Query 004802
Match_columns 729
No_of_seqs 268 out of 1242
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 13:09:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004802.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004802hhsearch_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 3.1E-43 6.7E-48 391.9 36.7 271 41-354 62-345 (514)
2 COG5260 TRF4 DNA polymerase si 100.0 7.7E-41 1.7E-45 365.9 24.6 275 33-354 48-346 (482)
3 PTZ00418 Poly(A) polymerase; P 100.0 3.6E-30 7.7E-35 290.8 27.9 269 44-353 72-391 (593)
4 KOG2245 Poly(A) polymerase and 99.9 3.8E-26 8.2E-31 250.3 27.1 261 52-354 45-349 (562)
5 KOG2277 S-M checkpoint control 99.9 2.5E-23 5.3E-28 238.0 20.7 266 42-351 114-431 (596)
6 COG5186 PAP1 Poly(A) polymeras 99.9 5E-20 1.1E-24 195.8 23.9 276 36-354 19-341 (552)
7 cd05402 NT_PAP_TUTase Nucleoti 99.8 5.4E-20 1.2E-24 168.0 11.8 107 62-175 1-113 (114)
8 PF04928 PAP_central: Poly(A) 99.8 2.3E-19 4.9E-24 187.2 9.1 218 41-353 21-242 (254)
9 PRK13300 tRNA CCA-pyrophosphor 99.7 1.5E-16 3.4E-21 177.0 24.2 230 46-340 3-250 (447)
10 TIGR03671 cca_archaeal CCA-add 99.7 1.7E-16 3.6E-21 174.6 24.1 232 46-344 2-251 (408)
11 COG1746 CCA1 tRNA nucleotidylt 99.6 1.6E-14 3.4E-19 157.8 22.9 235 41-348 2-256 (443)
12 PF03828 PAP_assoc: Cid1 famil 98.6 2E-08 4.3E-13 82.4 2.3 25 234-258 2-28 (60)
13 PF10421 OAS1_C: 2'-5'-oligoad 98.0 1.7E-05 3.7E-10 80.2 9.1 62 164-226 22-85 (190)
14 PF09249 tRNA_NucTransf2: tRNA 98.0 9.7E-06 2.1E-10 75.6 6.1 93 189-339 3-98 (114)
15 PF01909 NTP_transf_2: Nucleot 97.7 3E-05 6.4E-10 67.8 3.4 43 67-109 1-44 (93)
16 cd05397 NT_Pol-beta-like Nucle 97.5 0.00012 2.5E-09 58.6 4.6 40 65-104 2-42 (49)
17 cd05400 NT_2-5OAS_ClassI-CCAas 97.5 0.00052 1.1E-08 65.1 9.4 90 61-159 7-107 (143)
18 smart00572 DZF domain in DSRM 97.4 0.0068 1.5E-07 63.9 17.2 201 81-348 4-229 (246)
19 cd05403 NT_KNTase_like Nucleot 97.3 0.00065 1.4E-08 58.7 7.0 44 66-109 3-48 (93)
20 PF03813 Nrap: Nrap protein; 96.9 0.0078 1.7E-07 74.5 13.2 136 175-350 156-299 (972)
21 COG1669 Predicted nucleotidylt 96.4 0.015 3.3E-07 53.3 7.9 46 63-108 7-53 (97)
22 PRK13746 aminoglycoside resist 95.9 0.021 4.5E-07 60.9 7.5 55 67-121 13-70 (262)
23 COG1708 Predicted nucleotidylt 95.4 0.021 4.5E-07 52.0 4.8 28 78-105 25-52 (128)
24 PF07528 DZF: DZF domain; Int 95.0 0.89 1.9E-05 48.4 16.0 155 85-245 2-186 (248)
25 KOG2054 Nucleolar RNA-associat 94.1 0.29 6.3E-06 60.0 10.9 129 179-350 304-435 (1121)
26 KOG3793 Transcription factor N 92.6 2.4 5.2E-05 45.6 13.5 198 41-250 40-270 (362)
27 PF03813 Nrap: Nrap protein; 91.8 2.4 5.2E-05 53.1 14.6 143 177-349 677-824 (972)
28 PF14091 DUF4269: Domain of un 90.8 3.5 7.6E-05 41.0 11.7 106 79-193 15-125 (152)
29 PRK02098 phosphoribosyl-dephos 89.7 0.85 1.8E-05 47.7 6.8 40 67-107 109-154 (221)
30 TIGR03135 malonate_mdcG holo-A 89.0 0.96 2.1E-05 46.7 6.6 30 78-107 107-142 (202)
31 PF14792 DNA_pol_B_palm: DNA p 81.0 3.3 7.1E-05 38.7 5.5 57 66-123 10-72 (112)
32 cd05401 NT_GlnE_GlnD_like Nucl 69.5 33 0.00071 33.7 9.4 30 79-108 55-84 (172)
33 PF10620 MdcG: Phosphoribosyl- 65.2 15 0.00034 38.1 6.4 54 65-122 103-162 (213)
34 PRK00227 glnD PII uridylyl-tra 64.2 16 0.00035 44.4 7.1 49 60-108 5-56 (693)
35 PRK01293 phosphoribosyl-dephos 61.6 19 0.00041 37.6 6.2 32 78-109 108-145 (207)
36 PRK05007 PII uridylyl-transfer 60.1 41 0.00088 42.1 9.8 50 60-109 55-110 (884)
37 PRK03059 PII uridylyl-transfer 59.2 38 0.00083 42.2 9.3 50 59-108 37-90 (856)
38 cd00141 NT_POLXc Nucleotidyltr 57.8 54 0.0012 35.9 9.2 55 67-122 147-202 (307)
39 PF03445 DUF294: Putative nucl 56.3 53 0.0011 31.7 7.9 29 79-107 49-77 (138)
40 COG2844 GlnD UTP:GlnB (protein 53.9 58 0.0013 40.3 9.3 32 79-110 66-97 (867)
41 KOG2534 DNA polymerase IV (fam 51.2 35 0.00075 37.9 6.3 57 66-123 157-216 (353)
42 PF10127 Nuc-transf: Predicted 49.9 9.4 0.0002 40.0 1.8 44 63-106 2-47 (247)
43 COG2413 Predicted nucleotidylt 48.5 43 0.00093 35.1 6.1 43 62-106 22-64 (228)
44 PRK00275 glnD PII uridylyl-tra 45.9 92 0.002 39.2 9.7 50 59-108 52-107 (895)
45 KOG2054 Nucleolar RNA-associat 43.3 50 0.0011 41.7 6.6 73 178-256 814-889 (1121)
46 COG1665 Predicted nucleotidylt 42.6 30 0.00066 37.7 4.2 29 77-105 119-147 (315)
47 PRK01759 glnD PII uridylyl-tra 40.3 1E+02 0.0022 38.6 8.8 49 60-108 31-85 (854)
48 PRK04374 PII uridylyl-transfer 39.3 1.4E+02 0.003 37.5 9.8 49 60-108 48-101 (869)
49 TIGR01693 UTase_glnD [Protein- 38.2 1.1E+02 0.0025 38.0 8.8 30 79-108 43-72 (850)
50 PHA02603 nrdC.11 hypothetical 35.4 18 0.0004 40.2 1.3 24 82-105 6-29 (330)
51 PF03296 Pox_polyA_pol: Poxvir 34.0 58 0.0013 32.2 4.2 51 53-104 19-78 (149)
52 PHA02996 poly(A) polymerase la 28.7 82 0.0018 36.1 4.8 73 32-105 112-196 (467)
53 COG3541 Predicted nucleotidylt 27.3 31 0.00066 37.0 1.2 20 86-105 17-36 (248)
54 cd05398 NT_ClassII-CCAase Nucl 26.9 2.6E+02 0.0056 27.0 7.5 70 78-162 15-86 (139)
55 PF09970 DUF2204: Nucleotidyl 26.4 2.8E+02 0.0061 28.1 7.9 81 78-168 15-99 (181)
56 KOG1906 DNA polymerase sigma [ 26.0 34 0.00073 40.3 1.4 70 313-385 245-314 (514)
57 smart00483 POLXc DNA polymeras 25.7 1.6E+02 0.0035 32.6 6.6 43 65-108 149-192 (334)
58 PF12633 Adenyl_cycl_N: Adenyl 21.2 1.7E+02 0.0036 30.7 5.2 38 81-118 99-136 (204)
No 1
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=100.00 E-value=3.1e-43 Score=391.87 Aligned_cols=271 Identities=32% Similarity=0.528 Sum_probs=221.0
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHH-hhcCCCceEeeccccCCCCCCCCceEEEecC-CCcchHHHHHHH
Q 004802 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIR-NYLGCEVFPFGSVPLKTYLPDGDIDLTAFGG-LNVEEALANDVC 118 (729)
Q Consensus 41 ~lE~ei~efv~~I~PT~eE~~~R~~Vv~~Lq~iI~-~~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~-~~~~~~l~~~V~ 118 (729)
.++++|..|+++|.||++|.+.|..++++|+++|+ +||.|.|++|||+.||||||+|||||+|+.. ...++.....+.
