Query 005180
Match_columns 710
No_of_seqs 262 out of 1263
Neff 5.2
Searched_HMMs 46136
Date Thu Mar 28 19:22:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005180.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005180hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1906 DNA polymerase sigma [ 100.0 7.6E-43 1.7E-47 388.0 37.5 293 41-376 62-385 (514)
2 COG5260 TRF4 DNA polymerase si 100.0 1.6E-40 3.5E-45 362.4 24.4 275 33-354 48-346 (482)
3 PTZ00418 Poly(A) polymerase; P 100.0 2.8E-30 6E-35 291.1 29.0 271 42-353 70-391 (593)
4 KOG2245 Poly(A) polymerase and 100.0 2.4E-26 5.1E-31 251.1 28.6 260 52-354 45-349 (562)
5 KOG2277 S-M checkpoint control 99.9 2E-23 4.4E-28 239.1 20.6 263 42-352 114-432 (596)
6 COG5186 PAP1 Poly(A) polymeras 99.9 2E-20 4.3E-25 198.1 23.4 275 35-354 18-341 (552)
7 cd05402 NT_PAP_TUTase Nucleoti 99.8 5.5E-20 1.2E-24 167.9 11.6 107 62-175 1-113 (114)
8 PF04928 PAP_central: Poly(A) 99.8 7.1E-20 1.5E-24 190.6 8.2 223 37-353 17-242 (254)
9 TIGR03671 cca_archaeal CCA-add 99.8 4.6E-17 1E-21 178.5 24.7 231 46-344 2-251 (408)
10 PRK13300 tRNA CCA-pyrophosphor 99.8 6.8E-17 1.5E-21 179.5 24.6 230 45-340 2-250 (447)
11 COG1746 CCA1 tRNA nucleotidylt 99.7 7.4E-16 1.6E-20 167.6 23.8 236 41-348 2-256 (443)
12 PF03828 PAP_assoc: Cid1 famil 98.6 1.9E-08 4.2E-13 82.2 2.4 25 234-258 2-28 (60)
13 PF09249 tRNA_NucTransf2: tRNA 98.3 1.6E-06 3.4E-11 80.3 6.4 92 189-338 3-97 (114)
14 PF10421 OAS1_C: 2'-5'-oligoad 98.0 2.9E-05 6.2E-10 78.2 8.8 62 164-226 22-85 (190)
15 PF01909 NTP_transf_2: Nucleot 97.7 2.9E-05 6.3E-10 67.8 3.2 43 67-109 1-44 (93)
16 smart00572 DZF domain in DSRM 97.6 0.0024 5.3E-08 66.9 17.1 202 81-349 4-230 (246)
17 cd05397 NT_Pol-beta-like Nucle 97.6 0.0001 2.2E-09 58.6 4.5 40 65-104 2-42 (49)
18 cd05400 NT_2-5OAS_ClassI-CCAas 97.5 0.00052 1.1E-08 65.1 9.3 91 60-159 6-107 (143)
19 cd05403 NT_KNTase_like Nucleot 97.3 0.0006 1.3E-08 58.9 6.5 44 66-109 3-48 (93)
20 PF03813 Nrap: Nrap protein; 96.9 0.0092 2E-07 73.8 13.3 135 176-350 157-299 (972)
21 COG1669 Predicted nucleotidylt 96.6 0.009 1.9E-07 54.4 7.8 47 62-108 6-53 (97)
22 PRK13746 aminoglycoside resist 95.9 0.021 4.6E-07 60.7 7.4 55 67-121 13-70 (262)
23 COG1708 Predicted nucleotidylt 95.5 0.019 4.1E-07 52.3 4.7 28 78-105 25-52 (128)
24 PF07528 DZF: DZF domain; Int 95.4 0.69 1.5E-05 49.0 16.3 152 85-245 2-186 (248)
25 KOG2054 Nucleolar RNA-associat 94.4 0.23 5E-06 60.6 10.9 128 180-350 305-435 (1121)
26 KOG3793 Transcription factor N 93.0 2.1 4.6E-05 45.7 13.7 197 41-250 40-270 (362)
27 PF03813 Nrap: Nrap protein; 91.7 2.7 5.9E-05 52.5 14.8 144 176-349 676-824 (972)
28 PF14091 DUF4269: Domain of un 91.6 2.7 5.8E-05 41.6 11.7 107 79-193 15-125 (152)
29 PRK02098 phosphoribosyl-dephos 90.3 0.73 1.6E-05 48.0 6.9 39 68-107 110-154 (221)
30 TIGR03135 malonate_mdcG holo-A 89.1 0.93 2E-05 46.6 6.5 30 78-107 107-142 (202)
31 PF14792 DNA_pol_B_palm: DNA p 84.2 1.6 3.4E-05 40.7 4.7 56 67-123 11-72 (112)
32 cd05401 NT_GlnE_GlnD_like Nucl 70.9 29 0.00064 33.9 9.4 30 79-108 55-84 (172)
33 PRK00227 glnD PII uridylyl-tra 66.4 13 0.00029 44.9 7.0 59 60-118 5-66 (693)
34 PF10620 MdcG: Phosphoribosyl- 65.9 15 0.00032 38.2 6.3 54 66-123 104-163 (213)
35 PRK05007 PII uridylyl-transfer 64.0 30 0.00066 43.1 9.7 50 60-109 55-110 (884)
36 PRK01293 phosphoribosyl-dephos 63.4 17 0.00036 37.8 6.1 32 78-109 108-145 (207)
37 cd00141 NT_POLXc Nucleotidyltr 63.1 48 0.001 36.1 10.0 54 68-122 148-202 (307)
38 PF03445 DUF294: Putative nucl 61.1 40 0.00086 32.4 8.0 29 79-107 49-77 (138)
39 PRK03059 PII uridylyl-transfer 57.1 43 0.00094 41.6 9.3 50 59-108 37-90 (856)
40 COG2413 Predicted nucleotidylt 56.0 27 0.00059 36.3 6.0 43 63-107 23-65 (228)
41 PF10127 Nuc-transf: Predicted 54.4 7.2 0.00016 40.8 1.8 46 62-107 1-48 (247)
42 KOG2534 DNA polymerase IV (fam 52.6 32 0.00069 38.0 6.3 55 68-123 159-216 (353)
43 PRK04374 PII uridylyl-transfer 52.2 66 0.0014 40.2 9.7 82 27-108 7-101 (869)
44 COG2844 GlnD UTP:GlnB (protein 50.3 72 0.0016 39.4 9.3 33 79-111 66-98 (867)
45 KOG2054 Nucleolar RNA-associat 49.0 32 0.0007 43.1 6.2 73 178-256 814-889 (1121)
46 COG1665 Predicted nucleotidylt 46.7 24 0.00052 38.2 4.1 29 77-105 119-147 (315)
47 PRK00275 glnD PII uridylyl-tra 45.1 95 0.0021 38.9 9.6 50 59-108 52-107 (895)
48 TIGR01693 UTase_glnD [Protein- 39.7 1E+02 0.0022 38.2 8.7 30 79-108 43-72 (850)
49 PRK01759 glnD PII uridylyl-tra 38.3 1.1E+02 0.0024 38.1 8.7 49 60-108 31-85 (854)
50 PHA02603 nrdC.11 hypothetical 37.9 16 0.00034 40.5 1.3 24 82-105 6-29 (330)
51 cd05398 NT_ClassII-CCAase Nucl 34.2 1.5E+02 0.0033 28.5 7.3 70 78-162 15-86 (139)
52 smart00483 POLXc DNA polymeras 32.9 1.6E+02 0.0034 32.6 8.0 42 66-108 150-192 (334)
53 PF03296 Pox_polyA_pol: Poxvir 30.5 70 0.0015 31.5 4.1 46 59-104 24-78 (149)
54 COG3541 Predicted nucleotidylt 27.3 31 0.00067 36.8 1.3 20 86-105 17-36 (248)
55 PF09970 DUF2204: Nucleotidyl 26.6 2.9E+02 0.0063 27.9 8.1 81 78-168 15-99 (181)
56 PHA02996 poly(A) polymerase la 24.0 1.1E+02 0.0024 34.8 4.8 70 35-105 118-196 (467)
57 KOG1906 DNA polymerase sigma [ 23.1 42 0.0009 39.4 1.4 71 313-386 245-315 (514)
58 PF12633 Adenyl_cycl_N: Adenyl 20.9 1.7E+02 0.0037 30.5 5.2 31 81-111 99-129 (204)
No 1
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=100.00 E-value=7.6e-43 Score=388.01 Aligned_cols=293 Identities=31% Similarity=0.517 Sum_probs=234.4
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH-hhcCCCceeeeccccCCCCCCCCceEEeecC-CCcchHHHHHHH
Q 005180 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIR-NYLGCEVFPFGSVPLKTYLPDGDIDLTAFGG-LNVEEALANDVC 118 (710)
Q Consensus 41 ~le~~i~efv~~i~PT~eE~~~R~~VI~~Lq~iI~-~~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~-~~~~~~~~~~L~ 118 (710)
.++++|..||++|.||++|.+.|..++++++++|+ +||.|.|++|||+.||||||+|||||+|+.+ ...++.....+.
T Consensus 62 ~l~~eI~~fv~~l~pt~~e~~~R~~~~~~i~~~v~~~~~~a~v~~FGS~~tglyLP~sDIDl~v~~~~~~~~e~~~~~~~ 141 (514)
T KOG1906|consen 62 RLRNEILDFVQYLIPTPEEIEVRSELVEKIRDVVKQKWPDASVYVFGSVPTGLYLPDSDIDLVVLSKFLNDKEDRAVKLE 141 (514)
T ss_pred HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHhcccceeEEeeeeeccccccccceEEEEecccccCchhhHHHHH
Confidence 47789999999999999999999999999999999 5999999999999999999999999999998 445565555565
Q ss_pred HHHHHHhhccccccceeEEEEE-eeeeeEEEEee--CCEEEEEeeecCCcchhhHHHHHHHHHhcCCchhHHHHHHHHHH
Q 005180 119 SVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLV--QNIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRSIILIKAW 195 (710)
Q Consensus 119 ~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~--~gI~VDISfNn~~gi~~s~fLe~v~~~i~~dp~fr~LvllIK~W 195 (710)
.++..++ ....+ .|..| +||||||||++ .+|.||||||+.+|++++.|+ ..++.++|.++++++++|+|
T Consensus 142 l~~~~e~--~~~~~---~v~~v~karvpiik~~d~~s~i~vDISFn~~~G~~aa~~i---~~~~~~~p~~~~lvlvlk~f 213 (514)
T KOG1906|consen 142 LALELEE--DNSAF---HVKVVQKARVPIIKFKDPVSNIHVDISFNQTNGVKAAKFI---KDFLRDHPFLRSLVLVLKQF 213 (514)
T ss_pred HHHhhhh--ccccc---eEEEeeeeeeeeEEeecCccceEEEeeecccCchhHHHHH---HHHHhcCccchhHHHHHHHH
Confidence 5554432 12233 34556 99999999997 499999999999999999886 55678889999999999999
Q ss_pred HHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCC------chH-HHHHHhhccc-ccccccceEEccCCcccCCCCc
Q 005180 196 CYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNG------PLA-VLYKFLDYFS-KFDWDSYCISLNGPVRISSLPE 267 (710)
Q Consensus 196 ak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~~------pL~-LL~~FFeyYs-~FDw~~~~ISI~GPv~lsslp~ 267 (710)
+ ++|+++++++|||+||+|++|+++|||+++-...+ .++ +|++||++|| +|++++.+|++..+
T Consensus 214 l-~~r~ln~v~tGgisSyal~~Lv~~fl~l~~~~~s~~~~~~~~~~vll~~f~e~yG~~f~~~k~~i~~~~~-------- 284 (514)
T KOG1906|consen 214 L-YERRLNGVHTGGISSYALELLVLSFLQLHPRSKSGRLAVLKNLGVLLIKFFELYGRNFGYDKLGISLSLG-------- 284 (514)
T ss_pred H-HhhcccccccccchHHHHHHHHHHHHhhcccccCCccchhcccchHHHHHHHHhccccCchhhceeccCC--------
Confidence 9 59999999999999999999999999996533222 355 6799999999 89999999987522
Q ss_pred cccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHH
Q 005180 268 VVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARK 347 (710)
Q Consensus 268 ~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGRSVs~~~~~rIr~aF~~A~~~ 347 (710)
++++. ++..++.+ + ..-++..|+||||.+|.||+||+.+ ++.+|+.+|.+|+..
T Consensus 285 ----------g~~~~-~~~~~~~~------------~-~~~~~~~LsieDP~~P~ndigr~s~--~~~~v~~~F~~af~~ 338 (514)
T KOG1906|consen 285 ----------GEYVS-KELTGFFN------------N-SLERPGSLSIEDPVDPTNDIGRSSF--NFSQVKGAFAYAFKV 338 (514)
T ss_pred ----------ccccc-HHhhhhhc------------c-cccCCCccccCCCCCcccccccccc--cHHHHHHHHHHHHHH
Confidence 22222 22222111 0 0123456999999999999999996 799999999999999
Q ss_pred HHhhhcCCCc----------------chH--HHHHHHHHHHHHhcCC
Q 005180 348 LGHILSQPEE----------------SLT--DELRKFFSNTLDRHGS 376 (710)
Q Consensus 348 L~~il~~p~~----------------~i~--~el~~ff~~tl~r~g~ 376 (710)
|...+..-.. .+. .++.+|+.++...|..
T Consensus 339 l~~~~~~~~s~~~~~~~~~s~lg~~i~~~~~~~~r~~~~~~~~~~~~ 385 (514)
T KOG1906|consen 339 LTNAVFSHGSSSLPEQANKSILGNIIEVSRKDEVRDYRTERDQGFNG 385 (514)
T ss_pred HhhhhcccchhcccccccccccCCeeeccchhhhhhhhhhhhhcccc
Confidence 9987763220 223 7778888888777753
No 2
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.6e-40 Score=362.41 Aligned_cols=275 Identities=22% Similarity=0.368 Sum_probs=221.3
Q ss_pred CCChhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH-hhcCCCceeeeccccCCCCCCCCceEEeecCCCcc-
Q 005180 33 AIGAEYWQRAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIR-NYLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE- 110 (710)
Q Consensus 33 ~i~~~~w~~le~~i~efv~~i~PT~eE~~~R~~VI~~Lq~iI~-~~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~- 110 (710)
++..+.-..+..++-+|+.+|.|+.+|.++|..++++|+.+++ .||++.+.+|||+.+||++|.|||||||..+....
