Query 007813
Match_columns 588
No_of_seqs 147 out of 174
Neff 4.0
Searched_HMMs 46136
Date Thu Mar 28 15:41:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007813.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007813hhsearch_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-122 7E-127 935.9 29.5 299 52-353 1-299 (299)
2 TIGR02239 recomb_RAD51 DNA rep 86.2 0.76 1.6E-05 48.5 3.9 50 228-282 12-61 (316)
3 TIGR02238 recomb_DMC1 meiotic 84.4 0.97 2.1E-05 47.7 3.7 50 228-282 12-61 (313)
4 PLN03186 DNA repair protein RA 84.1 1 2.2E-05 48.3 3.8 62 216-282 27-88 (342)
5 PRK04301 radA DNA repair and r 78.9 1.2 2.6E-05 46.4 2.1 57 216-279 7-63 (317)
6 PLN03187 meiotic recombination 77.4 1.8 3.9E-05 46.6 2.9 61 216-281 30-90 (344)
7 PF14520 HHH_5: Helix-hairpin- 71.3 0.68 1.5E-05 37.1 -1.6 51 219-276 9-59 (60)
8 PTZ00035 Rad51 protein; Provis 70.0 4.6 0.0001 43.1 3.7 61 216-281 22-82 (337)
9 PRK03609 umuC DNA polymerase V 68.2 3.6 7.8E-05 44.7 2.6 52 216-277 180-231 (422)
10 PRK02406 DNA polymerase IV; Va 64.9 5.1 0.00011 42.1 2.8 52 216-277 169-220 (343)
11 TIGR02236 recomb_radA DNA repa 64.1 4.2 9.1E-05 42.0 2.0 52 220-278 4-55 (310)
12 PF14229 DUF4332: Domain of un 62.9 8.8 0.00019 35.4 3.6 52 229-282 7-60 (122)
13 PRK03352 DNA polymerase IV; Va 53.5 4.9 0.00011 42.2 0.4 41 216-261 178-218 (346)
14 PRK03348 DNA polymerase IV; Pr 52.1 6.9 0.00015 43.3 1.2 53 216-277 181-233 (454)
15 PRK03858 DNA polymerase IV; Va 51.6 6.3 0.00014 42.2 0.8 41 216-261 174-214 (396)
16 PRK14133 DNA polymerase IV; Pr 51.5 13 0.00027 39.3 3.0 51 216-276 174-224 (347)
17 PRK01172 ski2-like helicase; P 50.8 13 0.00029 42.7 3.3 45 228-277 623-667 (674)
18 PRK02794 DNA polymerase IV; Pr 49.6 12 0.00025 40.8 2.5 55 216-280 210-264 (419)
19 cd01700 PolY_Pol_V_umuC umuC s 48.6 12 0.00025 39.4 2.3 51 216-276 177-227 (344)
20 cd03586 PolY_Pol_IV_kappa DNA 46.2 16 0.00034 37.9 2.7 52 216-277 172-223 (334)
21 PRK03103 DNA polymerase IV; Re 42.4 18 0.00038 39.1 2.5 52 216-277 182-233 (409)
22 PRK01810 DNA polymerase IV; Va 42.3 18 0.00039 39.0 2.5 51 216-276 180-230 (407)
23 COG3743 Uncharacterized conser 40.9 31 0.00068 33.1 3.5 59 215-277 67-126 (133)
24 cd00424 PolY Y-family of DNA p 39.0 21 0.00046 37.6 2.3 56 216-281 174-230 (343)
25 PF04994 TfoX_C: TfoX C-termin 38.8 10 0.00022 32.8 0.0 73 217-329 5-78 (81)
26 cd01701 PolY_Rev1 DNA polymera 35.2 16 0.00034 39.8 0.7 54 216-276 223-276 (404)
27 PRK01216 DNA polymerase IV; Va 35.2 16 0.00036 39.2 0.9 52 216-276 179-230 (351)
28 PF11754 Velvet: Velvet factor 33.9 2.3E+02 0.005 28.4 8.6 62 136-200 97-172 (203)
29 PF02889 Sec63: Sec63 Brl doma 33.3 27 0.00059 35.8 2.1 56 215-277 148-203 (314)
30 cd01702 PolY_Pol_eta DNA Polym 31.4 20 0.00044 38.6 0.8 55 216-277 183-238 (359)
31 cd07978 TAF13 The TATA Binding 30.7 78 0.0017 28.3 4.2 35 235-277 52-89 (92)
32 PF03118 RNA_pol_A_CTD: Bacter 28.6 24 0.00053 29.4 0.7 27 230-259 24-50 (66)
