEEEecCCC
Q 005785 411 SEDILKHASVLLKAE-L--PVSLRLIGLRVTQFN 441 (677)
Q Consensus 411 ~~~L~~~a~~LLe~~-l--p~~VRlIGVrls~L~ 441 (677)
...|+..+..+|++. + ..+||+|||++++|.
T Consensus 83 ~~~l~~~~~~l~~~~~~~~~~~vr~igv~~~~l~ 116 (127)
T PF11799_consen 83 ADELLKAARELLERLLYDPGFPVRLIGVSASDLI 116 (127)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCGEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHHHHhcCCCCCEEEEEEEECCCc
Confidence 999999999999665 4 468999999999999
No 25
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=98.37 E-value=2.6e-07 Score=65.84 Aligned_cols=31 Identities=48% Similarity=0.679 Sum_probs=27.2
Q ss_pred hHHHHhhhcCCCccccCCCHHHHHHHHhhcCC
Q 005785 269 MAVMTFISSLPIRKIGGIGKVTEHILRDVFGI 300 (677)
Q Consensus 269 ~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI 300 (677)
+++.+||++|||+++||||++|+++|++ +||
T Consensus 2 e~v~~~l~~lpi~~~~GIG~kt~~kL~~-~GI 32 (32)
T PF11798_consen 2 EDVPEFLWPLPIRKFWGIGKKTAKKLNK-LGI 32 (32)
T ss_dssp HHHHHHHHCSBGGGSTTS-HHHHHHHHC-TT-
T ss_pred hHHHHHHhcCCHHhhCCccHHHHHHHHH-ccC
Confidence 4689999999999999999999999996 997
No 26
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=97.25 E-value=0.00019 Score=77.37 Aligned_cols=79 Identities=23% Similarity=0.244 Sum_probs=60.5
Q ss_pred hhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcCh--hHHHHHHHhccC---CC--CCCCCCCCCCcc
Q 005785 274 FISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSH--STADFFLSVGLG---LG--STNTPQARFRKS 345 (677)
Q Consensus 274 fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~--~~~~~L~~~a~G---~~--~~~~~~~~~rKS 345 (677)
-|.++||.++||||++++++|.+ .||+|++||+..+ ..|.+++|. ..+..++..+.| .+ .+.......+++
T Consensus 2 ~~~~~~l~~l~gIg~~~a~~L~~-~Gi~t~~dl~~~~~~~L~~~~g~~~~~a~~l~~~a~~~~~~~~~~t~~~l~~~~ks 80 (317)
T PRK04301 2 KMKEKDLEDLPGVGPATAEKLRE-AGYDTVEAIAVASPKELSEAAGIGESTAAKIIEAAREAADIGGFETALEVLERRKN 80 (317)
T ss_pred CcccccHhhcCCCCHHHHHHHHH-cCCCCHHHHHcCCHHHHHHhcCCCHHHHHHHHHHHHHhhccccCccHHHHHHhhcc
Confidence 47899999999999999999997 9999999999997 789999994 466777777776 32 122222234677
Q ss_pred eeeeecCC
Q 005785 346 ISSERTFS 353 (677)
Q Consensus 346 is~e~tf~ 353 (677)
++...|+.
T Consensus 81 ~~~~~Tg~ 88 (317)
T PRK04301 81 VGKITTGS 88 (317)
T ss_pred CCccCCCC
Confidence 77766664
No 27
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=95.96 E-value=0.0062 Score=65.25 Aligned_cols=73 Identities=27% Similarity=0.310 Sum_probs=54.5
Q ss_pred CccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChh--HHHHHHHhcc---CCC--CCCCCCCCCCcceeeeec
Q 005785 280 IRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHS--TADFFLSVGL---GLG--STNTPQARFRKSISSERT 351 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~--~~~~L~~~a~---G~~--~~~~~~~~~rKSis~e~t 351 (677)
|.++||||+++.++|.+ .||.|++||+..+ ..|.+.+|.. .+..++..+. |.+ .+.......+++++...|
T Consensus 1 l~~i~gig~~~~~~L~~-~Gi~ti~dl~~~~~~~L~~~~g~~~~~a~~l~~~~~~~~~~~~~~t~~~~~~~~~s~~~~~T 79 (310)
T TIGR02236 1 LEDLPGVGPATAEKLRE-AGYDTFEAIAVASPKELSEIAGISEGTAAKIIQAARKAADLGGFETADDVLERRKTIGKITT 79 (310)
T ss_pred CcccCCCCHHHHHHHHH-cCCCCHHHHHcCCHHHHHhccCCCHHHHHHHHHHHHHHhhccCCCCHHHHHHhhccCCeecC
Confidence 46799999999999997 9999999999997 7899998853 4566666555 655 222233344678887777
Q ss_pred CC
Q 005785 352 FS 353 (677)
Q Consensus 352 f~ 353 (677)
+.
T Consensus 80 g~ 81 (310)
T TIGR02236 80 GS 81 (310)
T ss_pred CC
Confidence 65
No 28
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=94.98 E-value=0.019 Score=51.02 Aligned_cols=38 Identities=26% Similarity=0.340 Sum_probs=31.5
Q ss_pred CCccccCCCHHHHHHHHhhcCCCcHHHHHhc-hHHHHHhc
Q 005785 279 PIRKIGGIGKVTEHILRDVFGINTCEEMLQK-GSLLCAVF 317 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~-~~~L~~rF 317 (677)
.+.+|||||+.+++-|.. +||+++.||... |..|..++
T Consensus 13 ~L~~iP~IG~a~a~DL~~-LGi~s~~~L~g~dP~~Ly~~l 51 (93)
T PF11731_consen 13 DLTDIPNIGKATAEDLRL-LGIRSPADLKGRDPEELYERL 51 (93)
T ss_pred HHhcCCCccHHHHHHHHH-cCCCCHHHHhCCCHHHHHHHH
Confidence 367899999999999996 999999999887 45555444
No 29
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=94.79 E-value=0.034 Score=45.07 Aligned_cols=46 Identities=26% Similarity=0.377 Sum_probs=37.2
Q ss_pred ccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHh--cChhHHHHHHH
Q 005785 281 RKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAV--FSHSTADFFLS 327 (677)
Q Consensus 281 ~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~r--FG~~~~~~L~~ 327 (677)
..|||||+++.+.|.+ .|+.|+.||+... ..|... +|+...+.+..
T Consensus 8 ~~I~Gig~~~a~~L~~-~G~~t~~~l~~a~~~~L~~i~Gig~~~a~~i~~ 56 (60)
T PF14520_consen 8 LSIPGIGPKRAEKLYE-AGIKTLEDLANADPEELAEIPGIGEKTAEKIIE 56 (60)
T ss_dssp HTSTTCHHHHHHHHHH-TTCSSHHHHHTSHHHHHHTSTTSSHHHHHHHHH
T ss_pred ccCCCCCHHHHHHHHh-cCCCcHHHHHcCCHHHHhcCCCCCHHHHHHHHH
Confidence 3589999999999997 8999999999986 677765 66766665543
No 30
>PF04994 TfoX_C: TfoX C-terminal domain; InterPro: IPR007077 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes []. This family corresponds to the C-terminal presumed domain of TfoX. The domain is found in association with the N-terminal domain in some, but not all members of this group, suggesting this is an autonomous and functionally unrelated domain. For example it is found associated with Q9JZR1 from SWISSPROT in IPR002125 from INTERPRO.; PDB: 3BQT_A 3MAB_A.
Probab=93.82 E-value=0.12 Score=44.92 Aligned_cols=49 Identities=22% Similarity=0.392 Sum_probs=30.8
Q ss_pred CCccccCCCHHHHHHHHhhcCCCcHHHHHhch---H--HHHHhcChhHHHHHHHh
Q 005785 279 PIRKIGGIGKVTEHILRDVFGINTCEEMLQKG---S--LLCAVFSHSTADFFLSV 328 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~---~--~L~~rFG~~~~~~L~~~ 328 (677)
.|+++|+||+++++.|.+ .||+|+.||.+.- + .|...........||.+
T Consensus 4 ~l~~LpNig~~~e~~L~~-vGI~t~~~L~~~Ga~~a~~~Lk~~~~~~~~~~L~aL 57 (81)
T PF04994_consen 4 RLKDLPNIGPKSERMLAK-VGIHTVEDLRELGAVEAYLRLKASGPSVCLNLLYAL 57 (81)
T ss_dssp -GCGSTT--HHHHHHHHH-TT--SHHHHHHHHHHHHHHHHHHH-TT--HHHHHHH
T ss_pred chhhCCCCCHHHHHHHHH-cCCCCHHHHHHhCHHHHHHHHHHHCCCCCHHHHHHH
Confidence 588999999999999997 9999999998874 2 24444333345555544
No 31
>PF08827 DUF1805: Domain of unknown function (DUF1805); InterPro: IPR014931 This protein is found in bacteria and archaea and has an N-terminal tetramerisation region that is composed of beta sheets. ; PDB: 1QW2_A.
Probab=91.51 E-value=0.12 Score=42.05 Aligned_cols=27 Identities=19% Similarity=0.271 Sum_probs=20.0
Q ss_pred CeEEecCHHHHHcCCCCCCcHHHHHHh
Q 005785 138 SMICTANYEARRFGVRAAMPGFIARKL 164 (677)
Q Consensus 138 ~~V~taNY~ARk~GVr~GMp~~~AkkL 164 (677)
+-|..+|+.|+++||+.||++.+|..+
T Consensus 32 a~v~~vt~~A~~lGI~~Gm~g~eAL~~ 58 (59)
T PF08827_consen 32 APVESVTSAAEELGIKPGMTGREALEK 58 (59)
T ss_dssp SB-SEE-HHHHHTT--TT-BHHHHGGG
T ss_pred ChHHHHHHHHHHhCCCCCCCHHHHHHh
Confidence 688899999999999999999999864
No 32
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. This entry represents the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone []. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1KDH_A 1KEJ_A 1JMS_A 2IHM_A 3OGU_A 1MQ2_A 2P66_A 7ICI_A 1ZQN_A 1ZQK_A ....
Probab=91.39 E-value=0.16 Score=40.38 Aligned_cols=27 Identities=30% Similarity=0.346 Sum_probs=20.4
Q ss_pred ccccCCCHHHHHHHHhhcCCCcHHHHHh
Q 005785 281 RKIGGIGKVTEHILRDVFGINTCEEMLQ 308 (677)
Q Consensus 281 ~kLpGIG~~t~~~L~~~lGI~T~gDL~~ 308 (677)
..|||||+++++++-. .|++|+.||..
