Query 006879
Match_columns 627
No_of_seqs 148 out of 174
Neff 4.0
Searched_HMMs 46136
Date Thu Mar 28 15:48:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006879.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006879hhsearch_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 1E-121 3E-126 937.6 29.5 299 91-392 1-299 (299)
2 TIGR02239 recomb_RAD51 DNA rep 86.0 0.8 1.7E-05 48.7 4.0 50 267-321 12-61 (316)
3 TIGR02238 recomb_DMC1 meiotic 83.7 1.1 2.3E-05 47.8 3.8 50 267-321 12-61 (313)
4 PLN03186 DNA repair protein RA 83.6 1.1 2.4E-05 48.4 3.8 62 255-321 27-88 (342)
5 PRK04301 radA DNA repair and r 77.8 1.4 3E-05 46.4 2.1 57 255-318 7-63 (317)
6 PLN03187 meiotic recombination 76.4 2 4.3E-05 46.6 2.9 61 255-320 30-90 (344)
7 PF14520 HHH_5: Helix-hairpin- 69.4 0.81 1.8E-05 37.0 -1.6 50 259-315 10-59 (60)
8 PTZ00035 Rad51 protein; Provis 68.6 5.2 0.00011 43.1 3.8 61 255-320 22-82 (337)
9 PRK03609 umuC DNA polymerase V 66.1 4.3 9.2E-05 44.5 2.6 52 255-316 180-231 (422)
10 PF14229 DUF4332: Domain of un 62.9 8.9 0.00019 35.7 3.7 52 268-321 7-60 (122)
11 TIGR02236 recomb_radA DNA repa 62.8 4.7 0.0001 42.0 2.1 52 259-317 4-55 (310)
12 PRK02406 DNA polymerase IV; Va 62.7 6 0.00013 41.9 2.9 52 255-316 169-220 (343)
13 PRK03352 DNA polymerase IV; Va 50.9 5.8 0.00013 42.0 0.4 41 255-300 178-218 (346)
14 PRK03348 DNA polymerase IV; Pr 49.0 8.4 0.00018 43.0 1.3 53 255-316 181-233 (454)
15 PRK14133 DNA polymerase IV; Pr 49.0 15 0.00032 39.1 3.1 51 255-315 174-224 (347)
16 PRK03858 DNA polymerase IV; Va 48.8 7.4 0.00016 41.9 0.8 41 255-300 174-214 (396)
17 PRK02794 DNA polymerase IV; Pr 47.0 14 0.0003 40.6 2.5 55 255-319 210-264 (419)
18 PRK01172 ski2-like helicase; P 46.9 17 0.00037 42.1 3.4 51 259-316 617-667 (674)
19 cd01700 PolY_Pol_V_umuC umuC s 46.3 14 0.00029 39.3 2.3 51 255-315 177-227 (344)
20 cd03586 PolY_Pol_IV_kappa DNA 43.6 18 0.0004 37.7 2.8 52 255-316 172-223 (334)
21 PRK01810 DNA polymerase IV; Va 40.5 20 0.00043 39.0 2.5 51 255-315 180-230 (407)
22 PRK03103 DNA polymerase IV; Re 40.0 20 0.00044 38.9 2.5 52 255-316 182-233 (409)
23 COG3743 Uncharacterized conser 39.4 34 0.00075 33.1 3.6 59 254-316 67-126 (133)
24 PF04994 TfoX_C: TfoX C-termin 38.0 11 0.00024 32.9 0.1 73 256-368 5-78 (81)
25 cd00424 PolY Y-family of DNA p 36.6 24 0.00053 37.4 2.4 56 255-320 174-230 (343)
26 cd01701 PolY_Rev1 DNA polymera 32.5 19 0.0004 39.5 0.7 54 255-315 223-276 (404)
27 PRK01216 DNA polymerase IV; Va 32.4 20 0.00043 38.9 0.9 51 255-314 179-229 (351)
28 PF02889 Sec63: Sec63 Brl doma 31.2 32 0.00069 35.6 2.1 55 255-316 149-203 (314)
29 PF10691 DUF2497: Protein of u 31.0 83 0.0018 27.5 4.3 38 30-68 33-72 (73)
30 cd01702 PolY_Pol_eta DNA Polym 29.4 23 0.0005 38.4 0.8 55 255-316 183-238 (359)
31 cd07978 TAF13 The TATA Binding 27.5 94 0.002 28.0 4.2 35 274-316 52-89 (92)
32 PF03118 RNA_pol_A_CTD: Bacter 26.9 28 0.0006 29.3 0.7 27 269-298 24-50 (66)
33 cd01703 PolY_Pol_iota DNA Poly 26.6 29 0.00062 38.1 1.0 57 256-318 174-242 (379)
34 PF07340 Herpes_IE1: Cytomegal 25.8 76 0.0016 35.5 3.9 25 6-30 1-26 (392)
35 KOG4233 DNA-bridging protein B 25.3 70 0.0015 28.8 2.9 60 250-317 15-78 (90)
36 PF14229 DUF4332: Domain of un 24.7 41 0.00088 31.3 1.4 39 256-299 55-93 (122)
37 PF06594 HCBP_related: Haemoly 21.4 54 0.0012 25.1 1.3 18 190-207 24-41 (43)
38 COG3355 Predicted transcriptio 21.3 2.4E+02 0.0051 27.2 5.8 40 266-305 31-74 (126)
39 PRK10917 ATP-dependent DNA hel 21.2 36 0.00078 40.0 0.4 38 250-289 5-42 (681)
40 PF11033 ComJ: Competence prot 20.7 3E+02 0.0064 26.6 6.3 26 142-168 9-34 (125)
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=1.3e-121 Score=937.57 Aligned_cols=299 Identities=69% Similarity=1.159 Sum_probs=295.1