33 cd01703 PolY_Pol_iota DNA Poly 28.4 25 0.00054 38.2 0.9 59 216-280 173-243 (379)
34 KOG4233 DNA-bridging protein B 26.3 65 0.0014 28.8 2.9 60 211-278 15-78 (90)
35 PF14229 DUF4332: Domain of un 24.7 40 0.00087 31.1 1.4 39 217-260 55-93 (122)
36 PRK10917 ATP-dependent DNA hel 23.0 31 0.00067 40.2 0.4 37 211-249 5-41 (681)
37 PF06594 HCBP_related: Haemoly 22.7 52 0.0011 24.9 1.4 18 151-168 24-41 (43)
38 COG0540 PyrB Aspartate carbamo 21.6 53 0.0012 35.6 1.7 76 117-204 14-114 (316)
39 COG3355 Predicted transcriptio 21.5 2.3E+02 0.0051 27.0 5.8 40 227-266 31-74 (126)
40 KOG3741 Poly(A) ribonuclease s 21.1 3E+02 0.0065 32.5 7.5 20 519-539 203-222 (655)
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=3.4e-122 Score=935.92 Aligned_cols=299 Identities=69% Similarity=1.159 Sum_probs=295.2
Q ss_pred ceEEEEcCCCCCCcccCCcccccCCCceEEEEEeCCCCceeccCCCccceEEEEEeeCCCCCCCCCCCCHHHHhhccccc
Q 007813 52 NLQLHFRTRLSLPLFTGGKVEGEQGTAIHIVLIDANTGHVVTTGPESLVKLDVVVLEGDFNNEDDDNWTQEEFVSHVVKE 131 (588)
Q Consensus 52 ~~qL~F~n~l~~pifTg~kI~ae~g~~I~V~L~D~~tg~iVt~GplSs~kvEIvVLdGDF~~~~~e~WT~eEF~~~IVk~ 131 (588)
+|||+|+|+|++|||||++|+|+||+||+|+|+|++|+ |++||+|++|||||||||||+++++++||+|||++|||++
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 CCCCCCccccceEEEecCceeeccCeEeecCCCcccccccEEEEEeecCCCCcceeeeecccceEEeeCCccccccCCCC
Q 007813 132 REGKRPLLSGDLQVTLKEGVGTLGDLTFTDNSSWIRSRKFRLGLKVASGYCEGIRIREAKTDAFTVKDHRGELYKKHYPP 211 (588)
Q Consensus 132 ReGk~pLL~Gdl~v~L~~Gva~l~di~FTDnSsw~rSrKFRLgaRv~~~~~~g~RI~EAvsE~FvVkDhRge~ykKh~pP 211 (588)
|+||+|||+|+|+|+|+||+|+|+||+|||||||+|||||||||||+++++.|+|||||+||||+|||||||+|||||||
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 CCCccceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCCceEEEeeCC
Q 007813 212 ALNDEVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSGKLYVYYPDD 291 (588)
Q Consensus 212 ~L~DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~ 291 (588)
+|+|||||||||||||+|||+|+++||+||+|||+++++||++||+|||+|||++||++||+|||||++++++|+|| ++
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 CCceEEEEccccceeeeecCCeeecCCCCChHhHHHHHHHHHHHHhcccceecccCcccCCc
Q 007813 292 PRNVGVVFNNIYEFCGLIADGQYHSADSLSESQKVHVDTLVKKAYDNWMHVIEYDGKSLLGF 353 (588)
Q Consensus 292 ~~nvgl~FN~i~~lvG~~~~g~y~s~d~L~~~qk~~V~~Lk~~AY~nw~~~~e~D~~~l~n~ 353 (588)
++|++|+|||||+||||+|+|+|++.|+||+.||++|++||++||+||++|++||++|++||
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 78999999999999999999999999999999999999999999999999999999999986
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=86.18 E-value=0.76 Score=48.47 Aligned_cols=50 Identities=30% Similarity=0.353 Sum_probs=43.7
Q ss_pred hhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCC
Q 007813 228 SFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSG 282 (588)
Q Consensus 228 ~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 282 (588)
.--++|+++||.||+||+. .++..|.+++ |+|...++.+.+||.+|....