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 46789999999999999999999999999999999 5999999999999999999999999999998 555565555665
Q ss_pred HHHHHHhhccccccceEEEEEE-ecceeeEEEee--CCeEEEEeeecCCcchhhHHHHHHHHHhcCCchhHHHHHHHHHH
Q 004802 119 SVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLV--QNIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRSIILIKAW 195 (729)
Q Consensus 119 ~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~--~gI~VDISfNn~~Gi~ns~fLe~v~~~i~kdp~fr~LvlLIK~W 195 (729)
.+++.++. ...+ .|.+| +||||||||++ .+|.||||||+.+|++++.|+ ..++.++|.++++++++|+|
T Consensus 142 l~~~~e~~--~~~~---~v~~v~karvpiik~~d~~s~i~vDISFn~~~G~~aa~~i---~~~~~~~p~~~~lvlvlk~f 213 (514)
T KOG1906|consen 142 LALELEED--NSAF---HVKVVQKARVPIIKFKDPVSNIHVDISFNQTNGVKAAKFI---KDFLRDHPFLRSLVLVLKQF 213 (514)
T ss_pred HHHhhhhc--cccc---eEEEeeeeeeeeEEeecCccceEEEeeecccCchhHHHHH---HHHHhcCccchhHHHHHHHH
Confidence 55554331 2233 45567 89999999997 499999999999999999887 55678899999999999999
Q ss_pred HHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCC------CchH-HHHHHhhccc-ccccccceEEccCCcccCCCCc
Q 004802 196 CYYESRILGAHHGLISTYALETLVLYIFHLFHSSLN------GPLA-VLYKFLDYFS-KFDWDSYCISLNGPVRISSLPE 267 (729)
Q Consensus 196 ak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~------~pLg-LL~~FFeyYs-~FDw~~~~ISI~GPV~lssLp~ 267 (729)
+ ++|++|++++|||+||+|++|+++|||+++-... ..++ +|++||++|| +|++++.+|++..+
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 5999999999999999999999999998653322 2355 6799999999 79999999987522
Q ss_pred cccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHH
Q 004802 268 VVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARK 347 (729)
Q Consensus 268 ~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~aF~~Aa~~ 347 (729)
++++. ++..+... + ...++..|+||||.+|.||+||+.+ ++.+|+.+|.+|+..
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 22221111 0 1123566999999999999999996 799999999999999
Q ss_pred HHhhhcC
Q 004802 348 LGHILSQ 354 (729)
Q Consensus 348 L~~il~~ 354 (729)
|......
T Consensus 339 l~~~~~~ 345 (514)
T KOG1906|consen 339 LTNAVFS 345 (514)
T ss_pred Hhhhhcc
Confidence 9887754
No 2
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=7.7e-41 Score=365.86 Aligned_cols=275 Identities=22% Similarity=0.373 Sum_probs=222.4
Q ss_pred CCChhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-hcCCCceEeeccccCCCCCCCCceEEEecCCCc-c
Q 004802 33 AIGAEYWQRAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV-E 110 (729)
Q Consensus 33 ~i~~e~w~~lE~ei~efv~~I~PT~eE~~~R~~Vv~~Lq~iI~~-~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~-~ 110 (729)
++..+.-..+..++.+|+.+|.|+.+|.++|..++++|++++++ ||++.+.+|||+.+||++|.|||||||..+... .
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 44455666788899999999999999999999999999999995 999999999999999999999999999986543 2
Q ss_pred hHHH-HHHHHHHHHHhhccccccceEEEEEE-ecceeeEEEeeC--CeEEEEeeecCCcchhhHHHHHHHHHhcCCchhH
Q 004802 111 EALA-NDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQ--NIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFK 186 (729)
Q Consensus 111 ~~l~-~~V~~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~~--gI~VDISfNn~~Gi~ns~fLe~v~~~i~kdp~fr 186 (729)
++.. -.+...|.+ ....++++++ +||||||||++. ++.|||+||+..|+.++.++ ..++..+|++|
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 1123566678 999999999985 99999999999999999887 55678899999
Q ss_pred HHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCC------C---------CchH-HHHHHhhccc-cccc
Q 004802 187 RSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSL------N---------GPLA-VLYKFLDYFS-KFDW 249 (729)
Q Consensus 187 ~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl------~---------~pLg-LL~~FFeyYs-~FDw 249 (729)
+|+++||+|++ +|.++++++|||+||++++||+.|||++++.+ . .+|+ +|.+||+||| .|+|
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 89999999999999999999999999875321 1 3567 4599999999 6999
Q ss_pred ccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCC-CCCCCcccC
Q 004802 250 DSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPL-KENNNLGRS 328 (729)
Q Consensus 250 ~~~~ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPf-dpsnNlGRS 328 (729)
+..++++++ | ..++.|.. +||... .++..||||||+ ++++|+++.
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 999999972 2 23333321 344332 224679999999 999999988
Q ss_pred cCHHHHHHHHHHHHHHHHHHHhhhcC
Q 004802 329 VSKGNFYRIRSAFTYGARKLGHILSQ 354 (729)
Q Consensus 329 Vs~~~~~rIr~aF~~Aa~~L~~il~~ 354 (729)
.. ++..|+.+|.+|++.|...+..
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 7999999999999999887744
No 3
>PTZ00418 Poly(A) polymerase; Provisional
Probab=99.97 E-value=3.6e-30 Score=290.75 Aligned_cols=269 Identities=20% Similarity=0.367 Sum_probs=208.5
Q ss_pred HHHHHHHH--HcCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceEeeccccCCCCCCCCceEEEe
Q 004802 44 EATQGIIA--QVQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPDGDIDLTAF 104 (729)
Q Consensus 44 ~ei~efv~--~I~PT~eE~~~R~~Vv~~Lq~iI~~~p-----------------~a~V~~FGS~~tGL~LP~SDIDLvV~ 104 (729)
.++.++++ -+.|++||.++|++|++.|++++++|. +++|++||||.+|++.|+||||++++
T Consensus 72 ~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I~tfGSYrLGV~~pgSDID~L~V 151 (593)
T PTZ00418 72 NELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKLFTFGSYRLGVVAPGSDIDTLCL 151 (593)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEEEEeccccccCCCCCCcccEEEE
Confidence 34444443 388999999999999999999998762 47899999999999999999999999
Q ss_pred cCCCc-chHHHHHHHHHHHHHhhccccccceEEEEEE-ecceeeEEEeeCCeEEEEeeecCC------------------
Q 004802 105 GGLNV-EEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG------------------ 164 (729)
Q Consensus 105 ~~~~~-~~~l~~~V~~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~~gI~VDISfNn~~------------------ 164 (729)
+|..+ .++++..+.++|++ ...|++++.| .|+||||||..+||.|||.|.+..
T Consensus 152 ~P~~vtredFF~~f~~~L~~-------~~~V~eL~~V~~A~VPiIk~~~~GI~iDL~fa~l~~~~vp~~~~~l~d~~lL~ 224 (593)
T PTZ00418 152 APRHITRESFFSDFYAKLQQ-------DPNITKLQPVPDAYTPVIKFVYDGIDIDLLFANLPLPTIPDCLNSLDDDYILR 224 (593)
T ss_pred CCCCCCHHHHHHHHHHHHhc-------CCCcceeeccCccccCeEEEEECCEEEeeeecccCCCCCCccccccCchhhhh
Confidence 99764 56788888888864 2356888888 899999999999999999997321
Q ss_pred -----------cchhhHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCc
Q 004802 165 -----------GLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGP 233 (729)
Q Consensus 165 -----------Gi~ns~fLe~v~~~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~~p 233 (729)
|++. .++|.+++.....||.++++||.||| +|+|+++..|+|++.+|.+||..+||+++. ..+
T Consensus 225 nlde~s~rSLNG~Rv---td~Il~lVPn~~~Fr~aLR~IKlWAk-rRGIYsNv~GflGGV~wAILvARVCQLyPn--a~~ 298 (593)
T PTZ00418 225 NVDEKTVRSLNGCRV---ADLILASVPNKDYFRTTLRFIKLWAK-RRGIYSNVLGYLGGVSWAILTARICQLYPN--FAP 298 (593)
T ss_pred cCCHHHhhhhccHHH---HHHHHHHCCChHHHHHHHHHHHHHHH-HhccccccccccchHHHHHHHHHHHHhCCC--CCH
Confidence 2222 23345667777889999999999998 899999999999999999999999998764 355
Q ss_pred hHHHHHHhhcccccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCC-CCCCCcc
Q 004802 234 LAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNS-RSFPPKH 312 (729)
Q Consensus 234 LgLL~~FFeyYs~FDw~~~~ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~-~~f~~~~ 312 (729)
-.+|..||.+|++|+|.+ ||-|....+ .+...| .+. + +.|.-+. ...+.+.
T Consensus 299 s~Lv~~FF~iys~W~Wp~-------PV~L~~i~~----~~~~~g---~~~----------~----~VWdPr~~~~dr~h~ 350 (593)
T PTZ00418 299 SQLIHKFFRVYSIWNWKN-------PVLLCKIKE----VPNIPG---LMN----------F----KVWDPRVNPQDRAHL 350 (593)
T ss_pred HHHHHHHHHHhhcCCCCC-------CeEcccccc----cccCCc---ccC----------C----cccCCCCCccccccc
Confidence 678899999999999987 332211111 000011 000 0 1121110 1123467
Q ss_pred eEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhc
Q 004802 313 LNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILS 353 (729)
Q Consensus 313 L~IeDPfdpsnNlGRSVs~~~~~rIr~aF~~Aa~~L~~il~ 353 (729)
|.|+.|..|..|.+++|+..++..|++||++|++.+..+..