T Consensus 48 s~~~~~~~~lt~el~~~y~~I~ps~eEl~~R~~~leklr~~lk~~~pda~l~vFGS~~t~L~l~~SDiDl~I~s~~~~~~ 127 (482)
T COG5260 48 SVFNEESDELTSELLEFYDYIAPSDEELKRRKALLEKLRTLLKKEFPDADLKVFGSTETGLALPKSDIDLCIISDPRGYK 127 (482)
T ss_pred hhhhhhHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHhCCccceeEecccccccccCcccccEEEecCCcccc
Confidence 3445555668889999999999999999999999999999999 49999999999999999999999999999865432
Q ss_pred hHHH-HHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeC--CEEEEEeeecCCcchhhHHHHHHHHHhcCCchhH
Q 005180 111 EALA-NDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQ--NIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFK 186 (710)
Q Consensus 111 ~~~~-~~L~~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~~--gI~VDISfNn~~gi~~s~fLe~v~~~i~~dp~fr 186 (710)
++.. -.+...|.. .....+++++ +||||||||++. ++.|||+||+..|+.++.++ ..++..+|++|
T Consensus 128 et~~~~~l~~~l~~-------~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~akl~---~~~~~~~P~lr 197 (482)
T COG5260 128 ETRNAGSLASHLFK-------KNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLI---RSYLKEDPRLR 197 (482)
T ss_pred ccccHHHHHHHHHH-------hccCeeeEEEEecccceEEEecCccceEEEeecCchhHHHHHHHH---HHHHhcCcccc
Confidence 2211 122233322 1123566677 999999999985 99999999999999999887 55678899999
Q ss_pred HHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCC------C---------CchH-HHHHHhhccc-cccc
Q 005180 187 RSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSL------N---------GPLA-VLYKFLDYFS-KFDW 249 (710)
Q Consensus 187 ~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l------~---------~pL~-LL~~FFeyYs-~FDw 249 (710)
+|+++||+|++ +|.++++++|||+||++++||+.|||++++-+ . .+|+ +|.+||+||| .|+|
T Consensus 198 pLvliIKhwl~-~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~~~~l~~~~~~~~lgvLf~dFf~~yG~~f~Y 276 (482)
T COG5260 198 PLVLIIKHWLK-RRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGLLSPLKYNKNIDNLGVLFDDFFELYGKSFNY 276 (482)
T ss_pred hHHHHHHHHHH-HHhhcccccCcchhhhhHHHHHHHHHhCCccccccccccchhhccccccccchHHHHHHHHhccccCh
Confidence 99999999997 89999999999999999999999999865321 1 3567 4599999999 6999
Q ss_pred ccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCC-CCCCCcccC
Q 005180 250 DSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPL-KENNNLGRS 328 (710)
Q Consensus 250 ~~~~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~-d~snNlGRS 328 (710)
+..++++++ | ..++.|.. +||... .++..||||||+ ++++++++.
T Consensus 277 ~~~~~si~~------------------g-~~~~~K~e------------~g~~~~---~~p~~LsiqdP~td~n~~~~a~ 322 (482)
T COG5260 277 SLVVLSINS------------------G-DFYLPKYE------------KGWLKP---SKPNSLSIQDPGTDRNNDISAV 322 (482)
T ss_pred hheEEEecC------------------C-ceeeehhh------------cccccc---cCCCcEeecCCCCCcccccccc
Confidence 999999973 2 23333321 233222 223679999999 999999987
Q ss_pred cCHHHHHHHHHHHHHHHHHHHhhhcC
Q 005180 329 VSKGNFYRIRSAFTYGARKLGHILSQ 354 (710)
Q Consensus 329 Vs~~~~~rIr~aF~~A~~~L~~il~~ 354 (710)
.. ++..|+.+|.+|.+.|...+..
T Consensus 323 s~--~ik~i~~~F~~aF~lls~~~~t 346 (482)
T COG5260 323 SF--NIKDIKAAFIRAFELLSNKLFT 346 (482)
T ss_pred cc--hHHHHHHHHHHHHHHHhhhcch
Confidence 75 7999999999999999887753
No 3
>PTZ00418 Poly(A) polymerase; Provisional
Probab=99.97 E-value=2.8e-30 Score=291.09 Aligned_cols=271 Identities=20% Similarity=0.349 Sum_probs=209.6
Q ss_pred HHHHHHHHHH--HcCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceeeeccccCCCCCCCCceEE
Q 005180 42 AEEATQGIIA--QVQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPDGDIDLT 102 (710)
Q Consensus 42 le~~i~efv~--~i~PT~eE~~~R~~VI~~Lq~iI~~~p-----------------~a~V~~FGS~~tGL~Lp~SDIDL~ 102 (710)
...++.++++ -+.|++||.++|++|++.|++++++|. +++|++||||.+|++.|+||||++
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 3444555553 388999999999999999999998762 478999999999999999999999
Q ss_pred eecCCCc-chHHHHHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCEEEEEeeecCC----------------
Q 005180 103 AFGGLNV-EEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG---------------- 164 (710)
Q Consensus 103 I~~~~~~-~~~~~~~L~~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~~gI~VDISfNn~~---------------- 164 (710)
+++|..+ .++++..+.++|+. ...|++++.| .|+||||||...||.|||.|.+..
T Consensus 150 ~V~P~~vtredFF~~f~~~L~~-------~~~V~eL~~V~~A~VPiIk~~~~GI~iDL~fa~l~~~~vp~~~~~l~d~~l 222 (593)
T PTZ00418 150 CLAPRHITRESFFSDFYAKLQQ-------DPNITKLQPVPDAYTPVIKFVYDGIDIDLLFANLPLPTIPDCLNSLDDDYI 222 (593)
T ss_pred EECCCCCCHHHHHHHHHHHHhc-------CCCcceeeccCccccCeEEEEECCEEEeeeecccCCCCCCccccccCchhh
Confidence 9999764 46788888888864 2357888888 899999999999999999997321
Q ss_pred -------------cchhhHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCC
Q 005180 165 -------------GLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLN 231 (710)
Q Consensus 165 -------------gi~~s~fLe~v~~~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~ 231 (710)
|++.+ ++|.+++.....||.++++||.||| +|+|+++..|+|++.+|++||..+||+++. .
T Consensus 223 L~nlde~s~rSLNG~Rvt---d~Il~lVPn~~~Fr~aLR~IKlWAk-rRGIYsNv~GflGGV~wAILvARVCQLyPn--a 296 (593)
T PTZ00418 223 LRNVDEKTVRSLNGCRVA---DLILASVPNKDYFRTTLRFIKLWAK-RRGIYSNVLGYLGGVSWAILTARICQLYPN--F 296 (593)
T ss_pred hhcCCHHHhhhhccHHHH---HHHHHHCCChHHHHHHHHHHHHHHH-HhccccccccccchHHHHHHHHHHHHhCCC--C
Confidence 22222 3345666667889999999999998 899999999999999999999999999764 3
Q ss_pred CchHHHHHHhhcccccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCC-CCCCC
Q 005180 232 GPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNS-RSFPP 310 (710)
Q Consensus 232 ~pL~LL~~FFeyYs~FDw~~~~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~-~~f~~ 310 (710)
.+-.+|.+||.+|++|+|.+ -|.+. ...+ .+...| .+. + +.|+-+. ...+.
T Consensus 297 ~~s~Lv~~FF~iys~W~Wp~-PV~L~------~i~~----~~~~~g---~~~----------~----~VWdPr~~~~dr~ 348 (593)
T PTZ00418 297 APSQLIHKFFRVYSIWNWKN-PVLLC------KIKE----VPNIPG---LMN----------F----KVWDPRVNPQDRA 348 (593)
T ss_pred CHHHHHHHHHHHhhcCCCCC-CeEcc------cccc----cccCCc---ccC----------C----cccCCCCCccccc
Confidence 56678999999999999987 23222 1110 000011 000 0 1121110 11234
Q ss_pred cceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhc
Q 005180 311 KHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILS 353 (710)
Q Consensus 311 k~L~IeDP~d~snNlGRSVs~~~~~rIr~aF~~A~~~L~~il~ 353 (710)
..|.|..|..|..|.+++|+..++..|++||++|++++..+..
T Consensus 349 h~MPIITPayP~mNst~nVt~sT~~vI~~Ef~Ra~~i~~~i~~ 391 (593)
T PTZ00418 349 HLMPIITPAFPSMNSTHNVTYTTKRVITEEFKRAHEIIKYIEK 391 (593)
T ss_pred ccCCeecCCCCCccccccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6799999999999999999999999999999999999997664
No 4
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=99.95 E-value=2.4e-26 Score=251.07 Aligned_cols=260 Identities=22% Similarity=0.373 Sum_probs=203.1
Q ss_pred HcCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceeeeccccCCCCCCCCceEEeecCCCc-chHH
Q 005180 52 QVQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV-EEAL 113 (710)
Q Consensus 52 ~i~PT~eE~~~R~~VI~~Lq~iI~~~p-----------------~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~-~~~~ 113 (710)
-+-+++||..+|.+|+..|++++++|. ++++++||||..|.+.|++|||-.+++|..+ .+++
T Consensus 45 g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggkIftfGSYRLGVhg~GADIDtLcV~Prhv~R~DF 124 (562)
T KOG2245|consen 45 GLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGKIFTFGSYRLGVHGPGADIDTLCVGPRHVSRSDF 124 (562)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCceEEeccceeecccCCCCCcceeeeccccccHHHH
Confidence 378899999999999999999999872 5899999999999999999999777777654 5688
Q ss_pred HHHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCEEEEEeeecCC--------cchhhHHHHHH---------
Q 005180 114 ANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG--------GLSTLCFLEQV--------- 175 (710)
Q Consensus 114 ~~~L~~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~~gI~VDISfNn~~--------gi~~s~fLe~v--------- 175 (710)
+..+.++|+. ...|+++..+ .|.||||||..+||.|||-|.+.. .+....+|+.+
T Consensus 125 F~sf~~mL~~-------~~eVteL~~V~dAfVPiikfKf~GI~IDllfArL~l~~VP~dldl~ddslLknlDe~~vrSLN 197 (562)
T KOG2245|consen 125 FTSFYDMLKE-------RPEVTELHAVEDAFVPIIKFKFDGIEIDLLFARLALPVVPEDLDLSDDSLLKNLDERCVRSLN 197 (562)
T ss_pred HHHHHHHHhc-------CccccccccccccccceEEEEecCeeeeeeehhcccccCCCcccccchHhhhcccHHHHHHhc
Confidence 8899999864 2356788888 999999999999999999987642 22223333322
Q ss_pred --------HHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhccccc
Q 005180 176 --------DRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKF 247 (710)
Q Consensus 176 --------~~~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL~LL~~FFeyYs~F 247 (710)
-+++.....|+-.++.||.||| +|+|++...|.|++-+|.|||..+||.++.. .|--++.+||..|++|
T Consensus 198 GcRVtdqiL~LVPn~~~F~~tLRaiKlWAK-rrgVYsN~~GF~GGV~wA~LVARiCQLYPNA--~~s~Lv~kfF~ifs~W 274 (562)
T KOG2245|consen 198 GCRVTDQILKLVPNQENFRITLRAIKLWAK-RRGVYSNVMGFLGGVAWAMLVARICQLYPNA--SPSTLVAKFFRVFSQW 274 (562)
T ss_pred CcCHHHHHHHhCCCHHHHHHHHHHHHHHHH-hcccccccccccchHHHHHHHHHHHccCCCc--chHHHHHHHHHHHhhc
Confidence 2344445678999999999998 8999999999999999999999999987653 3455789999999999
Q ss_pred ccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCC-CCCCCcceEEeCCCCCCCCcc
Q 005180 248 DWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNS-RSFPPKHLNIVDPLKENNNLG 326 (710)
Q Consensus 248 Dw~~~~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~-~~f~~k~L~IeDP~d~snNlG 326 (710)
+|-+-++= . .. ..+. +-+ +-|+-+. ..-+.+.|.|+.|..|..|..
T Consensus 275 ~WP~PVlL-~------~i---------e~~~-L~~----------------~VWdPr~n~~DryHlMPIITPAyP~~nst 321 (562)
T KOG2245|consen 275 NWPNPVLL-K------PI---------EEGN-LNL----------------PVWDPRVNPSDRYHLMPIITPAYPQMNST 321 (562)
T ss_pred cCCCceEe-c------cc---------cccc-cCc----------------cccCCCCCCCCcceecccccCCccccccc
Confidence 99874331 1 10 0110 000 0121111 111245799999999999999
Q ss_pred cCcCHHHHHHHHHHHHHHHHHHHhhhcC
Q 005180 327 RSVSKGNFYRIRSAFTYGARKLGHILSQ 354 (710)
Q Consensus 327 RSVs~~~~~rIr~aF~~A~~~L~~il~~ 354 (710)
.+|++.++..|+++|.+|..++.+++..
T Consensus 322 hNVS~ST~~Vi~~Ef~~g~~I~~~i~~~ 349 (562)
T KOG2245|consen 322 HNVSRSTLKVITEEFKRGLEICDDIELN 349 (562)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999998864
No 5
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.91 E-value=2e-23 Score=239.09 Aligned_cols=263 Identities=20% Similarity=0.308 Sum_probs=205.7
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-hcCCCc--eeeeccccCCCCCCCCceEEeecCCC-cc-h-----
Q 005180 42 AEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-YLGCEV--FPFGSVPLKTYLPDGDIDLTAFGGLN-VE-E----- 111 (710)
Q Consensus 42 le~~i~efv~~i~PT~eE~~~R~~VI~~Lq~iI~~-~p~a~V--~~FGS~~tGL~Lp~SDIDL~I~~~~~-~~-~----- 111 (710)
++..+.++++...+...+...|......++.++.. .|.+.. .+|||..+++....+|+|+++..... .. +
T Consensus 114 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~~~~ 193 (596)
T KOG2277|consen 114 LDPQLNELLESFKLPHSDVKTRKLILDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKIKGL 193 (596)
T ss_pred hchhhhhhhhccCCCccccchHHHHHHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeecccccccccchhhhH
Confidence 77788888888999999999999888888888874 665554 49999999999999999988876554 21 1
Q ss_pred HHHHHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeC--CEEEEEeeecCCcchhhHHHHHHHHHhcCCchhHHH
Q 005180 112 ALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQ--NIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRS 188 (710)
Q Consensus 112 ~~~~~L~~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~~--gI~VDISfNn~~gi~~s~fLe~v~~~i~~dp~fr~L 188 (710)
.....+.+++.. ...+- +..++.+ .|||||||+.+. ++.||++++|..++.|+.|++.+. ..|+++++|
T Consensus 194 ~~~~l~~~~~~~----~~~~~-~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~~~~nS~ll~~~~---~~d~r~~~L 265 (596)
T KOG2277|consen 194 EILKLLAKCLAS----LLEEG-VREVQQILSARVPIIKFNDSGSGLECDLSVNNSDAILNSQLLRNYS---EIDPRVRPL 265 (596)
T ss_pred HHHHHHHHHHHh----ccccc-cceeeeeeecCCCEEEecCCCCCCceeeeeccchhhhhhHHHHHhH---hcCCCcchH
Confidence 112223333322 11111 3445445 999999999765 899999999999999999987664 448899999
Q ss_pred HHHHHHHHHHhhCccCCCCCCCC-hHHHHHHHHHHHHhcCCCC-------------------------------------
Q 005180 189 IILIKAWCYYESRILGAHHGLIS-TYALETLVLYIFHLFHSSL------------------------------------- 230 (710)
Q Consensus 189 vllIK~Wak~~r~In~a~~GgLS-SYaL~LMVI~fLQ~~~p~l------------------------------------- 230 (710)
+++||+|++ +++++++..|+++ +|++++||++|||+..+.+
T Consensus 266 ~~~vk~wa~-~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (596)
T KOG2277|consen 266 VLLVKHWAK-EKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDKPVVKKKVLCSFLRVFQRNPSN 344 (596)
T ss_pred hHHHHHHHH-hccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcccccccchhhhhhhcccccccccccc
Confidence 999999997 8999999999999 5999999999999975422
Q ss_pred ---CCchH-HHHHHhhccc-ccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCC
Q 005180 231 ---NGPLA-VLYKFLDYFS-KFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNS 305 (710)
Q Consensus 231 ---~~pL~-LL~~FFeyYs-~FDw~~~~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~ 305 (710)
.++++ ++.+||.||+ .|||.+.+|+++.+..+ ..+ +
T Consensus 345 ~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l--------------------~~~-------------------~ 385 (596)
T KOG2277|consen 345 SQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRAL--------------------KRA-------------------K 385 (596)
T ss_pred ccccchHHHHHHHHHHHHhhhcccccceeeeeecccc--------------------ccc-------------------c
Confidence 12244 5689999999 89999999999843211 000 1
Q ss_pred CCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhh
Q 005180 306 RSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHIL 352 (710)
Q Consensus 306 ~~f~~k~L~IeDP~d~snNlGRSVs~~~~~rIr~aF~~A~~~L~~il 352 (710)
..+..+.++|+||++..+|++..++...+..|+.+|+.+++++....
