Query 015789
Match_columns 400
No_of_seqs 124 out of 150
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 09:35:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015789.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015789hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07887 Calmodulin_bind: Calm 100.0 3E-119 7E-124 877.0 28.7 284 97-383 1-284 (299)
2 TIGR02239 recomb_RAD51 DNA rep 89.7 0.41 8.8E-06 48.0 4.3 49 274-327 13-61 (316)
3 PLN03186 DNA repair protein RA 88.0 0.42 9.2E-06 48.7 3.2 62 261-327 27-88 (342)
4 TIGR02238 recomb_DMC1 meiotic 88.0 0.57 1.2E-05 47.0 4.0 49 273-326 12-60 (313)
5 PRK04301 radA DNA repair and r 83.8 0.78 1.7E-05 45.4 2.6 57 261-324 7-63 (317)
6 PLN03187 meiotic recombination 83.5 1 2.2E-05 46.1 3.3 60 261-325 30-89 (344)
7 PTZ00035 Rad51 protein; Provis 77.4 2.3 4.9E-05 43.2 3.4 60 261-325 22-81 (337)
8 PF14520 HHH_5: Helix-hairpin- 77.4 0.53 1.1E-05 35.9 -0.8 50 265-321 10-59 (60)
9 TIGR02236 recomb_radA DNA repa 73.1 2.5 5.5E-05 41.4 2.5 50 265-321 4-53 (310)
10 PRK03609 umuC DNA polymerase V 70.8 3.4 7.3E-05 42.7 2.9 51 261-321 180-230 (422)
11 PRK02406 DNA polymerase IV; Va 67.2 4.9 0.00011 40.1 3.1 52 261-322 169-220 (343)
12 PF14229 DUF4332: Domain of un 64.2 9.6 0.00021 33.4 4.0 52 274-327 7-60 (122)
13 PRK01172 ski2-like helicase; P 60.2 8 0.00017 42.2 3.4 45 273-322 623-667 (674)
14 PRK03352 DNA polymerase IV; Va 59.7 3.9 8.4E-05 40.8 0.8 41 261-306 178-218 (346)
15 PRK03858 DNA polymerase IV; Va 57.3 5.1 0.00011 40.7 1.2 48 261-313 174-221 (396)
16 PRK03348 DNA polymerase IV; Pr 56.3 6 0.00013 41.6 1.6 48 261-313 181-228 (454)
17 COG4766 EutQ Ethanolamine util 55.7 39 0.00085 31.9 6.5 94 38-132 12-108 (176)
18 PRK14133 DNA polymerase IV; Pr 54.5 12 0.00026 37.4 3.3 51 261-321 174-224 (347)
19 PF10691 DUF2497: Protein of u 54.1 29 0.00062 28.5 4.8 41 34-74 33-73 (73)
20 PRK02794 DNA polymerase IV; Pr 53.3 11 0.00023 39.0 2.8 55 261-325 210-264 (419)
21 cd01700 PolY_Pol_V_umuC umuC s 51.7 11 0.00023 37.7 2.4 51 261-321 177-227 (344)
22 cd03586 PolY_Pol_IV_kappa DNA 50.2 14 0.00031 36.2 3.0 52 261-322 172-223 (334)
23 KOG1520 Predicted alkaloid syn 50.1 52 0.0011 34.7 7.1 88 115-224 109-196 (376)
24 TIGR01954 nusA_Cterm_rpt trans 48.0 22 0.00048 25.4 3.0 42 275-321 6-47 (50)
25 PRK03103 DNA polymerase IV; Re 47.7 15 0.00032 37.7 2.8 52 261-322 182-233 (409)
26 PF04994 TfoX_C: TfoX C-termin 46.3 7.6 0.00016 32.0 0.3 76 262-376 5-80 (81)
27 PF02889 Sec63: Sec63 Brl doma 42.8 20 0.00043 34.8 2.7 54 261-321 149-202 (314)
28 cd00424 PolY Y-family of DNA p 40.8 22 0.00047 35.6 2.7 55 261-325 174-229 (343)
29 PRK01216 DNA polymerase IV; Va 40.8 13 0.00029 37.9 1.2 51 261-320 179-229 (351)
30 cd01701 PolY_Rev1 DNA polymera 39.8 13 0.00029 38.3 1.0 54 261-321 223-276 (404)
31 cd01702 PolY_Pol_eta DNA Polym 39.7 14 0.0003 37.8 1.1 55 261-322 183-238 (359)
32 PF03118 RNA_pol_A_CTD: Bacter 39.2 15 0.00033 29.0 1.0 37 275-316 24-60 (66)
33 COG3743 Uncharacterized conser 38.9 35 0.00076 31.2 3.4 59 260-322 67-126 (133)
34 PRK01810 DNA polymerase IV; Va 38.4 18 0.00038 37.1 1.6 51 261-321 180-230 (407)
35 PF11754 Velvet: Velvet factor 35.8 82 0.0018 29.9 5.6 62 181-245 97-172 (203)
36 cd01703 PolY_Pol_iota DNA Poly 35.3 19 0.0004 37.3 1.3 58 261-324 173-242 (379)
37 PRK07758 hypothetical protein; 29.7 64 0.0014 27.9 3.4 37 276-317 48-84 (95)
38 KOG4233 DNA-bridging protein B 29.3 58 0.0013 27.7 3.0 60 256-323 15-78 (90)
39 PF06594 HCBP_related: Haemoly 29.3 36 0.00078 24.4 1.6 18 196-213 24-41 (43)
40 PF14229 DUF4332: Domain of un 28.6 29 0.00063 30.4 1.2 38 263-305 56-93 (122)
41 cd07978 TAF13 The TATA Binding 26.8 1.1E+02 0.0023 26.0 4.2 38 280-322 52-89 (92)
42 COG3129 Predicted SAM-dependen 25.1 21 0.00046 35.9 -0.3 53 340-392 85-148 (292)
43 cd03468 PolY_like DNA Polymera 24.8 40 0.00086 33.1 1.5 35 267-306 177-211 (335)
44 PRK10917 ATP-dependent DNA hel 24.7 29 0.00063 38.4 0.6 39 255-295 4-42 (681)
45 PRK05256 condesin subunit E; P 23.6 1.1E+02 0.0024 30.4 4.2 74 276-349 107-186 (238)
46 PRK14626 hypothetical protein; 23.3 1E+02 0.0022 27.0 3.5 51 327-383 30-80 (110)
47 COG3827 Uncharacterized protei 23.0 1.5E+02 0.0032 29.4 4.8 40 34-74 188-228 (231)
48 PRK15457 ethanolamine utilizat 21.9 1.4E+02 0.0031 29.6 4.6 73 56-130 90-163 (233)
49 TIGR01206 lysW lysine biosynth 21.6 1.3E+02 0.0028 23.4 3.4 43 119-165 7-53 (54)
50 PF11033 ComJ: Competence prot 21.4 3.4E+02 0.0073 24.6 6.5 27 148-175 9-35 (125)
51 PF08806 Sep15_SelM: Sep15/Sel 21.2 51 0.0011 27.1 1.2 37 102-139 21-57 (78)
52 PF10148 SCHIP-1: Schwannomin- 21.0 1.4E+02 0.003 29.7 4.4 46 62-108 6-60 (238)
53 COG5340 Predicted transcriptio 21.0 58 0.0012 32.6 1.7 40 278-318 25-64 (269)
54 PRK12766 50S ribosomal protein 20.9 1.1E+02 0.0023 30.4 3.5 58 263-327 6-63 (232)
No 1
>PF07887 Calmodulin_bind: Calmodulin binding protein-like; InterPro: IPR012416 The members of this family are putative or actual calmodulin binding proteins expressed by various plant species. Some members (for example, Q8H6T7 from SWISSPROT), are known to be involved in the induction of plant defence responses []. However, their precise function in this regard is as yet unknown.