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 3568999999999999986 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=84.41 E-value=0.97 Score=47.72 Aligned_cols=50 Identities=28% Similarity=0.356 Sum_probs=43.3
Q ss_pred hhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCC
Q 007813 228 SFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSG 282 (588)
Q Consensus 228 ~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 282 (588)
.--++|+++||.||+||+. .++..|.++. |+|...++.+++.|+.+...+
T Consensus 12 ~~~~~L~~~g~~t~~~~~~---~~~~~L~~~~--gls~~~~~~i~~~~~~~~~~~ 61 (313)
T TIGR02238 12 ADIKKLKSAGICTVNGVIM---TTRRALCKIK--GLSEAKVDKIKEAASKIINPG 61 (313)
T ss_pred HHHHHHHHcCCCcHHHHHh---CCHHHHHHhc--CCCHHHHHHHHHHHHhhhccc
Confidence 3558999999999999876 4899999997 799999999999999886553
No 4
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=84.15 E-value=1 Score=48.28 Aligned_cols=62 Identities=27% Similarity=0.314 Sum_probs=49.0
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccCC
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLSG 282 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 282 (588)
++-+|+.-|-.-.--++|+++||.||+||+.. ++..|.+|. |+|....+.+++||.+|....
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=78.91 E-value=1.2 Score=46.39 Aligned_cols=57 Identities=19% Similarity=0.307 Sum_probs=45.9
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCV 279 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 279 (588)
++-.|.+||+ ...++|.++||.|++|++. .|+..|.+++ |++.+.++.+++-|+.++
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 3445566665 4569999999999999965 5999999998 688889999999888654
No 6
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=77.36 E-value=1.8 Score=46.57 Aligned_cols=61 Identities=23% Similarity=0.345 Sum_probs=48.0
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccC
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLS 281 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 281 (588)
++.+|+.-|-.=.--++|.++||+||+|++. .++..|-++. |+|....+.+++.|+..+..
T Consensus 30 ~~~~l~~~g~~~~~~~kL~~~g~~tv~~~~~---~~~~~L~~~~--g~s~~~~~ki~~~a~~~~~~ 90 (344)
T PLN03187 30 SIDKLISQGINAGDVKKLQDAGIYTCNGLMM---HTKKNLTGIK--GLSEAKVDKICEAAEKLLNQ 90 (344)
T ss_pred CHHHHhhCCCCHHHHHHHHHcCCCcHHHHHh---CCHHHHHHhc--CCCHHHHHHHHHHHHHhhcc
Confidence 3566655344445669999999999999876 4788899986 79999999999999877643
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=71.32 E-value=0.68 Score=37.13 Aligned_cols=51 Identities=29% Similarity=0.488 Sum_probs=40.4
Q ss_pred eeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 007813 219 RLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 276 (588)
Q Consensus 219 RLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 276 (588)
.+.+||+. ..++|.+.||.|++|+.. .+++.|.++= |++.+.=+.+++.|+
T Consensus 9 ~I~Gig~~--~a~~L~~~G~~t~~~l~~---a~~~~L~~i~--Gig~~~a~~i~~~~~ 59 (60)
T PF14520_consen 9 SIPGIGPK--RAEKLYEAGIKTLEDLAN---ADPEELAEIP--GIGEKTAEKIIEAAR 59 (60)
T ss_dssp TSTTCHHH--HHHHHHHTTCSSHHHHHT---SHHHHHHTST--TSSHHHHHHHHHHHH
T ss_pred cCCCCCHH--HHHHHHhcCCCcHHHHHc---CCHHHHhcCC--CCCHHHHHHHHHHHh
Confidence 34556665 348899999999999866 4788899974 789999999998886
No 8
>PTZ00035 Rad51 protein; Provisional
Probab=70.03 E-value=4.6 Score=43.11 Aligned_cols=61 Identities=30% Similarity=0.349 Sum_probs=47.5
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcccccC
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVLS 281 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 281 (588)
++-.|+.-|-.=.--++|+++||+||+||+. .++..|-++. |+|...=+.+++.|+.++..