T Consensus 386 ~~~~~~~l~i~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 432 (596)
T KOG2277|consen 386 KIKSKKFLCIEDPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDVN 432 (596)
T ss_pred hhhhccceeeccccccccCccccchHHHHHHHHHHHHHHHHHhhhhc
Confidence 12335679999999999999999998899999999999999988773
No 6
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.87 E-value=2e-20 Score=198.13 Aligned_cols=275 Identities=20% Similarity=0.329 Sum_probs=197.8
Q ss_pred ChhhHHHHHHHHH-HHH-HHcCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceeeeccccCCCCC
Q 005180 35 GAEYWQRAEEATQ-GII-AQVQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLP 95 (710)
Q Consensus 35 ~~~~w~~le~~i~-efv-~~i~PT~eE~~~R~~VI~~Lq~iI~~~p-----------------~a~V~~FGS~~tGL~Lp 95 (710)
..+.-.+|..++. ++- +-..-++.|-+.|.+|+..|+.+++++. +.+++.||||..|.+.|
T Consensus 18 aTe~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGKIFTyGSYRLGVhgp 97 (552)
T COG5186 18 ATEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGKIFTYGSYRLGVHGP 97 (552)
T ss_pred ccHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCceeeeecceeeeccCC
Confidence 3444445554443 333 2367788999999999999999988641 46899999999999999
Q ss_pred CCCceEEeecCCCc-chHHHHHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCEEEEEeeecCC------cc-
Q 005180 96 DGDIDLTAFGGLNV-EEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG------GL- 166 (710)
Q Consensus 96 ~SDIDL~I~~~~~~-~~~~~~~L~~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~~gI~VDISfNn~~------gi- 166 (710)
+||||-.++.|..+ .+++++.+...|+. ...+.+|..+ .|-|||||+...||.+|+-|.... |+
T Consensus 98 GsDIDtLvvVPkHVsR~dFFt~f~~~Lre-------r~ei~eva~vpDAfVPIIK~KF~GIsIDLifARLs~P~Vp~~l~ 170 (552)
T COG5186 98 GSDIDTLVVVPKHVSRSDFFTHFYEELRE-------RPEIEEVAKVPDAFVPIIKLKFQGISIDLIFARLSIPVVPDGLN 170 (552)
T ss_pred CCCcceEEEecccccHHHHHHHHHHHhcc-------CcchhhhccCCcccceeEEEEecCccceeeeeeccCCcCCCccc
Confidence 99999666666554 67888888888853 2234566566 899999999999999999887542 21
Q ss_pred -hhhHHHHHHH-----------------HHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCC
Q 005180 167 -STLCFLEQVD-----------------RLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHS 228 (710)
Q Consensus 167 -~~s~fLe~v~-----------------~~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p 228 (710)
..-.+|+.++ +++..-..|+..++.||+||+ +|-++..-.|..++-||.|||..+||+++.
T Consensus 171 Lsd~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAq-RRavYaN~~GfpGGVAwam~VARiCQLYPN 249 (552)
T COG5186 171 LSDDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQ-RRAVYANPYGFPGGVAWAMCVARICQLYPN 249 (552)
T ss_pred ccchhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHH-hhhhhccccCCcchHHHHHHHHHHHhhccC
Confidence 1222333322 333344568888999999996 788999999999999999999999999764
Q ss_pred CCCCchHHHHHHhhcccccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCC
Q 005180 229 SLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSF 308 (710)
Q Consensus 229 ~l~~pL~LL~~FFeyYs~FDw~~~~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f 308 (710)
. ...-++.+||+.++.|+|..-+| ++ | +...| +-+ |-|.- +.+
T Consensus 250 A--~S~vIv~kFF~ils~WnWPqPvi-Lk-P--ieDgp-------------lqv----------------rvWnP--KvY 292 (552)
T COG5186 250 A--SSFVIVCKFFEILSSWNWPQPVI-LK-P--IEDGP-------------LQV----------------RVWNP--KVY 292 (552)
T ss_pred c--chHhHHHHHHHHHHhcCCCCCeE-ee-e--ccCCC-------------eeE----------------EeeCC--ccC
Confidence 3 22346799999999999987444 22 2 11111 000 11111 111
Q ss_pred ---CCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhcC
Q 005180 309 ---PPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILSQ 354 (710)
Q Consensus 309 ---~~k~L~IeDP~d~snNlGRSVs~~~~~rIr~aF~~A~~~L~~il~~ 354 (710)
..++|.|+.|..|+.=...+++..+-..|-.+|-+|.+++.++..-
T Consensus 293 psDk~HRMPvITPAYPSMCATHNit~STq~vIl~EfvRa~~I~~di~~n 341 (552)
T COG5186 293 PSDKYHRMPVITPAYPSMCATHNITNSTQHVILMEFVRAHKILSDIERN 341 (552)
T ss_pred cccccccCccccCCchhhhhhccccchhhhhHHHHHHHHHHhhhhHhhc
Confidence 2356999999999966666666556678999999999999998753
No 7
>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=99.82 E-value=5.5e-20 Score=167.86 Aligned_cols=107 Identities=34% Similarity=0.570 Sum_probs=90.8
Q ss_pred HHHHHHHHHHHHHHh-hcCCCceeeeccccCCCCCCCCceEEeecCCC--cchHHHHHHHHHHHHHhhccccccceeEEE
Q 005180 62 RRKAVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLN--VEEALANDVCSVLEREDQNKAAEFVVKDAQ 138 (710)
Q Consensus 62 ~R~~VI~~Lq~iI~~-~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~--~~~~~~~~L~~~L~~~~~~~~a~f~Vk~V~ 138 (710)
+|++++++|+++++. +|+++|++|||+++|+++|+||||++|..+.. ....++..+.++|++. .. +.++.
T Consensus 1 ~r~~i~~~l~~~i~~~~~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~~~~~~~~l~~l~~~l~~~-----~~--~~~~~ 73 (114)
T cd05402 1 KREEVLDRLQELIKEWFPGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHRVDREDFLRKLAKLLKKS-----GE--VVEVE 73 (114)
T ss_pred CHHHHHHHHHHHHHHHCCCCEEEEecccccCCCCCCCCeeEEEEeCCCCccHHHHHHHHHHHHHhC-----CC--ceeeE
Confidence 488999999999997 78999999999999999999999999999874 3445667777777652 11 34566
Q ss_pred EE-eeeeeEEEEeeC--CEEEEEeeecCCcchhhHHHHHH
Q 005180 139 LI-RAEVKLVKCLVQ--NIVVDISFNQLGGLSTLCFLEQV 175 (710)
Q Consensus 139 ~I-~ARVPIIKf~~~--gI~VDISfNn~~gi~~s~fLe~v 175 (710)
.| +||||||||.++ |+.|||||+|..|+.|+.+++.|
T Consensus 74 ~i~~ArVPiik~~~~~~~i~~Dis~~~~~g~~~s~li~~y 113 (114)
T cd05402 74 PIINARVPIIKFVDKPTGIEVDISFNNLNGIRNTKLLRAY 113 (114)
T ss_pred EeccCCCCEEEEEEcCCCeEEEEEcccchHHHHHHHHHHh
Confidence 66 999999999998 99999999999999999987543
No 8
>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=99.80 E-value=7.1e-20 Score=190.56 Aligned_cols=223 Identities=18% Similarity=0.334 Sum_probs=133.4
Q ss_pred hhHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhhcCCCceeeeccccCCCCCCCCceEEeecCCCcchHHH
Q 005180 37 EYWQRAEEATQGIIAQ--VQPTVVSEERRKAVIDYVQRLIRNYLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALA 114 (710)
Q Consensus 37 ~~w~~le~~i~efv~~--i~PT~eE~~~R~~VI~~Lq~iI~~~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~~~~~ 114 (710)
+.=.+..+++.++++. +-||+||.++|++|++.|+++|++|... .+..---+||+. .++++
T Consensus 17 ~~Dl~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~----------~~~~~p~~l~~~-------~~~~l 79 (254)
T PF04928_consen 17 EKDLKRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ----------ALPRVPEDLDLL-------DDDPL 79 (254)
T ss_dssp HHHHHHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH----------SSSSB-TT--TT--------GGGG
T ss_pred hhhHHhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh----------hhcCCCcccccC-------Cchhh
Confidence 3334455666777754 5899999999999999999999988633 000000011111 00110
Q ss_pred HHHHHHHHHHhhccccccceeEEEEEeeeeeEEEEeeCCEEEEEeeecCCcchhhHHHHHHHHHhcCCchhHHHHHHHHH
Q 005180 115 NDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRSIILIKA 194 (710)
Q Consensus 115 ~~L~~~L~~~~~~~~a~f~Vk~V~~I~ARVPIIKf~~~gI~VDISfNn~~gi~~s~fLe~v~~~i~~dp~fr~LvllIK~ 194 (710)
..+-. .|+...+|++.+.+ +.+++.....|+.++++||+
T Consensus 80 ~~ld~--------------------------------------~s~~sLnG~Rv~~~---il~~Vp~~~~Fr~~lR~IK~ 118 (254)
T PF04928_consen 80 RNLDE--------------------------------------ASVRSLNGVRVTDY---ILRLVPNQETFRTALRFIKL 118 (254)
T ss_dssp TT--H--------------------------------------HHHHHHHHHHHHHH---HHCTSS-HHHHHHHHHHHHH
T ss_pred hCCCH--------------------------------------hhccCcccccHHHH---HHHHCCCHHHHHHHHHHHHH
Confidence 00000 00111223343332 34555555789999999999
Q ss_pred HHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhcccccccccceEEccCCcccCCCCccccccCC
Q 005180 195 WCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPE 274 (710)
Q Consensus 195 Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL~LL~~FFeyYs~FDw~~~~ISI~GPv~lsslp~~~~e~p~ 274 (710)
||| +|||+++..|+|++.+|++||.++||+++.. .+-.+|..||.+|++|||.+ -|.+... .
T Consensus 119 WAk-~RGIYsn~~GylGGI~waILvArvcql~Pn~--~~~~ll~~FF~~ys~W~W~~-PV~l~~~------~-------- 180 (254)
T PF04928_consen 119 WAK-RRGIYSNVFGYLGGIHWAILVARVCQLYPNA--SPSTLLSRFFQIYSQWDWPN-PVVLDPI------E-------- 180 (254)
T ss_dssp HHH-HTT-B-CCCTSB-HHHHHHHHHHHHHHSTT----HHHHHHHHHHHHHCS-TTS--EESS-----------------
T ss_pred HHH-HccccchhhccchHHHHHHHHHHHHHHCccc--cccchHHHHHHHhcCCCCCC-ceeeccc------c--------
Confidence 998 8999999999999999999999999997642 34558899999999999987 3333210 0
Q ss_pred CCCCCcccCHHHHHHHHhhccCCCCCCCCC-CCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhc
Q 005180 275 NSGGDLLLSSEFLKECVEQFSVPSRGFDTN-SRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILS 353 (710)
Q Consensus 275 ~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~-~~~f~~k~L~IeDP~d~snNlGRSVs~~~~~rIr~aF~~A~~~L~~il~ 353 (710)
.+. ..+ +.|... ........|.|..|..|..|.+++|++.++..|++||++|++.+..++.
T Consensus 181 -~~~-~~~----------------~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~i~~Ef~ra~~i~~~~~~ 242 (254)
T PF04928_consen 181 -DGP-LGF----------------KVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRIIREEFQRAHEILSEILK 242 (254)
T ss_dssp ---S-SSC----------------GS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred -cCc-ccc----------------cCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHc
Confidence 000 000 001000 0011246799999999999999999999999999999999999999874
No 9
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.77 E-value=4.6e-17 Score=178.55 Aligned_cols=231 Identities=21% Similarity=0.276 Sum_probs=154.0
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhh-----cCCCceeeeccccCCCCC-CCCceEEeecCCCcchHHHHHH-H
Q 005180 46 TQGIIAQVQPTVVSEERRKAVIDYVQRLIRNY-----LGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDV-C 118 (710)
Q Consensus 46 i~efv~~i~PT~eE~~~R~~VI~~Lq~iI~~~-----p~a~V~~FGS~~tGL~Lp-~SDIDL~I~~~~~~~~~~~~~L-~ 118 (710)
++++++.++||++|.+..+.+.+.|...|++. +.++|.+|||++.|++|+ +|||||+|..+......-++.+ .