Q ss_pred ceEEEEcCCCCCCcccCCcccccCCCceEEEEEeCCCCceeccCCCccceEEEEEeeCCCCCCCCCCCCHHHHhhccccc
Q 006879 91 NLQLHFRTRLSLPLFTGGKVEGEQGTAIHIVLIDANTGHVVTTGPESLVKLDVVVLEGDFNNEDDDNWTQEEFVSHVVKE 170 (627)
Q Consensus 91 ~~~L~F~n~l~~pifTg~kI~ae~g~~I~V~L~D~~tg~iVt~GplSs~kiEIvVLdGDF~~~~~e~WT~eEF~~~IVk~ 170 (627)
+|||+|+|+|++|||||++|+|+||+||+|+|+|++|+ |++||+|++|||||||||||+++++++||+|||++|||++
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 58999999999999999999999999999999999988 9999999999999999999999999999999999999999
Q ss_pred CCCCcCccceeEEEEecCceeeccCceeecCCCcccccccEEEEEeecCCCCccceeeecccceEEeeCCccccccCCCC
Q 006879 171 REGKRPLLSGDLQVTLKEGVGTLGDLTFTDNSSWIRSRKFRLGLKVASGYCEGIRIREAKTDAFTVKDHRGELYKKHYPP 250 (627)
Q Consensus 171 ReGk~pLL~Gdl~v~L~~Gva~l~di~FTDnSsw~rSrKFRLgaRvv~~~~~g~RI~EAvsE~FvVkDhRge~ykKh~pP 250 (627)
|+||+|||+|+|+|+|+||+|+|+||+|||||||+|||||||||||+++++.|+|||||+||||+|||||||+|||||||
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCCceEEEecCC
Q 006879 251 ALNDEVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSGKLYVYYPDD 330 (627)
Q Consensus 251 ~L~DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~ 330 (627)
+|+|||||||||||||+|||+|+.+||+||+|||+++++||++||+|||+|||++||++||+|||||++++++|+|| ++
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 56
Q ss_pred CCceEEEEccccceeeeecCCeeecCCCCChHhHHHHHHHHHHHHhcccccccccCcccCCc
Q 006879 331 PRNVGVVFNNIYEFCGLIADGQYHSADSLSESQKVHVDTLVKKAYDNWMHVIEYDGKSLLGF 392 (627)
Q Consensus 331 ~~nvgl~FN~i~~lvG~~~~g~y~s~d~L~~~qk~~V~~Lk~~AY~nw~~~~e~D~~~l~n~ 392 (627)
++|++|+|||||+||||+|+|+|++.|+||+.||++|++||++||+||++|++||++|++||
T Consensus 238 ~~nv~l~FN~i~~lvga~~~g~y~s~d~L~~~qK~~v~~Lv~~AY~n~~~l~e~d~~~~~n~ 299 (299)
T PF07887_consen 238 EQNVGLFFNCIYELVGAIFGGQYVSLDNLSSAQKAYVDKLVKQAYENWDNLEEYDGKMLNNY 299 (299)
T ss_pred CCceEEEEcchhhEEeEEECCEEEehHHcCHHHHHHHHHHHHHHHHhhhhheecccchhccC
Confidence 79999999999999999999999999999999999999999999999999999999999986
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=85.96 E-value=0.8 Score=48.68 Aligned_cols=50 Identities=30% Similarity=0.353 Sum_probs=43.7
Q ss_pred hhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCC
Q 006879 267 SFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSG 321 (627)
Q Consensus 267 ~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 321 (627)
.--++|+++||.||+||+. .++..|.+++ |+|...++.+..||.+|....
T Consensus 12 ~~~~~l~~~g~~t~~~~~~---~~~~~L~~i~--~ls~~~~~~~~~~~~~~~~~~ 61 (316)
T TIGR02239 12 ADIKKLQEAGLHTVESVAY---APKKQLLEIK--GISEAKADKILAEAAKLVPMG 61 (316)
T ss_pred HHHHHHHHcCCCcHHHHHh---CCHHHHHHHh--CCCHHHHHHHHHHHHHhcccc
Confidence 4568999999999999987 4899999998 799999999999999996543
No 3
>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=83.72 E-value=1.1 Score=47.75 Aligned_cols=50 Identities=28% Similarity=0.349 Sum_probs=43.3
Q ss_pred hhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCC
Q 006879 267 SFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSG 321 (627)
Q Consensus 267 ~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 321 (627)
.--++|+++||.||+||+.. ++..|.++. |+|...++.+++.|+.+...+
T Consensus 12 ~~~~~L~~~g~~t~~~~~~~---~~~~L~~~~--gls~~~~~~i~~~~~~~~~~~ 61 (313)
T TIGR02238 12 ADIKKLKSAGICTVNGVIMT---TRRALCKIK--GLSEAKVDKIKEAASKIINPG 61 (313)
T ss_pred HHHHHHHHcCCCcHHHHHhC---CHHHHHHhc--CCCHHHHHHHHHHHHhhhccc
Confidence 45689999999999998764 889999997 799999999999999886553
No 4
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=83.58 E-value=1.1 Score=48.37 Aligned_cols=62 Identities=27% Similarity=0.314 Sum_probs=48.9
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCC
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSG 321 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 321 (627)
++-+|+.-|-.-.--++|.++||.||+||+.+ ++..|.+|+ |+|....+.+++||.+|....