T Consensus 5 ~~I~GVG~~tA~~w~~-~G~rtl~Dl~~ 31 (52)
T PF10391_consen 5 TGIWGVGPKTARKWYA-KGIRTLEDLRK 31 (52)
T ss_dssp HTSTT--HHHHHHHHH-TT--SHHHHHH
T ss_pred hhcccccHHHHHHHHH-hCCCCHHHHhh
Confidence 4589999999999996 99999999965
No 33
>COG3743 Uncharacterized conserved protein [Function unknown]
Probab=90.48 E-value=0.28 Score=46.09 Aligned_cols=34 Identities=26% Similarity=0.454 Sum_probs=29.4
Q ss_pred CCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHH
Q 005785 279 PIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLL 313 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L 313 (677)
.|+.|.|||++.+..|+. +||.|..||+... ..+
T Consensus 68 DLt~I~GIGPk~e~~Ln~-~GI~tfaQIAAwt~~di 102 (133)
T COG3743 68 DLTRISGIGPKLEKVLNE-LGIFTFAQIAAWTRADI 102 (133)
T ss_pred cchhhcccCHHHHHHHHH-cCCccHHHHHhcCHHHH
Confidence 367789999999999997 9999999999874 444
No 34
>PF03118 RNA_pol_A_CTD: Bacterial RNA polymerase, alpha chain C terminal domain; InterPro: IPR011260 The core of the bacterial RNA polymerase (RNAP) consists of four subunits, two alpha, a beta and a beta', which are conserved from bacteria to mammals. The alpha subunit (RpoA) initiates RNAP assembly by dimerising to form a platform on which the beta subunits can interact. The alpha subunit consists of a N-terminal domain (NTD) and a C-terminal domain (CTD), connected by a short linker. The NTD is essential for RNAP assembly, while the CTD is necessary for transcription regulation, interacting with transcription factors and promoter upstream elements. In Escherichia coli, the catabolite activator protein (CAP or CRP) was shown to exert its effect through its interactions with the CTD, where CAP binding to CTD promotes RNAP binding to promoter DNA, thereby stimulating transcription initiation at class I CAP-dependent promoters. At class II CAP-dependent promoters, the interaction of CAP with CTD is one of multiple interactions involved in activation []. The CTD has a compact structure of four helices and two long arms enclosing its hydrophobic core, making its folding topology distinct from most other binding proteins. The upstream promoter element-binding site is formed from helices 1 and 4 [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3N97_B 1XS9_D 3K4G_A 3N4M_B 1COO_A 1LB2_E 3IYD_A 1Z3E_B 3GFK_B 3IHQ_B ....
Probab=87.37 E-value=0.99 Score=37.59 Aligned_cols=52 Identities=17% Similarity=0.273 Sum_probs=37.8
Q ss_pred HHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHH--HhcChhHHHHH
Q 005785 272 MTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLC--AVFSHSTADFF 325 (677)
Q Consensus 272 ~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~--~rFG~~~~~~L 325 (677)
...+...||..| |+...+...|++ .||+|++||..++ ..|. +-||..+..-+
T Consensus 6 ~~~~~~~~I~~L-~LS~Ra~n~L~~-~~I~tv~dL~~~s~~~L~~i~n~G~ksl~EI 60 (66)
T PF03118_consen 6 EEELLDTPIEDL-GLSVRAYNCLKR-AGIHTVGDLVKYSEEDLLKIKNFGKKSLEEI 60 (66)
T ss_dssp -HHHHCSBGGGS-TSBHHHHHHHHC-TT--BHHHHHCS-HHHHHTSTTSHHHHHHHH
T ss_pred hHHHhcCcHHHh-CCCHHHHHHHHH-hCCcCHHHHHhCCHHHHHhCCCCCHhHHHHH
Confidence 345678899999 899999999997 8999999999986 5554 34666655444
No 35
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=83.45 E-value=2.1 Score=44.27 Aligned_cols=50 Identities=22% Similarity=0.326 Sum_probs=42.3
Q ss_pred CCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHh--cChhHHHHHHHhc
Q 005785 279 PIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAV--FSHSTADFFLSVG 329 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~r--FG~~~~~~L~~~a 329 (677)
+|.+|+|||+++.+.|.. .|+.|+.+|.... ..|... +|...+..++...
T Consensus 4 ~L~~IpGIG~krakkLl~-~GF~Sve~Ik~AS~eEL~~V~GIg~k~AekI~e~l 56 (232)
T PRK12766 4 ELEDISGVGPSKAEALRE-AGFESVEDVRAADQSELAEVDGIGNALAARIKADV 56 (232)
T ss_pred ccccCCCcCHHHHHHHHH-cCCCCHHHHHhCCHHHHHHccCCCHHHHHHHHHHh
Confidence 477899999999999997 8999999999986 788888 7887777776553
No 36
>PRK02362 ski2-like helicase; Provisional
Probab=81.75 E-value=1.5 Score=52.81 Aligned_cols=50 Identities=22% Similarity=0.393 Sum_probs=43.9
Q ss_pred CCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHh
Q 005785 278 LPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSV 328 (677)
Q Consensus 278 LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~ 328 (677)
+|+..|||||++.+++|.+ .||+|+.||.... ..|...||.+....+...
T Consensus 652 ~~L~~ip~i~~~~a~~l~~-~gi~s~~dl~~~~~~~l~~~~g~~~~~~i~~~ 702 (737)
T PRK02362 652 LDLVGLRGVGRVRARRLYN-AGIESRADLRAADKSVVLAILGEKIAENILEQ 702 (737)
T ss_pred HHHhCCCCCCHHHHHHHHH-cCCCCHHHHHhCCHHHHHHHHCHHHHHHHHHH
Confidence 5778899999999999997 9999999999885 788888999988877654
No 37
>KOG2093 consensus Translesion DNA polymerase - REV1 deoxycytidyl transferase [Replication, recombination and repair]
Probab=76.21 E-value=0.63 Score=55.51 Aligned_cols=30 Identities=37% Similarity=0.551 Sum_probs=28.6
Q ss_pred EEEEeCCchhhhcccccCCCCCCCcEEEec
Q 005785 107 WLHVDMDAFYAAVETLSNPSLKGKPMAVGT 136 (677)
Q Consensus 107 I~HIDmDaFyAsVE~~~~PeLr~kPvAV~~ 136 (677)
++|+|||+||++|-.+.+|.+++.|.|+..
T Consensus 330 ~~~~dmk~fF~nv~l~~k~~~kg~~~a~~~ 359 (1016)
T KOG2093|consen 330 TWHNDMKDFFVNVGLRLKPALKGQPTAETA 359 (1016)
T ss_pred HHHHhhhhhhhcccccCCccccCCceeeec
Confidence 799999999999999999999999999974
No 38
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=75.58 E-value=2.6 Score=39.37 Aligned_cols=25 Identities=32% Similarity=0.505 Sum_probs=23.7
Q ss_pred cCCCHHHHHHHHhhcCCCcHHHHHhc
Q 005785 284 GGIGKVTEHILRDVFGINTCEEMLQK 309 (677)
Q Consensus 284 pGIG~~t~~~L~~~lGI~T~gDL~~~ 309 (677)
||||+++..+|.+ .||+|.+||+..
T Consensus 1 pgi~~~~~~~L~~-~GI~t~~~Ll~~ 25 (122)
T PF14229_consen 1 PGIGPKEAAKLKA-AGIKTTGDLLEA 25 (122)
T ss_pred CCCCHHHHHHHHH-cCCCcHHHHHHc
Confidence 7999999999996 999999999987
No 39
>PRK08609 hypothetical protein; Provisional
Probab=72.66 E-value=3.5 Score=48.37 Aligned_cols=44 Identities=20% Similarity=0.214 Sum_probs=32.2
Q ss_pred ccccCCCHHHHHHHHhhcCCCcHHHHHhch--HHHH--HhcChhHHHH
Q 005785 281 RKIGGIGKVTEHILRDVFGINTCEEMLQKG--SLLC--AVFSHSTADF 324 (677)
Q Consensus 281 ~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~--~~L~--~rFG~~~~~~ 324 (677)
.+|||||+++..+|.+.+||+|+.||.... ..|. ..||.++.+.
T Consensus 91 ~~i~GiGpk~a~~l~~~lGi~tl~~L~~a~~~~~~~~~~gfg~k~~~~ 138 (570)
T PRK08609 91 LKLPGLGGKKIAKLYKELGVVDKESLKEACENGKVQALAGFGKKTEEK 138 (570)
T ss_pred hcCCCCCHHHHHHHHHHhCCCCHHHHHHHHHhCChhhccCcchhHHHH
Confidence 369999999999998559999999997643 2233 3477665443
No 40
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=71.88 E-value=2.7 Score=45.93 Aligned_cols=29 Identities=28% Similarity=0.336 Sum_probs=25.9
Q ss_pred CccccCCCHHHHHHHHhhcCCCcHHHHHhc
Q 005785 280 IRKIGGIGKVTEHILRDVFGINTCEEMLQK 309 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~~lGI~T~gDL~~~ 309 (677)
+.+|||||++++..|.+ +||+|+.||.+.
T Consensus 91 l~~i~GiGpk~a~~l~~-lGi~tl~eL~~a 119 (334)
T smart00483 91 FTNVFGVGPKTAAKWYR-KGIRTLEELKKN 119 (334)
T ss_pred HHccCCcCHHHHHHHHH-hCCCCHHHHHhc
Confidence 45689999999999998 999999999664
No 41
>PF02961 BAF: Barrier to autointegration factor; InterPro: IPR004122 Barrier-to-autointegration factor (BAF) is an essential protein that is highly conserved in metazoan evolution, and which may act as a DNA-bridging protein []. BAF binds directly to double-stranded DNA, to transcription activators, and to inner nuclear membrane proteins, including lamin A filament proteins that anchor nuclear-pore complexes in place, and nuclear LEM-domain proteins that bind to laminins filaments and chromatin. New findings suggest that BAF has structural roles in nuclear assembly and chromatin organisation, represses gene expression and might interlink chromatin structure, nuclear architecture and gene regulation in metazoans []. BAF can be exploited by retroviruses to act as a host component of pre-integration complexes, which promote the integration of the retroviral DNA into the host chromosome by preventing autointegration of retroviral DNA []. BAF might contribute to the assembly or activity of retroviral pre-integration complexes through direct binding to the retroviral proteins p55 Gag and matrix, as well as to DNA.; GO: 0003677 DNA binding; PDB: 2ODG_A 2BZF_A 2EZX_B 2EZY_B 1QCK_B 1CI4_B 2EZZ_B.
Probab=70.66 E-value=4.3 Score=35.80 Aligned_cols=34 Identities=24% Similarity=0.418 Sum_probs=23.0
Q ss_pred hhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHh
Q 005785 274 FISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ 308 (677)
Q Consensus 274 fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~ 308 (677)
=|.+-||+.|+|||++...+|.+ -|+.....|+-
T Consensus 15 PMGeK~V~~laGIG~~lg~~L~~-~GfdKAy~vLG 48 (89)
T PF02961_consen 15 PMGEKPVTELAGIGPVLGKRLEE-KGFDKAYVVLG 48 (89)
T ss_dssp --TT-BGGGSTT--HHHHHHHHH-TT--BHHHHHH
T ss_pred ccCCCCccccCCcCHHHHHHHHH-CCCcHHHHHhh
Confidence 35667999999999999999996 89988776643
No 42
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=69.50 E-value=5.5 Score=37.13 Aligned_cols=48 Identities=23% Similarity=0.451 Sum_probs=37.3
Q ss_pred HHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcC
Q 005785 270 AVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFS 318 (677)
Q Consensus 270 ~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG 318 (677)
.+..+...--+-.++|||+.....|.. .||.|+.+|++.. ..|....+
T Consensus 45 ~l~~w~~~AdL~ri~gi~~~~a~LL~~-AGv~Tv~~LA~~~p~~L~~~l~ 93 (122)
T PF14229_consen 45 NLLKWVNQADLMRIPGIGPQYAELLEH-AGVDTVEELAQRNPQNLHQKLG 93 (122)
T ss_pred HHHHHHhHHHhhhcCCCCHHHHHHHHH-hCcCcHHHHHhCCHHHHHHHHH
Confidence 455555555566799999999999996 8999999999985 66666554
No 43
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=69.17 E-value=3.5 Score=44.49 Aligned_cols=29 Identities=28% Similarity=0.536 Sum_probs=25.2
Q ss_pred CccccCCCHHHHHHHHhhcCCCcHHHHHhc
Q 005785 280 IRKIGGIGKVTEHILRDVFGINTCEEMLQK 309 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~~lGI~T~gDL~~~ 309 (677)
+.+|||||++++++|.+ +||+|+.||...