T Consensus 351 MPIITPayP~mNst~nVt~sT~~vI~~Ef~Ra~~i~~~i~~ 391 (593)
T PTZ00418 351 MPIITPAFPSMNSTHNVTYTTKRVITEEFKRAHEIIKYIEK 391 (593)
T ss_pred CCeecCCCCCccccccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999998664
No 4
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=99.95 E-value=3.8e-26 Score=250.26 Aligned_cols=261 Identities=22% Similarity=0.370 Sum_probs=202.3
Q ss_pred HcCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceEeeccccCCCCCCCCceEEEecCCCc-chHH
Q 004802 52 QVQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV-EEAL 113 (729)
Q Consensus 52 ~I~PT~eE~~~R~~Vv~~Lq~iI~~~p-----------------~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~-~~~l 113 (729)
-+-+++||..+|.+|+..|++++++|. +++|++||||..|.+.|++|||-.+++|..+ ++++
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 378899999999999999999998872 5899999999999999999999777777654 6688
Q ss_pred HHHHHHHHHHHhhccccccceEEEEEE-ecceeeEEEeeCCeEEEEeeecCC--------cchhhHHHHH----------
Q 004802 114 ANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG--------GLSTLCFLEQ---------- 174 (729)
Q Consensus 114 ~~~V~~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~~gI~VDISfNn~~--------Gi~ns~fLe~---------- 174 (729)
+..+..+|+. ...|+++..+ .|.||||||..+||.|||-|.+.. -+..-.+|+.
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 8899998864 2346788778 899999999999999999987542 1222223332
Q ss_pred -------HHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhccccc
Q 004802 175 -------VDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKF 247 (729)
Q Consensus 175 -------v~~~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~~pLgLL~~FFeyYs~F 247 (729)
+=+++.....|+-.++.||.||| +|++++...|.+++-+|.|||..+||.++.. .|--++.+||..|++|
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 22344455678999999999998 8999999999999999999999999987643 3455779999999999
Q ss_pred ccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCccc
Q 004802 248 DWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGR 327 (729)
Q Consensus 248 Dw~~~~ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGR 327 (729)
+|-+-++= ..+ ..+. +-+ ..+ .|.++ ..-+.+.|.|+.|..|..|...
T Consensus 275 ~WP~PVlL-------~~i---------e~~~-L~~--~VW--------dPr~n-----~~DryHlMPIITPAyP~~nsth 322 (562)
T KOG2245|consen 275 NWPNPVLL-------KPI---------EEGN-LNL--PVW--------DPRVN-----PSDRYHLMPIITPAYPQMNSTH 322 (562)
T ss_pred cCCCceEe-------ccc---------cccc-cCc--ccc--------CCCCC-----CCCcceecccccCCcccccccc
Confidence 99874332 111 0010 000 000 01111 1123457999999999999999
Q ss_pred CcCHHHHHHHHHHHHHHHHHHHhhhcC
Q 004802 328 SVSKGNFYRIRSAFTYGARKLGHILSQ 354 (729)
Q Consensus 328 SVs~~~~~rIr~aF~~Aa~~L~~il~~ 354 (729)
+|++.++..|.++|.+|..++.+++..
T Consensus 323 NVS~ST~~Vi~~Ef~~g~~I~~~i~~~ 349 (562)
T KOG2245|consen 323 NVSRSTLKVITEEFKRGLEICDDIELN 349 (562)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999998864
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=2.5e-23 Score=238.05 Aligned_cols=266 Identities=20% Similarity=0.308 Sum_probs=204.2
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-hcCCCc--eEeeccccCCCCCCCCceEEEecCCC-cc-hHH-HH
Q 004802 42 AEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-YLGCEV--FPFGSVPLKTYLPDGDIDLTAFGGLN-VE-EAL-AN 115 (729)
Q Consensus 42 lE~ei~efv~~I~PT~eE~~~R~~Vv~~Lq~iI~~-~p~a~V--~~FGS~~tGL~LP~SDIDLvV~~~~~-~~-~~l-~~ 115 (729)
++..+.++++...+.......|......++.++.. .|.... ..|||..+++....+|+|+++..... .. ... ..
T Consensus 114 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~~~~ 193 (596)
T KOG2277|consen 114 LDPQLNELLESFKLPHSDVKTRKLILDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKIKGL 193 (596)
T ss_pred hchhhhhhhhccCCCccccchHHHHHHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeecccccccccchhhhH
Confidence 67777888888889999999999888888888874 565544 59999999999999999988876544 21 111 11
Q ss_pred HHHHHHHHHhhccccccceEEEEEE-ecceeeEEEeeC--CeEEEEeeecCCcchhhHHHHHHHHHhcCCchhHHHHHHH
Q 004802 116 DVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQ--NIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRSIILI 192 (729)
Q Consensus 116 ~V~~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~~--gI~VDISfNn~~Gi~ns~fLe~v~~~i~kdp~fr~LvlLI 192 (729)
.+..++.+.......+. +..++.+ .|||||||+.+. ++.||++++|..++.|+.|++.+ ...++++++|+++|
T Consensus 194 ~~~~l~~~~~~~~~~~~-~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~~~~nS~ll~~~---~~~d~r~~~L~~~v 269 (596)
T KOG2277|consen 194 EILKLLAKCLASLLEEG-VREVQQILSARVPIIKFNDSGSGLECDLSVNNSDAILNSQLLRNY---SEIDPRVRPLVLLV 269 (596)
T ss_pred HHHHHHHHHHHhccccc-cceeeeeeecCCCEEEecCCCCCCceeeeeccchhhhhhHHHHHh---HhcCCCcchHhHHH
Confidence 22222222111111111 3444445 999999999765 89999999999999999998665 44589999999999
Q ss_pred HHHHHHhhCccCCCCCCCC-hHHHHHHHHHHHHhcCCCC----------------------------------------C
Q 004802 193 KAWCYYESRILGAHHGLIS-TYALETLVLYIFHLFHSSL----------------------------------------N 231 (729)
Q Consensus 193 K~Wak~er~Ln~a~~GgLS-SYaL~LMVI~fLQ~~~psl----------------------------------------~ 231 (729)
|+|++ +++++++..|+++ +|+|++||++|||+..+.+ .
T Consensus 270 k~wa~-~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 (596)
T KOG2277|consen 270 KHWAK-EKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDKPVVKKKVLCSFLRVFQRNPSNSQNT 348 (596)
T ss_pred HHHHH-hccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcccccccchhhhhhhcccccccccccccccc
Confidence 99997 8999999999999 5999999999999975422 0
Q ss_pred CchH-HHHHHhhccc-ccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCC
Q 004802 232 GPLA-VLYKFLDYFS-KFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFP 309 (729)
Q Consensus 232 ~pLg-LL~~FFeyYs-~FDw~~~~ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~ 309 (729)
++++ ++++||.||+ .|||.+.+|+++....+ ..+ +..+.
T Consensus 349 ~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~l--------------------~~~-------------------~~~~~ 389 (596)
T KOG2277|consen 349 GSLGELLLGFFSYYASLFDFRKNAISIRRGRAL--------------------KRA-------------------KKIKS 389 (596)
T ss_pred chHHHHHHHHHHHHhhhcccccceeeeeecccc--------------------ccc-------------------chhhh
Confidence 1244 5689999999 89999999999843111 000 01223
Q ss_pred CcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhh
Q 004802 310 PKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHI 351 (729)
Q Consensus 310 ~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~aF~~Aa~~L~~i 351 (729)
.+.++|+||++..+|++..++...+..|+.+|+.+++.+...
T Consensus 390 ~~~l~i~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 390 KKFLCIEDPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred ccceeeccccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 567999999999999999999999999999999999998776
No 6
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.86 E-value=5e-20 Score=195.84 Aligned_cols=276 Identities=20% Similarity=0.313 Sum_probs=197.2
Q ss_pred hhhHHHHHH-HHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceEeeccccCCCCCC
Q 004802 36 AEYWQRAEE-ATQGIIA-QVQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPD 96 (729)
Q Consensus 36 ~e~w~~lE~-ei~efv~-~I~PT~eE~~~R~~Vv~~Lq~iI~~~p-----------------~a~V~~FGS~~tGL~LP~ 96 (729)
.+.=.++.. .++++-+ -..-++.|-+.|.+|+..++.+++++. +.+|+.||||..|.+-|+
T Consensus 19 Te~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGKIFTyGSYRLGVhgpG 98 (552)
T COG5186 19 TEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGKIFTYGSYRLGVHGPG 98 (552)
T ss_pred cHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCceeeeecceeeeccCCC
Confidence 333344443 3344432 366788999999999999999887641 478999999999999999
Q ss_pred CCceEEEecCCCc-chHHHHHHHHHHHHHhhccccccceEEEEEE-ecceeeEEEeeCCeEEEEeeecCC------cc--
Q 004802 97 GDIDLTAFGGLNV-EEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG------GL-- 166 (729)
Q Consensus 97 SDIDLvV~~~~~~-~~~l~~~V~~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~~gI~VDISfNn~~------Gi-- 166 (729)
||||-.++.|..+ ++++++.+...|+. ...+.+|.-+ .|-|||||+...||.+|+-|.... |+
T Consensus 99 sDIDtLvvVPkHVsR~dFFt~f~~~Lre-------r~ei~eva~vpDAfVPIIK~KF~GIsIDLifARLs~P~Vp~~l~L 171 (552)
T COG5186 99 SDIDTLVVVPKHVSRSDFFTHFYEELRE-------RPEIEEVAKVPDAFVPIIKLKFQGISIDLIFARLSIPVVPDGLNL 171 (552)
T ss_pred CCcceEEEecccccHHHHHHHHHHHhcc-------CcchhhhccCCcccceeEEEEecCccceeeeeeccCCcCCCcccc
Confidence 9999666666554 67888888888853 1234566566 899999999999999999987543 21
Q ss_pred hhhHHHHHHH-----------------HHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCC
Q 004802 167 STLCFLEQVD-----------------RLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSS 229 (729)
Q Consensus 167 ~ns~fLe~v~-----------------~~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~ps 229 (729)
..-.+|+.++ +++..-..|+..++.||+||+ +|.++..-.|..++-||.|||..++|.++..