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 34455443333456789999999999998764 788999998 799999999999998886544
No 5
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=77.81 E-value=1.4 Score=46.36 Aligned_cols=57 Identities=19% Similarity=0.307 Sum_probs=45.7
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCV 318 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 318 (627)
++-.|.+||+ ...++|.++||+|++|++. .|+..|.+++ |++.+.++.+++-|+.|+
T Consensus 7 ~l~~l~gIg~--~~a~~L~~~Gi~t~~dl~~---~~~~~L~~~~--g~~~~~a~~l~~~a~~~~ 63 (317)
T PRK04301 7 DLEDLPGVGP--ATAEKLREAGYDTVEAIAV---ASPKELSEAA--GIGESTAAKIIEAAREAA 63 (317)
T ss_pred cHhhcCCCCH--HHHHHHHHcCCCCHHHHHc---CCHHHHHHhc--CCCHHHHHHHHHHHHHhh
Confidence 3445556665 4569999999999999965 5999999998 678889999998888654
No 6
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=76.41 E-value=2 Score=46.63 Aligned_cols=61 Identities=23% Similarity=0.331 Sum_probs=48.0
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccC
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLS 320 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 320 (627)
++..|+.-|-.=.--++|.++||+||+|++.. ++..|-++. |+|....+.+++.|+..+..
T Consensus 30 ~~~~l~~~g~~~~~~~kL~~~g~~tv~~~~~~---~~~~L~~~~--g~s~~~~~ki~~~a~~~~~~ 90 (344)
T PLN03187 30 SIDKLISQGINAGDVKKLQDAGIYTCNGLMMH---TKKNLTGIK--GLSEAKVDKICEAAEKLLNQ 90 (344)
T ss_pred CHHHHhhCCCCHHHHHHHHHcCCCcHHHHHhC---CHHHHHHhc--CCCHHHHHHHHHHHHHhhcc
Confidence 35666553444456699999999999998764 788899986 79999999999999876543
No 7
>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=69.41 E-value=0.81 Score=37.01 Aligned_cols=50 Identities=30% Similarity=0.499 Sum_probs=39.9
Q ss_pred eeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 006879 259 LEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 315 (627)
Q Consensus 259 LekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 315 (627)
+.+||+. ..++|.+.||.|++|+.. .+++.|.++= |++.+.=+.+++.|+
T Consensus 10 I~Gig~~--~a~~L~~~G~~t~~~l~~---a~~~~L~~i~--Gig~~~a~~i~~~~~ 59 (60)
T PF14520_consen 10 IPGIGPK--RAEKLYEAGIKTLEDLAN---ADPEELAEIP--GIGEKTAEKIIEAAR 59 (60)
T ss_dssp STTCHHH--HHHHHHHTTCSSHHHHHT---SHHHHHHTST--TSSHHHHHHHHHHHH
T ss_pred CCCCCHH--HHHHHHhcCCCcHHHHHc---CCHHHHhcCC--CCCHHHHHHHHHHHh
Confidence 4556665 348899999999999866 4788899975 788999999998886
No 8
>PTZ00035 Rad51 protein; Provisional
Probab=68.63 E-value=5.2 Score=43.09 Aligned_cols=61 Identities=30% Similarity=0.349 Sum_probs=47.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccC
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLS 320 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 320 (627)
++-.|+.-|-.=.--++|.++||+||+||+. .++..|-++. |+|...=+.+++.|+.++..
