Query 020620
Match_columns 323
No_of_seqs 188 out of 1282
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 03:50:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020620.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020620hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5260 TRF4 DNA polymerase si 100.0 9.6E-48 2.1E-52 360.5 22.6 264 4-310 54-321 (482)
2 KOG1906 DNA polymerase sigma [ 100.0 5.1E-40 1.1E-44 315.5 21.3 257 4-310 60-320 (514)
3 KOG2277 S-M checkpoint control 100.0 6.8E-32 1.5E-36 272.2 18.8 301 6-320 113-417 (596)
4 PTZ00418 Poly(A) polymerase; P 100.0 6.4E-27 1.4E-31 227.9 24.5 245 7-315 70-370 (593)
5 cd05402 NT_PAP_TUTase Nucleoti 99.9 3.5E-25 7.6E-30 176.4 14.3 114 27-149 1-114 (114)
6 KOG2245 Poly(A) polymerase and 99.9 3.5E-22 7.5E-27 187.9 22.5 244 6-314 32-326 (562)
7 TIGR03671 cca_archaeal CCA-add 99.8 4E-17 8.7E-22 154.1 22.2 169 11-191 2-187 (408)
8 PRK13300 tRNA CCA-pyrophosphor 99.8 7.2E-17 1.6E-21 154.6 24.1 169 11-191 3-189 (447)
9 COG5186 PAP1 Poly(A) polymeras 99.8 2E-17 4.3E-22 150.4 18.0 244 6-313 24-317 (552)
10 COG1746 CCA1 tRNA nucleotidylt 99.6 1.9E-14 4.2E-19 134.3 20.4 172 6-191 2-191 (443)
11 PF04928 PAP_central: Poly(A) 99.6 1.5E-15 3.3E-20 136.2 10.4 190 7-315 22-221 (254)
12 PF03828 PAP_assoc: Cid1 famil 99.3 7.1E-13 1.5E-17 93.0 2.7 55 249-306 1-60 (60)
13 cd05400 NT_2-5OAS_ClassI-CCAas 98.3 1.4E-05 3E-10 65.8 11.1 80 46-131 26-106 (143)
14 cd05397 NT_Pol-beta-like Nucle 98.2 3.3E-06 7.2E-11 56.4 5.4 41 30-72 2-42 (49)
15 PF01909 NTP_transf_2: Nucleot 98.1 2.8E-06 6.1E-11 64.4 2.9 43 32-76 1-43 (93)
16 PF09249 tRNA_NucTransf2: tRNA 98.0 8.2E-06 1.8E-10 63.4 4.2 33 159-191 3-37 (114)
17 smart00572 DZF domain in DSRM 98.0 0.00012 2.6E-09 65.1 11.8 180 49-315 4-213 (246)
18 cd05403 NT_KNTase_like Nucleot 97.7 5.2E-05 1.1E-09 57.0 4.8 45 31-76 3-47 (93)
19 PF10421 OAS1_C: 2'-5'-oligoad 97.6 0.00013 2.8E-09 62.4 6.2 56 140-195 28-85 (190)
20 PF03813 Nrap: Nrap protein; 97.6 0.0047 1E-07 66.2 18.6 214 55-314 1-280 (972)
21 COG1669 Predicted nucleotidylt 97.1 0.004 8.6E-08 47.4 8.2 45 30-76 9-53 (97)
22 COG1708 Predicted nucleotidylt 96.8 0.0075 1.6E-07 47.8 8.2 30 45-74 24-53 (128)
23 PRK13746 aminoglycoside resist 96.6 0.0085 1.8E-07 54.4 8.1 42 33-76 14-57 (262)
24 PF14091 DUF4269: Domain of un 96.3 0.086 1.9E-06 43.6 11.2 114 47-172 15-142 (152)
25 PF07528 DZF: DZF domain; Int 95.9 0.15 3.3E-06 45.9 12.1 125 53-190 2-161 (248)
26 PF03813 Nrap: Nrap protein; 95.2 2.9 6.3E-05 45.2 20.6 171 20-195 496-721 (972)
27 PF14792 DNA_pol_B_palm: DNA p 94.6 0.085 1.8E-06 41.6 5.4 71 28-105 7-77 (112)
28 PRK02098 phosphoribosyl-dephos 94.4 0.2 4.3E-06 44.3 7.9 41 31-75 108-154 (221)
29 TIGR03135 malonate_mdcG holo-A 94.3 0.12 2.6E-06 45.1 6.2 40 32-75 97-142 (202)
30 KOG3793 Transcription factor N 92.8 6.3 0.00014 35.6 14.4 177 5-195 39-242 (362)
31 KOG2054 Nucleolar RNA-associat 92.5 8.2 0.00018 41.2 16.8 160 27-197 645-859 (1121)
32 cd00141 NT_POLXc Nucleotidyltr 90.9 5 0.00011 37.4 12.5 123 29-172 144-270 (307)
33 PF10620 MdcG: Phosphoribosyl- 88.1 2.6 5.6E-05 37.1 7.9 41 31-75 104-150 (213)
34 COG2413 Predicted nucleotidylt 87.3 1.1 2.4E-05 38.7 4.7 45 26-75 21-65 (228)
35 PRK01293 phosphoribosyl-dephos 85.0 4.1 8.9E-05 35.7 7.3 40 32-75 98-143 (207)
36 KOG2534 DNA polymerase IV (fam 84.9 5.8 0.00013 36.8 8.4 63 30-102 156-218 (353)
37 PF10127 Nuc-transf: Predicted 84.5 1 2.2E-05 40.4 3.5 46 28-74 2-47 (247)
38 cd05401 NT_GlnE_GlnD_like Nucl 83.7 20 0.00044 29.9 11.0 30 47-76 55-84 (172)
39 PF03445 DUF294: Putative nucl 80.6 27 0.00058 28.3 10.2 29 47-75 49-77 (138)
40 PHA02996 poly(A) polymerase la 79.6 16 0.00034 35.0 9.3 115 6-138 124-247 (467)
41 PHA02603 nrdC.11 hypothetical 78.3 1.2 2.7E-05 41.6 1.7 24 50-73 6-29 (330)
42 PRK00227 glnD PII uridylyl-tra 76.5 12 0.00027 38.8 8.5 49 26-75 6-55 (693)
43 COG3541 Predicted nucleotidylt 76.3 1.4 3E-05 39.3 1.4 21 53-73 16-36 (248)
44 PF09970 DUF2204: Nucleotidyl 75.7 12 0.00026 32.0 7.0 91 35-141 5-99 (181)
45 PRK08609 hypothetical protein; 69.8 50 0.0011 33.6 10.9 43 30-75 160-202 (570)
46 KOG2054 Nucleolar RNA-associat 68.0 20 0.00043 38.4 7.6 148 46-194 146-348 (1121)
47 PRK03333 coaE dephospho-CoA ki 66.7 1.3E+02 0.0027 29.1 12.9 153 5-170 180-362 (395)
48 PRK05007 PII uridylyl-transfer 64.8 43 0.00092 36.1 9.7 30 46-75 79-108 (884)
49 PF04229 GrpB: GrpB protein; 64.5 33 0.0007 28.8 7.2 105 47-167 32-142 (167)
50 COG1665 Predicted nucleotidylt 62.2 9.7 0.00021 34.6 3.6 30 45-74 119-148 (315)
51 COG2844 GlnD UTP:GlnB (protein 59.0 56 0.0012 34.5 8.8 30 47-76 66-95 (867)
52 smart00483 POLXc DNA polymeras 58.7 27 0.00058 33.0 6.2 45 29-76 148-192 (334)
53 PRK01759 glnD PII uridylyl-tra 58.4 56 0.0012 35.0 9.2 29 47-75 56-84 (854)
54 PRK04374 PII uridylyl-transfer 54.8 68 0.0015 34.5 9.1 29 47-75 72-100 (869)
55 PF03296 Pox_polyA_pol: Poxvir 54.6 1.1E+02 0.0024 25.0 8.0 108 9-135 10-127 (149)
56 COG1796 POL4 DNA polymerase IV 52.4 2E+02 0.0044 26.9 12.4 122 30-177 165-286 (326)
57 PRK00275 glnD PII uridylyl-tra 47.9 1.3E+02 0.0028 32.6 9.9 30 47-76 78-107 (895)
58 TIGR01693 UTase_glnD [Protein- 46.4 1.5E+02 0.0033 31.7 10.2 30 46-75 42-71 (850)
59 PRK03059 PII uridylyl-transfer 42.5 71 0.0015 34.2 7.0 29 47-75 61-89 (856)
60 PF12633 Adenyl_cycl_N: Adenyl 39.5 78 0.0017 27.7 5.5 27 49-75 99-125 (204)
61 PF11774 Lsr2: Lsr2 ; InterPr 39.2 44 0.00095 26.1 3.6 65 116-182 20-102 (110)
62 PF03710 GlnE: Glutamate-ammon 34.6 1.1E+02 0.0024 27.4 6.0 52 47-99 127-178 (247)
63 PRK03381 PII uridylyl-transfer 33.4 94 0.002 32.9 6.1 29 47-75 57-85 (774)
64 cd05398 NT_ClassII-CCAase Nucl 32.3 2.7E+02 0.0058 22.4 8.3 81 35-135 4-86 (139)
65 PF07796 DUF1638: Protein of u 28.4 1.1E+02 0.0023 25.6 4.5 40 33-72 16-58 (166)
66 cd02068 radical_SAM_B12_BD B12 27.6 2E+02 0.0043 22.4 5.9 54 33-100 56-112 (127)
67 PF03281 Mab-21: Mab-21 protei 27.1 3.2E+02 0.007 24.7 7.9 61 125-195 170-230 (292)
68 PHA03301 envelope glycoprotein 22.7 1E+02 0.0022 26.5 3.3 42 1-42 96-138 (226)
69 PF14907 NTP_transf_5: Unchara 22.7 4.7E+02 0.01 22.7 7.9 81 34-135 59-145 (249)
70 PRK14109 bifunctional glutamin 22.2 1.8E+02 0.0039 31.9 5.9 28 48-75 724-751 (1007)
71 KOG2670 Enolase [Carbohydrate 22.1 81 0.0018 29.6 2.8 9 296-304 292-300 (433)
72 PRK00286 xseA exodeoxyribonucl 20.9 88 0.0019 30.5 3.0 46 30-77 147-203 (438)
No 1
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.6e-48 Score=360.45 Aligned_cols=264 Identities=25% Similarity=0.347 Sum_probs=220.4
Q ss_pred ccchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccc
Q 020620 4 YNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAG 83 (323)
Q Consensus 4 ~~~L~~~i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~ 83 (323)
.++|+.+|.+|+.++.|+.+|.++|.++++.|+.++++. ||++.+.+|||+.+|+++|.||+|+||..++..+
T Consensus 54 ~~~lt~el~~~y~~I~ps~eEl~~R~~~leklr~~lk~~--~pda~l~vFGS~~t~L~l~~SDiDl~I~s~~~~~----- 126 (482)
T COG5260 54 SDELTSELLEFYDYIAPSDEELKRRKALLEKLRTLLKKE--FPDADLKVFGSTETGLALPKSDIDLCIISDPRGY----- 126 (482)
T ss_pred HHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHh--CCccceeEecccccccccCcccccEEEecCCccc-----
Confidence 458999999999999999999999999999999999997 7999999999999999999999999999865332
Q ss_pred hhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHH
Q 020620 84 KKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVK 163 (323)
Q Consensus 84 ~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK 163 (323)
+... ... .++..+.....+.+++++.+|||||||+.+..+|+.|||++|+..|+.++++++.|...+|++|||+++||
T Consensus 127 ~et~-~~~-~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~akl~~~~~~~~P~lrpLvliIK 204 (482)
T COG5260 127 KETR-NAG-SLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLIRSYLKEDPRLRPLVLIIK 204 (482)
T ss_pred cccc-cHH-HHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCchhHHHHHHHHHHHHhcCcccchHHHHHH
Confidence 1112 222 45556666678888999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhhcccccccccccC
Q 020620 164 EWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYR 243 (323)
Q Consensus 164 ~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 243 (323)
||+++|.|++++.|||+||++++||+.|||++.| .+.++...-. ....
T Consensus 205 hwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~--~~~~~~~~~~------------------------------~l~~ 252 (482)
T COG5260 205 HWLKRRALNDVATGTLSSYTISCMVLSFLQMHPP--FLFFDNGLLS------------------------------PLKY 252 (482)
T ss_pred HHHHHHhhcccccCcchhhhhHHHHHHHHHhCCc--cccccccccc------------------------------hhhc
Confidence 9999999999999999999999999999999943 1121111000 0112
Q ss_pred CCCcccHHHHHHHHHHhhhcCcccccccccccccC-ceeeccccCCCCC-CC-CCeEEeCCC-cCCCCccc
Q 020620 244 KINRSSLAHLFVSFLEKFSGLSLKASELGICPFTG-QWEHIRSNTRWLP-NN-HPLFVNSPF-PFRLLLIF 310 (323)
Q Consensus 244 ~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~~g-~~~~~~~~~~~~~-~~-~~l~IeDPf-d~~~Nv~~ 310 (323)
..|..++|.||.+||+||+. +|.+...++++..| ...++.+ .+|.. .+ ..||||||+ +.++++++
T Consensus 253 ~~~~~~lgvLf~dFf~~yG~-~f~Y~~~~~si~~g~~~~~K~e-~g~~~~~~p~~LsiqdP~td~n~~~~a 321 (482)
T COG5260 253 NKNIDNLGVLFDDFFELYGK-SFNYSLVVLSINSGDFYLPKYE-KGWLKPSKPNSLSIQDPGTDRNNDISA 321 (482)
T ss_pred cccccccchHHHHHHHHhcc-ccChhheEEEecCCceeeehhh-cccccccCCCcEeecCCCCCccccccc
Confidence 34668999999999999985 78778899999988 3334333 66643 22 789999999 88888887
No 2
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=100.00 E-value=5.1e-40 Score=315.51 Aligned_cols=257 Identities=25% Similarity=0.299 Sum_probs=207.9
Q ss_pred ccchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccc
Q 020620 4 YNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAG 83 (323)
Q Consensus 4 ~~~L~~~i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~ 83 (323)
...|++||.+|++++.||.+|.+.|..+++.++.++.+. ||++.+++|||+.||+.+|+||||+++..+....
T Consensus 60 s~~l~~eI~~fv~~l~pt~~e~~~R~~~~~~i~~~v~~~--~~~a~v~~FGS~~tglyLP~sDIDl~v~~~~~~~----- 132 (514)
T KOG1906|consen 60 SERLRNEILDFVQYLIPTPEEIEVRSELVEKIRDVVKQK--WPDASVYVFGSVPTGLYLPDSDIDLVVLSKFLND----- 132 (514)
T ss_pred HHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHh--cccceeEEeeeeeccccccccceEEEEecccccC-----
Confidence 467999999999999999999999999999999999986 7999999999999999999999999999874321
Q ss_pred hhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHH
Q 020620 84 KKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVK 163 (323)
Q Consensus 84 ~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK 163 (323)
+ +.......++..++.......+.++..|||||+||++..+++.+|||||+..|++.+++++.+.+.+|.+++|++++|
T Consensus 133 ~-e~~~~~~~l~~~~e~~~~~~~v~~v~karvpiik~~d~~s~i~vDISFn~~~G~~aa~~i~~~~~~~p~~~~lvlvlk 211 (514)
T KOG1906|consen 133 K-EDRAVKLELALELEEDNSAFHVKVVQKARVPIIKFKDPVSNIHVDISFNQTNGVKAAKFIKDFLRDHPFLRSLVLVLK 211 (514)
T ss_pred c-hhhHHHHHHHHhhhhccccceEEEeeeeeeeeEEeecCccceEEEeeecccCchhHHHHHHHHHhcCccchhHHHHHH
Confidence 1 222233334444443445567888999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhhcccccccccccC
Q 020620 164 EWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYR 243 (323)
Q Consensus 164 ~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 243 (323)
+|+..++++++++||++||++++|+++|+|++. .. ..+ +
T Consensus 212 ~fl~~r~ln~v~tGgisSyal~~Lv~~fl~l~~--~~------~s~---------------~------------------ 250 (514)
T KOG1906|consen 212 QFLYERRLNGVHTGGISSYALELLVLSFLQLHP--RS------KSG---------------R------------------ 250 (514)
T ss_pred HHHHhhcccccccccchHHHHHHHHHHHHhhcc--cc------cCC---------------c------------------
Confidence 999999999999999999999999999999982 10 000 0
Q ss_pred CCCcccHHHHHHHHHHhhhcCcccccccccccccCceeeccccCCCC----CCCCCeEEeCCCcCCCCccc
Q 020620 244 KINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWL----PNNHPLFVNSPFPFRLLLIF 310 (323)
Q Consensus 244 ~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~~g~~~~~~~~~~~~----~~~~~l~IeDPfd~~~Nv~~ 310 (323)
..-...++-|+++||++|| +.|.+.+.+|++-.|+.....+...|. ....-++||||-++.+|+||
T Consensus 251 ~~~~~~~~vll~~f~e~yG-~~f~~~k~~i~~~~~g~~~~~~~~~~~~~~~~~~~~LsieDP~~P~ndigr 320 (514)
T KOG1906|consen 251 LAVLKNLGVLLIKFFELYG-RNFGYDKLGISLSLGGEYVSKELTGFFNNSLERPGSLSIEDPVDPTNDIGR 320 (514)
T ss_pred cchhcccchHHHHHHHHhc-cccCchhhceeccCCcccccHHhhhhhcccccCCCccccCCCCCccccccc
Confidence 0011245699999999999 355556788876654433222222222 23467999999999999998
No 3
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.98 E-value=6.8e-32 Score=272.20 Aligned_cols=301 Identities=28% Similarity=0.413 Sum_probs=232.1
Q ss_pred chHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchh
Q 020620 6 VLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKK 85 (323)
Q Consensus 6 ~L~~~i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~ 85 (323)
.|+..+...++...+.......|......++.++....+.....+..|||...|++...+|+|+++...... .+..+.