T Consensus 172 sd~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAq-RRavYaN~~GfpGGVAwam~VARiCQLYPNA 250 (552)
T COG5186 172 SDDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQ-RRAVYANPYGFPGGVAWAMCVARICQLYPNA 250 (552)
T ss_pred cchhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHH-hhhhhccccCCcchHHHHHHHHHHHhhccCc
Confidence 1222333332 334444568888999999996 8889999999999999999999999987642
Q ss_pred CCCchHHHHHHhhcccccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCC-CCC
Q 004802 230 LNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNS-RSF 308 (729)
Q Consensus 230 l~~pLgLL~~FFeyYs~FDw~~~~ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~-~~f 308 (729)
...-++.+||+.++.|+|..-+|- + |+ . +|- +-+ |-|.-+- ..-
T Consensus 251 --~S~vIv~kFF~ils~WnWPqPviL-k-Pi--e------------Dgp-lqv----------------rvWnPKvYpsD 295 (552)
T COG5186 251 --SSFVIVCKFFEILSSWNWPQPVIL-K-PI--E------------DGP-LQV----------------RVWNPKVYPSD 295 (552)
T ss_pred --chHhHHHHHHHHHHhcCCCCCeEe-e-ec--c------------CCC-eeE----------------EeeCCccCccc
Confidence 223367999999999999875442 2 11 1 110 000 1121110 011
Q ss_pred CCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhcC
Q 004802 309 PPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILSQ 354 (729)
Q Consensus 309 ~~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~aF~~Aa~~L~~il~~ 354 (729)
+.+.|.|+.|..|+.=...+++..+-..|-.+|.+|.+++.++...
T Consensus 296 k~HRMPvITPAYPSMCATHNit~STq~vIl~EfvRa~~I~~di~~n 341 (552)
T COG5186 296 KYHRMPVITPAYPSMCATHNITNSTQHVILMEFVRAHKILSDIERN 341 (552)
T ss_pred ccccCccccCCchhhhhhccccchhhhhHHHHHHHHHHhhhhHhhc
Confidence 2457999999999976666666666788999999999999998864
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=5.4e-20 Score=167.98 Aligned_cols=107 Identities=34% Similarity=0.570 Sum_probs=90.4
Q ss_pred HHHHHHHHHHHHHHh-hcCCCceEeeccccCCCCCCCCceEEEecCCC--cchHHHHHHHHHHHHHhhccccccceEEEE
Q 004802 62 RRKAVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLN--VEEALANDVCSVLEREDQNKAAEFVVKDAQ 138 (729)
Q Consensus 62 ~R~~Vv~~Lq~iI~~-~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~--~~~~l~~~V~~iL~~~~~n~~~~f~Vk~Vq 138 (729)
+|++++++|+++++. +|+++|++|||+++|+++|+||||++|..+.. ....++..+.+.|++. .. +.++.
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 3445667777777542 11 34566
Q ss_pred EE-ecceeeEEEeeC--CeEEEEeeecCCcchhhHHHHHH
Q 004802 139 LI-RAEVKLVKCLVQ--NIVVDISFNQLGGLSTLCFLEQV 175 (729)
Q Consensus 139 ~I-~ARVPIIKf~~~--gI~VDISfNn~~Gi~ns~fLe~v 175 (729)
.| +||||||||.++ |+.|||||+|..|+.|+.+++.|
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=99.78 E-value=2.3e-19 Score=187.17 Aligned_cols=218 Identities=19% Similarity=0.373 Sum_probs=131.7
Q ss_pred HHHHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhhcCCCceEeeccccCC-CCCCCCceEEEecCCCcchHHHHHH
Q 004802 41 RAEEATQGIIAQ--VQPTVVSEERRKAVIDYVQRLIRNYLGCEVFPFGSVPLKT-YLPDGDIDLTAFGGLNVEEALANDV 117 (729)
Q Consensus 41 ~lE~ei~efv~~--I~PT~eE~~~R~~Vv~~Lq~iI~~~p~a~V~~FGS~~tGL-~LP~SDIDLvV~~~~~~~~~l~~~V 117 (729)
+...++.++++. +.||+||.++|++|++.|++++++|... .+ ..| -+||+. .++++..+
T Consensus 21 ~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~----------~~~~~p-~~l~~~-------~~~~l~~l 82 (254)
T PF04928_consen 21 KRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ----------ALPRVP-EDLDLL-------DDDPLRNL 82 (254)
T ss_dssp HHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH----------SSSSB--TT--TT--------GGGGTT-
T ss_pred HhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh----------hhcCCC-cccccC-------CchhhhCC
Confidence 344566666654 5899999999999999999999988633 00 000 011110 00000000
Q ss_pred HHHHHHHhhccccccceEEEEEEecceeeEEEeeCCeEEEEeeecCCcchhhHHHHHHHHHhcCCchhHHHHHHHHHHHH
Q 004802 118 CSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCY 197 (729)
Q Consensus 118 ~~iL~~~~~n~~~~f~Vk~Vq~I~ARVPIIKf~~~gI~VDISfNn~~Gi~ns~fLe~v~~~i~kdp~fr~LvlLIK~Wak 197 (729)
-. .++...+|++.+.+ +.+++.....||.++++||.|||
T Consensus 83 d~--------------------------------------~s~~sLnG~Rv~~~---il~~Vp~~~~Fr~~lR~IK~WAk 121 (254)
T PF04928_consen 83 DE--------------------------------------ASVRSLNGVRVTDY---ILRLVPNQETFRTALRFIKLWAK 121 (254)
T ss_dssp -H--------------------------------------HHHHHHHHHHHHHH---HHCTSS-HHHHHHHHHHHHHHHH
T ss_pred CH--------------------------------------hhccCcccccHHHH---HHHHCCCHHHHHHHHHHHHHHHH
Confidence 00 01112234444433 35556656789999999999998
Q ss_pred HhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhcccccccccceEEccCCcccCCCCccccccCCCCC
Q 004802 198 YESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSG 277 (729)
Q Consensus 198 ~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~~pLgLL~~FFeyYs~FDw~~~~ISI~GPV~lssLp~~~~e~p~~gg 277 (729)
+|||+++..|+|++.+|++||.+++|+++.. .+-.+|..||.+|++|||.+ -|.+..+ . .+
T Consensus 122 -~RGIYsn~~GylGGI~waILvArvcql~Pn~--~~~~ll~~FF~~ys~W~W~~-PV~l~~~------~---------~~ 182 (254)
T PF04928_consen 122 -RRGIYSNVFGYLGGIHWAILVARVCQLYPNA--SPSTLLSRFFQIYSQWDWPN-PVVLDPI------E---------DG 182 (254)
T ss_dssp -HTT-B-CCCTSB-HHHHHHHHHHHHHHSTT----HHHHHHHHHHHHHCS-TTS--EESS--------------------
T ss_pred -HccccchhhccchHHHHHHHHHHHHHHCccc--cccchHHHHHHHhcCCCCCC-ceeeccc------c---------cC
Confidence 8999999999999999999999999997642 34558899999999999987 3333210 0 00
Q ss_pred CCcccCHHHHHHHhhhccCCCCCCCCC-CCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhc
Q 004802 278 GDLLLSSEFLKECVEQFSVPSRGFDTN-SRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILS 353 (729)
Q Consensus 278 ~~~ll~ke~lr~~~~~fs~~~rg~e~~-~~~f~~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~aF~~Aa~~L~~il~ 353 (729)
. ..+ +.|... ....+.+.|.|..|..|..|.+++|++.++..|++||++|++.+..++.
T Consensus 183 ~-~~~----------------~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~i~~Ef~ra~~i~~~~~~ 242 (254)
T PF04928_consen 183 P-LGF----------------KVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRIIREEFQRAHEILSEILK 242 (254)
T ss_dssp S-SSC----------------GS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred c-ccc----------------cCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHc
Confidence 0 000 011000 0111256799999999999999999999999999999999999999884
No 9
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.75 E-value=1.5e-16 Score=176.97 Aligned_cols=230 Identities=21% Similarity=0.254 Sum_probs=150.9
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhh----c-CCCceEeeccccCCCCC-CCCceEEEecCCCcchHHHHHH-H
Q 004802 46 TQGIIAQVQPTVVSEERRKAVIDYVQRLIRNY----L-GCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDV-C 118 (729)
Q Consensus 46 i~efv~~I~PT~eE~~~R~~Vv~~Lq~iI~~~----p-~a~V~~FGS~~tGL~LP-~SDIDLvV~~~~~~~~~l~~~V-~ 118 (729)
++++++.|.||.+|.+....+++.|...|+.. + .++|+++||++.|++|+ +|||||+|..+.......+..+ .