T Consensus 22 ~~~~l~~~g~~~~~~~kL~~~g~~t~~~~~~---~~~~~L~~~~--gis~~~~~~i~~~~~~~~~~ 82 (337)
T PTZ00035 22 EIEKLQSAGINAADIKKLKEAGICTVESVAY---ATKKDLCNIK--GISEAKVEKIKEAASKLVPM 82 (337)
T ss_pred cHHHHhcCCCCHHHHHHHHHcCCCcHHHHHh---CCHHHHHHhh--CCCHHHHHHHHHHHHHhccc
Confidence 4555654333334569999999999999876 4788999997 79999999999999887643
No 9
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed
Probab=66.09 E-value=4.3 Score=44.47 Aligned_cols=52 Identities=21% Similarity=0.273 Sum_probs=41.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
.|..|-+||+. ..++|.+.||+|++|+.++ ++..|++.||. .+..+..||.-
T Consensus 180 Pv~~l~GiG~~--~~~~L~~lGi~TigdL~~~---~~~~L~~~fG~-----~~~~l~~~a~G 231 (422)
T PRK03609 180 PVEEVWGVGRR--ISKKLNAMGIKTALDLADT---NIRFIRKHFNV-----VLERTVRELRG 231 (422)
T ss_pred ChhhcCCccHH--HHHHHHHcCCCcHHHHhcC---CHHHHHHHHCH-----HHHHHHHHhCC
Confidence 45556678774 4599999999999999985 88999999973 57788888753
No 10
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=62.93 E-value=8.9 Score=35.68 Aligned_cols=52 Identities=29% Similarity=0.289 Sum_probs=38.0
Q ss_pred hhhhhhhcCCccHHHHHHHHhhChHH--HHHHHccCCCchhHHHHHHhhcccccCC
Q 006879 268 FHKRLNKAGIFTVEDFLRLVVRDSQR--LRNILGSGMSNKMWDVLVDHAKTCVLSG 321 (627)
Q Consensus 268 ~hkrL~~~gI~tV~dFLrl~~~d~~k--LR~iLg~gmS~k~We~~v~HAktCvl~~ 321 (627)
..++|+..||+|++|||..-.....+ |-+-+ |++.+-=...+.+|.=|...+
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 55899999999999999986655444 55554 678877677777776654444
No 11
>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=62.81 E-value=4.7 Score=42.02 Aligned_cols=52 Identities=23% Similarity=0.331 Sum_probs=40.0
Q ss_pred eeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhccc
Q 006879 259 LEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTC 317 (627)
Q Consensus 259 LekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktC 317 (627)
|.+||+. ..++|.++||.|++|++. .|++.|.+++ |++.+..+.+.+-|+.|
T Consensus 4 i~gig~~--~~~~L~~~Gi~ti~dl~~---~~~~~L~~~~--g~~~~~a~~l~~~~~~~ 55 (310)
T TIGR02236 4 LPGVGPA--TAEKLREAGYDTFEAIAV---ASPKELSEIA--GISEGTAAKIIQAARKA 55 (310)
T ss_pred cCCCCHH--HHHHHHHcCCCCHHHHHc---CCHHHHHhcc--CCCHHHHHHHHHHHHHH
Confidence 4455543 458999999999999877 4899999998 57777777777777643
No 12
>PRK02406 DNA polymerase IV; Validated
Probab=62.73 E-value=6 Score=41.90 Aligned_cols=52 Identities=25% Similarity=0.384 Sum_probs=40.2
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
+|..|-+||+. .-++|...||+|++|+.++ +...|++.||. .+..+.+||.-
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 56667677754 4588999999999999885 78899999973 46666677653
No 13
>PRK03352 DNA polymerase IV; Validated
Probab=50.91 E-value=5.8 Score=42.03 Aligned_cols=41 Identities=32% Similarity=0.357 Sum_probs=33.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGS 300 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~ 300 (627)
+|..|-+||+. ..++|...||+|++|++++ ++..|++.||.
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 4588999999999999985 78899999975
No 14
>PRK03348 DNA polymerase IV; Provisional
Probab=48.98 E-value=8.4 Score=43.00 Aligned_cols=53 Identities=30% Similarity=0.392 Sum_probs=39.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
.|.+|-+||+.. -++|...||+|++||.++ +...|++.||..+ ...+..+|.-
T Consensus 181 Pv~~L~GIG~~t--~~~L~~lGI~TigDLa~l---~~~~L~~~fG~~~----g~~L~~~a~G 233 (454)
T PRK03348 181 PVRRLWGIGPVT--EEKLHRLGIETIGDLAAL---SEAEVANLLGATV----GPALHRLARG 233 (454)
T ss_pred CccccCCCCHHH--HHHHHHcCCccHHHHhcC---CHHHHHHHHCHHH----HHHHHHHHcC
Confidence 578888888754 488999999999999874 7889999997433 3334445543
No 15
>PRK14133 DNA polymerase IV; Provisional
Probab=48.97 E-value=15 Score=39.11 Aligned_cols=51 Identities=29% Similarity=0.536 Sum_probs=39.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 315 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 315 (627)
+|..|-+||+.- -++|...||+|++|++++ +...|++.|| +.|..+.++|.
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 456666676644 478999999999999874 7888999996 35777777775
No 16
>PRK03858 DNA polymerase IV; Validated
Probab=48.77 E-value=7.4 Score=41.94 Aligned_cols=41 Identities=32% Similarity=0.370 Sum_probs=33.2
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGS 300 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~ 300 (627)
+|..|-+||+.- -++|.+.||+|++|+.+ .++..|++.||.
T Consensus 174 pl~~l~Gig~~~--~~~L~~~Gi~t~~dl~~---l~~~~L~~~fG~ 214 (396)
T PRK03858 174 PVRRLWGVGPVT--AAKLRAHGITTVGDVAE---LPESALVSLLGP 214 (396)
T ss_pred ChhhcCCCCHHH--HHHHHHhCCCcHHHHhc---CCHHHHHHHhCc
Confidence 355555777754 58999999999999986 588899999975
No 17
>PRK02794 DNA polymerase IV; Provisional
Probab=46.98 E-value=14 Score=40.56 Aligned_cols=55 Identities=29% Similarity=0.227 Sum_probs=42.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhccccc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVL 319 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl 319 (627)
.|..|-+||+ ..-++|...||+|++|+.++ +...|++.||. .|..+..+|.--+.