Probab=100.00 E-value=3.2e-119 Score=876.97 Aligned_cols=284 Identities=69% Similarity=1.123 Sum_probs=279.6
Q ss_pred ceEEEEccCCCCCccccCceeccCCCceEEEEEeCCCCceeccCCCccceEEEEEEeCCCCCCCCCCCCHHHhhhccccc
Q 015789 97 NLQLYFRSRLSLPLFTGGKVEGEQGAAIHVVLVDANTGHVVTSGPEASVKLDIVVLEGDFNNEDDDGWTQEEFESHVVKE 176 (400)
Q Consensus 97 ~~~L~F~n~l~~pifTg~kI~a~~g~~I~V~L~D~~t~~~V~~Gplss~kvEIvVLdGDF~~~~~e~WT~eEF~~~IV~~ 176 (400)
+|||+|.|+|++|+|||++|+|+||+||+|+|+|++|+ |++||+||+|||||||||||+++++++||+|||++|||++
T Consensus 1 ~~~L~F~n~l~~pifT~~~i~a~~g~~i~V~l~d~~~~--v~~g~lss~kieIvvLdGdF~~~~~~~wT~eeF~~~iv~~ 78 (299)
T PF07887_consen 1 NLQLRFLNKLSLPIFTGSKIEAEDGAPIKVALVDANTG--VTSGPLSSAKIEIVVLDGDFNDEDCEDWTEEEFNSHIVKE 78 (299)
T ss_pred CeEEEecCCCCCCcccCCceEecCCCcEEEEEEECCCC--ccCCCCCCcEEEEEEEccccCCCccCCCCHHHHhhcEeec
Confidence 58999999999999999999999999999999999987 9999999999999999999999999999999999999999
Q ss_pred CCCCccccccceEEEeecceeccCCeEeecCCccccccccEEEEEeecCCCCcceeeeecccceEEeecCCcccccCCCC
Q 015789 177 REGKRPLLTGDLQVTLKEGVGTLGDLTFTDNSSWIRSRKFRLGLKVASGYCEGIRIREAKTEAFTVKDHRGELYKKHYPP 256 (400)
Q Consensus 177 R~Gk~pLL~Gdl~v~L~~Gva~l~di~FTDnSs~~rSrKFRLgaRv~~~~~~g~RI~EAvse~FvVkd~Rge~~kKh~pP 256 (400)
|+||+|||+|+++|+|+||+|+|+||+|||||||+|||||||||||+++++.|+|||||+||||+|||||||+|||||||
T Consensus 79 r~gk~pLL~G~~~v~L~~G~a~l~di~FtdnSs~~rsrKFRLgarv~~~~~~~~rI~Eavse~FvVkd~Rge~~kKh~pP 158 (299)
T PF07887_consen 79 REGKRPLLTGDLQVTLKNGVATLGDISFTDNSSWIRSRKFRLGARVVSGSCDGVRIREAVSEPFVVKDHRGELYKKHYPP 158 (299)
T ss_pred CCCCCCCCCccEEEEecCCEEEccccEEecCcccccCCcEEEEEEEccCCCCCceeEEeeecCEEEEecccccccCCCCC
Confidence 99999999999999999999999999999999999999999999999999899999999999999999999999999999
Q ss_pred CCCccceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccCCCceEEEeeCC
Q 015789 257 ALNDDVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVLSGKLYVYYPED 336 (400)
Q Consensus 257 ~L~DeVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl~~k~~~y~~~~ 336 (400)
+|+|||||||+|||||+|||+|+.+||+||+|||+++++||++||+|||+|||++||++|++|||||++++++|+|| .+
T Consensus 159 ~L~DeVwRLe~Igk~G~~hk~L~~~~I~tV~dFl~l~~~d~~~Lr~ilg~~ms~k~We~~v~HA~tCvl~~~~y~y~-~~ 237 (299)
T PF07887_consen 159 SLDDEVWRLEKIGKDGAFHKRLKKNGINTVEDFLKLLNKDPQKLREILGSGMSNKMWETTVEHAKTCVLGDKLYVYY-DE 237 (299)
T ss_pred CCCCchhhhhhccccCHHHHHHHHcCCccHHHHHHHHhcCHHHHHHHHhcCCChhhHHHHHHHHHhcCCCCcEEEEE-ec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999 45
Q ss_pred CCcEEEEEcccceeeeeecCCeeccCCCCChhhHHHHHHHHHHHhhh
Q 015789 337 SRNVGVVFNNIYELNGLISGEQYFPADALPESQKVGLIYIFVSAILL 383 (400)
Q Consensus 337 ~~~v~l~FN~i~~lVG~~~~g~y~~~d~L~~~qk~~v~~lk~~A~~~ 383 (400)
++|++|+|||||+||||.|+|+|+|.|+||++||++|++|+.+||+-
T Consensus 238 ~~nv~l~FN~i~~lvga~~~g~y~s~d~L~~~qK~~v~~Lv~~AY~n 284 (299)
T PF07887_consen 238 EQNVGLFFNCIYELVGAIFGGQYVSLDNLSSAQKAYVDKLVKQAYEN 284 (299)
T ss_pred CCceEEEEcchhhEEeEEECCEEEehHHcCHHHHHHHHHHHHHHHHh
Confidence 78999999999999999999999999999999999999999999983
No 2
>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=89.73 E-value=0.41 Score=48.04 Aligned_cols=49 Identities=29% Similarity=0.341 Sum_probs=43.1
Q ss_pred hhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccCCC
Q 015789 274 FHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVLSG 327 (400)
Q Consensus 274 ~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl~~ 327 (400)
.-++|+++||.||+||+.. +|..|.+++ |+|...++.+..||.+|....
T Consensus 13 ~~~~l~~~g~~t~~~~~~~---~~~~L~~i~--~ls~~~~~~~~~~~~~~~~~~ 61 (316)
T TIGR02239 13 DIKKLQEAGLHTVESVAYA---PKKQLLEIK--GISEAKADKILAEAAKLVPMG 61 (316)
T ss_pred HHHHHHHcCCCcHHHHHhC---CHHHHHHHh--CCCHHHHHHHHHHHHHhcccc
Confidence 4468999999999999876 899999998 789999999999999886543
No 3
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=87.99 E-value=0.42 Score=48.70 Aligned_cols=62 Identities=29% Similarity=0.338 Sum_probs=48.8
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccCCC
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVLSG 327 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl~~ 327 (400)
++-+|+.-|-.-..-++|.++||.||+||+.. ++..|.++. |+|....+.+++||.+|....
T Consensus 27 ~~~~l~~~gi~~~~i~kL~~~g~~T~~~~~~~---~~~~L~~i~--~is~~~~~~~~~~~~~~~~~~ 88 (342)
T PLN03186 27 PIEQLQASGIAALDIKKLKDAGIHTVESLAYA---PKKDLLQIK--GISEAKVEKILEAASKLVPLG 88 (342)
T ss_pred cHHHHHhCCCCHHHHHHHHHcCCCcHHHHHhC---CHHHHHHhc--CCCHHHHHHHHHHHHHhcccc
Confidence 35555443333345578999999999999876 889999998 789999999999998886543
No 4
>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=87.97 E-value=0.57 Score=47.03 Aligned_cols=49 Identities=22% Similarity=0.294 Sum_probs=43.1
Q ss_pred hhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccCC
Q 015789 273 SFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVLS 326 (400)
Q Consensus 273 ~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl~ 326 (400)
..-++|+++||.||+||+.. ++..|.++. |+|...++.+++.|+.+...
T Consensus 12 ~~~~~L~~~g~~t~~~~~~~---~~~~L~~~~--gls~~~~~~i~~~~~~~~~~ 60 (313)
T TIGR02238 12 ADIKKLKSAGICTVNGVIMT---TRRALCKIK--GLSEAKVDKIKEAASKIINP 60 (313)
T ss_pred HHHHHHHHcCCCcHHHHHhC---CHHHHHHhc--CCCHHHHHHHHHHHHhhhcc
Confidence 45578999999999999876 899999997 78999999999999988654
No 5
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=83.76 E-value=0.78 Score=45.43 Aligned_cols=57 Identities=21% Similarity=0.358 Sum_probs=45.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhcccc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCV 324 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCv 324 (400)
++..|..||+ ...++|.++||.|++|++.+ |++.|.+++ |++.+.++.+.+-|+.+.
T Consensus 7 ~l~~l~gIg~--~~a~~L~~~Gi~t~~dl~~~---~~~~L~~~~--g~~~~~a~~l~~~a~~~~ 63 (317)
T PRK04301 7 DLEDLPGVGP--ATAEKLREAGYDTVEAIAVA---SPKELSEAA--GIGESTAAKIIEAAREAA 63 (317)
T ss_pred cHhhcCCCCH--HHHHHHHHcCCCCHHHHHcC---CHHHHHHhc--CCCHHHHHHHHHHHHHhh
Confidence 3445556665 45589999999999999765 999999998 678889999998887644
No 6
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=83.50 E-value=1 Score=46.10 Aligned_cols=60 Identities=20% Similarity=0.328 Sum_probs=47.7
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccC
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVL 325 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl 325 (400)
++..|+.-|-.-..-++|.++||+||+|++.. ++..|-++. |+|...++.+++.|+..+.
T Consensus 30 ~~~~l~~~g~~~~~~~kL~~~g~~tv~~~~~~---~~~~L~~~~--g~s~~~~~ki~~~a~~~~~ 89 (344)
T PLN03187 30 SIDKLISQGINAGDVKKLQDAGIYTCNGLMMH---TKKNLTGIK--GLSEAKVDKICEAAEKLLN 89 (344)
T ss_pred CHHHHhhCCCCHHHHHHHHHcCCCcHHHHHhC---CHHHHHHhc--CCCHHHHHHHHHHHHHhhc
Confidence 36666554444455689999999999999876 788899986 7899999999999987654
No 7
>PTZ00035 Rad51 protein; Provisional
Probab=77.41 E-value=2.3 Score=43.20 Aligned_cols=60 Identities=27% Similarity=0.342 Sum_probs=47.0
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccC
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVL 325 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl 325 (400)
++..|+.-|-.-..-++|.++||+||+||+.. ++..|-++. |+|...=+.+++.|+.++.