T Consensus 113 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~--~~~~~~ 190 (596)
T KOG2277|consen 113 FLDPQLNELLESFKLPHSDVKTRKLILDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSF--LSFEKI 190 (596)
T ss_pred hhchhhhhhhhccCCCccccchHHHHHHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeecccccc--cccchh
Confidence 477788888888899899999999999999999988643223345699999999999999999777665431 111233
Q ss_pred hHHHHHHHHHHHHHhcCC--cceEEEeccCCcceEEEEEcCCCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHH
Q 020620 86 VKQSLLGDLLRALRQKGG--YRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVK 163 (323)
Q Consensus 86 ~~~~~l~~l~~~L~~~~~--~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK 163 (323)
.....+..+++++..... +..++.+..|||||||+.|...+++||++++|..|++||.|++.|..+|+|+++|++++|
T Consensus 191 ~~~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~~~~nS~ll~~~~~~d~r~~~L~~~vk 270 (596)
T KOG2277|consen 191 KGLEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSDAILNSQLLRNYSEIDPRVRPLVLLVK 270 (596)
T ss_pred hhHHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccchhhhhhHHHHHhHhcCCCcchHhHHHH
Confidence 344566777777776432 677888899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCCCCCCCCCC-hHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhhccccccccccc
Q 020620 164 EWAKAHDINNPKTGTFN-SYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKY 242 (323)
Q Consensus 164 ~w~k~~~l~~~~~G~ls-sy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 242 (323)
+||+.++++++..|+++ +|++++|++||||+..|+++|.+..+++.....+...+. ... .+ .....+...+.
T Consensus 271 ~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~~~~~----~~~--~~-~~~~~~~~~~~ 343 (596)
T KOG2277|consen 271 HWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDKPVVK----KKV--LC-SFLRVFQRNPS 343 (596)
T ss_pred HHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcccccccchh----hhh--hh-ccccccccccc
Confidence 99999999999999998 699999999999999999999999997654322211111 000 00 00001122224
Q ss_pred CCCCcccHHHHHHHHHHhhh-cCcccccccccccccCceeeccccCCCCCCCCCeEEeCCCcCCCCcccccCcceeecc
Q 020620 243 RKINRSSLAHLFVSFLEKFS-GLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTL 320 (323)
Q Consensus 243 ~~~n~~sl~~Ll~~Ff~~Y~-~fdf~~~~~~I~~~~g~~~~~~~~~~~~~~~~~l~IeDPfd~~~Nv~~~~~~~~~~~~ 320 (323)
...|..+++.|+.+||.||+ .|||. ..+|+++.|.....+ ...| ..+.++|+|||+..+|++...+...+..+
T Consensus 344 ~~~~~~~l~~l~~~f~~yy~~~Fdf~--~~~I~~r~~~~l~~~-~~~~--~~~~l~i~dp~~~~~n~~~~~~~~~~~~i 417 (596)
T KOG2277|consen 344 NSQNTGSLGELLLGFFSYYASLFDFR--KNAISIRRGRALKRA-KKIK--SKKFLCIEDPFEVSHNADAGVTLKVLLLI 417 (596)
T ss_pred cccccchHHHHHHHHHHHHhhhcccc--cceeeeeeccccccc-chhh--hccceeeccccccccCccccchHHHHHHH
Confidence 56788899999999999999 68885 678888877655322 1111 35889999999999999998876655443
No 4
>PTZ00418 Poly(A) polymerase; Provisional
Probab=99.96 E-value=6.4e-27 Score=227.90 Aligned_cols=245 Identities=21% Similarity=0.266 Sum_probs=196.3
Q ss_pred hHHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhhc--------------cCCCCEEEeecCccCCCCCCCCCcceE
Q 020620 7 LEPILKDILGM--LNPLREDWETRMKVISDLREVVESVE--------------SLRGATVEPFGSFVSNLFSRWGDLDIS 70 (323)
Q Consensus 7 L~~~i~~~~~~--~~pt~~e~~~R~~~~~~l~~~l~~~~--------------~~~~~~v~~fGS~~tgl~~~~SDiDl~ 70 (323)
++.+|.++++. +-|++||.++|++++..|++++++.. ...+++|.+|||+..|++.|+||||.+
T Consensus 70 ~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I~tfGSYrLGV~~pgSDID~L 149 (593)
T PTZ00418 70 LSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKLFTFGSYRLGVVAPGSDIDTL 149 (593)
T ss_pred hhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEEEEeccccccCCCCCCcccEE
Confidence 45666666664 67999999999999999999997621 124689999999999999999999999
Q ss_pred EecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEEeec---------------C
Q 020620 71 IELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISID---------------N 135 (323)
Q Consensus 71 i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~---------------n 135 (323)
++.|... ...+++..+.+.|++.+.++++..|..|+||||||.. .||+||+.|. +
T Consensus 150 ~V~P~~v--------tredFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~~--~GI~iDL~fa~l~~~~vp~~~~~l~d 219 (593)
T PTZ00418 150 CLAPRHI--------TRESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVY--DGIDIDLLFANLPLPTIPDCLNSLDD 219 (593)
T ss_pred EECCCCC--------CHHHHHHHHHHHHhcCCCcceeeccCccccCeEEEEE--CCEEEeeeecccCCCCCCccccccCc
Confidence 9998532 2456889999999999999999999999999999998 7999999874 1
Q ss_pred --------------chhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCC
Q 020620 136 --------------LCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILP 201 (323)
Q Consensus 136 --------------~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP 201 (323)
.+|++.++.|....-..+.||.++++||.|||+|||+.+..|+||+-+|++||...+|..+
T Consensus 220 ~~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAILvARVCQLyP----- 294 (593)
T PTZ00418 220 DYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAILTARICQLYP----- 294 (593)
T ss_pred hhhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHHhCC-----
Confidence 1567777777777666778999999999999999999999999999999999999998851
Q ss_pred chhhhcCCCCCCcccccccchhhhhHhhhhcccccccccccCCCCcccHHHHHHHHHHhhhcCccccccccccccc----
Q 020620 202 PLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFT---- 277 (323)
Q Consensus 202 ~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~~---- 277 (323)
+.+.+.|+..||+.|++++|.. -+.++.-.
T Consensus 295 ---------------------------------------------na~~s~Lv~~FF~iys~W~Wp~-PV~L~~i~~~~~ 328 (593)
T PTZ00418 295 ---------------------------------------------NFAPSQLIHKFFRVYSIWNWKN-PVLLCKIKEVPN 328 (593)
T ss_pred ---------------------------------------------CCCHHHHHHHHHHHhhcCCCCC-CeEccccccccc
Confidence 1255799999999999988864 22333211
Q ss_pred -CceeeccccCCCCCC------CCCeEEeCCCcCCCCcccccCcc
Q 020620 278 -GQWEHIRSNTRWLPN------NHPLFVNSPFPFRLLLIFCLPLT 315 (323)
Q Consensus 278 -g~~~~~~~~~~~~~~------~~~l~IeDPfd~~~Nv~~~~~~~ 315 (323)
++.. .-..|.|. ...|-|--|.-+..|.++.++.-
T Consensus 329 ~~g~~---~~~VWdPr~~~~dr~h~MPIITPayP~mNst~nVt~s 370 (593)
T PTZ00418 329 IPGLM---NFKVWDPRVNPQDRAHLMPIITPAFPSMNSTHNVTYT 370 (593)
T ss_pred CCccc---CCcccCCCCCcccccccCCeecCCCCCccccccccHH
Confidence 1111 01235442 35699999999999999988744
No 5
>cd05402 NT_PAP_TUTase Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases. Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxyla
Probab=99.93 E-value=3.5e-25 Score=176.36 Aligned_cols=114 Identities=31% Similarity=0.467 Sum_probs=104.1
Q ss_pred HHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcce
Q 020620 27 TRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRR 106 (323)
Q Consensus 27 ~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~ 106 (323)
.|++++++|++++++. +|++++++|||+++|+++++||||+++..+.. +....+++..+++.|++.+.+.+
T Consensus 1 ~r~~i~~~l~~~i~~~--~~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~-------~~~~~~~l~~l~~~l~~~~~~~~ 71 (114)
T cd05402 1 KREEVLDRLQELIKEW--FPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNH-------RVDREDFLRKLAKLLKKSGEVVE 71 (114)
T ss_pred CHHHHHHHHHHHHHHH--CCCCEEEEecccccCCCCCCCCeeEEEEeCCC-------CccHHHHHHHHHHHHHhCCCcee
Confidence 3889999999999996 78999999999999999999999999998853 12356789999999999888888
Q ss_pred EEEeccCCcceEEEEEcCCCeeEEEeecCchhhhhhHHHHHHh
Q 020620 107 LQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWIS 149 (323)
Q Consensus 107 v~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~~s~li~~~~ 149 (323)
+..|.+|||||||+.+..+|+.||||++|.+|+.||+++++|+
T Consensus 72 ~~~i~~ArVPiik~~~~~~~i~~Dis~~~~~g~~~s~li~~y~ 114 (114)
T cd05402 72 VEPIINARVPIIKFVDKPTGIEVDISFNNLNGIRNTKLLRAYV 114 (114)
T ss_pred eEEeccCCCCEEEEEEcCCCeEEEEEcccchHHHHHHHHHHhC
Confidence 9999999999999999989999999999999999999999884
No 6
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=99.90 E-value=3.5e-22 Score=187.90 Aligned_cols=244 Identities=20% Similarity=0.278 Sum_probs=183.5
Q ss_pred chHHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhhc--------------cCCCCEEEeecCccCCCCCCCCCcce
Q 020620 6 VLEPILKDILGM--LNPLREDWETRMKVISDLREVVESVE--------------SLRGATVEPFGSFVSNLFSRWGDLDI 69 (323)
Q Consensus 6 ~L~~~i~~~~~~--~~pt~~e~~~R~~~~~~l~~~l~~~~--------------~~~~~~v~~fGS~~tgl~~~~SDiDl 69 (323)
.|+.+|.+.++. +-+++||..+|.+++..|+.++++.. ...++++.+|||+..|+..|+||||-
T Consensus 32 ~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggkIftfGSYRLGVhg~GADIDt 111 (562)
T KOG2245|consen 32 ALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGKIFTFGSYRLGVHGPGADIDT 111 (562)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCceEEeccceeecccCCCCCcce
Confidence 355666665543 56899999999999999999998632 12368999999999999999999999
Q ss_pred EEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEEeecC--------------
Q 020620 70 SIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDN-------------- 135 (323)
Q Consensus 70 ~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~n-------------- 135 (323)
.++.|... .+.+++..+.+.|+..+.+.++..++.|.||||||.. .||++|+-|..
T Consensus 112 LcV~Prhv--------~R~DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfKf--~GI~IDllfArL~l~~VP~dldl~d 181 (562)
T KOG2245|consen 112 LCVGPRHV--------SRSDFFTSFYDMLKERPEVTELHAVEDAFVPIIKFKF--DGIEIDLLFARLALPVVPEDLDLSD 181 (562)
T ss_pred eeeccccc--------cHHHHHHHHHHHHhcCccccccccccccccceEEEEe--cCeeeeeeehhcccccCCCcccccc
Confidence 99988643 2458999999999999999999999999999999999 79999997632
Q ss_pred --------------chhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCC
Q 020620 136 --------------LCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILP 201 (323)
Q Consensus 136 --------------~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP 201 (323)
.+|.+.|+=|-.+.-....|+..++.||.|||+||++....|.+|+-+|.+||+..+|.+
T Consensus 182 dslLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA~LVARiCQLY------ 255 (562)
T KOG2245|consen 182 DSLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWAMLVARICQLY------ 255 (562)
T ss_pred hHhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHccC------
Confidence 223443322222222234689999999999999999999999999999999999999986
Q ss_pred chhhhcCCCCCCcccccccchhhhhHhhhhcccccccccccCCCCcccHHHHHHHHHHhhhcCcccccccccccc-cCce
Q 020620 202 PLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPF-TGQW 280 (323)
Q Consensus 202 ~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~-~g~~ 280 (323)
| +.+...|+..||.-|++..|-. =..+++- .|..
T Consensus 256 ------P--------------------------------------NA~~s~Lv~kfF~ifs~W~WP~-PVlL~~ie~~~L 290 (562)
T KOG2245|consen 256 ------P--------------------------------------NASPSTLVAKFFRVFSQWNWPN-PVLLKPIEEGNL 290 (562)
T ss_pred ------C--------------------------------------CcchHHHHHHHHHHHhhccCCC-ceEecccccccc
Confidence 1 1244689999999999877653 2333432 2221
Q ss_pred eeccccCCCCCC-----C-CCeEEeCCCcCCCCcccccCc
Q 020620 281 EHIRSNTRWLPN-----N-HPLFVNSPFPFRLLLIFCLPL 314 (323)
Q Consensus 281 ~~~~~~~~~~~~-----~-~~l~IeDPfd~~~Nv~~~~~~ 314 (323)
- -..|.|. + ..|=|.-|--+..|-+..++.
T Consensus 291 ~----~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS~ 326 (562)
T KOG2245|consen 291 N----LPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVSR 326 (562)
T ss_pred C----ccccCCCCCCCCcceecccccCCcccccccccccH
Confidence 0 1234432 2 358888898777666666653
No 7
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.78 E-value=4e-17 Score=154.12 Aligned_cols=169 Identities=22% Similarity=0.321 Sum_probs=122.6
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhc--cCCCCEEEeecCccCCCCCC-CCCcceEEecCCCCcccccchhhH
Q 020620 11 LKDILGMLNPLREDWETRMKVISDLREVVESVE--SLRGATVEPFGSFVSNLFSR-WGDLDISIELSNGSCISSAGKKVK 87 (323)
Q Consensus 11 i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~--~~~~~~v~~fGS~~tgl~~~-~SDiDl~i~~~~~~~~~s~~~~~~ 87 (323)
+.+.++.+.||++|.+....+.+.+...+++.. ..+.+++..|||++-|++++ +|||||++..+... .+.+.
T Consensus 2 ~~~vl~~i~Ps~eE~~~~~~~~~~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~~~~-----~~e~l 76 (408)
T TIGR03671 2 LEEVLERIKPTEEEREKLKKVADELIARLEEIIEELGVDAEVVLVGSYARGTWLKGDRDIDIFILFPKDT-----SREEL 76 (408)
T ss_pred hHHHhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeeEecCCccCCCCceeEEEEeCCCC-----CHHHH
Confidence 456778899999998888777777766666532 14568999999999999999 89999999997532 12333
Q ss_pred HHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEE--eecCch----------hhhhhHHHHHHhccchhh
Q 020620 88 QSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDI--SIDNLC----------GQIKSKFLFWISQIDGRF 155 (323)
Q Consensus 88 ~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DI--s~~n~~----------g~~~s~li~~~~~~~~~~ 155 (323)
......+...+.+.+. +.+ ...|..|-++... .|++||| |+.-.. .+.+|+++..-. +..+
T Consensus 77 ~~~gl~i~~~~~~~~~--~~~-~~yaeHpYv~~~~--~G~~VDiVPcy~v~~g~~~~taVDRtp~H~~fv~~rl--~~~~ 149 (408)
T TIGR03671 77 EEYGLEIGHEVLKRGG--NYE-ERYAEHPYVSGEI--EGFEVDVVPCYKVESGEEIISAVDRTPFHTRYVLERL--DGKL 149 (408)
T ss_pred HHHHHHHHHHHHhhCC--CHh-heeccCceEEEEE--ccEEEEEEeeEEccCcCeeeccccCchHHHHHHHHhh--hhhH
Confidence 4444455555543321 111 3478999999998 5999999 333222 233455554332 3458
Q ss_pred HHHHHHHHHHHHHCCCCCC--CCCCCChHHHHHHHHHH
Q 020620 156 RDMVLLVKEWAKAHDINNP--KTGTFNSYSLSLLVLFH 191 (323)
Q Consensus 156 ~~L~~~iK~w~k~~~l~~~--~~G~lssy~l~lmvi~f 191 (323)
+..++++|.|+|..|++++ ..+|||||...|||++|
T Consensus 150 ~d~VRLlK~f~k~igvYGsE~~~~GFSGYl~ELLv~~y 187 (408)
T TIGR03671 150 RDDVRLLKQFLKGIGVYGSELKTRGFSGYLCELLVIHY 187 (408)
T ss_pred HHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh
Confidence 8999999999999999976 78999999999999985
No 8
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.78 E-value=7.2e-17 Score=154.62 Aligned_cols=169 Identities=22% Similarity=0.275 Sum_probs=121.0
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhcc-C-CCCEEEeecCccCCCCCC-CCCcceEEecCCCCcccccchhhH
Q 020620 11 LKDILGMLNPLREDWETRMKVISDLREVVESVES-L-RGATVEPFGSFVSNLFSR-WGDLDISIELSNGSCISSAGKKVK 87 (323)
Q Consensus 11 i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~~-~-~~~~v~~fGS~~tgl~~~-~SDiDl~i~~~~~~~~~s~~~~~~ 87 (323)
+.+.++.+.||++|.+.-....+.+...+++... . .++++.++||++.|++++ +|||||++..+.... +...