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 45589999999999998874 78899999974 58888888875543
No 18
>PRK01172 ski2-like helicase; Provisional
Probab=46.88 E-value=17 Score=42.11 Aligned_cols=51 Identities=31% Similarity=0.586 Sum_probs=41.9
Q ss_pred eeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 259 LEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 259 LekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
|.+|++ ...++|.++||.||.|+.. .|+++|-+|+ |++++.=+.++++|+.
T Consensus 617 ip~~~~--~~a~~l~~~g~~~~~di~~---~~~~~~~~i~--~~~~~~~~~i~~~~~~ 667 (674)
T PRK01172 617 IPKVGR--VRARRLYDAGFKTVDDIAR---SSPERIKKIY--GFSDTLANAIVNRAMK 667 (674)
T ss_pred CCCCCH--HHHHHHHHcCCCCHHHHHh---CCHHHHHHHh--ccCHHHHHHHHHHHHH
Confidence 344444 4669999999999999877 7888898888 6899999999999875
No 19
>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=46.30 E-value=14 Score=39.26 Aligned_cols=51 Identities=31% Similarity=0.393 Sum_probs=39.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 315 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 315 (627)
.|..|-+||+. .-++|...||+|++|++++ +...|.+.||. .|....++|+
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 35555667764 4478999999999999985 78899999974 4667777765
No 20
>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=43.60 E-value=18 Score=37.69 Aligned_cols=52 Identities=29% Similarity=0.465 Sum_probs=40.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
+|..|-+||+ ...++|...||+|++|+.++ ++..|++.+| +.|..+.+||+-
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 44589999999999999874 7888999885 578888888864
No 21
>PRK01810 DNA polymerase IV; Validated
Probab=40.46 E-value=20 Score=38.98 Aligned_cols=51 Identities=29% Similarity=0.349 Sum_probs=38.8
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 315 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 315 (627)
+|..|-+||+. .-++|...||+|++|+.+ .+...|++.||. .+..+.+||.
T Consensus 180 pv~~l~giG~~--~~~~L~~~Gi~tigdL~~---~~~~~L~~rfG~-----~g~~l~~~a~ 230 (407)
T PRK01810 180 PVGEMHGIGEK--TAEKLKDIGIQTIGDLAK---ADEHILRAKLGI-----NGVRLQRRAN 230 (407)
T ss_pred CHhhcCCcCHH--HHHHHHHcCCCcHHHHHh---CCHHHHHHHHhH-----HHHHHHHHhc
Confidence 45555567764 448899999999999877 478889999974 4666777776
No 22
>PRK03103 DNA polymerase IV; Reviewed
Probab=39.97 E-value=20 Score=38.92 Aligned_cols=52 Identities=27% Similarity=0.349 Sum_probs=40.0
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
.|..|-+||+. .-++|...||+|++||.+ .++..|++.||. .|..+.++|.-
T Consensus 182 pi~~l~gig~~--~~~~L~~~Gi~tigdl~~---~~~~~L~~~fG~-----~~~~l~~~a~G 233 (409)
T PRK03103 182 PVRKLFGVGSR--MEKHLRRMGIRTIGQLAN---TPLERLKKRWGI-----NGEVLWRTANG 233 (409)
T ss_pred CHhhcCCccHH--HHHHHHHcCCCCHHHHhc---CCHHHHHHHHCH-----HHHHHHHHhcC
Confidence 45666677774 558899999999999886 478899999963 46777777764
No 23
>COG3743 Uncharacterized conserved protein [Function unknown]
Probab=39.38 E-value=34 Score=33.07 Aligned_cols=59 Identities=25% Similarity=0.397 Sum_probs=43.2
Q ss_pred ccceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHH-HHHhhcc
Q 006879 254 DEVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDV-LVDHAKT 316 (627)
Q Consensus 254 DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~-~v~HAkt 316 (627)
|+.-+|.+||. ++-+.|+..||+|-.+.-.+-..|-..+-..| +..-+.|.. -|+.|+.
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 57799999999997665554444444555555 677777765 6776664
No 24
>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=37.99 E-value=11 Score=32.93 Aligned_cols=73 Identities=30% Similarity=0.429 Sum_probs=43.2
Q ss_pred ceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhCh-HHHHHHHccCCCchhHHHHHHhhcccccCCceEEEecCCCCce
Q 006879 256 VWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDS-QRLRNILGSGMSNKMWDVLVDHAKTCVLSGKLYVYYPDDPRNV 334 (627)
Q Consensus 256 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~-~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~~~nv 334 (627)
+..|.+||.. .-+.|.+.||+||+||..+=.+.. -+|++. | .
T Consensus 5 l~~LpNig~~--~e~~L~~vGI~t~~~L~~~Ga~~a~~~Lk~~-~----------------------------------~ 47 (81)
T PF04994_consen 5 LKDLPNIGPK--SERMLAKVGIHTVEDLRELGAVEAYLRLKAS-G----------------------------------P 47 (81)
T ss_dssp GCGSTT--HH--HHHHHHHTT--SHHHHHHHHHHHHHHHHHHH------------------------------------T
T ss_pred hhhCCCCCHH--HHHHHHHcCCCCHHHHHHhCHHHHHHHHHHH-C----------------------------------C
Confidence 3445556654 448899999999999998755443 345544 2 1
Q ss_pred EEEEccccceeeeecCCeeecCCCCChHhHHHHH
Q 006879 335 GVVFNNIYEFCGLIADGQYHSADSLSESQKVHVD 368 (627)
Q Consensus 335 gl~FN~i~~lvG~~~~g~y~s~d~L~~~qk~~V~ 368 (627)
.+-+|-.|.|.||+-|-++ ..|++.+|....