T Consensus 22 ~~~~l~~~g~~~~~~~kL~~~g~~t~~~~~~~---~~~~L~~~~--gis~~~~~~i~~~~~~~~~ 81 (337)
T PTZ00035 22 EIEKLQSAGINAADIKKLKEAGICTVESVAYA---TKKDLCNIK--GISEAKVEKIKEAASKLVP 81 (337)
T ss_pred cHHHHhcCCCCHHHHHHHHHcCCCcHHHHHhC---CHHHHHHhh--CCCHHHHHHHHHHHHHhcc
Confidence 46666553333345578999999999998866 888999997 7899999999999887764
No 8
>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=77.40 E-value=0.53 Score=35.87 Aligned_cols=50 Identities=32% Similarity=0.547 Sum_probs=39.9
Q ss_pred eeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 265 LEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 265 LekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
+.+||+. ..++|.++||.|++|+..+ +++.|.++= |++.+.=+.+++.|+
T Consensus 10 I~Gig~~--~a~~L~~~G~~t~~~l~~a---~~~~L~~i~--Gig~~~a~~i~~~~~ 59 (60)
T PF14520_consen 10 IPGIGPK--RAEKLYEAGIKTLEDLANA---DPEELAEIP--GIGEKTAEKIIEAAR 59 (60)
T ss_dssp STTCHHH--HHHHHHHTTCSSHHHHHTS---HHHHHHTST--TSSHHHHHHHHHHHH
T ss_pred CCCCCHH--HHHHHHhcCCCcHHHHHcC---CHHHHhcCC--CCCHHHHHHHHHHHh
Confidence 4555554 3478999999999998765 888899975 789999999998886
No 9
>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=73.12 E-value=2.5 Score=41.40 Aligned_cols=50 Identities=24% Similarity=0.385 Sum_probs=38.6
Q ss_pred eeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 265 LEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 265 LekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
+.+||+. .-++|.++||.|++|++.+ |++.|.+++ |++.+..+.+.+-|.
T Consensus 4 i~gig~~--~~~~L~~~Gi~ti~dl~~~---~~~~L~~~~--g~~~~~a~~l~~~~~ 53 (310)
T TIGR02236 4 LPGVGPA--TAEKLREAGYDTFEAIAVA---SPKELSEIA--GISEGTAAKIIQAAR 53 (310)
T ss_pred cCCCCHH--HHHHHHHcCCCCHHHHHcC---CHHHHHhcc--CCCHHHHHHHHHHHH
Confidence 4455543 4478999999999999886 899999998 567777777766665
No 10
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed
Probab=70.80 E-value=3.4 Score=42.67 Aligned_cols=51 Identities=20% Similarity=0.272 Sum_probs=40.1
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
+|..|-+||+. ..++|.+.||+|++|+.++ ++..|++.||. .+..+..||.
T Consensus 180 Pv~~l~GiG~~--~~~~L~~lGi~TigdL~~~---~~~~L~~~fG~-----~~~~l~~~a~ 230 (422)
T PRK03609 180 PVEEVWGVGRR--ISKKLNAMGIKTALDLADT---NIRFIRKHFNV-----VLERTVRELR 230 (422)
T ss_pred ChhhcCCccHH--HHHHHHHcCCCcHHHHhcC---CHHHHHHHHCH-----HHHHHHHHhC
Confidence 45556667774 4589999999999999987 88999999963 5666777775
No 11
>PRK02406 DNA polymerase IV; Validated
Probab=67.24 E-value=4.9 Score=40.06 Aligned_cols=52 Identities=23% Similarity=0.398 Sum_probs=39.5
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhcc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKT 322 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAkt 322 (400)
+|..|-+||+. .-++|...||.|++|+.++ ++..|++.||. .+..+.+||.-
T Consensus 169 pi~~l~giG~~--~~~~L~~~Gi~ti~dl~~l---~~~~L~~~fG~-----~~~~l~~~a~G 220 (343)
T PRK02406 169 PVEKIPGVGKV--TAEKLHALGIYTCADLQKY---DLAELIRHFGK-----FGRRLYERARG 220 (343)
T ss_pred CcchhcCCCHH--HHHHHHHcCCCcHHHHHhC---CHHHHHHHHhH-----HHHHHHHHhCC
Confidence 56666667753 4478999999999999886 78899999973 45566666653
No 12
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=64.22 E-value=9.6 Score=33.37 Aligned_cols=52 Identities=23% Similarity=0.270 Sum_probs=37.5
Q ss_pred hhhhhhhcCCccHHHHHHHhhcChHH--HHHHHcCCCChhhHHHHHHHhccccCCC
Q 015789 274 FHKRLNNAGIFSVEDFLRLVVRDPQK--LRSILGSGMSNKMWEALLDHAKTCVLSG 327 (400)
Q Consensus 274 ~hk~L~~~~I~tV~dFL~l~~~d~~k--LR~iLg~gms~k~We~~v~HAktCvl~~ 327 (400)
...+|...||+|++|||..-.....+ |-+-+ |++.+-=...+.+|.=|...+
T Consensus 7 ~~~~L~~~GI~t~~~Ll~~~~~~~~r~~La~~~--~i~~~~l~~w~~~AdL~ri~g 60 (122)
T PF14229_consen 7 EAAKLKAAGIKTTGDLLEAGDTPLGRKALAKKL--GISERNLLKWVNQADLMRIPG 60 (122)
T ss_pred HHHHHHHcCCCcHHHHHHcCCCHHHHHHHHHhc--CCCHHHHHHHHhHHHhhhcCC
Confidence 44789999999999999986654444 55555 678887777777776554433
No 13
>PRK01172 ski2-like helicase; Provisional
Probab=60.22 E-value=8 Score=42.23 Aligned_cols=45 Identities=29% Similarity=0.552 Sum_probs=39.1
Q ss_pred hhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhcc
Q 015789 273 SFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKT 322 (400)
Q Consensus 273 ~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAkt 322 (400)
...++|.++||.||.|+..+ |+++|-+|+ |++++.=+.++++|+.
T Consensus 623 ~~a~~l~~~g~~~~~di~~~---~~~~~~~i~--~~~~~~~~~i~~~~~~ 667 (674)
T PRK01172 623 VRARRLYDAGFKTVDDIARS---SPERIKKIY--GFSDTLANAIVNRAMK 667 (674)
T ss_pred HHHHHHHHcCCCCHHHHHhC---CHHHHHHHh--ccCHHHHHHHHHHHHH
Confidence 46689999999999999874 888898898 5899999999999875
No 14
>PRK03352 DNA polymerase IV; Validated
Probab=59.74 E-value=3.9 Score=40.83 Aligned_cols=41 Identities=32% Similarity=0.424 Sum_probs=33.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcC
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGS 306 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~ 306 (400)
+|..|-+||+. ..++|...||+|++|++++ ++..|.+.||.
T Consensus 178 pl~~l~gig~~--~~~~L~~~Gi~ti~dl~~l---~~~~L~~~fG~ 218 (346)
T PRK03352 178 PTDALWGVGPK--TAKRLAALGITTVADLAAA---DPAELAATFGP 218 (346)
T ss_pred CHHHcCCCCHH--HHHHHHHcCCccHHHHhcC---CHHHHHHHhCh
Confidence 46666677774 4478999999999999986 78889999974
No 15
>PRK03858 DNA polymerase IV; Validated
Probab=57.34 E-value=5.1 Score=40.69 Aligned_cols=48 Identities=29% Similarity=0.372 Sum_probs=35.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhH
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMW 313 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~W 313 (400)
+|..|-+||+. .-++|.+.||+|++|+..+ ++..|++.||..+-...|
T Consensus 174 pl~~l~Gig~~--~~~~L~~~Gi~t~~dl~~l---~~~~L~~~fG~~~~~~l~ 221 (396)
T PRK03858 174 PVRRLWGVGPV--TAAKLRAHGITTVGDVAEL---PESALVSLLGPAAGRHLH 221 (396)
T ss_pred ChhhcCCCCHH--HHHHHHHhCCCcHHHHhcC---CHHHHHHHhCcHHHHHHH
Confidence 45555567774 4488999999999999865 888999999753333333
No 16
>PRK03348 DNA polymerase IV; Provisional
Probab=56.33 E-value=6 Score=41.61 Aligned_cols=48 Identities=25% Similarity=0.394 Sum_probs=37.1
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhH
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMW 313 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~W 313 (400)
+|.+|-+||+. .-++|.+.||+|++||.++ ++..|++.||..+-..-|
T Consensus 181 Pv~~L~GIG~~--t~~~L~~lGI~TigDLa~l---~~~~L~~~fG~~~g~~L~ 228 (454)
T PRK03348 181 PVRRLWGIGPV--TEEKLHRLGIETIGDLAAL---SEAEVANLLGATVGPALH 228 (454)
T ss_pred CccccCCCCHH--HHHHHHHcCCccHHHHhcC---CHHHHHHHHCHHHHHHHH
Confidence 67888888875 4478999999999999886 788999999743333333
No 17
>COG4766 EutQ Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=55.72 E-value=39 Score=31.87 Aligned_cols=94 Identities=14% Similarity=0.208 Sum_probs=61.1
Q ss_pred HHHHHHHhhhh-HHHHHHh-hhHHHHHHhHHHHHHHHHhcCCCccCC-CCCCCCcccCCCCCceEEEEccCCCCCccccC
Q 015789 38 SVIVEALKVDS-LQKLCSS-LEPILRRVVSEEVERALAKLGPARLNN-GRASPKRIEGPDGRNLQLYFRSRLSLPLFTGG 114 (400)
Q Consensus 38 ~vi~e~~~~~~-~q~l~~~-lEp~lrrvV~EEve~~l~~~~~~~~~~-~rs~~~~i~~~~~~~~~L~F~n~l~~pifTg~ 114 (400)
+-|+|.+..+- .-.+|+. +|-++++|++|+.-.......+ .+.. .|.+.-.....+.-...|+|...=+.-+||++
T Consensus 12 ~~i~~si~a~l~~~~~~~~l~~Qlm~kVmkek~s~~~~~~~~-~~k~v~~ksgikvvk~s~vk~~~r~d~gqp~~V~~td 90 (176)
T COG4766 12 QRIRESIIAQLPEGQFTKELVEQLMEKVMKEKQSLECGWMQP-SFKSVDGKSGIKVVKLSSVKFGLRFDTGQPDCVYTTD 90 (176)
T ss_pred HHHHHHHHHhCChhhhhHHHHHHHHHHHHhchhhhhhhhccc-ceeecccCCceeEEecccceeEeeecCCCCCeEEeec
Confidence 44666655442 3466775 4569999999996655543332 1221 11222222233345688899887778899999
Q ss_pred ceeccCCCceEEEEEeCC
Q 015789 115 KVEGEQGAAIHVVLVDAN 132 (400)
Q Consensus 115 kI~a~~g~~I~V~L~D~~ 132 (400)
-+.-.+|.++-+.+..-.