T Consensus 87 l~~i~GiGpk~a~~l~~-lGi~sl~dL~~a 115 (307)
T cd00141 87 LLRVPGVGPKTARKLYE-LGIRTLEDLRKA 115 (307)
T ss_pred HHcCCCCCHHHHHHHHH-cCCCCHHHHHHH
Confidence 34589999999999995 999999999664
No 44
>PRK01172 ski2-like helicase; Provisional
Probab=67.82 E-value=6.6 Score=46.83 Aligned_cols=48 Identities=21% Similarity=0.361 Sum_probs=38.3
Q ss_pred cCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHh--cChhHHHHH
Q 005785 277 SLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAV--FSHSTADFF 325 (677)
Q Consensus 277 ~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~r--FG~~~~~~L 325 (677)
.+|+..|||+|+..+++|.+ .||+|+.||..+. ..+.+. +|......+
T Consensus 611 ~~~L~~ip~~~~~~a~~l~~-~g~~~~~di~~~~~~~~~~i~~~~~~~~~~i 661 (674)
T PRK01172 611 LIDLVLIPKVGRVRARRLYD-AGFKTVDDIARSSPERIKKIYGFSDTLANAI 661 (674)
T ss_pred HHhhcCCCCCCHHHHHHHHH-cCCCCHHHHHhCCHHHHHHHhccCHHHHHHH
Confidence 36888999999999999997 8999999999985 666665 555544443
No 45
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=65.05 E-value=2.7 Score=31.70 Aligned_cols=27 Identities=26% Similarity=0.557 Sum_probs=24.6
Q ss_pred cccccccCCCCCCChhhhhhccchhHH
Q 005785 589 DYKCSLCGTEMPPSFIEERQEHSDFHL 615 (677)
Q Consensus 589 ~y~c~~c~~~~~~~~~~~~~eh~d~h~ 615 (677)
.-+|+.||...-|+=.|.+..|.-||=
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 358999999999999999999999993
No 46
>COG2251 Predicted nuclease (RecB family) [General function prediction only]
Probab=63.70 E-value=9.3 Score=43.07 Aligned_cols=48 Identities=19% Similarity=0.257 Sum_probs=40.0
Q ss_pred HHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcC
Q 005785 270 AVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFS 318 (677)
Q Consensus 270 ~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG 318 (677)
....+...-.|.-+|||++...+.|.+ +||+|+.||++.. ..+...+|
T Consensus 217 C~~~a~e~~~L~Lv~Gi~~~r~~~l~~-~GI~Ti~~LA~~~~~~~~~~~g 265 (474)
T COG2251 217 CESEALEEDDLSLVPGITPSRYDVLEE-VGITTIEDLADASLPILELVAG 265 (474)
T ss_pred hhHHHhhccceeccCCCCHHHHHHHHH-cCcchHHHHHhccccchhhhhh
Confidence 345677777888899999999999997 9999999999975 56666666
No 47
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=62.76 E-value=5.5 Score=47.68 Aligned_cols=31 Identities=29% Similarity=0.603 Sum_probs=28.4
Q ss_pred CCCccccCCCHHHHHHHHhhcCCCcHHHHHhc
Q 005785 278 LPIRKIGGIGKVTEHILRDVFGINTCEEMLQK 309 (677)
Q Consensus 278 LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~ 309 (677)
.||..|.|||+++++.|++ +||.|+.||+..
T Consensus 9 ~~~~~l~gvg~~~~~~l~~-lgi~t~~dll~~ 39 (681)
T PRK10917 9 APLTSLKGVGPKTAEKLAK-LGIHTVQDLLLH 39 (681)
T ss_pred CChhhcCCCCHHHHHHHHH-cCCCCHHHHhhc
Confidence 4899999999999999997 999999999764
No 48
>PRK07758 hypothetical protein; Provisional
Probab=59.59 E-value=16 Score=32.69 Aligned_cols=43 Identities=14% Similarity=0.156 Sum_probs=33.7
Q ss_pred ccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHH--HhcChhHHHHHH
Q 005785 283 IGGIGKVTEHILRDVFGINTCEEMLQKG-SLLC--AVFSHSTADFFL 326 (677)
Q Consensus 283 LpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~--~rFG~~~~~~L~ 326 (677)
+|+++-....-|.+ .||+|++||.... .+|. +-||+++.+-|.
T Consensus 39 ~~~LSvRA~N~Lk~-AGI~TL~dLv~~te~ELl~iknlGkKSL~EIk 84 (95)
T PRK07758 39 LSLLSAPARRALEH-HGIHTVEELSKYSEKEILKLHGMGPASLPKLR 84 (95)
T ss_pred CccccHHHHHHHHH-cCCCcHHHHHcCCHHHHHHccCCCHHHHHHHH
Confidence 46788888889997 8999999999986 5553 457888777653
No 49
>PRK00254 ski2-like helicase; Provisional
Probab=58.69 E-value=11 Score=45.35 Aligned_cols=51 Identities=18% Similarity=0.250 Sum_probs=43.6
Q ss_pred cCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHh--cChhHHHHHHHh
Q 005785 277 SLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAV--FSHSTADFFLSV 328 (677)
Q Consensus 277 ~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~r--FG~~~~~~L~~~ 328 (677)
.+|+..|||||++..++|.+ .|+.|+.||.... ..|.+. +|.+.+..++..
T Consensus 644 ~~~L~~ipgig~~~~~~l~~-~g~~s~~~i~~a~~~el~~~~gi~~~~a~~i~~~ 697 (720)
T PRK00254 644 LLELMRLPMIGRKRARALYN-AGFRSIEDIVNAKPSELLKVEGIGAKIVEGIFKH 697 (720)
T ss_pred HhhhhcCCCCCHHHHHHHHH-ccCCCHHHHHhCCHHHHhcCCCCCHHHHHHHHHH
Confidence 36888999999999999997 8999999999986 788887 778777777654
No 50
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=56.86 E-value=6 Score=27.83 Aligned_cols=16 Identities=31% Similarity=0.499 Sum_probs=12.3
Q ss_pred CccccCCCHHHHHHHH
Q 005785 280 IRKIGGIGKVTEHILR 295 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~ 295 (677)
|.+|||||++++..+.
T Consensus 13 L~~lpGIG~~tA~~I~ 28 (30)
T PF00633_consen 13 LMKLPGIGPKTANAIL 28 (30)
T ss_dssp HHTSTT-SHHHHHHHH
T ss_pred HHhCCCcCHHHHHHHH
Confidence 4568999999998765
No 51
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=56.09 E-value=8.3 Score=45.63 Aligned_cols=31 Identities=32% Similarity=0.651 Sum_probs=28.3
Q ss_pred CCCccccCCCHHHHHHHHhhcCCCcHHHHHhc
Q 005785 278 LPIRKIGGIGKVTEHILRDVFGINTCEEMLQK 309 (677)
Q Consensus 278 LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~ 309 (677)
.|+..+.|||+++..+|++ +||+|+.||+-.
T Consensus 10 ~~l~~l~gig~~~a~~l~~-Lgi~tv~DLL~~ 40 (677)
T COG1200 10 VPLSTLKGIGPKTAEKLKK-LGIHTVQDLLLY 40 (677)
T ss_pred cchhhhcCcCHHHHHHHHH-cCCCcHHHHHHh
Confidence 3899999999999999997 999999998764
No 52
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=55.38 E-value=12 Score=30.83 Aligned_cols=41 Identities=22% Similarity=0.372 Sum_probs=23.6
Q ss_pred ccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHh--cChhHHHHH
Q 005785 283 IGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAV--FSHSTADFF 325 (677)
Q Consensus 283 LpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~r--FG~~~~~~L 325 (677)
|||||..+.+.|.+. ..|+..|.+.. ..|... +|+...+-+
T Consensus 8 I~~VG~~~ak~L~~~--f~sl~~l~~a~~e~L~~i~gIG~~~A~si 51 (64)
T PF12826_consen 8 IPGVGEKTAKLLAKH--FGSLEALMNASVEELSAIPGIGPKIAQSI 51 (64)
T ss_dssp STT--HHHHHHHHHC--CSCHHHHCC--HHHHCTSTT--HHHHHHH
T ss_pred CCCccHHHHHHHHHH--cCCHHHHHHcCHHHHhccCCcCHHHHHHH
Confidence 579999999999864 44888777664 555544 555554443
No 53
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=50.85 E-value=19 Score=43.11 Aligned_cols=47 Identities=19% Similarity=0.175 Sum_probs=36.8
Q ss_pred CccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHH--hcChhHHHHHH
Q 005785 280 IRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCA--VFSHSTADFFL 326 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~--rFG~~~~~~L~ 326 (677)
.=+|+|+|+++.+.|-+..+|+++.||+.+. ..|.. .||++....++
T Consensus 447 al~I~GLG~k~i~~L~~~g~I~~i~DL~~L~~~~L~~l~gfG~Ksa~~ll 496 (665)
T PRK07956 447 AMDIDGLGEKIIEQLFEKGLIHDPADLFKLTAEDLLGLEGFGEKSAQNLL 496 (665)
T ss_pred ccCCCCcCHHHHHHHHHcCCCCCHHHHHhcCHHHHhcCcCcchHHHHHHH
Confidence 3458999999999998767899999999876 55554 68887766553
No 54
>KOG3014 consensus Protein involved in establishing cohesion between sister chromatids during DNA replication [Replication, recombination and repair]
Probab=50.35 E-value=8.7 Score=40.09 Aligned_cols=30 Identities=27% Similarity=0.414 Sum_probs=26.6
Q ss_pred cccccccCCCCCCChhhhhhccchhHHHHH
Q 005785 589 DYKCSLCGTEMPPSFIEERQEHSDFHLAER 618 (677)
Q Consensus 589 ~y~c~~c~~~~~~~~~~~~~eh~d~h~a~~ 618 (677)
.-+|..||-.-.++=+|.+.+|.-||=+.+
T Consensus 37 ~~~C~~Cgm~Yt~~s~EDe~~H~~fH~~~l 66 (257)
T KOG3014|consen 37 AVKCKECGMKYTVTSPEDEALHEKFHNRFL 66 (257)
T ss_pred ceehhhcCceecCCCHHHHHHHHHHHHhhc
Confidence 349999999999999999999999997654
No 55
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=48.31 E-value=5.5 Score=25.08 Aligned_cols=13 Identities=23% Similarity=1.048 Sum_probs=9.1
Q ss_pred ccccccCCCCCCC
Q 005785 590 YKCSLCGTEMPPS 602 (677)
Q Consensus 590 y~c~~c~~~~~~~ 602 (677)
|+|.+||..++..