T Consensus 48 ~~~~~~L~aL~gAi~g~~~---~~L~~~~K~~L~ 78 (81)
T PF04994_consen 48 SVCLNLLYALEGAIQGIHW---ADLPDEEKQELL 78 (81)
T ss_dssp T--HHHHHHHHHHHCTS-G---GGS-HHHHHHHH
T ss_pred CCCHHHHHHHHHHHcCCCH---HHCCHHHHHHHH
Confidence 2557788999999887543 456777776544
No 25
>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=36.64 E-value=24 Score=37.43 Aligned_cols=56 Identities=23% Similarity=0.115 Sum_probs=41.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhC-hHHHHHHHccCCCchhHHHHHHhhcccccC
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRD-SQRLRNILGSGMSNKMWDVLVDHAKTCVLS 320 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d-~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 320 (627)
+|..|-+||+. .-++|...||+|++|++++ + ...|+..+| +.+..+.++|+--+..
T Consensus 174 pi~~l~giG~~--~~~~L~~~Gi~ti~dl~~~---~~~~~l~~~fg-----~~~~~l~~~a~G~d~~ 230 (343)
T cd00424 174 PLTDLPGIGAV--TAKRLEAVGINPIGDLLAA---SPDALLALWGG-----VSGERLWYALRGIDDE 230 (343)
T ss_pred ChhhcCCCCHH--HHHHHHHcCCCcHHHHhcC---CHHHHHHHHhh-----HHHHHHHHHhCCcCCC
Confidence 46666677774 4489999999999998764 6 566777775 4678888888755443
No 26
>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=32.46 E-value=19 Score=39.54 Aligned_cols=54 Identities=22% Similarity=0.243 Sum_probs=39.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 315 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 315 (627)
.|..|-+||+. .-++|...||.|+.|+..+- .++..|++.||. +.+..+.++|.
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 55999999999999998761 127899999974 34555555554
No 27
>PRK01216 DNA polymerase IV; Validated
Probab=32.39 E-value=20 Score=38.90 Aligned_cols=51 Identities=25% Similarity=0.391 Sum_probs=38.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhh
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHA 314 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HA 314 (627)
.|..|.+||+. -.++|...||+|++|+.++ +...|++.||. ..+..+..+|
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 47777788864 4589999999999998764 77889999973 3345555566
No 28
>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=31.21 E-value=32 Score=35.58 Aligned_cols=55 Identities=25% Similarity=0.431 Sum_probs=37.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 255 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 255 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
...-|.+|+.+.+ ++|...||.|+++|+++ ++.+|..+| +......+.+.+.|..
T Consensus 149 ~L~Qlp~i~~~~~--~~l~~~~i~~l~~l~~~---~~~e~~~ll--~~~~~~~~~i~~~~~~ 203 (314)
T PF02889_consen 149 PLLQLPHIGEESL--KKLEKRGIKTLQDLRDL---SPEELEELL--NRNPPFGKEILEVASR 203 (314)
T ss_dssp GGGGSTT--HHHH--HHHHHTT--SHHHHHHS----HHHHHHHH---S-HHHHHHHHHHHCC
T ss_pred hhhcCCCCCHHHH--HHHhccCCCcHHHHhhC---CHHHHHHHH--hhhhhhHHHHHHHHHH
Confidence 3455667877665 88999999999999854 899999998 4566778888887763
No 29
>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=31.04 E-value=83 Score=27.47 Aligned_cols=38 Identities=32% Similarity=0.451 Sum_probs=27.6
Q ss_pred chhhHHHHHHHhhhhHHH-HHhhhhhhhhh-hhHHHHHHHH
Q 006879 30 PALASVIVEALKVDSLQK-LCSSLEPILRR-VSEEVERALA 68 (627)
Q Consensus 30 p~l~svi~ea~~~~s~q~-l~~~lEp~lrr-V~EEve~~l~ 68 (627)
.++-.+++|+|+-- |+. |-..|=.|+.| |++||+|..+
T Consensus 33 ~TlE~lvremLRPm-LkeWLD~nLP~lVErlVr~EIeRi~r 72 (73)
T PF10691_consen 33 RTLEDLVREMLRPM-LKEWLDENLPGLVERLVREEIERIAR 72 (73)
T ss_pred ccHHHHHHHHHHHH-HHHHHHhccHHHHHHHHHHHHHHHhc
Confidence 45667777777764 333 55568788889 9999999765
No 30
>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=29.45 E-value=23 Score=38.45 Aligned_cols=55 Identities=15% Similarity=0.249 Sum_probs=38.0
Q ss_pred cceeeeeeccCchhhhh-hhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 006879 255 EVWRLEKIGKDGSFHKR-LNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 255 eVwRLekIgKdG~~hkr-L~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 316 (627)
+|..|-+||+. .-++ |...||.|++|+.++. .++..|++.||. +.+..+.++|+-
T Consensus 183 pv~~l~GiG~~--~~~~ll~~~Gi~ti~dl~~~~-~~~~~L~~~fG~----~~g~~l~~~a~G 238 (359)
T cd01702 183 PITSIRGLGGK--LGEEIIDLLGLPTEGDVAGFR-SSESDLQEHFGE----KLGEWLYNLLRG 238 (359)
T ss_pred cHHHhCCcCHH--HHHHHHHHcCCcCHHHHHhcc-CCHHHHHHHHHH----HHHHHHHHHhCC
Confidence 46677777742 2244 5889999999998754 478889999874 344555555554
No 31
>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=27.53 E-value=94 Score=28.01 Aligned_cols=35 Identities=26% Similarity=0.489 Sum_probs=28.0
Q ss_pred hcCCccHHHHHHHHhhChHHH---HHHHccCCCchhHHHHHHhhcc
Q 006879 274 KAGIFTVEDFLRLVVRDSQRL---RNILGSGMSNKMWDVLVDHAKT 316 (627)
Q Consensus 274 ~~gI~tV~dFLrl~~~d~~kL---R~iLg~gmS~k~We~~v~HAkt 316 (627)
...| +++||+=++-.||.|| +++| .|+..++-||.