T Consensus 2 ~~~vl~~i~Ps~eE~~~~~~~~~~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~~~~~~e~l~~~gl 81 (408)
T TIGR03671 2 LEEVLERIKPTEEEREKLKKVADELIARLEEIIEELGVDAEVVLVGSYARGTWLKGDRDIDIFILFPKDTSREELEEYGL 81 (408)
T ss_pred hHHHhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeeEecCCccCCCCceeEEEEeCCCCCHHHHHHHHH
Confidence 46788999999999998888877777766642 469999999999999999 9999999999765533222222 2
Q ss_pred HHHHHHhhccccccceeEEEEEeeeeeEEEEeeCCEEEEEe--eecCCc--chhh-----HHHHHHHHHhcCCchhHHHH
Q 005180 119 SVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDIS--FNQLGG--LSTL-----CFLEQVDRLIGKDHLFKRSI 189 (710)
Q Consensus 119 ~~L~~~~~~~~a~f~Vk~V~~I~ARVPIIKf~~~gI~VDIS--fNn~~g--i~~s-----~fLe~v~~~i~~dp~fr~Lv 189 (710)
.+.+.... ... ....-.|..|-|+...+|++|||. +....| +.++ .-++.+...+ +..++..|
T Consensus 82 ~i~~~~~~---~~~---~~~~~yaeHpYv~~~~~G~~VDiVPcy~v~~g~~~~taVDRtp~H~~fv~~rl--~~~~~d~V 153 (408)
T TIGR03671 82 EIGHEVLK---RGG---NYEERYAEHPYVSGEIEGFEVDVVPCYKVESGEEIISAVDRTPFHTRYVLERL--DGKLRDDV 153 (408)
T ss_pred HHHHHHHh---hCC---CHhheeccCceEEEEEccEEEEEEeeEEccCcCeeeccccCchHHHHHHHHhh--hhhHHHHH
Confidence 22222110 001 111238999999999999999994 444333 2211 2233334433 33488999
Q ss_pred HHHHHHHHHhhCccCC--CCCCCChHHHHHHHHHHHHhcCCCCCCch-HHHHHHhhcccccccccceEEccCCcccCCCC
Q 005180 190 ILIKAWCYYESRILGA--HHGLISTYALETLVLYIFHLFHSSLNGPL-AVLYKFLDYFSKFDWDSYCISLNGPVRISSLP 266 (710)
Q Consensus 190 llIK~Wak~~r~In~a--~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL-~LL~~FFeyYs~FDw~~~~ISI~GPv~lsslp 266 (710)
+|+|+|+| ..+++|+ +++|||||...|||++| +.. .+|..+ ++ |.. .+.|. +
T Consensus 154 RLlK~f~k-~igvYGsE~~~~GFSGYl~ELLv~~y---------G~F~~~l~~a----~~--wk~-~~~id-~------- 208 (408)
T TIGR03671 154 RLLKQFLK-GIGVYGSELKTRGFSGYLCELLVIHY---------GSFENVLKAA----SK--WKP-GVVID-I------- 208 (408)
T ss_pred HHHHHHHH-hCCccchhhccCCccHHHHHHHHHHh---------CCHHHHHHHH----Hh--cCC-CeEEe-c-------
Confidence 99999998 6788875 89999999999999994 121 233222 22 321 22221 0
Q ss_pred ccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHH
Q 005180 267 EVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYG 344 (710)
Q Consensus 267 ~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGRSVs~~~~~rIr~aF~~A 344 (710)
...+ ...| ..+|.|.||.++.||+|++++..++.+|..+-+.+
T Consensus 209 -------~~~~---------------------------~~~f-~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~f 251 (408)
T TIGR03671 209 -------EEHG---------------------------TKKF-DDPLVVIDPVDPKRNVAAALSLENLARFILAARMF 251 (408)
T ss_pred -------Cccc---------------------------cccC-CCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHH
Confidence 0000 0122 46799999999999999999988888876554433
No 10
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.76 E-value=6.8e-17 Score=179.46 Aligned_cols=230 Identities=20% Similarity=0.261 Sum_probs=152.5
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhh----c-CCCceeeeccccCCCCC-CCCceEEeecCCCcchHHHHHH-
Q 005180 45 ATQGIIAQVQPTVVSEERRKAVIDYVQRLIRNY----L-GCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDV- 117 (710)
Q Consensus 45 ~i~efv~~i~PT~eE~~~R~~VI~~Lq~iI~~~----p-~a~V~~FGS~~tGL~Lp-~SDIDL~I~~~~~~~~~~~~~L- 117 (710)
.++++++.++|+.+|.+....+++.|...|++. + .++|+++||++.|++|+ +|||||+|..+.......+..+
T Consensus 2 v~~evl~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~~~~e~L~~~g 81 (447)
T PRK13300 2 VLEEVLERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKDTSREELEEKG 81 (447)
T ss_pred hHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCCCCHHHHHHHH
Confidence 357889999999999988888777777777643 2 49999999999999999 8999999999776543222222
Q ss_pred HHHHHHHhhccccccceeEEEEEeeeeeEEEEeeCCEEEEEe--eecCCc--chhh-----HHHHHHHHHhcCCchhHHH
Q 005180 118 CSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDIS--FNQLGG--LSTL-----CFLEQVDRLIGKDHLFKRS 188 (710)
Q Consensus 118 ~~~L~~~~~~~~a~f~Vk~V~~I~ARVPIIKf~~~gI~VDIS--fNn~~g--i~~s-----~fLe~v~~~i~~dp~fr~L 188 (710)
..+.+......... ..++ .|..|.|+...+|++|||. ++...| +.++ .-.+.+...+ +..++..
T Consensus 82 l~i~~~~~~~~~~~---~~~~--yaeHpyv~~~~~G~~VDiVPcy~v~~~~~~~saVDRtp~H~~fv~~rl--~~~~~d~ 154 (447)
T PRK13300 82 LEIGKEVAKELLGD---YEER--YAEHPYVTGEIDGFEVDIVPCYKVESGEEIISAVDRTPFHTKYVKERL--KGKLEDE 154 (447)
T ss_pred HHHHHHHHHhhCCc---ceee--eccCceEEEEECCEEEEEEeeEEccCcCcccccccCchHHHHHHHHhh--hhhHHHH
Confidence 22222211000011 1222 4999999999999999994 443333 2221 1233334433 3348899
Q ss_pred HHHHHHHHHHhhCccCC--CCCCCChHHHHHHHHHHHHhcCCCCCCch-HHHHHHhhcccccccccceEEccCCcccCCC
Q 005180 189 IILIKAWCYYESRILGA--HHGLISTYALETLVLYIFHLFHSSLNGPL-AVLYKFLDYFSKFDWDSYCISLNGPVRISSL 265 (710)
Q Consensus 189 vllIK~Wak~~r~In~a--~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL-~LL~~FFeyYs~FDw~~~~ISI~GPv~lssl 265 (710)
|+|+|+|+| ..+++|+ +++|||||...|||++| +.. .+|..+ ++|.. ...|.+.
T Consensus 155 VRLlK~f~k-~~gvYGsE~k~~GFSGYl~ELLv~~y---------G~F~~~l~~a----~~w~~-~~~I~~~-------- 211 (447)
T PRK13300 155 VRLLKQFLK-GIGVYGSELKTRGFSGYLCELLIIHY---------GSFENVLKAA----SKWKP-PVKIDLE-------- 211 (447)
T ss_pred HHHHHHHHH-hCCccchhhccCCccHHHHHHHHHHh---------CCHHHHHHHH----HhCCC-CceEecc--------
Confidence 999999998 6788875 89999999999999994 122 233222 22211 1222221
Q ss_pred CccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHH
Q 005180 266 PEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSA 340 (710)
Q Consensus 266 p~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGRSVs~~~~~rIr~a 340 (710)
..+. ...| ..+|.|.||.++.||+|++++..++.++..+
T Consensus 212 ---------~~~~--------------------------~~~f-~~PlvViDPvDp~RNVAaa~S~~~~~~fv~a 250 (447)
T PRK13300 212 ---------KHGK--------------------------EYKF-DDPLVVIDPVDPNRNVAAALSLENLATFILA 250 (447)
T ss_pred ---------ccCc--------------------------cccC-CCCEEEeCCCCCcchHHHHcCHHHHHHHHHH
Confidence 0010 0012 5679999999999999999998877775433
No 11
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.72 E-value=7.4e-16 Score=167.60 Aligned_cols=236 Identities=22% Similarity=0.251 Sum_probs=158.6
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-----hcCCCceeeeccccCCCCC-CCCceEEeecCCCcchHHH
Q 005180 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-----YLGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALA 114 (710)
Q Consensus 41 ~le~~i~efv~~i~PT~eE~~~R~~VI~~Lq~iI~~-----~p~a~V~~FGS~~tGL~Lp-~SDIDL~I~~~~~~~~~~~ 114 (710)
.+++.++++++.+.||++|.++-+.+.+.|...+.. ..++.|.+.||++-||||+ +.||||.|..+.....+-+
T Consensus 2 ~~~~~l~evl~~i~P~~eE~~~~~~~~e~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd~DIDvFi~Fp~d~~~eel 81 (443)
T COG1746 2 TLEEVLEEVLKRIKPTEEERKKLKEVAEELRERINEIIEELGIDAEVVLVGSYAKGTWLRGDHDIDVFIAFPKDTSEEEL 81 (443)
T ss_pred chHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeecccCcccCCCcceeEEEECCCCCCHHHH
Confidence 467888999999999999999888877776666653 3689999999999999999 8999999999887533222
Q ss_pred HH-HHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCEEEEEe--eecCC------cchhhHH-HHHHHHHhcCCc
Q 005180 115 ND-VCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDIS--FNQLG------GLSTLCF-LEQVDRLIGKDH 183 (710)
Q Consensus 115 ~~-L~~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~~gI~VDIS--fNn~~------gi~~s~f-Le~v~~~i~~dp 183 (710)
+. -..+.+....+ ..+ -+ .|..|.|.-..+|++|||. ++-.. ++--|-| .+++...+ +.
T Consensus 82 ~~~GL~ig~~~l~~--~~~------~~~YAeHPYV~g~v~G~eVDvVPCy~v~~~~~~~sAVDRTplHt~yv~e~L--~~ 151 (443)
T COG1746 82 EEKGLEIGREVLKR--GNY------EERYAEHPYVTGEVDGYEVDVVPCYKVEDGEKIISAVDRTPLHTRYVEEHL--KG 151 (443)
T ss_pred HHHHHHHHHHHhcC--Cch------hhhhccCCeeEEEEccEEEEEEecccccCcccccccccCcchhHHHHHHHh--cc
Confidence 21 11222211000 011 13 7999999999999999994 43322 2221111 22333333 33
Q ss_pred hhHHHHHHHHHHHHHhhCccCC--CCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhcccccccccceEEccCCcc
Q 005180 184 LFKRSIILIKAWCYYESRILGA--HHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVR 261 (710)
Q Consensus 184 ~fr~LvllIK~Wak~~r~In~a--~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL~LL~~FFeyYs~FDw~~~~ISI~GPv~ 261 (710)
+.+.-|+|+|+|+| ..|++|+ +++|||+|...||||+|= ++ ..+|..+ ++ |... +-|.
T Consensus 152 ~~~deVrLLK~FlK-~iGvYGaE~rt~GFSGYL~ELLII~yG-----sF---e~vl~~a----~~--wrp~-~~ID---- 211 (443)
T COG1746 152 RQKDEVRLLKQFLK-GIGVYGAELRTQGFSGYLCELLIIHYG-----SF---ENVLKAA----SR--WRPG-KIID---- 211 (443)
T ss_pred cchhHHHHHHHHHh-ccCccceeeeeccchHHHHHHHHhhhc-----cH---HHHHHHH----hc--cCCC-eEEe----
Confidence 44567899999998 7788875 899999999999999952 10 1233222 22 5532 2221
Q ss_pred cCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHH
Q 005180 262 ISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAF 341 (710)
Q Consensus 262 lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGRSVs~~~~~rIr~aF 341 (710)
.+.. +...|..++|.|.||.||++|+|.+++..++.+ |
T Consensus 212 ----------------------~~~~----------------~~e~f~d~PliVvDPVDP~RNVAAalSl~~la~----f 249 (443)
T COG1746 212 ----------------------LEGH----------------KRERFEDEPLIVVDPVDPKRNVAAALSLENLAR----F 249 (443)
T ss_pred ----------------------ccch----------------hhhccCCCCeEecCCCCCccchhhhcCHHHHHH----H
Confidence 0000 002344568999999999999999999888877 4
Q ss_pred HHHHHHH
Q 005180 342 TYGARKL 348 (710)
Q Consensus 342 ~~A~~~L 348 (710)
..|++.+
T Consensus 250 ~~aar~F 256 (443)
T COG1746 250 VHAAREF 256 (443)
T ss_pred HHHHHHH
Confidence 5556555
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=98.60 E-value=1.9e-08 Score=82.25 Aligned_cols=25 Identities=36% Similarity=0.867 Sum_probs=21.5
Q ss_pred hH-HHHHHhhccc-ccccccceEEccC
Q 005180 234 LA-VLYKFLDYFS-KFDWDSYCISLNG 258 (710)
Q Consensus 234 L~-LL~~FFeyYs-~FDw~~~~ISI~G 258 (710)
|+ ||++||+||+ +|||++++|||+.
T Consensus 2 lg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~ 28 (60)
T PF03828_consen 2 LGELLLGFFEYYGRKFDYENNVISIRN 28 (60)
T ss_dssp HHHHHHHHHHHHHHTS-TTTEEEESSS
T ss_pred HHHHHHHHHHHhCCcCCCCceEEEecC
Confidence 44 7899999999 9999999999984
No 13
>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=98.27 E-value=1.6e-06 Score=80.34 Aligned_cols=92 Identities=23% Similarity=0.386 Sum_probs=55.2
Q ss_pred HHHHHHHHHHhhCccCC--CCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhccccccccc-ceEEccCCcccCCC
Q 005180 189 IILIKAWCYYESRILGA--HHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDS-YCISLNGPVRISSL 265 (710)
Q Consensus 189 vllIK~Wak~~r~In~a--~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL~LL~~FFeyYs~FDw~~-~~ISI~GPv~lssl 265 (710)
|+++|+|+| ..+++|+ +++|+|+|...||||+|= . +...++.-+ +|.. ..|.+.
T Consensus 3 VrLLK~FlK-~igvYGse~~~~GFSGYL~ELLii~yG---------s---F~~~l~~a~--~W~~~~~Id~~-------- 59 (114)
T PF09249_consen 3 VRLLKQFLK-GIGVYGSELKTRGFSGYLCELLIIHYG---------S---FENVLEAAA--KWKPPVVIDLE-------- 59 (114)
T ss_dssp HHHHHHHHH-HTT-B-SSTTT-SB-HHHHHHHHHHHS---------S---HHHHHHHHT--T--TTEEEETT--------
T ss_pred hHHHHHHHh-cCCCcchhhhcCcchHHHHHHHHHHHC---------C---HHHHHHHHH--hcCCCeEEccC--------
Confidence 789999998 7899975 899999999999999951 1 122333334 3543 222221
Q ss_pred CccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHH
Q 005180 266 PEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIR 338 (710)
Q Consensus 266 p~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGRSVs~~~~~rIr 338 (710)
..+. ..+.| ..+|.|.||.|+++|+|.+++..++.++.