T Consensus 1 ~~C~~C~~~~~~~ 13 (24)
T PF13894_consen 1 FQCPICGKSFRSK 13 (24)
T ss_dssp EE-SSTS-EESSH
T ss_pred CCCcCCCCcCCcH
Confidence 7899999999843
No 56
>TIGR03491 RecB family nuclease, putative, TM0106 family. Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Probab=47.51 E-value=17 Score=41.45 Aligned_cols=38 Identities=21% Similarity=0.337 Sum_probs=32.3
Q ss_pred HHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch
Q 005785 272 MTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG 310 (677)
Q Consensus 272 ~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~ 310 (677)
......-+|..|+||++.....|++ .||+|+.||++..
T Consensus 201 ~~~~~~~~lslv~gi~~~~~~~L~~-~GI~ti~~La~~~ 238 (457)
T TIGR03491 201 AVAKEEGHLSLVPGIGPSRYRLLQE-LGIHTLEDLAAAD 238 (457)
T ss_pred HHHHhcCCeeecCCCCHHHHHHHHH-cCCCcHHHHhcCC
Confidence 3444466889999999999999997 9999999998874
No 57
>PF02889 Sec63: Sec63 Brl domain; InterPro: IPR004179 This domain was named after the yeast Sec63 (or NPL1) (also known as the Brl domain) protein in which it was found. This protein is required for assembly of functional endoplasmic reticulum translocons [, ]. Other yeast proteins containing this domain include pre-mRNA splicing helicase BRR2, HFM1 protein and putative helicases. ; PDB: 3IM2_A 3IM1_A 3HIB_A 2Q0Z_X.
Probab=47.40 E-value=19 Score=38.28 Aligned_cols=41 Identities=20% Similarity=0.297 Sum_probs=29.8
Q ss_pred cCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcC
Q 005785 277 SLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFS 318 (677)
Q Consensus 277 ~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG 318 (677)
+.|+..|||||.....+|.+ .||.|+++|.++. ..+...++
T Consensus 147 ~~~L~Qlp~i~~~~~~~l~~-~~i~~l~~l~~~~~~e~~~ll~ 188 (314)
T PF02889_consen 147 DSPLLQLPHIGEESLKKLEK-RGIKTLQDLRDLSPEELEELLN 188 (314)
T ss_dssp S-GGGGSTT--HHHHHHHHH-TT--SHHHHHHS-HHHHHHHH-
T ss_pred CChhhcCCCCCHHHHHHHhc-cCCCcHHHHhhCCHHHHHHHHh
Confidence 35899999999999999997 8999999999986 66666665
No 58
>PHA02768 hypothetical protein; Provisional
Probab=47.17 E-value=6.9 Score=31.61 Aligned_cols=27 Identities=26% Similarity=0.452 Sum_probs=18.4
Q ss_pred cccccccccCCCCCCChhhhhhccchhHH
Q 005785 587 LDDYKCSLCGTEMPPSFIEERQEHSDFHL 615 (677)
Q Consensus 587 ~~~y~c~~c~~~~~~~~~~~~~eh~d~h~ 615 (677)
+-||.|+.||..+.-+ .--+.|--.|.
T Consensus 3 ~~~y~C~~CGK~Fs~~--~~L~~H~r~H~ 29 (55)
T PHA02768 3 LLGYECPICGEIYIKR--KSMITHLRKHN 29 (55)
T ss_pred ccccCcchhCCeeccH--HHHHHHHHhcC
Confidence 4589999999999854 22345555554
No 59
>COG3377 Uncharacterized conserved protein [Function unknown]
Probab=46.88 E-value=7.3 Score=34.43 Aligned_cols=27 Identities=22% Similarity=0.279 Sum_probs=23.8
Q ss_pred CeEEecCHHHHHcCCCCCCcHHHHHHh
Q 005785 138 SMICTANYEARRFGVRAAMPGFIARKL 164 (677)
Q Consensus 138 ~~V~taNY~ARk~GVr~GMp~~~AkkL 164 (677)
.-|+.+.++|-+.||+.||.+.+|+..
T Consensus 68 A~i~evT~~Ae~lGI~~Gm~~r~aL~k 94 (95)
T COG3377 68 APIVEVTSAAEELGIKRGMKGREALEK 94 (95)
T ss_pred chHHHHHHHHHHhCCCccchHHHHHhc
Confidence 567789999999999999999999753
No 60
>cd07556 Nucleotidyl_cyc_III Class III nucleotidyl cyclases. Class III nucleotidyl cyclases are the largest, most diverse group of nucleotidyl cyclases (NC's) containing prokaryotic and eukaryotic proteins. They can be divided into two major groups; the mononucleotidyl cyclases (MNC's) and the diguanylate cyclases (DGC's). The MNC's, which include the adenylate cyclases (AC's) and the guanylate cyclases (GC's), have a conserved cyclase homology domain (CHD), while the DGC's have a conserved GGDEF domain, named after a conserved motif within this subgroup. Their products, cyclic guanylyl and adenylyl nucleotides, are second messengers that play important roles in eukaryotic signal transduction and prokaryotic sensory pathways.
Probab=45.91 E-value=1.8e+02 Score=25.53 Aligned_cols=63 Identities=11% Similarity=0.043 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHh-----CCeeEEEecCC
Q 005785 180 YYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEA-----GLTCSAGVAPN 245 (677)
Q Consensus 180 ~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~t-----Glt~S~GIA~N 245 (677)
.+...+..++..|...+..++-|+..+=+.+... .....++.+|++.+.... ++++++|++..
T Consensus 30 ~~~~~l~~~~~~~~~~~~r~~~d~f~~l~~~~~~---~~~~~~~~~i~~~~~~~~~~~~~~~~~~ig~~~g 97 (133)
T cd07556 30 ELAGRFDSLIRRSGDLKIKTIGDEFMVVSGLDHP---AAAVAFAEDMREAVSALNQSEGNPVRVRIGIHTG 97 (133)
T ss_pred HHHHHHHHHHHHcCcEEEEeecceEEEEECchHH---HHHHHHHHHHHHHHHHHHhccCCceEEEEEEecc
Confidence 3344555555565555677788887766653111 135667888888774322 46777777644
No 61
>smart00611 SEC63 Domain of unknown function in Sec63p, Brr2p and other proteins.
Probab=45.60 E-value=25 Score=37.50 Aligned_cols=41 Identities=10% Similarity=0.109 Sum_probs=34.4
Q ss_pred cCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcC
Q 005785 277 SLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFS 318 (677)
Q Consensus 277 ~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG 318 (677)
..|+..||+||+...++|.+ .||.+++||..++ ..+...+|
T Consensus 150 ~~~L~Qlp~i~~~~~~~l~~-~~i~s~~~l~~~~~~~~~~ll~ 191 (312)
T smart00611 150 DSPLLQLPHLPEEILKRLEK-KKVLSLEDLLELEDEERGELLG 191 (312)
T ss_pred CCccccCCCCCHHHHHHHHh-CCCCCHHHHHhcCHHHHHHHHc
Confidence 46899999999999999997 8999999999986 55555444
No 62
>PRK12311 rpsB 30S ribosomal protein S2/unknown domain fusion protein; Provisional
Probab=45.35 E-value=15 Score=40.04 Aligned_cols=30 Identities=23% Similarity=0.401 Sum_probs=27.7
Q ss_pred CccccCCCHHHHHHHHhhcCCCcHHHHHhch
Q 005785 280 IRKIGGIGKVTEHILRDVFGINTCEEMLQKG 310 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~ 310 (677)
+.+|.|||++.++.|+. +||.+..||++..
T Consensus 265 L~~I~GiGp~~e~~L~~-~Gi~~f~QiA~~t 294 (326)
T PRK12311 265 LKKLTGVSPQIEKKLND-LGIFHFWQLAELD 294 (326)
T ss_pred hhhhccCChhhhhhhhh-cCCCCHHHhhCCC
Confidence 67889999999999997 9999999998875
No 63
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.18 E-value=8.6 Score=41.12 Aligned_cols=19 Identities=47% Similarity=1.079 Sum_probs=17.4
Q ss_pred cccccccc--cccccCCCCCC
Q 005785 583 QFIWLDDY--KCSLCGTEMPP 601 (677)
Q Consensus 583 ~~~~~~~y--~c~~c~~~~~~ 601 (677)
..-|+.|| +|..|..++||
T Consensus 353 v~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 353 VDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred HHHHHhhhcccCCccCCCCCC
Confidence 45799999 89999999998
No 64
>PRK12278 50S ribosomal protein L21/unknown domain fusion protein; Provisional
Probab=44.52 E-value=20 Score=36.98 Aligned_cols=31 Identities=23% Similarity=0.401 Sum_probs=28.2
Q ss_pred CCccccCCCHHHHHHHHhhcCCCcHHHHHhch
Q 005785 279 PIRKIGGIGKVTEHILRDVFGINTCEEMLQKG 310 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~ 310 (677)
.+.+|.|||+..++.|+. .||.|..||+...
T Consensus 159 DL~~I~GIGp~~a~~L~e-aGi~tfaQIAa~t 189 (221)
T PRK12278 159 DLTKITGVGPALAKKLNE-AGVTTFAQIAALT 189 (221)
T ss_pred hheeccccChHHHHHHHH-cCCCCHHHhhCCC
Confidence 378899999999999997 9999999998875
No 65
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=43.98 E-value=29 Score=41.53 Aligned_cols=46 Identities=17% Similarity=0.181 Sum_probs=35.7
Q ss_pred ccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHH--hcChhHHHHHH
Q 005785 281 RKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCA--VFSHSTADFFL 326 (677)
Q Consensus 281 ~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~--rFG~~~~~~L~ 326 (677)
-+|+|+|+++.++|-+..+|+++.||+.+. ..|.. .||++....++
T Consensus 435 l~I~GLG~k~i~~L~~~g~I~~~~Dl~~L~~~~L~~L~GfG~Ksa~nIl 483 (652)
T TIGR00575 435 MDIEGLGDKVIEQLFEKKLVRSVADLYALKKEDLLELEGFGEKSAQNLL 483 (652)
T ss_pred cCCCCcCHHHHHHHHHcCCcCCHHHHHhcCHHHHhhccCccHHHHHHHH
Confidence 458899999999998756789999999886 45543 57877766554
No 66
>PTZ00035 Rad51 protein; Provisional
Probab=41.55 E-value=24 Score=38.61 Aligned_cols=41 Identities=27% Similarity=0.359 Sum_probs=35.0
Q ss_pred CCCccc--cCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcCh
Q 005785 278 LPIRKI--GGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSH 319 (677)
Q Consensus 278 LPV~kL--pGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~ 319 (677)
.+|.+| +||++.+..+|++ -||+|+.||+..+ ..|.+..|-
T Consensus 21 ~~~~~l~~~g~~~~~~~kL~~-~g~~t~~~~~~~~~~~L~~~~gi 64 (337)
T PTZ00035 21 QEIEKLQSAGINAADIKKLKE-AGICTVESVAYATKKDLCNIKGI 64 (337)
T ss_pred ccHHHHhcCCCCHHHHHHHHH-cCCCcHHHHHhCCHHHHHHhhCC
Confidence 367777 7899999999997 8999999999986 788877774
No 67
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=39.05 E-value=1e+02 Score=32.37 Aligned_cols=90 Identities=16% Similarity=0.030 Sum_probs=60.0
Q ss_pred cHHHHHHhCCCcEEeCCChHHHHHHHHHHHHHHHhcCCce----------EEeccCceEEecchhhhhcCCCHHHHHHHH
Q 005785 157 PGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNF----------MAASLDEAYLDITEVCRERGISGIEIAEEL 226 (677)
Q Consensus 157 p~~~AkkLCP~Lvvvp~d~~~Y~~~s~~i~~il~~y~p~v----------e~~SiDEa~LDlT~~~~~~g~~~~~la~~I 226 (677)
|...|+.||-. ..-|+..-+...++..++++...+.+ --++||+.-.+= ++..++..++..-|++|
T Consensus 56 Ps~~A~~La~~---~~kDpr~~e~il~Es~~vv~~~~~~~i~~~~~G~v~anAGID~SN~~~-g~v~LLP~DPd~sA~~i 131 (243)
T TIGR01916 56 PSPEALEIAAR---TGKDPRFVQAILDEAVEVVAVGTPFLITETRHGHVCANAGIDESNVGN-GELLLLPEDPDASAEKI 131 (243)
T ss_pred cCHHHHHHHHH---hCCChHHHHHHHHHHHHHHhccCCeEEEEecCceEEeccccccccCCC-CeEEecCCChHHHHHHH
Confidence 55666666554 35566666667777777775433322 125666654432 24445666899999999
Q ss_pred HHHHHHHhCCeeEEEecCCHHHHH
Q 005785 227 RTSVYEEAGLTCSAGVAPNRLLAK 250 (677)
Q Consensus 227 R~~I~~~tGlt~S~GIA~NklLAK 250 (677)
|++|.+.+|..+.+=|..+..-+|
T Consensus 132 r~~l~~~~g~~v~VIItDt~gr~~ 155 (243)
T TIGR01916 132 RRGLRELTGVDVGVIITDTNGRPF 155 (243)
T ss_pred HHHHHHHHCCCEEEEEECCCCCcc
Confidence 999999999999998887765443
No 68
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1.