T Consensus 91 Lvt~~~g~~l~aG~m~~~ 108 (176)
T COG4766 91 LVTEQEGSRLGAGLMEMK 108 (176)
T ss_pred eeecccCCccccceeeec
Confidence 999999999999988764
No 18
>PRK14133 DNA polymerase IV; Provisional
Probab=54.48 E-value=12 Score=37.45 Aligned_cols=51 Identities=29% Similarity=0.564 Sum_probs=38.9
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
+|..|-.||+.. -++|.+-||+|++|++++ +...|++.|| +.|..+.++|.
T Consensus 174 pv~~l~gig~~~--~~~L~~~Gi~ti~dl~~l---~~~~L~~rfG-----~~g~~l~~~a~ 224 (347)
T PRK14133 174 PISKVHGIGKKS--VEKLNNIGIYTIEDLLKL---SREFLIEYFG-----KFGVEIYERIR 224 (347)
T ss_pred CccccCCCCHHH--HHHHHHcCCccHHHHhhC---CHHHHHHHHh-----HHHHHHHHHhC
Confidence 456666666643 477999999999999886 7888999996 34677777774
No 19
>PF10691 DUF2497: Protein of unknown function (DUF2497) ; InterPro: IPR019632 Members of this family belong to the Alphaproteobacteria. The function of the family is not known.
Probab=54.11 E-value=29 Score=28.48 Aligned_cols=41 Identities=27% Similarity=0.352 Sum_probs=28.2
Q ss_pred cchHHHHHHHHhhhhHHHHHHhhhHHHHHHhHHHHHHHHHh
Q 015789 34 PALASVIVEALKVDSLQKLCSSLEPILRRVVSEEVERALAK 74 (400)
Q Consensus 34 p~~~~vi~e~~~~~~~q~l~~~lEp~lrrvV~EEve~~l~~ 74 (400)
.++-.+++|+++---=+=|=..|=.++.|+|++||++..++
T Consensus 33 ~TlE~lvremLRPmLkeWLD~nLP~lVErlVr~EIeRi~rr 73 (73)
T PF10691_consen 33 RTLEDLVREMLRPMLKEWLDENLPGLVERLVREEIERIARR 73 (73)
T ss_pred ccHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhcC
Confidence 47777777777653222233467778999999999997653
No 20
>PRK02794 DNA polymerase IV; Provisional
Probab=53.35 E-value=11 Score=39.02 Aligned_cols=55 Identities=27% Similarity=0.230 Sum_probs=42.0
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccC
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVL 325 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl 325 (400)
+|..|-.||+ ..-++|...||+|++|+..+ +...|++.||. .|..+..+|.--+.
T Consensus 210 Pl~~L~GiG~--~~~~~L~~~GI~tigdL~~l---~~~~L~~rfG~-----~g~~l~~~a~G~d~ 264 (419)
T PRK02794 210 PVGIIWGVGP--ATAARLARDGIRTIGDLQRA---DEADLMRRFGS-----MGLRLWRLARGIDD 264 (419)
T ss_pred ChhhhCCCCH--HHHHHHHHhccchHHHHhhC---CHHHHHHHHhH-----HHHHHHHHhCCCCC
Confidence 3555556665 45588999999999998875 88899999973 57888888875543
No 21
>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=51.75 E-value=11 Score=37.67 Aligned_cols=51 Identities=31% Similarity=0.433 Sum_probs=38.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
+|..|-+||+. .-++|...||+|++|+.++ +.+.|.+.||. .|.....+|+
T Consensus 177 pl~~l~gig~~--~~~~L~~~Gi~ti~dL~~~---~~~~L~~rfG~-----~~~~l~~~a~ 227 (344)
T cd01700 177 PVGDVWGIGRR--TAKKLNAMGIHTAGDLAQA---DPDLLRKKFGV-----VGERLVRELN 227 (344)
T ss_pred ChhhcCccCHH--HHHHHHHcCCCcHHHHhcC---CHHHHHHHHHH-----HHHHHHHHhC
Confidence 35555566664 4478999999999999986 78889999973 4666667765
No 22
>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=50.20 E-value=14 Score=36.20 Aligned_cols=52 Identities=27% Similarity=0.467 Sum_probs=40.1
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhcc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKT 322 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAkt 322 (400)
+|..|-.||+ ..-++|...||+|++|+..+ ++..|++.+| +.|....+||+-
T Consensus 172 pl~~l~gig~--~~~~~L~~~Gi~ti~dl~~~---~~~~L~~~~g-----~~~~~l~~~~~G 223 (334)
T cd03586 172 PVRKIPGVGK--VTAEKLKELGIKTIGDLAKL---DVELLKKLFG-----KSGRRLYELARG 223 (334)
T ss_pred CchhhCCcCH--HHHHHHHHcCCcCHHHHHcC---CHHHHHHHHh-----HHHHHHHHHhCC
Confidence 4555656665 34578999999999999876 7888999885 568888888864
No 23
>KOG1520 consensus Predicted alkaloid synthase/Surface mucin Hemomucin [General function prediction only]
Probab=50.10 E-value=52 Score=34.67 Aligned_cols=88 Identities=23% Similarity=0.274 Sum_probs=49.0
Q ss_pred ceeccCCCceEEEEEeCCCCceeccCCCccceEEEEEEeCCCCCCCCCCCCHHHhhhcccccCCCCccccccceEEEeec
Q 015789 115 KVEGEQGAAIHVVLVDANTGHVVTSGPEASVKLDIVVLEGDFNNEDDDGWTQEEFESHVVKEREGKRPLLTGDLQVTLKE 194 (400)
Q Consensus 115 kI~a~~g~~I~V~L~D~~t~~~V~~Gplss~kvEIvVLdGDF~~~~~e~WT~eEF~~~IV~~R~Gk~pLL~Gdl~v~L~~ 194 (400)
+-+..||-|+=|+ +|..||..+-. .+.+=+.+++.+=.. ...++-+=+|+...++.++.|.= +
T Consensus 109 ~~e~~CGRPLGl~-f~~~ggdL~Va----DAYlGL~~V~p~g~~-----------a~~l~~~~~G~~~kf~N~ldI~~-~ 171 (376)
T KOG1520|consen 109 ETEPLCGRPLGIR-FDKKGGDLYVA----DAYLGLLKVGPEGGL-----------AELLADEAEGKPFKFLNDLDIDP-E 171 (376)
T ss_pred ecccccCCcceEE-eccCCCeEEEE----ecceeeEEECCCCCc-----------ceeccccccCeeeeecCceeEcC-C
Confidence 4455567777776 55555433321 223333333322111 22333344777777777666544 4
Q ss_pred ceeccCCeEeecCCccccccccEEEEEeec
Q 015789 195 GVGTLGDLTFTDNSSWIRSRKFRLGLKVAS 224 (400)
Q Consensus 195 Gva~l~di~FTDnSs~~rSrKFRLgaRv~~ 224 (400)
| .|-|||+||.--.|.|.+++--.+
T Consensus 172 g-----~vyFTDSSsk~~~rd~~~a~l~g~ 196 (376)
T KOG1520|consen 172 G-----VVYFTDSSSKYDRRDFVFAALEGD 196 (376)
T ss_pred C-----eEEEeccccccchhheEEeeecCC
Confidence 4 589999999655588888776553
No 24
>TIGR01954 nusA_Cterm_rpt transcription termination factor NusA, C-terminal duplication. NusA is a bacterial transcription termination factor. It is named for its interaction with phage lambda protein N, as part of the N utilization substance. Some members of the NusA family have a long C-terminal extension. This model represents an acidic 50-residue region found in two copies toward the C-terminus of most Proteobacterial NusA proteins, spaced about 26 residues apart. Analogous C-terminal extensions in some other bacterial lineages lack apparent homology but appear similarly acidic.