T Consensus 60 ---------~~~~-------------------------~~~~f-~~PlvviDPvDp~RNVAAalS~~~~~~fv 97 (114)
T PF09249_consen 60 ---------DHGE-------------------------PSKKF-DDPLVVIDPVDPNRNVAAALSLENLAEFV 97 (114)
T ss_dssp ----------TTE---------------------------EEE--SS-EEEETTEEEEETTTTS-HHHHHHHH
T ss_pred ---------ccch-------------------------hhhhc-CCCeEEcCCCCCCchHhHhcCHHHHHHHH
Confidence 1010 00112 46799999999999999999988777744
No 14
>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=97.96 E-value=2.9e-05 Score=78.21 Aligned_cols=62 Identities=26% Similarity=0.394 Sum_probs=43.3
Q ss_pred CcchhhHHHHHHHHHhcCCc-hhHHHHHHHHHHHHHhhCccC-CCCCCCChHHHHHHHHHHHHhc
Q 005180 164 GGLSTLCFLEQVDRLIGKDH-LFKRSIILIKAWCYYESRILG-AHHGLISTYALETLVLYIFHLF 226 (710)
Q Consensus 164 ~gi~~s~fLe~v~~~i~~dp-~fr~LvllIK~Wak~~r~In~-a~~GgLSSYaL~LMVI~fLQ~~ 226 (710)
.|-.++||.+.=..++...| .+|.||++||+|.+ +..-.. ...+..++|+|.||+||...+-
T Consensus 22 ~gefS~cftelQ~~Fvk~rP~klK~LIrLVKhWy~-~~~~~~~~~~~lPpsYaLELLtIyAWE~g 85 (190)
T PF10421_consen 22 PGEFSACFTELQRNFVKHRPTKLKNLIRLVKHWYQ-QCKKKKCGGGSLPPSYALELLTIYAWEQG 85 (190)
T ss_dssp TTTTGGGGHHHHHHHHHTS-HHHHHHHHHHHHHHH-HHHCC--HTT-S--HHHHHHHHHHHHHHH
T ss_pred CccchHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH-HHHhhccCCCCCcHHHHHHHHHHHHHHhc
Confidence 45667778776667777665 59999999999986 433332 3456677999999999998764
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=97.68 E-value=2.9e-05 Score=67.76 Aligned_cols=43 Identities=28% Similarity=0.414 Sum_probs=36.7
Q ss_pred HHHHHHHHHh-hcCCCceeeeccccCCCCCCCCceEEeecCCCc
Q 005180 67 IDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV 109 (710)
Q Consensus 67 I~~Lq~iI~~-~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~ 109 (710)
|+++.+.+++ ++.+.|.+|||+++|.+.|+|||||+|..+...
T Consensus 1 i~~i~~~l~~~~~~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~~ 44 (93)
T PF01909_consen 1 IEEIKEILKELFGVAEVYLFGSYARGDATPDSDIDLLIILDEPE 44 (93)
T ss_dssp HHHHHHHHHHHHTTEEEEEEHHHHHTSSCTTSCEEEEEEESSTS
T ss_pred CHHHHHHHHHHCCCCEEEEECCcccCcCCCCCCEEEEEEeCCcc
Confidence 4566777774 568899999999999999999999999998754
No 16
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=97.64 E-value=0.0024 Score=66.93 Aligned_cols=202 Identities=15% Similarity=0.147 Sum_probs=113.1
Q ss_pred CceeeeccccCCCCC-CCCceEEeecCCCcchHHHHHHHHHHHHHhhccccccceeEEEEEeeeeeEEEEeeC----CEE
Q 005180 81 EVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQ----NIV 155 (710)
Q Consensus 81 ~V~~FGS~~tGL~Lp-~SDIDL~I~~~~~~~~~~~~~L~~~L~~~~~~~~a~f~Vk~V~~I~ARVPIIKf~~~----gI~ 155 (710)
.|.-.||++.||.+. +-++||+++....-..++++.|...|....+....+ . ..+.+..+.+|.+++.+. .+.
T Consensus 4 gV~rVG~~aKG~ll~Gd~~~~lVv~c~~~PT~~ll~~v~~~l~e~l~~~~~~-e-~~~~~~~~~~~~~~~~i~ltSp~~r 81 (246)
T smart00572 4 GVMRVGSFAKGTLLKGDNVAELVLLCKEKPTSELVARLARKLPEQLKAVTED-E-ALIIVTSTKEPTMEVGILITSPLAR 81 (246)
T ss_pred ceEEeeeeccCceecCCCceeEEEEecCCCcHHHHHHHHHHHHHHHhhcCcc-c-ceeeeeccCCCceeEEEEEeccccc
Confidence 467789999999999 678999999865322333444433332111110111 1 112122666677766642 222
Q ss_pred EEEeee----cCC---------------cchhhHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHH
Q 005180 156 VDISFN----QLG---------------GLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALE 216 (710)
Q Consensus 156 VDISfN----n~~---------------gi~~s~fLe~v~~~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~ 216 (710)
+++... +.. ++.+++-.+|++....--..++.+++++|-|+. + .- .-+-|++|.+.
T Consensus 82 ~~~~~~~~~~~~~~~~p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~-R--~~--~~~pL~~w~iE 156 (246)
T smart00572 82 VELLITTVPENLRKLDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCN-R--VP--TWQPLSGWPLE 156 (246)
T ss_pred ccccccccCcccccCCccccCCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHH-h--cc--cccccccccHH
Confidence 222211 100 011111112333332222368899999999985 2 21 11239999999
Q ss_pred HHHHHHHHhcCCCCCCchHHHHHHhhcccccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccC
Q 005180 217 TLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSV 296 (710)
Q Consensus 217 LMVI~fLQ~~~p~l~~pL~LL~~FFeyYs~FDw~~~~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~ 296 (710)
|++-+.+-. .....++-..|.+||++-+. | .++
T Consensus 157 Ll~~~~i~~-~~~~l~~~~a~RR~fe~lAs------------------------------G--~l~-------------- 189 (246)
T smart00572 157 LLVEKAIGS-ARQPLGLGDAFRRVFECLAS------------------------------G--ILL-------------- 189 (246)
T ss_pred HHHHHHhcc-CCCCCCHHHHHHHHHHHHHh------------------------------c--cCc--------------
Confidence 999776642 11112333478999998752 0 011
Q ss_pred CCCCCCCCCCCCCCcceEEeCCCCC-CCCcccCcCHHHHHHHHHHHHHHHHHHH
Q 005180 297 PSRGFDTNSRSFPPKHLNIVDPLKE-NNNLGRSVSKGNFYRIRSAFTYGARKLG 349 (710)
Q Consensus 297 ~~rg~e~~~~~f~~k~L~IeDP~d~-snNlGRSVs~~~~~rIr~aF~~A~~~L~ 349 (710)
+....|.||.+. .+|+.+..+......|-.+=+.|.|.+.
T Consensus 190 -------------p~~~gI~DPce~~~~nv~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 190 -------------PGSPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred -------------CCCCCCcCCCCCCcccHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 112578999997 8999999987777777766666655543
No 17
>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=97.56 E-value=0.0001 Score=58.63 Aligned_cols=40 Identities=23% Similarity=0.430 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHh-hcCCCceeeeccccCCCCCCCCceEEee
Q 005180 65 AVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAF 104 (710)
Q Consensus 65 ~VI~~Lq~iI~~-~p~a~V~~FGS~~tGL~Lp~SDIDL~I~ 104 (710)
++++.+++.++. ....++.+|||++.|.+.+.|||||++.
T Consensus 2 ~~l~~i~~~l~~~~~~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 2 ELLDIIKERLKKLVPGYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHHhhcCCcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 456677777775 4578999999999999999999999986
No 18
>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=97.50 E-value=0.00052 Score=65.06 Aligned_cols=91 Identities=22% Similarity=0.259 Sum_probs=57.2
Q ss_pred HHHHHHHHHHHHHHHHhh--cCCCceeeeccccCCCCC-CCCceEEeecCCCcc------hHHHHHHHHHHHHHhhcccc
Q 005180 60 EERRKAVIDYVQRLIRNY--LGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVE------EALANDVCSVLEREDQNKAA 130 (710)
Q Consensus 60 ~~~R~~VI~~Lq~iI~~~--p~a~V~~FGS~~tGL~Lp-~SDIDL~I~~~~~~~------~~~~~~L~~~L~~~~~~~~a 130 (710)
..+...|.+.|++-.... +..++++|||++.|++++ .||||++|..+.... ..++..|.+.|+.....
T Consensus 6 ~~~~~~i~~~L~~~~~~~~~~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~--- 82 (143)
T cd05400 6 KERYREIREALKESLSELAGRVAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGA--- 82 (143)
T ss_pred HHHHHHHHHHHHHhcccccccccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCc---
Confidence 344444555555544421 458999999999999988 899999999865422 23455666666542110
Q ss_pred ccceeEEEEEeeeeeEEEEeeC--CEEEEEe
Q 005180 131 EFVVKDAQLIRAEVKLVKCLVQ--NIVVDIS 159 (710)
Q Consensus 131 ~f~Vk~V~~I~ARVPIIKf~~~--gI~VDIS 159 (710)
-..+..+-|.|.+... ++.+||.
T Consensus 83 ------~~~~~~~~~~v~v~~~~~~~~vDvv 107 (143)
T cd05400 83 ------NEEVKAQHRSVTVKFKGQGFHVDVV 107 (143)
T ss_pred ------ccccccCceEEEEEEcCCCeEEEEE
Confidence 0123444456665554 8999994
No 19
>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=97.30 E-value=0.0006 Score=58.90 Aligned_cols=44 Identities=27% Similarity=0.403 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhhc--CCCceeeeccccCCCCCCCCceEEeecCCCc
Q 005180 66 VIDYVQRLIRNYL--GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV 109 (710)
Q Consensus 66 VI~~Lq~iI~~~p--~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~ 109 (710)
.++.+.+++++.+ -..|.+|||++.|-+.++|||||+|+.....
T Consensus 3 ~~~~i~~~l~~~~~~i~~i~LfGS~arg~~~~~SDiDl~vi~~~~~ 48 (93)
T cd05403 3 ILEEILEILRELLGGVEKVYLFGSYARGDARPDSDIDLLVIFDDPL 48 (93)
T ss_pred hHHHHHHHHHHHhCCccEEEEEeeeecCCCCCCCCeeEEEEeCCCC
Confidence 4556666666554 5789999999999999999999999987654
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=96.85 E-value=0.0092 Score=73.78 Aligned_cols=135 Identities=16% Similarity=0.210 Sum_probs=96.5
Q ss_pred HHHhcCCchhHHHHHHHHHHHHHhhCccCC-CCCCCChHHHHHHHHHHHHhcC----CCC---CCchHHHHHHhhccccc
Q 005180 176 DRLIGKDHLFKRSIILIKAWCYYESRILGA-HHGLISTYALETLVLYIFHLFH----SSL---NGPLAVLYKFLDYFSKF 247 (710)
Q Consensus 176 ~~~i~~dp~fr~LvllIK~Wak~~r~In~a-~~GgLSSYaL~LMVI~fLQ~~~----p~l---~~pL~LL~~FFeyYs~F 247 (710)
.+.....|.|+.-++|+|.|++ +|++... ..|||+++-|.+|+++.+|.-. ..+ .+..+++..+++|-++-
T Consensus 157 ~~~~~~~p~f~dA~iLlkvWl~-QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fLA~~ 235 (972)
T PF03813_consen 157 HEASKSSPAFRDACILLKVWLR-QRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFLATT 235 (972)
T ss_pred HHHHhcCHHHHHHHHHHHHHHh-cCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHHhcc
Confidence 3444567999999999999996 8888754 4699999999999998888511 222 24567889999999999
Q ss_pred ccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCccc
Q 005180 248 DWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGR 327 (710)
Q Consensus 248 Dw~~~~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGR 327 (710)
||.+.+|.+..-. +. .+.+.... .....++.||-.. -|++.
T Consensus 236 d~~~~~l~~~~~~---------------~~------~~~~~~~~-----------------~~~~~vf~D~sg~-~Nl~~ 276 (972)
T PF03813_consen 236 DLSKKPLFFKSSS---------------DS------TESLEEFH-----------------SAFDPVFVDPSGG-LNLLA 276 (972)
T ss_pred ccccCceEEecCC---------------Cc------cchhhhhh-----------------ccCCeEEEeCCCC-EEEEE
Confidence 9988888876210 00 11111110 1223677788776 68999
Q ss_pred CcCHHHHHHHHHHHHHHHHHHHh
Q 005180 328 SVSKGNFYRIRSAFTYGARKLGH 350 (710)
Q Consensus 328 SVs~~~~~rIr~aF~~A~~~L~~ 350 (710)
.++...+.+||.+=+.+...|.+
T Consensus 277 ~ms~~s~~~L~~eA~~tl~lL~~ 299 (972)
T PF03813_consen 277 KMSPSSYEELQHEAKLTLELLDD 299 (972)
T ss_pred cCCHHHHHHHHHHHHHHHHHhcc
Confidence 99998999999997777766654
No 21
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.58 E-value=0.009 Score=54.44 Aligned_cols=47 Identities=23% Similarity=0.263 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHhhcC-CCceeeeccccCCCCCCCCceEEeecCCC
Q 005180 62 RRKAVIDYVQRLIRNYLG-CEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (710)
Q Consensus 62 ~R~~VI~~Lq~iI~~~p~-a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~ 108 (710)
..+++++.+...++++++ +++-+|||++-|-.-|+|||||.|.+...
T Consensus 6 ~~~~~lr~~~~~l~~k~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 6 ELKKILRKIKPELKEKYGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHHhCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 344556777778887764 68999999999999999999999987654
No 22
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=95.88 E-value=0.021 Score=60.67 Aligned_cols=55 Identities=20% Similarity=0.225 Sum_probs=38.3
Q ss_pred HHHHHHHHHhhcCC---CceeeeccccCCCCCCCCceEEeecCCCcchHHHHHHHHHH
Q 005180 67 IDYVQRLIRNYLGC---EVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVL 121 (710)
Q Consensus 67 I~~Lq~iI~~~p~a---~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~~~~~~~L~~~L 121 (710)
++.++++++..++- .|++|||++.|-+-|.|||||.|+......+.....|...|
T Consensus 13 l~~~~~~l~~~l~~~l~~vyLfGS~~~G~~~p~SDIDllvvv~~~l~~~~~~~L~~~L 70 (262)
T PRK13746 13 LSEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVPLDETTRRALMNDL 70 (262)
T ss_pred HHHHHHHHHHhCcccEEEEEEECCcccCCCCCCCceeEEEEeCCCCCHHHHHHHHHHH
Confidence 33445666655543 58999999999999999999999987765433333344333
No 23
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.51 E-value=0.019 Score=52.28 Aligned_cols=28 Identities=25% Similarity=0.419 Sum_probs=26.4
Q ss_pred cCCCceeeeccccCCCCCCCCceEEeec
Q 005180 78 LGCEVFPFGSVPLKTYLPDGDIDLTAFG 105 (710)
Q Consensus 78 p~a~V~~FGS~~tGL~Lp~SDIDL~I~~ 105 (710)
....|++|||++.|-+.+.||||++|..