Probab=37.01 E-value=23 Score=23.73 Aligned_cols=17 Identities=29% Similarity=0.477 Sum_probs=14.1
Q ss_pred CccccCCCHHHHHHHHh
Q 005785 280 IRKIGGIGKVTEHILRD 296 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~ 296 (677)
+..+||||+++++.|..
T Consensus 3 L~~i~GiG~k~A~~il~ 19 (26)
T smart00278 3 LLKVPGIGPKTAEKILE 19 (26)
T ss_pred hhhCCCCCHHHHHHHHH
Confidence 45789999999998864
No 69
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=36.89 E-value=32 Score=37.85 Aligned_cols=42 Identities=29% Similarity=0.403 Sum_probs=36.1
Q ss_pred CCCccc--cCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChh
Q 005785 278 LPIRKI--GGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHS 320 (677)
Q Consensus 278 LPV~kL--pGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~ 320 (677)
.+|.+| .||+.....+|++ -||.|+.|++..+ ..|.+.+|-.
T Consensus 26 ~~~~~l~~~gi~~~~i~kL~~-~g~~T~~~~~~~~~~~L~~i~~is 70 (342)
T PLN03186 26 FPIEQLQASGIAALDIKKLKD-AGIHTVESLAYAPKKDLLQIKGIS 70 (342)
T ss_pred ccHHHHHhCCCCHHHHHHHHH-cCCCcHHHHHhCCHHHHHHhcCCC
Confidence 478888 5799999999996 8999999999986 7888888854
No 70
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=36.73 E-value=57 Score=39.55 Aligned_cols=48 Identities=23% Similarity=0.424 Sum_probs=36.4
Q ss_pred ecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhchHHHH
Q 005785 264 LPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKGSLLC 314 (677)
Q Consensus 264 l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~~~L~ 314 (677)
+|.+.+.+..||+. ..++|||++++++|-+.+|..++.-|.+-|..|.
T Consensus 73 ~p~~~~~i~~yL~s---~~~~GIG~~~A~~iv~~fg~~~~~~i~~~~~~L~ 120 (720)
T TIGR01448 73 APTSKEGIVAYLSS---RSIKGVGKKLAQRIVKTFGEAAFDVLDDDPEKLL 120 (720)
T ss_pred CCCCHHHHHHHHhc---CCCCCcCHHHHHHHHHHhCHhHHHHHHhCHHHHh
Confidence 55666678889883 3488999999999977799888887766554444
No 71
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=36.35 E-value=33 Score=37.75 Aligned_cols=42 Identities=26% Similarity=0.336 Sum_probs=35.3
Q ss_pred cCCCccc--cCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcCh
Q 005785 277 SLPIRKI--GGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSH 319 (677)
Q Consensus 277 ~LPV~kL--pGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~ 319 (677)
..+|.+| .||++.+.++|+. -||+|+.||+..+ ..|.+.-|-
T Consensus 28 ~~~~~~l~~~g~~~~~~~kL~~-~g~~tv~~~~~~~~~~L~~~~g~ 72 (344)
T PLN03187 28 FESIDKLISQGINAGDVKKLQD-AGIYTCNGLMMHTKKNLTGIKGL 72 (344)
T ss_pred ccCHHHHhhCCCCHHHHHHHHH-cCCCcHHHHHhCCHHHHHHhcCC
Confidence 5567777 5799999999997 8999999999886 778777663
No 72
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=36.31 E-value=44 Score=40.26 Aligned_cols=46 Identities=17% Similarity=0.234 Sum_probs=35.3
Q ss_pred ccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHH--hcChhHHHHHH
Q 005785 281 RKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCA--VFSHSTADFFL 326 (677)
Q Consensus 281 ~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~--rFG~~~~~~L~ 326 (677)
=+|.|+|+++.++|-+..+|+++.||+.+. ..|.. .||++....|+
T Consensus 465 l~I~GLG~k~i~~L~~~g~V~~~~Dl~~L~~~~L~~l~g~g~Ksa~~Ll 513 (689)
T PRK14351 465 LDIEGLGEERVQQLVDAGLVESLADLYDLTVADLAELEGWGETSAENLL 513 (689)
T ss_pred cCCCCcCHHHHHHHHHcCCCCCHHHHHHcCHHHHhcCcCcchhHHHHHH
Confidence 357899999999998744589999999986 45554 47887766553
No 73
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=35.82 E-value=40 Score=36.61 Aligned_cols=35 Identities=23% Similarity=0.246 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChh
Q 005785 285 GIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHS 320 (677)
Q Consensus 285 GIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~ 320 (677)
||++.+..+|++ -||.|+.||+... ..|.+.+|-.
T Consensus 8 ~~~~~~~~~l~~-~g~~t~~~~~~~~~~~L~~i~~ls 43 (316)
T TIGR02239 8 GITAADIKKLQE-AGLHTVESVAYAPKKQLLEIKGIS 43 (316)
T ss_pred CCCHHHHHHHHH-cCCCcHHHHHhCCHHHHHHHhCCC
Confidence 599999999996 8999999999985 7888888753
No 74
>COG2199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]
Probab=35.80 E-value=94 Score=29.83 Aligned_cols=62 Identities=18% Similarity=0.050 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhcCC---ceEEeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHh-------CCeeEEEecCC
Q 005785 181 YSDLTRKVFCKYDP---NFMAASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEA-------GLTCSAGVAPN 245 (677)
Q Consensus 181 ~s~~i~~il~~y~p---~ve~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~t-------Glt~S~GIA~N 245 (677)
+...+..+|....+ .+-.++=||..+=+.+... .....+++.|+..|.... .+|+|+||+..
T Consensus 77 vL~~va~~L~~~~~~~~~~~R~gGdEF~i~l~~~~~---~~~~~~~~~l~~~~~~~~~~~~~~~~~t~siGi~~~ 148 (181)
T COG2199 77 VLREVARRLRSNLREGDLVARLGGDEFAVLLPGTSL---EEAARLAERIRAALEEPFFLGGEELRVTVSIGVALY 148 (181)
T ss_pred HHHHHHHHHHHhcCCCCEEEEeccceeEEEeCCCCH---HHHHHHHHHHHHHHHcccccCCceEEEEEEEEEEec
Confidence 33445555554433 4667888888777665431 146778888888875543 37999998843
No 75
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=34.25 E-value=55 Score=38.52 Aligned_cols=50 Identities=22% Similarity=0.244 Sum_probs=37.7
Q ss_pred cCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHh-cChhHHHHHHHh
Q 005785 277 SLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAV-FSHSTADFFLSV 328 (677)
Q Consensus 277 ~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~r-FG~~~~~~L~~~ 328 (677)
.-++..|||||+++...|-+ -..|+..|.+.. .+|.+. .+...+.-++..
T Consensus 513 ~S~Ld~I~GiG~kr~~~Ll~--~Fgs~~~ik~As~eeL~~vgi~~~~A~~I~~~ 564 (567)
T PRK14667 513 KDILDKIKGIGEVKKEIIYR--NFKTLYDFLKADDEELKKLGIPPSVKQEVKKY 564 (567)
T ss_pred cCccccCCCCCHHHHHHHHH--HhCCHHHHHhCCHHHHHHcCCCHHHHHHHHHH
Confidence 35788999999999998875 456888888876 788887 556666655544
No 76
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=33.91 E-value=46 Score=36.10 Aligned_cols=35 Identities=23% Similarity=0.342 Sum_probs=30.3
Q ss_pred cCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcCh
Q 005785 284 GGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSH 319 (677)
Q Consensus 284 pGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~ 319 (677)
.||++.+.++|++ -||+|+.|++..+ ..|.+..|-
T Consensus 7 ~g~~~~~~~~L~~-~g~~t~~~~~~~~~~~L~~~~gl 42 (313)
T TIGR02238 7 HGINAADIKKLKS-AGICTVNGVIMTTRRALCKIKGL 42 (313)
T ss_pred CCCCHHHHHHHHH-cCCCcHHHHHhCCHHHHHHhcCC
Confidence 4799999999997 8999999999986 788877763
No 77
>COG1734 DksA DnaK suppressor protein [Signal transduction mechanisms]
Probab=33.33 E-value=20 Score=33.57 Aligned_cols=12 Identities=42% Similarity=1.171 Sum_probs=10.7
Q ss_pred cc-cccccCCCCC
Q 005785 589 DY-KCSLCGTEMP 600 (677)
Q Consensus 589 ~y-~c~~c~~~~~ 600 (677)
+| +|.-||.++|
T Consensus 79 tYG~Ce~cG~~Ip 91 (120)
T COG1734 79 TYGICEECGEPIP 91 (120)
T ss_pred CccchhccCCcCC
Confidence 56 8999999999
No 78
>PRK12373 NADH dehydrogenase subunit E; Provisional
Probab=31.92 E-value=39 Score=37.90 Aligned_cols=30 Identities=27% Similarity=0.463 Sum_probs=27.7
Q ss_pred CccccCCCHHHHHHHHhhcCCCcHHHHHhch
Q 005785 280 IRKIGGIGKVTEHILRDVFGINTCEEMLQKG 310 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~ 310 (677)
+.+|.|||++.++.|+. +||.+..||+...
T Consensus 325 Lk~I~GIGpk~e~~Ln~-~Gi~~f~QIA~wt 354 (400)
T PRK12373 325 LKLISGVGPKIEATLNE-LGIFTFDQVAAWK 354 (400)
T ss_pred hhhccCCChHHHHHHHh-cCCCCHHHHhCCC
Confidence 67789999999999997 9999999998875
No 79
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=31.32 E-value=13 Score=23.60 Aligned_cols=12 Identities=42% Similarity=1.290 Sum_probs=10.6
Q ss_pred ccccccCCCCCC
Q 005785 590 YKCSLCGTEMPP 601 (677)
Q Consensus 590 y~c~~c~~~~~~ 601 (677)
|+|..||..++.