T Consensus 3 ~~evl~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~~~-----~e~L 77 (447)
T PRK13300 3 LEEVLERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKDTS-----REEL 77 (447)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCCCC-----HHHH
Confidence 5667888999999988887777777777765421 1 238999999999999999 789999999975321 2222
Q ss_pred HHHHHHHHHHHHhc-CCcceEEEeccCCcceEEEEEcCCCeeEEE--eecCch----------hhhhhHHHHHHhccchh
Q 020620 88 QSLLGDLLRALRQK-GGYRRLQFVAHARVPILKFETIHQNISCDI--SIDNLC----------GQIKSKFLFWISQIDGR 154 (323)
Q Consensus 88 ~~~l~~l~~~L~~~-~~~~~v~~i~~ArVPIik~~~~~~~i~~DI--s~~n~~----------g~~~s~li~~~~~~~~~ 154 (323)
.+....+...+.+. ..-...+ -|..|-++... .|++||| |+.-.. .+.+|+++..-. +..
T Consensus 78 ~~~gl~i~~~~~~~~~~~~~~~---yaeHpyv~~~~--~G~~VDiVPcy~v~~~~~~~saVDRtp~H~~fv~~rl--~~~ 150 (447)
T PRK13300 78 EEKGLEIGKEVAKELLGDYEER---YAEHPYVTGEI--DGFEVDIVPCYKVESGEEIISAVDRTPFHTKYVKERL--KGK 150 (447)
T ss_pred HHHHHHHHHHHHHhhCCcceee---eccCceEEEEE--CCEEEEEEeeEEccCcCcccccccCchHHHHHHHHhh--hhh
Confidence 23333344433322 2222333 48999999998 5999999 332222 233445554322 345
Q ss_pred hHHHHHHHHHHHHHCCCCCC--CCCCCChHHHHHHHHHH
Q 020620 155 FRDMVLLVKEWAKAHDINNP--KTGTFNSYSLSLLVLFH 191 (323)
Q Consensus 155 ~~~L~~~iK~w~k~~~l~~~--~~G~lssy~l~lmvi~f 191 (323)
++..++++|.|+|..|++++ ..+|||||...|||++|
T Consensus 151 ~~d~VRLlK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~y 189 (447)
T PRK13300 151 LEDEVRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY 189 (447)
T ss_pred HHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh
Confidence 89999999999999999977 78999999999999985
No 9
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.77 E-value=2e-17 Score=150.42 Aligned_cols=244 Identities=19% Similarity=0.244 Sum_probs=174.1
Q ss_pred chHHHHHHHHH--HcCCCHHHHHHHHHHHHHHHHHHHhhc--------------cCCCCEEEeecCccCCCCCCCCCcce
Q 020620 6 VLEPILKDILG--MLNPLREDWETRMKVISDLREVVESVE--------------SLRGATVEPFGSFVSNLFSRWGDLDI 69 (323)
Q Consensus 6 ~L~~~i~~~~~--~~~pt~~e~~~R~~~~~~l~~~l~~~~--------------~~~~~~v~~fGS~~tgl~~~~SDiDl 69 (323)
.|+.++.+-++ ...-++.|-+.|.+++..++.+.++.. .-.+.++..|||+..|+..|+||||-
T Consensus 24 ~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGKIFTyGSYRLGVhgpGsDIDt 103 (552)
T COG5186 24 RLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGKIFTYGSYRLGVHGPGSDIDT 103 (552)
T ss_pred hhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCceeeeecceeeeccCCCCCcce
Confidence 34444444333 345688899999999999998887642 01357999999999999999999999
Q ss_pred EEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEEeecCch------h--hhh
Q 020620 70 SIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLC------G--QIK 141 (323)
Q Consensus 70 ~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~n~~------g--~~~ 141 (323)
.++.|... .+.+++..+...|+..+.+.++..|+.|-|||||+.. .||.+|+-|.... | +.+
T Consensus 104 LvvVPkHV--------sR~dFFt~f~~~Lrer~ei~eva~vpDAfVPIIK~KF--~GIsIDLifARLs~P~Vp~~l~Lsd 173 (552)
T COG5186 104 LVVVPKHV--------SRSDFFTHFYEELRERPEIEEVAKVPDAFVPIIKLKF--QGISIDLIFARLSIPVVPDGLNLSD 173 (552)
T ss_pred EEEecccc--------cHHHHHHHHHHHhccCcchhhhccCCcccceeEEEEe--cCccceeeeeeccCCcCCCcccccc
Confidence 99888542 2557899999999999999999999999999999998 7999999774311 1 111
Q ss_pred hHHHH-----------------HHhcc---chhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCC
Q 020620 142 SKFLF-----------------WISQI---DGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILP 201 (323)
Q Consensus 142 s~li~-----------------~~~~~---~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP 201 (323)
..|++ ..+++ ..-|+..++.||+||++|.++..-.|..++-+|.+||...+|..
T Consensus 174 ~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwam~VARiCQLY------ 247 (552)
T COG5186 174 DNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWAMCVARICQLY------ 247 (552)
T ss_pred hhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHHHHHHHHHhhc------
Confidence 12222 12222 23588899999999999999999999999999999999999986
Q ss_pred chhhhcCCCCCCcccccccchhhhhHhhhhcccccccccccCCCCcccHHHHHHHHHHhhhcCcccccccccccccCcee
Q 020620 202 PLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWE 281 (323)
Q Consensus 202 ~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~~g~~~ 281 (323)
|. .+-.-.+..||+-++...|- +-..+.|-..+..
T Consensus 248 ------PN--------------------------------------A~S~vIv~kFF~ils~WnWP-qPviLkPieDgpl 282 (552)
T COG5186 248 ------PN--------------------------------------ASSFVIVCKFFEILSSWNWP-QPVILKPIEDGPL 282 (552)
T ss_pred ------cC--------------------------------------cchHhHHHHHHHHHHhcCCC-CCeEeeeccCCCe
Confidence 11 12246788999999976664 2233344443333
Q ss_pred eccccCCCCCCC------CCeEEeCCCcCCCCcccccC
Q 020620 282 HIRSNTRWLPNN------HPLFVNSPFPFRLLLIFCLP 313 (323)
Q Consensus 282 ~~~~~~~~~~~~------~~l~IeDPfd~~~Nv~~~~~ 313 (323)
.. +.|.|+. .+|-|--|--++.=.+..++
T Consensus 283 qv---rvWnPKvYpsDk~HRMPvITPAYPSMCATHNit 317 (552)
T COG5186 283 QV---RVWNPKVYPSDKYHRMPVITPAYPSMCATHNIT 317 (552)
T ss_pred eE---EeeCCccCcccccccCccccCCchhhhhhcccc
Confidence 32 2466643 35777777666544443333
No 10
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=1.9e-14 Score=134.29 Aligned_cols=172 Identities=22% Similarity=0.328 Sum_probs=127.1
Q ss_pred chHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhc--cCCCCEEEeecCccCCCCCC-CCCcceEEecCCCCccccc
Q 020620 6 VLEPILKDILGMLNPLREDWETRMKVISDLREVVESVE--SLRGATVEPFGSFVSNLFSR-WGDLDISIELSNGSCISSA 82 (323)
Q Consensus 6 ~L~~~i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~--~~~~~~v~~fGS~~tgl~~~-~SDiDl~i~~~~~~~~~s~ 82 (323)
.|...+.+.++.+.||++|.+.-+.+.+.|..-++++. ...++.+...||++-|++++ +.|||+.|..|....
T Consensus 2 ~~~~~l~evl~~i~P~~eE~~~~~~~~e~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd~DIDvFi~Fp~d~~---- 77 (443)
T COG1746 2 TLEEVLEEVLKRIKPTEEERKKLKEVAEELRERINEIIEELGIDAEVVLVGSYAKGTWLRGDHDIDVFIAFPKDTS---- 77 (443)
T ss_pred chHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeecccCcccCCCcceeEEEECCCCCC----
Confidence 46778889999999999999988888877777776543 24579999999999999999 569999999986421
Q ss_pred chhhH-HHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEE--eecC------chhhh----hhHHHHHHh
Q 020620 83 GKKVK-QSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDI--SIDN------LCGQI----KSKFLFWIS 149 (323)
Q Consensus 83 ~~~~~-~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DI--s~~n------~~g~~----~s~li~~~~ 149 (323)
+.+. ..-|+-...+|.. +... +..|..|.+.... .|+++|| |++- ..++. +|+++..-
T Consensus 78 -~eel~~~GL~ig~~~l~~-~~~~----~~YAeHPYV~g~v--~G~eVDvVPCy~v~~~~~~~sAVDRTplHt~yv~e~- 148 (443)
T COG1746 78 -EEELEEKGLEIGREVLKR-GNYE----ERYAEHPYVTGEV--DGYEVDVVPCYKVEDGEKIISAVDRTPLHTRYVEEH- 148 (443)
T ss_pred -HHHHHHHHHHHHHHHhcC-Cchh----hhhccCCeeEEEE--ccEEEEEEecccccCcccccccccCcchhHHHHHHH-
Confidence 1111 1233334444443 2221 4589999999998 5999999 3322 23333 34455432
Q ss_pred ccchhhHHHHHHHHHHHHHCCCCCC--CCCCCChHHHHHHHHHH
Q 020620 150 QIDGRFRDMVLLVKEWAKAHDINNP--KTGTFNSYSLSLLVLFH 191 (323)
Q Consensus 150 ~~~~~~~~L~~~iK~w~k~~~l~~~--~~G~lssy~l~lmvi~f 191 (323)
++.+.+.=++++|.++|.-|++++ ..+|||+|.-.+|||||
T Consensus 149 -L~~~~~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~y 191 (443)
T COG1746 149 -LKGRQKDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHY 191 (443)
T ss_pred -hcccchhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhh
Confidence 345666789999999999999988 68999999999999986
No 11
>PF04928 PAP_central: Poly(A) polymerase central domain; InterPro: IPR007012 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs. Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase which specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analog at 2.5 A resolutio has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta-sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.; GO: 0004652 polynucleotide adenylyltransferase activity, 0006351 transcription, DNA-dependent; PDB: 1Q79_A 1Q78_A 1F5A_A 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A.
Probab=99.63 E-value=1.5e-15 Score=136.22 Aligned_cols=190 Identities=19% Similarity=0.235 Sum_probs=118.9
Q ss_pred hHHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccch
Q 020620 7 LEPILKDILGML--NPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGK 84 (323)
Q Consensus 7 L~~~i~~~~~~~--~pt~~e~~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~ 84 (323)
.+++|.++++.. -||+||.++|++++..|++++++... .
T Consensus 22 ~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~--~------------------------------------- 62 (254)
T PF04928_consen 22 RSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVK--Q------------------------------------- 62 (254)
T ss_dssp HHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHH--H-------------------------------------
T ss_pred hHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHH--h-------------------------------------
Confidence 467788888766 68999999999999999999998532 1
Q ss_pred hhHHHHHHHHHHHHHhcCCcceEEEeccCCcc-eEEEEEcCCCeeEE-EeecCchhhhhhHHHHHHhccchhhHHHHHHH
Q 020620 85 KVKQSLLGDLLRALRQKGGYRRLQFVAHARVP-ILKFETIHQNISCD-ISIDNLCGQIKSKFLFWISQIDGRFRDMVLLV 162 (323)
Q Consensus 85 ~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVP-Iik~~~~~~~i~~D-Is~~n~~g~~~s~li~~~~~~~~~~~~L~~~i 162 (323)
...++| .+.+.+...=-.+| -|+...+|++.++.|....-....||.++++|
T Consensus 63 --------------------------~~~~~p~~l~~~~~~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~I 116 (254)
T PF04928_consen 63 --------------------------ALPRVPEDLDLLDDDPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFI 116 (254)
T ss_dssp --------------------------SSSSB-TT--TT-GGGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHH
T ss_pred --------------------------hhcCCCcccccCCchhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHH
Confidence 011111 11111100000011 13345678888888887776668899999999
Q ss_pred HHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhhccccccccccc
Q 020620 163 KEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKY 242 (323)
Q Consensus 163 K~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 242 (323)
|.||++|||+++..|+||+.+|++||+..+|..+
T Consensus 117 K~WAk~RGIYsn~~GylGGI~waILvArvcql~P---------------------------------------------- 150 (254)
T PF04928_consen 117 KLWAKRRGIYSNVFGYLGGIHWAILVARVCQLYP---------------------------------------------- 150 (254)
T ss_dssp HHHHHHTT-B-CCCTSB-HHHHHHHHHHHHHHST----------------------------------------------
T ss_pred HHHHHHccccchhhccchHHHHHHHHHHHHHHCc----------------------------------------------
Confidence 9999999999999999999999999999999961
Q ss_pred CCCCcccHHHHHHHHHHhhhcCcccccccccccccCceeeccccCCCCCC------CCCeEEeCCCcCCCCcccccCcc
Q 020620 243 RKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPN------NHPLFVNSPFPFRLLLIFCLPLT 315 (323)
Q Consensus 243 ~~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~~g~~~~~~~~~~~~~~------~~~l~IeDPfd~~~Nv~~~~~~~ 315 (323)
+.+.+.|+..||.+|+++||.. -+.+++...... ....|.|. ...|.|-.|.-+..|.++.++..
T Consensus 151 ----n~~~~~ll~~FF~~ys~W~W~~-PV~l~~~~~~~~---~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~s 221 (254)
T PF04928_consen 151 ----NASPSTLLSRFFQIYSQWDWPN-PVVLDPIEDGPL---GFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRS 221 (254)
T ss_dssp ----T--HHHHHHHHHHHHHCS-TTS--EESS-----SS---SCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HH
T ss_pred ----cccccchHHHHHHHhcCCCCCC-ceeecccccCcc---cccCCCCCCCCCCcccceeEccCCCCccccccccCHH
Confidence 1245679999999999999864 344443321111 12345554 57899999999999999988743
No 12
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=99.32 E-value=7.1e-13 Score=93.00 Aligned_cols=55 Identities=20% Similarity=0.351 Sum_probs=42.4
Q ss_pred cHHHHHHHHHHhhh-cCcccccccccccccCceeeccccCCCC----CCCCCeEEeCCCcCCC
Q 020620 249 SLAHLFVSFLEKFS-GLSLKASELGICPFTGQWEHIRSNTRWL----PNNHPLFVNSPFPFRL 306 (323)
Q Consensus 249 sl~~Ll~~Ff~~Y~-~fdf~~~~~~I~~~~g~~~~~~~~~~~~----~~~~~l~IeDPfd~~~ 306 (323)
+||+||++||+||| .||| .+.+||++.|+...+ +...|. ...++|+||||||++|
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~--~~~~Isi~~g~~~~k-~~~~~~~~~~~~~~~l~IeDP~~~~n 60 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDY--ENNVISIRNGGYFPK-EEKNWSKSRNQRKKRLCIEDPFDPSN 60 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-T--TTEEEESSSSSEEEH-HHHTGCHCCCCECSSSEBBESSSTTE
T ss_pred CHHHHHHHHHHHhCCcCCC--CceEEEecCCceEEh-hhccccccccCCCCeEEEECCCCCCC
Confidence 68999999999999 6666 579999999887654 333343 3468999999999975
No 13
>cd05400 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme. In vertebrates, 2-5OASs are induced by interferon during the innate immune response to protect against RNA virus infections. In the presence of an RNA activator, 2-5OASs catalyze the oligomerization of ATP into 2-5A. 2-5A activates endoribonuclease L, which leads to degradation of the viral RNA. 2-5OASs are also implicated in cell growth control, differentiation, and apoptosis. This family includes human OAS1, -2, -3, and OASL. CCA-adding enzymes add the sequence [cytidine(C)-cytidine-adenosine (A)], one nucleotide at a time, onto the 3' end of tRNA, in a template-independent reaction. This class I group includes the archaeal Sulfolobus shibatae and Archeoglobus fulgidus CCA-adding enzymes. It belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more dis
Probab=98.25 E-value=1.4e-05 Score=65.84 Aligned_cols=80 Identities=23% Similarity=0.231 Sum_probs=57.2
Q ss_pred CCCEEEeecCccCCCCCC-CCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcC
Q 020620 46 RGATVEPFGSFVSNLFSR-WGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIH 124 (323)
Q Consensus 46 ~~~~v~~fGS~~tgl~~~-~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~ 124 (323)
+..++.+|||++.|++++ .||||+++..+..... .......++..|.+.|.+.... .... ..+-|-|++....