T Consensus 52 ~~k~-~~eD~~FliR~D~~Kl~Rl~~lL-------~~k~~~k~ark 89 (92)
T cd07978 52 RGKV-KVEDLIFLLRKDPKKLARLRELL-------SMKDELKKARK 89 (92)
T ss_pred CCCC-CHHHHHHHHhcCHHHHHHHHHHH-------HHHHHHHHHHh
Confidence 3467 9999999999999765 4556 68888988875
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=26.87 E-value=28 Score=29.33 Aligned_cols=27 Identities=33% Similarity=0.491 Sum_probs=18.5
Q ss_pred hhhhhhcCCccHHHHHHHHhhChHHHHHHH
Q 006879 269 HKRLNKAGIFTVEDFLRLVVRDSQRLRNIL 298 (627)
Q Consensus 269 hkrL~~~gI~tV~dFLrl~~~d~~kLR~iL 298 (627)
...|..+||+||+|++++ +++.|.++=
T Consensus 24 ~n~L~~~~I~tv~dL~~~---s~~~L~~i~ 50 (66)
T PF03118_consen 24 YNCLKRAGIHTVGDLVKY---SEEDLLKIK 50 (66)
T ss_dssp HHHHHCTT--BHHHHHCS----HHHHHTST
T ss_pred HHHHHHhCCcCHHHHHhC---CHHHHHhCC
Confidence 357899999999997664 666777774
No 33
>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=26.60 E-value=29 Score=38.09 Aligned_cols=57 Identities=14% Similarity=0.138 Sum_probs=39.7
Q ss_pred ceeeeeeccCchhhhhhhhcCCccHHHHHHHHh------------hChHHHHHHHccCCCchhHHHHHHhhcccc
Q 006879 256 VWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVV------------RDSQRLRNILGSGMSNKMWDVLVDHAKTCV 318 (627)
Q Consensus 256 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~------------~d~~kLR~iLg~gmS~k~We~~v~HAktCv 318 (627)
|-.|-+||+... ++|.+.||.|++|+..+-+ .+...|++.||. +.+..+.++|+--+
T Consensus 174 v~~l~GiG~~~~--~kL~~~GI~tigdl~~~~~~~~~~~~~~~~~~s~~~L~~~fG~----~~g~~l~~~a~G~d 242 (379)
T cd01703 174 LRKIPGIGYKTA--AKLEAHGISSVRDLQEFSNRNRQTVGAAPSLLELLLMVKEFGE----GIGQRIWKLLFGRD 242 (379)
T ss_pred ccccCCcCHHHH--HHHHHcCCCcHHHHHhCCcccccccccccccccHHHHHHHHCH----HHHHHHHHHHCCCC
Confidence 444446777654 8999999999999986541 117789999974 34556666776544
No 34
>PF07340 Herpes_IE1: Cytomegalovirus IE1 protein; InterPro: IPR010855 Expression from a human cytomegalovirus early promoter (E1.7) has been shown to be activated in trans by the IE2 gene product. Although the IE1 gene product alone had no effect on this early viral promoter, maximal early promoter activity was detected when both IE1 and IE2 gene products were present []. The IE1 protein from cytomegalovirus is also known as UL123.; GO: 0050792 regulation of viral reproduction, 0042025 host cell nucleus
Probab=25.85 E-value=76 Score=35.52 Aligned_cols=25 Identities=40% Similarity=0.583 Sum_probs=19.8
Q ss_pred hhhccccCCCCCCCC-CCCCCCCCCc
Q 006879 6 MERSNSKRGLDSSSA-EEGQPDRKRP 30 (627)
Q Consensus 6 ~~~~~~kr~~~~~~~-~~~~~kr~rp 30 (627)
||+|.+||..|+.+. ..|.||++||
T Consensus 1 ~~~~~~kr~~d~~~p~~gps~k~pr~ 26 (392)
T PF07340_consen 1 MESSAGKRKMDSAGPDPGPSPKMPRP 26 (392)
T ss_pred CCCcccCCCCCCCCCCCCCCCCCCCC
Confidence 688899999997755 3567888885
No 35
>KOG4233 consensus DNA-bridging protein BAF [Chromatin structure and dynamics; Replication, recombination and repair]
Probab=25.31 E-value=70 Score=28.82 Aligned_cols=60 Identities=25% Similarity=0.408 Sum_probs=40.1
Q ss_pred CCCCccceeeeeeccCchhhhhhhhcCCcc----HHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhccc
Q 006879 250 PALNDEVWRLEKIGKDGSFHKRLNKAGIFT----VEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTC 317 (627)
Q Consensus 250 P~L~DeVwRLekIgKdG~~hkrL~~~gI~t----V~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktC 317 (627)
