Query 022773
Match_columns 292
No_of_seqs 147 out of 504
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 06:02:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022773.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022773hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0304 mRNA deadenylase subun 100.0 3.4E-86 7.4E-91 582.3 18.9 237 23-273 1-239 (239)
2 COG5228 POP2 mRNA deadenylase 100.0 7.1E-76 1.5E-80 517.8 12.7 242 21-278 17-258 (299)
3 PF04857 CAF1: CAF1 family rib 100.0 1.8E-63 3.8E-68 458.7 19.5 229 25-268 1-262 (262)
4 KOG1990 Poly(A)-specific exori 99.3 1.5E-12 3.3E-17 132.0 5.2 236 29-275 1-365 (564)
5 PRK07942 DNA polymerase III su 98.9 7.9E-08 1.7E-12 87.4 15.0 170 44-274 4-181 (232)
6 smart00479 EXOIII exonuclease 98.8 3.7E-07 7.9E-12 77.1 16.8 164 47-274 1-168 (169)
7 cd06133 ERI-1_3'hExo_like DEDD 98.6 1.2E-06 2.6E-11 74.7 14.8 172 48-269 1-175 (176)
8 cd06134 RNaseT DEDDh 3'-5' exo 98.6 1E-06 2.2E-11 77.6 13.8 177 45-272 4-188 (189)
9 PRK09145 DNA polymerase III su 98.6 1.7E-06 3.7E-11 76.7 14.6 171 36-271 19-199 (202)
10 PRK05168 ribonuclease T; Provi 98.6 2E-06 4.4E-11 77.1 15.2 188 36-275 7-203 (211)
11 cd06131 DNA_pol_III_epsilon_Ec 98.5 5.3E-06 1.2E-10 70.7 14.7 164 48-269 1-166 (167)
12 PRK07748 sporulation inhibitor 98.5 7E-06 1.5E-10 73.2 15.1 172 45-272 3-179 (207)
13 PRK06310 DNA polymerase III su 98.3 8.6E-06 1.9E-10 75.0 13.1 171 42-273 3-174 (250)
14 PRK05711 DNA polymerase III su 98.3 2E-05 4.4E-10 72.3 15.3 168 46-272 4-175 (240)
15 cd06130 DNA_pol_III_epsilon_li 98.3 3E-05 6.4E-10 64.9 13.9 138 93-267 16-155 (156)
16 PRK07740 hypothetical protein; 98.3 2.8E-05 6.1E-10 71.3 14.8 170 44-275 57-228 (244)
17 PRK06063 DNA polymerase III su 98.3 3.4E-05 7.3E-10 73.4 15.8 164 45-275 14-181 (313)
18 TIGR00573 dnaq exonuclease, DN 98.3 3.4E-05 7.4E-10 69.3 14.9 171 43-275 4-179 (217)
19 TIGR01298 RNaseT ribonuclease 98.2 4.6E-05 1E-09 67.8 14.5 180 44-275 6-194 (200)
20 PRK09146 DNA polymerase III su 98.2 5E-05 1.1E-09 69.6 14.9 168 43-275 44-229 (239)
21 PRK06807 DNA polymerase III su 98.2 4.9E-05 1.1E-09 72.3 14.9 163 46-273 8-172 (313)
22 TIGR01406 dnaQ_proteo DNA poly 98.1 0.0002 4.3E-09 65.0 16.2 167 47-272 1-171 (225)
23 PRK07247 DNA polymerase III su 98.1 0.00013 2.7E-09 65.0 14.5 160 47-273 6-169 (195)
24 PRK08074 bifunctional ATP-depe 98.0 0.00013 2.8E-09 78.6 15.8 166 46-274 3-170 (928)
25 cd06127 DEDDh DEDDh 3'-5' exon 98.0 9.7E-05 2.1E-09 60.6 11.2 156 49-267 1-159 (159)
26 PRK08517 DNA polymerase III su 98.0 0.00026 5.7E-09 65.6 15.0 169 41-274 63-232 (257)
27 PRK06195 DNA polymerase III su 97.9 0.00029 6.2E-09 66.8 15.0 144 93-274 18-165 (309)
28 cd06136 TREX1_2 DEDDh 3'-5' ex 97.9 0.00022 4.9E-09 62.0 12.6 170 48-268 1-176 (177)
29 PRK07883 hypothetical protein; 97.9 0.00029 6.3E-09 72.0 15.1 173 39-275 8-184 (557)
30 PRK06722 exonuclease; Provisio 97.8 0.00069 1.5E-08 63.6 15.4 169 45-270 4-178 (281)
31 TIGR01405 polC_Gram_pos DNA po 97.8 0.00052 1.1E-08 75.6 16.4 168 44-275 188-357 (1213)
32 PF00929 RNase_T: Exonuclease; 97.8 1.7E-05 3.8E-10 65.2 3.9 159 49-266 1-164 (164)
33 PRK07246 bifunctional ATP-depe 97.8 0.00067 1.5E-08 72.3 16.3 163 45-275 6-172 (820)
34 TIGR01407 dinG_rel DnaQ family 97.7 0.00082 1.8E-08 71.8 15.7 164 47-274 1-166 (850)
35 PRK07983 exodeoxyribonuclease 97.7 0.0014 3E-08 59.4 14.1 135 93-273 16-154 (219)
36 cd06138 ExoI_N N-terminal DEDD 97.7 0.001 2.2E-08 58.1 12.8 151 92-265 16-181 (183)
37 PRK05601 DNA polymerase III su 97.6 0.001 2.2E-08 64.6 12.8 179 41-271 41-247 (377)
38 PRK11779 sbcB exonuclease I; P 97.6 0.0028 6E-08 63.7 16.1 175 45-272 5-197 (476)
39 PTZ00315 2'-phosphotransferase 97.6 0.0035 7.7E-08 64.1 16.7 174 46-272 56-254 (582)
40 PRK06309 DNA polymerase III su 97.5 0.0021 4.5E-08 58.4 13.4 162 47-274 3-167 (232)
41 PRK09182 DNA polymerase III su 97.4 0.0038 8.2E-08 59.0 13.4 156 47-271 38-199 (294)
42 PRK00448 polC DNA polymerase I 97.2 0.0066 1.4E-07 68.1 15.3 169 43-275 416-586 (1437)
43 COG0847 DnaQ DNA polymerase II 97.2 0.0092 2E-07 53.9 13.3 165 46-272 13-181 (243)
44 PRK05359 oligoribonuclease; Pr 97.1 0.011 2.5E-07 51.7 13.0 171 45-275 2-177 (181)
45 cd06144 REX4_like DEDDh 3'-5' 97.1 0.0017 3.7E-08 55.0 7.1 32 234-266 119-151 (152)
46 cd06137 DEDDh_RNase DEDDh 3'-5 97.0 0.0042 9.1E-08 53.1 9.0 67 179-266 86-160 (161)
47 cd06145 REX1_like DEDDh 3'-5' 96.4 0.023 5E-07 48.1 9.1 98 145-266 48-149 (150)
48 cd06135 Orn DEDDh 3'-5' exonuc 95.6 0.31 6.6E-06 42.1 12.5 165 48-272 1-171 (173)
49 COG0349 Rnd Ribonuclease D [Tr 94.4 0.22 4.7E-06 48.5 8.8 92 158-275 58-168 (361)
50 PRK10829 ribonuclease D; Provi 93.4 1.2 2.6E-05 43.7 12.0 78 181-275 78-172 (373)
51 cd06146 mut-7_like_exo DEDDy 3 93.1 2.6 5.6E-05 37.1 12.6 87 174-271 80-193 (193)
52 cd06141 WRN_exo DEDDy 3'-5' ex 92.6 3.1 6.7E-05 35.2 12.1 80 174-270 71-169 (170)
53 PRK05755 DNA polymerase I; Pro 91.0 3.3 7.1E-05 44.9 12.9 79 180-275 373-471 (880)
54 TIGR01388 rnd ribonuclease D. 90.2 6.6 0.00014 38.2 13.1 85 174-275 68-168 (367)
55 KOG4013 Predicted Cu2+ homeost 75.9 8.8 0.00019 34.6 6.3 88 135-230 83-174 (255)
56 COG2176 PolC DNA polymerase II 74.9 4.8 0.0001 44.8 5.2 83 180-276 505-589 (1444)
57 cd06149 ISG20 DEDDh 3'-5' exon 74.1 3.6 7.7E-05 35.0 3.3 32 234-266 122-156 (157)
58 PF13482 RNase_H_2: RNase_H su 72.5 1.7 3.7E-05 36.4 1.0 72 177-264 58-131 (164)
59 PF10108 DNA_pol_B_exo2: Predi 68.2 16 0.00036 33.0 6.4 95 177-272 53-172 (209)
60 PF01612 DNA_pol_A_exo1: 3'-5' 66.5 15 0.00031 30.5 5.4 83 173-273 74-175 (176)
61 PF01612 DNA_pol_A_exo1: 3'-5' 62.9 6.1 0.00013 32.8 2.5 28 33-60 7-34 (176)
62 cd06129 RNaseD_like DEDDy 3'-5 56.6 23 0.00051 29.8 5.0 81 174-271 65-161 (161)
63 cd06139 DNA_polA_I_Ecoli_like_ 53.6 29 0.00064 29.3 5.2 83 175-274 66-171 (193)
64 cd05782 DNA_polB_like1_exo Unc 47.2 19 0.00041 32.1 3.1 69 178-247 95-170 (208)
65 COG3359 Predicted exonuclease 42.8 52 0.0011 30.8 5.2 76 178-268 158-237 (278)
66 TIGR02841 spore_YyaC putative 40.2 23 0.00049 30.1 2.3 30 26-55 43-72 (140)
67 PF04405 ScdA_N: Domain of Unk 40.2 46 0.00099 23.7 3.5 32 135-166 12-52 (56)
68 TIGR01229 rocF_arginase argina 34.1 92 0.002 29.2 5.6 68 26-102 196-272 (300)
69 KOG2249 3'-5' exonuclease [Rep 33.7 17 0.00038 34.1 0.6 54 219-273 208-266 (280)
70 PRK13772 formimidoylglutamase; 33.4 1.2E+02 0.0026 28.7 6.4 70 25-103 217-294 (314)
71 cd00007 35EXOc 3'-5' exonuclea 32.5 1.8E+02 0.0039 22.9 6.5 52 175-243 53-106 (155)
72 PF07827 KNTase_C: KNTase C-te 32.5 40 0.00087 28.7 2.6 48 199-246 87-134 (143)
73 KOG1990 Poly(A)-specific exori 31.3 17 0.00038 37.5 0.3 128 21-161 101-231 (564)
74 KOG4233 DNA-bridging protein B 30.2 69 0.0015 24.8 3.3 41 174-216 18-69 (90)
75 PF12345 DUF3641: Protein of u 28.2 57 0.0012 27.5 2.8 32 141-172 16-48 (134)
76 PF13637 Ank_4: Ankyrin repeat 27.5 56 0.0012 21.9 2.3 29 135-163 13-41 (54)
77 PF13606 Ank_3: Ankyrin repeat 26.6 51 0.0011 19.9 1.7 17 135-151 14-30 (30)
78 PF06866 DUF1256: Protein of u 25.4 51 0.0011 28.7 2.1 30 26-55 67-96 (163)
79 PRK05264 transcriptional repre 25.1 49 0.0011 26.2 1.7 16 190-205 61-76 (105)
80 PRK02190 agmatinase; Provision 24.2 1.6E+02 0.0036 27.5 5.5 66 27-102 199-271 (301)
81 PF00550 PP-binding: Phosphopa 23.9 1.6E+02 0.0034 20.3 4.2 38 237-274 5-46 (67)
82 cd00490 Met_repressor_MetJ Met 23.7 53 0.0012 25.8 1.7 16 190-205 60-75 (103)
83 KOG0638 4-hydroxyphenylpyruvat 22.6 25 0.00053 34.0 -0.4 73 136-214 274-353 (381)
84 PRK08446 coproporphyrinogen II 22.6 1.5E+02 0.0033 28.3 5.0 30 135-164 136-166 (350)
85 PF13857 Ank_5: Ankyrin repeat 21.5 87 0.0019 21.4 2.3 28 135-162 28-55 (56)
86 COG5606 Uncharacterized conser 21.5 1E+02 0.0022 24.3 2.8 31 237-267 45-81 (91)
87 PF11959 DUF3473: Domain of un 20.8 1.5E+02 0.0033 24.6 4.1 33 21-53 96-128 (133)
88 PF07176 DUF1400: Alpha/beta h 20.2 3.7E+02 0.008 22.1 6.2 66 186-263 32-99 (127)
89 PRK14345 lipoate-protein ligas 20.2 98 0.0021 28.4 3.0 40 20-59 10-54 (234)
No 1
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification]
Probab=100.00 E-value=3.4e-86 Score=582.27 Aligned_cols=237 Identities=57% Similarity=0.975 Sum_probs=230.0
Q ss_pred EEEEeCccCHHHHHHHHHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeec
Q 022773 23 IIREVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSD 102 (292)
Q Consensus 23 ~v~eV~~~Nf~eel~~I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~ 102 (292)
.|||||+.|+++||++||++|++||||||||||||++.+|.+.+ +++.+++|+.||+|||.+++||+|||+++
T Consensus 1 ~ireVW~~Nl~~Em~~Ir~~v~~y~~IamDTEFPGvv~rp~~~f-------~s~~d~~Y~~lk~NVd~lklIQlGlTlsd 73 (239)
T KOG0304|consen 1 FIREVWRSNLEEEMALIRECVKDYPYIAMDTEFPGVVARPIGTF-------RSSDDYHYQTLKCNVDNLKLIQLGLTLSD 73 (239)
T ss_pred ChhHHHHHhHHHHHHHHHHHHHhCCeeEecCcCCceeeecCccc-------cCChHHHHHHHHhchhhhhhhheeeeeec
Confidence 37999999999999999999999999999999999999999988 68999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEe
Q 022773 103 SSGNLPDLGSGGNNKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTF 182 (292)
Q Consensus 103 ~~g~~p~~g~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~f 182 (292)
++||.|..|+ .+|||||.+|++.+|+++++||+||+++|+||.|+.+.||+...|+|+|++||++++++++||||
T Consensus 74 ~~Gn~p~~g~-----~tWqfNF~dF~~~~D~~a~~SIElLr~~Gidf~K~~e~GI~~~~F~ellm~sg~v~~~~V~WvTF 148 (239)
T KOG0304|consen 74 EKGNLPDCGT-----DTWQFNFSDFNLEKDMYAQDSIELLRRSGIDFEKHREEGIDIEEFAELLMTSGLVLDENVTWVTF 148 (239)
T ss_pred cCCCCCCCCC-----ceeEEecccCCchhhccchhhHHHHHHcCcCHHHHHHcCCCHHHHHHHHHHhhhhccCceEEEEe
Confidence 9999997654 59999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhh--ccchHHHHHHHcCCCCCCCCCccchhhHH
Q 022773 183 HSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQS--LYGGLDRVARTLDVSRAVGKCHQAGSDSL 260 (292)
Q Consensus 183 hg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~--l~~~L~~la~~L~v~r~~g~~HqAGsDS~ 260 (292)
|||||||||+|+||+++||++.++|.+.++.+| |.+||+|||++.|.+ +++||++||+.|+++| +|++|||||||+
T Consensus 149 hs~YDfgYLlK~Lt~~~LP~~~~eF~~~v~~~f-p~vYDiK~l~~~c~~~~l~~GL~~lA~~L~~~R-vG~~HqAGSDSl 226 (239)
T KOG0304|consen 149 HSGYDFGYLLKILTGKPLPETEEEFFEIVRQLF-PFVYDVKYLMKFCEGLSLKGGLQRLADLLGLKR-VGIAHQAGSDSL 226 (239)
T ss_pred eccchHHHHHHHHcCCCCcchHHHHHHHHHHHc-chhhhHHHHHHhhhhhhhhcCHHHHHHHhCCCe-eecccccCcHHH
Confidence 999999999999999999999999999999999 999999999999965 8999999999999999 999999999999
Q ss_pred HHHHHHHHHHHHh
Q 022773 261 LTWHAFQKIRDVY 273 (292)
Q Consensus 261 lT~~~F~~l~~~~ 273 (292)
||+++|+||++.|
T Consensus 227 LT~~~F~kl~~~f 239 (239)
T KOG0304|consen 227 LTARVFFKLKELF 239 (239)
T ss_pred HHHHHHHHHHhcC
Confidence 9999999999864
No 2
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification]
Probab=100.00 E-value=7.1e-76 Score=517.83 Aligned_cols=242 Identities=48% Similarity=0.793 Sum_probs=234.0
Q ss_pred CcEEEEeCccCHHHHHHHHHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeee
Q 022773 21 SIIIREVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTL 100 (292)
Q Consensus 21 ~~~v~eV~~~Nf~eel~~I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~ 100 (292)
-..|||||+.|+..||..|+++|++|++|+|||||||+++||.|.| +++.+++||.+|+|||.++|||+||++
T Consensus 17 ~~~irdVWk~NL~~Em~~I~qLi~rYn~vSmdTEFpGvvArPiG~F-------kSs~dyhYQtlraNVD~LkiIQlGlsL 89 (299)
T COG5228 17 YLFIRDVWKSNLYSEMAVIRQLISRYNHVSMDTEFPGVVARPIGTF-------KSSVDYHYQTLRANVDFLKIIQLGLSL 89 (299)
T ss_pred hHHHHHHHHhhHHHHHHHHHHHHHhCCceeeccccCceeecccccc-------cccchHHHHHHhcccchhhhhheeeee
Confidence 4459999999999999999999999999999999999999999999 889999999999999999999999999
Q ss_pred ecCCCCCCCCCCCCCCeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceE
Q 022773 101 SDSSGNLPDLGSGGNNKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWV 180 (292)
Q Consensus 101 ~~~~g~~p~~g~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv 180 (292)
.+++||.|. ..++|||||. |++..||++++||++|+++|+||.||.+.||.+.+|+|+|+.||||+.++|+||
T Consensus 90 SDe~GN~P~------~~sTWQFNF~-F~l~~dmya~ESieLL~ksgIdFkkHe~~GI~v~eF~elLm~SGLvm~e~VtWi 162 (299)
T COG5228 90 SDENGNKPN------GPSTWQFNFE-FDLKKDMYATESIELLRKSGIDFKKHENLGIDVFEFSELLMDSGLVMDESVTWI 162 (299)
T ss_pred ccccCCCCC------CCceeEEEEE-ecchhhhcchHHHHHHHHcCCChhhHhhcCCCHHHHHHHHhccCceeccceEEE
Confidence 999999994 5799999998 999999999999999999999999999999999999999999999999999999
Q ss_pred EeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhhccchHHHHHHHcCCCCCCCCCccchhhHH
Q 022773 181 TFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYGGLDRVARTLDVSRAVGKCHQAGSDSL 260 (292)
Q Consensus 181 ~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~ 260 (292)
+||.+||||||+|+|++.|||++.++|.++|+.|| |+.||+|++.+.....+.||++++..|++.| +|++||||+||+
T Consensus 163 tfHsaYDfgyLikilt~~plP~~~EdFy~~l~~yf-P~fYDik~v~ks~~~~~KglQei~ndlql~r-~g~QhQagsdaL 240 (299)
T COG5228 163 TFHSAYDFGYLIKILTNDPLPNNKEDFYWWLHQYF-PNFYDIKLVYKSVLNNSKGLQEIKNDLQLQR-SGQQHQAGSDAL 240 (299)
T ss_pred EeecchhHHHHHHHHhcCCCCccHHHHHHHHHHHC-ccccchHHHHHhhhhhhhHHHHhcCcHhhhc-cchhhhccchhh
Confidence 99999999999999999999999999999999999 9999999999998888999999999999999 999999999999
Q ss_pred HHHHHHHHHHHHhcCCCC
Q 022773 261 LTWHAFQKIRDVYFVHDG 278 (292)
Q Consensus 261 lT~~~F~~l~~~~~~~~~ 278 (292)
+|+..|++.|.++|..++
T Consensus 241 lTa~~ff~~R~~~F~~si 258 (299)
T COG5228 241 LTADEFFLPRFSIFTTSI 258 (299)
T ss_pred hhhHHhcchhhheecccc
Confidence 999999999999886433
No 3
>PF04857 CAF1: CAF1 family ribonuclease; InterPro: IPR006941 CAF1 is an RNase of the DEDD superfamily, and a subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation. The major pathways of mRNA turnover in eukaryotes initiate with shortening of the poly(A) tail. CAF1 P39008 from SWISSPROT encodes a critical component of the major cytoplasmic deadenylase in yeast. Caf1p is required for normal mRNA deadenylation in vivo and localises to the cytoplasm. Caf1p copurifies with a Ccr4p-dependent poly(A)-specific exonuclease activity. Some members of this family contain a single-stranded nucleic acid binding domain, R3H.; GO: 0005634 nucleus; PDB: 3D45_B 1UG8_A 2D5R_A 2A1S_C 2A1R_A 2FC6_A 1UOC_A 3G10_A 2P51_A 3G0Z_A.
Probab=100.00 E-value=1.8e-63 Score=458.69 Aligned_cols=229 Identities=36% Similarity=0.606 Sum_probs=200.1
Q ss_pred EEeCccCHHHHHHHHHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeee-cC
Q 022773 25 REVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLS-DS 103 (292)
Q Consensus 25 ~eV~~~Nf~eel~~I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~-~~ 103 (292)
+|||++||+++++.|+++|++|+|||||+||||+..++.... .+++++||+++|+||+.+++||+|||+| ++
T Consensus 1 m~Vt~~Nf~~~l~~i~~~i~~~~fvaiD~EftGl~~~~~~~~-------~~t~~~rY~~~r~~v~~~~iiQ~Glt~f~~~ 73 (262)
T PF04857_consen 1 MEVTRSNFEEELPEILQAISKADFVAIDTEFTGLVSKPPRSR-------FDTPEERYEKLRANVETFQIIQFGLTLFHDE 73 (262)
T ss_dssp EEE-CCCHHHHHHHHHHHHHHSSEEEEEEEES-S-SSS-SHC-------SSHHHHHHHHHHHHHTTBEEEEEEEEEETTT
T ss_pred CcccHHHHHHHHHHHHHHHhhCCEEEEEeeccccccCCCccc-------cccHHHHHHHHHHhhcccccceeeEEEeecc
Confidence 699999999999999999999999999999999999887543 8899999999999999999999999999 77
Q ss_pred CCCCCCCCCCCCCeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHH------HHHHHcCcccc---
Q 022773 104 SGNLPDLGSGGNNKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFA------ELMMSSGLVCN--- 174 (292)
Q Consensus 104 ~g~~p~~g~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~------e~l~~Sglv~~--- 174 (292)
+++.|. .+.+|+|||+.|+.+++.++++||+||++|||||||++++||||.+++ +.+..++++..
T Consensus 74 ~~~~~~------~~~~~~~nf~~f~~~~~~~~~~sl~FL~~~gfDFn~~~~~GI~y~~~~ee~~~~~~~g~~~v~~~~~~ 147 (262)
T PF04857_consen 74 DGNIPS------SYNVWPFNFYLFPLDRDFSQASSLQFLRKNGFDFNKWFRDGIPYLSFAEEEKARELLGFSGVIDALKS 147 (262)
T ss_dssp TSEEEC------CEEEEEEEBSTTSTTTCEEEHHHHHHHHHTT--HHHHHHH-B-HHHHHHHHHHHHHHHTCCCSSHCHC
T ss_pred cccCCc------eeEEEEeeeeccccccceecchhHHHHHHcccCHHHHHHhCCCcccccccchhhhhHHHHHHHHHhhc
Confidence 787763 588999999999999998899999999999999999999999999999 66777888754
Q ss_pred CCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhhccchHHHHHHHcCCCC-------
Q 022773 175 ESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYGGLDRVARTLDVSR------- 247 (292)
Q Consensus 175 ~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~~L~~la~~L~v~r------- 247 (292)
.+++||++||+||++||+++|+| |||+|+.+|++.++.+| |.|||||||++.+....++|+.|++.|++.|
T Consensus 148 ~~~p~Vghn~~~Dl~~l~~~f~~-~LP~t~~eF~~~~~~~F-P~i~DtK~la~~~~~~~~~L~~l~~~l~~~~~~~~~~~ 225 (262)
T PF04857_consen 148 SKKPIVGHNGLYDLMYLYKKFIG-PLPETLEEFKELLRELF-PRIYDTKYLAEECPGKSTSLQELAEELGIRRNPSSISS 225 (262)
T ss_dssp C-SEEEESSTHHHHHHHHHHHTT-S--SSHHHHHHHHHHHS-SSEEEHHHHHTSTTTS-SSHHHHHHHTTSTT----EEE
T ss_pred cCCcEEEeChHhHHHHHHHHhcC-CCCCCHHHHHHHHHHHC-cccccHHHHHHhccccccCHHHHHHHhCCCcccccccc
Confidence 35899999999999999999996 99999999999999999 9999999999999877889999999999887
Q ss_pred ---------------CCCC-CccchhhHHHHHHHHHH
Q 022773 248 ---------------AVGK-CHQAGSDSLLTWHAFQK 268 (292)
Q Consensus 248 ---------------~~g~-~HqAGsDS~lT~~~F~~ 268 (292)
..+. .|+||+|||||+.||++
T Consensus 226 ~~~~~~~~~~~~~~~~~~~~~HeAGyDA~mTg~~F~~ 262 (262)
T PF04857_consen 226 PEGFPSYDEEKNNFPMFGEKAHEAGYDAYMTGCVFIK 262 (262)
T ss_dssp -TTS-------------SS-TTSHHHHHHHHHHHHHH
T ss_pred ccccccccccccccccCCCCCCCcchHHHHHHHHHcC
Confidence 1344 99999999999999986
No 4
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=99.31 E-value=1.5e-12 Score=131.96 Aligned_cols=236 Identities=20% Similarity=0.200 Sum_probs=156.3
Q ss_pred ccCHHHHHHHHHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCC
Q 022773 29 ASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLP 108 (292)
Q Consensus 29 ~~Nf~eel~~I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p 108 (292)
+.||+. +..++..|+++.|+++|.|++|+...+...-. ..++.|.+|+++|.|+..+.++|+|+|.|.+++..-
T Consensus 1 ~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-----~~~~~~~~y~k~k~~~~~~~~~q~~~~~~~~~~~~~ 74 (564)
T KOG1990|consen 1 RSNFES-LSLAELTVDEADLRRLRLVATGMTSAPWKAGS-----TFDTVEAIYLKWKDNEEVYLKFQFGLCLFMKRSHEA 74 (564)
T ss_pred CCcccc-hhHHHhhcCHHHHHHHhhhhccceeccccccc-----chhhhHHHHHHHHhhhhhheeeccccchhHHHhhhH
Confidence 468999 99999999999999999999999988732211 278999999999999999999999999999876532
Q ss_pred CCCCCCCCeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhh-----------hhcCCChHH----------------
Q 022773 109 DLGSGGNNKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERN-----------RKEGVDSVR---------------- 161 (292)
Q Consensus 109 ~~g~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~-----------~~~GI~~~~---------------- 161 (292)
..-+.+....+|+.-+. ....+.+|+..++.++.+++-++... ...|+.+..
T Consensus 75 ~~~~~~~n~~~~~~g~~-~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dl~ 153 (564)
T KOG1990|consen 75 LEMSTGGNFVVWSRGDS-ISSPEFLCQRSPVDFVARQQENQAGKWPSELEKEKNELLDSLGPELSDWGGSDRLSVDADLL 153 (564)
T ss_pred hhccCCCceeeeecCcc-ccCCccceeecchhhhhhhchhhhhhhHHHHHHHHHHHhhccCcccccCCCCCCccchhhhc
Confidence 11000112345553332 22224578899999988882211110 001111110
Q ss_pred ----------------------------------------------------------------HHHHHHHcCc------
Q 022773 162 ----------------------------------------------------------------FAELMMSSGL------ 171 (292)
Q Consensus 162 ----------------------------------------------------------------f~e~l~~Sgl------ 171 (292)
|+..+...|.