T Consensus 26 ~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~---~~~~~~~~~~~l~~~L~~~~~~-~~~~--~~~~~~v~v~~~~ 99 (143)
T cd05400 26 RVAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSF---AEYGPAELLDELGEALKEYYGA-NEEV--KAQHRSVTVKFKG 99 (143)
T ss_pred cccEEEEEcceeCCCCCCCCCceeEEEEEcCcccc---cccCHHHHHHHHHHHHHHhcCc-cccc--ccCceEEEEEEcC
Confidence 457999999999999998 7999999999864321 0124567889999999875432 1221 3445677776654
Q ss_pred CCeeEEE
Q 020620 125 QNISCDI 131 (323)
Q Consensus 125 ~~i~~DI 131 (323)
.++++||
T Consensus 100 ~~~~vDv 106 (143)
T cd05400 100 QGFHVDV 106 (143)
T ss_pred CCeEEEE
Confidence 5899999
No 14
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins. This superfamily includes the NT domains of DNA polymerase beta and other family X DNA polymerases, as well as the NT domains of Class I and Class II CCA-adding enzymes, RelA- and SpoT-like ppGpp synthetases and hydrolases, 2'5'-oligoadenylate (2-5A)synthetases, Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), poly (A) polymerases, terminal uridylyl transferases, and Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. The Escherichia coli CCA-adding enzyme belongs to this superfamily but is not included as this enzyme lacks the N-terminal helix conserved in the remainder of the superfamily. In the majority of the Pol beta-like superfamily NTs, two carboxylates, Dx[D/E], together with a third more distal carboxylate coordinate two divalent metal cations that are essential for catalysis. These divalent metal ions are
Probab=98.21 E-value=3.3e-06 Score=56.42 Aligned_cols=41 Identities=20% Similarity=0.469 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEe
Q 020620 30 KVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIE 72 (323)
Q Consensus 30 ~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~ 72 (323)
++++.+++.+++. .+..++..|||++.|.+.+.||||+.+.
T Consensus 2 ~~l~~i~~~l~~~--~~~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 2 ELLDIIKERLKKL--VPGYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHHhh--cCCcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 4567777778775 4578999999999999999999999986
No 15
>PF01909 NTP_transf_2: Nucleotidyltransferase domain A subset of this Pfam family; InterPro: IPR002934 A small region that overlaps with a nuclear localization signal and binds to the RNA primer contains three aspartates that are essential for catalysis. Sequence and secondary structure comparisons of regions surrounding these aspartates with sequences of other polymerases revealed a significant homology to the palm structure of DNA polymerase beta, terminal deoxynucleotidyltransferase and DNA polymerase IV of Saccharomyces cerevisiae, all members of the family X of polymerases. This homology extends as far as cca: tRNA nucleotidyltransferase and streptomycin adenylyltransferase, an antibiotic resistance factor [, ]. Proteins containing this domain include kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTase inactivates antibiotics by catalysing the addition of a nucleotidyl group onto the drug. In experiments, Mn2+ strongly stimulated this reaction due to a 50-fold lower Ki for 8-azido-ATP in the presence of Mn2+. Mutations of the highly conserved Asp residues 113, 115, and 167, critical for metal binding in the catalytic domain of bovine poly(A) polymerase, led to a strong reduction of cross-linking efficiency, and Mn2+ no longer stimulated the reaction. Mutations in the region of the "helical turn motif" (a domain binding the triphosphate moiety of the nucleotide) and in the suspected nucleotide-binding helix of bovine poly(A) polymerase impaired ATP binding and catalysis. The results indicate that ATP is bound in part by the helical turn motif and in part by a region that may be a structural analogue of the fingers domain found in many polymerases.; GO: 0016779 nucleotidyltransferase activity; PDB: 4EBK_B 4EBJ_A 1KNY_A 2B4V_A 2B56_A 2B51_A 1NO5_B 1Q79_A 1Q78_A 1F5A_A ....
Probab=98.06 E-value=2.8e-06 Score=64.37 Aligned_cols=43 Identities=26% Similarity=0.398 Sum_probs=36.5
Q ss_pred HHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 32 ISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 32 ~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
++.+.+.+++. ++...+.+|||+++|.+.++||||+++..+..
T Consensus 1 i~~i~~~l~~~--~~~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~ 43 (93)
T PF01909_consen 1 IEEIKEILKEL--FGVAEVYLFGSYARGDATPDSDIDLLIILDEP 43 (93)
T ss_dssp HHHHHHHHHHH--HTTEEEEEEHHHHHTSSCTTSCEEEEEEESST
T ss_pred CHHHHHHHHHH--CCCCEEEEECCcccCcCCCCCCEEEEEEeCCc
Confidence 35677777775 35889999999999999999999999998864
No 16
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core. It is predominantly found in Archaeal tRNA nucleotidyltransferases, following the catalytic nucleotidyltransferase domain []. ; GO: 0004810 tRNA adenylyltransferase activity, 0016437 tRNA cytidylyltransferase activity; PDB: 3OUY_B 2ZHB_A 2ZH1_A 2ZH2_A 1UET_A 2ZH7_A 1R8B_A 2DR5_A 1TFW_C 3OVA_A ....
Probab=97.98 E-value=8.2e-06 Score=63.40 Aligned_cols=33 Identities=30% Similarity=0.469 Sum_probs=27.1
Q ss_pred HHHHHHHHHHCCCCCC--CCCCCChHHHHHHHHHH
Q 020620 159 VLLVKEWAKAHDINNP--KTGTFNSYSLSLLVLFH 191 (323)
Q Consensus 159 ~~~iK~w~k~~~l~~~--~~G~lssy~l~lmvi~f 191 (323)
++++|+++|..|++++ ..+|+|+|...+||++|
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~y 37 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY 37 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHH
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHH
Confidence 6899999999999988 68999999999999987
No 17
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=97.96 E-value=0.00012 Score=65.08 Aligned_cols=180 Identities=13% Similarity=0.139 Sum_probs=112.7
Q ss_pred EEEeecCccCCCCCCCC-CcceEEecCCCCcccccchhhHHHHHHHHHHHH----HhcCCcceEEEeccCCcceEEEEEc
Q 020620 49 TVEPFGSFVSNLFSRWG-DLDISIELSNGSCISSAGKKVKQSLLGDLLRAL----RQKGGYRRLQFVAHARVPILKFETI 123 (323)
Q Consensus 49 ~v~~fGS~~tgl~~~~S-DiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L----~~~~~~~~v~~i~~ArVPIik~~~~ 123 (323)
.|.-.||.+.|+.+.+. ++|+++++...+ ..++++.+++.+ +....-.....+..+..|.+++...
T Consensus 4 gV~rVG~~aKG~ll~Gd~~~~lVv~c~~~P---------T~~ll~~v~~~l~e~l~~~~~~e~~~~~~~~~~~~~~~~i~ 74 (246)
T smart00572 4 GVMRVGSFAKGTLLKGDNVAELVLLCKEKP---------TSELVARLARKLPEQLKAVTEDEALIIVTSTKEPTMEVGIL 74 (246)
T ss_pred ceEEeeeeccCceecCCCceeEEEEecCCC---------cHHHHHHHHHHHHHHHhhcCcccceeeeeccCCCceeEEEE
Confidence 36778999999999987 999999987533 234555555544 3321111122234555565554432
Q ss_pred CCC--eeEEE----------------------eecCchhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCCCC
Q 020620 124 HQN--ISCDI----------------------SIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTF 179 (323)
Q Consensus 124 ~~~--i~~DI----------------------s~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G~l 179 (323)
-++ ...++ +.....+++++++.++-+..-..++.+++++|-|..+... .+.|
T Consensus 75 ltSp~~r~~~~~~~~~~~~~~~~p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~----~~pL 150 (246)
T smart00572 75 ITSPLARVELLITTVPENLRKLDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPT----WQPL 150 (246)
T ss_pred EecccccccccccccCcccccCCccccCCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhccc----cccc
Confidence 111 11111 2222345666777766555555799999999999988754 2359
Q ss_pred ChHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhhcccccccccccCCCCcccHHHHHHHHHH
Q 020620 180 NSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLE 259 (323)
Q Consensus 180 ssy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~n~~sl~~Ll~~Ff~ 259 (323)
+||.+.+++-+-+-.. ....++++.|..||+
T Consensus 151 ~~w~iELl~~~~i~~~-------------------------------------------------~~~l~~~~a~RR~fe 181 (246)
T smart00572 151 SGWPLELLVEKAIGSA-------------------------------------------------RQPLGLGDAFRRVFE 181 (246)
T ss_pred ccccHHHHHHHHhccC-------------------------------------------------CCCCCHHHHHHHHHH
Confidence 9999998875533211 112478999999999
Q ss_pred hhhcCcccccccccccccCceeeccccCCCCCCCCCeEEeCCCcC-CCCcccccCcc
Q 020620 260 KFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPF-RLLLIFCLPLT 315 (323)
Q Consensus 260 ~Y~~fdf~~~~~~I~~~~g~~~~~~~~~~~~~~~~~l~IeDPfd~-~~Nv~~~~~~~ 315 (323)
+-+.=.| .. ....|-||-+. .+|++..++.+
T Consensus 182 ~lAsG~l---------~p----------------~~~gI~DPce~~~~nv~~~lT~q 213 (246)
T smart00572 182 CLASGIL---------LP----------------GSPGLTDPCEKDNTDALTALTLQ 213 (246)
T ss_pred HHHhccC---------cC----------------CCCCCcCCCCCCcccHHHhcCHH
Confidence 9986111 00 11468899997 88998887743
No 18
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is
Probab=97.72 E-value=5.2e-05 Score=57.02 Aligned_cols=45 Identities=16% Similarity=0.279 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 31 VISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 31 ~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
.++.+.+.+++... .-..+.+|||++.|-+.++||||+++..+..
T Consensus 3 ~~~~i~~~l~~~~~-~i~~i~LfGS~arg~~~~~SDiDl~vi~~~~ 47 (93)
T cd05403 3 ILEEILEILRELLG-GVEKVYLFGSYARGDARPDSDIDLLVIFDDP 47 (93)
T ss_pred hHHHHHHHHHHHhC-CccEEEEEeeeecCCCCCCCCeeEEEEeCCC
Confidence 35566666666421 2578999999999999999999999998754
No 19
>PF10421 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus ; InterPro: IPR018952 This is the largely alpha-helical, C-terminal half of 2'-5'-oligoadenylate synthetase 1, being described as domain 2 of the enzyme and homologous to a tandem ubiquitin repeat. It carries the region of enzymic activity between residues 320 and 344 at the extreme C-terminal end []. Oligoadenylate synthetases are antiviral enzymes that counteract viral attack by degrading viral RNA. The enzyme uses ATP in 2'-specific nucleotidyl transfer reactions to synthesise 2'.5'-oligoadenylates, which activate latent ribonuclease, resulting in degradation of viral RNA and inhibition of virus replication []. This domain is often associated with IPR002934 from INTERPRO. ; PDB: 1PX5_B.
Probab=97.62 E-value=0.00013 Score=62.37 Aligned_cols=56 Identities=18% Similarity=0.380 Sum_probs=40.6
Q ss_pred hhhHHHHHHhccc-hhhHHHHHHHHHHHHHCCCCCCCCCCC-ChHHHHHHHHHHHhcC
Q 020620 140 IKSKFLFWISQID-GRFRDMVLLVKEWAKAHDINNPKTGTF-NSYSLSLLVLFHFQTC 195 (323)
Q Consensus 140 ~~s~li~~~~~~~-~~~~~L~~~iK~w~k~~~l~~~~~G~l-ssy~l~lmvi~flq~~ 195 (323)
.-|++-+.+++.. .+++.|++++|||.++..-.....+++ +||+|.||+||.-.+.
T Consensus 28 cftelQ~~Fvk~rP~klK~LIrLVKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~g 85 (190)
T PF10421_consen 28 CFTELQRNFVKHRPTKLKNLIRLVKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQG 85 (190)
T ss_dssp GGHHHHHHHHHTS-HHHHHHHHHHHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHhc
Confidence 3456666666554 589999999999999887664445555 6899999999987664
No 20
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=97.58 E-value=0.0047 Score=66.18 Aligned_cols=214 Identities=18% Similarity=0.235 Sum_probs=125.3
Q ss_pred CccCCCCCC---CCCcceEEecCCCCcccc---cch--hhHHHHHHHHHHHH--HhcCCcceEEE---eccCCcceEEEE
Q 020620 55 SFVSNLFSR---WGDLDISIELSNGSCISS---AGK--KVKQSLLGDLLRAL--RQKGGYRRLQF---VAHARVPILKFE 121 (323)
Q Consensus 55 S~~tgl~~~---~SDiDl~i~~~~~~~~~s---~~~--~~~~~~l~~l~~~L--~~~~~~~~v~~---i~~ArVPIik~~ 121 (323)
|++.+++.+ +-.||+.|..|..-.... +.| ..+...|-.|+..| .+.....+++. -...+-||+.+.
T Consensus 1 S~~l~t~~k~~~~~~VDl~v~mP~~~fq~KDyln~RY~~KRA~YLa~iA~~L~~~~~~~~~~v~~~~~~gd~~kPil~l~ 80 (972)
T PF03813_consen 1 SYALKTMIKSKPNLTVDLAVEMPKSLFQEKDYLNYRYFHKRALYLAYIAAHLQKKKSKLFVDVSFEYLNGDPLKPILVLR 80 (972)
T ss_pred CcccccccccCCCCeeEEEEeCChhhcCchhhccchHHHHHHHHHHHHHHHHhhhccccceeEEEEeCCCCCCCCeEEEE
Confidence 666677765 349999999986321100 001 01234677889999 33334444432 345678999887
Q ss_pred EcC---------CCeeEEEe--e--------------cC---------------chhhhhh------------HHHHHHh
Q 020620 122 TIH---------QNISCDIS--I--------------DN---------------LCGQIKS------------KFLFWIS 149 (323)
Q Consensus 122 ~~~---------~~i~~DIs--~--------------~n---------------~~g~~~s------------~li~~~~ 149 (323)
-.. ++..+.|- + || ....+|+ ++++...
T Consensus 81 p~~~~~~~~~~~~~~~iRi~~~~~~~~F~~~rl~P~rnnvR~~~~~~~~~~~~~pTP~YNssIL~D~~~~~~l~~l~~~~ 160 (972)
T PF03813_consen 81 PKGKKDSDDFSKTKFRIRIIPSIPSDTFPLSRLAPSRNNVRPSWFDEEDSSSLPPTPHYNSSILEDMLMEEHLKYLHEAS 160 (972)
T ss_pred ECCccccccccCCcEEEEEEecCCcccCCHHhcCCCCCccCcCcccccccCCCCCCCcchHHHHHHHhHHHHHHHHHHHH
Confidence 321 12344441 1 11 1122343 2334455
Q ss_pred ccchhhHHHHHHHHHHHHHCCCCCCC-CCCCChHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHh
Q 020620 150 QIDGRFRDMVLLVKEWAKAHDINNPK-TGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAE 228 (323)
Q Consensus 150 ~~~~~~~~L~~~iK~w~k~~~l~~~~-~G~lssy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~ 228 (323)
+..|.|+..++++|.|+++||+.... .||+++|-|++++++-+|...+. | .+
T Consensus 161 ~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~------------------~-----~~---- 213 (972)
T PF03813_consen 161 KSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRN------------------G-----KK---- 213 (972)
T ss_pred hcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCcc------------------C-----Cc----
Confidence 56799999999999999999998763 48999999999888887774110 0 00
Q ss_pred hhhcccccccccccCCCCcccHHHHHHHHHHhhhcCcccccccccccccCceeeccccCCCCCCCCCeEEeCCCcCCCCc
Q 020620 229 ICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLL 308 (323)
Q Consensus 229 ~~~~~~~~~~~~~~~~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~~g~~~~~~~~~~~~~~~~~l~IeDPfd~~~Nv 308 (323)
.-....|--++|..+++|-++-||...-+.++...+.-... ..+ ...+....-||=.. .|+
T Consensus 214 --------------~l~~~mSsyQlFr~~l~fLA~~d~~~~~l~~~~~~~~~~~~---~~~-~~~~~~vf~D~sg~-~Nl 274 (972)
T PF03813_consen 214 --------------KLSKSMSSYQLFRAVLQFLATTDLSKKPLFFKSSSDSTESL---EEF-HSAFDPVFVDPSGG-LNL 274 (972)
T ss_pred --------------ccCCCCCHHHHHHHHHHHHhccccccCceEEecCCCccchh---hhh-hccCCeEEEeCCCC-EEE
Confidence 01123566799999999999888854444444332211000 011 13455666677544 677
Q ss_pred ccccCc
Q 020620 309 IFCLPL 314 (323)
Q Consensus 309 ~~~~~~ 314 (323)
...++.