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 4556654333334569999999999999876 4888999997 79999999999999887643
No 9
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed
Probab=68.20 E-value=3.6 Score=44.65 Aligned_cols=52 Identities=21% Similarity=0.273 Sum_probs=41.8
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
+|..|-+||+. ..++|.+.||+|++|+.++ ++..|++.||. .+..+..||.-
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 45566678874 4599999999999999985 89999999973 57778888753
No 10
>PRK02406 DNA polymerase IV; Validated
Probab=64.92 E-value=5.1 Score=42.08 Aligned_cols=52 Identities=25% Similarity=0.384 Sum_probs=40.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
+|..|-+||+. .-++|...||+|++|+.++ +...|++.||. .+..+.+||+-
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 56667677764 4488999999999999885 78899999973 46666677653
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=64.10 E-value=4.2 Score=42.01 Aligned_cols=52 Identities=23% Similarity=0.331 Sum_probs=40.2
Q ss_pred eeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhccc
Q 007813 220 LEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTC 278 (588)
Q Consensus 220 LekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktC 278 (588)
|.+||+. ..++|.++||.|++|++. .|++.|.+++ |++.+..+.+.+-|+.|
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
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=62.91 E-value=8.8 Score=35.39 Aligned_cols=52 Identities=29% Similarity=0.289 Sum_probs=37.9
Q ss_pred hhhhhhhcCCccHHHHHHHHhhChHH--HHHHHccCCCchhHHHHHHhhcccccCC
Q 007813 229 FHKRLNKAGIFTVEDFLRLVVRDSQR--LRNILGSGMSNKMWDVLVDHAKTCVLSG 282 (588)
Q Consensus 229 ~hkrL~~~gI~tV~dFLrl~~~d~~k--LR~iLg~gmS~k~We~~v~HAktCvl~~ 282 (588)
..++|+..||+|++|||..-.....+ |-+-+ |++.+-=...+.+|.=|...+
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 55899999999999999987655444 55554 678777667777776654444
No 13
>PRK03352 DNA polymerase IV; Validated
Probab=53.52 E-value=4.9 Score=42.21 Aligned_cols=41 Identities=32% Similarity=0.357 Sum_probs=33.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHcc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGS 261 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~ 261 (588)
+|..|-+||+. ..++|...||+|++|++++ ++..|++.||.
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 56666677774 4588999999999999985 78899999975
No 14
>PRK03348 DNA polymerase IV; Provisional
Probab=52.14 E-value=6.9 Score=43.33 Aligned_cols=53 Identities=30% Similarity=0.392 Sum_probs=39.7
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
+|.+|-+||+.. -++|...||+|++||.++ +...|++.||..+ ...+..+|+-
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 678888888754 488999999999999874 7889999997433 3334445543
No 15
>PRK03858 DNA polymerase IV; Validated
Probab=51.56 E-value=6.3 Score=42.16 Aligned_cols=41 Identities=32% Similarity=0.370 Sum_probs=33.4
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHcc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGS 261 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~ 261 (588)
+|..|-+||+.- -++|.+.||+|++|+.+ .++..|++.||.
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 455666787754 48999999999999986 588999999975
No 16
>PRK14133 DNA polymerase IV; Provisional
Probab=51.49 E-value=13 Score=39.30 Aligned_cols=51 Identities=29% Similarity=0.536 Sum_probs=39.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 276 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 276 (588)
+|..|-+||+.- -++|...||+|++|++++ +...|++.|| +.|..+.++|.
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 466666676644 478999999999999874 7888999996 35777777775
No 17
>PRK01172 ski2-like helicase; Provisional
Probab=50.76 E-value=13 Score=42.70 Aligned_cols=45 Identities=31% Similarity=0.532 Sum_probs=39.1
Q ss_pred hhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 228 SFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 228 ~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
...++|.++||.||.|+.. .|+++|-+|+ |++++.=+.++++|+.
T Consensus 623 ~~a~~l~~~g~~~~~di~~---~~~~~~~~i~--~~~~~~~~~i~~~~~~ 667 (674)
T PRK01172 623 VRARRLYDAGFKTVDDIAR---SSPERIKKIY--GFSDTLANAIVNRAMK 667 (674)
T ss_pred HHHHHHHHcCCCCHHHHHh---CCHHHHHHHh--ccCHHHHHHHHHHHHH
Confidence 4679999999999999877 7888888888 6889999999999875
No 18
>PRK02794 DNA polymerase IV; Provisional
Probab=49.58 E-value=12 Score=40.76 Aligned_cols=55 Identities=29% Similarity=0.227 Sum_probs=42.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhccccc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTCVL 280 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl 280 (588)
+|..|-+||+ ..-++|...||+|++|+.++ +...|++.||. .+..+.++|.--+.