T Consensus 154 ~~~i~~~~~p~r~l~~~~~~~l~~~~~~~~r~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~k~~~~k~~~~rg~~~~~~~ 233 (564)
T KOG1990|consen 154 PEKIPDYMRPFRTLPVGSPPLLTSIESTLLRRLGYKLPPHFALGRSRKLQGLAVAMVSFWEKHEFAKILIKRGVLETRKE 233 (564)
T ss_pred hhhhhcccChhccCCCCChhhhhhHHHHHHHHhcccccccceehhccccccchhHHHHHHHHHHHHHHHHHhcchhhhcc
Confidence 0111111111
Q ss_pred --------cccCCcceEEeeC-chhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhh--hh--ccchHHH
Q 022773 172 --------VCNESVSWVTFHS-AYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFC--QS--LYGGLDR 238 (292)
Q Consensus 172 --------v~~~~~~wv~fhg-~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~--~~--l~~~L~~ 238 (292)
+...+ .-+..|+ .+|+.|++|-|.+ +||+++.+|... ...| |+++|++.++... .. +.+.+.+
T Consensus 234 ~~a~~l~~~~~tg-~~lv~hN~~~dv~y~~~~Fl~-~lp~~l~~f~~~-~~~f-p~~~~~~~~~~~~~~~~~~~~~t~~e 309 (564)
T KOG1990|consen 234 RMADELQELLLTG-KVLVLHNKLLDVMYRYKNFLS-PLPSTLEEFTDS-SSMF-PNIEDTKRLAKLSEYQKLNLKATLLE 309 (564)
T ss_pred chHHHHHHHHhcC-CeEEeeccceeeeeehhhccc-ccchhHHHhhhh-hhhh-hhhHHHHHhhccccccchhhhhhHHH
Confidence 11112 2244555 5999999999997 999999999999 9999 9999999998832 22 4444433
Q ss_pred HHHH-cCC----CC--------------CCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 239 VART-LDV----SR--------------AVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 239 la~~-L~v----~r--------------~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
.+.. ... .+ .....|+++++++.++.++.+....+.+
T Consensus 310 ~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 365 (564)
T KOG1990|consen 310 LARAKAKKEKEIERRSISSRLKLEFEKASSEKLTEAIFHKLEKAKKKLASANRILA 365 (564)
T ss_pred HHHHhcccccCcccccccchhhhhhhccchhhHHHHHHHHHhhhhhhccchhhhhh
Confidence 3321 110 00 1356789999999999999998777654
No 5
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=98.86 E-value=7.9e-08 Score=87.41 Aligned_cols=170 Identities=19% Similarity=0.244 Sum_probs=116.3
Q ss_pred hcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEe
Q 022773 44 DRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFN 123 (292)
Q Consensus 44 ~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FN 123 (292)
.+.+||++|+|-||+... .-.|||+|+..++.+|+.. ..|+
T Consensus 4 ~~~~~vv~D~ETTGl~p~----------------------------~d~Iieig~v~v~~~g~~~-----------~~~~ 44 (232)
T PRK07942 4 HPGPLAAFDLETTGVDPE----------------------------TARIVTAALVVVDADGEVV-----------ESRE 44 (232)
T ss_pred ccCcEEEEEeccCCCCCC----------------------------CCeeEEEEEEEEeCCCccc-----------cceE
Confidence 457899999999997421 1258999999998767532 2344
Q ss_pred ecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHH----HHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCC
Q 022773 124 FRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVR----FAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRS 199 (292)
Q Consensus 124 F~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~----f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~ 199 (292)
.. .+... ...+.+.+. |||.=..+..+|.|... |.+.+.. . ...+..+|+++..||+.+|-+.+...-
T Consensus 45 ~l-v~P~~-~i~~~a~~I---hGIt~e~l~~~g~~~~~vl~e~~~~l~~--~-~~~~~~lVahNa~FD~~fL~~~~~r~~ 116 (232)
T PRK07942 45 WL-ADPGV-EIPEEASAV---HGITTEYARAHGRPAAEVLAEIADALRE--A-WARGVPVVVFNAPYDLTVLDRELRRHG 116 (232)
T ss_pred EE-ECCCC-CCCHHHHHH---hCCCHHHHHhhCCCHHHHHHHHHHHHHH--H-hhcCCEEEEeCcHhhHHHHHHHHHHcC
Confidence 43 33332 455665554 99999999989998653 2222211 0 112346788888899999988775322
Q ss_pred CCCCHHHHHHHHHhhcCC-cccchHHHHHhhhhc---cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 200 LPSGLDEFLTVLRVFFGN-NIYDVKHIMRFCQSL---YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 200 LP~~~~~F~~~l~~~F~P-~iyDtK~la~~~~~l---~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
+|.- . | .++|+-.|++.+... +-.|+.+++.+|++. . .+|.|-+|++.|+++|.+|.+++.
T Consensus 117 ~~~~-----------~-~~~~iDt~~l~~~~~~~~~~~~~L~~l~~~~gi~~-~-~aH~Al~Da~ata~l~~~l~~~~~ 181 (232)
T PRK07942 117 LPSL-----------V-PGPVIDPYVIDKAVDRYRKGKRTLTALCEHYGVRL-D-NAHEATADALAAARVAWALARRFP 181 (232)
T ss_pred CCCc-----------c-CCcEeeHHHHHhhhhcccCCCCCHHHHHHHcCCCC-C-CCCChHHHHHHHHHHHHHHHHHHH
Confidence 2211 1 2 356988888765432 236999999999986 3 479999999999999999998875
No 6
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases.
Probab=98.82 E-value=3.7e-07 Score=77.09 Aligned_cols=164 Identities=18% Similarity=0.218 Sum_probs=113.1
Q ss_pred CceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecc
Q 022773 47 PFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRD 126 (292)
Q Consensus 47 ~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~ 126 (292)
.||++|+|++|+... .-.|+|||....+.+. ....|+.+
T Consensus 1 ~~v~~D~Ettg~~~~----------------------------~~~Iieig~v~~~~~~------------~~~~f~~~- 39 (169)
T smart00479 1 TLVVIDCETTGLDPG----------------------------KDEIIEIAAVDVDGGR------------IIVVFDTY- 39 (169)
T ss_pred CEEEEEeeCCCCCCC----------------------------CCeEEEEEEEEEECCE------------eEEEEEEE-
Confidence 389999999996421 2359999998877642 24567776
Q ss_pred cCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeC-chhHHHHHHHhCC--CCCCCC
Q 022773 127 FDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHS-AYDFGYLVKILTR--RSLPSG 203 (292)
Q Consensus 127 F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg-~yD~~yL~k~l~~--~~LP~~ 203 (292)
..+ ....++.+. +-+|+.-+.+.. |.++....+.+.. ++ ++-.+|++|+ .+|+.+|-+.+.. .+.|..
T Consensus 40 v~p-~~~i~~~~~---~~~Git~~~l~~-~~~~~~~~~~~~~--~l--~~~~~v~~n~~~fD~~~L~~~~~~~~~~~~~~ 110 (169)
T smart00479 40 VKP-DRPITDYAT---EIHGITPEMLDD-APTFEEVLEELLE--FL--KGKILVAGNALNFDLRFLKLEHPRLGIKDPPK 110 (169)
T ss_pred ECC-CCCCCHHHH---HHhCCCHHHHhC-CCCHHHHHHHHHH--Hh--cCCEEEEeCCHHHhHHHHHHHHHHhCCCCCcC
Confidence 333 223444443 447988877755 8887765555432 22 1235788888 7999999888752 333311
Q ss_pred HHHHHHHHHhhcCCcccchHHHHHhhh-hccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 204 LDEFLTVLRVFFGNNIYDVKHIMRFCQ-SLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 204 ~~~F~~~l~~~F~P~iyDtK~la~~~~-~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
...+|+.-+++... ....+|+.+++.++++. .+.+|.|-.|+..|+++|.+|.++.+
T Consensus 111 -------------~~~iD~~~~~~~~~~~~~~~L~~l~~~~~~~~-~~~~H~A~~Da~~t~~l~~~~~~~~~ 168 (169)
T smart00479 111 -------------NPVIDTLKLARALNPGRKYSLKKLAERLGLEV-IGRAHRALDDARATAKLFKKLVERLL 168 (169)
T ss_pred -------------CCeeEHHHHHHHHCCCCCCCHHHHHHHCCCCC-CCCCcCcHHHHHHHHHHHHHHHHHhh
Confidence 12568877766532 23568999999999998 77789999999999999999988753
No 7
>cd06133 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins. This subfamily is composed of Caenorhabditis elegans ERI-1, human 3' exonuclease (3'hExo), Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ERI-1 has been implicated in the degradation of small interfering RNAs (RNAi). 3'hExo participates in the degradation of histone mRNAs. Snp is a non-essential exonuclease that efficiently degrades structured RNA and DNA substrates as long as there is a minimum of 2 nucleotides in the 3' overhang to initiate degradation. Snp is not a functional ho
Probab=98.64 E-value=1.2e-06 Score=74.75 Aligned_cols=172 Identities=16% Similarity=0.161 Sum_probs=111.6
Q ss_pred ceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeeccc
Q 022773 48 FISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDF 127 (292)
Q Consensus 48 fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F 127 (292)
||.+|+|.+|..... . --..-.|||||....+.++.. ..-.|+.+.-
T Consensus 1 ~vv~D~Ettg~~~~~-----------~------------~~~~~~IieIgav~v~~~~~~----------~~~~f~~~i~ 47 (176)
T cd06133 1 YLVIDFEATCWEGNS-----------K------------PDYPNEIIEIGAVLVDVKTKE----------IIDTFSSYVK 47 (176)
T ss_pred CEEEEeeccccCCCC-----------C------------CCCCcceEEEEEEEEEcCCCe----------EEeeeeeeEC
Confidence 799999999986432 0 001236999999999887641 3455666633
Q ss_pred CCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccC-CcceEEeeCchhHHHHHHHhCCCCCCCCHHH
Q 022773 128 DIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNE-SVSWVTFHSAYDFGYLVKILTRRSLPSGLDE 206 (292)
Q Consensus 128 ~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~-~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~ 206 (292)
|......++.+.+. +|+..+.+. ++.++....+.+.. .+.+. ... ++.|+.+|...+.+.+.....+.
T Consensus 48 P~~~~~i~~~~~~i---~gIt~e~l~-~~~~~~~vl~~~~~--~l~~~~~~~-~v~~~~~d~~~l~~~~~~~~~~~---- 116 (176)
T cd06133 48 PVINPKLSDFCTEL---TGITQEDVD-NAPSFPEVLKEFLE--WLGKNGKYA-FVTWGDWDLKDLLQNQCKYKIIN---- 116 (176)
T ss_pred CCcCCchhHHHHHh---cCcCHHHHh-cCCCHHHHHHHHHH--HHHhCCCeE-EEeecHhhHHHHHHHHHHhcCCC----
Confidence 44323566666666 999999875 56766543333221 11110 122 34456789887776543111100
Q ss_pred HHHHHHhhcCCcccchHHHHHhhhhc--cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHH
Q 022773 207 FLTVLRVFFGNNIYDVKHIMRFCQSL--YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKI 269 (292)
Q Consensus 207 F~~~l~~~F~P~iyDtK~la~~~~~l--~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l 269 (292)
...++ ...+|++.+++..... ..+|..+++.+|++. .+..|.|=+|+..|+++|.+|
T Consensus 117 ----~~~~~-~~~~D~~~~~~~~~~~~~~~~L~~l~~~~gi~~-~~~~H~Al~DA~~~a~l~~~~ 175 (176)
T cd06133 117 ----LPPFF-RQWIDLKKEFAKFYGLKKRTGLSKALEYLGLEF-EGRHHRGLDDARNIARILKRL 175 (176)
T ss_pred ----Ccccc-cceEEHHHHHHHHhCCCCCCCHHHHHHHCCCCC-CCCCcCcHHHHHHHHHHHHHh
Confidence 11223 5677999888875433 568999999999998 689999999999999999987
No 8
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. RNase T is a DEDDh-type DnaQ-like 3'-5' exoribonuclease E implicated in the 3' maturation of small stable RNAs and 23srRNA, and in the end turnover of tRNA. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase T is related to the proofreading domain of DNA polymerase III. Despite its important role, RNase T is mainly found only in gammaproteobacteria. It is speculated that it might have originated from DNA polymerase III at the time the gamma division of proteobacteria diverged from other bacteria. RNase T is a homodimer with the catalytic residues of one monomer contacting a large basic patch on the other monomer to form a functional active site.
Probab=98.61 E-value=1e-06 Score=77.56 Aligned_cols=177 Identities=19% Similarity=0.225 Sum_probs=114.0
Q ss_pred cCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCC--CCCCCCCCCCCCeeEEEE
Q 022773 45 RYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSS--GNLPDLGSGGNNKFIWEF 122 (292)
Q Consensus 45 ~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~--g~~p~~g~~~~~~~~w~F 122 (292)
.+.+|++|+|-||+.... =.|||+|...+..+ |.. ....+|
T Consensus 4 ~~~~vv~D~ETTGl~~~~----------------------------d~Iieigav~v~~~~~~~i---------~~~~~f 46 (189)
T cd06134 4 GFLPVVVDVETGGFNPQT----------------------------DALLEIAAVTLEMDEQGNL---------YPDETF 46 (189)
T ss_pred cceeEEEEecCCCCCCCC----------------------------CeEEEEEEEEEEECCCCce---------eccceE
Confidence 467899999999986321 12899999988643 331 124456
Q ss_pred eecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHH-HHHHHHH-cCccc---cCCcceEEeeCchhHHHHHHHhCC
Q 022773 123 NFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVR-FAELMMS-SGLVC---NESVSWVTFHSAYDFGYLVKILTR 197 (292)
Q Consensus 123 NF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~-f~e~l~~-Sglv~---~~~~~wv~fhg~yD~~yL~k~l~~ 197 (292)
+++.-|.......+++++. |||.=+...+.|++... +.+.+-. ..++. .++..+|++|..+|++||-+.+..
T Consensus 47 ~~lv~P~~~~~i~~~~~~i---hGIt~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~lVaHna~FD~~fL~~~~~~ 123 (189)
T cd06134 47 HFHILPFEGANLDPAALEF---NGIDPFHPFRFAVDEKEALKEIFKPIRKALKAQGCTRAILVGHNAHFDLGFLNAAVAR 123 (189)
T ss_pred EEEEcCCCCCCCCHHHHhh---cCCCchhhhccccchHHHHHHHHHHHHHHHhhcccCCCeEEEecchhhHHHHHHHHHH
Confidence 7662332233566666555 88886666777876653 2222110 00110 113357777778999999887742
Q ss_pred CCCCCCHHHHHHHHHhhcCC-cccchHHHHHhhhhccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHH
Q 022773 198 RSLPSGLDEFLTVLRVFFGN-NIYDVKHIMRFCQSLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDV 272 (292)
Q Consensus 198 ~~LP~~~~~F~~~l~~~F~P-~iyDtK~la~~~~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~ 272 (292)
..++ ...|.| .++||.-|++.... .-.|+.+++.+|++......|.|-+|++.|+++|.+|.++
T Consensus 124 ~~~~----------~~~~~~~~~lDt~~la~~~~~-~~~L~~l~~~~gi~~~~~~~H~Al~DA~ata~lf~~l~~~ 188 (189)
T cd06134 124 CKIK----------RNPFHPFSTFDTATLAGLAYG-QTVLAKACQAAGIEFDNKEAHSALYDTQKTAELFCKIVNR 188 (189)
T ss_pred hCCC----------CCCCCCCcEEEHHHHHHHHhC-CCcHHHHHHHCCCCCCCCCCcChHHHHHHHHHHHHHHHHh
Confidence 1111 011213 36899999876532 2369999999999852356899999999999999999875
No 9
>PRK09145 DNA polymerase III subunit epsilon; Validated
Probab=98.59 E-value=1.7e-06 Score=76.70 Aligned_cols=171 Identities=13% Similarity=0.230 Sum_probs=106.5
Q ss_pred HHHHHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCC
Q 022773 36 FELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGN 115 (292)
Q Consensus 36 l~~I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~ 115 (292)
+..+.+.....+||++|+|.||+... .-.|||||...++.+..
T Consensus 19 ~~~~~~~~~~~~~vviD~ETTGl~~~----------------------------~d~IieIgaV~~~~~~~--------- 61 (202)
T PRK09145 19 YAFLFEPPPPDEWVALDCETTGLDPR----------------------------RAEIVSIAAVKIRGNRI--------- 61 (202)
T ss_pred HHHHhcCCCCCCEEEEEeECCCCCCC----------------------------CCceEEEEEEEEECCEE---------
Confidence 33444444567999999999997310 12589999988874321
Q ss_pred CeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHh
Q 022773 116 NKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKIL 195 (292)
Q Consensus 116 ~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l 195 (292)
.....|.++ ..... ...+.+.+. ||+.-..+ .+|.+.....+.+.. .+ .+..||+++..+|+.+|-+-+
T Consensus 62 -~~~~~f~~~-i~p~~-~i~~~~~~i---hGIt~~~l-~~~~~~~~vl~~~~~--~i--~~~~lv~hn~~fD~~fL~~~~ 130 (202)
T PRK09145 62 -LTSERLELL-VRPPQ-SLSAESIKI---HRLRHQDL-EDGLSEEEALRQLLA--FI--GNRPLVGYYLEFDVAMLNRYV 130 (202)
T ss_pred -eecCceEEE-ECCCC-CCCHhHhhh---cCcCHHHH-hcCCCHHHHHHHHHH--HH--cCCeEEEeCHHHHHHHHHHHH
Confidence 122345555 33332 344555444 78777665 467766554444332 11 123567766679999987665
Q ss_pred C---CCCCCCCHHHHHHHHHhhcCCcccchHHHHHh--hhhc-----cchHHHHHHHcCCCCCCCCCccchhhHHHHHHH
Q 022773 196 T---RRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRF--CQSL-----YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHA 265 (292)
Q Consensus 196 ~---~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~--~~~l-----~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~ 265 (292)
. +.++|.. .+|+.-+... ...+ .-+|+.+++.+|++. . ..|.|-+||+.|+++
T Consensus 131 ~~~~~~~~~~~---------------~id~~~l~~~~~~~~~~~~~~~~~L~~l~~~~gi~~-~-~~H~Al~DA~ata~l 193 (202)
T PRK09145 131 RPLLGIPLPNP---------------LIEVSALYYDKKERHLPDAYIDLRFDAILKHLDLPV-L-GRHDALNDAIMAALI 193 (202)
T ss_pred HHhcCCCCCCC---------------eeeHHHHHHHHhhccCCCcccCCCHHHHHHHcCCCC-C-CCCCcHHHHHHHHHH
Confidence 2 3444432 3455444321 1111 247999999999986 4 469999999999999
Q ss_pred HHHHHH
Q 022773 266 FQKIRD 271 (292)
Q Consensus 266 F~~l~~ 271 (292)
|.+|++
T Consensus 194 ~~~l~~ 199 (202)
T PRK09145 194 FLRLRK 199 (202)
T ss_pred HHHHHh
Confidence 999864
No 10
>PRK05168 ribonuclease T; Provisional
Probab=98.59 E-value=2e-06 Score=77.11 Aligned_cols=188 Identities=15% Similarity=0.220 Sum_probs=121.7
Q ss_pred HHHHHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecC--CCCCCCCCCC
Q 022773 36 FELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDS--SGNLPDLGSG 113 (292)
Q Consensus 36 l~~I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~--~g~~p~~g~~ 113 (292)
+.-|..-++...||++|+|-||+... .+ .|||||...... +|..
T Consensus 7 ~~~~~~~~~~~~~vv~D~ETTGl~~~------------~d----------------~IieIgaV~v~~d~~g~i------ 52 (211)
T PRK05168 7 LNPLKDRFRGFLPVVIDVETAGFNAK------------TD----------------ALLEIAAVTLKMDEQGWL------ 52 (211)
T ss_pred cchHHHHhcCCceEEEEeeCCCCCCC------------CC----------------EEEEEeEEEEEecCCCcE------
Confidence 34577888899999999999998532 11 299999888764 3432
Q ss_pred CCCeeEEEEeecccCCC-CCCCChhHHHHHHHcCCChhhhhhcCCChHH-HHHHHHH--cCcc--ccCCcceEEeeCchh
Q 022773 114 GNNKFIWEFNFRDFDIA-TDAHAPDSIELLRLQGIDFERNRKEGVDSVR-FAELMMS--SGLV--CNESVSWVTFHSAYD 187 (292)
Q Consensus 114 ~~~~~~w~FNF~~F~~~-~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~-f~e~l~~--Sglv--~~~~~~wv~fhg~yD 187 (292)
.....|..+ .++. .....+++++. |||.=+...+.|++... +.+.+.. ..+. ...+..+|++|-.+|
T Consensus 53 ---~~~~~f~~l-v~P~~~~~i~~~~~~i---hGIt~e~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~lVaHNa~FD 125 (211)
T PRK05168 53 ---YPDETLHFH-VEPFEGANLEPEALAF---NGIDPDNPLRGAVSEKEALHEIFKMVRKGIKASGCNRAILVAHNAHFD 125 (211)
T ss_pred ---eccceEEEE-ECCCCCCCCCHHHHhh---cCCCchhhhhcCCChHHHHHHHHHHHHHHHHhcccCCceEEEeccHHh
Confidence 123456666 4432 33566666655 88865556677887643 2222111 0010 012346777777899
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHhhcCC-cccchHHHHHhhhhccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHH
Q 022773 188 FGYLVKILTRRSLPSGLDEFLTVLRVFFGN-NIYDVKHIMRFCQSLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAF 266 (292)
Q Consensus 188 ~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P-~iyDtK~la~~~~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F 266 (292)
+.||-+.+....+.. ..+. | .++||.-|++..-.. ..|+.+++.+|++-.....|.|-+|++.|+++|
T Consensus 126 ~~fL~~~~~r~~~~~---------~~~~-~~~~iDt~~lar~~~~~-~~L~~l~~~~gl~~~~~~~H~Al~DA~ata~l~ 194 (211)
T PRK05168 126 LSFLMAAAERAGLKR---------NPFH-PFSTFDTATLSGLALGQ-TVLAKACQAAGIEFDNKEAHSALYDTEKTAELF 194 (211)
T ss_pred HHHHHHHHHHhCCCC---------CCCC-CCcEeeHHHHHHHHcCC-CCHHHHHHHCCCCCCCCCCCChHHHHHHHHHHH
Confidence 999988764211110 0112 3 478999888764322 369999999999852236899999999999999
Q ss_pred HHHHHHhcC
Q 022773 267 QKIRDVYFV 275 (292)
Q Consensus 267 ~~l~~~~~~ 275 (292)
.+|.+++-.
T Consensus 195 ~~l~~~~~~ 203 (211)
T PRK05168 195 CEIVNRWKR 203 (211)
T ss_pred HHHHHHHHH
Confidence 999988743
No 11
>cd06131 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins. This subfamily is composed of the epsilon subunit of Escherichia coli DNA polymerase III (Pol III) and similar proteins. Pol III is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. It is a holoenzyme complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The epsilon
Probab=98.49 E-value=5.3e-06 Score=70.66 Aligned_cols=164 Identities=17% Similarity=0.199 Sum_probs=104.0
Q ss_pred ceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeeccc
Q 022773 48 FISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDF 127 (292)
Q Consensus 48 fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F 127 (292)
||++|+|-||+... ..-.|||||....+. +. ....+|+.. .
T Consensus 1 ~v~~D~ETTGl~~~---------------------------~~~~iieig~v~v~~-~~----------~~~~~~~~~-v 41 (167)
T cd06131 1 QIVLDTETTGLDPR---------------------------EGHRIIEIGCVELIN-RR----------LTGNTFHVY-I 41 (167)
T ss_pred CEEEEeeCCCCCCC---------------------------CCCeEEEEEEEEEEC-Cc----------EeccEEEEE-E
Confidence 79999999997310 123699999987654 22 123456665 3
Q ss_pred CCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHH
Q 022773 128 DIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEF 207 (292)
Q Consensus 128 ~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F 207 (292)
.+.. ...+.+++. ||+.=+.+.. +.+.....+.+.. .+ . +-.+|++|..+|+.+|-+-+....++...
T Consensus 42 ~P~~-~i~~~~~~i---hGIt~e~l~~-~~~~~~v~~~l~~--~l-~-~~~lv~hn~~fD~~~l~~~~~~~~~~~~~--- 109 (167)
T cd06131 42 NPER-DIPEEAFKV---HGITDEFLAD-KPKFAEIADEFLD--FI-R-GAELVIHNASFDVGFLNAELSLLGLGKKI--- 109 (167)
T ss_pred CCCC-CCCHHHHHH---hCCCHHHHhc-CCCHHHHHHHHHH--HH-C-CCeEEEeChHHhHHHHHHHHHHhCCCccc---
Confidence 4433 355665543 7887776554 3444433333332 11 1 23477777789999987776532221110
Q ss_pred HHHHHhhcCC-cccchHHHHHhh-hhccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHH
Q 022773 208 LTVLRVFFGN-NIYDVKHIMRFC-QSLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKI 269 (292)
Q Consensus 208 ~~~l~~~F~P-~iyDtK~la~~~-~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l 269 (292)
.. | ..+||-.+++.. +....+|+.+++.+|++.....+|.|-+|++.|+++|.+|
T Consensus 110 ------~~-~~~~idt~~~~~~~~~~~~~~L~~l~~~~~i~~~~~~~H~Al~Da~~~a~l~~~l 166 (167)
T cd06131 110 ------ID-FCRVIDTLALARKKFPGKPNSLDALCKRFGIDNSHRTLHGALLDAELLAEVYLEL 166 (167)
T ss_pred ------cc-CCCceEhHHHHHHHcCCCCCCHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHHHh
Confidence 01 3 367987777653 2345589999999999972235899999999999999987
No 12
>PRK07748 sporulation inhibitor KapD; Provisional
Probab=98.46 E-value=7e-06 Score=73.19 Aligned_cols=172 Identities=17% Similarity=0.153 Sum_probs=105.6
Q ss_pred cCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEee
Q 022773 45 RYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 45 ~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF 124 (292)
.-.||++|+|.||+..+.. ++. + .-.|||||....+. |+. .-.|+-
T Consensus 3 ~~~~vvlD~EtTg~~~~~~-------------~~~-~--------~~eIIeIGaV~v~~-~~i-----------~~~f~~ 48 (207)
T PRK07748 3 EQQFLFLDFEFTMPQHKKK-------------PKG-F--------FPEIIEVGLVSVVG-CEV-----------EDTFSS 48 (207)
T ss_pred cceEEEEEeecCCcCCCCC-------------CCC-C--------CCceEEEeEEEEec-CcC-----------hhhhcc
Confidence 4579999999999753211 000 0 01499999988863 332 122343
Q ss_pred cccCCCCC-CCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhC--CCCCC
Q 022773 125 RDFDIATD-AHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILT--RRSLP 201 (292)
Q Consensus 125 ~~F~~~~d-~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~--~~~LP 201 (292)
+ ..+... ...+.+.++ +||.=+.+ .+|.++....+.+.. .+ .....+|+.|+.+|+.+|-+.+. |.+.|
T Consensus 49 l-V~P~~~~~i~~~~~~l---tGIt~~~l-~~ap~~~evl~~f~~--~~-~~~~~~iv~~~~fD~~fL~~~~~~~~~~~~ 120 (207)
T PRK07748 49 Y-VKPKTFPSLTERCKSF---LGITQEDV-DKGISFEELVEKLAE--YD-KRCKPTIVTWGNMDMKVLKHNCEKAGVPFP 120 (207)
T ss_pred e-ECCCccCccChhhhhh---cCcCHHHH-ccCCCHHHHHHHHHH--Hh-CcCCeEEEEECHHHHHHHHHHHHHcCCCCc
Confidence 3 222221 344444444 78877776 468877655444432 12 12113455678899999988774 22222
Q ss_pred CCHHHHHHHHHhhcCCcccchHHHHHhhhhc--cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHH
Q 022773 202 SGLDEFLTVLRVFFGNNIYDVKHIMRFCQSL--YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDV 272 (292)
Q Consensus 202 ~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l--~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~ 272 (292)
. + +...|+..+.+..... .-+|..+++.+|++. .+..|.|-+||+.|+.+|.+|.+.
T Consensus 121 ~------------~-~~~~dl~~~~~~~~~~~~~~~L~~~~~~~gi~~-~~~~H~Al~DA~~ta~l~~~l~~~ 179 (207)
T PRK07748 121 F------------K-GQCRDLSLEYKKFFGERNQTGLWKAIEEYGKEG-TGKHHCALDDAMTTYNIFKLVEKD 179 (207)
T ss_pred c------------c-ccceeHHHHHHHHhCcCCCCCHHHHHHHcCCCC-CCCCcChHHHHHHHHHHHHHHHhC
Confidence 1 1 2234555444332211 247999999999997 788999999999999999998876
No 13
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=98.34 E-value=8.6e-06 Score=74.98 Aligned_cols=171 Identities=15% Similarity=0.130 Sum_probs=107.9
Q ss_pred HhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEE
Q 022773 42 VIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWE 121 (292)
Q Consensus 42 ~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~ 121 (292)
+++...||.+|+|-||+... . -.|||||+..++.++ ...+
T Consensus 3 ~l~~~~~v~~D~ETTGl~~~------------~----------------d~IIEIa~v~v~~~~------------~~~~ 42 (250)
T PRK06310 3 LLKDTEFVCLDCETTGLDVK------------K----------------DRIIEFAAIRFTFDE------------VIDS 42 (250)
T ss_pred cccCCcEEEEEEeCCCCCCC------------C----------------CeEEEEEEEEEECCe------------EEEE
Confidence 56778999999999997421 1 248999988776432 2455
Q ss_pred EeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCC
Q 022773 122 FNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLP 201 (292)
Q Consensus 122 FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP 201 (292)
|+.+ .++.. ...++++ +-||+--..+.. .-+.....+.+.. .+ .+.-.+|+++..+|..+|-+.+....+|
T Consensus 43 ~~~l-i~P~~-~I~~~a~---~ihgIt~e~v~~-~p~~~ev~~~~~~--fl-~~~~~lvghn~~FD~~~L~~~~~r~g~~ 113 (250)
T PRK06310 43 VEFL-INPER-VVSAESQ---RIHHISDAMLRD-KPKIAEVFPQIKG--FF-KEGDYIVGHSVGFDLQVLSQESERIGET 113 (250)
T ss_pred EEEE-ECcCC-CCCHhhh---hccCcCHHHHhC-CCCHHHHHHHHHH--Hh-CCCCEEEEECHHHHHHHHHHHHHHcCCC
Confidence 6665 44433 3444443 337766555533 3333333333332 11 1223456655569999998876422222
Q ss_pred CCHHHHHHHHHhhcCCcccchHHHHHhhhhc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHh
Q 022773 202 SGLDEFLTVLRVFFGNNIYDVKHIMRFCQSL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVY 273 (292)
Q Consensus 202 ~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~ 273 (292)
... ....++||..+++..+.. ..+|+.+++.+|++. . .+|.|-+|++.|+.+|.+|.+.+
T Consensus 114 ~~~----------~~~~~iDtl~lar~~~~~~~~~L~~l~~~~g~~~-~-~aH~Al~Da~at~~vl~~l~~~~ 174 (250)
T PRK06310 114 FLS----------KHYYIIDTLRLAKEYGDSPNNSLEALAVHFNVPY-D-GNHRAMKDVEINIKVFKHLCKRF 174 (250)
T ss_pred ccc----------cCCcEEehHHHHHhcccCCCCCHHHHHHHCCCCC-C-CCcChHHHHHHHHHHHHHHHHhc
Confidence 110 102367998888865543 357999999999986 3 47999999999999999998765
No 14
>PRK05711 DNA polymerase III subunit epsilon; Provisional
Probab=98.33 E-value=2e-05 Score=72.26 Aligned_cols=168 Identities=16% Similarity=0.224 Sum_probs=110.0
Q ss_pred CCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeec
Q 022773 46 YPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFR 125 (292)
Q Consensus 46 ~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~ 125 (292)
-.||++|||-||+... ..-.|||||...... +. .....|+.+
T Consensus 4 ~r~vvlDtETTGldp~---------------------------~~drIIEIGaV~v~~-~~----------~~~~~f~~~ 45 (240)
T PRK05711 4 MRQIVLDTETTGLNQR---------------------------EGHRIIEIGAVELIN-RR----------LTGRNFHVY 45 (240)
T ss_pred CeEEEEEeeCCCcCCC---------------------------CCCeEEEEEEEEEEC-CE----------EeccEEEEE
Confidence 4699999999997421 133699999876542 21 123456666
Q ss_pred ccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhC--CCCCCCC
Q 022773 126 DFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILT--RRSLPSG 203 (292)
Q Consensus 126 ~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~--~~~LP~~ 203 (292)
.++.+ ...+.+++. |||.-+.+.. +-++....+.+.. .+ .+..+|+++..+|++||-+-+. |.++|..