T Consensus 275 ~~~ms~ 280 (972)
T PF03813_consen 275 LAKMSP 280 (972)
T ss_pred EEcCCH
Confidence 777663
No 21
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=97.10 E-value=0.004 Score=47.38 Aligned_cols=45 Identities=22% Similarity=0.369 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 30 KVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 30 ~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
.++..+...+++. +.=.++-+|||++-|-..|+|||||.+...++
T Consensus 9 ~~lr~~~~~l~~k--~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 9 KILRKIKPELKEK--YGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHH--hCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 3355566666652 22368999999999999999999999998754
No 22
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.80 E-value=0.0075 Score=47.82 Aligned_cols=30 Identities=20% Similarity=0.277 Sum_probs=27.3
Q ss_pred CCCCEEEeecCccCCCCCCCCCcceEEecC
Q 020620 45 LRGATVEPFGSFVSNLFSRWGDLDISIELS 74 (323)
Q Consensus 45 ~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~ 74 (323)
.....+++|||++.|-+.+.||+|+++..+
T Consensus 24 ~~~~~v~LfGS~arG~~~~~SDiDv~vv~~ 53 (128)
T COG1708 24 GGDLLIYLFGSYARGDFVKESDIDLLVVSD 53 (128)
T ss_pred CCCeEEEEEccCcccccccCCCeeEEEEcC
Confidence 456899999999999999999999999973
No 23
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=96.64 E-value=0.0085 Score=54.36 Aligned_cols=42 Identities=21% Similarity=0.320 Sum_probs=32.0
Q ss_pred HHHHHHHHhhccCCC--CEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 33 SDLREVVESVESLRG--ATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 33 ~~l~~~l~~~~~~~~--~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
+.+.++++.. ..+ .-+++|||.+.|-.-|.||||+.+..+..
T Consensus 14 ~~~~~~l~~~--l~~~l~~vyLfGS~~~G~~~p~SDIDllvvv~~~ 57 (262)
T PRK13746 14 SEACAVIERH--LEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVP 57 (262)
T ss_pred HHHHHHHHHh--CcccEEEEEEECCcccCCCCCCCceeEEEEeCCC
Confidence 3445566553 222 36899999999999999999999998754
No 24
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=96.28 E-value=0.086 Score=43.57 Aligned_cols=114 Identities=14% Similarity=0.098 Sum_probs=70.6
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQN 126 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~ 126 (323)
.....+.|...-|+..++||+||++..++ ...+...+.+...+...++--.. .-...|.+.......|
T Consensus 15 ~~~PiL~GTiPi~Idi~~SDLDIic~~~d-----------~~~F~~~l~~~f~~~~~f~~~~~-~i~~~~~~~~~F~~~~ 82 (152)
T PF14091_consen 15 AYDPILVGTIPIGIDIPGSDLDIICEVPD-----------PEAFEQLLQSLFGQFEGFTIKEK-TIRGEPSIVANFRYEG 82 (152)
T ss_pred cCCCEEecccccccCCCCCCccEEEEeCC-----------HHHHHHHHHHHhccCCCceeeec-eeCCceeEEEEEEECC
Confidence 34667899999999999999999998763 23344444444444344432211 1133454444444478
Q ss_pred eeEEEeec-----CchhhhhhHHHHHHhccc-hhhHHHHHHHH--------HHHHHCCCC
Q 020620 127 ISCDISID-----NLCGQIKSKFLFWISQID-GRFRDMVLLVK--------EWAKAHDIN 172 (323)
Q Consensus 127 i~~DIs~~-----n~~g~~~s~li~~~~~~~-~~~~~L~~~iK--------~w~k~~~l~ 172 (323)
..+.|-.. ...|.+.-..-+...+.. |.+|.=++-+| +||+..||.
T Consensus 83 ~~~EiF~Q~~Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~ 142 (152)
T PF14091_consen 83 FPFEIFGQPIPVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLE 142 (152)
T ss_pred ceEEEeecCCChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCC
Confidence 88888653 344555554555555554 89999998887 355555553
No 25
>PF07528 DZF: DZF domain; InterPro: IPR006561 This domain is found in proteins containing the double-stranded RNA-binding motif, DSRM (IPR001159 from INTERPRO), or the zinc finger domain C2H2 (IPR007087 from INTERPRO). This domain is found exclusively in the metazoa.
Probab=95.93 E-value=0.15 Score=45.91 Aligned_cols=125 Identities=14% Similarity=0.186 Sum_probs=72.2
Q ss_pred ecCccCCCCCCCC-CcceEEecCCCCcccccchhhHHHHHHHHHHHH----HhcCCcc-----e-EEEeccCCcceEEEE
Q 020620 53 FGSFVSNLFSRWG-DLDISIELSNGSCISSAGKKVKQSLLGDLLRAL----RQKGGYR-----R-LQFVAHARVPILKFE 121 (323)
Q Consensus 53 fGS~~tgl~~~~S-DiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L----~~~~~~~-----~-v~~i~~ArVPIik~~ 121 (323)
.||++.|+.+++. ++|+++.+...+ ..++|.++++.| +....-. + ...+...+.|.+...
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kP---------T~~lL~~v~~~L~~~L~~~~~~ev~~~~e~~~~~~~~~~~~~~~~ 72 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKP---------TKELLNRVAEKLPEQLKKVTPEEVTNSVEAAIIIDSCKEPKLEVG 72 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCC---------cHHHHHHHHHHHHHHHhhhCccccccchhhhhhhcccccccceee
Confidence 4999999999988 999999987533 234555555544 3321110 0 011122233433332
Q ss_pred E--cCCCeeEEEe----------------------ecCchhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCC
Q 020620 122 T--IHQNISCDIS----------------------IDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTG 177 (323)
Q Consensus 122 ~--~~~~i~~DIs----------------------~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G 177 (323)
. ....+.+.+. ..+..+++.+++++.-+..-+.++.+++++|-...+.. ..+
T Consensus 73 ~~lts~~~r~~~~~~~~~~~~~~~dp~~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~p----~w~ 148 (248)
T PF07528_consen 73 IDLTSPVMRVRVLITTIPENLSKLDPEDHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRVP----TWQ 148 (248)
T ss_pred EEecCCceEEEEeccccCccccccChhhcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhCC----CCC
Confidence 2 1122222221 12233556677776666655677888888888876652 256
Q ss_pred CCChHHHHHHHHH
Q 020620 178 TFNSYSLSLLVLF 190 (323)
Q Consensus 178 ~lssy~l~lmvi~ 190 (323)
.|++|++.+++-+
T Consensus 149 ~L~~W~leLL~~~ 161 (248)
T PF07528_consen 149 PLSSWALELLVEK 161 (248)
T ss_pred CCChhHHHHHHHH
Confidence 7899999887654
No 26
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=95.18 E-value=2.9 Score=45.20 Aligned_cols=171 Identities=17% Similarity=0.239 Sum_probs=101.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCCC--CEEEeecCccCC--CCCC--------CCCcceEEecCCCCccccc---ch
Q 020620 20 PLREDWETRMKVISDLREVVESVESLRG--ATVEPFGSFVSN--LFSR--------WGDLDISIELSNGSCISSA---GK 84 (323)
Q Consensus 20 pt~~e~~~R~~~~~~l~~~l~~~~~~~~--~~v~~fGS~~tg--l~~~--------~SDiDl~i~~~~~~~~~s~---~~ 84 (323)
...+....-.++++.+++.|+.+...|= ..|.|-++..-. +.-| ..-+|+++........+.. -+
T Consensus 496 ~~~~~~~~~~~af~~L~k~lr~L~~LPL~I~~v~p~sp~lRyts~~pp~p~~~~~~~~p~~vvl~fE~S~kWPddl~AI~ 575 (972)
T PF03813_consen 496 TDEESFQSVMRAFDELEKDLRSLEDLPLSITSVQPASPALRYTSVFPPVPHAVPRYIPPIEVVLQFESSGKWPDDLEAIQ 575 (972)
T ss_pred CchHHHHHHHHHHHHHHHHHhcCccCCcceeeeccCCHhhhcCCCCCCCCccccCCCCCEEEEEEEecCCCCCCCHHHHH
Confidence 3444566777889999999998743442 245555554222 2222 2268888887754433321 12
Q ss_pred hhHHHHHHHHHHHHHh-cCCcceEEE-eccCCcce-----EEEEEcCCCeeEEEeecC-------------c--------
Q 020620 85 KVKQSLLGDLLRALRQ-KGGYRRLQF-VAHARVPI-----LKFETIHQNISCDISIDN-------------L-------- 136 (323)
Q Consensus 85 ~~~~~~l~~l~~~L~~-~~~~~~v~~-i~~ArVPI-----ik~~~~~~~i~~DIs~~n-------------~-------- 136 (323)
+.+..++-+|++.|++ .+......+ ...+-.|+ +-... .+|..+.+.+.. .
T Consensus 576 ~~K~Af~lkiae~L~~~~~~~~~~~v~~~~~~~~~~~~~~ldV~~-~~G~~FRl~I~~~rE~~Ll~~~~~~~~~~~k~~~ 654 (972)
T PF03813_consen 576 KTKTAFLLKIAEELEKQYGDGIKARVGLDNSLSPIANQAFLDVLY-PEGYVFRLRIYHDREETLLKRQLKTEDGQLKQEA 654 (972)
T ss_pred HHHHHHHHHHHHHHHHhhCCcceeeecccccccceeccceEEEEe-cCccEEEEEEecchhHHHHHHhhcccCcccchhh
Confidence 3455688899999984 331111111 11111121 11222 145444443311 0
Q ss_pred ------------hhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcC
Q 020620 137 ------------CGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTC 195 (323)
Q Consensus 137 ------------~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~ 195 (323)
.....+..|+.+...+|.+-+-++++|+|+..+-| .+.++.=++.|||++.+...
T Consensus 655 ~~~~~~~~~~~~~~p~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~ 721 (972)
T PF03813_consen 655 TEALASLERRFIHLPKHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSP 721 (972)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCC
Confidence 02234566777888899999999999999999977 46789999999999877653
No 27
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=94.58 E-value=0.085 Score=41.56 Aligned_cols=71 Identities=30% Similarity=0.379 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcc
Q 020620 28 RMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYR 105 (323)
Q Consensus 28 R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~ 105 (323)
-.++.+.|++.++++ .|++.+.+.||+.=|-... +|||+.+..++..... .....+|..+...|.+.+...
T Consensus 7 v~~i~~~V~~~~~~i--~p~~~v~i~GSyRRGK~~~-gDiDiLIt~~~~~~~~----~~~~~~l~~lv~~L~~~g~i~ 77 (112)
T PF14792_consen 7 VEEIEEIVKEALEKI--DPGLEVEICGSYRRGKETS-GDIDILITHPDPSSVS----KKLEGLLEKLVKRLEEKGFIT 77 (112)
T ss_dssp HHHHHHHHHHHHHCC--STT-EEEEEHHHHTT-SEE-SSEEEEEEETTCSTTT----CSTTCHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHHHhc--CCCcEEEEccccccCCCcC-CCeEEEEeCCCcCcch----hhHHHHHHHHHHHHHhCCeEE
Confidence 344556667777776 6899999999999877664 4999999988654211 112357888888888866544
No 28
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=94.42 E-value=0.2 Score=44.33 Aligned_cols=41 Identities=27% Similarity=0.435 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhccCCCCEEEeecCcc----CCC--CCCCCCcceEEecCC
Q 020620 31 VISDLREVVESVESLRGATVEPFGSFV----SNL--FSRWGDLDISIELSN 75 (323)
Q Consensus 31 ~~~~l~~~l~~~~~~~~~~v~~fGS~~----tgl--~~~~SDiDl~i~~~~ 75 (323)
.++.|...... .+....+|||.+ ||+ ..++||||+.+..+.
T Consensus 108 ~l~~l~~~~~~----~g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~ 154 (221)
T PRK02098 108 TLRALLALAAA----HGVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPA 154 (221)
T ss_pred HHHHHHHHHHh----CCCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCC
Confidence 34455555544 357999999999 999 678999999998763
No 29
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific. Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.
Probab=94.25 E-value=0.12 Score=45.09 Aligned_cols=40 Identities=20% Similarity=0.399 Sum_probs=30.3
Q ss_pred HHHHHHHHHhhccCCCCEEEeecCc----cCCC--CCCCCCcceEEecCC
Q 020620 32 ISDLREVVESVESLRGATVEPFGSF----VSNL--FSRWGDLDISIELSN 75 (323)
Q Consensus 32 ~~~l~~~l~~~~~~~~~~v~~fGS~----~tgl--~~~~SDiDl~i~~~~ 75 (323)
++.+...... .+....+|||. +||+ ..++||||+.+..+.
T Consensus 97 l~~l~~~~~~----~~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~ 142 (202)
T TIGR03135 97 LRALDALLDA----LGVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPS 142 (202)
T ss_pred HHHHHHHHHh----CCCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCC
Confidence 4444444443 36799999999 8999 678999999998763
No 30
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=92.82 E-value=6.3 Score=35.62 Aligned_cols=177 Identities=15% Similarity=0.199 Sum_probs=100.2
Q ss_pred cchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhccCCC------CEEEeecCccCCCCCCCCC-cceEEecCCCC
Q 020620 5 NVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRG------ATVEPFGSFVSNLFSRWGD-LDISIELSNGS 77 (323)
Q Consensus 5 ~~L~~~i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~~~~~------~~v~~fGS~~tgl~~~~SD-iDl~i~~~~~~ 77 (323)
..++++|.+=-+.+.|+.+|++.-...+..+..++.... -|+ ..|.-.||+.+|+-+.++| -|++++...-+
T Consensus 39 ~~f~~alLkRnqdL~P~~~~q~~I~~~vtKV~~vLdn~~-~~~L~~~~ieevrqVGSF~k~T~~tg~~~advVViLkTLP 117 (362)
T KOG3793|consen 39 TSFSEALLKRNQDLAPNSAEQASILSLVTKVNNVLDNLV-APGLFEVQIEEVRQVGSFKKGTMTTGHNVADLVVILKTLP 117 (362)
T ss_pred hHHHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHHhhc-cCCceEeehhhhhhccceeccccccCCcccceEEEeecCC
Confidence 467888888888999999999999999999999998753 343 3567789999999988774 58888765432
Q ss_pred cccccchhhHHHHHHHHHHHHH------------hcCCcceEEEeccCCcceEEEEEcC------CCeeEEEee--cCch
Q 020620 78 CISSAGKKVKQSLLGDLLRALR------------QKGGYRRLQFVAHARVPILKFETIH------QNISCDISI--DNLC 137 (323)
Q Consensus 78 ~~~s~~~~~~~~~l~~l~~~L~------------~~~~~~~v~~i~~ArVPIik~~~~~------~~i~~DIs~--~n~~ 137 (323)
. ......+=+++.+.|+ ..-++. +. -.+|+|-|+--..+. ..+..|+-. .+..
T Consensus 118 t-----~EaV~aLg~Kv~e~lka~d~~Evltvl~~e~G~~-I~-s~~~~VRiLIt~iP~n~~KLEP~lHLD~K~M~~~l~ 190 (362)
T KOG3793|consen 118 T-----LEAVAALGNKVVESLRAQDPSEVLTVLTNETGFE-IS-SSDATVRILITTVPPNLRKLEPELHLDIKVMQSALA 190 (362)
T ss_pred c-----HHHHHHHHHHHHHHhhhcChHHHHHHHhhcccee-ee-cccceEEEEEeecCchhcccChhhhhhHHHHHHHHH
Confidence 1 1111111122222232 222222 11 136677666544332 234444322 1223
Q ss_pred hhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcC
Q 020620 138 GQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTC 195 (323)
Q Consensus 138 g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~ 195 (323)
+++.+.++..-+ ....++-|++++|-.-.+..= ..-|+-+.+-++ .||.-++
T Consensus 191 a~RH~~WFee~A-~~s~~~~lir~LKDlr~r~~~----F~PLs~W~ldll-~h~avmN 242 (362)
T KOG3793|consen 191 AIRHARWFEENA-SQSTVKVLIRLLKDLRIRFPG----FEPLTPWILDLL-GHYAVMN 242 (362)
T ss_pred HHhhhhhhhhhh-hHHHHHHHHHHHHHHHhhcCC----CCCchHHHHHHH-HHHHHHc
Confidence 344444433221 123477788888876554421 123555555544 4555544
No 31
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=92.53 E-value=8.2 Score=41.16 Aligned_cols=160 Identities=20% Similarity=0.180 Sum_probs=93.5
Q ss_pred HHHHHHHHHHHHHHhhccCCC--CEEEeecCccCCCC--CC---------CC------CcceEEecCCCCcccc---cch
Q 020620 27 TRMKVISDLREVVESVESLRG--ATVEPFGSFVSNLF--SR---------WG------DLDISIELSNGSCISS---AGK 84 (323)
Q Consensus 27 ~R~~~~~~l~~~l~~~~~~~~--~~v~~fGS~~tgl~--~~---------~S------DiDl~i~~~~~~~~~s---~~~ 84 (323)
.-.++.+++.++|..+.+.|= ..|.+-||..-+.. =| .| =+++++-.......+. +-+
T Consensus 645 ~v~kaYddLsk~L~gL~gLPLsIssV~g~~~~lRyts~~pp~~~~~~~~~es~~~q~~i~~VviqlE~SgKWP~d~eai~ 724 (1121)
T KOG2054|consen 645 AVVKAYDDLSKVLRGLKGLPLSISSVLGASSALRYTSVFPPSVAVAFSFYESSRLQSSIMTVVIQLEGSGKWPDDLEAIR 724 (1121)
T ss_pred HHHHHHHHHHHHHhcccCCCceeeeeccccchhcccccCCCCCCcccccccchhhhhhheEEEEEeccCCCCCchHHHHH
Confidence 666778888888887644442 45666666544333 11 12 2356776654332221 112
Q ss_pred hhHHHHHHHHHH-HHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEEeecCch--------------------------
Q 020620 85 KVKQSLLGDLLR-ALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLC-------------------------- 137 (323)
Q Consensus 85 ~~~~~~l~~l~~-~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~n~~-------------------------- 137 (323)
+.+..++-+|++ .+++..+...+- +|-- .+.. ..|+.+-|-+-+..