T Consensus 3 ~~evl~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~~~~e~L~~~gl 82 (447)
T PRK13300 3 LEEVLERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKDTSREELEEKGL 82 (447)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCCCCHHHHHHHHH
Confidence 56788999999999988888877777777642 2 49999999999999999 8999999999776543222222 2
Q ss_pred HHHHHHhhccccccceEEEEEEecceeeEEEeeCCeEEEEe--eecCCc--chhh----HH-HHHHHHHhcCCchhHHHH
Q 004802 119 SVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDIS--FNQLGG--LSTL----CF-LEQVDRLIGKDHLFKRSI 189 (729)
Q Consensus 119 ~iL~~~~~n~~~~f~Vk~Vq~I~ARVPIIKf~~~gI~VDIS--fNn~~G--i~ns----~f-Le~v~~~i~kdp~fr~Lv 189 (729)
.+........... ..++ -|..|.|+...+|++|||. +....| +.++ -| .+.+...+ +..++..|
T Consensus 83 ~i~~~~~~~~~~~---~~~~--yaeHpyv~~~~~G~~VDiVPcy~v~~~~~~~saVDRtp~H~~fv~~rl--~~~~~d~V 155 (447)
T PRK13300 83 EIGKEVAKELLGD---YEER--YAEHPYVTGEIDGFEVDIVPCYKVESGEEIISAVDRTPFHTKYVKERL--KGKLEDEV 155 (447)
T ss_pred HHHHHHHHhhCCc---ceee--eccCceEEEEECCEEEEEEeeEEccCcCcccccccCchHHHHHHHHhh--hhhHHHHH
Confidence 2222111000011 1233 4999999999999999994 443333 2222 22 23333333 33488999
Q ss_pred HHHHHHHHHhhCccC--CCCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhcccccccccceEEccCCcccCCCCc
Q 004802 190 ILIKAWCYYESRILG--AHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPE 267 (729)
Q Consensus 190 lLIK~Wak~er~Ln~--a~~GgLSSYaL~LMVI~fLQ~~~psl~~pLgLL~~FFeyYs~FDw~~~~ISI~GPV~lssLp~ 267 (729)
+|+|+|+| ..+++| .+++|||||...|||++| .++ ..+|-.+ ++|.. ...|.+.
T Consensus 156 RLlK~f~k-~~gvYGsE~k~~GFSGYl~ELLv~~y-----G~F---~~~l~~a----~~w~~-~~~I~~~---------- 211 (447)
T PRK13300 156 RLLKQFLK-GIGVYGSELKTRGFSGYLCELLIIHY-----GSF---ENVLKAA----SKWKP-PVKIDLE---------- 211 (447)
T ss_pred HHHHHHHH-hCCccchhhccCCccHHHHHHHHHHh-----CCH---HHHHHHH----HhCCC-CceEecc----------
Confidence 99999998 678886 489999999999999993 111 1233222 22221 1223221
Q ss_pred cccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHH
Q 004802 268 VVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSA 340 (729)
Q Consensus 268 ~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~a 340 (729)
..+. ...| ..+|.|.||.+|.||+|++++..++.++..+
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 5679999999999999999998777665533
No 10
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.75 E-value=1.7e-16 Score=174.59 Aligned_cols=232 Identities=21% Similarity=0.259 Sum_probs=152.5
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhh-----cCCCceEeeccccCCCCC-CCCceEEEecCCCcchHHHHHH-H
Q 004802 46 TQGIIAQVQPTVVSEERRKAVIDYVQRLIRNY-----LGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDV-C 118 (729)
Q Consensus 46 i~efv~~I~PT~eE~~~R~~Vv~~Lq~iI~~~-----p~a~V~~FGS~~tGL~LP-~SDIDLvV~~~~~~~~~l~~~V-~ 118 (729)
++++++.|.||++|.+..+.+.+.|...|+.. +.++|..|||++.|++|+ +|||||+|+.+......-++.+ .
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 46778999999999988888877777777642 469999999999999999 9999999999765433222222 1
Q ss_pred HHHHHHhhccccccceEEEEEEecceeeEEEeeCCeEEEEe--eecCCc--chhh----HH-HHHHHHHhcCCchhHHHH
Q 004802 119 SVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDIS--FNQLGG--LSTL----CF-LEQVDRLIGKDHLFKRSI 189 (729)
Q Consensus 119 ~iL~~~~~n~~~~f~Vk~Vq~I~ARVPIIKf~~~gI~VDIS--fNn~~G--i~ns----~f-Le~v~~~i~kdp~fr~Lv 189 (729)
.+.+.... .. .....-.|..|.++...+|++|||. +....| +.++ -| .+.+...+ +..++..|
T Consensus 82 ~i~~~~~~---~~---~~~~~~yaeHpYv~~~~~G~~VDiVPcy~v~~g~~~~taVDRtp~H~~fv~~rl--~~~~~d~V 153 (408)
T TIGR03671 82 EIGHEVLK---RG---GNYEERYAEHPYVSGEIEGFEVDVVPCYKVESGEEIISAVDRTPFHTRYVLERL--DGKLRDDV 153 (408)
T ss_pred HHHHHHHh---hC---CCHhheeccCceEEEEEccEEEEEEeeEEccCcCeeeccccCchHHHHHHHHhh--hhhHHHHH
Confidence 22221110 00 1111237999999999999999994 444333 2221 22 22333333 33478899
Q ss_pred HHHHHHHHHhhCccC--CCCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhcccccccccceEEccCCcccCCCCc
Q 004802 190 ILIKAWCYYESRILG--AHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPE 267 (729)
Q Consensus 190 lLIK~Wak~er~Ln~--a~~GgLSSYaL~LMVI~fLQ~~~psl~~pLgLL~~FFeyYs~FDw~~~~ISI~GPV~lssLp~ 267 (729)
+|+|.|+| ..+++| .+++|||||...|||++| .++ ..+|-.+ ++| .. .+.|. +
T Consensus 154 RLlK~f~k-~igvYGsE~~~~GFSGYl~ELLv~~y-----G~F---~~~l~~a----~~w--k~-~~~id-~-------- 208 (408)
T TIGR03671 154 RLLKQFLK-GIGVYGSELKTRGFSGYLCELLVIHY-----GSF---ENVLKAA----SKW--KP-GVVID-I-------- 208 (408)
T ss_pred HHHHHHHH-hCCccchhhccCCccHHHHHHHHHHh-----CCH---HHHHHHH----Hhc--CC-CeEEe-c--------
Confidence 99999998 678886 488999999999999993 111 1222222 222 21 22221 0
Q ss_pred cccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHHHHHH
Q 004802 268 VVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYG 344 (729)
Q Consensus 268 ~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~aF~~A 344 (729)
...+ ...| ..+|.|.||.+|.||+|++++..++.++..+-+.+
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 46799999999999999999988887777654444
No 11
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=1.6e-14 Score=157.82 Aligned_cols=235 Identities=23% Similarity=0.273 Sum_probs=155.5
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-----hcCCCceEeeccccCCCCC-CCCceEEEecCCCcchHHH
Q 004802 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-----YLGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALA 114 (729)
Q Consensus 41 ~lE~ei~efv~~I~PT~eE~~~R~~Vv~~Lq~iI~~-----~p~a~V~~FGS~~tGL~LP-~SDIDLvV~~~~~~~~~l~ 114 (729)
.+++.++++++.|.||++|.++-+.+.+.|...+.. ..++.|...||++-|++|+ +.||||.|..+......-+
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 367788999999999999998888777776666653 3689999999999999999 8999999999976533222
Q ss_pred HH-HHHHHHHHhhccccccceEEEEEE-ecceeeEEEeeCCeEEEEe--eecCC------cchhhHH-HHHHHHHhcCCc
Q 004802 115 ND-VCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDIS--FNQLG------GLSTLCF-LEQVDRLIGKDH 183 (729)
Q Consensus 115 ~~-V~~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~~gI~VDIS--fNn~~------Gi~ns~f-Le~v~~~i~kdp 183 (729)
+. -..+.+....+ ..+ -+ .|..|.|.-..+|++|||. ++... ++--+-| .+++...+ +.
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 11 11222111100 011 13 7999999999999999995 33322 2221212 12223333 23
Q ss_pred hhHHHHHHHHHHHHHhhCccCC--CCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhcccccccccc-eEEccCCc
Q 004802 184 LFKRSIILIKAWCYYESRILGA--HHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSY-CISLNGPV 260 (729)
Q Consensus 184 ~fr~LvlLIK~Wak~er~Ln~a--~~GgLSSYaL~LMVI~fLQ~~~psl~~pLgLL~~FFeyYs~FDw~~~-~ISI~GPV 260 (729)
+.+.-++|+|+|+| .-+++|+ +++|||+|.-.||||+| .++ ..+| +..++ |... .|.+.+
T Consensus 152 ~~~deVrLLK~FlK-~iGvYGaE~rt~GFSGYL~ELLII~y-----GsF---e~vl----~~a~~--wrp~~~ID~~~-- 214 (443)
T COG1746 152 RQKDEVRLLKQFLK-GIGVYGAELRTQGFSGYLCELLIIHY-----GSF---ENVL----KAASR--WRPGKIIDLEG-- 214 (443)
T ss_pred cchhHHHHHHHHHh-ccCccceeeeeccchHHHHHHHHhhh-----ccH---HHHH----HHHhc--cCCCeEEeccc--
Confidence 33457899999998 6788874 88999999999999983 221 1223 22222 5432 222210
Q ss_pred ccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHHH
Q 004802 261 RISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSA 340 (729)
Q Consensus 261 ~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~a 340 (729)
+. ...|..++|.|.||.||++|+|.++|..++.++.