Probab=48.04 E-value=22 Score=25.40 Aligned_cols=42 Identities=26% Similarity=0.375 Sum_probs=32.7
Q ss_pred hhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 275 HKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 275 hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
-.+|..+||.||+++..+ +++.|..+- |++...=+.++.=|+
T Consensus 6 ~~~L~~~G~~s~e~la~~---~~~eL~~i~--g~~~e~a~~ii~~a~ 47 (50)
T TIGR01954 6 AQLLVEEGFTTVEDLAYV---PIDELLSIE--GFDEETAKELINRAR 47 (50)
T ss_pred HHHHHHcCCCCHHHHHcc---CHHHHhcCC--CCCHHHHHHHHHHHH
Confidence 357999999999998766 778888885 578777777766555
No 25
>PRK03103 DNA polymerase IV; Reviewed
Probab=47.70 E-value=15 Score=37.65 Aligned_cols=52 Identities=23% Similarity=0.297 Sum_probs=39.2
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhcc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKT 322 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAkt 322 (400)
+|..|-+||+. .-++|...||+|++|+.++ ++..|++.||. .|..+.++|.-
T Consensus 182 pi~~l~gig~~--~~~~L~~~Gi~tigdl~~~---~~~~L~~~fG~-----~~~~l~~~a~G 233 (409)
T PRK03103 182 PVRKLFGVGSR--MEKHLRRMGIRTIGQLANT---PLERLKKRWGI-----NGEVLWRTANG 233 (409)
T ss_pred CHhhcCCccHH--HHHHHHHcCCCCHHHHhcC---CHHHHHHHHCH-----HHHHHHHHhcC
Confidence 45666677764 5578999999999998875 78889999963 46666666653
No 26
>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=46.30 E-value=7.6 Score=31.95 Aligned_cols=76 Identities=29% Similarity=0.410 Sum_probs=39.9
Q ss_pred ceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccCCCceEEEeeCCCCcEE
Q 015789 262 VWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVLSGKLYVYYPEDSRNVG 341 (400)
Q Consensus 262 VwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl~~k~~~y~~~~~~~v~ 341 (400)
+..|-+||.. .-+.|.+.||+||+||..+=. .+.|-.+..+- ..
T Consensus 5 l~~LpNig~~--~e~~L~~vGI~t~~~L~~~Ga---------------~~a~~~Lk~~~-------------------~~ 48 (81)
T PF04994_consen 5 LKDLPNIGPK--SERMLAKVGIHTVEDLRELGA---------------VEAYLRLKASG-------------------PS 48 (81)
T ss_dssp GCGSTT--HH--HHHHHHHTT--SHHHHHHHHH---------------HHHHHHHHHH--------------------TT
T ss_pred hhhCCCCCHH--HHHHHHHcCCCCHHHHHHhCH---------------HHHHHHHHHHC-------------------CC
Confidence 3445555553 336799999999999987622 23333333221 12
Q ss_pred EEEcccceeeeeecCCeeccCCCCChhhHHHHHHH
Q 015789 342 VVFNNIYELNGLISGEQYFPADALPESQKVGLIYI 376 (400)
Q Consensus 342 l~FN~i~~lVG~~~~g~y~~~d~L~~~qk~~v~~l 376 (400)
+-+|-.|.|.||.-| +....|++.+|....++
T Consensus 49 ~~~~~L~aL~gAi~g---~~~~~L~~~~K~~L~~~ 80 (81)
T PF04994_consen 49 VCLNLLYALEGAIQG---IHWADLPDEEKQELLEW 80 (81)
T ss_dssp --HHHHHHHHHHHCT---S-GGGS-HHHHHHHHH-
T ss_pred CCHHHHHHHHHHHcC---CCHHHCCHHHHHHHHhc
Confidence 345667888888776 33445677777665543
No 27
>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=42.83 E-value=20 Score=34.83 Aligned_cols=54 Identities=26% Similarity=0.492 Sum_probs=37.7
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
...-|.+|+.+.+ ++|..+||.|+++|+++ +++++..+| +......+.+.+.|.
T Consensus 149 ~L~Qlp~i~~~~~--~~l~~~~i~~l~~l~~~---~~~e~~~ll--~~~~~~~~~i~~~~~ 202 (314)
T PF02889_consen 149 PLLQLPHIGEESL--KKLEKRGIKTLQDLRDL---SPEELEELL--NRNPPFGKEILEVAS 202 (314)
T ss_dssp GGGGSTT--HHHH--HHHHHTT--SHHHHHHS----HHHHHHHH---S-HHHHHHHHHHHC
T ss_pred hhhcCCCCCHHHH--HHHhccCCCcHHHHhhC---CHHHHHHHH--hhhhhhHHHHHHHHH
Confidence 4455667777654 78999999999999966 899999999 456788888888876
No 28
>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=40.83 E-value=22 Score=35.59 Aligned_cols=55 Identities=25% Similarity=0.141 Sum_probs=40.2
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcC-hHHHHHHHcCCCChhhHHHHHHHhccccC
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRD-PQKLRSILGSGMSNKMWEALLDHAKTCVL 325 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d-~~kLR~iLg~gms~k~We~~v~HAktCvl 325 (400)
+|..|-+||+. .-++|.+.||+|++|+.++ + ...|+..+| +.+..+.++|.--+.
T Consensus 174 pi~~l~giG~~--~~~~L~~~Gi~ti~dl~~~---~~~~~l~~~fg-----~~~~~l~~~a~G~d~ 229 (343)
T cd00424 174 PLTDLPGIGAV--TAKRLEAVGINPIGDLLAA---SPDALLALWGG-----VSGERLWYALRGIDD 229 (343)
T ss_pred ChhhcCCCCHH--HHHHHHHcCCCcHHHHhcC---CHHHHHHHHhh-----HHHHHHHHHhCCcCC
Confidence 46666677774 4488999999999998876 6 566777775 357777788875543
No 29
>PRK01216 DNA polymerase IV; Validated
Probab=40.82 E-value=13 Score=37.87 Aligned_cols=51 Identities=25% Similarity=0.397 Sum_probs=37.8
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHh
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHA 320 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HA 320 (400)
+|..|-.||+. ..++|...||.|++|+.++ +...|++.||. ..+..+-.+|
T Consensus 179 Pi~~l~giG~~--~~~~L~~~Gi~TigdL~~~---~~~~L~~rfG~----~~~~~L~~~a 229 (351)
T PRK01216 179 DIADIPGIGDI--TAEKLKKLGVNKLVDTLRI---EFDELKGIIGE----AKAKYLFSLA 229 (351)
T ss_pred CcccccCCCHH--HHHHHHHcCCCcHHHHhcC---CHHHHHHHHCH----HHHHHHHHHh
Confidence 57777777764 4589999999999998876 77889999973 2344444555
No 30
>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=39.77 E-value=13 Score=38.26 Aligned_cols=54 Identities=22% Similarity=0.233 Sum_probs=39.1
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
+|..|-+||+. .-++|...||.|++|+..+- .++..|++.||. +.+..+..+|.
T Consensus 223 Pv~~l~GIG~~--~~~~L~~~Gi~t~~dl~~~~-~~~~~L~~~fG~----~~g~~L~~~a~ 276 (404)
T cd01701 223 KVGDLPGVGSS--LAEKLVKLFGDTCGGLELRS-KTKEKLQKVLGP----KTGEKLYDYCR 276 (404)
T ss_pred CHhHhCCCCHH--HHHHHHHcCCcchHHHHhCc-ccHHHHHHHHCH----HHHHHHHHHhC
Confidence 56777777764 55899999999999999871 127889999974 34555555554
No 31
>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=39.71 E-value=14 Score=37.82 Aligned_cols=55 Identities=15% Similarity=0.236 Sum_probs=37.5
Q ss_pred cceeeeeeccCchhhhh-hhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhcc
Q 015789 261 DVWRLEKIGKDGSFHKR-LNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKT 322 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~-L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAkt 322 (400)
+|..|-.||+ ..-++ |...||.|++|+.++. .++..|++.||. +.++.+..+|.-
T Consensus 183 pv~~l~GiG~--~~~~~ll~~~Gi~ti~dl~~~~-~~~~~L~~~fG~----~~g~~l~~~a~G 238 (359)
T cd01702 183 PITSIRGLGG--KLGEEIIDLLGLPTEGDVAGFR-SSESDLQEHFGE----KLGEWLYNLLRG 238 (359)
T ss_pred cHHHhCCcCH--HHHHHHHHHcCCcCHHHHHhcc-CCHHHHHHHHHH----HHHHHHHHHhCC
Confidence 4667777774 22244 5889999999998764 578889999874 334444455543
No 32
>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=39.16 E-value=15 Score=29.02 Aligned_cols=37 Identities=27% Similarity=0.419 Sum_probs=23.2
Q ss_pred hhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHH
Q 015789 275 HKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEAL 316 (400)
Q Consensus 275 hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~ 316 (400)
...|..+||+||+|++++ +++.|.++= |+..+.-+.+
T Consensus 24 ~n~L~~~~I~tv~dL~~~---s~~~L~~i~--n~G~ksl~EI 60 (66)
T PF03118_consen 24 YNCLKRAGIHTVGDLVKY---SEEDLLKIK--NFGKKSLEEI 60 (66)
T ss_dssp HHHHHCTT--BHHHHHCS----HHHHHTST--TSHHHHHHHH
T ss_pred HHHHHHhCCcCHHHHHhC---CHHHHHhCC--CCCHhHHHHH
Confidence 356899999999997766 667777774 3445544443
No 33
>COG3743 Uncharacterized conserved protein [Function unknown]
Probab=38.95 E-value=35 Score=31.16 Aligned_cols=59 Identities=25% Similarity=0.393 Sum_probs=41.0
Q ss_pred ccceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHH-HHHHhcc
Q 015789 260 DDVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEA-LLDHAKT 322 (400)
Q Consensus 260 DeVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~-~v~HAkt 322 (400)
|+.-+|.+||. ++-+.|+..||+|-.+.-.+-..|-..+-..| +..-+.|.. -|+.|+.