T Consensus 725 r~ksAFlLKIaE~~lr~q~gl~~~~---t~d~---~~vl-k~Gy~Frirv~~dRei~llk~v~~~~~s~~~~~~a~~~~~ 797 (1121)
T KOG2054|consen 725 RLKSAFLLKIAERNLRAQHGLTCVA---TADH---LDVL-KSGYVFRIRVLNDREIILLKDVQSERGSTKLRDEAASLSL 797 (1121)
T ss_pred HHHHHHHHHHHHHHHHHhhCCCccc---Cccc---eeee-cCccEEEEEEecchhHHHHHHHhhhccccccchhHHHHHH
Confidence 334567888888 477654433221 1111 1111 24444444331110
Q ss_pred ------hhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCC
Q 020620 138 ------GQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVP 197 (323)
Q Consensus 138 ------g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p 197 (323)
-++.|.-++.+.+.++.+-+.+++.|+|...+=|. |++.--++.++|++-+++..|
T Consensus 798 e~~~~~~p~ht~aL~~l~qsh~~ys~vvrLaKrWl~shLL~----~h~~De~iELLva~lf~~p~p 859 (1121)
T KOG2054|consen 798 EKKFIILPLHTLALQSLSQSHPFYSSVVRLAKRWLGSHLLS----GHHLDEAIELLVAALFLKPGP 859 (1121)
T ss_pred HHHHhhhHHHHHHHHHHhhcccchhHHHHHHHHHHHHHhhc----cchHHHHHHHHHHHHhcCccC
Confidence 12234556677888999999999999999998774 466688999999998888544
No 32
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=90.92 E-value=5 Score=37.37 Aligned_cols=123 Identities=16% Similarity=0.192 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEE
Q 020620 29 MKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQ 108 (323)
Q Consensus 29 ~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~ 108 (323)
..+.+.|...++.+ .+..++.+.||+.-|..+ .+|||+++..+.... ..++..+...|.+.+....+.
T Consensus 144 ~~~a~~i~~~l~~~--~~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~---------~~~~~~v~~~l~~~~~~~~~~ 211 (307)
T cd00141 144 LAIAEIIKEALREV--DPVLQVEIAGSYRRGKET-VGDIDILVTHPDATS---------RGLLEKVVDALVELGFVTEVL 211 (307)
T ss_pred HHHHHHHHHHHHhC--CCceEEEEcccccCCCCc-cCCEEEEEecCCccc---------cccHHHHHHHHHhCCCeehhh
Confidence 34455566666664 467999999999766554 369999998764311 234555666666555432211
Q ss_pred EeccCCcceE----EEEEcCCCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCC
Q 020620 109 FVAHARVPIL----KFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDIN 172 (323)
Q Consensus 109 ~i~~ArVPIi----k~~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~ 172 (323)
.....-. +..+...+..|||-+-..... .+.++.+= .. +...+-++.||+.+|..
T Consensus 212 ---~~g~~k~~~~~~~~~~~~~~rVDl~~~p~~~~-~~all~fT-Gs----~~~nr~lR~~A~~~G~~ 270 (307)
T cd00141 212 ---SKGDTKASGILKLPGGWKGRRVDLRVVPPEEF-GAALLYFT-GS----KQFNRALRRLAKEKGLK 270 (307)
T ss_pred ---hCCCceEEEEEecCCCCCceEEEEEEeCHHHH-HHHHHHhh-CC----HHHHHHHHHHHHHcCCe
Confidence 1111111 111123589999988554332 22333221 11 22333449999999875
No 33
>PF10620 MdcG: Phosphoribosyl-dephospho-CoA transferase MdcG; InterPro: IPR017557 Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61 from EC). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.; GO: 0016779 nucleotidyltransferase activity
Probab=88.13 E-value=2.6 Score=37.10 Aligned_cols=41 Identities=24% Similarity=0.335 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhhccCCCCEEEeecCcc----CCCC--CCCCCcceEEecCC
Q 020620 31 VISDLREVVESVESLRGATVEPFGSFV----SNLF--SRWGDLDISIELSN 75 (323)
Q Consensus 31 ~~~~l~~~l~~~~~~~~~~v~~fGS~~----tgl~--~~~SDiDl~i~~~~ 75 (323)
.+..++.... ..+....+|||.. ||+. .++||||+.+..+.
T Consensus 104 ~l~~l~~~~~----~~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~ 150 (213)
T PF10620_consen 104 ALQALRALLD----ALGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPS 150 (213)
T ss_pred HHHHHHHHHH----HcCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCC
Confidence 4555555553 3478999999985 4554 47899999998764
No 34
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=87.35 E-value=1.1 Score=38.73 Aligned_cols=45 Identities=20% Similarity=0.215 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 26 ETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 26 ~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
.+|+++...++.+.+. +..-..+||.+-|=..|+||+|++|..+-
T Consensus 21 ekRe~A~~i~e~l~~f-----~ie~~v~gSvarGDV~p~SDvDV~I~~~v 65 (228)
T COG2413 21 EKREKARKIMEGLSDF-----GIEAVVYGSVARGDVRPGSDVDVAIPEPV 65 (228)
T ss_pred HHHHHHHHHHHHHHHh-----cchhEEEeeeeccCcCCCCCceEEEecCC
Confidence 4666666666666654 34557899999998889999999998753
No 35
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=84.98 E-value=4.1 Score=35.68 Aligned_cols=40 Identities=20% Similarity=0.225 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhccCCCCEEEeecCcc----CCCC--CCCCCcceEEecCC
Q 020620 32 ISDLREVVESVESLRGATVEPFGSFV----SNLF--SRWGDLDISIELSN 75 (323)
Q Consensus 32 ~~~l~~~l~~~~~~~~~~v~~fGS~~----tgl~--~~~SDiDl~i~~~~ 75 (323)
++.+...... .+...-+|||.. ||+. .++||||+++..+.
T Consensus 98 l~~l~~~~~~----~~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~ 143 (207)
T PRK01293 98 LQALAALLDA----LGLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQ 143 (207)
T ss_pred HHHHHHHHHh----CCCceeeehhHHHHHhhCCccccCCCCccEeecCCC
Confidence 4444444443 378889999986 4444 46899999998764
No 36
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=84.93 E-value=5.8 Score=36.79 Aligned_cols=63 Identities=27% Similarity=0.282 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcC
Q 020620 30 KVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKG 102 (323)
Q Consensus 30 ~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~ 102 (323)
++.+.|++.+... .|++.+.+.||+.-|- ..+.|+|+.+..|.... +...++..+...+++.+
T Consensus 156 ~i~~~V~~av~~~--~p~~~vt~~GsfRRGk-~~ggDvD~LithP~~~s-------~~~~~~~~l~~~le~~g 218 (353)
T KOG2534|consen 156 AIQQTVQEAVWAF--DPEAFVTVTGSFRRGK-KMGGDVDFLITHPGSTS-------TEAKLLQLLMILLEKKG 218 (353)
T ss_pred HHHHHHHHHHhhc--CCCcEEEEeccccCCc-ccCCCeeEEEeCCCCCc-------hhhhHHHHHHHHHHhcC
Confidence 3444556666664 6899999999998764 44679999998875321 23346666666666544
No 37
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms.
Probab=84.52 E-value=1 Score=40.44 Aligned_cols=46 Identities=17% Similarity=0.070 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecC
Q 020620 28 RMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELS 74 (323)
Q Consensus 28 R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~ 74 (323)
+..+.+.++++-++. +..=.-....||.+.|+..++||.|+..+.-
T Consensus 2 ~~~i~~~l~~ie~~~-~~~il~~~~sGS~a~G~~s~dSD~D~r~vy~ 47 (247)
T PF10127_consen 2 RETIQEKLNEIEKEH-NVKILYACESGSRAYGFASPDSDYDVRGVYI 47 (247)
T ss_pred chHHHHHHHHHHHhc-CCcEEEEecccccccCCCCCCcCcccchhcc
Confidence 345566666666652 1111345677999999999999999977654
No 38
>cd05401 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins. Escherichia coli GlnD and -E participate in the Glutamine synthetase (GS)/Glutamate synthase (GOGAT) pathway for the assimilation of ammonium nitrogen. In nitrogen sufficiency, GlnE adenylates GS, reducing GS activity; when nitrogen is limiting, GlnE deadenylates GS-AMP, restoring GS activity. When nitrogen is limiting, GlnD uridylylates the nitrogen regulatory protein PII to PII-UTP, and in nitrogen sufficiency, it removes the modifying groups. The activity of Escherichia coli GlnE is modulated by PII-proteins. PII-UMP promotes GlnE deadenylation activity, and PII promotes GlnE adenylation activity. Escherichia coli GlnE has two separate NT domains. The N-terminal NT domain catalyzes the deadenylylation of GS, and the C-terminal NT domain the adenylylation reaction. The majority of proteins in this family conta
Probab=83.71 E-value=20 Score=29.93 Aligned_cols=30 Identities=13% Similarity=0.184 Sum_probs=27.0
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
+.-+..+||+.-+=..+.||+|+.++.++.
T Consensus 55 ~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~ 84 (172)
T cd05401 55 PFALLALGSYGRGELNPSSDQDLLLLYDDD 84 (172)
T ss_pred cEEEEEeCCcccCCcCCCcCcceEEEeCCC
Confidence 478999999999999999999999998753
No 39
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=80.63 E-value=27 Score=28.33 Aligned_cols=29 Identities=14% Similarity=0.164 Sum_probs=26.8
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
...+..+||..=+=.++.||+|..|+..+
T Consensus 49 ~~a~lalGS~GR~E~~~~sDqD~alv~~d 77 (138)
T PF03445_consen 49 PFAWLALGSYGRREQTLYSDQDNALVFED 77 (138)
T ss_pred CEEEEEECcccccCCCcCccccceeeecC
Confidence 46899999999999999999999999986
No 40
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=79.62 E-value=16 Score=35.02 Aligned_cols=115 Identities=17% Similarity=0.221 Sum_probs=62.5
Q ss_pred chHHHHHHHHHHcCCCHHH--HHHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCC---CCCcceEEecCCCCccc
Q 020620 6 VLEPILKDILGMLNPLRED--WETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSR---WGDLDISIELSNGSCIS 80 (323)
Q Consensus 6 ~L~~~i~~~~~~~~pt~~e--~~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~---~SDiDl~i~~~~~~~~~ 80 (323)
.|-+++..-++-..|+++- ......++..|.+++.+.....+-...+|||+..-+-.| -+|||+.=..
T Consensus 124 ~la~~~L~synv~~~~~kvmgrh~VSdLV~~V~klmeEyLrrhNk~CicYGSySlhllNp~I~YgDIDilqTN------- 196 (467)
T PHA02996 124 KLARDALNSYNVAVISEKVMGRHNVSDLVGNVNKLMEEYLRRHNKSCICYGSYSLHLLNPEIEYGDIDILQTN------- 196 (467)
T ss_pred HHHHHHHHhccccCCCccccccccccHHHHHHHHHHHHHHHhcCCceEEeeceeeeecCCccccCCcceeeec-------
Confidence 3445666666666776531 122223455555555443322455678999998766544 5899997543
Q ss_pred ccchhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEE----EEEcCCCeeEEEeecCchh
Q 020620 81 SAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILK----FETIHQNISCDISIDNLCG 138 (323)
Q Consensus 81 s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik----~~~~~~~i~~DIs~~n~~g 138 (323)
.+.+|-.++-.+.=.-+ .++.. -+||-+| +.+...+.-+| ||+-+..
T Consensus 197 ------ar~fLInlaflI~fitG-~~v~L---lkVPyLknyivlkdee~~hIiD-sfnirq~ 247 (467)
T PHA02996 197 ------SRTFLINLAFLIKFITG-RNVVL---LKVPYLKNYMVLKDEEDNHIID-SFNIRQD 247 (467)
T ss_pred ------cHHHHHHHHHHHhhhcC-ceEEE---EEcccccceEEEEecCCCEEEE-eccccHH
Confidence 33467777776653222 23333 3889765 44543333333 4544333
No 41
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=78.29 E-value=1.2 Score=41.62 Aligned_cols=24 Identities=21% Similarity=0.130 Sum_probs=20.5
Q ss_pred EEeecCccCCCCCCCCCcceEEec
Q 020620 50 VEPFGSFVSNLFSRWGDLDISIEL 73 (323)
Q Consensus 50 v~~fGS~~tgl~~~~SDiDl~i~~ 73 (323)
...+||.+.|+.+|+||+|+-=+.
T Consensus 6 ~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEecccceeCCCCCCcccccceee
Confidence 567999999999999999986443
No 42
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=76.46 E-value=12 Score=38.85 Aligned_cols=49 Identities=18% Similarity=0.300 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHhhccC-CCCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 26 ETRMKVISDLREVVESVESL-RGATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 26 ~~R~~~~~~l~~~l~~~~~~-~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
+.|+.+...-..++++. .. .+..+...|++.-|--.|.||||+.++.++
T Consensus 6 ~~~~~~~~~~~~~~~~~-~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~ 55 (693)
T PRK00227 6 QLREDAEASALALLGSL-QLPPGTALAATGSLARREMTPYSDLDLILLHPP 55 (693)
T ss_pred HHHHHHHHHHHHHHHhc-CCCCCeEEEEeccccccCcCCCcCceEEEEeCC
Confidence 46777888888888875 35 457899999999999999999999999874
No 43
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=76.30 E-value=1.4 Score=39.26 Aligned_cols=21 Identities=24% Similarity=0.080 Sum_probs=18.4
Q ss_pred ecCccCCCCCCCCCcceEEec
Q 020620 53 FGSFVSNLFSRWGDLDISIEL 73 (323)
Q Consensus 53 fGS~~tgl~~~~SDiDl~i~~ 73 (323)
=||.+.|+..|+||+|+-.+.
T Consensus 16 sGS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred ccccccCCCCCCCccceeeEE
Confidence 399999999999999997654
No 44
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=75.68 E-value=12 Score=31.95 Aligned_cols=91 Identities=16% Similarity=0.211 Sum_probs=48.9
Q ss_pred HHHHHHhhccCCCCEEEeecCccC----CCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEe
Q 020620 35 LREVVESVESLRGATVEPFGSFVS----NLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFV 110 (323)
Q Consensus 35 l~~~l~~~~~~~~~~v~~fGS~~t----gl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i 110 (323)
+..+++.+. ..+.++.+.|+++. |.--.++|||+.+..++.. ...+.++.++. ..++-......