T Consensus 215 -------------------------~~-----------------~e~f~d~PliVvDPVDP~RNVAAalSl~~la~f~-- 250 (443)
T COG1746 215 -------------------------HK-----------------RERFEDEPLIVVDPVDPKRNVAAALSLENLARFV-- 250 (443)
T ss_pred -------------------------hh-----------------hhccCCCCeEecCCCCCccchhhhcCHHHHHHHH--
Confidence 00 1234456899999999999999999988777655
Q ss_pred HHHHHHHH
Q 004802 341 FTYGARKL 348 (729)
Q Consensus 341 F~~Aa~~L 348 (729)
.|++.+
T Consensus 251 --~aar~F 256 (443)
T COG1746 251 --HAAREF 256 (443)
T ss_pred --HHHHHH
Confidence 444444
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=2e-08 Score=82.39 Aligned_cols=25 Identities=36% Similarity=0.867 Sum_probs=21.5
Q ss_pred hH-HHHHHhhccc-ccccccceEEccC
Q 004802 234 LA-VLYKFLDYFS-KFDWDSYCISLNG 258 (729)
Q Consensus 234 Lg-LL~~FFeyYs-~FDw~~~~ISI~G 258 (729)
|+ ||++||+||+ +|||++++|||+.
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 45 7899999999 8999999999983
No 13
>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=98.05 E-value=1.7e-05 Score=80.16 Aligned_cols=62 Identities=26% Similarity=0.389 Sum_probs=43.7
Q ss_pred CcchhhHHHHHHHHHhcCCc-hhHHHHHHHHHHHHHhhCcc-CCCCCCCChHHHHHHHHHHHHhc
Q 004802 164 GGLSTLCFLEQVDRLIGKDH-LFKRSIILIKAWCYYESRIL-GAHHGLISTYALETLVLYIFHLF 226 (729)
Q Consensus 164 ~Gi~ns~fLe~v~~~i~kdp-~fr~LvlLIK~Wak~er~Ln-~a~~GgLSSYaL~LMVI~fLQ~~ 226 (729)
.|-.++||.+.=..|+...| .+|.||++||+|.+ +..-. ....+..++|+|.||+||...+-
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 45667788777677887765 58999999999986 33333 23455667999999999999764
No 14
>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=98.01 E-value=9.7e-06 Score=75.56 Aligned_cols=93 Identities=25% Similarity=0.417 Sum_probs=55.2
Q ss_pred HHHHHHHHHHhhCccCC--CCCCCChHHHHHHHHHHHHhcCCCCCCchHHHHHHhhccccccccc-ceEEccCCcccCCC
Q 004802 189 IILIKAWCYYESRILGA--HHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDS-YCISLNGPVRISSL 265 (729)
Q Consensus 189 vlLIK~Wak~er~Ln~a--~~GgLSSYaL~LMVI~fLQ~~~psl~~pLgLL~~FFeyYs~FDw~~-~~ISI~GPV~lssL 265 (729)
++++|+|+| ..+++|+ +++|+|+|...||||+| .+ +...++.-++ |.. ..|.+.
T Consensus 3 VrLLK~FlK-~igvYGse~~~~GFSGYL~ELLii~y-----Gs-------F~~~l~~a~~--W~~~~~Id~~-------- 59 (114)
T PF09249_consen 3 VRLLKQFLK-GIGVYGSELKTRGFSGYLCELLIIHY-----GS-------FENVLEAAAK--WKPPVVIDLE-------- 59 (114)
T ss_dssp HHHHHHHHH-HTT-B-SSTTT-SB-HHHHHHHHHHH-----SS-------HHHHHHHHTT----TTEEEETT--------
T ss_pred hHHHHHHHh-cCCCcchhhhcCcchHHHHHHHHHHH-----CC-------HHHHHHHHHh--cCCCeEEccC--------
Confidence 689999998 7788875 78999999999999983 11 2223344443 432 233221
Q ss_pred CccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHHHHHH
Q 004802 266 PEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRS 339 (729)
Q Consensus 266 p~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGRSVs~~~~~rIr~ 339 (729)
..+. ..+.| ..+|.|.||.||.+|+|.+++..++.++..
T Consensus 60 ---------~~~~-------------------------~~~~f-~~PlvviDPvDp~RNVAAalS~~~~~~fv~ 98 (114)
T PF09249_consen 60 ---------DHGE-------------------------PSKKF-DDPLVVIDPVDPNRNVAAALSLENLAEFVH 98 (114)
T ss_dssp ----------TTE---------------------------EEE--SS-EEEETTEEEEETTTTS-HHHHHHHHH
T ss_pred ---------ccch-------------------------hhhhc-CCCeEEcCCCCCCchHhHhcCHHHHHHHHH
Confidence 1010 00112 467999999999999999999777665543
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=97.69 E-value=3e-05 Score=67.77 Aligned_cols=43 Identities=28% Similarity=0.414 Sum_probs=36.5
Q ss_pred HHHHHHHHHh-hcCCCceEeeccccCCCCCCCCceEEEecCCCc
Q 004802 67 IDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV 109 (729)
Q Consensus 67 v~~Lq~iI~~-~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~ 109 (729)
++++.+.+++ ++.+.|.+|||+++|.+.|+|||||+|+.+...
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
>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=97.54 E-value=0.00012 Score=58.62 Aligned_cols=40 Identities=23% Similarity=0.430 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHh-hcCCCceEeeccccCCCCCCCCceEEEe
Q 004802 65 AVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAF 104 (729)
Q Consensus 65 ~Vv~~Lq~iI~~-~p~a~V~~FGS~~tGL~LP~SDIDLvV~ 104 (729)
++++.+++.++. ....++..|||++.|.+.+.|||||++.
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 4578999999999999999999999987
No 17
>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=97.51 E-value=0.00052 Score=65.13 Aligned_cols=90 Identities=22% Similarity=0.258 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHHhh--cCCCceEeeccccCCCCC-CCCceEEEecCCCcc------hHHHHHHHHHHHHHhhccccc
Q 004802 61 ERRKAVIDYVQRLIRNY--LGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVE------EALANDVCSVLEREDQNKAAE 131 (729)
Q Consensus 61 ~~R~~Vv~~Lq~iI~~~--p~a~V~~FGS~~tGL~LP-~SDIDLvV~~~~~~~------~~l~~~V~~iL~~~~~n~~~~ 131 (729)
.+...|.+.|++-.... +...+++|||++.|++++ .||||++|+.+.... ..++..|...|+.....
T Consensus 7 ~~~~~i~~~L~~~~~~~~~~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~---- 82 (143)
T cd05400 7 ERYREIREALKESLSELAGRVAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGA---- 82 (143)
T ss_pred HHHHHHHHHHHHhcccccccccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCc----
Confidence 33444444444444321 357999999999999988 899999999875432 13445566666542110
Q ss_pred cceEEEEEEecceeeEEEeeC--CeEEEEe
Q 004802 132 FVVKDAQLIRAEVKLVKCLVQ--NIVVDIS 159 (729)
Q Consensus 132 f~Vk~Vq~I~ARVPIIKf~~~--gI~VDIS 159 (729)
-..+..+-|.|.+... ++.|||.
T Consensus 83 -----~~~~~~~~~~v~v~~~~~~~~vDvv 107 (143)
T cd05400 83 -----NEEVKAQHRSVTVKFKGQGFHVDVV 107 (143)
T ss_pred -----ccccccCceEEEEEEcCCCeEEEEE
Confidence 0123444456666654 8999994
No 18
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=97.43 E-value=0.0068 Score=63.87 Aligned_cols=201 Identities=15% Similarity=0.147 Sum_probs=112.3
Q ss_pred CceEeeccccCCCCC-CCCceEEEecCCCcchHHHHHHHHHHHHHhhccccccceEEEEEEecceeeEEEeeC----CeE
Q 004802 81 EVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQ----NIV 155 (729)
Q Consensus 81 ~V~~FGS~~tGL~LP-~SDIDLvV~~~~~~~~~l~~~V~~iL~~~~~n~~~~f~Vk~Vq~I~ARVPIIKf~~~----gI~ 155 (729)
.|.-.||++.||.+. +-+.|||++....-...+++.|...|....+....+ . ..+.+....+|.+++.+. .+.
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 578999999865433334444444332211111111 0 112122666787766642 233
Q ss_pred EEEeee----cCC---------------cchhhHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHH
Q 004802 156 VDISFN----QLG---------------GLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALE 216 (729)
Q Consensus 156 VDISfN----n~~---------------Gi~ns~fLe~v~~~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~ 216 (729)
+++... +.. ++.+.+=.+|+++...--..++.+++++|-|+. + .- .-+-|++|.+.