T Consensus 46 -i~P~~-~i~~~a~~V---HGIT~e~l~~-~p~f~ev~~~f~~--fi--~~~~lVaHNa~FD~~fL~~el~r~g~~~~~~ 115 (240)
T PRK05711 46 -IKPDR-LVDPEALAV---HGITDEFLAD-KPTFAEVADEFLD--FI--RGAELIIHNAPFDIGFMDYEFALLGRDIPKT 115 (240)
T ss_pred -ECcCC-cCCHHHhhh---cCCCHHHHcC-CCCHHHHHHHHHH--Hh--CCCEEEEEccHHhHHHHHHHHHHhCCCCCcc
Confidence 44433 345555544 7887766554 3444433333332 12 2234677666799999987663 2344432
Q ss_pred HHHHHHHHHhhcCCcccchHHHHHhh-hhccchHHHHHHHcCCCCCCC-CCccchhhHHHHHHHHHHHHHH
Q 022773 204 LDEFLTVLRVFFGNNIYDVKHIMRFC-QSLYGGLDRVARTLDVSRAVG-KCHQAGSDSLLTWHAFQKIRDV 272 (292)
Q Consensus 204 ~~~F~~~l~~~F~P~iyDtK~la~~~-~~l~~~L~~la~~L~v~r~~g-~~HqAGsDS~lT~~~F~~l~~~ 272 (292)
. .+ ..++||--|++.. ++.+.+|+.+++.+|++. .. ..|.|-.|+.+|+.+|.+|...
T Consensus 116 ~---------~~-~~~iDTl~lar~~~p~~~~~L~aL~~~~gi~~-~~r~~H~AL~DA~~~A~v~~~l~~~ 175 (240)
T PRK05711 116 N---------TF-CKVTDTLAMARRMFPGKRNSLDALCKRYGIDN-SHRTLHGALLDAEILAEVYLAMTGG 175 (240)
T ss_pred c---------cc-CceeeHHHHHHHHcCCCCCCHHHHHHHCCCCC-CCCCCCCHHHHHHHHHHHHHHHHCc
Confidence 1 13 4578998888764 345568999999999987 44 4799999999999999999754
No 15
>cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III. This subfamily is composed of uncharacterized bacterial proteins with similarity to the epsilon subunit of DNA polymerase III (Pol III), a multisubunit polymerase which is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. The Pol III holoenzyme is a complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that ser
Probab=98.28 E-value=3e-05 Score=64.94 Aligned_cols=138 Identities=18% Similarity=0.163 Sum_probs=87.3
Q ss_pred ceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCcc
Q 022773 93 LIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLV 172 (292)
Q Consensus 93 iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv 172 (292)
+||+|...++ .|+ ..-+|+.+ ..+.. ...+++.+ -+|+.-..+. .+.++..-.+.+.. .+
T Consensus 16 ii~ig~v~~~-~~~-----------~~~~~~~~-i~p~~-~~~~~~~~---i~GIt~e~l~-~~~~~~~v~~~l~~--~l 75 (156)
T cd06130 16 ACSIGLVKVR-DGQ-----------IVDTFYTL-IRPPT-RFDPFNIA---IHGITPEDVA-DAPTFPEVWPEIKP--FL 75 (156)
T ss_pred eEEEEEEEEE-CCE-----------EEEEEEEE-eCcCC-CCChhhcc---ccCcCHHHHh-cCCCHHHHHHHHHH--Hh
Confidence 6999998886 332 24567776 44433 44555543 3899888776 44454332222221 11
Q ss_pred ccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhh-hhc-cchHHHHHHHcCCCCCCC
Q 022773 173 CNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFC-QSL-YGGLDRVARTLDVSRAVG 250 (292)
Q Consensus 173 ~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~-~~l-~~~L~~la~~L~v~r~~g 250 (292)
.+..||+++..+|+.+|-+.+-...++.. -+ ..+||.-+++.. +.+ ..+|+.+++.+|++. .
T Consensus 76 --~~~~lv~hn~~fD~~~l~~~~~~~g~~~~----------~~--~~idt~~~~~~~~~~~~~~~L~~l~~~~g~~~-~- 139 (156)
T cd06130 76 --GGSLVVAHNASFDRSVLRAALEAYGLPPP----------PY--QYLCTVRLARRVWPLLPNHKLNTVAEHLGIEL-N- 139 (156)
T ss_pred --CCCEEEEeChHHhHHHHHHHHHHcCCCCC----------CC--CEEEHHHHHHHHhccCCCCCHHHHHHHcCCCc-c-
Confidence 12356666668999999887753111110 12 356887776653 232 247999999999987 4
Q ss_pred CCccchhhHHHHHHHHH
Q 022773 251 KCHQAGSDSLLTWHAFQ 267 (292)
Q Consensus 251 ~~HqAGsDS~lT~~~F~ 267 (292)
+|.|-+|+..|+++|.
T Consensus 140 -~H~Al~Da~~ta~l~~ 155 (156)
T cd06130 140 -HHDALEDARACAEILL 155 (156)
T ss_pred -CcCchHHHHHHHHHHh
Confidence 8999999999999885
No 16
>PRK07740 hypothetical protein; Provisional
Probab=98.27 E-value=2.8e-05 Score=71.33 Aligned_cols=170 Identities=18% Similarity=0.188 Sum_probs=107.9
Q ss_pred hcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEe
Q 022773 44 DRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFN 123 (292)
Q Consensus 44 ~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FN 123 (292)
.+.+||.+|+|.||+... . .-.|||+|....+. +. .....|.
T Consensus 57 ~~~~~vv~D~ETTGl~p~------------~---------------~deIIeIgaV~~~~-~~----------i~~~~f~ 98 (244)
T PRK07740 57 TDLPFVVFDLETTGFSPQ------------Q---------------GDEILSIGAVKTKG-GE----------VETDTFY 98 (244)
T ss_pred cCCCEEEEEEeCCCCCCC------------C---------------CCeEEEEEEEEEEC-CE----------EEEEEEE
Confidence 456899999999996411 0 12589999888763 21 1134455
Q ss_pred ecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCC
Q 022773 124 FRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSG 203 (292)
Q Consensus 124 F~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~ 203 (292)
.. ..+.. ...+.+.+ -+|+.=..+ .+|.+...-.+.+.. .+ .+-.+|+++..+|+.||-+.+...
T Consensus 99 ~l-v~P~~-~i~~~~~~---ltGIt~e~l-~~ap~~~evl~~f~~--fi--~~~~lVahna~fD~~fL~~~~~~~----- 163 (244)
T PRK07740 99 SL-VKPKR-PIPEHILE---LTGITAEDV-AFAPPLAEVLHRFYA--FI--GAGVLVAHHAGHDKAFLRHALWRT----- 163 (244)
T ss_pred EE-eCcCC-CCChhhee---ccCCCHHHH-hCCCCHHHHHHHHHH--Hh--CCCEEEEeCHHHHHHHHHHHHHHh-----
Confidence 44 23322 33444332 377776655 346665543333332 11 223677777779999988776421
Q ss_pred HHHHHHHHHhhcCCcccchHHHHHhhhh-c-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 204 LDEFLTVLRVFFGNNIYDVKHIMRFCQS-L-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 204 ~~~F~~~l~~~F~P~iyDtK~la~~~~~-l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
+..-|...+.||..+++.+.. . ..+|+.+++.+|++. .+ .|.|-+|++.|+.+|.++......
T Consensus 164 -------~~~~~~~~~iDt~~l~r~l~~~~~~~sL~~l~~~~gi~~-~~-~H~Al~Da~ata~l~~~ll~~~~~ 228 (244)
T PRK07740 164 -------YRQPFTHRLIDTMFLTKLLAHERDFPTLDDALAYYGIPI-PR-RHHALGDALMTAKLWAILLVEAQQ 228 (244)
T ss_pred -------cCCCcCCCeechHHHHHHHcCCCCCCCHHHHHHHCCcCC-CC-CCCcHHHHHHHHHHHHHHHHHHHH
Confidence 111121357799888876542 2 347999999999987 45 499999999999999999877654
No 17
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=98.27 E-value=3.4e-05 Score=73.37 Aligned_cols=164 Identities=16% Similarity=0.180 Sum_probs=104.5
Q ss_pred cCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEee
Q 022773 45 RYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 45 ~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF 124 (292)
.-+||++|+|-||+.. +.-.|||||...++.+|+. ...|..
T Consensus 14 ~~~fvvlD~ETTGl~p----------------------------~~d~IIeIgav~v~~~g~i-----------~~~~~~ 54 (313)
T PRK06063 14 PRGWAVVDVETSGFRP----------------------------GQARIISLAVLGLDADGNV-----------EQSVVT 54 (313)
T ss_pred CCCEEEEEEECCCCCC----------------------------CCCEEEEEEEEEEECCcee-----------eeEEEE
Confidence 3589999999999731 1236999999999877753 233444
Q ss_pred cccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhC--CCCCCC
Q 022773 125 RDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILT--RRSLPS 202 (292)
Q Consensus 125 ~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~--~~~LP~ 202 (292)
. .+...+ +.++. =|||.=..+.. .-++....+.+.. ++ .+..+|+++..+|+.||.+.+. +.++|.
T Consensus 55 l-v~P~~~---~~~~~---IhGIt~e~l~~-ap~f~ev~~~l~~--~l--~~~~lVaHNa~FD~~fL~~~~~r~g~~~~~ 122 (313)
T PRK06063 55 L-LNPGVD---PGPTH---VHGLTAEMLEG-QPQFADIAGEVAE--LL--RGRTLVAHNVAFDYSFLAAEAERAGAELPV 122 (313)
T ss_pred E-ECcCCC---CCCee---cCCCCHHHHhC-CCCHHHHHHHHHH--Hc--CCCEEEEeCHHHHHHHHHHHHHHcCCCCCC
Confidence 3 333332 22222 26766555542 2222233333321 11 2335666666699999988774 233331
Q ss_pred CHHHHHHHHHhhcCCcccchHHHHHhhh-hc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 203 GLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 203 ~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
...+||.-+++... .+ .-.|+.|++.+|++. ..+|.|-+|+..|+++|.++.++...
T Consensus 123 --------------~~~ldTl~lar~~~~~~~~~kL~~l~~~~gi~~--~~~H~Al~DA~ata~l~~~ll~~~~~ 181 (313)
T PRK06063 123 --------------DQVMCTVELARRLGLGLPNLRLETLAAHWGVPQ--QRPHDALDDARVLAGILRPSLERARE 181 (313)
T ss_pred --------------CCEEehHHHHHHhccCCCCCCHHHHHHHcCCCC--CCCCCcHHHHHHHHHHHHHHHHHHHh
Confidence 23568888887652 23 236999999999985 56799999999999999998877643
No 18
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family. All proteins in this family for which functions are known are components of the DNA polymerase III complex (epsilon subunit). There is, however, an outgroup that includes paralogs in some gamma-proteobacteria and the n-terminal region of DinG from some low GC gram positive bacteria. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.26 E-value=3.4e-05 Score=69.29 Aligned_cols=171 Identities=15% Similarity=0.197 Sum_probs=108.9
Q ss_pred hhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEE
Q 022773 43 IDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEF 122 (292)
Q Consensus 43 i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~F 122 (292)
+....||++|+|-||+. | . . .|||||.......+. ...+|
T Consensus 4 l~~~~fvv~D~ETTGl~--~-----------~---------------~-~IIeIgav~v~~~~~-----------~~~~f 43 (217)
T TIGR00573 4 LVLDTETTGDNETTGLY--A-----------G---------------H-DIIEIGAVEIINRRI-----------TGNKF 43 (217)
T ss_pred EEecCEEEEEecCCCCC--C-----------C---------------C-CEEEEEEEEEECCCE-----------eeeEE
Confidence 45678999999999973 1 0 1 299999998643321 23456
Q ss_pred eecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCC-CCCC
Q 022773 123 NFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTR-RSLP 201 (292)
Q Consensus 123 NF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~-~~LP 201 (292)
..+..| . ....+.++.. ||+.-..+.. +-++....+.+.. .+ ++..+|+++..+|+.+|-+.+.. ...|
T Consensus 44 ~~li~P-~-~~i~~~a~~i---hGIt~e~l~~-~p~~~ev~~~~~~--~~--~~~~lVaHNa~FD~~fL~~~~~r~~~~~ 113 (217)
T TIGR00573 44 HTYIKP-D-RPIDPDAIKI---HGITDDMLKD-KPDFKEIAEDFAD--YI--RGAELVIHNASFDVGFLNYEFSKLYKVE 113 (217)
T ss_pred EEEECc-C-CCCCHHHHhh---cCCCHHHHcC-CCCHHHHHHHHHH--Hh--CCCEEEEeccHHHHHHHHHHHHHhcCCC
Confidence 655333 2 3455556543 8888888754 3344433333332 11 22357777777999999877641 0100
Q ss_pred CCHHHHHHHHHhhcCCcccchHHHHHhhh-hc---cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 202 SGLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SL---YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 202 ~~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l---~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
.....+.||.-+++.+. .+ +.+|+.+++.+|++.....+|.|-+|+.+|+.+|.+|.+..-.
T Consensus 114 ------------~~~~~~~dtl~l~~~~~~~~~~~~~~L~~l~~~~gl~~~~~~~H~Al~DA~~ta~l~~~l~~~~~~ 179 (217)
T TIGR00573 114 ------------PKTNDVIDTTDTLQYARPEFPGKRNTLDALCKRYEITNSHRALHGALADAFILAKLYLVMTGKQTK 179 (217)
T ss_pred ------------CCccceecHHHHHHHHHHhCCCCCCCHHHHHHHcCCCCCCcccCCHHHHHHHHHHHHHHHHhcchh
Confidence 11123567766665542 23 2379999999999872236899999999999999999887543
No 19
>TIGR01298 RNaseT ribonuclease T. in gamma-subdivision Proteobacteria such as Escherichia coli and Xylella fastidiosa. Ribonuclease T is homologous to the DNA polymerase III alpha chain. It can liberate AMP from the common C-C-A terminus of uncharged tRNA. It appears also to be involved in RNA maturation. It also acts as a 3' to 5' single-strand DNA-specific exonuclease; it is distinctive for its ability to remove residues near a double-stranded stem. Ribonuclease T is a high copy suppressor in E. coli of a uv-repair defect caused by deletion of three other single-stranded DNA exonucleases.
Probab=98.22 E-value=4.6e-05 Score=67.79 Aligned_cols=180 Identities=18% Similarity=0.231 Sum_probs=111.9
Q ss_pred hcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCC--CCCCCCCCCCCCeeEEE
Q 022773 44 DRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSS--GNLPDLGSGGNNKFIWE 121 (292)
Q Consensus 44 ~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~--g~~p~~g~~~~~~~~w~ 121 (292)
..+.||++|+|-||+.... =.||++|......+ |.. .....
T Consensus 6 ~~~~~vv~D~ETTGl~~~~----------------------------d~IieIgav~v~~~~~g~i---------~~~~~ 48 (200)
T TIGR01298 6 RGYLPVVVDVETGGFNAKT----------------------------DALLEIAAITLKMDEQGWL---------FPDTT 48 (200)
T ss_pred cCCeeEEEEeeCCCCCCCC----------------------------CeEEEEEEEEEEEcCCCcE---------eecce
Confidence 3578999999999975311 14889998877543 221 12345
Q ss_pred EeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHH-HHHHHHH--c---CccccCCcceEEeeCchhHHHHHHHh
Q 022773 122 FNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVR-FAELMMS--S---GLVCNESVSWVTFHSAYDFGYLVKIL 195 (292)
Q Consensus 122 FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~-f~e~l~~--S---glv~~~~~~wv~fhg~yD~~yL~k~l 195 (292)
|+++..+...-...++++.. |||.=++..+++++... +.+.+.. . +..+ .+-..|++|-.+|+.||-+.+
T Consensus 49 f~~~v~p~p~~~i~~~a~~i---hGIt~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~lVaHNa~FD~~fL~~~~ 124 (200)
T TIGR01298 49 LHFHVEPFEGANIQPEALEF---TGIDLDHPLRGAVSEYEALHEIFKVVRKAMKASGC-QRAILVGHNANFDLGFLNAAV 124 (200)
T ss_pred eEEEEcCCCCCCCCHHHHHc---cCCChhhhhhcCcchHHHHHHHHHHHHHHHHhccc-CCCEEEEECchhhHHHHHHHH
Confidence 66663333334566666654 88887777777776543 2222211 0 0001 222355555569999998877
Q ss_pred CCCCCCCCHHHHHHHHHhhcCC-cccchHHHHHhhhhccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 196 TRRSLPSGLDEFLTVLRVFFGN-NIYDVKHIMRFCQSLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 196 ~~~~LP~~~~~F~~~l~~~F~P-~iyDtK~la~~~~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
....++. ..+.| .++||--|++..-. ...|+.+++.+|++......|.|-+|+++|+++|.+|.+++.
T Consensus 125 ~r~~~~~----------~~~~~~~~lDTl~lar~~~~-~~~L~~l~~~~gi~~~~~~~H~Al~Da~ata~lf~~l~~~~~ 193 (200)
T TIGR01298 125 ERTSLKR----------NPFHPFSTFDTATLAGLAYG-QTVLAKACQAAGXDFDSTQAHSALYDTEKTAELFCEIVNRWK 193 (200)
T ss_pred HHhCCCC----------CCCCCCcEEEHHHHHHHHcC-cccHHHHHHHcCCCccccchhhhHHhHHHHHHHHHHHHHHHH
Confidence 4211110 00102 26788888775421 136999999999985224789999999999999999988864
Q ss_pred C
Q 022773 275 V 275 (292)
Q Consensus 275 ~ 275 (292)
.
T Consensus 194 ~ 194 (200)
T TIGR01298 194 R 194 (200)
T ss_pred H
Confidence 3
No 20
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=98.21 E-value=5e-05 Score=69.57 Aligned_cols=168 Identities=16% Similarity=0.171 Sum_probs=108.1
Q ss_pred hhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEE
Q 022773 43 IDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEF 122 (292)
Q Consensus 43 i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~F 122 (292)
+.+.+|+++|+|-||+..+ .=.|||||...++... . .....|
T Consensus 44 ~~~~~~vviD~ETTGl~p~----------------------------~d~IieIg~v~v~~~~-i---------~~~~~~ 85 (239)
T PRK09146 44 LSEVPFVALDFETTGLDAE----------------------------QDAIVSIGLVPFTLQR-I---------RCRQAR 85 (239)
T ss_pred cccCCEEEEEeECCCCCCC----------------------------CCcEEEEEEEEEECCe-E---------eecceE
Confidence 4578999999999997521 2258999998886432 1 123334
Q ss_pred eecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCC---CC
Q 022773 123 NFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTR---RS 199 (292)
Q Consensus 123 NF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~---~~ 199 (292)
... .+..+ ...++++.. |||.-..+ ..|-+.....+.+... + .+..+|++|..+|.+||-+.+.. .+
T Consensus 86 ~~l-i~P~~-~i~~~~~~I---hGIt~e~l-~~ap~~~evl~~l~~~--~--~~~~lVaHna~FD~~fL~~~l~~~~~~~ 155 (239)
T PRK09146 86 HWV-VKPRR-PLEEESVVI---HGITHSEL-QDAPDLERILDELLEA--L--AGKVVVVHYRRIERDFLDQALRNRIGEG 155 (239)
T ss_pred EEE-ECCCC-CCChhhhhh---cCCCHHHH-hCCCCHHHHHHHHHHH--h--CCCEEEEECHHHHHHHHHHHHHHhcCCC
Confidence 443 33332 344455433 78877665 3455554433333321 1 22356777777999999887641 22
Q ss_pred CCCCHHHHHHHHHhhcCCcccchHHHHHhhh-h--------cc------chHHHHHHHcCCCCCCCCCccchhhHHHHHH
Q 022773 200 LPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQ-S--------LY------GGLDRVARTLDVSRAVGKCHQAGSDSLLTWH 264 (292)
Q Consensus 200 LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~-~--------l~------~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~ 264 (292)
+| +.++||--|++..- . +. -.|+.+++.+|++. ..+|.|-+|++.|+.
T Consensus 156 ~~---------------~~~iDTl~Lar~l~~~~~~~~~~~~~~~~~~~~~L~~l~~~~gl~~--~~~H~Al~DA~ata~ 218 (239)
T PRK09146 156 IE---------------FPVIDTMEIEARIQRKQAGGLWNRLKGKKPESIRLADSRLRYGLPA--YSPHHALTDAIATAE 218 (239)
T ss_pred CC---------------CceechHHHHHHHcccccccccchhccCCCCCCCHHHHHHHcCCCC--CCCCCcHHHHHHHHH
Confidence 21 23567777776631 1 11 25999999999986 456999999999999
Q ss_pred HHHHHHHHhcC
Q 022773 265 AFQKIRDVYFV 275 (292)
Q Consensus 265 ~F~~l~~~~~~ 275 (292)
+|.++.+.++.
T Consensus 219 l~~~~~~~~~~ 229 (239)
T PRK09146 219 LLQAQIAHHFS 229 (239)
T ss_pred HHHHHHHHHcC
Confidence 99999988865
No 21
>PRK06807 DNA polymerase III subunit epsilon; Validated
Probab=98.19 E-value=4.9e-05 Score=72.31 Aligned_cols=163 Identities=17% Similarity=0.201 Sum_probs=106.7
Q ss_pred CCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeec
Q 022773 46 YPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFR 125 (292)
Q Consensus 46 ~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~ 125 (292)
-+||++|+|.+|+... .-.|||||...++ +|+ ...+|+..
T Consensus 8 ~~~Vv~DlETTGl~p~----------------------------~~eIIEIgaV~v~-~g~-----------i~~~f~~l 47 (313)
T PRK06807 8 LDYVVIDFETTGFNPY----------------------------NDKIIQVAAVKYR-NHE-----------LVDQFVSY 47 (313)
T ss_pred CCEEEEEEECCCCCCC----------------------------CCeEEEEEEEEEE-CCE-----------EEEEEEEE
Confidence 4799999999997411 1279999998885 332 45677776
Q ss_pred ccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHH
Q 022773 126 DFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLD 205 (292)
Q Consensus 126 ~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~ 205 (292)
..+... ..+.+. +-||+.-..+ .++.+.....+.+.. ++ . +-.+|++++.+|+.+|.+-+....+|.-
T Consensus 48 -VkP~~~-I~~~a~---~ihGIT~e~l-~~~~~~~evl~~f~~--fl-~-~~~lVaHNa~FD~~fL~~~~~~~gl~~~-- 115 (313)
T PRK06807 48 -VNPERP-IPDRIT---SLTGITNYRV-SDAPTIEEVLPLFLA--FL-H-TNVIVAHNASFDMRFLKSNVNMLGLPEP-- 115 (313)
T ss_pred -ECcCCC-CCHhhh---ccCCCCHHHH-hCCCCHHHHHHHHHH--HH-c-CCeEEEEcHHHHHHHHHHHHHHcCCCCC--
Confidence 444432 233333 3488886665 445554443333332 11 1 2246777777999999988743222210
Q ss_pred HHHHHHHhhcCCcccchHHHHHhhh-hcc-chHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHh
Q 022773 206 EFLTVLRVFFGNNIYDVKHIMRFCQ-SLY-GGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVY 273 (292)
Q Consensus 206 ~F~~~l~~~F~P~iyDtK~la~~~~-~l~-~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~ 273 (292)
. ..++||-.+++..- .+. -+|+.+++.+|++. .+|.|=.|++.|+++|.+|...-
T Consensus 116 ---------~-~~~iDtl~la~~~~~~~~~~kL~~L~~~lgi~~---~~H~Al~DA~~ta~l~~~l~~~~ 172 (313)
T PRK06807 116 ---------K-NKVIDTVFLAKKYMKHAPNHKLETLKRMLGIRL---SSHNAFDDCITCAAVYQKCASIE 172 (313)
T ss_pred ---------C-CCEeeHHHHHHHHhCCCCCCCHHHHHHHcCCCC---CCcChHHHHHHHHHHHHHHHHhh
Confidence 1 23568877776543 232 36999999999985 68999999999999999988765
No 22
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial. This model represents DnaQ, the DNA polymerase III epsilon subunit, as found in most Proteobacteria. It consists largely of an exonuclease domain as described in pfam model pfam00929. In Gram-positive bacteria, closely related regions are found both in the Gram-positive type DNA polymerase III alpha subunit and as an additional N-terminal domain of a DinG-family helicase. Both are excluded from this model, as are smaller proteins, also outside the Proteobacteria, that are similar in size to the epsilon subunit but as different in sequence as are the epsilon-like regions found in Gram-positive bacteria.
Probab=98.09 E-value=0.0002 Score=64.97 Aligned_cols=167 Identities=17% Similarity=0.171 Sum_probs=105.4
Q ss_pred CceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecc
Q 022773 47 PFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRD 126 (292)
Q Consensus 47 ~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~ 126 (292)
.||.+|||-||+... . .-.|||||...... +. + ....|+.+
T Consensus 1 r~vvlD~ETTGl~p~------------~---------------~d~IIEIgav~~~~-~~-~---------~~~~f~~~- 41 (225)
T TIGR01406 1 RQIILDTETTGLDPK------------G---------------GHRIVEIGAVELVN-RM-L---------TGDNFHVY- 41 (225)
T ss_pred CEEEEEeeCCCcCCC------------C---------------CCeEEEEEEEEEEC-Cc-E---------ecceEEEE-
Confidence 379999999997421 0 13699999875542 21 1 22356666
Q ss_pred cCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhC--CCCCCCCH
Q 022773 127 FDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILT--RRSLPSGL 204 (292)
Q Consensus 127 F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~--~~~LP~~~ 204 (292)
.++.+ ...+.+.+ -|||.-..+.. +.++....+.+.. .+ .+..+|+++..+|++||-.-+. |..+|.
T Consensus 42 i~P~~-~i~~~a~~---vhGIt~e~l~~-~p~f~ev~~~f~~--fi--~~~~lVaHNa~FD~~fL~~el~r~g~~~~~-- 110 (225)
T TIGR01406 42 VNPER-DMPAEAAK---VHGITDEFLAD-KPKFKEIADEFLD--FI--GGSELVIHNAAFDVGFLNYELERLGPTIKK-- 110 (225)
T ss_pred ECcCC-CCCHHHHh---ccCCCHHHHhC-CCCHHHHHHHHHH--Hh--CCCEEEEEecHHHHHHHHHHHHHhCCCCcc--
Confidence 44433 34455543 37887776654 3444433333332 11 1235666666799999987763 111111
Q ss_pred HHHHHHHHhhcCCcccchHHHHHhh-hhccchHHHHHHHcCCCCCCC-CCccchhhHHHHHHHHHHHHHH
Q 022773 205 DEFLTVLRVFFGNNIYDVKHIMRFC-QSLYGGLDRVARTLDVSRAVG-KCHQAGSDSLLTWHAFQKIRDV 272 (292)
Q Consensus 205 ~~F~~~l~~~F~P~iyDtK~la~~~-~~l~~~L~~la~~L~v~r~~g-~~HqAGsDS~lT~~~F~~l~~~ 272 (292)
+ ..+ ..++||--|++.. ++...+|+.+++.+|++. .+ ..|-|-.||.+|+.+|.+|...