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 88899999974 58888888875543
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=48.65 E-value=12 Score=39.41 Aligned_cols=51 Identities=31% Similarity=0.393 Sum_probs=39.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 276 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 276 (588)
+|..|-+||+. .-++|...||+|++|+.++ +...|.+.||. .|....++|+
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 35556667764 4478999999999999985 78899999974 4666777765
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=46.21 E-value=16 Score=37.90 Aligned_cols=52 Identities=29% Similarity=0.453 Sum_probs=40.6
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
+|..|-+||+. ..++|...||+|++|+.++ ++..|++.+| +.|..+.+||+-
T Consensus 172 pl~~l~gig~~--~~~~L~~~Gi~ti~dl~~~---~~~~L~~~~g-----~~~~~l~~~~~G 223 (334)
T cd03586 172 PVRKIPGVGKV--TAEKLKELGIKTIGDLAKL---DVELLKKLFG-----KSGRRLYELARG 223 (334)
T ss_pred CchhhCCcCHH--HHHHHHHcCCcCHHHHHcC---CHHHHHHHHh-----HHHHHHHHHhCC
Confidence 45566666654 4589999999999999874 7888999885 578888888864
No 21
>PRK03103 DNA polymerase IV; Reviewed
Probab=42.44 E-value=18 Score=39.09 Aligned_cols=52 Identities=27% Similarity=0.349 Sum_probs=40.3
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
+|..|-+||+. .-++|...||+|++|+.+ .++..|++.||. .+..+.++|.-
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 46666678774 558899999999999886 478899999963 46777777764
No 22
>PRK01810 DNA polymerase IV; Validated
Probab=42.34 E-value=18 Score=39.03 Aligned_cols=51 Identities=29% Similarity=0.349 Sum_probs=39.1
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 276 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 276 (588)
+|..|-+||+. .-++|...||+|++|+.+ .+...|++.||. .+..+.+||+
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 45556667764 448899999999999877 478899999964 4666777776
No 23
>COG3743 Uncharacterized conserved protein [Function unknown]
Probab=40.87 E-value=31 Score=33.07 Aligned_cols=59 Identities=25% Similarity=0.397 Sum_probs=43.5
Q ss_pred ccceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHH-HHHhhcc
Q 007813 215 DEVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDV-LVDHAKT 277 (588)
Q Consensus 215 DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~-~v~HAkt 277 (588)
|+.-||.+||. ++-+.|+..||+|-.+.-.+-..|-..+-..| +..-+.|.. -|+.||.
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 57799999999997766554444445555555 677777765 6776664
No 24
>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=39.00 E-value=21 Score=37.60 Aligned_cols=56 Identities=23% Similarity=0.115 Sum_probs=41.5
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhC-hHHHHHHHccCCCchhHHHHHHhhcccccC
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRD-SQRLRNILGSGMSNKMWDVLVDHAKTCVLS 281 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d-~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 281 (588)
+|..|-+||+. .-++|.+.||+|++|++++ + ...|+..+| +.+..+.++|+--+..
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 46667778774 4489999999999998764 6 566777775 4677888888755443
No 25
>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=38.84 E-value=10 Score=32.85 Aligned_cols=73 Identities=30% Similarity=0.429 Sum_probs=43.4
Q ss_pred ceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhCh-HHHHHHHccCCCchhHHHHHHhhcccccCCceEEEeeCCCCce
Q 007813 217 VWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDS-QRLRNILGSGMSNKMWDVLVDHAKTCVLSGKLYVYYPDDPRNV 295 (588)
Q Consensus 217 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~-~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~~~nv 295 (588)
+..|..||.. .-+.|.+.||+||+||..+=.+.. -+|++. | .
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 448899999999999988655543 345544 2 1
Q ss_pred EEEEccccceeeeecCCeeecCCCCChHhHHHHH
Q 007813 296 GVVFNNIYEFCGLIADGQYHSADSLSESQKVHVD 329 (588)
Q Consensus 296 gl~FN~i~~lvG~~~~g~y~s~d~L~~~qk~~V~ 329 (588)
.+-+|-.|.|.||+-|-++ ..|++.+|....
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 2557778999999887544 466777776544
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=35.23 E-value=16 Score=39.80 Aligned_cols=54 Identities=22% Similarity=0.243 Sum_probs=39.8
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 276 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 276 (588)
+|..|-+||+. .-++|...||.|++|+.++- .++..|++.||. +.+..+.++|+
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 67777788764 55999999999999998761 128899999974 34555555654
No 27
>PRK01216 DNA polymerase IV; Validated
Probab=35.18 E-value=16 Score=39.19 Aligned_cols=52 Identities=25% Similarity=0.401 Sum_probs=39.0
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAK 276 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 276 (588)
+|..|.+||+. -.++|...||+|++|+.++ +...|++.||. ..+..+-.+|.