T Consensus 67 DDLt~I~GIGP--k~e~~Ln~~GI~tfaQIAAwt~~di~~id~~l--~f~GRi~RDdWi~QAk~ 126 (133)
T COG3743 67 DDLTRISGIGP--KLEKVLNELGIFTFAQIAAWTRADIAWIDDYL--NFDGRIERDDWIAQAKA 126 (133)
T ss_pred ccchhhcccCH--HHHHHHHHcCCccHHHHHhcCHHHHHHHHhhc--CCcchhHHHHHHHHHHH
Confidence 99999999998 46789999999996655444333333444445 567777765 6666653
No 34
>PRK01810 DNA polymerase IV; Validated
Probab=38.40 E-value=18 Score=37.10 Aligned_cols=51 Identities=27% Similarity=0.370 Sum_probs=37.9
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAK 321 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAk 321 (400)
+|..|-+||+. .-++|...||+|++|+.++ ++..|++.||. .+..+.+||.
T Consensus 180 pv~~l~giG~~--~~~~L~~~Gi~tigdL~~~---~~~~L~~rfG~-----~g~~l~~~a~ 230 (407)
T PRK01810 180 PVGEMHGIGEK--TAEKLKDIGIQTIGDLAKA---DEHILRAKLGI-----NGVRLQRRAN 230 (407)
T ss_pred CHhhcCCcCHH--HHHHHHHcCCCcHHHHHhC---CHHHHHHHHhH-----HHHHHHHHhc
Confidence 45555566664 3478999999999999775 77889999963 3555666776
No 35
>PF11754 Velvet: Velvet factor; InterPro: IPR021740 The velvet factor is conserved in many fungal species and is found to have gained different roles depending on the organism's need, expanding the conserved role in developmental programmes []. The velvet factor orthologues can be adapted to the fungal-specific life cycle and may be involved in diverse functions such as sclerotia formation and toxin production, as in Aspergillus parasiticus [], nutrition-dependent sporulation, as in A. fumigatus [], or the microconidia-to-macroconidia ratio and cell wall formation, as in the heterothallic fungus Gibberella moniliformis (Fusarium verticillioides).
Probab=35.78 E-value=82 Score=29.87 Aligned_cols=62 Identities=26% Similarity=0.311 Sum_probs=37.9
Q ss_pred ccccccceEEEe---e--cce--eccCCeEeecCCccccccccEEEEEeecCCC-------CcceeeeecccceEEeec
Q 015789 181 RPLLTGDLQVTL---K--EGV--GTLGDLTFTDNSSWIRSRKFRLGLKVASGYC-------EGIRIREAKTEAFTVKDH 245 (400)
Q Consensus 181 ~pLL~Gdl~v~L---~--~Gv--a~l~di~FTDnSs~~rSrKFRLgaRv~~~~~-------~g~RI~EAvse~FvVkd~ 245 (400)
.+.|.|.+...+ + +|. |.. ..|.|=|-.+ -+.|||-.++..=.. ...-+-|+.|+||.|-..
T Consensus 97 ~r~L~Gs~vss~~~l~d~~~~~~g~f--FvF~DLsVR~-eG~frLrf~l~~i~~~~~~~~~~~~~la~~~S~~F~V~s~ 172 (203)
T PF11754_consen 97 TRNLVGSLVSSAFRLKDPDGKEPGGF--FVFPDLSVRT-EGRFRLRFSLFDIGPSPGQGGGSSPVLAEVFSDPFTVYSA 172 (203)
T ss_pred cccCcccEeeeeEEecCCCCCeEEEE--EEeCCceECc-CCEEEEEEEEEEecCCccccCCCCcEEEEEECcCEEEECH
Confidence 467888865443 2 333 211 2344444322 578999998875422 235589999999999653
No 36
>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=35.34 E-value=19 Score=37.26 Aligned_cols=58 Identities=17% Similarity=0.186 Sum_probs=38.5
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHhh------------cChHHHHHHHcCCCChhhHHHHHHHhcccc
Q 015789 261 DVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVV------------RDPQKLRSILGSGMSNKMWEALLDHAKTCV 324 (400)
Q Consensus 261 eVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~------------~d~~kLR~iLg~gms~k~We~~v~HAktCv 324 (400)
+|..|-+||+... ++|.+.||.|++|+..+-+ .+++.|++.||. +.+..+.++|.--+
T Consensus 173 pv~~l~GiG~~~~--~kL~~~GI~tigdl~~~~~~~~~~~~~~~~~~s~~~L~~~fG~----~~g~~l~~~a~G~d 242 (379)
T cd01703 173 DLRKIPGIGYKTA--AKLEAHGISSVRDLQEFSNRNRQTVGAAPSLLELLLMVKEFGE----GIGQRIWKLLFGRD 242 (379)
T ss_pred CccccCCcCHHHH--HHHHHcCCCcHHHHHhCCcccccccccccccccHHHHHHHHCH----HHHHHHHHHHCCCC
Confidence 3444556776544 8999999999999987631 117789999864 33445555665433
No 37
>PRK07758 hypothetical protein; Provisional
Probab=29.69 E-value=64 Score=27.93 Aligned_cols=37 Identities=22% Similarity=0.405 Sum_probs=25.4
Q ss_pred hhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHH
Q 015789 276 KRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALL 317 (400)
Q Consensus 276 k~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v 317 (400)
..|..+||+||+|+.++ +++.|-++= |+..+.-+.+.
T Consensus 48 N~Lk~AGI~TL~dLv~~---te~ELl~ik--nlGkKSL~EIk 84 (95)
T PRK07758 48 RALEHHGIHTVEELSKY---SEKEILKLH--GMGPASLPKLR 84 (95)
T ss_pred HHHHHcCCCcHHHHHcC---CHHHHHHcc--CCCHHHHHHHH
Confidence 45889999999998765 555566663 45555555544
No 38
>KOG4233 consensus DNA-bridging protein BAF [Chromatin structure and dynamics; Replication, recombination and repair]
Probab=29.32 E-value=58 Score=27.67 Aligned_cols=60 Identities=28% Similarity=0.422 Sum_probs=39.7
Q ss_pred CCCCccceeeeeeccCchhhhhhhhcCCcc----HHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccc
Q 015789 256 PALNDDVWRLEKIGKDGSFHKRLNNAGIFS----VEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTC 323 (400)
Q Consensus 256 P~L~DeVwRLekIgKdG~~hk~L~~~~I~t----V~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktC 323 (400)
|+=+-+|--|.+||.. +-.+|..+|+.. .++|| ++.+|++-.+.-|. ..--++-+||++|
T Consensus 15 PmGeK~V~~laGIg~~--lg~~L~~~GfdkAYvllGQfL-llkKdE~lF~~Wlk-----~~~gat~~~a~~~ 78 (90)
T KOG4233|consen 15 PMGEKDVTWLAGIGET--LGIKLVDAGFDKAYVLLGQFL-LLKKDEDLFQEWLK-----ETCGATAKQAQDC 78 (90)
T ss_pred ccCCCcceeeccccHH--hhhhHHhccccHHHHHHHHHH-HhcccHHHHHHHHH-----HHcCccHHHHHHH
Confidence 5666788899999874 557899999976 46776 34678765444331 1112366777776
No 39
>PF06594 HCBP_related: Haemolysin-type calcium binding protein related domain; InterPro: IPR010566 This family consists of a number of bacteria specific domains, which are found in haemolysin-type calcium binding proteins. This family is found in conjunction with IPR001343 from INTERPRO and is often found in multiple copies.
Probab=29.31 E-value=36 Score=24.42 Aligned_cols=18 Identities=22% Similarity=0.612 Sum_probs=15.2
Q ss_pred eeccCCeEeecCCccccc
Q 015789 196 VGTLGDLTFTDNSSWIRS 213 (400)
Q Consensus 196 va~l~di~FTDnSs~~rS 213 (400)
-..+..+.|-|++.|++.