T Consensus 111 --~-----~~~-~~~iDTl~lar~~~p~~~~~L~~L~~~~gi~~-~~r~~H~Al~DA~~~a~v~~~l~~~ 171 (225)
T TIGR01406 111 --I-----GEF-CRVIDTLAMARERFPGQRNSLDALCKRFKVDN-SHRTLHGALLDAHLLAEVYLALTGG 171 (225)
T ss_pred --c-----ccC-CCEEEHHHHHHHHcCCCCCCHHHHHHhcCCCC-CCCCCcCHHHHHHHHHHHHHHHHcC
Confidence 0 012 2477998888763 345568999999999997 44 4799999999999999999764
No 23
>PRK07247 DNA polymerase III subunit epsilon; Validated
Probab=98.09 E-value=0.00013 Score=64.98 Aligned_cols=160 Identities=16% Similarity=0.186 Sum_probs=92.5
Q ss_pred CceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecc
Q 022773 47 PFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRD 126 (292)
Q Consensus 47 ~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~ 126 (292)
.||++|+|.||+. + .+ .|||||...++. |. .+..|..+.
T Consensus 6 ~~vvlD~EtTGl~--~-----------~~----------------eIIeIgaV~v~~-g~-----------~~~~f~~lv 44 (195)
T PRK07247 6 TYIAFDLEFNTVN--G-----------VS----------------HIIQVSAVKYDD-HK-----------EVDSFDSYV 44 (195)
T ss_pred eEEEEEeeCCCCC--C-----------CC----------------eEEEEEEEEEEC-CE-----------EEEEEEEEE
Confidence 7899999999963 1 11 599999988873 32 244566653
Q ss_pred cCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCc-hhHHHHHHHhCCCCCCCCHH
Q 022773 127 FDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSA-YDFGYLVKILTRRSLPSGLD 205 (292)
Q Consensus 127 F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~-yD~~yL~k~l~~~~LP~~~~ 205 (292)
-|. . ...+.+.+ -+||.=..+. ++.+.....+.+.. .+ .+..||+++.. +|+.+|-+. |.+++...
T Consensus 45 ~P~-~-~i~~~~~~---lhGIt~~~v~-~ap~~~evl~~f~~--f~--~~~~lVaHNa~~fD~~fL~~~--g~~~~~~~- 111 (195)
T PRK07247 45 YTD-V-PLQSFING---LTGITADKIA-DAPKVEEVLAAFKE--FV--GELPLIGYNAQKSDLPILAEN--GLDLSDQY- 111 (195)
T ss_pred CCC-C-CCCcccee---cCCCCHHHHh-CCCCHHHHHHHHHH--HH--CCCeEEEEeCcHhHHHHHHHc--CCCcCCCc-
Confidence 332 2 22322222 2666655553 34443322222221 12 22356666655 899998663 33433210
Q ss_pred HHHHHHHhhcCCcccchHHHHHh--hhhc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHh
Q 022773 206 EFLTVLRVFFGNNIYDVKHIMRF--CQSL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVY 273 (292)
Q Consensus 206 ~F~~~l~~~F~P~iyDtK~la~~--~~~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~ 273 (292)
.. ..||+.+..+. .+++ .-.|+.||+.+|++. ..|.|-+|+++|+.+|.+|.+.-
T Consensus 112 --------~i--dt~~~~~~~~~~~~~~~~~~~L~~La~~~gi~~---~~HrAl~DA~~ta~v~~~ll~~~ 169 (195)
T PRK07247 112 --------QV--DLYDEAFERRSSDLNGIANLKLQTVADFLGIKG---RGHNSLEDARMTARVYESFLESD 169 (195)
T ss_pred --------ee--ehHHHHHHhhccccCCCCCCCHHHHHHhcCCCC---CCcCCHHHHHHHHHHHHHHHhhc
Confidence 00 12343322211 1122 236999999999985 36999999999999999998763
No 24
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.02 E-value=0.00013 Score=78.60 Aligned_cols=166 Identities=19% Similarity=0.231 Sum_probs=106.3
Q ss_pred CCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeec
Q 022773 46 YPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFR 125 (292)
Q Consensus 46 ~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~ 125 (292)
-.||++|+|.||.... . .-.|||||..... +|+ ..-.|+.+
T Consensus 3 ~~~vvvD~ETTG~~p~------------~---------------~d~IIeigav~v~-~~~-----------i~~~f~~~ 43 (928)
T PRK08074 3 KRFVVVDLETTGNSPK------------K---------------GDKIIQIAAVVVE-DGE-----------ILERFSSF 43 (928)
T ss_pred CCEEEEEEeCCCCCCC------------C---------------CCcEEEEEEEEEE-CCE-----------EEEEEEEE
Confidence 4699999999996311 1 0269999999984 342 24456665
Q ss_pred ccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHH
Q 022773 126 DFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLD 205 (292)
Q Consensus 126 ~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~ 205 (292)
.++.. ...+.+.++ +||+=..+. .+.++....+.+.. ++ ++..+|+++..+|+.||-+-+...-+|..
T Consensus 44 -v~P~~-~i~~~~~~l---tGIt~~~l~-~ap~f~ev~~~l~~--~l--~~~~~VaHN~~FD~~fL~~~~~~~g~~~~-- 111 (928)
T PRK08074 44 -VNPER-PIPPFITEL---TGISEEMVK-QAPLFEDVAPEIVE--LL--EGAYFVAHNVHFDLNFLNEELERAGYTEI-- 111 (928)
T ss_pred -ECcCC-CCCHHHhhc---CCCCHHHHh-cCCCHHHHHHHHHH--Hh--CCCeEEEEChHHHHHHHHHHHHHcCCCCC--
Confidence 44432 234433332 788866654 45554444433332 11 34467776667999999887653222221
Q ss_pred HHHHHHHhhcCCcccchHHHHHhh-hhcc-chHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 206 EFLTVLRVFFGNNIYDVKHIMRFC-QSLY-GGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 206 ~F~~~l~~~F~P~iyDtK~la~~~-~~l~-~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
- ...+||=-+++.. +.+. -.|+.+++.+|++. ..+|.|-+|++.|+.+|.+|.+++.
T Consensus 112 ---------~-~~~iDt~~la~~~~p~~~~~~L~~l~~~l~i~~--~~~H~Al~DA~ata~l~~~l~~~~~ 170 (928)
T PRK08074 112 ---------H-CPKLDTVELARILLPTAESYKLRDLSEELGLEH--DQPHRADSDAEVTAELFLQLLNKLE 170 (928)
T ss_pred ---------C-CCeeeHHHHHHHhcCCCCCCCHHHHHHhCCCCC--CCCCChHHHHHHHHHHHHHHHHHHH
Confidence 0 1355776665543 2222 36999999999975 5789999999999999999988764
No 25
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDh exonucleases are classified as such because of the presence of specific Hx(4)D conserved pattern at the ExoIII motif. The four conserved acidic residues are clustered around the active site and serve as ligands for the two metal ions required for catalysis. Most DEDDh exonucleases are the proofreading subunits (epsilon) or domains of bacterial DNA polymerase III, the main replicating enzyme in bacteria, which functions as the chromosomal replicase. Other members include other DNA and RNA exonucleases such as RNase T, Oligoribonuclease, and RNA exonuclease (REX), among others.
Probab=97.99 E-value=9.7e-05 Score=60.64 Aligned_cols=156 Identities=18% Similarity=0.191 Sum_probs=99.3
Q ss_pred eeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecccC
Q 022773 49 ISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFD 128 (292)
Q Consensus 49 IAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F~ 128 (292)
|.+|+|.+|+.. ..-.|+|+|...++.+++ ....||.+ +.
T Consensus 1 v~~D~Ettg~~~----------------------------~~~~iiei~~v~~~~~~~-----------~~~~~~~~-i~ 40 (159)
T cd06127 1 VVFDTETTGLDP----------------------------KKDRIIEIGAVKVDGGIE-----------IVERFETL-VN 40 (159)
T ss_pred CeEEeeCCCcCC----------------------------CCCeEEEEEEEEEECCcC-----------hhhhhhee-eC
Confidence 578999999741 234699999999987743 23445655 33
Q ss_pred CCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHH
Q 022773 129 IATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFL 208 (292)
Q Consensus 129 ~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~ 208 (292)
+..+ ..+.+.+. +|+.-+.. ..|.+.....+.+.. ++ . ...||++++.+|..+|.+.+....
T Consensus 41 p~~~-~~~~~~~~---~gi~~~~~-~~~~~~~~~~~~~~~--~l-~-~~~~v~~n~~fD~~~l~~~~~~~~--------- 102 (159)
T cd06127 41 PGRP-IPPEATAI---HGITDEML-ADAPPFEEVLPEFLE--FL-G-GRVLVAHNASFDLRFLNRELRRLG--------- 102 (159)
T ss_pred cCCc-CCHhheec---cCCCHHHH-hcCCCHHHHHHHHHH--HH-C-CCEEEEeCcHhhHHHHHHHHHHhC---------
Confidence 3332 22333222 77766665 477777655544432 12 1 245677777899999888875210
Q ss_pred HHHHhhcCCcccchHHHHHhhhhc--cchHHHH-HHHcCCCCCCCCCccchhhHHHHHHHHH
Q 022773 209 TVLRVFFGNNIYDVKHIMRFCQSL--YGGLDRV-ARTLDVSRAVGKCHQAGSDSLLTWHAFQ 267 (292)
Q Consensus 209 ~~l~~~F~P~iyDtK~la~~~~~l--~~~L~~l-a~~L~v~r~~g~~HqAGsDS~lT~~~F~ 267 (292)
...+....+||+-+++.+-.. ..+|..+ ++.++.+. ..+|.|=+|++.|+.+|.
T Consensus 103 ---~~~~~~~~iDt~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~H~Al~Da~~t~~l~~ 159 (159)
T cd06127 103 ---GPPLPNPWIDTLRLARRLLPGLRSHRLGLLLAERYGIPL--EGAHRALADALATAELLL 159 (159)
T ss_pred ---CCCCCCCeeEHHHHHHHHcCCCCcCchHHHHHHHcCCCC--CCCCCcHHHHHHHHHHhC
Confidence 222313578998888765322 2356666 77788754 688999999999999873
No 26
>PRK08517 DNA polymerase III subunit epsilon; Provisional
Probab=97.98 E-value=0.00026 Score=65.55 Aligned_cols=169 Identities=18% Similarity=0.180 Sum_probs=107.5
Q ss_pred HHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEE
Q 022773 41 QVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIW 120 (292)
Q Consensus 41 ~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w 120 (292)
.-+.+..||++|+|-+|.... .-.|||+|...++ +|+ ..-
T Consensus 63 ~~~~~~~~vv~DiETTG~~~~----------------------------~~~IIEIGAv~v~-~g~-----------i~~ 102 (257)
T PRK08517 63 TPIKDQVFCFVDIETNGSKPK----------------------------KHQIIEIGAVKVK-NGE-----------IID 102 (257)
T ss_pred CCCCCCCEEEEEEeCCCCCCC----------------------------CCeEEEEEEEEEE-CCE-----------EEE
Confidence 345688999999999995310 1269999999886 332 233
Q ss_pred EEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCC
Q 022773 121 EFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSL 200 (292)
Q Consensus 121 ~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~L 200 (292)
+|..+..+. ...+.+.+ -+|+.=..+. .+.+.....+.+..- + . +-.||+++..+|.++|-+.+....+
T Consensus 103 ~f~~~v~p~---~ip~~~~~---itGIt~e~l~-~ap~~~evl~~f~~f--l-~-~~v~VaHNa~FD~~fL~~~l~r~g~ 171 (257)
T PRK08517 103 RFESFVKAK---EVPEYITE---LTGITYEDLE-NAPSLKEVLEEFRLF--L-G-DSVFVAHNVNFDYNFISRSLEEIGL 171 (257)
T ss_pred EEEEEECCC---CCChhhhh---hcCcCHHHHc-CCCCHHHHHHHHHHH--H-C-CCeEEEECHHHHHHHHHHHHHHcCC
Confidence 455553342 22333322 2888777764 455554433333321 1 2 2357877777999998877653222
Q ss_pred CCCHHHHHHHHHhhcCCcccchHHHHHhh-hhccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 201 PSGLDEFLTVLRVFFGNNIYDVKHIMRFC-QSLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 201 P~~~~~F~~~l~~~F~P~iyDtK~la~~~-~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
|. +. +...||--+++.+ +.-+-+|+.+++.+|++. ..+|.|-+|++.|+++|.++.+.+.
T Consensus 172 ~~-----------~~-~~~ldtl~la~~~~~~~~~~L~~L~~~lgi~~--~~~HrAl~DA~ata~ll~~ll~~~~ 232 (257)
T PRK08517 172 GP-----------LL-NRKLCTIDLAKRTIESPRYGLSFLKELLGIEI--EVHHRAYADALAAYEIFKICLLNLP 232 (257)
T ss_pred CC-----------CC-CCcEehHHHHHHHccCCCCCHHHHHHHcCcCC--CCCCChHHHHHHHHHHHHHHHHHhH
Confidence 22 11 2344665555442 223457999999999987 3789999999999999999987763
No 27
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=97.95 E-value=0.00029 Score=66.79 Aligned_cols=144 Identities=15% Similarity=0.189 Sum_probs=92.7
Q ss_pred ceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCcc
Q 022773 93 LIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLV 172 (292)
Q Consensus 93 iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv 172 (292)
|||||+..++ +|+ ....|+.+ .++....+.+.+++ =|||.=+.+... .++....+.+.. .+
T Consensus 18 IieIgav~v~-~g~-----------i~~~f~~l-v~P~~~~~~~~~~~---IhGIT~e~v~~a-p~f~ev~~~~~~--fl 78 (309)
T PRK06195 18 PCSIGIVVVK-DGE-----------IVEKVHYL-IKPKEMRFMPINIG---IHGIRPHMVEDE-LEFDKIWEKIKH--YF 78 (309)
T ss_pred eEEEEEEEEE-CCE-----------EEEEEEEE-ECCCCCCCChhhee---ccCcCHHHHhCC-CCHHHHHHHHHH--Hh
Confidence 5899998885 332 23556665 45544345555553 388887777664 343332222221 11
Q ss_pred ccCCcceEEeeCchhHHHHHHHhCC--CCCCCCHHHHHHHHHhhcCCcccchHHHHHhh-hhcc-chHHHHHHHcCCCCC
Q 022773 173 CNESVSWVTFHSAYDFGYLVKILTR--RSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFC-QSLY-GGLDRVARTLDVSRA 248 (292)
Q Consensus 173 ~~~~~~wv~fhg~yD~~yL~k~l~~--~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~-~~l~-~~L~~la~~L~v~r~ 248 (292)
.+-.+|++|..+|+++|-+.+.. .+.|. ...+||--+++.. +++. -+|+.+++.+|++-
T Consensus 79 --~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~--------------~~~idT~~lar~l~~~~~~~~L~~L~~~~gi~~- 141 (309)
T PRK06195 79 --NNNLVIAHNASFDISVLRKTLELYNIPMPS--------------FEYICTMKLAKNFYSNIDNARLNTVNNFLGYEF- 141 (309)
T ss_pred --CCCEEEEECcHHHHHHHHHHHHHhCCCCCC--------------CCEEEHHHHHHHHcCCCCcCCHHHHHHHcCCCC-
Confidence 12345666677999999877642 22221 2356887777654 3443 47999999999973
Q ss_pred CCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 249 VGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 249 ~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
..|.|-+|++.|+++|.+|.....
T Consensus 142 --~~H~Al~DA~ata~l~~~l~~~~~ 165 (309)
T PRK06195 142 --KHHDALADAMACSNILLNISKELN 165 (309)
T ss_pred --cccCCHHHHHHHHHHHHHHHHHhc
Confidence 479999999999999999988763
No 28
>cd06136 TREX1_2 DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins. Three prime repair exonuclease (TREX)1 and TREX2 are closely related DEDDh-type DnaQ-like 3'-5' exonucleases. They contain three conserved sequence motifs known as ExoI, II, and III, with a specific Hx(4)D conserved pattern at ExoIII. These motifs contain four conserved acidic residues that participate in coordination of divalent metal ions required for catalysis. Both proteins play a role in the metabolism and clearance of DNA. TREX1 is the major 3'-5' exonuclease activity detected in mammalian cells. Mutations in the human TREX1 gene can cause Aicardi-Goutieres syndrome (AGS), which is characterized by perturbed innate immunity and presents itself as a severe neurological disease. TREX1 degrades ssDNA generated by aberrant replication intermediates to prevent checkpoint activation and autoimmune disease. There are distinct structural differences between TREX1 and TRE
Probab=97.91 E-value=0.00022 Score=62.03 Aligned_cols=170 Identities=17% Similarity=0.180 Sum_probs=99.3
Q ss_pred ceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCC-CCCCCeeEEEEeecc
Q 022773 48 FISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLG-SGGNNKFIWEFNFRD 126 (292)
Q Consensus 48 fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g-~~~~~~~~w~FNF~~ 126 (292)
||++|+|-||+.. + ..=.|||+|....+.++...... ..+..-.+..|++.
T Consensus 1 ~vv~D~ETTGl~~-~--------------------------~~d~Iiei~av~v~~~~~~~~~~~~~~~~~~~~~~~~l- 52 (177)
T cd06136 1 FVFLDLETTGLPK-H--------------------------NRPEITELCLVAVHRDHLLNTSRDKPALPRVLDKLSLC- 52 (177)
T ss_pred CeEEeeecCCCCC-C--------------------------CCCceEEEEEEEEecccccccccccccccceeeeeeEE-
Confidence 7999999999842 1 01248999999887654321000 00001134567766
Q ss_pred cCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHc-CccccCCcceEEeeC-chhHHHHHHHhCC--CCCCC
Q 022773 127 FDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSS-GLVCNESVSWVTFHS-AYDFGYLVKILTR--RSLPS 202 (292)
Q Consensus 127 F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~S-glv~~~~~~wv~fhg-~yD~~yL~k~l~~--~~LP~ 202 (292)
.++.+ ...+++... |||.=..+...+-......+.+..- +. .......|++++ .+|+.||-+-+.. .++|.
T Consensus 53 v~P~~-~I~~~a~~I---hGIt~e~l~~~~~~~~~~~~~l~~f~~~-~~~~~~lVaHNa~~FD~~fL~~~~~r~~~~~~~ 127 (177)
T cd06136 53 FNPGR-AISPGASEI---TGLSNDLLEHKAPFDSDTANLIKLFLRR-QPKPICLVAHNGNRFDFPILRSELERLGTKLPD 127 (177)
T ss_pred eCCCC-cCChhHHHH---hCcCHHHHhcCCCccHHHHHHHHHHHHh-cCCCCEEEEcCCcccCHHHHHHHHHHcCCCCCC
Confidence 55543 345555444 8888888887763222222322110 00 011234555555 5999999877742 22221
Q ss_pred CHHHHHHHHHhhcCCcccchHHHHHhhhhccchHHHHHHH-cCCCCCCCCCccchhhHHHHHHHHHH
Q 022773 203 GLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYGGLDRVART-LDVSRAVGKCHQAGSDSLLTWHAFQK 268 (292)
Q Consensus 203 ~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~~L~~la~~-L~v~r~~g~~HqAGsDS~lT~~~F~~ 268 (292)
. +...||--+++... .+|+.+++. +|++. ..+|.|-+|+..|++||++
T Consensus 128 ~-------------~~~iDtl~l~r~~~---~~L~~l~~~~~~~~~--~~~H~A~~Da~at~~v~~~ 176 (177)
T cd06136 128 D-------------ILCVDSLPAFRELD---QSLGSLYKRLFGQEP--KNSHTAEGDVLALLKCALH 176 (177)
T ss_pred C-------------CEEEEeHHHHhhhH---hhHHHHHHHHhCCCc--ccccchHHHHHHHHHHHhh
Confidence 1 12347766655432 289999875 78875 5569999999999999975
No 29
>PRK07883 hypothetical protein; Validated
Probab=97.90 E-value=0.00029 Score=71.95 Aligned_cols=173 Identities=16% Similarity=0.169 Sum_probs=111.6
Q ss_pred HHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCee
Q 022773 39 ISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKF 118 (292)
Q Consensus 39 I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~ 118 (292)
+..-+.+..||++|+|.||+.. +.-.|||||.-.++ +|+ .
T Consensus 8 ~~~~~~~~~~Vv~D~ETTGl~p----------------------------~~~~IIEIgaV~v~-~g~-----------i 47 (557)
T PRK07883 8 LGTPLRDVTFVVVDLETTGGSP----------------------------AGDAITEIGAVKVR-GGE-----------V 47 (557)
T ss_pred hCCCCcCCCEEEEEEecCCCCC----------------------------CCCeEEEEEEEEEE-CCE-----------E
Confidence 3455778999999999999831 12369999999886 232 3
Q ss_pred EEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCC
Q 022773 119 IWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRR 198 (292)
Q Consensus 119 ~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~ 198 (292)
..+|+.. .++.. ...+.+.. -+|+.=..+ .++.+.....+.+.. ++ .+..+|+++..+|+.+|-+.+...
T Consensus 48 v~~f~~l-V~P~~-~i~~~~~~---itGIt~e~l-~~ap~~~evl~~f~~--fl--~~~~lVaHNa~FD~~fL~~~~~r~ 117 (557)
T PRK07883 48 LGEFATL-VNPGR-PIPPFITV---LTGITTAMV-AGAPPIEEVLPAFLE--FA--RGAVLVAHNAPFDIGFLRAAAARC 117 (557)
T ss_pred EEEEEEE-ECCCC-CCChhHHh---hcCCCHHHH-hCCCCHHHHHHHHHH--Hh--cCCEEEEeCcHHHHHHHHHHHHHc
Confidence 4566665 44433 34444443 388766544 455555443333322 11 123556655669999998877532
Q ss_pred CCCCCHHHHHHHHHhhcCCcccchHHHHHhh-h--hc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 199 SLPSGLDEFLTVLRVFFGNNIYDVKHIMRFC-Q--SL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 199 ~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~-~--~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
.+|. ..+..+||--+++.. + .. .-+|+.+++.+|++. ...|.|-+|+..|+.+|.++.+.+.
T Consensus 118 g~~~------------~~~~~iDTl~lar~l~~~~~~~~~~L~~L~~~~gi~~--~~~H~Al~DA~ata~l~~~l~~~~~ 183 (557)
T PRK07883 118 GYPW------------PGPPVLCTVRLARRVLPRDEAPNVRLSTLARLFGATT--TPTHRALDDARATVDVLHGLIERLG 183 (557)
T ss_pred CCCC------------CCCCcEecHHHHHHhcccCCCCCCCHHHHHHHCCccc--CCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 2221 102356887777653 2 22 236999999999986 4469999999999999999988875
Q ss_pred C
Q 022773 275 V 275 (292)
Q Consensus 275 ~ 275 (292)
.
T Consensus 184 ~ 184 (557)
T PRK07883 184 N 184 (557)
T ss_pred h
Confidence 4
No 30
>PRK06722 exonuclease; Provisional
Probab=97.84 E-value=0.00069 Score=63.63 Aligned_cols=169 Identities=18% Similarity=0.131 Sum_probs=100.0
Q ss_pred cCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEee
Q 022773 45 RYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 45 ~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF 124 (292)
...||++|+|.+|. |. . +-+.-.|||||....+. |.. ..+..|+.
T Consensus 4 ~~~~vViD~ETT~~---p~----------~------------~~~~deIIEIGAVkV~~-g~i---------~Ivd~F~s 48 (281)
T PRK06722 4 ATHFIVFDIERNFR---PY----------K------------SEDPSEIVDIGAVKIEA-STM---------KVIGEFSE 48 (281)
T ss_pred CCEEEEEEeeCCCC---CC----------C------------CCCCCeEEEEEEEEEEC-Cce---------eEEeeEEE
Confidence 35799999999852 21 1 01223599999988864 221 13456766
Q ss_pred cccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhC--CCCCCC
Q 022773 125 RDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILT--RRSLPS 202 (292)
Q Consensus 125 ~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~--~~~LP~ 202 (292)
+.-|. ....+.+.++ +||.=+.+ ..+.+.....+.+.. .+ .+-.+|+.|+.+|..||-+-+. |.+.|.
T Consensus 49 LV~P~--~~I~~~i~~L---TGIT~emV-~~AP~f~eVl~ef~~--fi--g~~~lvahna~FD~~FL~~~l~~~gi~~p~ 118 (281)
T PRK06722 49 LVKPG--ARLTRHTTKL---TGITKKDL-IGVEKFPQIIEKFIQ--FI--GEDSIFVTWGKEDYRFLSHDCTLHSVECPC 118 (281)
T ss_pred EECCC--CcCCHhHhhh---cCCCHHHH-cCCCCHHHHHHHHHH--HH--CCCcEEEEEeHHHHHHHHHHHHHcCCCCCc
Confidence 63332 2344444443 66665555 334443332222221 11 1235678888999999998764 333333
Q ss_pred CHHHHHHHHHhhcCCcccchHHHHHh-hhhc---cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHH
Q 022773 203 GLDEFLTVLRVFFGNNIYDVKHIMRF-CQSL---YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIR 270 (292)
Q Consensus 203 ~~~~F~~~l~~~F~P~iyDtK~la~~-~~~l---~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~ 270 (292)
-. + ...+|+.-++.. .+.+ .-+|+.+++.+|++. .|..|.|-+||.+|+.+|.+|.
T Consensus 119 ~~----------~-~~~idl~~la~~~~~~l~~~~~sL~~l~~~lgL~~-~g~~HrAL~DA~~TA~L~l~l~ 178 (281)
T PRK06722 119 ME----------K-ERRIDLQKFVFQAYEELFEHTPSLQSAVEQLGLIW-EGKQHRALADAENTANILLKAY 178 (281)
T ss_pred cc----------c-cchhHHHHHHHHHhhhhccCCCCHHHHHHHCCCCC-CCCCcCcHHHHHHHHHHHHHHh
Confidence 10 0 112344333221 2222 126999999999997 7889999999999999999976
No 31
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=97.83 E-value=0.00052 Score=75.64 Aligned_cols=168 Identities=19% Similarity=0.260 Sum_probs=114.8
Q ss_pred hcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEe
Q 022773 44 DRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFN 123 (292)
Q Consensus 44 ~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FN 123 (292)
+...||++|+|-||+... . =.|||||....+. |+ ..-.|+
T Consensus 188 ~~~~~VVfDiETTGL~~~------------~----------------d~IIEIGAVkv~~-g~-----------iid~f~ 227 (1213)
T TIGR01405 188 DDATYVVFDIETTGLSPQ------------Y----------------DEIIEFGAVKVKN-GR-----------IIDKFQ 227 (1213)
T ss_pred cCCcEEEEEeEecCCCCC------------C----------------CeEEEEEEEEEEC-Ce-----------EEEEEE
Confidence 678999999999997421 1 1799999998863 32 245677
Q ss_pred ecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCC
Q 022773 124 FRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSG 203 (292)
Q Consensus 124 F~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~ 203 (292)
++ .++. ...++.+.+ -+|+.-+.+. +|.+.....+.+.. .+ .+-.+|+++..+|+.||-+.+....+|+
T Consensus 228 ~~-V~P~-~~I~~~~~~---ltGIT~e~L~-~ap~~~evl~~f~~--fl--~~~iLVaHNa~FD~~fL~~~~~r~g~~~- 296 (1213)
T TIGR01405 228 FF-IKPH-EPLSAFVTE---LTGITQDMLE-NAPEIEEVLEKFKE--FF--KDSILVAHNASFDIGFLNTNFEKVGLEP- 296 (1213)
T ss_pred EE-ECCC-CCCCHHHHH---HhCCCHHHHh-CCCCHHHHHHHHHH--Hh--CCCeEEEEChHHHHHHHHHHHHHcCCCc-
Confidence 76 3332 344555544 4888887764 57766554444332 11 2335676666699999988775333332
Q ss_pred HHHHHHHHHhhcCCcccchHHHHHhhh-hc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 204 LDEFLTVLRVFFGNNIYDVKHIMRFCQ-SL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 204 ~~~F~~~l~~~F~P~iyDtK~la~~~~-~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
+...++||--+++... .+ .-+|+.|++.+|++. .+ +|.|-.|+..|+.+|.+|.+.+.+
T Consensus 297 -----------~~~~~IDTl~lar~l~p~~k~~kL~~Lak~lgi~~-~~-~HrAl~DA~aTa~I~~~ll~~l~~ 357 (1213)
T TIGR01405 297 -----------LENPVIDTLELARALNPEYKSHRLGNICKKLGVDL-DD-HHRADYDAEATAKVFKVMVEQLKE 357 (1213)
T ss_pred -----------cCCCEeEHHHHHHHHhccCCCCCHHHHHHHcCCCC-CC-CcCHHHHHHHHHHHHHHHHHHHHH
Confidence 1134679988887653 33 347999999999997 44 899999999999999999887754
No 32
>PF00929 RNase_T: Exonuclease; InterPro: IPR013520 This entry includes a variety of exonuclease proteins, such as ribonuclease T [] and the epsilon subunit of DNA polymerase III. Ribonuclease T is responsible for the end-turnover of tRNA,and removes the terminal AMP residue from uncharged tRNA. DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria, and also exhibits 3' to 5' exonuclease activity.; PDB: 3CM6_A 3CM5_A 3CG7_A 1ZBU_B 1ZBH_A 1W0H_A 3NGY_C 2IS3_B 3NH1_C 3NH2_F ....