T Consensus 179 Pi~~l~giG~~--~~~~L~~~Gi~TigdL~~~---~~~~L~~rfG~----~~~~~L~~~a~ 230 (351)
T PRK01216 179 DIADIPGIGDI--TAEKLKKLGVNKLVDTLRI---EFDELKGIIGE----AKAKYLFSLAR 230 (351)
T ss_pred CcccccCCCHH--HHHHHHHcCCCcHHHHhcC---CHHHHHHHHCH----HHHHHHHHHhC
Confidence 57777788864 4489999999999998764 77899999973 33455555663
No 28
>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=33.89 E-value=2.3e+02 Score=28.39 Aligned_cols=62 Identities=29% Similarity=0.347 Sum_probs=37.2
Q ss_pred CCccccceEEE---ec--Cce--eeccCeEeecCCCcccccccEEEEEeecCCC-------CcceeeeecccceEEeeC
Q 007813 136 RPLLSGDLQVT---LK--EGV--GTLGDLTFTDNSSWIRSRKFRLGLKVASGYC-------EGIRIREAKTDAFTVKDH 200 (588)
Q Consensus 136 ~pLL~Gdl~v~---L~--~Gv--a~l~di~FTDnSsw~rSrKFRLgaRv~~~~~-------~g~RI~EAvsE~FvVkDh 200 (588)
...|.|.+... |+ +|. |.. ..|.|=|-. .-+.|||-.++..=.. ...-+-|+.|+||.|-..
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--FVFPDLSVR-TEGRFRLRFSLFDIGPSPGQGGGSSPVLAEVFSDPFTVYSA 172 (203)
T ss_pred cccCcccEeeeeEEecCCCCCeEEEE--EEeCCceEC-cCCEEEEEEEEEEecCCccccCCCCcEEEEEECcCEEEECH
Confidence 46788886543 33 333 211 233444432 2368999988764322 235689999999999653
No 29
>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=33.30 E-value=27 Score=35.75 Aligned_cols=56 Identities=25% Similarity=0.426 Sum_probs=37.8
Q ss_pred ccceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 215 DEVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 215 DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
....-|.+|+.+.+ ++|.+.||.|+++|+++ ++.+|..+| +......+.+.+.|+.
T Consensus 148 ~~L~Qlp~i~~~~~--~~l~~~~i~~l~~l~~~---~~~e~~~ll--~~~~~~~~~i~~~~~~ 203 (314)
T PF02889_consen 148 SPLLQLPHIGEESL--KKLEKRGIKTLQDLRDL---SPEELEELL--NRNPPFGKEILEVASR 203 (314)
T ss_dssp -GGGGSTT--HHHH--HHHHHTT--SHHHHHHS----HHHHHHHH---S-HHHHHHHHHHHCC
T ss_pred ChhhcCCCCCHHHH--HHHhccCCCcHHHHhhC---CHHHHHHHH--hhhhhhHHHHHHHHHH
Confidence 34556668888665 88999999999999854 899999998 4566778888887763
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=31.41 E-value=20 Score=38.56 Aligned_cols=55 Identities=15% Similarity=0.249 Sum_probs=38.2
Q ss_pred cceeeeeeccCchhhhh-hhhcCCccHHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhcc
Q 007813 216 EVWRLEKIGKDGSFHKR-LNKAGIFTVEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 216 eVwRLekIgKdG~~hkr-L~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 277 (588)
+|..|-+||+. .-++ |...||.|++|+.++. .++..|++.+|. +.++.+..+|+-
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 46777777742 2244 5889999999998754 478889999874 344555556554
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=30.68 E-value=78 Score=28.28 Aligned_cols=35 Identities=26% Similarity=0.489 Sum_probs=28.1
Q ss_pred hcCCccHHHHHHHHhhChHHH---HHHHccCCCchhHHHHHHhhcc
Q 007813 235 KAGIFTVEDFLRLVVRDSQRL---RNILGSGMSNKMWDVLVDHAKT 277 (588)
Q Consensus 235 ~~gI~tV~dFLrl~~~d~~kL---R~iLg~gmS~k~We~~v~HAkt 277 (588)
...| +++||+=++-.||.|| +++| .|+..++-||.