T Consensus 24 ~~~Ie~i~FaDGt~w~~~ 41 (43)
T PF06594_consen 24 SYRIEQIEFADGTVWTRA 41 (43)
T ss_pred CCcEeEEEEcCCCEecHH
Confidence 567889999999999863
No 40
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=28.57 E-value=29 Score=30.37 Aligned_cols=38 Identities=37% Similarity=0.675 Sum_probs=28.4
Q ss_pred eeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHc
Q 015789 263 WRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILG 305 (400)
Q Consensus 263 wRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg 305 (400)
.|..+||. .|..-|..+||.||+++-. .+|++|.+-++
T Consensus 56 ~ri~gi~~--~~a~LL~~AGv~Tv~~LA~---~~p~~L~~~l~ 93 (122)
T PF14229_consen 56 MRIPGIGP--QYAELLEHAGVDTVEELAQ---RNPQNLHQKLG 93 (122)
T ss_pred hhcCCCCH--HHHHHHHHhCcCcHHHHHh---CCHHHHHHHHH
Confidence 35555554 4668899999999999854 58888887653
No 41
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=26.84 E-value=1.1e+02 Score=25.96 Aligned_cols=38 Identities=26% Similarity=0.392 Sum_probs=27.9
Q ss_pred hcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhcc
Q 015789 280 NAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKT 322 (400)
Q Consensus 280 ~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAkt 322 (400)
...| +++||+=++-.||.||-.+- .==.|+..++-|+.
T Consensus 52 ~~k~-~~eD~~FliR~D~~Kl~Rl~----~lL~~k~~~k~ark 89 (92)
T cd07978 52 RGKV-KVEDLIFLLRKDPKKLARLR----ELLSMKDELKKARK 89 (92)
T ss_pred CCCC-CHHHHHHHHhcCHHHHHHHH----HHHHHHHHHHHHHh
Confidence 4567 99999999999997665541 11258888888875
No 42
>COG3129 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=25.09 E-value=21 Score=35.86 Aligned_cols=53 Identities=23% Similarity=0.211 Sum_probs=37.3
Q ss_pred EEEEEcccceeeeee-----cCCeeccCCCCChhhHHHHHH-HHHHHhhh-----cceeeecce
Q 015789 340 VGVVFNNIYELNGLI-----SGEQYFPADALPESQKVGLIY-IFVSAILL-----GLCFLQGSF 392 (400)
Q Consensus 340 v~l~FN~i~~lVG~~-----~~g~y~~~d~L~~~qk~~v~~-lk~~A~~~-----~~~~~~~~~ 392 (400)
+|+==||||-|+|+. |-|.-+...+|+.++-....+ =...|+.| ..|+|+|-+
T Consensus 85 IGvGAnCIYPliG~~eYgwrfvGseid~~sl~sA~~ii~~N~~l~~~I~lr~qk~~~~if~gii 148 (292)
T COG3129 85 IGVGANCIYPLIGVHEYGWRFVGSEIDSQSLSSAKAIISANPGLERAIRLRRQKDSDAIFNGII 148 (292)
T ss_pred eccCcccccccccceeecceeecCccCHHHHHHHHHHHHcCcchhhheeEEeccCccccccccc
Confidence 455679999999984 555566677787777666555 33467776 349999865
No 43
>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=24.79 E-value=40 Score=33.08 Aligned_cols=35 Identities=17% Similarity=0.278 Sum_probs=28.7
Q ss_pred eeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcC
Q 015789 267 KIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGS 306 (400)
Q Consensus 267 kIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~ 306 (400)
.||+.. -.+|.+.||+|++||..+ +...|++.||.
T Consensus 177 gig~~~--~~~L~~~Gi~t~~dl~~~---~~~~l~~rfG~ 211 (335)
T cd03468 177 RLPPET--VELLARLGLRTLGDLAAL---PRAELARRFGL 211 (335)
T ss_pred CCCHHH--HHHHHHhCcccHHHHHhC---ChHHHHhhcCH
Confidence 566654 378999999999998876 78889999974
No 44
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=24.74 E-value=29 Score=38.43 Aligned_cols=39 Identities=26% Similarity=0.385 Sum_probs=31.8
Q ss_pred CCCCCccceeeeeeccCchhhhhhhhcCCccHHHHHHHhhc
Q 015789 255 PPALNDDVWRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVR 295 (400)
Q Consensus 255 pP~L~DeVwRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~ 295 (400)
.+.|++.|..|++||+.- .+.|++-||+||.|.|..+=+
T Consensus 4 ~~~~~~~~~~l~gvg~~~--~~~l~~lgi~t~~dll~~~P~ 42 (681)
T PRK10917 4 LLLLDAPLTSLKGVGPKT--AEKLAKLGIHTVQDLLLHLPR 42 (681)
T ss_pred cccccCChhhcCCCCHHH--HHHHHHcCCCCHHHHhhcCCC
Confidence 345778999999998654 378899999999999988654
No 45
>PRK05256 condesin subunit E; Provisional
Probab=23.60 E-value=1.1e+02 Score=30.42 Aligned_cols=74 Identities=18% Similarity=0.267 Sum_probs=50.7
Q ss_pred hhhhhcCCccHHHHHHHhh--cChHHHHHHHc--CCCChhhHHHHHHHhccccC--CCceEEEeeCCCCcEEEEEcccce
Q 015789 276 KRLNNAGIFSVEDFLRLVV--RDPQKLRSILG--SGMSNKMWEALLDHAKTCVL--SGKLYVYYPEDSRNVGVVFNNIYE 349 (400)
Q Consensus 276 k~L~~~~I~tV~dFL~l~~--~d~~kLR~iLg--~gms~k~We~~v~HAktCvl--~~k~~~y~~~~~~~v~l~FN~i~~ 349 (400)
++|++.||.|+++.+.-+. .|+++|.+.++ .+-|+-+-+++-+-.++|-- ..-=.+|......+..-+=++||-
T Consensus 107 erLa~~gift~qeL~deL~~ladE~kllklvn~R~~GsDlD~~Kl~ekvr~sLrrLrRlgmI~~l~~d~~kF~iteAvfR 186 (238)
T PRK05256 107 ERLAHEGIFTQQELYDELLTLADEAKLLKLVNNRSTGSDLDKQKLQEKVRTSLNRLRRLGMVWFMGHDSSKFRITESVFR 186 (238)
T ss_pred HHHhcCCceeHHHHHHHHHHhhcHHHHHHHhcCCCCcchhhHHHHHHHHHHHHHHHHhccceeeecCCCceEEecHHHHh
Confidence 6899999999999886554 48999999984 22377778888888998863 333345544423344444455554
No 46
>PRK14626 hypothetical protein; Provisional
Probab=23.28 E-value=1e+02 Score=27.00 Aligned_cols=51 Identities=18% Similarity=0.077 Sum_probs=36.3
Q ss_pred CceEEEeeCCCCcEEEEEcccceeeeeecCCeeccCCCCChhhHHHHHHHHHHHhhh
Q 015789 327 GKLYVYYPEDSRNVGVVFNNIYELNGLISGEQYFPADALPESQKVGLIYIFVSAILL 383 (400)
Q Consensus 327 ~k~~~y~~~~~~~v~l~FN~i~~lVG~~~~g~y~~~d~L~~~qk~~v~~lk~~A~~~ 383 (400)
.+-+..... +.-|.|++|+-++++.+.++...+ ++..++.+..|...|++-
T Consensus 30 ~~~v~g~sg-gG~VkV~~nG~~ev~~i~Id~~ll-----~~ed~e~LeDLI~aA~N~ 80 (110)
T PRK14626 30 KEEIVVEVG-GGMVKVVSNGLGEIKDVEIDKSLL-----NEDEYEVLKDLLIAAFNE 80 (110)
T ss_pred ccEEEEEec-CcEEEEEEECCccEEEEEECHHHc-----CcccHHHHHHHHHHHHHH
Confidence 433444333 347889999999999999986554 455677788888777763
No 47
>COG3827 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.03 E-value=1.5e+02 Score=29.41 Aligned_cols=40 Identities=30% Similarity=0.461 Sum_probs=26.1
Q ss_pred cchHHHHHHHHhhhhHHHHHH-hhhHHHHHHhHHHHHHHHHh
Q 015789 34 PALASVIVEALKVDSLQKLCS-SLEPILRRVVSEEVERALAK 74 (400)
Q Consensus 34 p~~~~vi~e~~~~~~~q~l~~-~lEp~lrrvV~EEve~~l~~ 74 (400)
-+|-.+..|+|+- -||.-+. .|=-++.|.|+|||||..+.
T Consensus 188 rsleE~a~eMLRP-mLqdWLDkNLPtLVErLVrEEIeRv~RG 228 (231)
T COG3827 188 RSLEEMAAEMLRP-MLQDWLDKNLPTLVERLVREEIERVVRG 228 (231)
T ss_pred ccHHHHHHHHHHH-HHHHHHHccchHHHHHHHHHHHHHHHcc
Confidence 3666666666553 2443333 46667889999999997653
No 48
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=21.92 E-value=1.4e+02 Score=29.63 Aligned_cols=73 Identities=14% Similarity=0.260 Sum_probs=34.0
Q ss_pred hhHHHHHHhHHHHHHHHHhcCCCccCCCCCCCCcccCCCCCceEE-EEccCCCCCccccCceeccCCCceEEEEEe
Q 015789 56 LEPILRRVVSEEVERALAKLGPARLNNGRASPKRIEGPDGRNLQL-YFRSRLSLPLFTGGKVEGEQGAAIHVVLVD 130 (400)
Q Consensus 56 lEp~lrrvV~EEve~~l~~~~~~~~~~~rs~~~~i~~~~~~~~~L-~F~n~l~~pifTg~kI~a~~g~~I~V~L~D 130 (400)
||-++|+|+.|++-....-..++ +. .-..|.++....++.+++ +|....+..+|+.+-+..++|..+-..++.