T Consensus 1 y~C~~C~~~f~~ 12 (23)
T PF00096_consen 1 YKCPICGKSFSS 12 (23)
T ss_dssp EEETTTTEEESS
T ss_pred CCCCCCCCccCC
Confidence 789999999884
No 80
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=30.76 E-value=26 Score=38.08 Aligned_cols=32 Identities=28% Similarity=0.399 Sum_probs=27.3
Q ss_pred CCccccCCCHHHHHHHHhhcCCCcHHHHHhch
Q 005785 279 PIRKIGGIGKVTEHILRDVFGINTCEEMLQKG 310 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~ 310 (677)
|+-++||+|++....|-..+||+++.+|....
T Consensus 94 ~Ll~v~GlGpkKi~~Ly~elgi~~~e~l~~a~ 125 (326)
T COG1796 94 PLLKVPGLGPKKIVSLYKELGIKDLEELQEAL 125 (326)
T ss_pred HHhhCCCCCcHHHHHHHHHHCcccHHHHHHHH
Confidence 57789999998888887779999999998765
No 81
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=29.40 E-value=5e+02 Score=30.83 Aligned_cols=130 Identities=18% Similarity=0.214 Sum_probs=72.2
Q ss_pred HHHHHHHHHHHHHHHhcCCceE-EeccCceEEecchhhhhcCCCHHHHHHHHHHHHHHHhCCee-EEEecCCHHHHHHHh
Q 005785 176 TKYTYYSDLTRKVFCKYDPNFM-AASLDEAYLDITEVCRERGISGIEIAEELRTSVYEEAGLTC-SAGVAPNRLLAKVCS 253 (677)
Q Consensus 176 ~~Y~~~s~~i~~il~~y~p~ve-~~SiDEa~LDlT~~~~~~g~~~~~la~~IR~~I~~~tGlt~-S~GIA~NklLAKLaS 253 (677)
+.|..+.+.+.+.+.++...-. ..-+|=..+| | +..++-. ..+.+ +++|+.+ -+|+|-+. -
T Consensus 418 dD~~~m~Evl~RR~~r~~~~~~~~~~PDLiliD--------G-G~gQl~a-a~~~l-~elg~~i~v~glaK~~------e 480 (577)
T PRK14668 418 DDYANMRELVRWRAERAVEGRDDRPDPDLLLID--------G-GDGQLGA-ARDAL-AETGWDVPAIALAKAE------E 480 (577)
T ss_pred ChHHHHHHHHHHHHHhhhccccCCCCCCEEEEe--------C-CHHHHHH-HHHHH-HHcCCCCcEEEEEcCC------e
Confidence 4455555555555554422100 0124655555 2 2333322 22333 6778744 67887754 1
Q ss_pred cccCCCCeEEecCChh---------------------HHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-H
Q 005785 254 DINKPNGQFVLPNDRM---------------------AVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-S 311 (677)
Q Consensus 254 ~~~KPnGq~~l~~~~~---------------------~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~ 311 (677)
.+-.|++...++.+.. .... ...+.+..+||||+++...|-+ -..++.+++..+ .
T Consensus 481 ~i~~~~~~~~l~~~~~~l~lL~~irDEaHRFAi~~hR~~r~-~~~~~L~~IpGIG~kr~~~LL~--~FGS~~~I~~As~e 557 (577)
T PRK14668 481 LVVTPDRTYDWPDDAPQLHLLQRVRDEAHRFAVQYHQTLRD-DVSTVLDDVPGVGPETRKRLLR--RFGSVEGVREASVE 557 (577)
T ss_pred EEEcCCCeeecCCCCHHHHHHHHHHHHHHHHHhhHHHHHHH-HHHhHHhcCCCCCHHHHHHHHH--HcCCHHHHHhCCHH
Confidence 2344665544554321 1111 1346788999999999998875 456888888886 6
Q ss_pred HHHHh--cChhHHHHH
Q 005785 312 LLCAV--FSHSTADFF 325 (677)
Q Consensus 312 ~L~~r--FG~~~~~~L 325 (677)
+|... +|...+..+
T Consensus 558 eL~~vpGi~~~~A~~I 573 (577)
T PRK14668 558 DLRDVPGVGEKTAETI 573 (577)
T ss_pred HHHhCCCCCHHHHHHH
Confidence 77776 555554444
No 82
>PRK03922 hypothetical protein; Provisional
Probab=28.41 E-value=22 Score=32.56 Aligned_cols=42 Identities=33% Similarity=0.591 Sum_probs=31.9
Q ss_pred ccccccccCCCCCCChh-----------------hhhhccchhHHHHHhhhhcccCcccccccc
Q 005785 588 DDYKCSLCGTEMPPSFI-----------------EERQEHSDFHLAERLQKEESGSDLRILTHR 634 (677)
Q Consensus 588 ~~y~c~~c~~~~~~~~~-----------------~~~~eh~d~h~a~~~~~~~~~~~~~~~~~~ 634 (677)
....|.-||.+|+|-|+ .|+.|| |+|+-|-|-+...+.+|-+
T Consensus 48 G~~~cP~cge~~~~afvvA~taLVgL~lemkVFnAes~EH-----A~RIAK~eIG~aL~dvPL~ 106 (113)
T PRK03922 48 GLTICPKCGEPFDSAFVVADTALVGLLLEMKVFNAESEEH-----ASRIAKSEIGKALRDIPLE 106 (113)
T ss_pred CcccCCCCCCcCCcEEEEeccceEEEEEEEEEeecCCHHH-----HHHHHHHHHhhHHhcCCce
Confidence 34589999999999875 677787 6788877766666666654
No 83
>KOG1478 consensus 3-keto sterol reductase [Lipid transport and metabolism]
Probab=27.93 E-value=1.8e+02 Score=31.05 Aligned_cols=93 Identities=13% Similarity=0.235 Sum_probs=61.8
Q ss_pred CCCCCCcHHHHHHhCCC--------cEEeCCChHHHHHHHHHHHHHHHhcCCceEEeccCceEEecchhhhhcCCCHHHH
Q 005785 151 GVRAAMPGFIARKLCPE--------LIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYLDITEVCRERGISGIEI 222 (677)
Q Consensus 151 GVr~GMp~~~AkkLCP~--------Lvvvp~d~~~Y~~~s~~i~~il~~y~p~ve~~SiDEa~LDlT~~~~~~g~~~~~l 222 (677)
|-.+|..+.++++|.-. +++--.++.+-+++- ..+..|-|.-+ .-+|=..+|+|++.. ....
T Consensus 10 GanSglGl~i~~RLl~~~De~~~ltl~ltcR~~~kae~vc----~~lk~f~p~~~-i~~~yvlvD~sNm~S-----v~~A 79 (341)
T KOG1478|consen 10 GANSGLGLAICKRLLAEDDENVRLTLCLTCRNMSKAEAVC----AALKAFHPKST-IEVTYVLVDVSNMQS-----VFRA 79 (341)
T ss_pred cCCCcccHHHHHHHHhccCCceeEEEEEEeCChhHHHHHH----HHHHHhCCCce-eEEEEEEEehhhHHH-----HHHH
Confidence 55678888999988742 344456666555443 33444545321 234557889998864 4556
Q ss_pred HHHHHHHHHHHhC-CeeEEEecCCHHHHHHHhc
Q 005785 223 AEELRTSVYEEAG-LTCSAGVAPNRLLAKVCSD 254 (677)
Q Consensus 223 a~~IR~~I~~~tG-lt~S~GIA~NklLAKLaS~ 254 (677)
..+|.++- +++. +-.-+||.+|+-+-|+++-
T Consensus 80 ~~di~~rf-~~ld~iylNAg~~~~~gi~w~~av 111 (341)
T KOG1478|consen 80 SKDIKQRF-QRLDYIYLNAGIMPNPGINWKAAV 111 (341)
T ss_pred HHHHHHHh-hhccEEEEccccCCCCcccHHHHH
Confidence 67777774 6665 5789999999998888764
No 84
>PRK05182 DNA-directed RNA polymerase subunit alpha; Provisional
Probab=27.79 E-value=64 Score=35.02 Aligned_cols=50 Identities=20% Similarity=0.269 Sum_probs=39.3
Q ss_pred hhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHH--HhcChhHHHHHH
Q 005785 275 ISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLC--AVFSHSTADFFL 326 (677)
Q Consensus 275 L~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~--~rFG~~~~~~L~ 326 (677)
+-.+||..| ++.-.+...|++ .||+|++||.++. ..|. +-||+++.+-+.
T Consensus 246 ~l~~~I~~L-~LS~R~~n~Lk~-~~I~ti~dL~~~~~~~l~~~~n~G~ksl~ei~ 298 (310)
T PRK05182 246 ILLRPIEEL-ELSVRSYNCLKR-AGINTIGDLVQRTEEELLKTRNLGKKSLEEIK 298 (310)
T ss_pred cccccHHHh-ccchHHHHHHHH-cCCcCHHHHHhCCHHHHhcCCCCChhhHHHHH
Confidence 346789988 799999999997 8999999999986 4443 467877665543
No 85
>TIGR02027 rpoA DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type. This family consists of the bacterial (and chloroplast) DNA-directed RNA polymerase alpha subunit, encoded by the rpoA gene. The RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. The amino terminal domain is involved in dimerizing and assembling the other RNA polymerase subunits into a transcriptionally active enzyme. The carboxy-terminal domain contains determinants for interaction with DNA and with transcriptional activator proteins.
Probab=27.47 E-value=66 Score=34.70 Aligned_cols=50 Identities=20% Similarity=0.274 Sum_probs=39.4
Q ss_pred hhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHH--HhcChhHHHHHH
Q 005785 275 ISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLC--AVFSHSTADFFL 326 (677)
Q Consensus 275 L~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~--~rFG~~~~~~L~ 326 (677)
+-.+||..| ++.-.+..-|++ .||+|++||.++. ..|. +-||+++.+-+.
T Consensus 232 ~~~~~I~~L-~LSvR~~n~Lk~-~~I~ti~dL~~~~~~~l~~~~n~G~ksl~ei~ 284 (297)
T TIGR02027 232 LLSIKIEEL-DLSVRSYNCLKR-AGIHTLGELVSKSEEELLKIKNFGKKSLTEIK 284 (297)
T ss_pred hccccHHHh-CccHHHHhHHHH-cCCcCHHHHHhCCHHHHhhCCCCChhhHHHHH
Confidence 456788888 788899999997 8999999999986 4443 568887766553
No 86
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=27.17 E-value=66 Score=32.34 Aligned_cols=49 Identities=12% Similarity=0.129 Sum_probs=32.2
Q ss_pred CCccccCCCHHHHHHHHhhcCCCcHHH-HHhc-hHHHHHh--cChhHHHHHHH
Q 005785 279 PIRKIGGIGKVTEHILRDVFGINTCEE-MLQK-GSLLCAV--FSHSTADFFLS 327 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L~~~lGI~T~gD-L~~~-~~~L~~r--FG~~~~~~L~~ 327 (677)
.+..+||||++++..+-+.+|..++-+ +.+. +..|.+. +|++.++.+..