T Consensus 5 l~~~~~~L~-~~gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~--------~~~~~~~~~a~---~~g~~~~~~~~ 72 (181)
T PF09970_consen 5 LKEILEELN-KRGVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPN--------LEADALREVAE---ENGWDLGWTDF 72 (181)
T ss_pred HHHHHHHHH-HcCCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchH--------HHHHHHHHHHH---HcCCCcCcccc
Confidence 344444432 35789999999974 4445678999998765321 12234555543 22221111111
Q ss_pred ccCCcceEEEEEcCCCeeEEEeecCchhhhh
Q 020620 111 AHARVPILKFETIHQNISCDISIDNLCGQIK 141 (323)
Q Consensus 111 ~~ArVPIik~~~~~~~i~~DIs~~n~~g~~~ 141 (323)
...-.++++. ..++.+|+ +.|..|+.-
T Consensus 73 -~~~~~~~~~~--~~~v~IDl-~~ni~~~~v 99 (181)
T PF09970_consen 73 -GTPRYVVKVG--GEDVRIDL-LENIGDFYV 99 (181)
T ss_pred -CCCceEEEeC--CCCeEEEc-hhccCCccc
Confidence 1222334444 47899999 656666543
No 45
>PRK08609 hypothetical protein; Provisional
Probab=69.80 E-value=50 Score=33.62 Aligned_cols=43 Identities=16% Similarity=0.168 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 30 KVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 30 ~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
.+.+.|...++.+ .+..++.+-||+.-|-.+ .+|||+++..++
T Consensus 160 ~~a~~i~~~l~~~--~~~~~v~~~GS~RR~~et-~gDiDili~~~~ 202 (570)
T PRK08609 160 PIAQEIEEYLATI--DEIIRFSRAGSLRRARET-VKDLDFIIATDE 202 (570)
T ss_pred HHHHHHHHHHHhC--CCccEEEeccchhccccc-cCCeeEEEecCC
Confidence 3444555556553 356799999999876655 359999997654
No 46
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=67.99 E-value=20 Score=38.42 Aligned_cols=148 Identities=18% Similarity=0.217 Sum_probs=83.8
Q ss_pred CCCEEE-eecCccCCCCC-CCCCcceEEecCCCCcccc---cchhh--HHHHHHHHHHHHHhcCCcceEEEecc---CCc
Q 020620 46 RGATVE-PFGSFVSNLFS-RWGDLDISIELSNGSCISS---AGKKV--KQSLLGDLLRALRQKGGYRRLQFVAH---ARV 115 (323)
Q Consensus 46 ~~~~v~-~fGS~~tgl~~-~~SDiDl~i~~~~~~~~~s---~~~~~--~~~~l~~l~~~L~~~~~~~~v~~i~~---ArV 115 (323)
+..++. +-||+.+|..+ |++-+|+.+..|....... +.|.. +.-.|..++..|.....+...+.... -+-
T Consensus 146 ~p~~v~~vv~sal~~~~~~P~i~vDvll~mP~e~~~~kd~ln~Ryf~kra~yla~~~~hl~e~l~~~~~~f~~~n~d~~~ 225 (1121)
T KOG2054|consen 146 PPAQVTKVVGSALLGTCLRPDISVDVLLTMPREILQQKDGLNQRYFRKRALYLAYLAHHLLEDLLFGSLEFSYTNGDHLK 225 (1121)
T ss_pred CccccceeeeecccCcccCCcchhhhhhhhhHHhhcCcccccccccchHHHHHHHHHHHHHhccccceeeecccCCcccc
Confidence 344555 56788887776 6799999999885321110 01111 22356667777776665555443222 355
Q ss_pred ceEEEEEcCCC------eeEEE--ee--------------cC-----------chhhhhh------------HHHHHHhc
Q 020620 116 PILKFETIHQN------ISCDI--SI--------------DN-----------LCGQIKS------------KFLFWISQ 150 (323)
Q Consensus 116 PIik~~~~~~~------i~~DI--s~--------------~n-----------~~g~~~s------------~li~~~~~ 150 (323)
||+...-.+.+ -..|. -+ |+ .....|+ +++..-.+
T Consensus 226 pil~i~~~~~~~~~~~~~~~~~li~~~~~~f~~~kllp~~~~ir~~~e~~e~ppTP~yN~svL~~~~le~~~q~L~K~~s 305 (1121)
T KOG2054|consen 226 PILLIRPRGKDERLVTVRPPDFLIPCRLLPFKNNKLLPWYNGIRPAGEGSEEPPTPRYNTSVLEDQVLEEYLQLLSKTLS 305 (1121)
T ss_pred chhhccccCCccccccccCccccccccccccccccccchhcccCccccCCCCCCCCccchhHHHHHHHHHHHHHHHHHHh
Confidence 77766532111 00111 00 00 0111222 12222233
Q ss_pred cchhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhc
Q 020620 151 IDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQT 194 (323)
Q Consensus 151 ~~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~ 194 (323)
..+.++..+.++|.|+++|.+.. ..||++++-|++++++-+-+
T Consensus 306 ~~~~f~da~~Llk~WlrqRs~~~-~~~gfg~f~~s~lvv~L~s~ 348 (1121)
T KOG2054|consen 306 SAKGFKDALALLKVWLRQRSLDI-GQGGFGGFLLSALVVYLVST 348 (1121)
T ss_pred hhhhHHHHHHHHHHHHHhhhhhc-ccCcchHHHHHHHHHHHHhc
Confidence 45789999999999999995432 46899999999988865555
No 47
>PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional
Probab=66.73 E-value=1.3e+02 Score=29.11 Aligned_cols=153 Identities=17% Similarity=0.159 Sum_probs=85.3
Q ss_pred cchHHHHHHHH-HHcCCCHHHHHHHHH-----------------HHHHHHHHHHhhccCCCCEEEeecCccC-CCCCCCC
Q 020620 5 NVLEPILKDIL-GMLNPLREDWETRMK-----------------VISDLREVVESVESLRGATVEPFGSFVS-NLFSRWG 65 (323)
Q Consensus 5 ~~L~~~i~~~~-~~~~pt~~e~~~R~~-----------------~~~~l~~~l~~~~~~~~~~v~~fGS~~t-gl~~~~S 65 (323)
..|..++.+++ .++.|-..++..|.. .++..+..|....+..-.+|.-+||++- |+.-+.
T Consensus 180 e~l~~~v~~~l~~~~~~~~~~~~~~~~~~~~~v~v~~ydp~W~~~f~~e~~~l~~~l~~~~~~IeHIGSTsVpGl~AKP- 258 (395)
T PRK03333 180 DELVEAVRALWADRLLPFAHNLRARRRAARAPPRLVPADPSWPAQAQRIVARLKTAAGHKALRVDHIGSTAVPGLDAKD- 258 (395)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHhcCCCCCCCCceEeCCCCCcHHHHHHHHHHHHHhcCccceEEEEeccCCCCCCccCC-
Confidence 34555555544 455676666654432 3555556666554334468999999954 887765
Q ss_pred CcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEE-----eccCCcceE--EEEE-cCC---CeeEEEeec
Q 020620 66 DLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQF-----VAHARVPIL--KFET-IHQ---NISCDISID 134 (323)
Q Consensus 66 DiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~-----i~~ArVPIi--k~~~-~~~---~i~~DIs~~ 134 (323)
.|||.+..++.. -+..+...|...+-...-+. .+...+|-. ++.. ... -..+-++..
T Consensus 259 iIDI~v~V~~~~------------~~~~~~~~l~~~Gy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~lHv~~~ 326 (395)
T PRK03333 259 VIDIQVTVESLA------------VADELAEPLAAAGFPRLPGITQDTPKPDDPDPALWGKRLHASADPGRPVNLHVRVD 326 (395)
T ss_pred eeeEEEeeCChH------------HHHHHHHHHHHCCCcccccccccCCCcCCCCCcccceeeeccCCCCCcEEEEEecC
Confidence 777777665321 12233444444332111010 111233321 2211 111 145555554
Q ss_pred CchhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCC
Q 020620 135 NLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHD 170 (323)
Q Consensus 135 n~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~ 170 (323)
+.....+.-+++.|+..+|..+.-+--+|.=+....
T Consensus 327 ~~~~~~~~l~FRDyLr~~p~~~~~Y~~lK~~la~~~ 362 (395)
T PRK03333 327 GWPGQRFALLFRDWLRADPAARAEYLAVKRRAARRA 362 (395)
T ss_pred CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhC
Confidence 444556677789999999999999999998766553
No 48
>PRK05007 PII uridylyl-transferase; Provisional
Probab=64.85 E-value=43 Score=36.06 Aligned_cols=30 Identities=13% Similarity=0.205 Sum_probs=26.9
Q ss_pred CCCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 46 RGATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 46 ~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
++..+...|++.-|--.|.|||||.++.+.
T Consensus 79 ~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 108 (884)
T PRK05007 79 PDLALVAVGGYGRGELHPLSDIDLLILSRK 108 (884)
T ss_pred CceEEEecCCCCCcccCCcccceEEEEeCC
Confidence 357899999999999999999999999874
No 49
>PF04229 GrpB: GrpB protein; InterPro: IPR007344 This family of uncharacterised proteins is also known as GrpB.; PDB: 2NRK_A.
Probab=64.52 E-value=33 Score=28.84 Aligned_cols=105 Identities=14% Similarity=0.082 Sum_probs=55.8
Q ss_pred CCEEEeecCccC-CCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEE-E----
Q 020620 47 GATVEPFGSFVS-NLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILK-F---- 120 (323)
Q Consensus 47 ~~~v~~fGS~~t-gl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik-~---- 120 (323)
-.+|.-.||++- |+.-+. .|||.+..++.... ..+...|... ++... .....+|=-. |
T Consensus 32 ~~~IeHIGSTsVpgl~AKp-iIDI~v~V~~~~~~------------~~~~~~L~~~-Gy~~~--~~~~~~~~~~~f~k~~ 95 (167)
T PF04229_consen 32 ALRIEHIGSTSVPGLAAKP-IIDILVGVEDLEDL------------DAYIEALEAL-GYVYN--RGEPGIPGRRFFRKGD 95 (167)
T ss_dssp EEEEEEESGGGSTT--B-S--EEEEEEES-SGGG------------GGGHHHHHHT-T-EE----TTTTSTTEEEEEE--
T ss_pred hhEEEEeccceeCCcccCC-eeeEEeccCChHHH------------HHHHHHHHHc-CCEec--CCCCCCccceeeEccC
Confidence 458999999966 776665 78888877653321 1122333332 22111 1233333211 1
Q ss_pred EEcCCCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHHHHHH
Q 020620 121 ETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAK 167 (323)
Q Consensus 121 ~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k 167 (323)
........+-|+..+.....+--.++.|+..+|..+.-.--+|.=+.
T Consensus 96 ~~~~~~~hlhv~~~~~~~~~~~l~FRDyLr~~p~~~~~Y~~lK~~la 142 (167)
T PF04229_consen 96 EDGERTHHLHVCPAGSPEWRRHLLFRDYLRAHPELRREYEALKRELA 142 (167)
T ss_dssp -SSS--EEEEEEETT-HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred CCCCccEEEEEEeCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHH
Confidence 12223355555555544556677789999999999999999998554
No 50
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=62.16 E-value=9.7 Score=34.63 Aligned_cols=30 Identities=17% Similarity=0.232 Sum_probs=25.9
Q ss_pred CCCCEEEeecCccCCCCCCCCCcceEEecC
Q 020620 45 LRGATVEPFGSFVSNLFSRWGDLDISIELS 74 (323)
Q Consensus 45 ~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~ 74 (323)
-|--++-+-||...|+.-.+||||+++-.+
T Consensus 119 Vp~~~mGVTGSiL~gl~~~nSDIDfVVYG~ 148 (315)
T COG1665 119 VPVNSMGVTGSILLGLYDENSDIDFVVYGQ 148 (315)
T ss_pred CchhhccccccccccccCCCCCceEEEEcH
Confidence 455677889999999999999999999873
No 51
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=59.01 E-value=56 Score=34.51 Aligned_cols=30 Identities=13% Similarity=0.267 Sum_probs=27.1
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
+.-+...|.+.-|--.|.||||+.++.|..
T Consensus 66 ~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~ 95 (867)
T COG2844 66 GLALVAVGGYGRGELHPLSDIDLLLLSPQK 95 (867)
T ss_pred ceEEEEeccccccccCCCccceEEEecCCC
Confidence 378999999999999999999999998864
No 52
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=58.73 E-value=27 Score=32.95 Aligned_cols=45 Identities=24% Similarity=0.209 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 29 MKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 29 ~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
..+.+.|...++.+ .|..++.+.||+.=|..+ .+|||+++..++.
T Consensus 148 ~~i~~~i~~~l~~~--~~~~~v~i~GSyRRgket-~gDIDili~~~~~ 192 (334)
T smart00483 148 FAVEYIVKRAVRKI--LPDAIVTLTGSFRRGKET-GHDVDFLITSPHP 192 (334)
T ss_pred HHHHHHHHHHHHhh--CCCcEEEEecccccCCCc-CCCeeEEEecCCc
Confidence 34555566666665 578999999999876655 3599999987753
No 53
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=58.44 E-value=56 Score=35.02 Aligned_cols=29 Identities=21% Similarity=0.218 Sum_probs=26.0
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
++.+...|++.-|---|.|||||.++.+.
T Consensus 56 ~iaLvAvGGYGR~eL~P~SDIDlliL~~~ 84 (854)
T PRK01759 56 DLALIAVGGYGRREMFPLSDLDILILTEQ 84 (854)
T ss_pred CeEEEEeCCcccccCCCcccceEEEEeCC
Confidence 35899999999999999999999999874
No 54
>PRK04374 PII uridylyl-transferase; Provisional
Probab=54.83 E-value=68 Score=34.48 Aligned_cols=29 Identities=14% Similarity=0.247 Sum_probs=26.1
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
+.-+...|++.-|--.|.|||||.++.+.
T Consensus 72 ~~alvAvGgYGR~EL~p~SDIDLliL~~~ 100 (869)
T PRK04374 72 GLSLHAVGGYGRGELFPRSDVDLLVLGET 100 (869)
T ss_pred CEEEEEcCCccccccCCcccceEEEEecC
Confidence 36899999999999999999999999874
No 55
>PF03296 Pox_polyA_pol: Poxvirus poly(A) polymerase nucleotidyltransferase domain; InterPro: IPR024231 Poly(A) polymerase (2.7.7.19 from EC) catalyses template-independent extension of the 3'-end of a DNA or RNA strand by one nucleotide at a time. The Poxvirus enzyme creates the 3'(poly)A tail of mRNAs, and is a heterodimer of a catalytic and a regulatory subunit. This entry represents the nucleotidyltransferase domain of the catalytic subunit [].; PDB: 3ERC_C 3ER8_D 3OWG_A 2GA9_D 2GAF_D 3ER9_B.
Probab=54.65 E-value=1.1e+02 Score=24.97 Aligned_cols=108 Identities=19% Similarity=0.310 Sum_probs=46.3
Q ss_pred HHHHHHHHHcCCCHHHHHHHH---HHHHHHHHHHHhhccCCCCEEEeecCccCCCCC---CCCCcceEEecCCCCccccc
Q 020620 9 PILKDILGMLNPLREDWETRM---KVISDLREVVESVESLRGATVEPFGSFVSNLFS---RWGDLDISIELSNGSCISSA 82 (323)
Q Consensus 9 ~~i~~~~~~~~pt~~e~~~R~---~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~---~~SDiDl~i~~~~~~~~~s~ 82 (323)
+++..-++-..|+.+- ..|. .++..+.+++.+.....+-+..+|||+..-+-. +-+|||+.=..
T Consensus 10 ~~~l~s~~v~~~~~~~-~grh~vS~lV~~V~klmeEyLrrhNk~CicYGSyslhllN~~I~YgDIDilqTN--------- 79 (149)
T PF03296_consen 10 SDYLNSYNVANPSGKV-MGRHNVSDLVENVNKLMEEYLRRHNKSCICYGSYSLHLLNPNIKYGDIDILQTN--------- 79 (149)
T ss_dssp HHHHHHH--S--------------THHHHHHHHHHHHHHH-TTTEEEESHHHHHTTSTTS--SS-EEEEST---------
T ss_pred HHHHHHhcccccCccc-cccccCcHHHHHHHHHHHHHHHhhCCCeEEeeeeeEEecCCCcccCcchhhhcc---------
Confidence 3333444445555533 3333 234444444433221234456889999765554 45899996432
Q ss_pred chhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceE----EEEEcCCCeeEEEeecC
Q 020620 83 GKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPIL----KFETIHQNISCDISIDN 135 (323)
Q Consensus 83 ~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIi----k~~~~~~~i~~DIs~~n 135 (323)
.+.+|-.++..+.=.-+ .++... +||.+ -+.|...+.-+| ||+-
T Consensus 80 ----ar~flI~laflI~fitG-~~~~L~---kvPyLknyivlkd~~~~hIiD-sfni 127 (149)
T PF03296_consen 80 ----ARTFLINLAFLIKFITG-RDVVLL---KVPYLKNYIVLKDEEDNHIID-SFNI 127 (149)
T ss_dssp ----HHHHHHHHHHHHHHHCS-S-EEEE---EETTSTTEEEEEETTS-EEEE-EEE-
T ss_pred ----cHHHHHHHHHHHhhhcC-cceEEE---EchhhhceEEEEecCCCEEEE-eecc
Confidence 44577777776654222 223322 77744 455544444444 4543
No 56
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=52.41 E-value=2e+02 Score=26.91 Aligned_cols=122 Identities=16% Similarity=0.169 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEE
Q 020620 30 KVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQF 109 (323)
Q Consensus 30 ~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~ 109 (323)
.+...+...+.++ .+-.++..-||..-|-.+ .+|||+.+...... . +.+.+.+.+.+..+..
T Consensus 165 ~ia~ei~~yl~~~--~~~~~~~~aGs~RR~ret-v~DiD~~~s~~~~~-----------~----v~~~~~~~~~~~~vi~ 226 (326)
T COG1796 165 PIAQEIEGYLEEL--TPIIQASIAGSLRRGRET-VGDIDILISTSHPE-----------S----VLEELLEMPNVQEVIA 226 (326)
T ss_pred HHHHHHHHHHHhc--cchheeeeccchhhcccc-ccceeeEeccCCcH-----------H----HHHHHhcCCCcceeee
Confidence 4455566666554 234677778887755443 46999999865321 1 3444444455555555
Q ss_pred eccCCcceEEEEEcCCCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCC
Q 020620 110 VAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTG 177 (323)
Q Consensus 110 i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G 177 (323)
-...++-.+.-.+ .|+.||+-+-.....-.+ ++.+--+. .--.-++..|+.+|..-+..|
T Consensus 227 ~G~~k~s~~~~~~--~~~svD~r~v~~e~fGaa-l~~fTGSk-----ehNi~iR~lA~~kg~klseyG 286 (326)
T COG1796 227 KGETKVSMLLILD--EGTSVDFRVVPPEAFGAA-LQHFTGSK-----EHNIKIRQLAKAKGEKLSEYG 286 (326)
T ss_pred cCCceeeEEEEec--CCCeeEEEEcCHHHhhhh-hhhcccch-----hhhHHHHHHHHHhCcchhhcc
Confidence 4455555555554 788999977554443333 22221111 223346677888887655443
No 57
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=47.90 E-value=1.3e+02 Score=32.56 Aligned_cols=30 Identities=17% Similarity=0.355 Sum_probs=26.5
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSNG 76 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~ 76 (323)
+..+...|++.-|--.|.|||||.++.++.