T Consensus 25 ~~~~v~LfGS~arG~~~~~SDiDv~vv~ 52 (128)
T COG1708 25 GDLLIYLFGSYARGDFVKESDIDLLVVS 52 (128)
T ss_pred CCeEEEEEccCcccccccCCCeeEEEEc
Confidence 4689999999999999999999999997
No 24
>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=95.35 E-value=0.69 Score=49.03 Aligned_cols=152 Identities=18% Similarity=0.183 Sum_probs=78.1
Q ss_pred eeccccCCCCC-CCCceEEeecCCCcchHHHHHHHHHHHHHhhcccccccee---EE-EEE-eeeeeEEEEee--C--CE
Q 005180 85 FGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVK---DA-QLI-RAEVKLVKCLV--Q--NI 154 (710)
Q Consensus 85 FGS~~tGL~Lp-~SDIDL~I~~~~~~~~~~~~~L~~~L~~~~~~~~a~f~Vk---~V-~~I-~ARVPIIKf~~--~--gI 154 (710)
.||++.||.+. +-++|+||+....-..++++.|.+.|.........+ .|. +. .++ ..+.|.+.+.. . .+
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kPT~~lL~~v~~~L~~~L~~~~~~-ev~~~~e~~~~~~~~~~~~~~~~~~lts~~~ 80 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKPTKELLNRVAEKLPEQLKKVTPE-EVTNSVEAAIIIDSCKEPKLEVGIDLTSPVM 80 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCCcHHHHHHHHHHHHHHHhhhCcc-ccccchhhhhhhcccccccceeeEEecCCce
Confidence 49999999998 578899999876433344555444443211111111 010 11 011 23334443332 1 23
Q ss_pred EEEEeee----cC------------------CcchhhHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCCh
Q 005180 155 VVDISFN----QL------------------GGLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLIST 212 (710)
Q Consensus 155 ~VDISfN----n~------------------~gi~~s~fLe~v~~~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSS 212 (710)
.+.+.+. +. .+++.+ +|++.....-+..+.+++++|-.+. |. +--+.|++
T Consensus 81 r~~~~~~~~~~~~~~~dp~~~Ld~~~cl~aLaalRha---kWFq~~a~~l~s~~~viRIlrDl~~---R~--p~w~~L~~ 152 (248)
T PF07528_consen 81 RVRVLITTIPENLSKLDPEDHLDRKKCLSALAALRHA---KWFQARANGLQSCVIVIRILRDLRQ---RV--PTWQPLSS 152 (248)
T ss_pred EEEEeccccCccccccChhhcCCHHHHHHHHHHHHHh---HHHHHHhccCCCcceehhhHHHHHH---hC--CCCCCCCh
Confidence 3333221 11 112222 2333333334457888899998874 33 23567999
Q ss_pred HHHHHHHHHHHHhcCCC-CCCchHHHHHHhhccc
Q 005180 213 YALETLVLYIFHLFHSS-LNGPLAVLYKFLDYFS 245 (710)
Q Consensus 213 YaL~LMVI~fLQ~~~p~-l~~pL~LL~~FFeyYs 245 (710)
|++.||+-+.+-....+ -.++-..|.++|+.-+
T Consensus 153 W~leLL~~~~i~~~~~~~~l~~g~a~RRvle~la 186 (248)
T PF07528_consen 153 WALELLVEKAISNNSSRQPLSPGDAFRRVLECLA 186 (248)
T ss_pred hHHHHHHHHHeeeCCCCCCCChHHHHHHHHHHHh
Confidence 99999887766421111 1122236777877654
No 25
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=94.42 E-value=0.23 Score=60.62 Aligned_cols=128 Identities=20% Similarity=0.367 Sum_probs=89.1
Q ss_pred cCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCC---CchHHHHHHhhcccccccccceEEc
Q 005180 180 GKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLN---GPLAVLYKFLDYFSKFDWDSYCISL 256 (710)
Q Consensus 180 ~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~---~pL~LL~~FFeyYs~FDw~~~~ISI 256 (710)
...+.|+.-+.|+|.|+. +| -.+-..|||+++-|++++++.+.. .-++ +.++++..-|+|.+..||...+|++
T Consensus 305 s~~~~f~da~~Llk~Wlr-qR-s~~~~~~gfg~f~~s~lvv~L~s~--~ki~~~~S~yqvfR~vl~flat~dlt~~~~~l 380 (1121)
T KOG2054|consen 305 SSAKGFKDALALLKVWLR-QR-SLDIGQGGFGGFLLSALVVYLVST--RKIHTTLSAYQVFRSVLQFLATTDLTVNGISL 380 (1121)
T ss_pred hhhhhHHHHHHHHHHHHH-hh-hhhcccCcchHHHHHHHHHHHHhc--CchhhcchHHHHHHHHHHHHhhhhhhccceEe
Confidence 456889999999999996 44 444567999999999999886653 2233 3466888899999999999999987
Q ss_pred cCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHH
Q 005180 257 NGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYR 336 (710)
Q Consensus 257 ~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGRSVs~~~~~r 336 (710)
. |-+ .++|.. .+|.. ....+..| .....|++.++....+++
T Consensus 381 ~-~~~-~s~~~~---------------~~f~e---------------------~~~~~f~D-~s~~~NLc~~mt~s~y~~ 421 (1121)
T KOG2054|consen 381 V-PSS-PSLPAL---------------ADFHE---------------------GQLVTFID-SSGHLNLCANMTASTYEQ 421 (1121)
T ss_pred c-cCC-CCchhh---------------hhhhh---------------------cceeeEec-cCCcchhhhhccHHHHHH
Confidence 5 111 111110 01110 01234444 233468888888778999
Q ss_pred HHHHHHHHHHHHHh
Q 005180 337 IRSAFTYGARKLGH 350 (710)
Q Consensus 337 Ir~aF~~A~~~L~~ 350 (710)
+|++-+.+++.|..
T Consensus 422 ~q~ea~ltl~lL~~ 435 (1121)
T KOG2054|consen 422 VQEEARLTLMLLDS 435 (1121)
T ss_pred HHHHHHHHHHHHhh
Confidence 99999999999985
No 26
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=93.03 E-value=2.1 Score=45.72 Aligned_cols=197 Identities=21% Similarity=0.214 Sum_probs=109.8
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh--hcC------CCceeeeccccCCCCCCCCc-eEEeecCCC-cc
Q 005180 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN--YLG------CEVFPFGSVPLKTYLPDGDI-DLTAFGGLN-VE 110 (710)
Q Consensus 41 ~le~~i~efv~~i~PT~eE~~~R~~VI~~Lq~iI~~--~p~------a~V~~FGS~~tGL~Lp~SDI-DL~I~~~~~-~~ 110 (710)
.+++++-+=-+.+.|+++|...-..++.+|+.++.. .|+ .+|.-.|||.+|+.+-++|. |++|+...- ..
T Consensus 40 ~f~~alLkRnqdL~P~~~~q~~I~~~vtKV~~vLdn~~~~~L~~~~ieevrqVGSF~k~T~~tg~~~advVViLkTLPt~ 119 (362)
T KOG3793|consen 40 SFSEALLKRNQDLAPNSAEQASILSLVTKVNNVLDNLVAPGLFEVQIEEVRQVGSFKKGTMTTGHNVADLVVILKTLPTL 119 (362)
T ss_pred HHHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHHhhccCCceEeehhhhhhccceeccccccCCcccceEEEeecCCcH
Confidence 345555555567999999999888888888888874 343 35777899999999887664 788876542 12
Q ss_pred h---HHHHHHHHHHHHHh--------hccccccceeEEEEEeeeeeEEEEeeC--------CEEEEEeee--cCCcchhh
Q 005180 111 E---ALANDVCSVLERED--------QNKAAEFVVKDAQLIRAEVKLVKCLVQ--------NIVVDISFN--QLGGLSTL 169 (710)
Q Consensus 111 ~---~~~~~L~~~L~~~~--------~~~~a~f~Vk~V~~I~ARVPIIKf~~~--------gI~VDISfN--n~~gi~~s 169 (710)
+ .+.+++.+-|+... ++ ...|.+ .-.+|+|-|+--+.. .+..|+-.= +..+++.+
T Consensus 120 EaV~aLg~Kv~e~lka~d~~Evltvl~~-e~G~~I---~s~~~~VRiLIt~iP~n~~KLEP~lHLD~K~M~~~l~a~RH~ 195 (362)
T KOG3793|consen 120 EAVAALGNKVVESLRAQDPSEVLTVLTN-ETGFEI---SSSDATVRILITTVPPNLRKLEPELHLDIKVMQSALAAIRHA 195 (362)
T ss_pred HHHHHHHHHHHHHhhhcChHHHHHHHhh-ccceee---ecccceEEEEEeecCchhcccChhhhhhHHHHHHHHHHHhhh
Confidence 2 22233433333211 11 112222 223788888766642 456665432 23344544
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCchHH-HHHHhhccc--c
Q 005180 170 CFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAV-LYKFLDYFS--K 246 (710)
Q Consensus 170 ~fLe~v~~~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL~L-L~~FFeyYs--~ 246 (710)
.+.++.+ -...++-|++++|--- ++..+ ..-|+-+.|-++.-+-+...+.+..-+|.+ ..+||+..+ -
T Consensus 196 ~WFee~A----~~s~~~~lir~LKDlr---~r~~~--F~PLs~W~ldll~h~avmNnp~RQ~l~ln~Afrr~~qilaAG~ 266 (362)
T KOG3793|consen 196 RWFEENA----SQSTVKVLIRLLKDLR---IRFPG--FEPLTPWILDLLGHYAVMNNPTRQPLALNVAYRRCLQILAAGL 266 (362)
T ss_pred hhhhhhh----hHHHHHHHHHHHHHHH---hhcCC--CCCchHHHHHHHHHHHHHcCCccccchhhHHHHHHHHHHHhcc
Confidence 4443321 1234677788888653 23322 123555655555444333222232234554 477888875 4
Q ss_pred cccc
Q 005180 247 FDWD 250 (710)
Q Consensus 247 FDw~ 250 (710)
|--.
T Consensus 267 FlPg 270 (362)
T KOG3793|consen 267 FLPG 270 (362)
T ss_pred cCCC
Confidence 5443
No 27
>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=91.67 E-value=2.7 Score=52.54 Aligned_cols=144 Identities=23% Similarity=0.248 Sum_probs=86.7
Q ss_pred HHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCc---hHHHHHHhhcccccccccc
Q 005180 176 DRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGP---LAVLYKFLDYFSKFDWDSY 252 (710)
Q Consensus 176 ~~~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~~p---L~LL~~FFeyYs~FDw~~~ 252 (710)
..+..++|.|.+.|+++|+|+. ..+. .+.|+.=+++|||++++-... +...| ..-+++||++-++|||...
T Consensus 676 ~~l~~~~p~fs~tvRL~KrW~~--shlL---s~~i~~E~vELlva~vfl~~~-p~~~P~S~~~GFlRfL~lLs~~dW~~~ 749 (972)
T PF03813_consen 676 HGLHTRFPSFSPTVRLAKRWLS--SHLL---SGHISEEAVELLVASVFLSPA-PWSPPSSPQTGFLRFLHLLSTWDWREE 749 (972)
T ss_pred HHHHhhCCchhHHHHHHHHHHH--hccC---cccCCHHHHHHHHHHHhcCCC-CCCCCCCHhHHHHHHHHHHHhCCCCcC
Confidence 3344578999999999999995 3454 567899999999999775322 22233 3346788888999999976
Q ss_pred eEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCccc--CcC
Q 005180 253 CISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGR--SVS 330 (710)
Q Consensus 253 ~ISI~GPv~lsslp~~~~e~p~~~g~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~k~L~IeDP~d~snNlGR--SVs 330 (710)
.+-|. + + + -++.+........|....+.. .......|+|-.|.|+..-+-. +-+
T Consensus 750 PLiVd----~------------~-~---~l~~~~~~~i~~~f~~~R~~d----p~~~~p~~~IaT~~D~~g~~wT~~~Ps 805 (972)
T PF03813_consen 750 PLIVD----F------------N-N---ELTEEDRAEIETNFDAWRKID----PAMNLPAMFIATPYDPEGSLWTRNGPS 805 (972)
T ss_pred CEEEE----C------------C-C---CCCHHHHHHHHHHHHHhhccC----ccccCCcEEEEeCCCCCCCEeECCCCC
Confidence 65443 0 0 0 123333333333332111100 0112345999999998644222 233
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 005180 331 KGNFYRIRSAFTYGARKLG 349 (710)
Q Consensus 331 ~~~~~rIr~aF~~A~~~L~ 349 (710)
+..+.||+..=+.+++.|.
T Consensus 806 ~~v~~Rl~~LAk~sl~~l~ 824 (972)
T PF03813_consen 806 KVVAKRLTALAKASLKLLE 824 (972)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4456777765555555555
No 28
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=91.63 E-value=2.7 Score=41.57 Aligned_cols=107 Identities=17% Similarity=0.200 Sum_probs=62.6
Q ss_pred CCCceeeeccccCCCCCCCCceEEeecCCCcchHHHHHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCEEEE
Q 005180 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVD 157 (710)
Q Consensus 79 ~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~~~~~~~L~~~L~~~~~~~~a~f~Vk~V~~I-~ARVPIIKf~~~gI~VD 157 (710)
.....+.|..+.|+..|+|||||++..++ .+.+.+.+.+.... ...|.++.- .| .-..=+..|...|..+.
T Consensus 15 ~~~PiL~GTiPi~Idi~~SDLDIic~~~d--~~~F~~~l~~~f~~-----~~~f~~~~~-~i~~~~~~~~~F~~~~~~~E 86 (152)
T PF14091_consen 15 AYDPILVGTIPIGIDIPGSDLDIICEVPD--PEAFEQLLQSLFGQ-----FEGFTIKEK-TIRGEPSIVANFRYEGFPFE 86 (152)
T ss_pred cCCCEEecccccccCCCCCCccEEEEeCC--HHHHHHHHHHHhcc-----CCCceeeec-eeCCceeEEEEEEECCceEE
Confidence 44788999999999999999999999765 23333333333221 234555442 23 33333455667798888
Q ss_pred Eeeec-CCcchhhH-HHHHHHHHhcCC-chhHHHHHHHH
Q 005180 158 ISFNQ-LGGLSTLC-FLEQVDRLIGKD-HLFKRSIILIK 193 (710)
Q Consensus 158 ISfNn-~~gi~~s~-fLe~v~~~i~~d-p~fr~LvllIK 193 (710)
|-..+ ...-++.- -+..-.+++... +.||.-|+-+|
T Consensus 87 iF~Q~~Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK 125 (152)
T PF14091_consen 87 IFGQPIPVEEQNAYRHMLIEHRLLELHGPSFREEIIELK 125 (152)
T ss_pred EeecCCChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence 84422 22222221 111113344444 88998888887
No 29
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=90.29 E-value=0.73 Score=48.04 Aligned_cols=39 Identities=21% Similarity=0.134 Sum_probs=30.0
Q ss_pred HHHHHHHHhhcCCCceeeeccc----cCC--CCCCCCceEEeecCC
Q 005180 68 DYVQRLIRNYLGCEVFPFGSVP----LKT--YLPDGDIDLTAFGGL 107 (710)
Q Consensus 68 ~~Lq~iI~~~p~a~V~~FGS~~----tGL--~Lp~SDIDL~I~~~~ 107 (710)
..|..+... .+..+-+|||+. ||+ -.++|||||.|..+.
T Consensus 110 ~~l~~~~~~-~g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~ 154 (221)
T PRK02098 110 RALLALAAA-HGVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPA 154 (221)
T ss_pred HHHHHHHHh-CCCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCC
Confidence 344444333 567999999999 999 677999999998764
No 30
>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=89.10 E-value=0.93 Score=46.60 Aligned_cols=30 Identities=23% Similarity=0.170 Sum_probs=26.5
Q ss_pred cCCCceeeecc----ccCC--CCCCCCceEEeecCC
Q 005180 78 LGCEVFPFGSV----PLKT--YLPDGDIDLTAFGGL 107 (710)
Q Consensus 78 p~a~V~~FGS~----~tGL--~Lp~SDIDL~I~~~~ 107 (710)
.++.+-+|||+ +||+ -.++|||||.|..+.