T Consensus 74 ~L~~i~GIGpk~A~~il~~fg~~~l~~~i~~~d~~~L~~v~Gig~k~A~~I~~ 126 (192)
T PRK00116 74 LLISVSGVGPKLALAILSGLSPEELVQAIANGDVKALTKVPGIGKKTAERIVL 126 (192)
T ss_pred HHhcCCCCCHHHHHHHHHhCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHH
Confidence 345699999999987655578766543 3333 3566665 66777766643
No 87
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=26.76 E-value=52 Score=35.76 Aligned_cols=32 Identities=25% Similarity=0.253 Sum_probs=27.1
Q ss_pred ccccCCCHHHHHHHHhhcCCCcHHHHHhchHHH
Q 005785 281 RKIGGIGKVTEHILRDVFGINTCEEMLQKGSLL 313 (677)
Q Consensus 281 ~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~~~L 313 (677)
..++|||.+++++-.+ .|++|+.|+...+..+
T Consensus 100 tnifGvG~ktA~~Wy~-~GfrTled~Rk~~~kf 131 (353)
T KOG2534|consen 100 TNIFGVGLKTAEKWYR-EGFRTLEDVRKKPDKF 131 (353)
T ss_pred HHHhccCHHHHHHHHH-hhhhHHHHHHhCHHHH
Confidence 3479999999999987 9999999999766443
No 88
>PF08004 DUF1699: Protein of unknown function (DUF1699); InterPro: IPR012546 This family contains many archaeal proteins which have very conserved sequences.
Probab=26.54 E-value=1.5e+02 Score=28.12 Aligned_cols=36 Identities=17% Similarity=0.162 Sum_probs=30.0
Q ss_pred CCcHHHHHHhCCCcEEeCCChHHHHHHHHHHHHHHH
Q 005785 155 AMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFC 190 (677)
Q Consensus 155 GMp~~~AkkLCP~Lvvvp~d~~~Y~~~s~~i~~il~ 190 (677)
.+-+|...+.||+|.++..-..-|+.+|..+...|.
T Consensus 30 N~Dif~Lv~~CP~lk~iqiP~SY~~t~Sksi~mfL~ 65 (131)
T PF08004_consen 30 NKDIFSLVERCPNLKAIQIPPSYYKTLSKSIKMFLE 65 (131)
T ss_pred chHHHHHHHhCCCCeEEeCChHHHHHHhHHHHHHHH
Confidence 345788899999999998888888899988877775
No 89
>TIGR02420 dksA RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage.
Probab=26.12 E-value=31 Score=31.48 Aligned_cols=10 Identities=40% Similarity=0.976 Sum_probs=9.1
Q ss_pred cccccCCCCC
Q 005785 591 KCSLCGTEMP 600 (677)
Q Consensus 591 ~c~~c~~~~~ 600 (677)
+|..||.++|
T Consensus 82 ~C~~Cge~I~ 91 (110)
T TIGR02420 82 YCEECGEEIG 91 (110)
T ss_pred chhccCCccc
Confidence 8999999998
No 90
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=25.95 E-value=80 Score=38.85 Aligned_cols=47 Identities=17% Similarity=0.253 Sum_probs=39.2
Q ss_pred CccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcC-hhHHHHHHHh
Q 005785 280 IRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFS-HSTADFFLSV 328 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG-~~~~~~L~~~ 328 (677)
|..|||||++.+..|-. .+.++.+|.... ..|....| ++.+..++..
T Consensus 759 L~~lPgI~~~~a~~ll~--~f~si~~l~~as~eeL~~~iG~~~~A~~i~~f 807 (814)
T TIGR00596 759 LLKLPGVTKKNYRNLRK--KVKSIRELAKLSQNELNELIGDEEAAKRLYDF 807 (814)
T ss_pred HHHCCCCCHHHHHHHHH--HcCCHHHHHhCCHHHHHHHhCCHHHHHHHHHH
Confidence 45688999999999974 789999999997 78888888 7777777655
No 91
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=25.56 E-value=23 Score=36.44 Aligned_cols=26 Identities=27% Similarity=0.572 Sum_probs=0.0
Q ss_pred ccccccCCCCCCChhhhhhccchhHHHHH
Q 005785 590 YKCSLCGTEMPPSFIEERQEHSDFHLAER 618 (677)
Q Consensus 590 y~c~~c~~~~~~~~~~~~~eh~d~h~a~~ 618 (677)
.+|.+||..+| +.+=+||-.+.|---
T Consensus 169 ~~cPitGe~IP---~~e~~eHmRi~LlDP 194 (229)
T PF12230_consen 169 IICPITGEMIP---ADEMDEHMRIELLDP 194 (229)
T ss_dssp -----------------------------
T ss_pred ccccccccccc---ccccccccccccccc
Confidence 59999999999 889999999988643
No 92
>PHA00626 hypothetical protein
Probab=25.33 E-value=32 Score=27.93 Aligned_cols=18 Identities=39% Similarity=0.835 Sum_probs=15.8
Q ss_pred cccccccccccCCCCCCC
Q 005785 585 IWLDDYKCSLCGTEMPPS 602 (677)
Q Consensus 585 ~~~~~y~c~~c~~~~~~~ 602 (677)
-|.+.|+|.-||+.+...
T Consensus 19 ~~snrYkCkdCGY~ft~~ 36 (59)
T PHA00626 19 GWSDDYVCCDCGYNDSKD 36 (59)
T ss_pred ccCcceEcCCCCCeechh
Confidence 578999999999999854
No 93
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=25.14 E-value=1.1e+02 Score=36.63 Aligned_cols=50 Identities=20% Similarity=0.220 Sum_probs=38.3
Q ss_pred CCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcChhHHHHHHHhc
Q 005785 278 LPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADFFLSVG 329 (677)
Q Consensus 278 LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~~~~~~L~~~a 329 (677)
-.+..|||||+++...|-+ -..++..+.+.. .+|.+.+|.+.+..++...
T Consensus 552 S~L~~IpGIG~kr~~~LL~--~FgSi~~I~~As~eeL~~vi~~k~A~~I~~~l 602 (624)
T PRK14669 552 SELLEIPGVGAKTVQRLLK--HFGSLERVRAATETQLAAVVGRAAAEAIIAHF 602 (624)
T ss_pred HHHhcCCCCCHHHHHHHHH--HcCCHHHHHhCCHHHHHHHhCHHHHHHHHHHh
Confidence 4677899999999998865 455788887776 6777778888777776543
No 94
>smart00355 ZnF_C2H2 zinc finger.
Probab=25.13 E-value=31 Score=21.66 Aligned_cols=12 Identities=33% Similarity=1.035 Sum_probs=10.3
Q ss_pred ccccccCCCCCC
Q 005785 590 YKCSLCGTEMPP 601 (677)
Q Consensus 590 y~c~~c~~~~~~ 601 (677)
|.|..||..++.
T Consensus 1 ~~C~~C~~~f~~ 12 (26)
T smart00355 1 YRCPECGKVFKS 12 (26)
T ss_pred CCCCCCcchhCC
Confidence 789999998873
No 95
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=24.72 E-value=38 Score=22.68 Aligned_cols=16 Identities=13% Similarity=0.368 Sum_probs=12.7
Q ss_pred ccccccCCCCCCChhh
Q 005785 590 YKCSLCGTEMPPSFIE 605 (677)
Q Consensus 590 y~c~~c~~~~~~~~~~ 605 (677)
|+|.+|+..+...-.+
T Consensus 2 ~~C~~C~k~f~~~~~~ 17 (27)
T PF12171_consen 2 FYCDACDKYFSSENQL 17 (27)
T ss_dssp CBBTTTTBBBSSHHHH
T ss_pred CCcccCCCCcCCHHHH
Confidence 7999999998865443
No 96
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.07 E-value=39 Score=34.29 Aligned_cols=16 Identities=31% Similarity=0.594 Sum_probs=14.4
Q ss_pred CccccCCCHHHHHHHH
Q 005785 280 IRKIGGIGKVTEHILR 295 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~ 295 (677)
+++|||||++++++|.
T Consensus 13 l~~LPGIG~KsA~RlA 28 (195)
T TIGR00615 13 LKKLPGIGPKSAQRLA 28 (195)
T ss_pred HHHCCCCCHHHHHHHH
Confidence 5789999999999996
No 97
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=23.74 E-value=29 Score=25.66 Aligned_cols=11 Identities=45% Similarity=1.056 Sum_probs=6.1
Q ss_pred ccccccccCCC
Q 005785 588 DDYKCSLCGTE 598 (677)
Q Consensus 588 ~~y~c~~c~~~ 598 (677)
.-|+|..||--
T Consensus 5 ~~YkC~~CGni 15 (36)
T PF06397_consen 5 EFYKCEHCGNI 15 (36)
T ss_dssp EEEE-TTT--E
T ss_pred cEEEccCCCCE
Confidence 35999999964
No 98
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.72 E-value=41 Score=33.75 Aligned_cols=16 Identities=25% Similarity=0.526 Sum_probs=13.8
Q ss_pred CccccCCCHHHHHHHH
Q 005785 280 IRKIGGIGKVTEHILR 295 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~ 295 (677)
+.++||||++|++++-
T Consensus 110 L~~vpGIGkKtAeRIi 125 (183)
T PRK14601 110 LKKVPGIGPKSAKRII 125 (183)
T ss_pred HhhCCCCCHHHHHHHH
Confidence 6778999999999863
No 99
>PRK00076 recR recombination protein RecR; Reviewed
Probab=23.46 E-value=40 Score=34.20 Aligned_cols=16 Identities=38% Similarity=0.636 Sum_probs=14.4
Q ss_pred CccccCCCHHHHHHHH
Q 005785 280 IRKIGGIGKVTEHILR 295 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~ 295 (677)
+++|||||++++++|.
T Consensus 13 l~~LPGIG~KsA~Rla 28 (196)
T PRK00076 13 LRKLPGIGPKSAQRLA 28 (196)
T ss_pred HHHCCCCCHHHHHHHH
Confidence 5779999999999996
No 100
>TIGR00532 HMG_CoA_R_NAD hydroxymethylglutaryl-CoA reductase, degradative. Most known examples of hydroxymethylglutaryl-CoA reductase are NADP-dependent (EC 1.1.1.34) from eukaryotes and archaea, involved in the biosynthesis of mevalonate from 3-hydroxy-3-methylglutaryl-CoA. This model, in contrast, is built from the two examples in completed genomes of sequences closely related to the degradative, NAD-dependent hydroxymethylglutaryl-CoA reductase of Pseudomonas mevalonii, a bacterium that can use mevalonate as its sole carbon source.
Probab=22.03 E-value=90 Score=35.10 Aligned_cols=21 Identities=29% Similarity=0.475 Sum_probs=17.5
Q ss_pred CcEEEecCCeEEecCHHHHHc
Q 005785 130 KPMAVGTMSMICTANYEARRF 150 (677)
Q Consensus 130 kPvAV~~~~~V~taNY~ARk~ 150 (677)
.|||....++|.++|.-||..