Probab=97.82 E-value=1.7e-05 Score=65.17 Aligned_cols=159 Identities=21% Similarity=0.188 Sum_probs=92.3
Q ss_pred eeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecccC
Q 022773 49 ISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFD 128 (292)
Q Consensus 49 IAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F~ 128 (292)
|.+|+|++|+.. +.-.|+|||.-..+.+.. ...-.|+.+..|
T Consensus 1 v~~D~Ettg~~~----------------------------~~~~iieig~v~~~~~~~----------~~~~~~~~~i~p 42 (164)
T PF00929_consen 1 VVFDTETTGLDP----------------------------RQDEIIEIGAVKVDDDEN----------EEVESFNSLIRP 42 (164)
T ss_dssp EEEEEEESSSTT----------------------------TTCTEEEEEEEEEETTTT----------EEEEEEEEEBEH
T ss_pred cEEEeEcCCCCC----------------------------CCCeEEEEEEEEeeCCcc----------ccceeeeecccc
Confidence 679999999742 334689999988877653 135567766334
Q ss_pred CCCCCCChhHHHHHHHcCCChhhhhhcCCChHH---HHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHH
Q 022773 129 IATDAHAPDSIELLRLQGIDFERNRKEGVDSVR---FAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLD 205 (292)
Q Consensus 129 ~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~---f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~ 205 (292)
.......+.+ ..-+|+.-..+...+-.... |.+.+. + ...||.++..+|.+++.+.+. .
T Consensus 43 ~~~~~i~~~~---~~~~gIt~~~l~~~~~~~~~~~~~~~~~~-~------~~~~v~~n~~fd~~~l~~~~~--------~ 104 (164)
T PF00929_consen 43 EEPPKISPWA---TKVHGITQEDLEDAPSFEEALDEFEEFLK-K------NDILVGHNASFDIGFLRREDK--------R 104 (164)
T ss_dssp SSHCSSEHHH---HHHHHHCHHHHHCHCEHHHHHHHHHHHHH-H------HTEEEETTCCHEEESSHHHHH--------H
T ss_pred cccccCCHHH---eeecCCcccccccCCcHHHHHHhhhhhhh-c------ccccccccccchhhHHHHhhh--------h
Confidence 3222344443 34466666665555432221 222221 1 134455444688776655542 1
Q ss_pred HHHHHHHhhcCCcccchHHHHHh-hhhcc-chHHHHHHHcCCCCCCCCCccchhhHHHHHHHH
Q 022773 206 EFLTVLRVFFGNNIYDVKHIMRF-CQSLY-GGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAF 266 (292)
Q Consensus 206 ~F~~~l~~~F~P~iyDtK~la~~-~~~l~-~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F 266 (292)
.+..... .. ..+.|+.-+.+. .+... .+|..+++.++++. .+.+|.|-+|++.|+.+|
T Consensus 105 ~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~-~~~~H~Al~Da~~t~~l~ 164 (164)
T PF00929_consen 105 FLGKPIP-KP-NPFIDTLELARALFPNRKKYSLDDLAEYFGIPF-DGTAHDALDDARATAELF 164 (164)
T ss_dssp HHHHHHH-HH-HHECEEEEEHHHHHHHHHHHSHHHHHHHTTSSS-TSTTTSHHHHHHHHHHHH
T ss_pred ccccccc-cc-chhhhhhHHHHHHhhccccCCHHHHHHHcCCCC-CCCCcChHHHHHHHhCcC
Confidence 1111111 11 123454333332 33333 48999999999998 677999999999999987
No 33
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.80 E-value=0.00067 Score=72.29 Aligned_cols=163 Identities=21% Similarity=0.274 Sum_probs=105.5
Q ss_pred cCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEee
Q 022773 45 RYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 45 ~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF 124 (292)
...||++|+|-||+. + . + .|||||..... +|+ ..-.|..
T Consensus 6 ~~~~vvvD~ETTGl~--~------------------------~-d--~IIeIgaV~v~-~g~-----------i~~~f~~ 44 (820)
T PRK07246 6 LRKYAVVDLEATGAG--P------------------------N-A--SIIQVGIVIIE-GGE-----------IIDSYTT 44 (820)
T ss_pred CCCEEEEEEecCCcC--C------------------------C-C--eEEEEEEEEEE-CCE-----------EEEEEEE
Confidence 467999999999962 1 0 2 59999999875 332 2345655
Q ss_pred cccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhC--CCCCCC
Q 022773 125 RDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILT--RRSLPS 202 (292)
Q Consensus 125 ~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~--~~~LP~ 202 (292)
+ .++. ....+.+.+. +||.=..+. ++.++......+.. ++ .+..+|+++..+|+.+|-+.+. |-++|.
T Consensus 45 l-v~P~-~~i~~~~~~l---tGIt~e~l~-~ap~~~ev~~~~~~--~l--~~~~lVaHN~~FD~~fL~~~~~~~g~~~~~ 114 (820)
T PRK07246 45 D-VNPH-EPLDEHIKHL---TGITDQQLA-QAPDFSQVARHIYD--LI--EDCIFVAHNVKFDANLLAEALFLEGYELRT 114 (820)
T ss_pred E-eCcC-CCCCHhHhhc---CCCCHHHHh-cCCCHHHHHHHHHH--Hh--CCCEEEEECcHHHHHHHHHHHHHcCCCCCC
Confidence 5 3332 2334433333 777776654 45555544444432 11 2345677777799999988763 223221
Q ss_pred CHHHHHHHHHhhcCCcccchHHHHHhh-hhc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 203 GLDEFLTVLRVFFGNNIYDVKHIMRFC-QSL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 203 ~~~~F~~~l~~~F~P~iyDtK~la~~~-~~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
| .+||--+++.+ +.+ .-+|+.+++.+|++. ..+|.|-+|+..|+.+|.+|.+.+..
T Consensus 115 --------------~-~iDT~~la~~~~p~~~~~~L~~L~~~lgl~~--~~~H~Al~DA~ata~L~~~l~~~l~~ 172 (820)
T PRK07246 115 --------------P-RVDTVELAQVFFPTLEKYSLSHLSRELNIDL--ADAHTAIADARATAELFLKLLQKIES 172 (820)
T ss_pred --------------C-ceeHHHHHHHHhCCCCCCCHHHHHHHcCCCC--CCCCCHHHHHHHHHHHHHHHHHHHhh
Confidence 2 24776666653 233 247999999999986 46799999999999999999887643
No 34
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=97.73 E-value=0.00082 Score=71.84 Aligned_cols=164 Identities=18% Similarity=0.218 Sum_probs=103.5
Q ss_pred CceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecc
Q 022773 47 PFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRD 126 (292)
Q Consensus 47 ~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~ 126 (292)
.||++|+|-||+... .=.|||+|...++ +|+ ..-+|...
T Consensus 1 ~~vvvD~ETTG~~~~----------------------------~~~IIeig~v~v~-~~~-----------i~~~f~~~- 39 (850)
T TIGR01407 1 RYAVVDLETTGTQLS----------------------------FDKIIQIGIVVVE-DGE-----------IVDTFHTD- 39 (850)
T ss_pred CEEEEEEECCCCCCC----------------------------CCeEEEEEEEEEE-CCE-----------EEEEEEEE-
Confidence 389999999997411 1249999999884 343 23456655
Q ss_pred cCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHH
Q 022773 127 FDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDE 206 (292)
Q Consensus 127 F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~ 206 (292)
.++.. ...+.+.+ -+|+.-+.+. .+-++....+.+.. ++ .+-.||+++..+|+.+|-+-+....+|.
T Consensus 40 v~P~~-~i~~~~~~---ltGIt~e~l~-~ap~~~ev~~~l~~--~l--~~~~~VahN~~fD~~fL~~~~~~~g~~~---- 106 (850)
T TIGR01407 40 VNPNE-PIPPFIQE---LTGISDNMLQ-QAPYFSQVAQEIYD--LL--EDGIFVAHNVHFDLNFLAKALKDCGYEP---- 106 (850)
T ss_pred eCCCC-CCChhhhh---hcCcCHHHHh-CCCCHHHHHHHHHH--Hh--CCCEEEEeCcHHHHHHHHHHHHHcCCCC----
Confidence 34332 33333332 3888765554 34444433333332 11 2335777777799999988774322221
Q ss_pred HHHHHHhhcCCcccchHHHHHhhh-hc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 207 FLTVLRVFFGNNIYDVKHIMRFCQ-SL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 207 F~~~l~~~F~P~iyDtK~la~~~~-~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
+....+||--+++..- .. .-+|+.+++.+|++. ..+|.|-+|+..|+.+|.+|.+++-
T Consensus 107 --------~~~~~iDt~~l~~~~~p~~~~~~L~~l~~~~gi~~--~~~H~Al~DA~ata~l~~~l~~~~~ 166 (850)
T TIGR01407 107 --------LPKPRIDTVELAQIFFPTEESYQLSELSEALGLTH--ENPHRADSDAQATAELLLLLFEKME 166 (850)
T ss_pred --------CCCCeEeHHHHHHHhcCCCCCCCHHHHHHHCCCCC--CCCCChHHHHHHHHHHHHHHHHHHH
Confidence 1023567766665432 22 237999999999986 4579999999999999999988764
No 35
>PRK07983 exodeoxyribonuclease X; Provisional
Probab=97.67 E-value=0.0014 Score=59.38 Aligned_cols=135 Identities=10% Similarity=0.060 Sum_probs=83.4
Q ss_pred ceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCcc
Q 022773 93 LIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLV 172 (292)
Q Consensus 93 iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv 172 (292)
|||||..-+. +|+ .+.+|+.. .++.. ..++.+++. |||.=+.+. |-|. |.+.+-. +.
T Consensus 16 IieIg~v~v~-~~~-----------i~~~~~~l-v~P~~-~i~~~~~~i---hgIt~e~v~--~ap~--~~ev~~~--~~ 72 (219)
T PRK07983 16 IVEIASVDVI-DGK-----------IVNPMSHL-VRPDR-PISPQAMAI---HRITEAMVA--DKPW--IEDVIPH--YY 72 (219)
T ss_pred CEEEEEEEEE-CCE-----------EEEEEEEE-ECcCC-CCCHHHhhc---CCCCHHHHc--CCCC--HHHHHHH--Hc
Confidence 9999987664 443 23455554 44433 345555443 666544432 2232 3443322 11
Q ss_pred ccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHh-hhhccchHHHHHHHcCCCC---C
Q 022773 173 CNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRF-CQSLYGGLDRVARTLDVSR---A 248 (292)
Q Consensus 173 ~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~-~~~l~~~L~~la~~L~v~r---~ 248 (292)
....+|++|-.+|..+|-+ +....+||--+++. .+++.-+|+.|++.+++.. .
T Consensus 73 --~~~~lVaHNa~FD~~~L~~---------------------~~~~~idTl~lar~l~p~~~~~l~~L~~~~~l~~~~~~ 129 (219)
T PRK07983 73 --GSEWYVAHNASFDRRVLPE---------------------MPGEWICTMKLARRLWPGIKYSNMALYKSRKLNVQTPP 129 (219)
T ss_pred --CCCEEEEeCcHhhHHHHhC---------------------cCCCcEeHHHHHHHHccCCCCCHHHHHHHcCCCCCCCC
Confidence 2234555555699988621 21246798888875 4466678999999998753 1
Q ss_pred CCCCccchhhHHHHHHHHHHHHHHh
Q 022773 249 VGKCHQAGSDSLLTWHAFQKIRDVY 273 (292)
Q Consensus 249 ~g~~HqAGsDS~lT~~~F~~l~~~~ 273 (292)
...+|.|-+|++.|+.+|.+|.+..
T Consensus 130 ~~~aHrAl~Da~ata~ll~~l~~~~ 154 (219)
T PRK07983 130 GLHHHRALYDCYITAALLIDIMNTS 154 (219)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHHHc
Confidence 2568999999999999999988653
No 36
>cd06138 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins. This subfamily is composed of the N-terminal domain of Escherichia coli exonuclease I (ExoI) and similar proteins. ExoI is a monomeric enzyme that hydrolyzes single stranded DNA in the 3' to 5' direction. It plays a role in DNA recombination and repair. It primarily functions in repairing frameshift mutations. The N-terminal domain of ExoI is a DEDDh-type DnaQ-like 3'-5 exonuclease containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The ExoI structure is unique among DnaQ family enzymes in that there is a large distance between the two metal ions required for catalysis and the catalytic histidine is oriented away from the active site.
Probab=97.67 E-value=0.001 Score=58.12 Aligned_cols=151 Identities=19% Similarity=0.194 Sum_probs=86.0
Q ss_pred cceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecccCCCCC-CCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcC
Q 022773 92 NLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDIATD-AHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSG 170 (292)
Q Consensus 92 ~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F~~~~d-~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sg 170 (292)
.|||+|+-.++.++.. ...|++. ..++.. ...++++ +-|||.=+.+...|.+.....+.+..
T Consensus 16 ~Iieig~v~v~~~~~~-----------~~~~~~~-v~p~~~~~~~~~a~---~ihGIt~e~l~~~~~~~~~~l~~~~~-- 78 (183)
T cd06138 16 QILQFAAIRTDENFNE-----------IEPFNIF-CRLPPDVLPSPEAL---IVTGITPQQLLKEGLSEYEFIAKIHR-- 78 (183)
T ss_pred ceEEEEEEEECCCCCC-----------ccceeEE-EeCCCCCCCCHHHH---HHhCCCHHHHHhcCCCHHHHHHHHHH--
Confidence 4899999888765432 2445665 333322 3444544 34999988887778886665444432
Q ss_pred ccccCCcceEEeeC-chhHHHHHHHhCC---CCCCCCH------HHHHHHHHh---hcCCcccchHHHHHhhhhc-cchH
Q 022773 171 LVCNESVSWVTFHS-AYDFGYLVKILTR---RSLPSGL------DEFLTVLRV---FFGNNIYDVKHIMRFCQSL-YGGL 236 (292)
Q Consensus 171 lv~~~~~~wv~fhg-~yD~~yL~k~l~~---~~LP~~~------~~F~~~l~~---~F~P~iyDtK~la~~~~~l-~~~L 236 (292)
.+..++..+|++|+ .+|.+||-+.+.. .+++.+. -+...+.+. ++ |..++.... -.++ .-.|
T Consensus 79 ~~~~~~~~lVahn~~~FD~~fL~~~~~r~~~~~~~~~~~~~~~~~dtl~l~r~~~~~~-~~~~~~~~~---~~~~~~~~L 154 (183)
T cd06138 79 LFNTPGTCIVGYNNIRFDDEFLRFAFYRNLYDPYTWEWKNGNSRWDLLDVVRAYYALR-PDGIVWPKN---DDGKPSFKL 154 (183)
T ss_pred HHccCCCcEEeeCchhhHHHHHHHHHHHCCCcccceeccCCccccccHHHHHHHHhhC-hhhccCccc---cCCCcchhH
Confidence 12123345787776 5999999887742 1222111 111222221 12 211110000 0012 1359
Q ss_pred HHHHHHcCCCCCCCCCccchhhHHHHHHH
Q 022773 237 DRVARTLDVSRAVGKCHQAGSDSLLTWHA 265 (292)
Q Consensus 237 ~~la~~L~v~r~~g~~HqAGsDS~lT~~~ 265 (292)
+.+++.+|++. ..+|-|-+|++.|+.+
T Consensus 155 ~~l~~~~gi~~--~~~H~Al~Da~~ta~l 181 (183)
T cd06138 155 EDLAQANGIEH--SNAHDALSDVEATIAL 181 (183)
T ss_pred HHHHHHCCCCc--cccccHHHHHHHHHHH
Confidence 99999999986 5679999999999864
No 37
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=97.60 E-value=0.001 Score=64.61 Aligned_cols=179 Identities=17% Similarity=0.224 Sum_probs=108.4
Q ss_pred HHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEE
Q 022773 41 QVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIW 120 (292)
Q Consensus 41 ~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w 120 (292)
..+++.+||+||+|-||+... .=.||+||.-.+..+|+ .+.
T Consensus 41 ~~~~~~~fVvlDiETTGLdp~----------------------------~drIIeIgAV~i~~~g~-----------ive 81 (377)
T PRK05601 41 EAIEAAPFVAVSIQTSGIHPS----------------------------TSRLITIDAVTLTADGE-----------EVE 81 (377)
T ss_pred CCCCCCCEEEEEEECCCCCCC----------------------------CCeEEEEEEEEEEcCCE-----------EEE
Confidence 357789999999999998421 12489999988887774 245
Q ss_pred EEeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCC--C
Q 022773 121 EFNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTR--R 198 (292)
Q Consensus 121 ~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~--~ 198 (292)
.|... .+...+... . .-|||.=+.+.. |.++....+.|.. ++ ++..||+++-.+|++||-+-+.. .
T Consensus 82 ~f~tL-VnP~~~~~p---~---~LHGIT~e~La~-AP~f~eVl~el~~--fL--~g~vLVaHNA~FD~~FL~~e~~r~~~ 149 (377)
T PRK05601 82 HFHAV-LNPGEDPGP---F---HLHGLSAEEFAQ-GKRFSQILKPLDR--LI--DGRTLILHNAPRTWGFIVSEAKRAMN 149 (377)
T ss_pred EEEEE-ECcCCCCCC---c---cccCCCHHHHhc-CCCHHHHHHHHHH--Hh--CCCEEEEECcHHHHHHHHHHHHHhhh
Confidence 56665 454443221 1 137777666644 6665554444432 12 23456776666999999886520 0
Q ss_pred CCC-CCHHHHH------------HHHHhhcCC-cccchHHHHHhhh-hcc-chHHHHHHHcCCCCC--------CCCCcc
Q 022773 199 SLP-SGLDEFL------------TVLRVFFGN-NIYDVKHIMRFCQ-SLY-GGLDRVARTLDVSRA--------VGKCHQ 254 (292)
Q Consensus 199 ~LP-~~~~~F~------------~~l~~~F~P-~iyDtK~la~~~~-~l~-~~L~~la~~L~v~r~--------~g~~Hq 254 (292)
.+. .+...+. ..-.... | .++||=-+++.+. .+. -.|+.||+.+|++.+ -..+|.
T Consensus 150 ~a~~~n~~~~r~~~~~~~~~rr~~~g~~p~-p~~~iDTL~LARrl~p~l~~~rL~~La~~lGi~~p~~~A~~~Ra~~p~~ 228 (377)
T PRK05601 150 AAARANRNRNRGNRRGGRGRRRQRVGHIPK-PVVIVDTLATARRQGVALDDIRIRGVAHTLGLDAPAAEASVERAQVPHR 228 (377)
T ss_pred hhhhcccccccccccccccccccccCCCCC-CCCEEEhHHHHHHHcCCCCCCCHHHHHHHhCCCCCchhhhhhhhcCChh
Confidence 000 0000000 0001123 4 4789987877763 443 469999999998762 234566
Q ss_pred chh--hHHHHHHHHHHHHH
Q 022773 255 AGS--DSLLTWHAFQKIRD 271 (292)
Q Consensus 255 AGs--DS~lT~~~F~~l~~ 271 (292)
|=+ |+.++...|.++++
T Consensus 229 ~l~~~Da~ll~~l~~~~~~ 247 (377)
T PRK05601 229 QLCREETLLVARLYFALRA 247 (377)
T ss_pred hhhhHHHHHHHHHHHHhhc
Confidence 554 99999999999743
No 38
>PRK11779 sbcB exonuclease I; Provisional
Probab=97.58 E-value=0.0028 Score=63.71 Aligned_cols=175 Identities=19% Similarity=0.212 Sum_probs=109.8
Q ss_pred cCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEee
Q 022773 45 RYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 45 ~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF 124 (292)
...||.+|+|-||+.... =.|||+|.-..+.+++. ...+|++
T Consensus 5 ~~~fvv~D~ETTGLdP~~----------------------------DrIIeiAaVrvd~~~~~----------i~e~~~~ 46 (476)
T PRK11779 5 QPTFLWHDYETFGANPAL----------------------------DRPAQFAGIRTDADLNI----------IGEPLVF 46 (476)
T ss_pred CCcEEEEEEECCCCCCCC----------------------------CeeEEEEEEEEeCCCce----------ecceeEE
Confidence 567999999999986311 14899999888776532 2345677
Q ss_pred cccCCCCC-CCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeC-chhHHHHHHHhCCCCCCC
Q 022773 125 RDFDIATD-AHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHS-AYDFGYLVKILTRRSLPS 202 (292)
Q Consensus 125 ~~F~~~~d-~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg-~yD~~yL~k~l~~~~LP~ 202 (292)
+ ..+..+ .-.+++ ..-|||-=+.+...|++...+.+.+.. .+..++..+|.+|+ .+|..++-+.+. ..+-+
T Consensus 47 ~-~~P~~~~lp~p~a---~~IhGIT~e~l~~~g~~e~e~~~~i~~--~l~~~~~~lVGhNni~FD~eflr~~~~-r~~~d 119 (476)
T PRK11779 47 Y-CKPADDYLPSPEA---VLITGITPQEALEKGLPEAEFAARIHA--EFSQPGTCILGYNNIRFDDEVTRYIFY-RNFYD 119 (476)
T ss_pred E-EcCCcCcCCCHHH---HHHhCCCHHHHHhcCCCHHHHHHHHHH--HHhcCCCEEEEeCchhhcHHHHHHHHH-hccch
Confidence 6 444443 334555 345999999988899987776665542 12122334455555 499999988885 11111
Q ss_pred CHHHHHHHHHhhc-CCcccchHHHHHhhhh--------------c-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHH
Q 022773 203 GLDEFLTVLRVFF-GNNIYDVKHIMRFCQS--------------L-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAF 266 (292)
Q Consensus 203 ~~~~F~~~l~~~F-~P~iyDtK~la~~~~~--------------l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F 266 (292)
+ ..+.+= +...+|+=-+++.+.. . .-.|+.|++.+|++. ..+|.|=+|++.|+.++
T Consensus 120 ~------y~~~~~~~n~r~D~LDl~rl~~~lrp~~i~~P~~~~g~~s~rLe~L~~~~gI~~--~~AHdALsDa~aT~~la 191 (476)
T PRK11779 120 P------YAREWQNGNSRWDLLDVVRACYALRPEGINWPENEDGLPSFKLEHLTKANGIEH--ENAHDAMSDVYATIAMA 191 (476)
T ss_pred H------HHHHhcCCCCccCHHHHHHHHHHhccccccCcccccCCCCCcHHHHHHHcCCCC--CCCCCcHHHHHHHHHHH
Confidence 1 111110 0112233222222211 1 125999999999985 57899999999999999
Q ss_pred HHHHHH
Q 022773 267 QKIRDV 272 (292)
Q Consensus 267 ~~l~~~ 272 (292)
.+|++.
T Consensus 192 ~~l~~~ 197 (476)
T PRK11779 192 KLIKQK 197 (476)
T ss_pred HHHHHh
Confidence 999876
No 39
>PTZ00315 2'-phosphotransferase; Provisional
Probab=97.57 E-value=0.0035 Score=64.08 Aligned_cols=174 Identities=14% Similarity=0.135 Sum_probs=108.3
Q ss_pred CCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecC-CCCCCCCCCCCCCeeEEEEee
Q 022773 46 YPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDS-SGNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 46 ~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~-~g~~p~~g~~~~~~~~w~FNF 124 (292)
-.||++|+|.||..... . +.-.||+||...++. +|+ ....|..
T Consensus 56 d~~IV~DlETTgl~~~~-----------~--------------~~dEIIEIGaV~Vd~~ng~-----------Ii~~F~~ 99 (582)
T PTZ00315 56 DAYVVLDFEATCEADRR-----------I--------------EDAEVIEFPMVLVDARTAT-----------PVAEFQR 99 (582)
T ss_pred CeEEEEEEecCCCCCCC-----------C--------------CCCceEEEEEEEEEccCCE-----------EEEEEEE
Confidence 36899999999963110 0 133699999999975 342 3567776
Q ss_pred cccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHH----HHHHHHcCcccc-CCcceE-EeeCchhHH-HHHHHhC-
Q 022773 125 RDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRF----AELMMSSGLVCN-ESVSWV-TFHSAYDFG-YLVKILT- 196 (292)
Q Consensus 125 ~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f----~e~l~~Sglv~~-~~~~wv-~fhg~yD~~-yL~k~l~- 196 (292)
+.-|.......+.+.++ +||.=+.+ .++.++... .+.+..+++... +...++ +..|.+|+. +|.+.+.
T Consensus 100 yVkP~~~p~Ls~fct~L---TGITqe~V-~~Ap~F~eVl~ef~~fL~~~~~~e~~~~~~~~vah~g~fDl~~fL~~e~~~ 175 (582)
T PTZ00315 100 YVRPVKNPVLSRFCTEL---TGITQSMV-SRADPFPVVYCEALQFLAEAGLGDAPPLRSYCVVTCGDWDLKTMLPSQMRV 175 (582)
T ss_pred EECCCCCCCCChhHhhh---cCcCHHHH-hcCCCHHHHHHHHHHHHhccccccccccCceEEEeccHHHHHHHHHHHHHH
Confidence 63443222455555554 67764444 456665543 233333332211 112334 444559995 7766543
Q ss_pred -C-CCCCCCHHHHHHHHHhhcCCcccchH-HHHHhh-hh-----------c-cchHHHHHHHcCCCCCCCCCccchhhHH
Q 022773 197 -R-RSLPSGLDEFLTVLRVFFGNNIYDVK-HIMRFC-QS-----------L-YGGLDRVARTLDVSRAVGKCHQAGSDSL 260 (292)
Q Consensus 197 -~-~~LP~~~~~F~~~l~~~F~P~iyDtK-~la~~~-~~-----------l-~~~L~~la~~L~v~r~~g~~HqAGsDS~ 260 (292)
+ ..+|. .| ...+|+| ++++.. ++ + .-+|+.+++.+|++- .|..|.|=.||.
T Consensus 176 ~~~~g~p~-----------~f-~~widLk~~lar~l~p~~~~~~~~~~~~~~~~~L~~al~~lgL~~-eGr~HrAlDDA~ 242 (582)
T PTZ00315 176 SGQQGTPL-----------SF-QRWCNLKKYMSQLGFGNGSGCGGGATPPLGPSDMPDMLQMLGLPL-QGRHHSGIDDCR 242 (582)
T ss_pred hhhcCCCc-----------cc-ceEEEhHHHHHHHhCccccccccccccccCCcCHHHHHHHCCCCC-CCCCcCcHHHHH
Confidence 1 24443 35 4566764 666642 21 1 247999999999998 899999999999
Q ss_pred HHHHHHHHHHHH
Q 022773 261 LTWHAFQKIRDV 272 (292)
Q Consensus 261 lT~~~F~~l~~~ 272 (292)
.|+++|.+|...
T Consensus 243 ntA~L~~~Ll~~ 254 (582)
T PTZ00315 243 NIAAVLCELLRR 254 (582)
T ss_pred HHHHHHHHHHHc
Confidence 999999998876
No 40
>PRK06309 DNA polymerase III subunit epsilon; Validated
Probab=97.54 E-value=0.0021 Score=58.44 Aligned_cols=162 Identities=15% Similarity=0.155 Sum_probs=95.6
Q ss_pred CceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeecc
Q 022773 47 PFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRD 126 (292)
Q Consensus 47 ~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~ 126 (292)
.+|.+|||-||+... .=.|||+|. .+ +.. .-.|+-.
T Consensus 3 ~~vv~D~ETTGl~~~----------------------------~d~IIeig~--v~--~~~-----------~~~f~~l- 38 (232)
T PRK06309 3 ALIFYDTETTGTQID----------------------------KDRIIEIAA--YN--GVT-----------SESFQTL- 38 (232)
T ss_pred cEEEEEeeCCCCCCC----------------------------CCEEEEEEE--Ec--Ccc-----------ccEEEEE-
Confidence 489999999997521 114899987 22 211 1124443
Q ss_pred cCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeC-chhHHHHHHHhCCCCCCCCHH
Q 022773 127 FDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHS-AYDFGYLVKILTRRSLPSGLD 205 (292)
Q Consensus 127 F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg-~yD~~yL~k~l~~~~LP~~~~ 205 (292)
+++.. ...+++++. |||.=+..... -+.....+.+.. ++ ...-.+|++++ .+|..+|-+.+-...+|..