T Consensus 107 ~~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~ 142 (202)
T TIGR03135 107 LGVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPS 142 (202)
T ss_pred CCCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCC
Confidence 56799999999 8999 677999999998864
No 31
>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=84.25 E-value=1.6 Score=40.68 Aligned_cols=56 Identities=25% Similarity=0.199 Sum_probs=38.6
Q ss_pred HHHHHHHHHh-hcCCCceeeeccccCCCCCCCCceEEeecCCCcc-----hHHHHHHHHHHHH
Q 005180 67 IDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE-----EALANDVCSVLER 123 (710)
Q Consensus 67 I~~Lq~iI~~-~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~-----~~~~~~L~~~L~~ 123 (710)
.+.|++.+.. .|++++.+-|||.-|--.- +||||.|..+.... ..++..|.+.|+.
T Consensus 11 ~~~V~~~~~~i~p~~~v~i~GSyRRGK~~~-gDiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~ 72 (112)
T PF14792_consen 11 EEIVKEALEKIDPGLEVEICGSYRRGKETS-GDIDILITHPDPSSVSKKLEGLLEKLVKRLEE 72 (112)
T ss_dssp HHHHHHHHHCCSTT-EEEEEHHHHTT-SEE-SSEEEEEEETTCSTTTCSTTCHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCcEEEEccccccCCCcC-CCeEEEEeCCCcCcchhhHHHHHHHHHHHHHh
Confidence 3445556654 4899999999999998764 59999999876432 3456666666654
No 32
>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=70.92 E-value=29 Score=33.92 Aligned_cols=30 Identities=20% Similarity=0.193 Sum_probs=26.8
Q ss_pred CCCceeeeccccCCCCCCCCceEEeecCCC
Q 005180 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (710)
Q Consensus 79 ~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~ 108 (710)
..-+..+||+..+=-.+.||+|+.++....
T Consensus 55 ~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~ 84 (172)
T cd05401 55 PFALLALGSYGRGELNPSSDQDLLLLYDDD 84 (172)
T ss_pred cEEEEEeCCcccCCcCCCcCcceEEEeCCC
Confidence 467999999999999999999999998654
No 33
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=66.45 E-value=13 Score=44.93 Aligned_cols=59 Identities=17% Similarity=0.195 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHh--hc-CCCceeeeccccCCCCCCCCceEEeecCCCcchHHHHHHH
Q 005180 60 EERRKAVIDYVQRLIRN--YL-GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVC 118 (710)
Q Consensus 60 ~~~R~~VI~~Lq~iI~~--~p-~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~~~~~~~L~ 118 (710)
.+.|+.+......+++. .| ++.+...|+|.-|--.|.|||||.++.+....+..++.+.
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~~~~~~~i~~~~ 66 (693)
T PRK00227 5 AQLREDAEASALALLGSLQLPPGTALAATGSLARREMTPYSDLDLILLHPPGATPDGVEDLW 66 (693)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCeEEEEeccccccCcCCCcCceEEEEeCCcccHHHHHHHH
Confidence 35688888888888885 33 6789999999999999999999999987433233333333
No 34
>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=65.88 E-value=15 Score=38.17 Aligned_cols=54 Identities=20% Similarity=0.258 Sum_probs=35.9
Q ss_pred HHHHHHHHHHhhcCCCceeeecc----ccCC--CCCCCCceEEeecCCCcchHHHHHHHHHHHH
Q 005180 66 VIDYVQRLIRNYLGCEVFPFGSV----PLKT--YLPDGDIDLTAFGGLNVEEALANDVCSVLER 123 (710)
Q Consensus 66 VI~~Lq~iI~~~p~a~V~~FGS~----~tGL--~Lp~SDIDL~I~~~~~~~~~~~~~L~~~L~~ 123 (710)
.+..|+.+. ...+...-+|||+ +||+ -.++|||||.|..+... -++.+.+.|+.
T Consensus 104 ~l~~l~~~~-~~~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~~---~~~~l~~~L~~ 163 (213)
T PF10620_consen 104 ALQALRALL-DALGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSPS---QADALLALLQA 163 (213)
T ss_pred HHHHHHHHH-HHcCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCChh---HHHHHHHHHHH
Confidence 444555555 4579999999996 5777 25589999999887643 23344445533
No 35
>PRK05007 PII uridylyl-transferase; Provisional
Probab=64.03 E-value=30 Score=43.08 Aligned_cols=50 Identities=26% Similarity=0.265 Sum_probs=35.3
Q ss_pred HHHHHHHHHHH-HHHHHhh-----cCCCceeeeccccCCCCCCCCceEEeecCCCc
Q 005180 60 EERRKAVIDYV-QRLIRNY-----LGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV 109 (710)
Q Consensus 60 ~~~R~~VI~~L-q~iI~~~-----p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~ 109 (710)
.+.|..+++.+ +.+.... ++..|...|+|.-|--.|.|||||.++.+...
T Consensus 55 ~~~~s~~~D~~l~~l~~~~~~~~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~~ 110 (884)
T PRK05007 55 VEARTEFIDQLLQRLWIEAGFDQIPDLALVAVGGYGRGELHPLSDIDLLILSRKKL 110 (884)
T ss_pred HHHHHHHHHHHHHHHHHHccCCCcCceEEEecCCCCCcccCCcccceEEEEeCCCC
Confidence 45555555533 3333321 24689999999999999999999999987543
No 36
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=63.41 E-value=17 Score=37.80 Aligned_cols=32 Identities=25% Similarity=0.150 Sum_probs=25.0
Q ss_pred cCCCceeeeccc----cCC--CCCCCCceEEeecCCCc
Q 005180 78 LGCEVFPFGSVP----LKT--YLPDGDIDLTAFGGLNV 109 (710)
Q Consensus 78 p~a~V~~FGS~~----tGL--~Lp~SDIDL~I~~~~~~ 109 (710)
.+...-+|||.. ||+ ..++|||||+|..+...
T Consensus 108 ~~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~~l 145 (207)
T PRK01293 108 LGLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQPL 145 (207)
T ss_pred CCCceeeehhHHHHHhhCCccccCCCCccEeecCCCcc
Confidence 488999999964 666 35589999999886543
No 37
>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=63.13 E-value=48 Score=36.13 Aligned_cols=54 Identities=20% Similarity=0.141 Sum_probs=34.8
Q ss_pred HHHHHHHHhh-cCCCceeeeccccCCCCCCCCceEEeecCCCcchHHHHHHHHHHH
Q 005180 68 DYVQRLIRNY-LGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVLE 122 (710)
Q Consensus 68 ~~Lq~iI~~~-p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~~~~~~~L~~~L~ 122 (710)
+.|...++.. +.++|.+-||+.-|..+ .+||||+|..+......+...|...|.
T Consensus 148 ~~i~~~l~~~~~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~~~~~~~v~~~l~ 202 (307)
T cd00141 148 EIIKEALREVDPVLQVEIAGSYRRGKET-VGDIDILVTHPDATSRGLLEKVVDALV 202 (307)
T ss_pred HHHHHHHHhCCCceEEEEcccccCCCCc-cCCEEEEEecCCccccccHHHHHHHHH
Confidence 3444444443 67999999999888765 589999998765322223344444443
No 38
>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=61.07 E-value=40 Score=32.41 Aligned_cols=29 Identities=14% Similarity=-0.088 Sum_probs=26.8
Q ss_pred CCCceeeeccccCCCCCCCCceEEeecCC
Q 005180 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGL 107 (710)
Q Consensus 79 ~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~ 107 (710)
...+.++||+.-+=-++.||+|..|+...
T Consensus 49 ~~a~lalGS~GR~E~~~~sDqD~alv~~d 77 (138)
T PF03445_consen 49 PFAWLALGSYGRREQTLYSDQDNALVFED 77 (138)
T ss_pred CEEEEEECcccccCCCcCccccceeeecC
Confidence 56799999999999999999999999877
No 39
>PRK03059 PII uridylyl-transferase; Provisional
Probab=57.11 E-value=43 Score=41.63 Aligned_cols=50 Identities=18% Similarity=0.220 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHH-HHHHHhh--c-CCCceeeeccccCCCCCCCCceEEeecCCC
Q 005180 59 SEERRKAVIDYV-QRLIRNY--L-GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (710)
Q Consensus 59 E~~~R~~VI~~L-q~iI~~~--p-~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~ 108 (710)
=...|..+++.+ +.+.... + +.-|...|+|.-|--.|.|||||.++.+..
T Consensus 37 ~~~~~s~l~d~~l~~~~~~~~~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 90 (856)
T PRK03059 37 LLHALSRLVDQALRRLWQECGLPAGAALVAVGGYGRGELFPYSDVDLLVLLPDA 90 (856)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCeEEEEcCCCCCcccCCCCCCEEEEEecCC
Confidence 345555555533 3333321 2 467899999999999999999999998643
No 40
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=55.98 E-value=27 Score=36.28 Aligned_cols=43 Identities=23% Similarity=0.354 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHhhcCCCceeeeccccCCCCCCCCceEEeecCC
Q 005180 63 RKAVIDYVQRLIRNYLGCEVFPFGSVPLKTYLPDGDIDLTAFGGL 107 (710)
Q Consensus 63 R~~VI~~Lq~iI~~~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~ 107 (710)
|+++.+-++.+.+ ++..-.+|||.+.|=--|+||+|++|..+-
T Consensus 23 Re~A~~i~e~l~~--f~ie~~v~gSvarGDV~p~SDvDV~I~~~v 65 (228)
T COG2413 23 REKARKIMEGLSD--FGIEAVVYGSVARGDVRPGSDVDVAIPEPV 65 (228)
T ss_pred HHHHHHHHHHHHH--hcchhEEEeeeeccCcCCCCCceEEEecCC
Confidence 4444333333333 345778899999998899999999998743
No 41
>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=54.44 E-value=7.2 Score=40.77 Aligned_cols=46 Identities=15% Similarity=0.092 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHhh-c-CCCceeeeccccCCCCCCCCceEEeecCC
Q 005180 62 RRKAVIDYVQRLIRNY-L-GCEVFPFGSVPLKTYLPDGDIDLTAFGGL 107 (710)
Q Consensus 62 ~R~~VI~~Lq~iI~~~-p-~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~ 107 (710)
||..|.+.++++-++. . =.-+...||.+-||..|+||.|+..+.-.
T Consensus 1 m~~~i~~~l~~ie~~~~~~il~~~~sGS~a~G~~s~dSD~D~r~vy~~ 48 (247)
T PF10127_consen 1 MRETIQEKLNEIEKEHNVKILYACESGSRAYGFASPDSDYDVRGVYIP 48 (247)
T ss_pred CchHHHHHHHHHHHhcCCcEEEEecccccccCCCCCCcCcccchhccC
Confidence 3556777777777653 1 13456789999999999999998776543
No 42
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=52.61 E-value=32 Score=38.00 Aligned_cols=55 Identities=20% Similarity=0.091 Sum_probs=37.3
Q ss_pred HHHHHHHHh-hcCCCceeeeccccCCCCCCCCceEEeecCCCcc--hHHHHHHHHHHHH
Q 005180 68 DYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE--EALANDVCSVLER 123 (710)
Q Consensus 68 ~~Lq~iI~~-~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~--~~~~~~L~~~L~~ 123 (710)
+.|++.+.. .|++.|.+-|||.-|- .-..|||+.|..|.... ..+...|...|++
T Consensus 159 ~~V~~av~~~~p~~~vt~~GsfRRGk-~~ggDvD~LithP~~~s~~~~~~~~l~~~le~ 216 (353)
T KOG2534|consen 159 QTVQEAVWAFDPEAFVTVTGSFRRGK-KMGGDVDFLITHPGSTSTEAKLLQLLMILLEK 216 (353)
T ss_pred HHHHHHHhhcCCCcEEEEeccccCCc-ccCCCeeEEEeCCCCCchhhhHHHHHHHHHHh
Confidence 344445553 4899999999999884 45899999999887532 2334445444543
No 43
>PRK04374 PII uridylyl-transferase; Provisional
Probab=52.23 E-value=66 Score=40.19 Aligned_cols=82 Identities=16% Similarity=0.240 Sum_probs=48.1
Q ss_pred CCCCCCCCChhhHHHH-HHHHHH----HHHHc---CCCHHHHHHHHHHHHHH-HHHHHhh-c---CCCceeeeccccCCC
Q 005180 27 VPSNQTAIGAEYWQRA-EEATQG----IIAQV---QPTVVSEERRKAVIDYV-QRLIRNY-L---GCEVFPFGSVPLKTY 93 (710)
Q Consensus 27 ~~p~p~~i~~~~w~~l-e~~i~e----fv~~i---~PT~eE~~~R~~VI~~L-q~iI~~~-p---~a~V~~FGS~~tGL~ 93 (710)
.-|+|.......|... .+.+++ +.+.. .+..+=.+.|..+++.+ +++.... | +..|...|+|.-|--
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~s~~~D~~l~~~~~~~~~~~~~~alvAvGgYGR~EL 86 (869)
T PRK04374 7 DRPDPGVAGDADWAAAARPLLVHADMRLCKRFDQGEPIERLLALRARAVDQLMRNAWTRCIPADSGLSLHAVGGYGRGEL 86 (869)
T ss_pred cCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhCCCcCCEEEEEcCCcccccc
Confidence 4567777767777642 122221 11211 12222334455555533 3333322 3 357899999999999
Q ss_pred CCCCCceEEeecCCC
Q 005180 94 LPDGDIDLTAFGGLN 108 (710)
Q Consensus 94 Lp~SDIDL~I~~~~~ 108 (710)
.|.|||||.++.+..
T Consensus 87 ~p~SDIDLliL~~~~ 101 (869)
T PRK04374 87 FPRSDVDLLVLGETA 101 (869)
T ss_pred CCcccceEEEEecCC
Confidence 999999999998743
No 44
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=50.28 E-value=72 Score=39.40 Aligned_cols=33 Identities=21% Similarity=0.302 Sum_probs=28.9
Q ss_pred CCCceeeeccccCCCCCCCCceEEeecCCCcch
Q 005180 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEE 111 (710)
Q Consensus 79 ~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~~ 111 (710)
++.+...|.|.-|--.|.||||+.++.+....+
T Consensus 66 ~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~~ 98 (867)
T COG2844 66 GLALVAVGGYGRGELHPLSDIDLLLLSPQKLTD 98 (867)
T ss_pred ceEEEEeccccccccCCCccceEEEecCCCCCh
Confidence 478999999999999999999999998875443
No 45
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=48.95 E-value=32 Score=43.06 Aligned_cols=73 Identities=26% Similarity=0.373 Sum_probs=51.9
Q ss_pred HhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCch--H-HHHHHhhcccccccccceE
Q 005180 178 LIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPL--A-VLYKFLDYFSKFDWDSYCI 254 (710)
Q Consensus 178 ~i~~dp~fr~LvllIK~Wak~~r~In~a~~GgLSSYaL~LMVI~fLQ~~~p~l~~pL--~-LL~~FFeyYs~FDw~~~~I 254 (710)
+.+.++.+-..++|.|.|+. ..++ .|++.=-++.|+|++.++...+ ...|- + =+++|+.+-++|||...-.