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 332221 100 001111112223222222368899999999985 2 21 11239999999
Q ss_pred HHHHHHHHhcCCCCCCchHHHHHHhhcccccccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccC
Q 004802 217 TLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSV 296 (729)
Q Consensus 217 LMVI~fLQ~~~psl~~pLgLL~~FFeyYs~FDw~~~~ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~ 296 (729)
+++-+.+-. .....++-..|.+||+|-+. | +++
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 998776631 11112233478999998752 0 011
Q ss_pred CCCCCCCCCCCCCCcceEEeCCCCC-CCCcccCcCHHHHHHHHHHHHHHHHHH
Q 004802 297 PSRGFDTNSRSFPPKHLNIVDPLKE-NNNLGRSVSKGNFYRIRSAFTYGARKL 348 (729)
Q Consensus 297 ~~rg~e~~~~~f~~~~L~IeDPfdp-snNlGRSVs~~~~~rIr~aF~~Aa~~L 348 (729)
+....|.||.+. .+|+....+......|-.+=+.|.|.+
T Consensus 190 -------------p~~~gI~DPce~~~~nv~~~lT~qqrd~It~sAQ~alRl~ 229 (246)
T smart00572 190 -------------PGSPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLL 229 (246)
T ss_pred -------------CCCCCCcCCCCCCcccHHHhcCHHHHHHHHHHHHHHHHHH
Confidence 112578999997 899999998777777766655555554
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=97.32 E-value=0.00065 Score=58.69 Aligned_cols=44 Identities=27% Similarity=0.403 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhhc--CCCceEeeccccCCCCCCCCceEEEecCCCc
Q 004802 66 VIDYVQRLIRNYL--GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV 109 (729)
Q Consensus 66 Vv~~Lq~iI~~~p--~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~ 109 (729)
.++.+.+++++.+ -..+.+|||++.|-+.++|||||+|+.....
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=96.91 E-value=0.0078 Score=74.47 Aligned_cols=136 Identities=15% Similarity=0.213 Sum_probs=97.7
Q ss_pred HHHHhcCCchhHHHHHHHHHHHHHhhCccCC-CCCCCChHHHHHHHHHHHHhcC----CCC---CCchHHHHHHhhcccc
Q 004802 175 VDRLIGKDHLFKRSIILIKAWCYYESRILGA-HHGLISTYALETLVLYIFHLFH----SSL---NGPLAVLYKFLDYFSK 246 (729)
Q Consensus 175 v~~~i~kdp~fr~LvlLIK~Wak~er~Ln~a-~~GgLSSYaL~LMVI~fLQ~~~----psl---~~pLgLL~~FFeyYs~ 246 (729)
+.+.....|.|+..++|+|.|++ ||++... ..||++++-|.+|+++.+|.-. +.+ .+..+++..+++|-++
T Consensus 156 l~~~~~~~p~f~dA~iLlkvWl~-QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fLA~ 234 (972)
T PF03813_consen 156 LHEASKSSPAFRDACILLKVWLR-QRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFLAT 234 (972)
T ss_pred HHHHHhcCHHHHHHHHHHHHHHh-cCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHHhc
Confidence 34455568999999999999996 8888754 4599999999999998888511 222 2356788999999999
Q ss_pred cccccceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcc
Q 004802 247 FDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLG 326 (729)
Q Consensus 247 FDw~~~~ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlG 326 (729)
-||.+.+|.+.... +. .+.+.... ......+.||-.. -|+.
T Consensus 235 ~d~~~~~l~~~~~~---------------~~------~~~~~~~~-----------------~~~~~vf~D~sg~-~Nl~ 275 (972)
T PF03813_consen 235 TDLSKKPLFFKSSS---------------DS------TESLEEFH-----------------SAFDPVFVDPSGG-LNLL 275 (972)
T ss_pred cccccCceEEecCC---------------Cc------cchhhhhh-----------------ccCCeEEEeCCCC-EEEE
Confidence 99988888876210 00 11111110 1233677888776 6899
Q ss_pred cCcCHHHHHHHHHHHHHHHHHHHh
Q 004802 327 RSVSKGNFYRIRSAFTYGARKLGH 350 (729)
Q Consensus 327 RSVs~~~~~rIr~aF~~Aa~~L~~ 350 (729)
..++...+.+||.+=+.+...|.+
T Consensus 276 ~~ms~~s~~~L~~eA~~tl~lL~~ 299 (972)
T PF03813_consen 276 AKMSPSSYEELQHEAKLTLELLDD 299 (972)
T ss_pred EcCCHHHHHHHHHHHHHHHHHhcc
Confidence 999999999999997777776654
No 21
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.36 E-value=0.015 Score=53.29 Aligned_cols=46 Identities=24% Similarity=0.266 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhhcC-CCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 63 RKAVIDYVQRLIRNYLG-CEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 63 R~~Vv~~Lq~iI~~~p~-a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
.+.+++.+...++++++ +++-+|||++-|-.-|+|||||.|.+...
T Consensus 7 ~~~~lr~~~~~l~~k~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKYGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 34456777778886665 68999999999999999999999988654
No 22
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=95.90 E-value=0.021 Score=60.93 Aligned_cols=55 Identities=20% Similarity=0.225 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhcCC---CceEeeccccCCCCCCCCceEEEecCCCcchHHHHHHHHHH
Q 004802 67 IDYVQRLIRNYLGC---EVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVL 121 (729)
Q Consensus 67 v~~Lq~iI~~~p~a---~V~~FGS~~tGL~LP~SDIDLvV~~~~~~~~~l~~~V~~iL 121 (729)
+..++++++..++- .|++|||++.|-+-|.|||||.|+......+.....|...|
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 34445666655542 58999999999999999999999987765443333344444
No 23
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.44 E-value=0.021 Score=51.99 Aligned_cols=28 Identities=25% Similarity=0.419 Sum_probs=26.4
Q ss_pred cCCCceEeeccccCCCCCCCCceEEEec
Q 004802 78 LGCEVFPFGSVPLKTYLPDGDIDLTAFG 105 (729)
Q Consensus 78 p~a~V~~FGS~~tGL~LP~SDIDLvV~~ 105 (729)
....|++|||++.|-+.+.||||++|+.
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=95.04 E-value=0.89 Score=48.36 Aligned_cols=155 Identities=19% Similarity=0.186 Sum_probs=77.3
Q ss_pred eeccccCCCCC-CCCceEEEecCCCcchHHHHHHHHHHHHHhhccccccceE---EEE-EE-ecceeeEEEee--C--Ce
Q 004802 85 FGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVK---DAQ-LI-RAEVKLVKCLV--Q--NI 154 (729)
Q Consensus 85 FGS~~tGL~LP-~SDIDLvV~~~~~~~~~l~~~V~~iL~~~~~n~~~~f~Vk---~Vq-~I-~ARVPIIKf~~--~--gI 154 (729)
.||++.||.+. +-++|+||+....-..+++++|...|....+....+ .|. +.- ++ ..+.|.+.+.. . .+
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 578899999876433445555554443221111111 110 111 11 23334444332 1 33
Q ss_pred EEEEeee----cCC---------------cchhhHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHH
Q 004802 155 VVDISFN----QLG---------------GLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYAL 215 (729)
Q Consensus 155 ~VDISfN----n~~---------------Gi~ns~fLe~v~~~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL 215 (729)
.+.+.+. +.. ++.+.+--+|++.....-+..+.+++++|-.+. |.. .-+.|++|++
T Consensus 81 r~~~~~~~~~~~~~~~dp~~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~---R~p--~w~~L~~W~l 155 (248)
T PF07528_consen 81 RVRVLITTIPENLSKLDPEDHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQ---RVP--TWQPLSSWAL 155 (248)
T ss_pred EEEEeccccCccccccChhhcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHH---hCC--CCCCCChhHH
Confidence 3333321 110 000111112233333333456788889998874 332 3567999999
Q ss_pred HHHHHHHHHhcCCC-CCCchHHHHHHhhccc
Q 004802 216 ETLVLYIFHLFHSS-LNGPLAVLYKFLDYFS 245 (729)
Q Consensus 216 ~LMVI~fLQ~~~ps-l~~pLgLL~~FFeyYs 245 (729)
.+|+-+.+-....+ -.++-..|.++|+.-+
T Consensus 156 eLL~~~~i~~~~~~~~l~~g~a~RRvle~la 186 (248)
T PF07528_consen 156 ELLVEKAISNNSSRQPLSPGDAFRRVLECLA 186 (248)
T ss_pred HHHHHHHeeeCCCCCCCChHHHHHHHHHHHh
Confidence 99887755421111 0122235677777653
No 25
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=94.14 E-value=0.29 Score=60.04 Aligned_cols=129 Identities=19% Similarity=0.350 Sum_probs=89.5
Q ss_pred hcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCC---chHHHHHHhhcccccccccceEE
Q 004802 179 IGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNG---PLAVLYKFLDYFSKFDWDSYCIS 255 (729)
Q Consensus 179 i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~~---pLgLL~~FFeyYs~FDw~~~~IS 255 (729)
....+.|+..+.|+|.|+. +| =.+-..|||+.+-++++|++.+.. ..++. .++++..-|+|.++.||..++|+
T Consensus 304 ~s~~~~f~da~~Llk~Wlr-qR-s~~~~~~gfg~f~~s~lvv~L~s~--~ki~~~~S~yqvfR~vl~flat~dlt~~~~~ 379 (1121)
T KOG2054|consen 304 LSSAKGFKDALALLKVWLR-QR-SLDIGQGGFGGFLLSALVVYLVST--RKIHTTLSAYQVFRSVLQFLATTDLTVNGIS 379 (1121)
T ss_pred HhhhhhHHHHHHHHHHHHH-hh-hhhcccCcchHHHHHHHHHHHHhc--CchhhcchHHHHHHHHHHHHhhhhhhccceE
Confidence 3457889999999999996 55 344567899999999998886653 23433 45688889999999999999998
Q ss_pred ccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCcccCcCHHHHH
Q 004802 256 LNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFY 335 (729)
Q Consensus 256 I~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGRSVs~~~~~ 335 (729)
+.. -+ .++|.. ..|.. ...++..|= ....|++.+++...++
T Consensus 380 l~~-~~-~s~~~~---------------~~f~e---------------------~~~~~f~D~-s~~~NLc~~mt~s~y~ 420 (1121)
T KOG2054|consen 380 LVP-SS-PSLPAL---------------ADFHE---------------------GQLVTFIDS-SGHLNLCANMTASTYE 420 (1121)
T ss_pred ecc-CC-CCchhh---------------hhhhh---------------------cceeeEecc-CCcchhhhhccHHHHH
Confidence 761 00 111100 01110 012444442 2346888888887899
Q ss_pred HHHHHHHHHHHHHHh
Q 004802 336 RIRSAFTYGARKLGH 350 (729)
Q Consensus 336 rIr~aF~~Aa~~L~~ 350 (729)
++|++-+.+++.|..