T Consensus 39 v~P~~-~I~~~a~~I---hGIt~e~v~~~-p~f~ev~~~~~~--fi-~~~~~lVaHN~~~FD~~~L~~e~~r~g~~~~-- 108 (232)
T PRK06309 39 VNPEI-PIPAEASKI---HGITTDEVADA-PKFPEAYQKFIE--FC-GTDNILVAHNNDAFDFPLLRKECRRHGLEPP-- 108 (232)
T ss_pred eCCCC-CCChhHHhh---cCCCHHHHhCC-CCHHHHHHHHHH--HH-cCCCEEEEeCCHHHHHHHHHHHHHHcCCCCC--
Confidence 34433 345555443 67666555443 233222222221 11 11223455553 4999999887742222211
Q ss_pred HHHHHHHhhcCCcccchHHHHHhh-hhc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 206 EFLTVLRVFFGNNIYDVKHIMRFC-QSL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 206 ~F~~~l~~~F~P~iyDtK~la~~~-~~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
. -..+||--+++.. +++ ..+|+.+++.+|++. ..+|-|-+|++.|+++|.+|.+.+-
T Consensus 109 ---------~-~~~iDt~~l~~~~~~~~~~~~L~~l~~~~~~~~--~~aH~Al~Da~~t~~vl~~l~~~~~ 167 (232)
T PRK06309 109 ---------T-LRTIDSLKWAQKYRPDLPKHNLQYLRQVYGFEE--NQAHRALDDVITLHRVFSALVGDLS 167 (232)
T ss_pred ---------C-CcEEeHHHHHHHHcCCCCCCCHHHHHHHcCCCC--CCCCCcHHHHHHHHHHHHHHHHHHH
Confidence 0 1356887777654 233 357999999999875 5689999999999999999887763
No 41
>PRK09182 DNA polymerase III subunit epsilon; Validated
Probab=97.38 E-value=0.0038 Score=59.01 Aligned_cols=156 Identities=17% Similarity=0.200 Sum_probs=96.6
Q ss_pred CceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCC--CCCCCCCCCCCCeeEEEEee
Q 022773 47 PFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSS--GNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 47 ~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~--g~~p~~g~~~~~~~~w~FNF 124 (292)
.+|++|||-||+... .=.|||||+..++.+ |+.- .....|++
T Consensus 38 ~~vvlD~ETTGLd~~----------------------------~d~IIEIg~V~v~~~~~g~i~--------~v~~~~~~ 81 (294)
T PRK09182 38 LGVILDTETTGLDPR----------------------------KDEIIEIGMVAFEYDDDGRIG--------DVLDTFGG 81 (294)
T ss_pred eEEEEEeeCCCCCCC----------------------------CCeEEEEEEEEEEecCCCcee--------eeeeEEEE
Confidence 579999999998521 125999999999753 4321 23456777
Q ss_pred cccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhC---CCCCC
Q 022773 125 RDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILT---RRSLP 201 (292)
Q Consensus 125 ~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~---~~~LP 201 (292)
+ .+... ...+++.. -|||.=+.+...+++...+.+.+.. .-..|+++..+|..||-+.+. +.+..
T Consensus 82 l-v~P~~-~I~~~~t~---IhGIt~e~v~~~~~~~~~l~~fl~~-------~~vlVAHNA~FD~~fL~~~~~~~~~~~~~ 149 (294)
T PRK09182 82 L-QQPSR-PIPPEITR---LTGITDEMVAGQTIDPAAVDALIAP-------ADLIIAHNAGFDRPFLERFSPVFATKPWA 149 (294)
T ss_pred E-eCCCC-CCCHHHHH---hcCCCHHHHhcCCCcHHHHHHHhcC-------CCEEEEeCHHHHHHHHHHHHHhccCCccc
Confidence 6 44432 34555543 3888888877777766666554322 123456666699999876542 11111
Q ss_pred CCHHHHHHHHHhhcCCcccchHHHHHhhhhc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHH
Q 022773 202 SGLDEFLTVLRVFFGNNIYDVKHIMRFCQSL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRD 271 (292)
Q Consensus 202 ~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~ 271 (292)
.+... + |-+ ...+ .-.|+.|+..+| . ...+|.|-+|++.|+.+|.++..
T Consensus 150 ct~~~----i---------~~~-----~~~~~~~kL~~La~~~g-~--~~~aHrAl~Da~Ata~ll~~~l~ 199 (294)
T PRK09182 150 CSVSE----I---------DWS-----ARGFEGTKLGYLAGQAG-F--FHEGHRAVDDCQALLELLARPLP 199 (294)
T ss_pred ccHHH----H---------hhc-----cccCCCCCHHHHHHHcC-C--CCCCcChHHHHHHHHHHHHHHHh
Confidence 11110 0 000 0111 235999999999 3 35679999999999999997543
No 42
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=97.24 E-value=0.0066 Score=68.10 Aligned_cols=169 Identities=19% Similarity=0.234 Sum_probs=107.7
Q ss_pred hhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEE
Q 022773 43 IDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEF 122 (292)
Q Consensus 43 i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~F 122 (292)
+.+..||++|+|.+|+... + =.|||+|....+ +|. ....|
T Consensus 416 L~~~~~VVfDLETTGL~~~-------------------~---------deIIEIgAV~V~-~G~-----------iie~F 455 (1437)
T PRK00448 416 LKDATYVVFDVETTGLSAV-------------------Y---------DEIIEIGAVKIK-NGE-----------IIDKF 455 (1437)
T ss_pred hccCcEEEEEhhhcCCCCc-------------------h---------hhhheeeeEEEe-CCe-----------EeeeE
Confidence 4467899999999996421 1 167888877765 332 34556
Q ss_pred eecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCC
Q 022773 123 NFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPS 202 (292)
Q Consensus 123 NF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~ 202 (292)
+.+ .++. ....+.+.++ +|+.=..+. .+.+.....+.+..- ..+..+|++++.+|+.+|-+.+..--+|.
T Consensus 456 ~~~-V~P~-~~I~~~~~~L---TGIT~e~L~-~aps~~EaL~~f~~f----igg~vLVAHNa~FD~~fL~~~l~rlgl~~ 525 (1437)
T PRK00448 456 EFF-IKPG-HPLSAFTTEL---TGITDDMVK-DAPSIEEVLPKFKEF----CGDSILVAHNASFDVGFINTNYEKLGLEK 525 (1437)
T ss_pred EEE-ECCC-CCCCHHHHHH---hCCCHHHHc-CCCCHHHHHHHHHHH----hCCCEEEEeCccccHHHHHHHHHHcCCcc
Confidence 666 4433 2334444333 677766655 566665544444430 12345777777899999877664221221
Q ss_pred CHHHHHHHHHhhcCCcccchHHHHHhhh-hc-cchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 203 GLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SL-YGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 203 ~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l-~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
+- ....||--+++..- .. .-+|+.+|+.+|++. .+ +|-|-+||+.|+.+|.+|.+.+..
T Consensus 526 -----------l~-~~~IDTLelar~l~p~~k~~kL~~LAk~lGL~~-~~-~HrAl~DA~aTa~lf~~ll~~l~~ 586 (1437)
T PRK00448 526 -----------IK-NPVIDTLELSRFLYPELKSHRLNTLAKKFGVEL-EH-HHRADYDAEATAYLLIKFLKDLKE 586 (1437)
T ss_pred -----------cc-ccceeHHHHHHHHcCccccccHHHHHHHcCCCC-CC-CcChHHHHHHHHHHHHHHHHHHHH
Confidence 11 23457765555432 22 347999999999987 44 599999999999999999888754
No 43
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]
Probab=97.19 E-value=0.0092 Score=53.88 Aligned_cols=165 Identities=19% Similarity=0.205 Sum_probs=103.8
Q ss_pred CCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeec
Q 022773 46 YPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFR 125 (292)
Q Consensus 46 ~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~ 125 (292)
..||++|+|-+|... ..-.+|++|.-.+..+.... ..|..+
T Consensus 13 ~~~vv~D~ETtg~~~----------------------------~~~~iieIgav~~~~~~i~~-----------~~~~~~ 53 (243)
T COG0847 13 TRFVVIDLETTGLNP----------------------------KKDRIIEIGAVTLEDGRIVE-----------RSFHTL 53 (243)
T ss_pred CcEEEEecccCCCCC----------------------------CCCceEEEEeEEEECCeeec-----------ceeEEE
Confidence 689999999999743 33458999988886654321 114444
Q ss_pred ccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCC--CCCCCC
Q 022773 126 DFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTR--RSLPSG 203 (292)
Q Consensus 126 ~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~--~~LP~~ 203 (292)
.-| ...+.+++... +||....+... ..+....+.+.. ++ .+.-.+|+++-++|.+||-+.+.. .+.|
T Consensus 54 v~P--~~~i~~~~~~i---~git~e~l~~~-p~~~~v~~~~~~--~i-~~~~~~Vahna~fD~~fl~~~~~~~~~~~~-- 122 (243)
T COG0847 54 VNP--ERPIPPEIFKI---HGITDEMLADA-PKFAEVLPEFLD--FI-GGLRLLVAHNAAFDVGFLRVESERLGIEIP-- 122 (243)
T ss_pred ECC--CCCCChhhhhh---cCCCHHHHhcC-CCHHHHHHHHHH--HH-CCCCeEEEEchhhcHHHHHHHHHHcCCCcc--
Confidence 233 33344444433 66666666655 222222222211 11 122355666667999999776542 3333
Q ss_pred HHHHHHHHHhhcCCcccchHHHHHh-hhh-ccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHH
Q 022773 204 LDEFLTVLRVFFGNNIYDVKHIMRF-CQS-LYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDV 272 (292)
Q Consensus 204 ~~~F~~~l~~~F~P~iyDtK~la~~-~~~-l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~ 272 (292)
. ..++||--+++. .++ -..+|+.+++.+|+++.....|.|-.|+++++.+|.++...
T Consensus 123 -----------~-~~~~~t~~~~r~~~~~~~~~~L~~l~~~~gi~~~~~~~H~Al~Da~~~a~~~~~~~~~ 181 (243)
T COG0847 123 -----------G-DPVLDTLALARRHFPGFDRSSLDALAERLGIDRNPFHPHRALFDALALAELFLLLQTG 181 (243)
T ss_pred -----------c-CceehHHHHHHHHcCCCccchHHHHHHHcCCCcCCcCCcchHHHHHHHHHHHHHHHhc
Confidence 1 455677666555 344 45689999999999974356699999999999999999874
No 44
>PRK05359 oligoribonuclease; Provisional
Probab=97.15 E-value=0.011 Score=51.74 Aligned_cols=171 Identities=16% Similarity=0.145 Sum_probs=96.3
Q ss_pred cCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEee
Q 022773 45 RYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNF 124 (292)
Q Consensus 45 ~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF 124 (292)
.-.||++|+|.||+.... + .|||+|.-..+.+.+. ..-.|++
T Consensus 2 ~~~~vvlD~ETTGLdp~~------------d----------------~IieIgaV~~~~~~~~----------~~~~~~~ 43 (181)
T PRK05359 2 EDNLIWIDLEMTGLDPER------------D----------------RIIEIATIVTDADLNI----------LAEGPVI 43 (181)
T ss_pred CCcEEEEEeecCCCCCCC------------C----------------eEEEEEEEEEcCCceE----------cccceEE
Confidence 347999999999985321 1 2899999987655432 1123444
Q ss_pred cccCCCC--CCCChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHH--cCccccCCcceEEeeC-chhHHHHHHHhCCCC
Q 022773 125 RDFDIAT--DAHAPDSIELLRLQGIDFERNRKEGVDSVRFAELMMS--SGLVCNESVSWVTFHS-AYDFGYLVKILTRRS 199 (292)
Q Consensus 125 ~~F~~~~--d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~--Sglv~~~~~~wv~fhg-~yD~~yL~k~l~~~~ 199 (292)
...+... +...+.+...-..+|+. +.....|++.....+.+.. .+.+. ....+++.|+ .+|..||-+.+-
T Consensus 44 ~i~~~~~~l~~~~~~~~~ih~~tGIt-~~~l~~~~~~~e~~~~~l~fl~~~~~-~~~~~l~g~~v~FD~~FL~~~~~--- 118 (181)
T PRK05359 44 AIHQSDEALAAMDEWNTRTHTRSGLI-DRVRASTVSEAEAEAQTLEFLKQWVP-AGKSPLCGNSIGQDRRFLARYMP--- 118 (181)
T ss_pred EECCCHHHhhccChHHHHhcccccCc-HHHHhcCCCHHHHHHHHHHHHHHhcC-CCCCceeecchhhCHHHHHHHHH---
Confidence 4223211 11222232222224777 6666778877765544432 12222 2335677787 589999988762
Q ss_pred CCCCHHHHHHHHHhhcCCcccchHHHHHhhhhccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 200 LPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 200 LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
.+...+...+.|+--+.+.++.+...+ ..++++ ...|.|=+|++-|.+++...++.++.
T Consensus 119 ----------~~~~~l~~~~~Dv~tl~~l~r~~~P~~-----~~~~~~--~~~HRal~D~~~s~~~~~~~~~~~~~ 177 (181)
T PRK05359 119 ----------ELEAYFHYRNLDVSTLKELARRWKPEI-----LNGFKK--QGTHRALADIRESIAELKYYREHFFK 177 (181)
T ss_pred ----------HhcccCCCcccchhHHHHHHHHhChhh-----hhCCCC--cCCcccHHHHHHHHHHHHHHHHHhcc
Confidence 122233122445432222222222221 124444 34699999999999999999998765
No 45
>cd06144 REX4_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins. This subfamily is composed of RNA exonuclease 4 (REX4 or Rex4p), XPMC2, Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20), and similar proteins. REX4 is involved in pre-rRNA processing. It controls the ratio between the two forms of 5.8S rRNA in yeast. XPMC2 is a Xenopus gene which was identified through its ability to correct a mitotic defect in fission yeast. The human homolog of XPMC2 (hPMC2) may be involved in angiotensin II-induced adrenal cell cycle progression and cell proliferation. ISG20 is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. These proteins are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clus
Probab=97.10 E-value=0.0017 Score=54.99 Aligned_cols=32 Identities=16% Similarity=0.223 Sum_probs=27.1
Q ss_pred chHHHHHHH-cCCCCCCCCCccchhhHHHHHHHH
Q 022773 234 GGLDRVART-LDVSRAVGKCHQAGSDSLLTWHAF 266 (292)
Q Consensus 234 ~~L~~la~~-L~v~r~~g~~HqAGsDS~lT~~~F 266 (292)
-+|+.|++. ||++. ....|.|.+||+.|+++|
T Consensus 119 ~sL~~l~~~~lgi~~-~~~~H~Al~DA~at~~l~ 151 (152)
T cd06144 119 PSLKKLAKQLLGLDI-QEGEHSSVEDARAAMRLY 151 (152)
T ss_pred hhHHHHHHHHcCccc-CCCCcCcHHHHHHHHHHh
Confidence 479999997 69876 346799999999999987
No 46
>cd06137 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX)-1,-3, and -4, ISG20, and similar proteins. This group is composed of eukaryotic exoribonucleases that include PAN2, RNA exonuclease 1 (REX1 or Rex1p), REX3 (Rex3p), REX4 (or Rex4p), ISG20, and similar proteins. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. REX proteins are required for the processing and maturation of many RNA species, and ISG20 is an interferon-induced antiviral exonuclease with a strong prefere
Probab=97.03 E-value=0.0042 Score=53.14 Aligned_cols=67 Identities=19% Similarity=0.179 Sum_probs=48.6
Q ss_pred eEEeeC-chhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhh-hc----cchHHHHHHH-cCCCCCC-C
Q 022773 179 WVTFHS-AYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SL----YGGLDRVART-LDVSRAV-G 250 (292)
Q Consensus 179 wv~fhg-~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l----~~~L~~la~~-L~v~r~~-g 250 (292)
.++.|+ .+|+.+|-. .. +.+.||-.|++... .. .-+|+.|++. +|++-.. .
T Consensus 86 vlVgHn~~fD~~fL~~--------------------~~-~~~iDT~~l~~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~~ 144 (161)
T cd06137 86 ILVGHSLQNDLDALRM--------------------IH-TRVVDTAILTREAVKGPLAKRQWSLRTLCRDFLGLKIQGGG 144 (161)
T ss_pred EEEeccHHHHHHHHhC--------------------cC-CCeeEehhhhhhccCCCcCCCCccHHHHHHHHCCchhcCCC
Confidence 345555 599988732 13 67889999988754 33 3579999986 6876422 4
Q ss_pred CCccchhhHHHHHHHH
Q 022773 251 KCHQAGSDSLLTWHAF 266 (292)
Q Consensus 251 ~~HqAGsDS~lT~~~F 266 (292)
..|.|-.||..|+++|
T Consensus 145 ~~H~A~~DA~at~~l~ 160 (161)
T cd06137 145 EGHDSLEDALAAREVV 160 (161)
T ss_pred CCCCcHHHHHHHHHHh
Confidence 6799999999999886
No 47
>cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins. This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of Escherichia coli RNase T.
Probab=96.43 E-value=0.023 Score=48.12 Aligned_cols=98 Identities=13% Similarity=0.079 Sum_probs=57.0
Q ss_pred cCCChhhhhhcCCChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHH
Q 022773 145 QGIDFERNRKEGVDSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKH 224 (292)
Q Consensus 145 ~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~ 224 (292)
+|+.=.++...+.+.....+.+.. ++ .++..+|.++-.+|+.+|-. .- +.++||-.
T Consensus 48 tGIt~~~l~~a~~~~~~v~~~~~~--fl-~~~~vlVgHn~~fD~~fL~~--------------------~~-~~~iDT~~ 103 (150)
T cd06145 48 SGITEEMLENVTTTLEDVQKKLLS--LI-SPDTILVGHSLENDLKALKL--------------------IH-PRVIDTAI 103 (150)
T ss_pred CCCCHHHhccCCCCHHHHHHHHHH--Hh-CCCCEEEEcChHHHHHHhhc--------------------cC-CCEEEcHH
Confidence 565555544443343333222221 11 11224455445599998732 12 66789988
Q ss_pred HHHhhhh-c-cchHHHHHHHc-CCCCC-CCCCccchhhHHHHHHHH
Q 022773 225 IMRFCQS-L-YGGLDRVARTL-DVSRA-VGKCHQAGSDSLLTWHAF 266 (292)
Q Consensus 225 la~~~~~-l-~~~L~~la~~L-~v~r~-~g~~HqAGsDS~lT~~~F 266 (292)
+++.... . .-+|+.|++.+ +..-. .+..|.|-+|++.|+..|
T Consensus 104 l~r~~~~~~~~~~L~~L~~~~~~~~i~~~~~~H~Al~DA~~t~~l~ 149 (150)
T cd06145 104 LFPHPRGPPYKPSLKNLAKKYLGRDIQQGEGGHDSVEDARAALELV 149 (150)
T ss_pred hccccCCCCCChhHHHHHHHHCCcceeCCCCCCCcHHHHHHHHHHh
Confidence 8765322 2 24799999876 43211 246799999999999876
No 48
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins. Oligoribonuclease (Orn) is a DEDDh-type DnaQ-like 3'-5' exoribonuclease that is responsible for degrading small oligoribonucleotides to mononucleotides. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Orn is essential for Escherichia coli survival. The human homolog, also called Sfn (small fragment nuclease), is able to hydrolyze short single-stranded RNA and DNA oligomers. It plays a role in cellular nucleotide recycling.
Probab=95.63 E-value=0.31 Score=42.15 Aligned_cols=165 Identities=18% Similarity=0.187 Sum_probs=88.8
Q ss_pred ceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeeeeecCCCCCCCCCCCCCCeeEEEEeeccc
Q 022773 48 FISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDF 127 (292)
Q Consensus 48 fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt~~~~~g~~p~~g~~~~~~~~w~FNF~~F 127 (292)
+|.+|+|-||+... .=.|||+|.-.++.+.. .....|+.. .
T Consensus 1 lv~iD~ETTGl~p~----------------------------~d~IieIgaV~~~~~~~----------~i~~~f~~~-i 41 (173)
T cd06135 1 LVWIDLEMTGLDPE----------------------------KDRILEIACIITDGDLN----------IIAEGPELV-I 41 (173)
T ss_pred CEEEEEecCCCCCC----------------------------CCeeEEEEEEEEeCCCc----------eecCceeEE-E
Confidence 57899999997521 11489999998865432 123345554 3
Q ss_pred CCCCCCC---ChhHHHHHHHcCCChhhhhhcCCChHHHHHHHHH--cCccccCCcceEEeeC-chhHHHHHHHhCCCCCC
Q 022773 128 DIATDAH---APDSIELLRLQGIDFERNRKEGVDSVRFAELMMS--SGLVCNESVSWVTFHS-AYDFGYLVKILTRRSLP 201 (292)
Q Consensus 128 ~~~~d~~---~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~--Sglv~~~~~~wv~fhg-~yD~~yL~k~l~~~~LP 201 (292)
++....- .+.+.+.-..+|+. +.....|.+.....+.+.. .+.+ ..+..+|+.|+ .+|+.||-+.+.
T Consensus 42 ~p~~~~~~~~~~~~~~ih~~tgIt-~~~l~~~~~~~~vl~~~~~f~~~~~-~~~~~~lvgh~~~FD~~fL~~~~~----- 114 (173)
T cd06135 42 HQPDEVLDGMDEWCTEMHTKSGLT-ERVRASTVTLAQAEAELLEFIKKYV-PKGKSPLAGNSVHQDRRFLDKYMP----- 114 (173)
T ss_pred CCCHHHhhhccHHHHHcccccccH-HHHHhCCCCHHHHHHHHHHHHHHhc-CCCCCceeecchhhCHHHHHHHHH-----
Confidence 3322111 11122211223554 3334556655543333321 0111 12335678888 799999988774
Q ss_pred CCHHHHHHHHHhhcCCcccchHHHHHhhhhccchHHHHHHHcCCCCCCCCCccchhhHHHHHHHHHHHHHH
Q 022773 202 SGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYGGLDRVARTLDVSRAVGKCHQAGSDSLLTWHAFQKIRDV 272 (292)
Q Consensus 202 ~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~~L~~la~~L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~ 272 (292)
.+ ...+.....|+..+.+..+.+...+.+ ++.+. +..|-|=+|+.-|+..+...++.
T Consensus 115 ----~~----~~~~~~~~~D~~~l~~l~~~l~p~~~~----~~~~~--~~~HrAl~Da~~~~~~~~~~~~~ 171 (173)
T cd06135 115 ----EL----EEYLHYRILDVSSIKELARRWYPEIYR----KAPKK--KGTHRALDDIRESIAELKYYREN 171 (173)
T ss_pred ----HH----hccCCcchhhHHHHHHHHHHhCcHhhh----cCCCC--CCCcchHHHHHHHHHHHHHHHHH
Confidence 11 122313456774433322233333322 34443 66799999999999998887654
No 49
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis]
Probab=94.44 E-value=0.22 Score=48.45 Aligned_cols=92 Identities=22% Similarity=0.380 Sum_probs=57.4
Q ss_pred ChHHHHHHHHHcCccccCCcceEEeeCc-hhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhh-hccch
Q 022773 158 DSVRFAELMMSSGLVCNESVSWVTFHSA-YDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SLYGG 235 (292)
Q Consensus 158 ~~~~f~e~l~~Sglv~~~~~~wv~fhg~-yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l~~~ 235 (292)
+...|.++|....++. +||.+ .|+..|.+.|- -+| +.+||||..++.|+ +.+-|
T Consensus 58 d~~~l~~Ll~d~~v~K-------IfHaa~~DL~~l~~~~g--~~p---------------~plfdTqiAa~l~g~~~~~g 113 (361)
T COG0349 58 DLPPLVALLADPNVVK-------IFHAARFDLEVLLNLFG--LLP---------------TPLFDTQIAAKLAGFGTSHG 113 (361)
T ss_pred ccchHHHHhcCCceee-------eeccccccHHHHHHhcC--CCC---------------CchhHHHHHHHHhCCccccc
Confidence 3345666665544442 67766 99998888873 222 34889999999997 33678
Q ss_pred HHHHHHH-cCCCCCCCCCcc----------------chhhHHHHHHHHHHHHHHhcC
Q 022773 236 LDRVART-LDVSRAVGKCHQ----------------AGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 236 L~~la~~-L~v~r~~g~~Hq----------------AGsDS~lT~~~F~~l~~~~~~ 275 (292)
|..+.+. +|+. +.+.|| |-+|...=...+-+|.+....
T Consensus 114 l~~Lv~~ll~v~--ldK~~q~SDW~~RPLs~~Ql~YAa~DV~yL~~l~~~L~~~L~~ 168 (361)
T COG0349 114 LADLVEELLGVE--LDKSEQRSDWLARPLSEAQLEYAAADVEYLLPLYDKLTEELAR 168 (361)
T ss_pred HHHHHHHHhCCc--ccccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8887654 4553 122222 555666666666676666544
No 50
>PRK10829 ribonuclease D; Provisional
Probab=93.42 E-value=1.2 Score=43.65 Aligned_cols=78 Identities=15% Similarity=0.244 Sum_probs=54.2
Q ss_pred EeeCc-hhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhh-hccchHHHHH-HHcCCCC----------
Q 022773 181 TFHSA-YDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SLYGGLDRVA-RTLDVSR---------- 247 (292)
Q Consensus 181 ~fhg~-yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l~~~L~~la-~~L~v~r---------- 247 (292)
+||++ +|+..|.+.+- . .- ..++||...+..++ +..-||..|. +.||+.-
T Consensus 78 V~H~~~~Dl~~l~~~~g-~---------------~p-~~~fDTqiaa~~lg~~~~~gl~~Lv~~~lgv~ldK~~~~sDW~ 140 (373)
T PRK10829 78 FLHAGSEDLEVFLNAFG-E---------------LP-QPLIDTQILAAFCGRPLSCGFASMVEEYTGVTLDKSESRTDWL 140 (373)
T ss_pred EEeChHhHHHHHHHHcC-C---------------Cc-CCeeeHHHHHHHcCCCccccHHHHHHHHhCCccCcccccCCCC
Confidence 46665 99998877652 1 11 35789999998886 3345888875 4567632
Q ss_pred --C--CCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 248 --A--VGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 248 --~--~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
+ ....+=|..|+.....+|-+|++.+-.
T Consensus 141 ~RPLs~~ql~YAa~Dv~~L~~l~~~L~~~L~~ 172 (373)
T PRK10829 141 ARPLSERQCEYAAADVFYLLPIAAKLMAETEA 172 (373)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 123455899999999999999887654
No 51
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins. The mut-7 subfamily is composed of Caenorhabditis elegans mut-7 and similar proteins found in plants and metazoans. Mut-7 is implicated in posttranscriptional gene silencing. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs, termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis.
Probab=93.06 E-value=2.6 Score=37.08 Aligned_cols=87 Identities=17% Similarity=0.199 Sum_probs=54.6
Q ss_pred cCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhh------------ccchHHHHHH
Q 022773 174 NESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQS------------LYGGLDRVAR 241 (292)
Q Consensus 174 ~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~------------l~~~L~~la~ 241 (292)
++++.=|.+....|+..|.+.+. . ++. . + ... .+++|+..++..+.. -.-||+.+++
T Consensus 80 d~~i~KVg~~~~~D~~~L~~~~~-~-~~~-~--~-----~~~-~~v~Dl~~~a~~l~~~~~~~~~~~~~~~~~sL~~l~~ 148 (193)
T cd06146 80 DPDVLKLGFGFKQDLKALSASYP-A-LKC-M--F-----ERV-QNVLDLQNLAKELQKSDMGRLKGNLPSKTKGLADLVQ 148 (193)
T ss_pred CCCeeEEEechHHHHHHHHHhcC-c-ccc-c--c-----ccC-CceEEHHHHHHHHhhccccccccccCcccCCHHHHHH
Confidence 44544454555599999988763 1 111 0 0 112 468899998887542 2358998876
Q ss_pred Hc-CCCC------------C--CCCCccchhhHHHHHHHHHHHHH
Q 022773 242 TL-DVSR------------A--VGKCHQAGSDSLLTWHAFQKIRD 271 (292)
Q Consensus 242 ~L-~v~r------------~--~g~~HqAGsDS~lT~~~F~~l~~ 271 (292)
.+ |++- + ....+-|..|++....+|-+|.+
T Consensus 149 ~~lg~~l~K~~q~SdW~~rpLs~~Qi~YAA~Da~~l~~l~~~L~~ 193 (193)
T cd06146 149 EVLGKPLDKSEQCSNWERRPLREEQILYAALDAYCLLEVFDKLLE 193 (193)
T ss_pred HHhCCCcCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 54 4321 0 12456699999999999999863
No 52
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins. WRN is a unique RecQ DNA helicase exhibiting an exonuclease activity. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Mutations in the WRN gene cause Werner syndrome, an autosomal recessive disorder associated with premature aging and increased susceptibility to cancer and type II diabetes. WRN interacts with key proteins involved in DNA replication, recombination, and repair. It is believed to maintain genomic stability and life span by participating in DNA processes. WRN is stimulated by Ku70/80, an important regulator of genomic stability.
Probab=92.60 E-value=3.1 Score=35.19 Aligned_cols=80 Identities=14% Similarity=0.151 Sum_probs=54.7
Q ss_pred cCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhhc--cchHHHHHHHc-CCCCC--
Q 022773 174 NESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSL--YGGLDRVARTL-DVSRA-- 248 (292)
Q Consensus 174 ~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l--~~~L~~la~~L-~v~r~-- 248 (292)
++++..|.+....|+..|.+.+- -. + .+++|+..++..+..- ..+|+.+++.+ |..-.