T Consensus 814 l~qsh~~ys~vvrLaKrWl~--shLL---~~h~~De~iELLva~lf~~p~p-~~~psS~~~gFlRfL~llS~~dW~~~PL 887 (1121)
T KOG2054|consen 814 LSQSHPFYSSVVRLAKRWLG--SHLL---SGHHLDEAIELLVAALFLKPGP-LVPPSSPENGFLRFLSLLSTWDWKFDPL 887 (1121)
T ss_pred HhhcccchhHHHHHHHHHHH--HHhh---ccchHHHHHHHHHHHHhcCccC-CCCCCCcchhHHHHHHHHhcCcccCCce
Confidence 34567888999999999995 3343 4566688999999998875332 22222 2 3678999999999987654
Q ss_pred Ec
Q 005180 255 SL 256 (710)
Q Consensus 255 SI 256 (710)
-+
T Consensus 888 Iv 889 (1121)
T KOG2054|consen 888 IV 889 (1121)
T ss_pred EE
Confidence 44
No 46
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=46.70 E-value=24 Score=38.21 Aligned_cols=29 Identities=28% Similarity=0.328 Sum_probs=25.6
Q ss_pred hcCCCceeeeccccCCCCCCCCceEEeec
Q 005180 77 YLGCEVFPFGSVPLKTYLPDGDIDLTAFG 105 (710)
Q Consensus 77 ~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~ 105 (710)
.|--..=+-||...||+-.+||||++|.+
T Consensus 119 Vp~~~mGVTGSiL~gl~~~nSDIDfVVYG 147 (315)
T COG1665 119 VPVNSMGVTGSILLGLYDENSDIDFVVYG 147 (315)
T ss_pred CchhhccccccccccccCCCCCceEEEEc
Confidence 35566778899999999999999999998
No 47
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=45.11 E-value=95 Score=38.92 Aligned_cols=50 Identities=18% Similarity=0.178 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHH-Hhh--c---CCCceeeeccccCCCCCCCCceEEeecCCC
Q 005180 59 SEERRKAVIDYVQRLI-RNY--L---GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (710)
Q Consensus 59 E~~~R~~VI~~Lq~iI-~~~--p---~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~ 108 (710)
=.+.|..+++.+-..+ +.. + +..|...|.|.-|--.|.|||||.++.+..
T Consensus 52 ~~~~~s~~~d~~l~~~~~~~~~~~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 52 LIEDRAWFVDQILQQAWHQFDWSDDADIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 3455666665443333 222 1 357889999999999999999999998754
No 48
>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=39.68 E-value=1e+02 Score=38.24 Aligned_cols=30 Identities=23% Similarity=0.264 Sum_probs=26.9
Q ss_pred CCCceeeeccccCCCCCCCCceEEeecCCC
Q 005180 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (710)
Q Consensus 79 ~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~ 108 (710)
+.-+...||+.-|--.|.||||+.++....
T Consensus 43 ~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 43 GIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 567999999999999999999999998754
No 49
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=38.27 E-value=1.1e+02 Score=38.10 Aligned_cols=49 Identities=16% Similarity=0.261 Sum_probs=34.8
Q ss_pred HHHHHHHHHHH-HHHHHhh--c---CCCceeeeccccCCCCCCCCceEEeecCCC
Q 005180 60 EERRKAVIDYV-QRLIRNY--L---GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (710)
Q Consensus 60 ~~~R~~VI~~L-q~iI~~~--p---~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~ 108 (710)
.+.|..+++.+ +++.... + ++.+...|+|.-|---|.|||||.|+.+..
T Consensus 31 ~~~~~~~~D~~l~~l~~~~~~~~~~~iaLvAvGGYGR~eL~P~SDIDlliL~~~~ 85 (854)
T PRK01759 31 IENRSDFYDQLLIHLWQQFGLEEQSDLALIAVGGYGRREMFPLSDLDILILTEQP 85 (854)
T ss_pred HHHHHHHHHHHHHHHHHHccCCCCCCeEEEEeCCcccccCCCcccceEEEEeCCC
Confidence 45555565533 3333322 2 357899999999999999999999998754
No 50
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=37.91 E-value=16 Score=40.49 Aligned_cols=24 Identities=29% Similarity=0.281 Sum_probs=20.4
Q ss_pred ceeeeccccCCCCCCCCceEEeec
Q 005180 82 VFPFGSVPLKTYLPDGDIDLTAFG 105 (710)
Q Consensus 82 V~~FGS~~tGL~Lp~SDIDL~I~~ 105 (710)
+.++||.+.||..|+||+|+--+.
T Consensus 6 ~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEecccceeCCCCCCcccccceee
Confidence 467999999999999999976543
No 51
>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=34.18 E-value=1.5e+02 Score=28.47 Aligned_cols=70 Identities=14% Similarity=0.170 Sum_probs=43.0
Q ss_pred cCCCceeeeccccCC--CCCCCCceEEeecCCCcchHHHHHHHHHHHHHhhccccccceeEEEEEeeeeeEEEEeeCCEE
Q 005180 78 LGCEVFPFGSVPLKT--YLPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIV 155 (710)
Q Consensus 78 p~a~V~~FGS~~tGL--~Lp~SDIDL~I~~~~~~~~~~~~~L~~~L~~~~~~~~a~f~Vk~V~~I~ARVPIIKf~~~gI~ 155 (710)
.+.++++.|-++--+ ..+..||||++.... .. .+.++++.. ..+.+ -...+-.++++...+..
T Consensus 15 ~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~~---~~---~~~~l~~~~--------~~~~v-~~~~~f~t~~v~~~~~~ 79 (139)
T cd05398 15 LGYEAYLVGGAVRDLLLGRPPKDIDIATDADG---PE---FAEALFKKI--------GGRVV-GLGEEFGTATVVINGLT 79 (139)
T ss_pred cCceEEEECChHHHHHcCCCCCCceEEEeCCC---HH---HHHHHHHhc--------CCcEE-ecCCcccEEEEEECCEE
Confidence 488999999887544 457899999998642 12 222222210 01111 11356677777888999
Q ss_pred EEEeeec
Q 005180 156 VDISFNQ 162 (710)
Q Consensus 156 VDISfNn 162 (710)
+||+.-.
T Consensus 80 ~di~~~R 86 (139)
T cd05398 80 IDVATLR 86 (139)
T ss_pred EEEcccc
Confidence 9997543
No 52
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=32.85 E-value=1.6e+02 Score=32.60 Aligned_cols=42 Identities=21% Similarity=0.099 Sum_probs=31.2
Q ss_pred HHHHHHHHHHh-hcCCCceeeeccccCCCCCCCCceEEeecCCC
Q 005180 66 VIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (710)
Q Consensus 66 VI~~Lq~iI~~-~p~a~V~~FGS~~tGL~Lp~SDIDL~I~~~~~ 108 (710)
+.+.|...++. .+.++|.+-||+.-|.-+ .+||||+|..+..
T Consensus 150 i~~~i~~~l~~~~~~~~v~i~GSyRRgket-~gDIDili~~~~~ 192 (334)
T smart00483 150 VEYIVKRAVRKILPDAIVTLTGSFRRGKET-GHDVDFLITSPHP 192 (334)
T ss_pred HHHHHHHHHHhhCCCcEEEEecccccCCCc-CCCeeEEEecCCc
Confidence 34444444553 478999999999998765 5899999987663
No 53
>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=30.47 E-value=70 Score=31.47 Aligned_cols=46 Identities=28% Similarity=0.483 Sum_probs=26.8
Q ss_pred HHHHHHHH---HHHHHHHHHhh---cCCCceeeeccccCCCCCC---CCceEEee
Q 005180 59 SEERRKAV---IDYVQRLIRNY---LGCEVFPFGSVPLKTYLPD---GDIDLTAF 104 (710)
Q Consensus 59 E~~~R~~V---I~~Lq~iI~~~---p~a~V~~FGS~~tGL~Lp~---SDIDL~I~ 104 (710)
+...|..| +..|.++++++ -.-.+..|||+..-+--|+ +|||+.=.
T Consensus 24 ~~~grh~vS~lV~~V~klmeEyLrrhNk~CicYGSyslhllN~~I~YgDIDilqT 78 (149)
T PF03296_consen 24 KVMGRHNVSDLVENVNKLMEEYLRRHNKSCICYGSYSLHLLNPNIKYGDIDILQT 78 (149)
T ss_dssp ---------THHHHHHHHHHHHHHH-TTTEEEESHHHHHTTSTTS--SS-EEEES
T ss_pred cccccccCcHHHHHHHHHHHHHHHhhCCCeEEeeeeeEEecCCCcccCcchhhhc
Confidence 45556554 55556666553 4678999999988887664 99998765
No 54
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=27.26 E-value=31 Score=36.76 Aligned_cols=20 Identities=30% Similarity=0.305 Sum_probs=18.0
Q ss_pred eccccCCCCCCCCceEEeec
Q 005180 86 GSVPLKTYLPDGDIDLTAFG 105 (710)
Q Consensus 86 GS~~tGL~Lp~SDIDL~I~~ 105 (710)
||..-|+.-|+||+||--+.
T Consensus 17 GS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 17 GSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred cccccCCCCCCCccceeeEE
Confidence 99999999999999987664
No 55
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=26.61 E-value=2.9e+02 Score=27.87 Aligned_cols=81 Identities=20% Similarity=0.180 Sum_probs=44.3
Q ss_pred cCCCceeeecccc----CCCCCCCCceEEeecCCCcchHHHHHHHHHHHHHhhccccccceeEEEEEeeeeeEEEEeeCC
Q 005180 78 LGCEVFPFGSVPL----KTYLPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQN 153 (710)
Q Consensus 78 p~a~V~~FGS~~t----GL~Lp~SDIDL~I~~~~~~~~~~~~~L~~~L~~~~~~~~a~f~Vk~V~~I~ARVPIIKf~~~g 153 (710)
.+.++.+.|+++. |.--.+.|||+++..+..... ...+..+.+. + .+.... .-....--++++...+
T Consensus 15 ~gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~~~--~~~~~~~a~~---~---g~~~~~-~~~~~~~~~~~~~~~~ 85 (181)
T PF09970_consen 15 RGVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPNLE--ADALREVAEE---N---GWDLGW-TDFGTPRYVVKVGGED 85 (181)
T ss_pred cCCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchHHH--HHHHHHHHHH---c---CCCcCc-cccCCCceEEEeCCCC
Confidence 3678999999864 445558999999976543211 1112222211 0 111110 0112333445666678
Q ss_pred EEEEEeeecCCcchh
Q 005180 154 IVVDISFNQLGGLST 168 (710)
Q Consensus 154 I~VDISfNn~~gi~~ 168 (710)
+.||+ +.|..++..
T Consensus 86 v~IDl-~~ni~~~~v 99 (181)
T PF09970_consen 86 VRIDL-LENIGDFYV 99 (181)
T ss_pred eEEEc-hhccCCccc
Confidence 99999 666666643
No 56
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=24.00 E-value=1.1e+02 Score=34.82 Aligned_cols=70 Identities=17% Similarity=0.252 Sum_probs=42.3
Q ss_pred ChhhHHHHHHHHHHHHHHcCCCHHHHHHHH---HHHHHHHHHHHhh---cCCCceeeeccccCCCCCC---CCceEEeec
Q 005180 35 GAEYWQRAEEATQGIIAQVQPTVVSEERRK---AVIDYVQRLIRNY---LGCEVFPFGSVPLKTYLPD---GDIDLTAFG 105 (710)
Q Consensus 35 ~~~~w~~le~~i~efv~~i~PT~eE~~~R~---~VI~~Lq~iI~~~---p~a~V~~FGS~~tGL~Lp~---SDIDL~I~~ 105 (710)
+.....++-+++-+-++...|++ ...-|. .++..|.++++++ -+-.+..||||..-+--|. +|||+.=..
T Consensus 118 d~~sm~~la~~~L~synv~~~~~-kvmgrh~VSdLV~~V~klmeEyLrrhNk~CicYGSySlhllNp~I~YgDIDilqTN 196 (467)
T PHA02996 118 DYSSMEKLARDALNSYNVAVISE-KVMGRHNVSDLVGNVNKLMEEYLRRHNKSCICYGSYSLHLLNPEIEYGDIDILQTN 196 (467)
T ss_pred chHHHHHHHHHHHHhccccCCCc-cccccccccHHHHHHHHHHHHHHHhcCCceEEeeceeeeecCCccccCCcceeeec
Confidence 33334433333333334455553 322233 3566666666654 3678999999998887664 999997654
No 57
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=23.13 E-value=42 Score=39.43 Aligned_cols=71 Identities=35% Similarity=0.444 Sum_probs=52.5
Q ss_pred eEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhcCCCcchHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q 005180 313 LNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILSQPEESLTDELRKFFSNTLDRHGSGQRPDVQDPV 386 (710)
Q Consensus 313 L~IeDP~d~snNlGRSVs~~~~~rIr~aF~~A~~~L~~il~~p~~~i~~el~~ff~~tl~r~g~g~rpd~~~~~ 386 (710)
.....++.+..|+| +-...|.++-. |.++|.++...+.++.+.+.++...||.+++.|.|.+.++|+.+|.
T Consensus 245 ~~~s~~~~~~~~~~--vll~~f~e~yG-~~f~~~k~~i~~~~~g~~~~~~~~~~~~~~~~~~~~LsieDP~~P~ 315 (514)
T KOG1906|consen 245 RSKSGRLAVLKNLG--VLLIKFFELYG-RNFGYDKLGISLSLGGEYVSKELTGFFNNSLERPGSLSIEDPVDPT 315 (514)
T ss_pred cccCCccchhcccc--hHHHHHHHHhc-cccCchhhceeccCCcccccHHhhhhhcccccCCCccccCCCCCcc
Confidence 33445666666776 32222333322 5677888988889999999999999999999999999999986663
No 58
>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=20.91 E-value=1.7e+02 Score=30.48 Aligned_cols=31 Identities=13% Similarity=0.202 Sum_probs=26.1
Q ss_pred CceeeeccccCCCCCCCCceEEeecCCCcch
Q 005180 81 EVFPFGSVPLKTYLPDGDIDLTAFGGLNVEE 111 (710)
Q Consensus 81 ~V~~FGS~~tGL~Lp~SDIDL~I~~~~~~~~ 111 (710)
-|+.-||..+=--.+.||+||=|+....+.+
T Consensus 99 GlY~MGS~gSi~Qs~~SDlDiWvCh~~~L~~ 129 (204)
T PF12633_consen 99 GLYSMGSTGSIGQSSSSDLDIWVCHDSDLSP 129 (204)
T ss_pred EEEecCCCccccCCCCCCCeEEEEcCCCCCH
Confidence 4888899998889999999999988766543
Done!