|+=+-+|--|.+||.. +-.+|..+|+.. .++|| ++.+|++-.+.-|. ..--++-+||++|
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 6667789999999874 668999999975 36666 45678765555431 1112355677666
No 36
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=24.68 E-value=41 Score=31.33 Aligned_cols=39 Identities=36% Similarity=0.589 Sum_probs=30.0
Q ss_pred ceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHc
Q 006879 256 VWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILG 299 (627)
Q Consensus 256 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg 299 (627)
..|+.+||. .|..-|..+||.||+++- ..+|++|.+.++
T Consensus 55 L~ri~gi~~--~~a~LL~~AGv~Tv~~LA---~~~p~~L~~~l~ 93 (122)
T PF14229_consen 55 LMRIPGIGP--QYAELLEHAGVDTVEELA---QRNPQNLHQKLG 93 (122)
T ss_pred hhhcCCCCH--HHHHHHHHhCcCcHHHHH---hCCHHHHHHHHH
Confidence 446666665 467889999999999974 478988888653
No 37
>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=21.40 E-value=54 Score=25.10 Aligned_cols=18 Identities=22% Similarity=0.612 Sum_probs=15.1
Q ss_pred eeeccCceeecCCCcccc
Q 006879 190 VGTLGDLTFTDNSSWIRS 207 (627)
Q Consensus 190 va~l~di~FTDnSsw~rS 207 (627)
-..|..+.|-|++.|++.
T Consensus 24 ~~~Ie~i~FaDGt~w~~~ 41 (43)
T PF06594_consen 24 SYRIEQIEFADGTVWTRA 41 (43)
T ss_pred CCcEeEEEEcCCCEecHH
Confidence 567889999999999753
No 38
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=21.31 E-value=2.4e+02 Score=27.20 Aligned_cols=40 Identities=23% Similarity=0.523 Sum_probs=31.3
Q ss_pred chhhhhhhhcCCccHHHHHHHHhhCh----HHHHHHHccCCCch
Q 006879 266 GSFHKRLNKAGIFTVEDFLRLVVRDS----QRLRNILGSGMSNK 305 (627)
Q Consensus 266 G~~hkrL~~~gI~tV~dFLrl~~~d~----~kLR~iLg~gmS~k 305 (627)
.+|+..|+.+|=.||+|.-..++++. ..|++++-.|+=.+
T Consensus 31 ~v~~~LL~~~~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~R 74 (126)
T COG3355 31 EVYKALLEENGPLTVDELAEILNRSRSTVYRSLQNLLEAGLVER 74 (126)
T ss_pred HHHHHHHhhcCCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeee
Confidence 56888888999999999999999995 46777765555443
No 39
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=21.18 E-value=36 Score=40.00 Aligned_cols=38 Identities=32% Similarity=0.463 Sum_probs=31.6
Q ss_pred CCCCccceeeeeeccCchhhhhhhhcCCccHHHHHHHHhh
Q 006879 250 PALNDEVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVR 289 (627)
Q Consensus 250 P~L~DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~ 289 (627)
..|++.|-.|++||+.-+ ++|++.||+||+|.|..+=+
T Consensus 5 ~~~~~~~~~l~gvg~~~~--~~l~~lgi~t~~dll~~~P~ 42 (681)
T PRK10917 5 LLLDAPLTSLKGVGPKTA--EKLAKLGIHTVQDLLLHLPR 42 (681)
T ss_pred ccccCChhhcCCCCHHHH--HHHHHcCCCCHHHHhhcCCC
Confidence 457789999999987544 88999999999999988654
No 40
>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=20.69 E-value=3e+02 Score=26.59 Aligned_cols=26 Identities=19% Similarity=0.318 Sum_probs=19.4
Q ss_pred EEEEeeCCCCCCCCCCCCHHHHhhccc
Q 006879 142 DVVVLEGDFNNEDDDNWTQEEFVSHVV 168 (627)
Q Consensus 142 EIvVLdGDF~~~~~e~WT~eEF~~~IV 168 (627)
+|.|-.+||.... .+||.|+|..--+
T Consensus 9 Qi~v~~~~~~~p~-~dWtde~i~qG~a 34 (125)
T PF11033_consen 9 QITVFNRDGEPPY-IDWTDEDIEQGYA 34 (125)
T ss_pred eEEEEccCCCCcc-cccCHhHHhCcce
Confidence 5677888887643 4899999987554
Done!