T Consensus 71 ~~~i~kv~~~~k~D~~~L~~~~g-~~---------------~-~~~~Dl~~aa~ll~~~~~~~~l~~l~~~~l~~~~~k~ 133 (170)
T cd06141 71 DPSILKVGVGIKGDARKLARDFG-IE---------------V-RGVVDLSHLAKRVGPRRKLVSLARLVEEVLGLPLSKP 133 (170)
T ss_pred CCCeeEEEeeeHHHHHHHHhHcC-CC---------------C-CCeeeHHHHHHHhCCCcCCccHHHHHHHHcCcccCCC
Confidence 34556666666688888765542 11 3 4567999998888643 35899988775 43210
Q ss_pred --------------CCCCccchhhHHHHHHHHHHHH
Q 022773 249 --------------VGKCHQAGSDSLLTWHAFQKIR 270 (292)
Q Consensus 249 --------------~g~~HqAGsDS~lT~~~F~~l~ 270 (292)
....|-|..|+++...++.+|+
T Consensus 134 k~~~~s~W~~rpLt~~qi~YAa~Da~~~~~l~~~l~ 169 (170)
T cd06141 134 KKVRCSNWEARPLSKEQILYAATDAYASLELYRKLL 169 (170)
T ss_pred CCcccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 1245779999999999998885
No 53
>PRK05755 DNA polymerase I; Provisional
Probab=91.04 E-value=3.3 Score=44.87 Aligned_cols=79 Identities=15% Similarity=0.141 Sum_probs=51.7
Q ss_pred EEeeC-chhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhh-hccchHHHHHHHc-CCCC---------
Q 022773 180 VTFHS-AYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SLYGGLDRVARTL-DVSR--------- 247 (292)
Q Consensus 180 v~fhg-~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l~~~L~~la~~L-~v~r--------- 247 (292)
+++|+ -+|+.+|.+. |.++| +.++||+.++..+. +..-+|+.+++.. |...
T Consensus 373 kV~HNakfDl~~L~~~--gi~~~---------------~~~~DT~iAa~Ll~~~~~~~L~~L~~~ylg~~~~~~~~~~gk 435 (880)
T PRK05755 373 KVGQNLKYDLHVLARY--GIELR---------------GIAFDTMLASYLLDPGRRHGLDSLAERYLGHKTISFEEVAGK 435 (880)
T ss_pred EEEeccHhHHHHHHhC--CCCcC---------------CCcccHHHHHHHcCCCCCCCHHHHHHHHhCCCccchHHhcCC
Confidence 34555 4999988752 44433 23568888777664 2225788877654 4431
Q ss_pred C--------CCCCccchhhHHHHHHHHHHHHHHhcC
Q 022773 248 A--------VGKCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 248 ~--------~g~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
. ....|-|..|+.+|..+|.+|+..+..
T Consensus 436 ~~~~~~~ple~~~~YAa~Dv~~~~~L~~~L~~~L~~ 471 (880)
T PRK05755 436 QLTFAQVDLEEAAEYAAEDADVTLRLHEVLKPKLLE 471 (880)
T ss_pred CCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 0 113467999999999999999987644
No 54
>TIGR01388 rnd ribonuclease D. This model describes ribonuclease D, a 3'-exonuclease shown to act on tRNA both in vitro and when overexpressed in vivo. Trusted members of this family are restricted to the Proteobacteria; Aquifex, Mycobacterial, and eukaryotic homologs are not full-length homologs. Ribonuclease D is not essential in E. coli and is deleterious when overexpressed. Its precise biological role is still unknown.
Probab=90.21 E-value=6.6 Score=38.21 Aligned_cols=85 Identities=19% Similarity=0.297 Sum_probs=52.0
Q ss_pred cCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhh-ccchHHHHHHH-cCCCCCCC-
Q 022773 174 NESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQS-LYGGLDRVART-LDVSRAVG- 250 (292)
Q Consensus 174 ~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~-l~~~L~~la~~-L~v~r~~g- 250 (292)
++++.+|.+...+|+..|.+... .+| ..++||...+..++. ...||+.+++. ||+.-.-+
T Consensus 68 d~~i~KV~h~~k~Dl~~L~~~~~--~~~---------------~~~fDtqlAa~lL~~~~~~~l~~Lv~~~Lg~~l~K~~ 130 (367)
T TIGR01388 68 DESVVKVLHAASEDLEVFLNLFG--ELP---------------QPLFDTQIAAAFCGFGMSMGYAKLVQEVLGVELDKSE 130 (367)
T ss_pred CCCceEEEeecHHHHHHHHHHhC--CCC---------------CCcccHHHHHHHhCCCCCccHHHHHHHHcCCCCCccc
Confidence 45667777666788887765432 222 246699888877752 23588887655 45532100
Q ss_pred -------------CCccchhhHHHHHHHHHHHHHHhcC
Q 022773 251 -------------KCHQAGSDSLLTWHAFQKIRDVYFV 275 (292)
Q Consensus 251 -------------~~HqAGsDS~lT~~~F~~l~~~~~~ 275 (292)
..+-|..|+......+-+|++.+-.
T Consensus 131 ~~sdW~~rPL~~~q~~YAa~Dv~~L~~L~~~L~~~L~~ 168 (367)
T TIGR01388 131 SRTDWLARPLTDAQLEYAAADVTYLLPLYAKLMERLEE 168 (367)
T ss_pred ccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1113677787777888888777643
No 55
>KOG4013 consensus Predicted Cu2+ homeostasis protein CutC [Inorganic ion transport and metabolism]
Probab=75.92 E-value=8.8 Score=34.64 Aligned_cols=88 Identities=25% Similarity=0.224 Sum_probs=56.1
Q ss_pred ChhHHHHHHHcC---CChhhhhhcCC-ChHHHHHHHHHcCccccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHH
Q 022773 135 APDSIELLRLQG---IDFERNRKEGV-DSVRFAELMMSSGLVCNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTV 210 (292)
Q Consensus 135 ~~~Si~fL~~~G---fDFnk~~~~GI-~~~~f~e~l~~Sglv~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~ 210 (292)
.-+-|++|+++| |=|..+-.+|- +...-...+..+ +-.+||||-++|++|=+|......| -.-.|.+.
T Consensus 83 ~~~Dv~llk~~GAdGfVFGaLt~dgsid~~~C~si~~~~------rplPVTFHRAfD~~~D~k~~lE~~l--~~lGF~rv 154 (255)
T KOG4013|consen 83 NMEDVELLKKAGADGFVFGALTSDGSIDRTSCQSIIETA------RPLPVTFHRAFDVAYDWKTCLEDAL--LDLGFKRV 154 (255)
T ss_pred HHHHHHHHHHcCCCceEEeecCCCCCcCHHHHHHHHHhc------CCCceeeeeehhhhcCHHHHHHHHH--HHhhHHHH
Confidence 556788898875 55888777773 333222333333 2357999999999986665431100 02579999
Q ss_pred HHhhcCCcccchHHHHHhhh
Q 022773 211 LRVFFGNNIYDVKHIMRFCQ 230 (292)
Q Consensus 211 l~~~F~P~iyDtK~la~~~~ 230 (292)
|..=|.|.-.|--|+..++.
T Consensus 155 LtSG~~psAldGv~~i~~li 174 (255)
T KOG4013|consen 155 LTSGQEPSALDGVYIIRELI 174 (255)
T ss_pred hhcCCCcccccchHHHHHHH
Confidence 99888887667666655543
No 56
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=74.87 E-value=4.8 Score=44.79 Aligned_cols=83 Identities=18% Similarity=0.202 Sum_probs=60.5
Q ss_pred EEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhh-hcc-chHHHHHHHcCCCCCCCCCccchh
Q 022773 180 VTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQ-SLY-GGLDRVARTLDVSRAVGKCHQAGS 257 (292)
Q Consensus 180 v~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~-~l~-~~L~~la~~L~v~r~~g~~HqAGs 257 (292)
|+++..+|++||-.-+.--.||+- -. | +.||=-||+.+. .++ -+|..|++.|++.- ...|-|-+
T Consensus 505 VAHNasFD~gFl~~~~~k~~~~~~----------~~-p-vIDTL~lar~L~P~~ksh~Lg~l~kk~~v~l--e~hHRA~y 570 (1444)
T COG2176 505 VAHNASFDMGFLNTNYEKYGLEPL----------TN-P-VIDTLELARALNPEFKSHRLGTLCKKLGVEL--ERHHRADY 570 (1444)
T ss_pred EeccCccchhHHHHHHHHhCCccc----------cC-c-hhhHHHHHHHhChhhhhcchHHHHHHhCccH--HHhhhhhh
Confidence 444444999998766541111110 01 3 559988988875 554 47999999999986 78899999
Q ss_pred hHHHHHHHHHHHHHHhcCC
Q 022773 258 DSLLTWHAFQKIRDVYFVH 276 (292)
Q Consensus 258 DS~lT~~~F~~l~~~~~~~ 276 (292)
||-.|+.+|+.|.+.+.+.
T Consensus 571 Daeat~~vf~~f~~~~ke~ 589 (1444)
T COG2176 571 DAEATAKVFFVFLKDLKEK 589 (1444)
T ss_pred hHHHHHHHHHHHHHHHHHh
Confidence 9999999999999887653
No 57
>cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins. Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20) is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. It was also independently identified by its response to estrogen and was called HEM45 (human estrogen regulated transcript). ISG20 is a DEDDh-type DnaQ-like 3'-5' exonuclease containing three conserved sequence motifs termed ExoI, ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ISG20 may be a major effector of innate immunity against pathogens including viruses, bacteria, and parasites. It is located in promyelocytic leukemia (PML) nuclear bodies, sites for oncogenic DNA viral transcription and repli
Probab=74.06 E-value=3.6 Score=34.97 Aligned_cols=32 Identities=22% Similarity=0.251 Sum_probs=26.7
Q ss_pred chHHHHHHHc---CCCCCCCCCccchhhHHHHHHHH
Q 022773 234 GGLDRVARTL---DVSRAVGKCHQAGSDSLLTWHAF 266 (292)
Q Consensus 234 ~~L~~la~~L---~v~r~~g~~HqAGsDS~lT~~~F 266 (292)
-+|+.|++.+ +++. .+..|.|-+||..|++.|
T Consensus 122 ~~L~~L~~~~~~~~i~~-~~~~H~Al~DA~at~~l~ 156 (157)
T cd06149 122 VSLKVLAKRLLHRDIQV-GRQGHSSVEDARATMELY 156 (157)
T ss_pred hhHHHHHHHHcChhhcC-CCCCcCcHHHHHHHHHHh
Confidence 4799999988 5665 466799999999999887
No 58
>PF13482 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A ....
Probab=72.48 E-value=1.7 Score=36.38 Aligned_cols=72 Identities=24% Similarity=0.321 Sum_probs=37.9
Q ss_pred cceEEeeCc-hhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhhccc-hHHHHHHHcCCCCCCCCCcc
Q 022773 177 VSWVTFHSA-YDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYG-GLDRVARTLDVSRAVGKCHQ 254 (292)
Q Consensus 177 ~~wv~fhg~-yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~-~L~~la~~L~v~r~~g~~Hq 254 (292)
-.+|+|||. ||+.+|-+.+..-.+|. - ....|+..+++.... .+ +|..||+.||..| . ....
T Consensus 58 ~~iv~yng~~FD~p~L~~~~~~~~~~~-----------~--~~~iDl~~~~~~~~~-~~~~Lk~ve~~lg~~~-~-~~~~ 121 (164)
T PF13482_consen 58 DNIVTYNGKNFDIPFLKRRAKRYGLPP-----------P--FNHIDLLKIIKKHFL-ESYSLKNVEKFLGIER-R-DDDI 121 (164)
T ss_dssp --EEESSTTTTHHHHHHHHH-HHHH-------------G--GGEEEHHHHHT-TTS-CCTT--SHHH-------------
T ss_pred CeEEEEeCcccCHHHHHHHHHHcCCCc-----------c--cchhhHHHHHHhccC-CCCCHHHHhhhccccc-c-cCCC
Confidence 468999984 99999999984223333 2 345699888765433 44 8999999999998 2 2234
Q ss_pred chhhHHHHHH
Q 022773 255 AGSDSLLTWH 264 (292)
Q Consensus 255 AGsDS~lT~~ 264 (292)
.|+++...-.
T Consensus 122 ~G~~~~~~~~ 131 (164)
T PF13482_consen 122 SGSESVKLYK 131 (164)
T ss_dssp HHHHHHHHHH
T ss_pred CHHHHHHHHH
Confidence 6777666543
No 59
>PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins.
Probab=68.16 E-value=16 Score=32.98 Aligned_cols=95 Identities=19% Similarity=0.213 Sum_probs=55.4
Q ss_pred cceEEeeCc-hhHHHHHH-Hh-CCCCCCCCHHHHH----HHHHhhcCCcccchHHHHHhhh-hccchHHHHHHHcCCCCC
Q 022773 177 VSWVTFHSA-YDFGYLVK-IL-TRRSLPSGLDEFL----TVLRVFFGNNIYDVKHIMRFCQ-SLYGGLDRVARTLDVSRA 248 (292)
Q Consensus 177 ~~wv~fhg~-yD~~yL~k-~l-~~~~LP~~~~~F~----~~l~~~F~P~iyDtK~la~~~~-~l~~~L~~la~~L~v~r~ 248 (292)
-++|+|+|. +|+-+|.. .+ .|-++|.-+..=- .-.+.|- -.-.|+.=+...-+ .-+.+|..||..||+|--
T Consensus 53 p~LVs~NG~~FDlP~L~~Ral~~gi~~p~~~~~~~k~WenY~~Ry~-~~H~DLmd~l~~~g~~~~~sLd~la~~lgiPgK 131 (209)
T PF10108_consen 53 PQLVSFNGRGFDLPVLCRRALIHGISAPRYLDIGNKPWENYRNRYS-ERHLDLMDLLSFYGAKARTSLDELAALLGIPGK 131 (209)
T ss_pred CeEEecCCccCCHHHHHHHHHHhCCCCchhhhcCCCCccccccccC-cccccHHHHHhccCccccCCHHHHHHHcCCCCC
Confidence 367888874 99999754 33 3577776443211 0111111 12345553332221 235689999999999741
Q ss_pred CC-----------------CCccchhhHHHHHHHHHHHHHH
Q 022773 249 VG-----------------KCHQAGSDSLLTWHAFQKIRDV 272 (292)
Q Consensus 249 ~g-----------------~~HqAGsDS~lT~~~F~~l~~~ 272 (292)
.+ ...-.-.|.+.|.++|.|+...
T Consensus 132 ~~idGs~V~~~y~~g~i~~I~~YCe~DVl~T~~lylR~~~~ 172 (209)
T PF10108_consen 132 DDIDGSQVAELYQEGDIDEIREYCEKDVLNTYLLYLRFELL 172 (209)
T ss_pred CCCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 00 1112234899999999998765
No 60
>PF01612 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR002562 This domain is responsible for the 3'-5' exonuclease proofreading activity of Escherichia coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli polI it is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D) [].; GO: 0003676 nucleic acid binding, 0008408 3'-5' exonuclease activity, 0006139 nucleobase-containing compound metabolic process, 0005622 intracellular; PDB: 2HBK_A 2HBJ_A 2HBM_A 2HBL_A 2FC0_A 2FBY_A 2FBX_A 2FBT_A 2FBV_A 1YT3_A ....
Probab=66.47 E-value=15 Score=30.50 Aligned_cols=83 Identities=13% Similarity=0.304 Sum_probs=51.0
Q ss_pred ccCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhhcc--chHHHHHHHc-C-CCC-
Q 022773 173 CNESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLY--GGLDRVARTL-D-VSR- 247 (292)
Q Consensus 173 ~~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~--~~L~~la~~L-~-v~r- 247 (292)
.+++++.|.++..+|+..|.+.+. ... ++++|| .++..+-+.. -||+.++..+ | ...
T Consensus 74 ~~~~i~kv~~n~~~D~~~L~~~~~----------------i~~-~~~~D~-~l~~~~l~~~~~~~L~~L~~~~l~~~~~~ 135 (176)
T PF01612_consen 74 EDPNIIKVGHNAKFDLKWLYRSFG----------------IDL-KNVFDT-MLAAYLLDPTRSYSLKDLAEEYLGNIDLD 135 (176)
T ss_dssp TTTTSEEEESSHHHHHHHHHHHHT----------------S---SSEEEH-HHHHHHTTTSTTSSHHHHHHHHHSEEE-G
T ss_pred hCCCccEEEEEEechHHHHHHHhc----------------ccc-CCccch-hhhhhcccccccccHHHHHHHHhhhccCc
Confidence 356666666555699998888732 222 567899 4544443322 5888886544 5 211
Q ss_pred ---CCCC-----------CccchhhHHHHHHHHHHHHHHh
Q 022773 248 ---AVGK-----------CHQAGSDSLLTWHAFQKIRDVY 273 (292)
Q Consensus 248 ---~~g~-----------~HqAGsDS~lT~~~F~~l~~~~ 273 (292)
..+. ..=|+.|+..|.+.|-+|..++
T Consensus 136 ~~~~~~~~~~~~~l~~~~~~YAa~D~~~~~~l~~~l~~~l 175 (176)
T PF01612_consen 136 KKEQMSDWRKARPLSEEQIEYAAQDAVVTFRLYEKLKPQL 175 (176)
T ss_dssp HCCTTSSTTTSSS-HHHHHHHHHHHHHTHHHHHHHHHHHH
T ss_pred HHHhhccCCcCCCChHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 0111 2338889999999999998764
No 61
>PF01612 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR002562 This domain is responsible for the 3'-5' exonuclease proofreading activity of Escherichia coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli polI it is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D) [].; GO: 0003676 nucleic acid binding, 0008408 3'-5' exonuclease activity, 0006139 nucleobase-containing compound metabolic process, 0005622 intracellular; PDB: 2HBK_A 2HBJ_A 2HBM_A 2HBL_A 2FC0_A 2FBY_A 2FBX_A 2FBT_A 2FBV_A 1YT3_A ....
Probab=62.92 E-value=6.1 Score=32.81 Aligned_cols=28 Identities=29% Similarity=0.324 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhhcCCceecccccccccc
Q 022773 33 ESEFELISQVIDRYPFISMDTEFPGLVY 60 (292)
Q Consensus 33 ~eel~~I~~~i~~~~fIAiDtEF~G~~~ 60 (292)
++++..+.+.+.+++.||+|+|.+|...
T Consensus 7 ~~~l~~~~~~l~~~~~~a~D~E~~~~~~ 34 (176)
T PF01612_consen 7 EEELEEAIKKLKNAKVLAFDTETTGLDP 34 (176)
T ss_dssp HHHHHHHHHHHTTTSEEEEEEEEETSTS
T ss_pred HHHHHHHHHHHcCCCeEEEEEEECCCCc
Confidence 4677888888899999999999988753
No 62
>cd06129 RNaseD_like DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins. The RNase D-like group is composed of RNase D, WRN, and similar proteins. They contain a DEDDy-type, DnaQ-like, 3'-5' exonuclease domain that contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase D is involved in the 3'-end processing of tRNA precursors. RNase D-like proteins in eukaryotes include yeast Rrp6p, human PM/Scl-100 and Drosophila melanogaster egalitarian (Egl) protein. WRN is a unique DNA helicase possessing exonuclease activity. Mutation in the WRN gene is implicated in Werner syndrome, a disease associated with premature aging and increased predisposition to cancer. Yeast Rrp6p and the human Polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100) are exosome-
Probab=56.63 E-value=23 Score=29.78 Aligned_cols=81 Identities=14% Similarity=0.096 Sum_probs=53.4
Q ss_pred cCCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhh-ccchHHHHHHH-cCCCC----
Q 022773 174 NESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQS-LYGGLDRVART-LDVSR---- 247 (292)
Q Consensus 174 ~~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~-l~~~L~~la~~-L~v~r---- 247 (292)
++++..|.+....|+..|.+.+ |-+ + .+++||..++..++. ...||+.+++. ||++-
T Consensus 65 d~~i~Kvg~~~k~D~~~L~~~~-gi~---------------~-~~~~D~~~aa~ll~~~~~~~L~~l~~~~lg~~l~K~~ 127 (161)
T cd06129 65 NPSIVKALHGIEGDLWKLLRDF-GEK---------------L-QRLFDTTIAANLKGLPERWSLASLVEHFLGKTLDKSI 127 (161)
T ss_pred CCCEEEEEeccHHHHHHHHHHc-CCC---------------c-ccHhHHHHHHHHhCCCCCchHHHHHHHHhCCCCCccc
Confidence 4555666666668877776543 211 2 345699888877653 24589988876 46532
Q ss_pred --------C--CCCCccchhhHHHHHHHHHHHHH
Q 022773 248 --------A--VGKCHQAGSDSLLTWHAFQKIRD 271 (292)
Q Consensus 248 --------~--~g~~HqAGsDS~lT~~~F~~l~~ 271 (292)
+ ....+-|..|++....+|-+|++
T Consensus 128 ~~s~W~~rpLt~~qi~YAa~Da~~l~~l~~~l~~ 161 (161)
T cd06129 128 SCADWSYRPLTEDQKLYAAADVYALLIIYTKLRN 161 (161)
T ss_pred eeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 1 22456699999999999999863
No 63
>cd06139 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases. Escherichia coli-like Polymerase I (Pol I), a subgroup of family-A DNA polymerases, contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase domain. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The 3'-5' exonuclease domain of DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. E. coli DNA Pol I is involved in genome replication but is not the main replicating enzyme. It is also implicated in DNA repair.
Probab=53.65 E-value=29 Score=29.29 Aligned_cols=83 Identities=17% Similarity=0.166 Sum_probs=51.8
Q ss_pred CCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhh-c-cchHHHHHHHc-CCCC----
Q 022773 175 ESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQS-L-YGGLDRVARTL-DVSR---- 247 (292)
Q Consensus 175 ~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~-l-~~~L~~la~~L-~v~r---- 247 (292)
.+++.|+++..+|+.+|.+. |-++| +.++||..++..+.. . ..+|+.+++.+ +..-
T Consensus 66 ~~~~~v~hn~k~d~~~l~~~--gi~~~---------------~~~~Dt~l~a~ll~p~~~~~~l~~l~~~~l~~~~~~~~ 128 (193)
T cd06139 66 PSIKKVGQNLKFDLHVLANH--GIELR---------------GPAFDTMLASYLLNPGRRRHGLDDLAERYLGHKTISFE 128 (193)
T ss_pred CCCcEEeeccHHHHHHHHHC--CCCCC---------------CCcccHHHHHHHhCCCCCCCCHHHHHHHHhCCCCccHH
Confidence 34567777777999988653 22222 235688888877642 2 34777777653 3220
Q ss_pred -------------CC---CCCccchhhHHHHHHHHHHHHHHhc
Q 022773 248 -------------AV---GKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 248 -------------~~---g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
.. ...|-|..|+..+...+.+|...+-
T Consensus 129 ~~~~k~~~~~~~~~~~~~~~~~ya~~d~~~~~~l~~~l~~~l~ 171 (193)
T cd06139 129 DLVGKGKKQITFDQVPLEKAAEYAAEDADITLRLYELLKPKLK 171 (193)
T ss_pred HHcCCCcCcCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 00 0123478889999999999988763
No 64
>cd05782 DNA_polB_like1_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=47.21 E-value=19 Score=32.11 Aligned_cols=69 Identities=19% Similarity=0.232 Sum_probs=41.9
Q ss_pred ceEEeeC-chhHHHHHHH--hCCCCCCCCHHHHHHHH---HhhcCCcccchHHHHHhhhhc-cchHHHHHHHcCCCC
Q 022773 178 SWVTFHS-AYDFGYLVKI--LTRRSLPSGLDEFLTVL---RVFFGNNIYDVKHIMRFCQSL-YGGLDRVARTLDVSR 247 (292)
Q Consensus 178 ~wv~fhg-~yD~~yL~k~--l~~~~LP~~~~~F~~~l---~~~F~P~iyDtK~la~~~~~l-~~~L~~la~~L~v~r 247 (292)
.+|+|+| ++|+-||.+= ..|-++|.........- +.+-++ .+|+-.+.+....+ ..+|..+|+.||+++
T Consensus 95 ~lv~yNg~~FDlP~L~~Ra~~~gi~~p~~~~~~~~~~~y~~r~~~~-h~DL~~~~~~~~~~~~~~L~~va~~lG~~~ 170 (208)
T cd05782 95 RLVSFNGRGFDLPVLHLRALIHGVSAPAYFDLGNKDWNYRNRYSER-HLDLMDLLAFYGARARASLDLLAKLLGIPG 170 (208)
T ss_pred EEEecCCCcCCHHHHHHHHHHhCCCCccccCcccchhhccCcCCCC-cccHHHHHhccCccCCCCHHHHHHHhCCCC
Confidence 5788888 4999998774 33555565332221110 111112 66887776554332 457999999999965
No 65
>COG3359 Predicted exonuclease [DNA replication, recombination, and repair]
Probab=42.84 E-value=52 Score=30.80 Aligned_cols=76 Identities=22% Similarity=0.411 Sum_probs=51.4
Q ss_pred ceEEeeCc-hhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhh---ccchHHHHHHHcCCCCCCCCCc
Q 022773 178 SWVTFHSA-YDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQS---LYGGLDRVARTLDVSRAVGKCH 253 (292)
Q Consensus 178 ~wv~fhg~-yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~---l~~~L~~la~~L~v~r~~g~~H 253 (292)
.||+|+|. +|.-|+-++.. ..+|.+.+ | + =||.-|-++.+.. ..++|..|-+.||+.|....
T Consensus 158 ~lvsfNGkaFD~PfikR~v~-~~~el~l~---------~-~-H~DL~h~~RRlwk~~l~~c~Lk~VEr~LGi~R~edt-- 223 (278)
T COG3359 158 MLVSFNGKAFDIPFIKRMVR-DRLELSLE---------F-G-HFDLYHPSRRLWKHLLPRCGLKTVERILGIRREEDT-- 223 (278)
T ss_pred eEEEecCcccCcHHHHHHHh-cccccCcc---------c-c-chhhhhhhhhhhhccCCCCChhhHHHHhCccccccC--
Confidence 79999996 99999987443 44555443 1 2 3477776666531 25789999999999994222
Q ss_pred cchhhHHHHHHHHHH
Q 022773 254 QAGSDSLLTWHAFQK 268 (292)
Q Consensus 254 qAGsDS~lT~~~F~~ 268 (292)
-|+++...-.-|.+
T Consensus 224 -dG~~~p~lyr~~~~ 237 (278)
T COG3359 224 -DGYDGPELYRLYRR 237 (278)
T ss_pred -CCcchHHHHHHHHH
Confidence 47777766655554
No 66
>TIGR02841 spore_YyaC putative sporulation protein YyaC. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, also called YyaC, is a member of that panel and is otherwise uncharacterized. The second round of PSI-BLAST shows many similarities to the germination protease GPR, which is found in exactly the same set of organisms and has a known role in the sporulation/germination process.
Probab=40.19 E-value=23 Score=30.15 Aligned_cols=30 Identities=27% Similarity=0.342 Sum_probs=27.5
Q ss_pred EeCccCHHHHHHHHHHHhhcCCceeccccc
Q 022773 26 EVWASNLESEFELISQVIDRYPFISMDTEF 55 (292)
Q Consensus 26 eV~~~Nf~eel~~I~~~i~~~~fIAiDtEF 55 (292)
-|.+-|++|.+..|.+.-++.-.||||.-.
T Consensus 43 PVHA~NL~e~l~~I~~~~~~~~iIAIDAcL 72 (140)
T TIGR02841 43 PVHAKNLEEKLKIIKKKHPNPFIIAIDACL 72 (140)
T ss_pred CcccccHHHHHHHHHHhCCCCeEEEEECcc
Confidence 489999999999999999999999999765
No 67
>PF04405 ScdA_N: Domain of Unknown function (DUF542) ; InterPro: IPR007500 This is a domain of unknown function found at the N terminus of genes involved in cell wall development and nitrous oxide protection. ScdA is required for normal cell growth and development; mutants have an increased level of peptidoglycan cross-linking and aberrant cellular morphology suggesting a role for ScdA in cell wall metabolism []. NorA1, NorA2, and YtfE are involved in the nitrous oxide response. NorA1 and NorA2, which are similar to YtfE, are co-transcribed with the membrane-bound nitrous oxide (NO) reductases. The genes appear to be involved in NO protection but their function is unknown [, ].
Probab=40.17 E-value=46 Score=23.68 Aligned_cols=32 Identities=31% Similarity=0.555 Sum_probs=24.2
Q ss_pred ChhHHHHHHHcCCCh---------hhhhhcCCChHHHHHHH
Q 022773 135 APDSIELLRLQGIDF---------ERNRKEGVDSVRFAELM 166 (292)
Q Consensus 135 ~~~Si~fL~~~GfDF---------nk~~~~GI~~~~f~e~l 166 (292)
.+.+.+.+.++|||| ......||++..+.+.|
T Consensus 12 ~p~~a~vf~~~gIDfCCgG~~~L~eA~~~~~ld~~~vl~~L 52 (56)
T PF04405_consen 12 DPRAARVFRKYGIDFCCGGNRSLEEACEEKGLDPEEVLEEL 52 (56)
T ss_pred ChHHHHHHHHcCCcccCCCCchHHHHHHHcCCCHHHHHHHH
Confidence 467888999999999 45566778877766555
No 68
>TIGR01229 rocF_arginase arginase. This model helps resolve arginases from known and putative agmatinases, formiminoglutamases, and other related proteins of unknown specifity. The pathway from arginine to the polyamine putrescine may procede by hydrolysis to remove urea (arginase) followed by decarboxylation (ornithine decarboxylase), or by decarboxylation first (arginine decarboxylase) followed by removal of urea (agmatinase).