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 68889988875
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=28.65 E-value=24 Score=29.40 Aligned_cols=27 Identities=33% Similarity=0.491 Sum_probs=18.5
Q ss_pred hhhhhhcCCccHHHHHHHHhhChHHHHHHH
Q 007813 230 HKRLNKAGIFTVEDFLRLVVRDSQRLRNIL 259 (588)
Q Consensus 230 hkrL~~~gI~tV~dFLrl~~~d~~kLR~iL 259 (588)
...|..+||+||+|++++ +++.|.++=
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 357889999999997664 667777774
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=28.41 E-value=25 Score=38.24 Aligned_cols=59 Identities=14% Similarity=0.141 Sum_probs=40.7
Q ss_pred cceeeeeeccCchhhhhhhhcCCccHHHHHHHHh------------hChHHHHHHHccCCCchhHHHHHHhhccccc
Q 007813 216 EVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVV------------RDSQRLRNILGSGMSNKMWDVLVDHAKTCVL 280 (588)
Q Consensus 216 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~------------~d~~kLR~iLg~gmS~k~We~~v~HAktCvl 280 (588)
+|-.|-+||+... ++|.+.||.|++|+.++-+ .+...|++.||. +.+..+.++|+--+.
T Consensus 173 pv~~l~GiG~~~~--~kL~~~GI~tigdl~~~~~~~~~~~~~~~~~~s~~~L~~~fG~----~~g~~l~~~a~G~d~ 243 (379)
T cd01703 173 DLRKIPGIGYKTA--AKLEAHGISSVRDLQEFSNRNRQTVGAAPSLLELLLMVKEFGE----GIGQRIWKLLFGRDT 243 (379)
T ss_pred CccccCCcCHHHH--HHHHHcCCCcHHHHHhCCcccccccccccccccHHHHHHHHCH----HHHHHHHHHHCCCCC
Confidence 3445557777654 8999999999999986541 117789999864 345566667765443
No 34
>KOG4233 consensus DNA-bridging protein BAF [Chromatin structure and dynamics; Replication, recombination and repair]
Probab=26.33 E-value=65 Score=28.79 Aligned_cols=60 Identities=25% Similarity=0.408 Sum_probs=40.2
Q ss_pred CCCCccceeeeeeccCchhhhhhhhcCCcc----HHHHHHHHhhChHHHHHHHccCCCchhHHHHHHhhccc
Q 007813 211 PALNDEVWRLEKIGKDGSFHKRLNKAGIFT----VEDFLRLVVRDSQRLRNILGSGMSNKMWDVLVDHAKTC 278 (588)
Q Consensus 211 P~L~DeVwRLekIgKdG~~hkrL~~~gI~t----V~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktC 278 (588)
|+=+-+|--|.+||.. +-.+|..+|+.. .++|| ++.+|++-.+.-|. ..--++-+||++|
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 6667789999999974 668999999976 36666 45678765555431 1112355677766
No 35
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=24.72 E-value=40 Score=31.12 Aligned_cols=39 Identities=36% Similarity=0.589 Sum_probs=30.0
Q ss_pred ceeeeeeccCchhhhhhhhcCCccHHHHHHHHhhChHHHHHHHc
Q 007813 217 VWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVVRDSQRLRNILG 260 (588)
Q Consensus 217 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg 260 (588)
..|+.+|+. .|..-|..+||.||+++- ..+|++|.+.++
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 346666665 466889999999999974 478988888653
No 36
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=23.02 E-value=31 Score=40.20 Aligned_cols=37 Identities=30% Similarity=0.434 Sum_probs=31.3
Q ss_pred CCCCccceeeeeeccCchhhhhhhhcCCccHHHHHHHHh
Q 007813 211 PALNDEVWRLEKIGKDGSFHKRLNKAGIFTVEDFLRLVV 249 (588)
Q Consensus 211 P~L~DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~ 249 (588)
..|++.|-.|++||+.-+ ++|++.||+||+|.|..+=
T Consensus 5 ~~~~~~~~~l~gvg~~~~--~~l~~lgi~t~~dll~~~P 41 (681)
T PRK10917 5 LLLDAPLTSLKGVGPKTA--EKLAKLGIHTVQDLLLHLP 41 (681)
T ss_pred ccccCChhhcCCCCHHHH--HHHHHcCCCCHHHHhhcCC
Confidence 457789999999987544 8899999999999998874
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=22.70 E-value=52 Score=24.94 Aligned_cols=18 Identities=22% Similarity=0.612 Sum_probs=15.1
Q ss_pred eeeccCeEeecCCCcccc
Q 007813 151 VGTLGDLTFTDNSSWIRS 168 (588)
Q Consensus 151 va~l~di~FTDnSsw~rS 168 (588)
-..|..+.|-|++.|.+.