T Consensus 78 ~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 78 DIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred CEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 468899999999999999999999998743
No 58
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=46.39 E-value=1.5e+02 Score=31.74 Aligned_cols=30 Identities=13% Similarity=0.329 Sum_probs=26.8
Q ss_pred CCCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 46 RGATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 46 ~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
.+.-+...||+.-|--.|.||+|+.++.++
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~ 71 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDG 71 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCC
Confidence 356899999999999999999999999874
No 59
>PRK03059 PII uridylyl-transferase; Provisional
Probab=42.54 E-value=71 Score=34.25 Aligned_cols=29 Identities=21% Similarity=0.434 Sum_probs=26.2
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
+.-+...|++.-|--.|.|||||.++.++
T Consensus 61 ~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 61 GAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred CeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 46899999999999999999999999864
No 60
>PF12633 Adenyl_cycl_N: Adenylate cyclase NT domain; InterPro: IPR024685 Adenylate cyclase is the enzyme responsible for the synthesis of cAMP from ATP. On the basis of sequence similarity, it has been proposed that there are three different classes of adenylate cyclases [, ]. Class I cyclases are found in enterobacteria and related Gram-negative bacteria. This entry represents the N-terminal domain of class-I adenylate cyclases.
Probab=39.50 E-value=78 Score=27.67 Aligned_cols=27 Identities=30% Similarity=0.107 Sum_probs=23.7
Q ss_pred EEEeecCccCCCCCCCCCcceEEecCC
Q 020620 49 TVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 49 ~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
-++.-||..|=...+.||+|+=|+...
T Consensus 99 GlY~MGS~gSi~Qs~~SDlDiWvCh~~ 125 (204)
T PF12633_consen 99 GLYSMGSTGSIGQSSSSDLDIWVCHDS 125 (204)
T ss_pred EEEecCCCccccCCCCCCCeEEEEcCC
Confidence 678889999988899999999998764
No 61
>PF11774 Lsr2: Lsr2 ; InterPro: IPR024412 This entry represents Lsr2, which is a small, basic DNA-bridging protein present in Mycobacterium and related actinomycetes. It is a functional homologue of the H-NS-like proteins []. H-NS proteins play a role in nucleoid organisation and also function as a pleiotropic regulator of gene expression [, ].; PDB: 4E1R_B 4E1P_B 2KNG_A.
Probab=39.16 E-value=44 Score=26.13 Aligned_cols=65 Identities=15% Similarity=0.197 Sum_probs=38.2
Q ss_pred ceEEEEEcCCCeeEEEeecCchhhhhhHHHHHHhcc------------------chhhHHHHHHHHHHHHHCCCCCCCCC
Q 020620 116 PILKFETIHQNISCDISIDNLCGQIKSKFLFWISQI------------------DGRFRDMVLLVKEWAKAHDINNPKTG 177 (323)
Q Consensus 116 PIik~~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~------------------~~~~~~L~~~iK~w~k~~~l~~~~~G 177 (323)
-.|.|...+...++|+|-.|..-++.+ |.-|... -..-++-..-|+.||+..|+.-+.+|
T Consensus 20 etv~F~ldG~~YeIDLs~~na~~lr~~--l~~yi~~arr~~g~~~~~~~~~~~~~~~~~~~~~~IR~WA~~nG~~Vs~RG 97 (110)
T PF11774_consen 20 ETVRFGLDGVDYEIDLSAENAAKLRDA--LAPYIAAARRVGGRARRRRRRARSAAAAPREDTAAIREWARENGYEVSDRG 97 (110)
T ss_dssp EEEEEEETTEEEEEEE-HHHHHHHHHH--HHHHHHHSEEE---------SSGGG---SSTHHHHHHHHHHHTT----SSS
T ss_pred eEEEEEECCeEEEEECCHHHHHHHHHH--HHHHHHHheEccccccccccCccccCCCCccchHHHHHHHHHcCCcCCCCC
Confidence 367777767788999998876665552 3333221 12345677899999999999998899
Q ss_pred CCChH
Q 020620 178 TFNSY 182 (323)
Q Consensus 178 ~lssy 182 (323)
-++.=
T Consensus 98 RIp~~ 102 (110)
T PF11774_consen 98 RIPAE 102 (110)
T ss_dssp ---HH
T ss_pred cCCHH
Confidence 88753
No 62
>PF03710 GlnE: Glutamate-ammonia ligase adenylyltransferase; InterPro: IPR005190 This is a conserved repeated domain found in GlnE proteins. These proteins adenylate and deadenylate glutamine synthases: ATP + {L-Glutamate:ammonia ligase (ADP-forming)} = Diphosphate + Adenylyl-{L-Glutamate:Ammonia ligase (ADP-forming)}. The domain is related to the nucleotidyltransferase domain IPR002934 from INTERPRO.; GO: 0008882 [glutamate-ammonia-ligase] adenylyltransferase activity; PDB: 1V4A_A 3K7D_A.
Probab=34.64 E-value=1.1e+02 Score=27.40 Aligned_cols=52 Identities=15% Similarity=0.163 Sum_probs=23.6
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHH
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALR 99 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~ 99 (323)
+.-|...|-...+=-...||||++++.+..... ........++..++.+.+.
T Consensus 127 ~~~ViamGKlGg~ELny~SDiDLifvy~~~~~~-~~~~~~~~~~~~rl~~~~~ 178 (247)
T PF03710_consen 127 GFAVIAMGKLGGRELNYSSDIDLIFVYDPDGET-GRRSISNQEFFTRLAQRLI 178 (247)
T ss_dssp SEEEEE-HHHHTT---TT--EEEEEEE---TT--SSS-SBHHHHHHHHHHHHH
T ss_pred CeEEEEeccccccccCCccCCceEEEecccccc-ccChhhHHHHHHHHHHHHH
Confidence 356666676665556788999999998864432 1111123345555555443
No 63
>PRK03381 PII uridylyl-transferase; Provisional
Probab=33.44 E-value=94 Score=32.93 Aligned_cols=29 Identities=17% Similarity=0.327 Sum_probs=26.1
Q ss_pred CCEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 47 GATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 47 ~~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
..-+...|++.-|--.|.||||+.++.++
T Consensus 57 ~~alvAvg~~gr~el~p~SD~Dll~l~~~ 85 (774)
T PRK03381 57 GVALVAVGGLGRRELLPYSDLDLVLLHDG 85 (774)
T ss_pred CeEEEEeCCcCCcCcCCCCCCeEEEEeCC
Confidence 36889999999999999999999999873
No 64
>cd05398 NT_ClassII-CCAase Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes. CCA-adding enzymes add the sequence [cytidine(C)-cytidine-adenosine (A)], one nucleotide at a time, onto the 3' end of tRNA, in a template-independent reaction. This Class II group is comprised mainly of eubacterial and eukaryotic enzymes and includes Bacillus stearothermophilus CCAase, Escherichia coli poly(A) polymerase I, human mitochondrial CCAase, and Saccharomyces cerevisiae CCAase (CCA1). CCA-adding enzymes have a single catalytic pocket, which recognizes both ATP and CTP substrates. Included in this subgroup are CC- and A-adding enzymes from various ancient species of bacteria such as Aquifex aeolicus; these enzymes collaborate to add CCA to tRNAs. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal io
Probab=32.30 E-value=2.7e+02 Score=22.44 Aligned_cols=81 Identities=15% Similarity=0.188 Sum_probs=44.7
Q ss_pred HHHHHHhhccCCCCEEEeecCccCCCC--CCCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceEEEecc
Q 020620 35 LREVVESVESLRGATVEPFGSFVSNLF--SRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAH 112 (323)
Q Consensus 35 l~~~l~~~~~~~~~~v~~fGS~~tgl~--~~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ 112 (323)
+.++++.+....+.++++.|-++=.+- .+..|+|+++.... .+.+..+.+. ....-+. ..
T Consensus 4 ~~~il~~l~~~~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~~------------~~~~~~l~~~----~~~~~v~--~~ 65 (139)
T cd05398 4 LLKLLRELKKALGYEAYLVGGAVRDLLLGRPPKDIDIATDADG------------PEFAEALFKK----IGGRVVG--LG 65 (139)
T ss_pred HHHHHHHHHhccCceEEEECChHHHHHcCCCCCCceEEEeCCC------------HHHHHHHHHh----cCCcEEe--cC
Confidence 334444432113788999998875433 35679999987531 1123333332 1112121 23
Q ss_pred CCcceEEEEEcCCCeeEEEeecC
Q 020620 113 ARVPILKFETIHQNISCDISIDN 135 (323)
Q Consensus 113 ArVPIik~~~~~~~i~~DIs~~n 135 (323)
.+-+.+++.. .+..+||+.-.
T Consensus 66 ~~f~t~~v~~--~~~~~di~~~R 86 (139)
T cd05398 66 EEFGTATVVI--NGLTIDVATLR 86 (139)
T ss_pred CcccEEEEEE--CCEEEEEcccc
Confidence 5667777776 47888887643
No 65
>PF07796 DUF1638: Protein of unknown function (DUF1638); InterPro: IPR012437 This entry contains sequences covering an approximately 270 amino acid stretch of a group of hypothetical proteins and are confined to Bacteria and Archaea.
Probab=28.39 E-value=1.1e+02 Score=25.59 Aligned_cols=40 Identities=15% Similarity=0.090 Sum_probs=28.1
Q ss_pred HHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcc---eEEe
Q 020620 33 SDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLD---ISIE 72 (323)
Q Consensus 33 ~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiD---l~i~ 72 (323)
+.|++.|.+.....+.-+..||.+..|+.+..++++ +++.
T Consensus 16 ~~lq~~id~~~~~~d~Ill~YG~Cg~~~g~~~~~~~~~~~~~~ 58 (166)
T PF07796_consen 16 KELQEEIDKASKDYDGILLFYGLCGNGLGLIARRLPELGLVIP 58 (166)
T ss_pred HHHHHHHHHhhccCCeEEEEEeCCCCccchhhhhccccceeEe
Confidence 344555555422456778899999999988888888 7763
No 66
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=27.55 E-value=2e+02 Score=22.38 Aligned_cols=54 Identities=17% Similarity=0.159 Sum_probs=35.8
Q ss_pred HHHHHHHHhhccCCCCEEEeecCccCCCCC---CCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHh
Q 020620 33 SDLREVVESVESLRGATVEPFGSFVSNLFS---RWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQ 100 (323)
Q Consensus 33 ~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~---~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~ 100 (323)
..+-+.+++. +|++.+..-|..++...- ...++|.++.... ...+.++.+.+.+
T Consensus 56 ~~~~~~ik~~--~p~~~iv~GG~~~t~~p~~~~~~~~~D~vv~GEg------------E~~~~~l~~~l~~ 112 (127)
T cd02068 56 LELAKIAKEV--LPNVIVVVGGPHATFFPEEILEEPGVDFVVIGEG------------EETFLKLLEELEE 112 (127)
T ss_pred HHHHHHHHHH--CCCCEEEECCcchhhCHHHHhcCCCCCEEEECCc------------HHHHHHHHHHHHc
Confidence 3444556665 689999999999885543 3568999987653 1345556666654
No 67
>PF03281 Mab-21: Mab-21 protein
Probab=27.08 E-value=3.2e+02 Score=24.73 Aligned_cols=61 Identities=18% Similarity=0.250 Sum_probs=43.4
Q ss_pred CCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcC
Q 020620 125 QNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTC 195 (323)
Q Consensus 125 ~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~ 195 (323)
.+...-+||.. .-..+++.. ....+..++++|....... ...++|+||.|-.++.|-+...
T Consensus 170 ~~~~Wrlsf~~----~E~~ll~~~---~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~ 230 (292)
T PF03281_consen 170 SENSWRLSFSV----AERQLLKNL---NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKH 230 (292)
T ss_pred CCceEEEehHH----HHHHHHHhc---cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcC
Confidence 45666666632 223455544 5567889999999987776 4457899999999988877775
No 68
>PHA03301 envelope glycoprotein L; Provisional
Probab=22.74 E-value=1e+02 Score=26.52 Aligned_cols=42 Identities=19% Similarity=0.219 Sum_probs=36.9
Q ss_pred CCCccchHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHHHhh
Q 020620 1 MGSYNVLEPILKDILGMLNP-LREDWETRMKVISDLREVVESV 42 (323)
Q Consensus 1 ~~~~~~L~~~i~~~~~~~~p-t~~e~~~R~~~~~~l~~~l~~~ 42 (323)
++||-.+...++++...+.| ...|-..|..+++.++.++.+-
T Consensus 96 VNPfl~~~GfleDl~~~~~p~~~~et~tR~aL~ke~r~Al~Sr 138 (226)
T PHA03301 96 VNPFLFAAGFLEDLSHALFPANALETTTRRALYKEVRLALASR 138 (226)
T ss_pred eChHHHHHHHHHHhhhhcccccccchhHHHHHHHHHHHHHHhc
Confidence 46788899999999999999 6778999999999999999863
No 69
>PF14907 NTP_transf_5: Uncharacterised nucleotidyltransferase
Probab=22.70 E-value=4.7e+02 Score=22.74 Aligned_cols=81 Identities=21% Similarity=0.311 Sum_probs=40.3
Q ss_pred HHHHHHHhhccCCCCEEEee-cCccCCC----CC-CCCCcceEEecCCCCcccccchhhHHHHHHHHHHHHHhcCCcceE
Q 020620 34 DLREVVESVESLRGATVEPF-GSFVSNL----FS-RWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRL 107 (323)
Q Consensus 34 ~l~~~l~~~~~~~~~~v~~f-GS~~tgl----~~-~~SDiDl~i~~~~~~~~~s~~~~~~~~~l~~l~~~L~~~~~~~~v 107 (323)
.+.++++.+ ...++.+.++ |.....+ +. +.+|||+.|...+ +.++.+.|.+.+ +...
T Consensus 59 ~~~~i~~~l-~~~gI~~~~lKG~~l~~~Y~~~~~R~~~DiDlLV~~~d---------------~~~a~~~L~~~G-y~~~ 121 (249)
T PF14907_consen 59 ELQEILAAL-NANGIPVILLKGAALAQLYPDPGLRPMGDIDLLVPPED---------------LERAVELLEELG-YRIE 121 (249)
T ss_pred HHHHHHHHH-HHcCCCEEEEchHHHHHhCCCCCCCCCCCeEEEEeCCc---------------HHHHHHHHHHcC-CEec
Confidence 445555443 2357777777 4443321 22 2479999986321 234445555443 2211
Q ss_pred EEeccCCcceEEEEEcCCCeeEEEeecC
Q 020620 108 QFVAHARVPILKFETIHQNISCDISIDN 135 (323)
Q Consensus 108 ~~i~~ArVPIik~~~~~~~i~~DIs~~n 135 (323)
.. ... -..+.+...|+.||+...-
T Consensus 122 ~~--~~~--~~~~~~~~~~~~idlH~~l 145 (249)
T PF14907_consen 122 SP--SEH--HWVYSHEPKGISIDLHWRL 145 (249)
T ss_pred cC--CCc--ceEEEecCCCEEEEEEecC
Confidence 11 111 1122222478999998754
No 70
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=22.16 E-value=1.8e+02 Score=31.88 Aligned_cols=28 Identities=14% Similarity=0.084 Sum_probs=25.4
Q ss_pred CEEEeecCccCCCCCCCCCcceEEecCC
Q 020620 48 ATVEPFGSFVSNLFSRWGDLDISIELSN 75 (323)
Q Consensus 48 ~~v~~fGS~~tgl~~~~SDiDl~i~~~~ 75 (323)
.-|..+|++.-+=-.+.||+|++++.+.
T Consensus 724 ~avia~Gk~Gr~EL~~~SDlDl~fl~~~ 751 (1007)
T PRK14109 724 IAVIGMGRLGGRELGYGSDADVMFVHEP 751 (1007)
T ss_pred EEEEEeccccccccCCCCCCcEEEEeCC
Confidence 6899999999998999999999999874
No 71
>KOG2670 consensus Enolase [Carbohydrate transport and metabolism]
Probab=22.05 E-value=81 Score=29.63 Aligned_cols=9 Identities=22% Similarity=0.549 Sum_probs=5.9
Q ss_pred eEEeCCCcC
Q 020620 296 LFVNSPFPF 304 (323)
Q Consensus 296 l~IeDPfd~ 304 (323)
++||||||.
T Consensus 292 vSiEDPFdq 300 (433)
T KOG2670|consen 292 VSIEDPFDQ 300 (433)
T ss_pred eeecCCcch
Confidence 567777765
No 72
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=20.93 E-value=88 Score=30.54 Aligned_cols=46 Identities=17% Similarity=0.125 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhhccCCCCEEEeecCccCCCCCC-----------CCCcceEEecCCCC
Q 020620 30 KVISDLREVVESVESLRGATVEPFGSFVSNLFSR-----------WGDLDISIELSNGS 77 (323)
Q Consensus 30 ~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~-----------~SDiDl~i~~~~~~ 77 (323)
.++.++.+.++.- +|.+++..|...+-|-.-+ ..+.|++|+.-++.
T Consensus 147 Aa~~D~~~~~~~r--~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGG 203 (438)
T PRK00286 147 AAIRDILTVLRRR--FPLVEVIIYPTLVQGEGAAASIVAAIERANARGEDVLIVARGGG 203 (438)
T ss_pred HHHHHHHHHHHhc--CCCCeEEEecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCC
Confidence 4577777777764 6889999999988887532 22479999887653
Done!