T Consensus 85 VPMATeE~svVAs~srGak~~ 105 (393)
T TIGR00532 85 IPIAIEEPSVVAAANFAAKIA 105 (393)
T ss_pred EEeeeccccHHHHHHHHHHHH
Confidence 388888788999999999865
No 101
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.01 E-value=35 Score=31.06 Aligned_cols=42 Identities=33% Similarity=0.649 Sum_probs=33.4
Q ss_pred ccccccccCCCCCCChh-----------------hhhhccchhHHHHHhhhhcccCcccccccc
Q 005785 588 DDYKCSLCGTEMPPSFI-----------------EERQEHSDFHLAERLQKEESGSDLRILTHR 634 (677)
Q Consensus 588 ~~y~c~~c~~~~~~~~~-----------------~~~~eh~d~h~a~~~~~~~~~~~~~~~~~~ 634 (677)
-.+.|.-||..+-+-|+ .|+.|| |+|+-|-|-+...+.+|-+
T Consensus 48 G~t~CP~Cg~~~e~~fvva~~aLVgl~l~mkVFNaes~EH-----A~RIAK~eIGk~L~~iPL~ 106 (115)
T COG1885 48 GSTSCPKCGEPFESAFVVANTALVGLILSMKVFNAESDEH-----AERIAKAEIGKALKDIPLE 106 (115)
T ss_pred ccccCCCCCCccceeEEEecceeEEEEEEEEEecCCCHHH-----HHHHHHHHHhhHhhcCCce
Confidence 35699999999998876 467777 8899888877777777765
No 102
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=21.75 E-value=47 Score=33.40 Aligned_cols=16 Identities=31% Similarity=0.434 Sum_probs=14.0
Q ss_pred CccccCCCHHHHHHHH
Q 005785 280 IRKIGGIGKVTEHILR 295 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~ 295 (677)
+.++||||++|++++-
T Consensus 110 L~~vpGIGkKtAerIi 125 (188)
T PRK14606 110 LSKLPGISKKTAERIV 125 (188)
T ss_pred HhhCCCCCHHHHHHHH
Confidence 6788999999999873
No 103
>PRK05626 rpsO 30S ribosomal protein S15; Reviewed
Probab=21.68 E-value=2.7e+02 Score=24.70 Aligned_cols=43 Identities=19% Similarity=0.313 Sum_probs=36.7
Q ss_pred cCHHHHHHHHHHhcCCCccchhHHHHHHHHHHHHHHHHHHHHh
Q 005785 35 VDKEKVQKVVYEMSKGSKYFENEERKEAFIQQKIEHMRARCAK 77 (677)
Q Consensus 35 ~d~~~i~~ii~~~skgs~~~~~e~~~~~~~~~ri~~~~~~~~~ 77 (677)
+++++..+||.+...+..=.-..+-.-+.++.||..|.+.+..
T Consensus 3 ~~~~~k~~li~~f~~~~~DTGS~eVQiA~LT~rI~~L~~Hlk~ 45 (89)
T PRK05626 3 LTKEKKAEIIKEYGRHEGDTGSPEVQVALLTERINHLTEHLKE 45 (89)
T ss_pred CCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999987766666778889999999999888865
No 104
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=21.68 E-value=43 Score=28.01 Aligned_cols=14 Identities=36% Similarity=0.921 Sum_probs=12.4
Q ss_pred cccccccCCCCCCC
Q 005785 589 DYKCSLCGTEMPPS 602 (677)
Q Consensus 589 ~y~c~~c~~~~~~~ 602 (677)
-.+|+-||..++|+
T Consensus 3 ~~~CsFcG~~I~PG 16 (66)
T COG2075 3 VRVCSFCGKKIEPG 16 (66)
T ss_pred eeEecCcCCccCCC
Confidence 35899999999998
No 105
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=21.50 E-value=5.4e+02 Score=30.59 Aligned_cols=122 Identities=16% Similarity=0.125 Sum_probs=66.8
Q ss_pred CCCcEEeCCChHHHHHHHHHHHHHHHhcCCceEEeccCc-eEEecc-hhhhh-cCCCHHHHHHHHHHHHHHHhCCeeEEE
Q 005785 165 CPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDE-AYLDIT-EVCRE-RGISGIEIAEELRTSVYEEAGLTCSAG 241 (677)
Q Consensus 165 CP~Lvvvp~d~~~Y~~~s~~i~~il~~y~p~ve~~SiDE-a~LDlT-~~~~~-~g~~~~~la~~IR~~I~~~tGlt~S~G 241 (677)
.|||+++.---.....+.+.+ .-+.--.|.+..+=-+| .|+.-. ....+ .+...-.+.++||.+++. +.
T Consensus 444 ~Pdli~iDGGkgQl~~a~~vl-~~l~~~~~viglaK~~~~~~~~~~~~~~~l~~~~p~l~~lq~irDEaHr-fA------ 515 (581)
T COG0322 444 LPDLILIDGGKGQLNAAKEVL-KELGLDIPVIGLAKGEEELLLPGPGEEFDLPPNSPALYLLQRIRDEAHR-FA------ 515 (581)
T ss_pred CCCEEEEeCCHHHHHHHHHHH-HHcCCCccEEEEEecCceeEecCCCceecCCCCCHHHHHHHHHHHHHHH-HH------
Confidence 699999988766555554333 22222235444433333 555422 11111 111345788999999843 21
Q ss_pred ecCCHHHHHHHhcccCCCCeEEecCChhHHHHhhhcCCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHhcCh
Q 005785 242 VAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSH 319 (677)
Q Consensus 242 IA~NklLAKLaS~~~KPnGq~~l~~~~~~i~~fL~~LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~rFG~ 319 (677)
|+.++. + -..-+-.-++.+|+|||++..+.|-. -..|+..|.... .+|... |.
T Consensus 516 i~~hR~---------~-------------R~k~~~~s~Ld~I~GiG~~r~~~LL~--~Fgs~~~i~~As~eel~~v-gi 569 (581)
T COG0322 516 ITYHRK---------K-------------RSKAMLQSSLDDIPGIGPKRRKALLK--HFGSLKGIKSASVEELAKV-GI 569 (581)
T ss_pred HHHHHH---------H-------------hhhhhhcCccccCCCcCHHHHHHHHH--HhhCHHHHHhcCHHHHHHc-CC
Confidence 111111 1 11223344688899999999988865 344677776665 666666 53
No 106
>PRK13844 recombination protein RecR; Provisional
Probab=21.50 E-value=47 Score=33.86 Aligned_cols=16 Identities=38% Similarity=0.559 Sum_probs=14.4
Q ss_pred CccccCCCHHHHHHHH
Q 005785 280 IRKIGGIGKVTEHILR 295 (677)
Q Consensus 280 V~kLpGIG~~t~~~L~ 295 (677)
+++|||||++++++|.
T Consensus 17 l~~LPGIG~KsA~Rla 32 (200)
T PRK13844 17 LRKLPTIGKKSSQRLA 32 (200)
T ss_pred HHHCCCCCHHHHHHHH
Confidence 5779999999999996
No 107
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=21.31 E-value=49 Score=21.82 Aligned_cols=12 Identities=33% Similarity=0.858 Sum_probs=10.0
Q ss_pred cccccCCCCCCC
Q 005785 591 KCSLCGTEMPPS 602 (677)
Q Consensus 591 ~c~~c~~~~~~~ 602 (677)
+|.-||.++++.
T Consensus 1 ~Cp~CG~~~~~~ 12 (23)
T PF13240_consen 1 YCPNCGAEIEDD 12 (23)
T ss_pred CCcccCCCCCCc
Confidence 589999999864
No 108
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=20.71 E-value=1.3e+02 Score=36.39 Aligned_cols=47 Identities=28% Similarity=0.439 Sum_probs=35.1
Q ss_pred CCCccccCCCHHHHHHHHhhcCCCcHHHHHhch-HHHHHh--cChhHHHHHH
Q 005785 278 LPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAV--FSHSTADFFL 326 (677)
Q Consensus 278 LPV~kLpGIG~~t~~~L~~~lGI~T~gDL~~~~-~~L~~r--FG~~~~~~L~ 326 (677)
-.+..+||||+++..+|-+.+| ++.+|.+.. ..|.+. +|......++
T Consensus 637 s~L~~IPGIGpkr~k~LL~~FG--Sle~I~~AS~eELa~V~Gig~k~Ae~I~ 686 (694)
T PRK14666 637 GELQRVEGIGPATARLLWERFG--SLQAMAAAGEEGLAAVPGIGPARAAALH 686 (694)
T ss_pred hHHhhCCCCCHHHHHHHHHHhC--CHHHHHhcCHHHHHhcCCcCHHHHHHHH
Confidence 4577899999999888866567 899988875 677766 6666555543
No 109
>COG1540 Uncharacterized proteins, homologs of lactam utilization protein B [General function prediction only]
Probab=20.61 E-value=2.2e+02 Score=29.81 Aligned_cols=107 Identities=19% Similarity=0.227 Sum_probs=66.5
Q ss_pred cCCCCCCCcEEEecCCeEEecCHHHHHcCCCCCCcHHHHHHhCCCcEEeCCCh-----HHHHHHHHHHHHHHHhcCCceE
Q 005785 123 SNPSLKGKPMAVGTMSMICTANYEARRFGVRAAMPGFIARKLCPELIFVPTDF-----TKYTYYSDLTRKVFCKYDPNFM 197 (677)
Q Consensus 123 ~~PeLr~kPvAV~~~~~V~taNY~ARk~GVr~GMp~~~AkkLCP~Lvvvp~d~-----~~Y~~~s~~i~~il~~y~p~ve 197 (677)
.+|.| |+.+..++ ..-..|+++|++..--.|-=+.--|+-.+||..- +...++.+++......= .
T Consensus 136 ~dp~L---~l~~Lags---~~~~~a~~~GL~~~~EvFADR~Y~~dG~Lv~R~~pgA~i~d~~~a~~qvl~m~~~g----~ 205 (252)
T COG1540 136 FDPSL---ILMGLAGS---ELLRAAKRAGLPVAEEVFADRAYQPDGTLVPRSLPGAVIHDEEEALAQVLQMVREG----K 205 (252)
T ss_pred hCCCc---eEEecCcH---HHHHHHHHcCchhHHHHhcccccCCCCcEecCCCCCccccCHHHHHHHHHHHHhcC----c
Confidence 35654 45554444 3456789999998777776666678888887642 11234444444444321 2
Q ss_pred EeccCceEEecc-hhhhhcCCCH--HHHHHHHHHHHHHHhCCeeEE
Q 005785 198 AASLDEAYLDIT-EVCRERGISG--IEIAEELRTSVYEEAGLTCSA 240 (677)
Q Consensus 198 ~~SiDEa~LDlT-~~~~~~g~~~--~~la~~IR~~I~~~tGlt~S~ 240 (677)
..++|.-+++|+ ++.-.+|-++ -+++++||.++ ++-|+++..
T Consensus 206 v~a~dG~~v~v~adsiCvHGD~p~Al~~~~riR~~l-~~~gi~v~~ 250 (252)
T COG1540 206 VTAIDGEWVAVEADSICVHGDNPHALAFARRIRAAL-EAEGIKVAA 250 (252)
T ss_pred eEeeCCcEEeeecceEEEcCCCHHHHHHHHHHHHHH-HHcCCeeec
Confidence 347888888886 3333455444 56899999998 777888764
No 110
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.38 E-value=52 Score=33.40 Aligned_cols=16 Identities=31% Similarity=0.453 Sum_probs=13.8
Q ss_pred CCccccCCCHHHHHHH
Q 005785 279 PIRKIGGIGKVTEHIL 294 (677)
Q Consensus 279 PV~kLpGIG~~t~~~L 294 (677)
.+.++||||++|++++
T Consensus 108 ~L~~vpGIGkKtAeRI 123 (196)
T PRK13901 108 LISKVKGIGNKMAGKI 123 (196)
T ss_pred HHhhCCCCCHHHHHHH
Confidence 3677999999999986
Done!