T Consensus 24 ~~~Ie~i~FaDGt~w~~~ 41 (43)
T PF06594_consen 24 SYRIEQIEFADGTVWTRA 41 (43)
T ss_pred CCcEeEEEEcCCCEecHH
Confidence 567889999999999753
No 38
>COG0540 PyrB Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]
Probab=21.55 E-value=53 Score=35.57 Aligned_cols=76 Identities=29% Similarity=0.353 Sum_probs=51.4
Q ss_pred CCCCHHHHhhcc-----c---ccCCCCCCccccceEEEecCceeeccCeEeecCCCccccc----ccEEEEEeec-----
Q 007813 117 DNWTQEEFVSHV-----V---KEREGKRPLLSGDLQVTLKEGVGTLGDLTFTDNSSWIRSR----KFRLGLKVAS----- 179 (588)
Q Consensus 117 e~WT~eEF~~~I-----V---k~ReGk~pLL~Gdl~v~L~~Gva~l~di~FTDnSsw~rSr----KFRLgaRv~~----- 179 (588)
++||.||+..-. . ....++.++|.|.+..+| |=+||-.||+- -=|||+.|+.
T Consensus 14 ~dls~~ei~~ll~~A~~~~~~~~~~~~~~~l~gk~v~~l-----------FFEpSTRTr~SFE~A~krLG~~Vv~~~~~~ 82 (316)
T COG0540 14 EDLSREELELLLDTADEFKAVARAEKKLDLLKGKVVANL-----------FFEPSTRTRLSFETAMKRLGADVVNFSDSE 82 (316)
T ss_pred HhCCHHHHHHHHHHHHHHHHhhhccCCcchhcCcEEEEE-----------EecCCCchhhhHHHHHHHcCCcEEeecCCc
Confidence 567777754321 1 235788889999877665 88999888776 4689999872
Q ss_pred -CCCCcc------eeeeec-ccceEEeeCCccc
Q 007813 180 -GYCEGI------RIREAK-TDAFTVKDHRGEL 204 (588)
Q Consensus 180 -~~~~g~------RI~EAv-sE~FvVkDhRge~ 204 (588)
+...|+ |.-+|. .+.||++ |+-+.
T Consensus 83 sSs~KGEtL~DT~~tl~ayg~D~iViR-H~~eg 114 (316)
T COG0540 83 SSSKKGETLADTIRTLSAYGVDAIVIR-HPEEG 114 (316)
T ss_pred ccccccccHHHHHHHHHhhCCCEEEEe-Ccccc
Confidence 112343 678888 7888876 44443
No 39
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=21.53 E-value=2.3e+02 Score=26.99 Aligned_cols=40 Identities=23% Similarity=0.523 Sum_probs=31.3
Q ss_pred chhhhhhhhcCCccHHHHHHHHhhCh----HHHHHHHccCCCch
Q 007813 227 GSFHKRLNKAGIFTVEDFLRLVVRDS----QRLRNILGSGMSNK 266 (588)
Q Consensus 227 G~~hkrL~~~gI~tV~dFLrl~~~d~----~kLR~iLg~gmS~k 266 (588)
.+|+.-|+.+|=.||+|.-.-++++. ..|++++-.|+=.+
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 56888888999999999999999996 46777765555443
No 40
>KOG3741 consensus Poly(A) ribonuclease subunit [RNA processing and modification]
Probab=21.08 E-value=3e+02 Score=32.48 Aligned_cols=20 Identities=35% Similarity=0.778 Sum_probs=12.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCC
Q 007813 519 SFNVAEDAYPYSSPFMANPSP 539 (588)
Q Consensus 519 ~~~~~ed~~~f~~~y~~~p~~ 539 (588)
+++.|++.+.|.. |.|.|.+
T Consensus 203 ~~~~P~~~~~Y~~-y~pqPss 222 (655)
T KOG3741|consen 203 SFFLPDDALKYNT-YLPQPSS 222 (655)
T ss_pred cccCchhhhhhcc-CCCCCcc
Confidence 3567777777777 6554444
Done!