T Consensus 90 i~~lv~~v~~e~~~~~~~~~~~~-~~-~~~~~~Gi~vVrg~svk~~~fdg~~~~~v~~~d~~~~~d~s~m~aGf~~ 163 (233)
T PRK15457 90 VAQLMEKVMKEKQSLEQGAMQPS-FK-SVTGKGGIKVIDGSSVKFGRFDGAEPHCVGLTDLVTGDDGSSMAAGFMQ 163 (233)
T ss_pred HHHHHHHHHHHHhcccccccCCC-cc-ceeCCCceEEEECCeEEEeecCCCCcccEEeeeeeccCCCCceeeEEEE
Confidence 67799999888854332110000 00 001122333333345555 454444445555555555555555444443
No 49
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=21.61 E-value=1.3e+02 Score=23.42 Aligned_cols=43 Identities=26% Similarity=0.551 Sum_probs=30.8
Q ss_pred cCCCceEEEEEeCCCCceeccCCCccceEEEEEEeCCCCC----CCCCCCC
Q 015789 119 EQGAAIHVVLVDANTGHVVTSGPEASVKLDIVVLEGDFNN----EDDDGWT 165 (400)
Q Consensus 119 ~~g~~I~V~L~D~~t~~~V~~Gplss~kvEIvVLdGDF~~----~~~e~WT 165 (400)
.||+.|.| =|..-|.+|.. |.-.+.+||+.+|+ +.- +..|+|-
T Consensus 7 ~CG~~iev--~~~~~GeiV~C-p~CGaeleVv~~~p-~~L~~ap~~~eDwG 53 (54)
T TIGR01206 7 DCGAEIEL--ENPELGELVIC-DECGAELEVVSLDP-LRLEAAPEEAEDWG 53 (54)
T ss_pred CCCCEEec--CCCccCCEEeC-CCCCCEEEEEeCCC-CEEEeCcccccccC
Confidence 57887655 34444888865 78899999999999 542 3457884
No 50
>PF11033 ComJ: Competence protein J (ComJ); InterPro: IPR020354 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. The proteins in this entry play a role in the competence of cells to be transformed. They inhibit the activity of the DNA-entry nuclease. DNA-entry nuclease inhibitor is a subunit of a 75 kDa protein complex, which governs binding and entry of donor DNA. The complex is a tetramer of two subunits of the DNA-entry nuclease and two subunits of a competence-specific protein ComJ. Only the complex is able to bind ds- and ss-DNA []. It is found in the plasma membrane.
Probab=21.40 E-value=3.4e+02 Score=24.62 Aligned_cols=27 Identities=26% Similarity=0.316 Sum_probs=20.2
Q ss_pred EEEEEeCCCCCCCCCCCCHHHhhhcccc
Q 015789 148 DIVVLEGDFNNEDDDGWTQEEFESHVVK 175 (400)
Q Consensus 148 EIvVLdGDF~~~~~e~WT~eEF~~~IV~ 175 (400)
+|.|..+||.... .+||.|+|..--+.
T Consensus 9 Qi~v~~~~~~~p~-~dWtde~i~qG~a~ 35 (125)
T PF11033_consen 9 QITVFNRDGEPPY-IDWTDEDIEQGYAW 35 (125)
T ss_pred eEEEEccCCCCcc-cccCHhHHhCccee
Confidence 5778888887654 58999999865543
No 51
>PF08806 Sep15_SelM: Sep15/SelM redox domain; InterPro: IPR014912 Sep15 and SelM are eukaryotic selenoproteins that have a thioredoxin-like domain and a surface accessible active site redox motif []. This suggests that they function as thiol-disulphide isomerases involved in disulphide bond formation in the endoplasmic reticulum []. ; PDB: 2A4H_A 2A2P_A.
Probab=21.21 E-value=51 Score=27.06 Aligned_cols=37 Identities=30% Similarity=0.390 Sum_probs=24.3
Q ss_pred EccCCCCCccccCceeccCCCceEEEEEeCCCCceecc
Q 015789 102 FRSRLSLPLFTGGKVEGEQGAAIHVVLVDANTGHVVTS 139 (400)
Q Consensus 102 F~n~l~~pifTg~kI~a~~g~~I~V~L~D~~t~~~V~~ 139 (400)
|.+.=..+.|.+=.|+-.-|++=.+.|+|.+ |+.+..
T Consensus 21 Fi~~~~~~~y~~v~vk~i~G~~P~L~l~d~~-g~~~E~ 57 (78)
T PF08806_consen 21 FIKSDVPPLYPNVEVKYIPGAPPELVLLDED-GEEVER 57 (78)
T ss_dssp HCCCCCGHHBTTEEEEEESS---EEEEE-SS-S--SEE
T ss_pred HHhccchhccCceEEEEeCCCCCEEEEEcCC-CCEEEE
Confidence 6654446889999999999999999999974 666554
No 52
>PF10148 SCHIP-1: Schwannomin-interacting protein 1; InterPro: IPR015649 SCHIP-1 is a coiled-coil protein that specifically associates with schwannomin in vitro and in vivo. The product of the neurofibromatosis type 2 (NF2) tumour suppressor gene, known as schwannomin or merlin, is involved in NF2-associated and sporadic schwannomas and meningiomas. It is closely related to the ezrin-radixin-moesin family members, which link membrane proteins to the cytoskeleton. Association with SCHIP-1 can be observed only with some naturally occurring mutants of schwannomin, or a schwannomin spliced isoform lacking exons 2 and 3, but not with the schwannomin isoform exhibiting growth-suppressive activity []. This entry consists of mammalian SCHIP-1 proteins from Mus musculus (Mouse) and Homo sapiens (Human).
Probab=21.02 E-value=1.4e+02 Score=29.74 Aligned_cols=46 Identities=28% Similarity=0.314 Sum_probs=25.8
Q ss_pred HHhHHHHHHHHHhcCCC------ccCC---CCCCCCcccCCCCCceEEEEccCCCC
Q 015789 62 RVVSEEVERALAKLGPA------RLNN---GRASPKRIEGPDGRNLQLYFRSRLSL 108 (400)
Q Consensus 62 rvV~EEve~~l~~~~~~------~~~~---~rs~~~~i~~~~~~~~~L~F~n~l~~ 108 (400)
|-=+|||++.|+= ++- .|+. ++.+....--+.+.++|.||.|.++.
T Consensus 6 r~eREeIrrrlA~-g~~~ed~~~~yt~~~~~~k~sl~~RLqsgmNLQVCFmNE~~s 60 (238)
T PF10148_consen 6 RNEREEIRRRLAM-GSFAEDNWEKYTSSSKSGKPSLSSRLQSGMNLQVCFMNETSS 60 (238)
T ss_pred cccHHHHHHHHhc-CCcccccceeccccccCCCcccccccCCCceeeEEeecCCCC
Confidence 3447888888772 211 1221 11122222235578999999999754
No 53
>COG5340 Predicted transcriptional regulator [Transcription]
Probab=20.95 E-value=58 Score=32.60 Aligned_cols=40 Identities=18% Similarity=0.327 Sum_probs=33.7
Q ss_pred hhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHH
Q 015789 278 LNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLD 318 (400)
Q Consensus 278 L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~ 318 (400)
-+.++|.|+.|--.+...+|+.||++++. +.+|.|=.=|+
T Consensus 25 ae~hkiiTirdvae~~ev~~n~lr~lasr-LekkG~LeRi~ 64 (269)
T COG5340 25 AEGHKIITIRDVAETLEVAPNTLRELASR-LEKKGWLERIL 64 (269)
T ss_pred HHhCceEEeHHhhhhccCCHHHHHHHHhh-hhhcchhhhhc
Confidence 34579999999999999999999999964 88899965443
No 54
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=20.90 E-value=1.1e+02 Score=30.42 Aligned_cols=58 Identities=22% Similarity=0.251 Sum_probs=44.2
Q ss_pred eeeeeeccCchhhhhhhhcCCccHHHHHHHhhcChHHHHHHHcCCCChhhHHHHHHHhccccCCC
Q 015789 263 WRLEKIGKDGSFHKRLNNAGIFSVEDFLRLVVRDPQKLRSILGSGMSNKMWEALLDHAKTCVLSG 327 (400)
Q Consensus 263 wRLekIgKdG~~hk~L~~~~I~tV~dFL~l~~~d~~kLR~iLg~gms~k~We~~v~HAktCvl~~ 327 (400)
-.|.+||+. ..++|-++|+.||++...+ +++.|.++- |++.+.=+.+.+|...-..++
T Consensus 6 ~~IpGIG~k--rakkLl~~GF~Sve~Ik~A---S~eEL~~V~--GIg~k~AekI~e~l~~~~~~~ 63 (232)
T PRK12766 6 EDISGVGPS--KAEALREAGFESVEDVRAA---DQSELAEVD--GIGNALAARIKADVGGLEVSE 63 (232)
T ss_pred ccCCCcCHH--HHHHHHHcCCCCHHHHHhC---CHHHHHHcc--CCCHHHHHHHHHHhccccccc
Confidence 345666664 4478999999999998876 778888885 688999999999987544433
Done!