Probab=34.06 E-value=92 Score=29.25 Aligned_cols=68 Identities=9% Similarity=-0.032 Sum_probs=45.3
Q ss_pred EeCccCHHHHHHHHHHHhhcCC---ceeccc------cccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceee
Q 022773 26 EVWASNLESEFELISQVIDRYP---FISMDT------EFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQV 96 (292)
Q Consensus 26 eV~~~Nf~eel~~I~~~i~~~~---fIAiDt------EF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQl 96 (292)
+|++...++.+..+.+.+...+ ||++|. .+||+.....+ --+..+--+.++.-....+++=+
T Consensus 196 ~i~~~g~~~v~~~~~~~l~~~~~~vyvS~DiDvlDps~aPgv~tp~pg---------Gl~~~e~~~~l~~i~~~~~v~g~ 266 (300)
T TIGR01229 196 EIDELGIGKVVEETLEYLKAEDGPIHLSLDVDGLDPSLAPATGTPVVG---------GLTFREGLLIMEMLYETGLLTAL 266 (300)
T ss_pred HHhhhhHHHHHHHHHHHHhcCCCeEEEEEeccccCcccCCCCCCCCCC---------CCCHHHHHHHHHHHHhcCCEEEE
Confidence 4455556666777778776544 999996 56777554333 34667777888877777777666
Q ss_pred eeeeec
Q 022773 97 GLTLSD 102 (292)
Q Consensus 97 GLt~~~ 102 (292)
.|+=++
T Consensus 267 DivE~~ 272 (300)
T TIGR01229 267 DVVEVN 272 (300)
T ss_pred EEEEEC
Confidence 666554
No 69
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=33.69 E-value=17 Score=34.10 Aligned_cols=54 Identities=17% Similarity=0.287 Sum_probs=38.7
Q ss_pred ccchHHHHHhhh----hccchHHHHHHH-cCCCCCCCCCccchhhHHHHHHHHHHHHHHh
Q 022773 219 IYDVKHIMRFCQ----SLYGGLDRVART-LDVSRAVGKCHQAGSDSLLTWHAFQKIRDVY 273 (292)
Q Consensus 219 iyDtK~la~~~~----~l~~~L~~la~~-L~v~r~~g~~HqAGsDS~lT~~~F~~l~~~~ 273 (292)
|.||-+.--.++ ...-||.+|++. ||..=+.|. |-.=-|+-.|++.|.+++...
T Consensus 208 iRDTs~~~pl~k~~~~~~tpSLK~Lt~~~Lg~~IQ~Ge-HsSvEDA~AtM~LY~~vk~qw 266 (280)
T KOG2249|consen 208 IRDTSKYPPLMKLLSKKATPSLKKLTEALLGKDIQVGE-HSSVEDARATMELYKRVKVQW 266 (280)
T ss_pred hcccccCchHHHHhhccCCccHHHHHHHHhchhhhccc-cCcHHHHHHHHHHHHHHHHHH
Confidence 778854333322 345689999864 566554566 999999999999999988764
No 70
>PRK13772 formimidoylglutamase; Provisional
Probab=33.35 E-value=1.2e+02 Score=28.73 Aligned_cols=70 Identities=10% Similarity=0.139 Sum_probs=46.7
Q ss_pred EEeCccCHHHHHHHHHHHhhcC--Cceecccc------ccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceee
Q 022773 25 REVWASNLESEFELISQVIDRY--PFISMDTE------FPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQV 96 (292)
Q Consensus 25 ~eV~~~Nf~eel~~I~~~i~~~--~fIAiDtE------F~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQl 96 (292)
.|++..++++.+..|.+.++.. -||++|.- .||+....++ --+..+-.+.++.-...-+++=+
T Consensus 217 ~e~~~~g~~~~~~~i~~~l~~~~~vylS~DiD~lDps~aPGvgtP~pg---------Glt~~e~~~il~~l~~~~~v~g~ 287 (314)
T PRK13772 217 VDMQERHLDARLAELDALLDAADHVYLTIDLDVLPAAVAPGVSAPAAY---------GVPLPVVEEIVLHVRASGKLRVA 287 (314)
T ss_pred hhhhhcCHHHHHHHHHHHHhcCCeEEEEEEecCcCcccCCCCCCCCCC---------CCCHHHHHHHHHHHHhcCCeeEE
Confidence 3556667777788888888644 48899864 6776554333 33678888888877666567666
Q ss_pred eeeeecC
Q 022773 97 GLTLSDS 103 (292)
Q Consensus 97 GLt~~~~ 103 (292)
.|+-++.
T Consensus 288 DvvEv~P 294 (314)
T PRK13772 288 DLAEYNP 294 (314)
T ss_pred EEEEECC
Confidence 6655543
No 71
>cd00007 35EXOc 3'-5' exonuclease. The 35EXOc domain is responsible for the 3'-5' exonuclease proofreading activity of prokaryotic DNA polymerase I (pol I) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli pol I. 35EXOc is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D).
Probab=32.49 E-value=1.8e+02 Score=22.93 Aligned_cols=52 Identities=19% Similarity=0.227 Sum_probs=30.2
Q ss_pred CCcceEEeeCchhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhh-c-cchHHHHHHHc
Q 022773 175 ESVSWVTFHSAYDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQS-L-YGGLDRVARTL 243 (292)
Q Consensus 175 ~~~~wv~fhg~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~-l-~~~L~~la~~L 243 (292)
++++-|+++..+|+..|.+.. .. +.+.++||..++..+.. . ..+|+.+++.+
T Consensus 53 ~~~~~v~~~~k~d~~~L~~~~--~~---------------~~~~~~D~~~~ayll~~~~~~~~l~~l~~~~ 106 (155)
T cd00007 53 EDITKVGHDAKFDLVVLARDG--IE---------------LPGNIFDTMLAAYLLNPGEGSHSLDDLAKEY 106 (155)
T ss_pred CCCcEEeccHHHHHHHHHHCC--CC---------------CCCCcccHHHHHHHhCCCCCcCCHHHHHHHH
Confidence 344455555557777665432 11 11346798888877652 2 34788887775
No 72
>PF07827 KNTase_C: KNTase C-terminal domain; InterPro: IPR012481 Kanamycin nucleotidyltransferase (KNTase) is involved in conferring resistance to aminoglycoside antibiotics and catalyses the transfer of a nucleoside monophosphate group from a nucleotide to kanamycin. This enzyme is dimeric with each subunit being composed of two domains. The C-terminal domain contains five alpha helices, four of which are organised into an up-and-down alpha helical bundle. Residues found in this domain may contribute to this enzyme's active site []. ; GO: 0016779 nucleotidyltransferase activity, 0046677 response to antibiotic; PDB: 1KNY_A.
Probab=32.46 E-value=40 Score=28.71 Aligned_cols=48 Identities=23% Similarity=0.396 Sum_probs=33.3
Q ss_pred CCCCCHHHHHHHHHhhcCCcccchHHHHHhhhhccchHHHHHHHcCCC
Q 022773 199 SLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYGGLDRVARTLDVS 246 (292)
Q Consensus 199 ~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~~L~~la~~L~v~ 246 (292)
.||+-...|.++++.+-.+.+=|.+.|.+.|..+-.||+..|+.+|+.
T Consensus 87 ~Lp~rP~Gyd~l~~lvm~G~L~d~~~i~~~cE~~W~Gl~~Wa~~hg~~ 134 (143)
T PF07827_consen 87 SLPSRPSGYDELAQLVMSGQLTDPEKIYESCEALWTGLVKWAAEHGYT 134 (143)
T ss_dssp TSSS--TTHHHHHHHHHHTB---HHHHHHHHHHHHHHHHHHHHHHT--
T ss_pred cCCCCCccHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHcCeE
Confidence 566666666666666554679999999999999999999999998864
No 73
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=31.31 E-value=17 Score=37.52 Aligned_cols=128 Identities=11% Similarity=-0.055 Sum_probs=78.4
Q ss_pred CcEEEEeCcc--CHHHHHHHHHHHhhcCCceeccccccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeee
Q 022773 21 SIIIREVWAS--NLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGL 98 (292)
Q Consensus 21 ~~~v~eV~~~--Nf~eel~~I~~~i~~~~fIAiDtEF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGL 98 (292)
.+++..+-++ |+...++.....+.+..+.+++.|+.++...+.- ....+..+++++.-.....++-+|+
T Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~dl~~~~i~~~~~p~r~l~~~~ 171 (564)
T KOG1990|consen 101 RSPVDFVARQQENQAGKWPSELEKEKNELLDSLGPELSDWGGSDRL---------SVDADLLPEKIPDYMRPFRTLPVGS 171 (564)
T ss_pred ecchhhhhhhchhhhhhhHHHHHHHHHHHhhccCcccccCCCCCCc---------cchhhhchhhhhcccChhccCCCCC
Confidence 3445555666 7888888888888899999999999998754321 3445777888888777777777776
Q ss_pred eeecCCCCCCCCCCCCCCeeEEE-EeecccCCCCCCCChhHHHHHHHcCCChhhhhhcCCChHH
Q 022773 99 TLSDSSGNLPDLGSGGNNKFIWE-FNFRDFDIATDAHAPDSIELLRLQGIDFERNRKEGVDSVR 161 (292)
Q Consensus 99 t~~~~~g~~p~~g~~~~~~~~w~-FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~ 161 (292)
.-.--.-+...... ..+.+.. |++. +...........+++..++.|++ ..+.+|+....
T Consensus 172 ~~~l~~~~~~~~r~--~~~~~p~~~~~~-~~~~~~~~~~~~~~~~~k~~~~k-~~~~rg~~~~~ 231 (564)
T KOG1990|consen 172 PPLLTSIESTLLRR--LGYKLPPHFALG-RSRKLQGLAVAMVSFWEKHEFAK-ILIKRGVLETR 231 (564)
T ss_pred hhhhhhHHHHHHHH--hcccccccceeh-hccccccchhHHHHHHHHHHHHH-HHHHhcchhhh
Confidence 54432111000000 0011221 2232 44444455667777777777777 66677776653
No 74
>KOG4233 consensus DNA-bridging protein BAF [Chromatin structure and dynamics; Replication, recombination and repair]
Probab=30.15 E-value=69 Score=24.75 Aligned_cols=41 Identities=22% Similarity=0.363 Sum_probs=30.6
Q ss_pred cCCcceEEeeC----------chhHHHHH-HHhCCCCCCCCHHHHHHHHHhhcC
Q 022773 174 NESVSWVTFHS----------AYDFGYLV-KILTRRSLPSGLDEFLTVLRVFFG 216 (292)
Q Consensus 174 ~~~~~wv~fhg----------~yD~~yL~-k~l~~~~LP~~~~~F~~~l~~~F~ 216 (292)
+++|+||+.-| |+|-+|.+ -.+ --|-.+.+.|.++++..+|
T Consensus 18 eK~V~~laGIg~~lg~~L~~~GfdkAYvllGQf--LllkKdE~lF~~Wlk~~~g 69 (90)
T KOG4233|consen 18 EKDVTWLAGIGETLGIKLVDAGFDKAYVLLGQF--LLLKKDEDLFQEWLKETCG 69 (90)
T ss_pred CCcceeeccccHHhhhhHHhccccHHHHHHHHH--HHhcccHHHHHHHHHHHcC
Confidence 56899998554 68889843 332 2467889999999999994
No 75
>PF12345 DUF3641: Protein of unknown function (DUF3641) ; InterPro: IPR024521 This domain is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. It is found in association with an N-terminal radical_SAM domain (Pfam:PF04055 from PFAM).
Probab=28.25 E-value=57 Score=27.54 Aligned_cols=32 Identities=25% Similarity=0.272 Sum_probs=26.3
Q ss_pred HHHHcCCChhhhhh-cCCChHHHHHHHHHcCcc
Q 022773 141 LLRLQGIDFERNRK-EGVDSVRFAELMMSSGLV 172 (292)
Q Consensus 141 fL~~~GfDFnk~~~-~GI~~~~f~e~l~~Sglv 172 (292)
+..++||.||.++. .-+|..+|++.|.++|..
T Consensus 16 L~~~~GI~Fn~L~titNmPI~RF~~~L~~~g~~ 48 (134)
T PF12345_consen 16 LKERFGIVFNNLFTITNMPIGRFGSFLERSGNL 48 (134)
T ss_pred HHHhcCceecchhhhhcCcHHHHHHHHHHccCH
Confidence 44578999999987 458999999999988764
No 76
>PF13637 Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A 3B7B_A 3F6Q_A 2KBX_A 3IXE_A 2DWZ_C 2DVW_A 3AJI_A 1S70_B 2HE0_A ....
Probab=27.50 E-value=56 Score=21.91 Aligned_cols=29 Identities=21% Similarity=0.436 Sum_probs=21.3
Q ss_pred ChhHHHHHHHcCCChhhhhhcCCChHHHH
Q 022773 135 APDSIELLRLQGIDFERNRKEGVDSVRFA 163 (292)
Q Consensus 135 ~~~Si~fL~~~GfDFnk~~~~GI~~~~f~ 163 (292)
+.+.+++|.++|.|.|..-++|-.+...|
T Consensus 13 ~~~~~~~Ll~~~~din~~d~~g~t~lh~A 41 (54)
T PF13637_consen 13 NLEIVKLLLEHGADINAQDEDGRTPLHYA 41 (54)
T ss_dssp -HHHHHHHHHTTSGTT-B-TTS--HHHHH
T ss_pred CHHHHHHHHHCCCCCCCCCCCCCCHHHHH
Confidence 56789999999999999999999887765
No 77
>PF13606 Ank_3: Ankyrin repeat
Probab=26.64 E-value=51 Score=19.93 Aligned_cols=17 Identities=18% Similarity=0.264 Sum_probs=14.7
Q ss_pred ChhHHHHHHHcCCChhh
Q 022773 135 APDSIELLRLQGIDFER 151 (292)
Q Consensus 135 ~~~Si~fL~~~GfDFnk 151 (292)
+.+-+++|.++|.|.|+
T Consensus 14 ~~e~v~~Ll~~gadvn~ 30 (30)
T PF13606_consen 14 NIEIVKYLLEHGADVNA 30 (30)
T ss_pred CHHHHHHHHHcCCCCCC
Confidence 67889999999999874
No 78
>PF06866 DUF1256: Protein of unknown function (DUF1256); InterPro: IPR009665 This family consists of several uncharacterised bacterial proteins, which seem to be specific to the orders Clostridia and Bacillales. Family members are typically around 180 residues in length. The function of this family is unknown.
Probab=25.42 E-value=51 Score=28.73 Aligned_cols=30 Identities=27% Similarity=0.238 Sum_probs=27.6
Q ss_pred EeCccCHHHHHHHHHHHhhcCCceeccccc
Q 022773 26 EVWASNLESEFELISQVIDRYPFISMDTEF 55 (292)
Q Consensus 26 eV~~~Nf~eel~~I~~~i~~~~fIAiDtEF 55 (292)
-|.+-|++|.+..|.+.-++.-.||||.-+
T Consensus 67 PVHA~NL~e~l~~I~~~~~~~~IIAIDAcL 96 (163)
T PF06866_consen 67 PVHALNLEETLNEIKKKHPNPFIIAIDACL 96 (163)
T ss_pred CcchhhHHHHHHHHHHHCCCCeEEEEECCC
Confidence 489999999999999999999999999866
No 79
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=25.07 E-value=49 Score=26.20 Aligned_cols=16 Identities=25% Similarity=0.436 Sum_probs=13.0
Q ss_pred HHHHHhCCCCCCCCHH
Q 022773 190 YLVKILTRRSLPSGLD 205 (292)
Q Consensus 190 yL~k~l~~~~LP~~~~ 205 (292)
-+++-+||+|||.+..
T Consensus 61 AFLHA~TGQPLP~D~D 76 (105)
T PRK05264 61 AFLHAFTGQPLPDDED 76 (105)
T ss_pred HHHHHHcCCCCCChhh
Confidence 4678899999999853
No 80
>PRK02190 agmatinase; Provisional
Probab=24.19 E-value=1.6e+02 Score=27.55 Aligned_cols=66 Identities=17% Similarity=0.283 Sum_probs=42.1
Q ss_pred eCccCHHHHHHHHHHHhhcCC-ceeccc------cccccccCCCCCCCCCCCCCCCCchHHHHHHHhhhccccceeeeee
Q 022773 27 VWASNLESEFELISQVIDRYP-FISMDT------EFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLKSNVDALNLIQVGLT 99 (292)
Q Consensus 27 V~~~Nf~eel~~I~~~i~~~~-fIAiDt------EF~G~~~~~~~~~~~~~~~~~~t~e~rY~~lk~nvd~~~iiQlGLt 99 (292)
|++...++.+..+.+.+...+ ||++|. ..||+.....+ .-+..+-...++. +...+++=+.|+
T Consensus 199 ~~~~g~~~~~~~~~~~l~~~~vyiSiDiDvlDps~aPg~~~p~pg---------Gl~~~e~~~il~~-i~~~~vvg~Div 268 (301)
T PRK02190 199 VNDRGVDAIIAQIKQIVGDMPVYLTFDIDCLDPAFAPGTGTPVIG---------GLTSAQALKILRG-LKGLNIVGMDVV 268 (301)
T ss_pred hhccCHHHHHHHHHHHhCCCEEEEEEeecccCcccCCCCCCCCCC---------CcCHHHHHHHHHH-HhcCCeEEEEee
Confidence 445566677778888776554 999997 56666544333 3366777778876 444566666666
Q ss_pred eec
Q 022773 100 LSD 102 (292)
Q Consensus 100 ~~~ 102 (292)
-++
T Consensus 269 E~~ 271 (301)
T PRK02190 269 EVA 271 (301)
T ss_pred eec
Confidence 554
No 81
>PF00550 PP-binding: Phosphopantetheine attachment site; InterPro: IPR006163 Phosphopantetheine (or pantetheine 4' phosphate) is the prosthetic group of acyl carrier proteins (ACP) in some multienzyme complexes where it serves as a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups []. The amino-terminal region of the ACP proteins is well defined and consists of alpha four helices arranged in a right-handed bundle held together by interhelical hydrophobic interactions. The Asp-Ser-Leu (DSL)motif is conserved in all of the ACP sequences, and the 4'-PP prosthetic group is covalently linked via a phosphodiester bond to the serine residue. The DSL sequence is present at the amino terminus of helix II, a domain of the protein referred to as the recognition helix and which is responsible for the interaction of ACPs with the enzymes of type II fatty acid synthesis [].; GO: 0048037 cofactor binding; PDB: 3EJB_E 3EJE_G 1L0I_A 2FHS_C 3EJD_E 2FAE_B 2FAD_B 2FAC_B 2K94_A 1ACP_A ....
Probab=23.87 E-value=1.6e+02 Score=20.31 Aligned_cols=38 Identities=18% Similarity=0.210 Sum_probs=28.0
Q ss_pred HHHHHHcCCCC----CCCCCccchhhHHHHHHHHHHHHHHhc
Q 022773 237 DRVARTLDVSR----AVGKCHQAGSDSLLTWHAFQKIRDVYF 274 (292)
Q Consensus 237 ~~la~~L~v~r----~~g~~HqAGsDS~lT~~~F~~l~~~~~ 274 (292)
+-+++.++++. +.....+.|-||+...+.-..+++.|.
T Consensus 5 ~~~~~~l~~~~~~i~~~~~~~~lG~DSl~~~~l~~~l~~~~g 46 (67)
T PF00550_consen 5 EIIAEVLGVDPEEIDPDTDFFDLGLDSLDAIELVSELEEEFG 46 (67)
T ss_dssp HHHHHHHTSSGGCTSTTSBTTTTTSSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHCcCHhhCCCCCCHHHhCCchHHHHHHHHHHHHHHc
Confidence 34566777543 134456799999999999999998873
No 82
>cd00490 Met_repressor_MetJ Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ forms sufficiently strong interactions with the sugar-phosphate backbone to accomodate sequence variation in natural operators. However, it is very sensitive to particular base changes in the operator. MetJ exists as a homodimer.
Probab=23.70 E-value=53 Score=25.82 Aligned_cols=16 Identities=25% Similarity=0.470 Sum_probs=13.0
Q ss_pred HHHHHhCCCCCCCCHH
Q 022773 190 YLVKILTRRSLPSGLD 205 (292)
Q Consensus 190 yL~k~l~~~~LP~~~~ 205 (292)
-+++-+||+|||.+..
T Consensus 60 AFLHAfTGQPLP~D~D 75 (103)
T cd00490 60 AFLHAFTGQPLPDDAD 75 (103)
T ss_pred HHHHHhcCCCCCChhh
Confidence 4678899999999753
No 83
>KOG0638 consensus 4-hydroxyphenylpyruvate dioxygenase [Amino acid transport and metabolism]
Probab=22.60 E-value=25 Score=34.02 Aligned_cols=73 Identities=23% Similarity=0.303 Sum_probs=46.6
Q ss_pred hhHHHHHHHcCCChhhhhhcCCC---hHHHHHHHHHcCccccCCcceEE-eeCchh---HHHHHHHhCCCCCCCCHHHHH
Q 022773 136 PDSIELLRLQGIDFERNRKEGVD---SVRFAELMMSSGLVCNESVSWVT-FHSAYD---FGYLVKILTRRSLPSGLDEFL 208 (292)
Q Consensus 136 ~~Si~fL~~~GfDFnk~~~~GI~---~~~f~e~l~~Sglv~~~~~~wv~-fhg~yD---~~yL~k~l~~~~LP~~~~~F~ 208 (292)
-++++-|+..|++|- -|| |.+..|.+..|-++..++++-+. .+=..| =+||+++|| +||-+.-.=|+
T Consensus 274 i~Ai~~lr~rG~eFL-----s~Ps~YYqnl~erl~~~~~~vked~~~l~el~ILvD~De~gyLLQIFT-KplqdrpTlFl 347 (381)
T KOG0638|consen 274 IEAIRGLRARGGEFL-----SPPSTYYQNLKERLSTSIRKVKEDIKLLEELGILVDFDENGYLLQIFT-KPLQDRPTLFL 347 (381)
T ss_pred HHHHHHHHhcCCccc-----cCCHHHHHhHHHHhhhhhhhhhccHHHHHHcCeEEecCCCcEEeeeec-cccCCCchHHH
Confidence 367888999999996 244 33456666554443332222111 011122 379999999 99999999999
Q ss_pred HHHHhh
Q 022773 209 TVLRVF 214 (292)
Q Consensus 209 ~~l~~~ 214 (292)
+.++..
T Consensus 348 EiIQR~ 353 (381)
T KOG0638|consen 348 EIIQRQ 353 (381)
T ss_pred HHHHHh
Confidence 998865
No 84
>PRK08446 coproporphyrinogen III oxidase; Provisional
Probab=22.57 E-value=1.5e+02 Score=28.30 Aligned_cols=30 Identities=10% Similarity=-0.058 Sum_probs=22.8
Q ss_pred ChhHHHHHHHcCCC-hhhhhhcCCChHHHHH
Q 022773 135 APDSIELLRLQGID-FERNRKEGVDSVRFAE 164 (292)
Q Consensus 135 ~~~Si~fL~~~GfD-Fnk~~~~GI~~~~f~e 164 (292)
..++++.+++.||+ .+--.--|+|..+..+
T Consensus 136 ~~~ai~~lr~~g~~~v~iDli~GlPgqt~~~ 166 (350)
T PRK08446 136 IIKAIENAKKAGFENISIDLIYDTPLDNKKL 166 (350)
T ss_pred HHHHHHHHHHcCCCEEEEEeecCCCCCCHHH
Confidence 45689999999996 6767778888865443
No 85
>PF13857 Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A 3EHR_B 3EHQ_A.
Probab=21.49 E-value=87 Score=21.41 Aligned_cols=28 Identities=21% Similarity=0.431 Sum_probs=17.3
Q ss_pred ChhHHHHHHHcCCChhhhhhcCCChHHH
Q 022773 135 APDSIELLRLQGIDFERNRKEGVDSVRF 162 (292)
Q Consensus 135 ~~~Si~fL~~~GfDFnk~~~~GI~~~~f 162 (292)
..+.+++|.++|.|.+..-.+|-.+...
T Consensus 28 ~~~~v~~Ll~~g~d~~~~d~~G~Tpl~~ 55 (56)
T PF13857_consen 28 HSEVVRLLLQNGADPNAKDKDGQTPLHY 55 (56)
T ss_dssp -HHHHHHHHHCT--TT---TTS--HHHH
T ss_pred cHHHHHHHHHCcCCCCCCcCCCCCHHHh
Confidence 6789999999999999999999877654
No 86
>COG5606 Uncharacterized conserved small protein [Function unknown]
Probab=21.46 E-value=1e+02 Score=24.28 Aligned_cols=31 Identities=29% Similarity=0.334 Sum_probs=25.9
Q ss_pred HHHHHHcCCCCC------CCCCccchhhHHHHHHHHH
Q 022773 237 DRVARTLDVSRA------VGKCHQAGSDSLLTWHAFQ 267 (292)
Q Consensus 237 ~~la~~L~v~r~------~g~~HqAGsDS~lT~~~F~ 267 (292)
.++|+.|||+|+ .|+.|-++-|.++|+.+..
T Consensus 45 ~qiae~lgV~qprvS~l~~gk~~~fs~dkLvtml~~~ 81 (91)
T COG5606 45 AQIAELLGVTQPRVSDLARGKIQDFSIDKLVTMLARA 81 (91)
T ss_pred HHHHHHhCCCCchHHHHHhcchhHhhHHHHHHHHHHc
Confidence 478999999994 5889999999999987643
No 87
>PF11959 DUF3473: Domain of unknown function (DUF3473); InterPro: IPR022560 This domain, found in bacteria and archaea, is functionally uncharacterised. It is about 130 amino acids in length and is found C-terminal to PF01522 from PFAM. It contains two completely conserved residues (P and H) that may be functionally important.
Probab=20.79 E-value=1.5e+02 Score=24.61 Aligned_cols=33 Identities=15% Similarity=0.215 Sum_probs=27.7
Q ss_pred CcEEEEeCccCHHHHHHHHHHHhhcCCceeccc
Q 022773 21 SIIIREVWASNLESEFELISQVIDRYPFISMDT 53 (292)
Q Consensus 21 ~~~v~eV~~~Nf~eel~~I~~~i~~~~fIAiDt 53 (292)
+...+=.+..|++....+|..+|+++.|..|+-
T Consensus 96 ~~~~rf~~y~~l~~~~~rl~~Ll~~f~f~t~~~ 128 (133)
T PF11959_consen 96 PLKSRFRHYNNLDRMEKRLDRLLSDFRFGTMRE 128 (133)
T ss_pred CcceeEEEEcCHHHHHHHHHHHHhhCceEEHHH
Confidence 334456788999999999999999999998873
No 88
>PF07176 DUF1400: Alpha/beta hydrolase of unknown function (DUF1400); InterPro: IPR010802 This domain is specific to cyanobacterial proteins, its function and the function of the proteins it is associated with, are uncharacterised.
Probab=20.18 E-value=3.7e+02 Score=22.08 Aligned_cols=66 Identities=15% Similarity=0.287 Sum_probs=45.1
Q ss_pred hhHHHHHHHhCCCCCCCCHHHHHHHHHhhcCCcccchHHHHHhhhhccc--hHHHHHHHcCCCCCCCCCccchhhHHHHH
Q 022773 186 YDFGYLVKILTRRSLPSGLDEFLTVLRVFFGNNIYDVKHIMRFCQSLYG--GLDRVARTLDVSRAVGKCHQAGSDSLLTW 263 (292)
Q Consensus 186 yD~~yL~k~l~~~~LP~~~~~F~~~l~~~F~P~iyDtK~la~~~~~l~~--~L~~la~~L~v~r~~g~~HqAGsDS~lT~ 263 (292)
-+|+.+++++. |++.+++.+.|+.-+ -.|...+.+.+....| -|+++++.+..+. -++|..++-++
T Consensus 32 ~~L~~~~~ll~----~~~~~~lr~~L~~~~---~~~~~~~~~lL~S~~G~~lL~~lg~vi~~~~-----~~~g~~ALr~A 99 (127)
T PF07176_consen 32 PELAFYLNLLS----PQQRQQLRELLNTPI---PIDPVFLSQLLNSPIGERLLDQLGKVIRTPS-----GSNGQQALRSA 99 (127)
T ss_pred HHHHHHHHhcC----HhhHHHHHHHHcCCC---CCCHHHHHHHhCChHHHHHHHHHHHHhcCCC-----CcccHHHHHHH
Confidence 36777888886 677888888888744 4477777777654433 3888888887665 23566555554
No 89
>PRK14345 lipoate-protein ligase B; Provisional
Probab=20.17 E-value=98 Score=28.45 Aligned_cols=40 Identities=18% Similarity=0.240 Sum_probs=26.5
Q ss_pred CCcEEEEeCccCHHHHHHHHHHHhhc-----CCceeccccccccc
Q 022773 20 NSIIIREVWASNLESEFELISQVIDR-----YPFISMDTEFPGLV 59 (292)
Q Consensus 20 ~~~~v~eV~~~Nf~eel~~I~~~i~~-----~~fIAiDtEF~G~~ 59 (292)
....+++--.-.+.+.+...+++.++ .+=.-+=+|+|-+.
T Consensus 10 ~~~~~~~lG~~~Y~~~~~~Q~~l~~~~~~~~~~d~llllEH~pVy 54 (234)
T PRK14345 10 MPIEVRRLGLVDYQEAWDLQRELADARVAGEGPDTLLLLEHPAVY 54 (234)
T ss_pred CceEEEECCCcCHHHHHHHHHHHHHHHhcCCCCCEEEEEcCCCCc
Confidence 34678888888999999888877652 12223346666654
Done!