T Consensus 421 ~~q~ea~ltl~lL~~ 435 (1121)
T KOG2054|consen 421 QVQEEARLTLMLLDS 435 (1121)
T ss_pred HHHHHHHHHHHHHhh
Confidence 999999999999984
No 26
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=92.61 E-value=2.4 Score=45.59 Aligned_cols=198 Identities=21% Similarity=0.204 Sum_probs=109.7
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh--hcC------CCceEeeccccCCCCCCCCc-eEEEecCCC-cc
Q 004802 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN--YLG------CEVFPFGSVPLKTYLPDGDI-DLTAFGGLN-VE 110 (729)
Q Consensus 41 ~lE~ei~efv~~I~PT~eE~~~R~~Vv~~Lq~iI~~--~p~------a~V~~FGS~~tGL~LP~SDI-DLvV~~~~~-~~ 110 (729)
.+++++-+=-+.+.|+++|..+-...+.+|+.++.. .|+ .+|.-.|||.+|+.+-++|. |+||+...- ..
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 355555555567999999998888888888888874 343 35677899999999887665 777776542 11
Q ss_pred h---HHHHHHHHHHHHHhhc-------cccccceEEEEEEecceeeEEEeeC--------CeEEEEeee--cCCcchhhH
Q 004802 111 E---ALANDVCSVLEREDQN-------KAAEFVVKDAQLIRAEVKLVKCLVQ--------NIVVDISFN--QLGGLSTLC 170 (729)
Q Consensus 111 ~---~l~~~V~~iL~~~~~n-------~~~~f~Vk~Vq~I~ARVPIIKf~~~--------gI~VDISfN--n~~Gi~ns~ 170 (729)
+ .+.+++.+-|+..... ....|. |.-.+|+|-|+--+.- .+..|+-.= +..+++-+.
T Consensus 120 EaV~aLg~Kv~e~lka~d~~Evltvl~~e~G~~---I~s~~~~VRiLIt~iP~n~~KLEP~lHLD~K~M~~~l~a~RH~~ 196 (362)
T KOG3793|consen 120 EAVAALGNKVVESLRAQDPSEVLTVLTNETGFE---ISSSDATVRILITTVPPNLRKLEPELHLDIKVMQSALAAIRHAR 196 (362)
T ss_pred HHHHHHHHHHHHHhhhcChHHHHHHHhhcccee---eecccceEEEEEeecCchhcccChhhhhhHHHHHHHHHHHhhhh
Confidence 2 1233343333321100 001221 2223788888766642 466666432 233444444
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCchHH-HHHHhhccc--cc
Q 004802 171 FLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAV-LYKFLDYFS--KF 247 (729)
Q Consensus 171 fLe~v~~~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~~pLgL-L~~FFeyYs--~F 247 (729)
+.++. .-...++-|++++|--- ++..+ ..-|+-+.|-++.-+-+...+.+..-+|++ ..+||+..+ -|
T Consensus 197 WFee~----A~~s~~~~lir~LKDlr---~r~~~--F~PLs~W~ldll~h~avmNnp~RQ~l~ln~Afrr~~qilaAG~F 267 (362)
T KOG3793|consen 197 WFEEN----ASQSTVKVLIRLLKDLR---IRFPG--FEPLTPWILDLLGHYAVMNNPTRQPLALNVAYRRCLQILAAGLF 267 (362)
T ss_pred hhhhh----hhHHHHHHHHHHHHHHH---hhcCC--CCCchHHHHHHHHHHHHHcCCccccchhhHHHHHHHHHHHhccc
Confidence 43332 11234677788888653 23322 123566666555443333222232234553 477888775 46
Q ss_pred ccc
Q 004802 248 DWD 250 (729)
Q Consensus 248 Dw~ 250 (729)
--.
T Consensus 268 lPg 270 (362)
T KOG3793|consen 268 LPG 270 (362)
T ss_pred CCC
Confidence 543
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=91.83 E-value=2.4 Score=53.10 Aligned_cols=143 Identities=23% Similarity=0.261 Sum_probs=87.8
Q ss_pred HHhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCC---chHHHHHHhhcccccccccce
Q 004802 177 RLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNG---PLAVLYKFLDYFSKFDWDSYC 253 (729)
Q Consensus 177 ~~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~~---pLgLL~~FFeyYs~FDw~~~~ 253 (729)
.+..++|.|.+.++++|+|+. ..+. .+.++.=++.|||++.+-...| ... +..-+++||++-++|||....
T Consensus 677 ~l~~~~p~fs~tvRL~KrW~~--shlL---s~~i~~E~vELlva~vfl~~~p-~~~P~S~~~GFlRfL~lLs~~dW~~~P 750 (972)
T PF03813_consen 677 GLHTRFPSFSPTVRLAKRWLS--SHLL---SGHISEEAVELLVASVFLSPAP-WSPPSSPQTGFLRFLHLLSTWDWREEP 750 (972)
T ss_pred HHHhhCCchhHHHHHHHHHHH--hccC---cccCCHHHHHHHHHHHhcCCCC-CCCCCCHhHHHHHHHHHHHhCCCCcCC
Confidence 344578999999999999985 3454 5678999999999997753222 222 334567899999999999766
Q ss_pred EEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHhhhccCCCCCCCCCCCCCCCcceEEeCCCCCCCCccc--CcCH
Q 004802 254 ISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGR--SVSK 331 (729)
Q Consensus 254 ISI~GPV~lssLp~~~~e~p~~gg~~~ll~ke~lr~~~~~fs~~~rg~e~~~~~f~~~~L~IeDPfdpsnNlGR--SVs~ 331 (729)
+-|. + + + -++.+........|....+. ........|+|-.|.|+..-+-. .-++
T Consensus 751 LiVd----~------------~-~---~l~~~~~~~i~~~f~~~R~~----dp~~~~p~~~IaT~~D~~g~~wT~~~Ps~ 806 (972)
T PF03813_consen 751 LIVD----F------------N-N---ELTEEDRAEIETNFDAWRKI----DPAMNLPAMFIATPYDPEGSLWTRNGPSK 806 (972)
T ss_pred EEEE----C------------C-C---CCCHHHHHHHHHHHHHhhcc----CccccCCcEEEEeCCCCCCCEeECCCCCH
Confidence 5543 0 0 0 12223333333333211110 00112346999999998644222 3345
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 004802 332 GNFYRIRSAFTYGARKLG 349 (729)
Q Consensus 332 ~~~~rIr~aF~~Aa~~L~ 349 (729)
..+.||+..=+.+++.|.
T Consensus 807 ~v~~Rl~~LAk~sl~~l~ 824 (972)
T PF03813_consen 807 VVAKRLTALAKASLKLLE 824 (972)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 567788766666666655
No 28
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=90.84 E-value=3.5 Score=41.00 Aligned_cols=106 Identities=18% Similarity=0.217 Sum_probs=61.6
Q ss_pred CCCceEeeccccCCCCCCCCceEEEecCCCcchHHHHHHHHHHHHHhhccccccceEEEEEE-ecceeeEEEeeCCeEEE
Q 004802 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVD 157 (729)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~~~~l~~~V~~iL~~~~~n~~~~f~Vk~Vq~I-~ARVPIIKf~~~gI~VD 157 (729)
.....+.|..+.|+.+|+|||||++..++ .+.+.+.+...... ...|.++.- .| .-..=+..|...|..+-
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 44788999999999999999999998864 22333333332221 234555441 23 22333445666798888
Q ss_pred Eeeec-CCcchhhH--HHHHHHHHhcCC-chhHHHHHHHH
Q 004802 158 ISFNQ-LGGLSTLC--FLEQVDRLIGKD-HLFKRSIILIK 193 (729)
Q Consensus 158 ISfNn-~~Gi~ns~--fLe~v~~~i~kd-p~fr~LvlLIK 193 (729)
|-..+ ...-+++- ++- -.+++... |.||.-|+-+|
T Consensus 87 iF~Q~~Pv~~QnayrHm~i-E~rLL~~~g~~~r~~Ii~LK 125 (152)
T PF14091_consen 87 IFGQPIPVEEQNAYRHMLI-EHRLLELHGPSFREEIIELK 125 (152)
T ss_pred EeecCCChhhHHHHHHHHH-HHHHHHhcCHHHHHHHHHHH
Confidence 84422 22223321 111 12344444 88888888887
No 29
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=89.70 E-value=0.85 Score=47.73 Aligned_cols=40 Identities=20% Similarity=0.154 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhcCCCceEeeccc----cCC--CCCCCCceEEEecCC
Q 004802 67 IDYVQRLIRNYLGCEVFPFGSVP----LKT--YLPDGDIDLTAFGGL 107 (729)
Q Consensus 67 v~~Lq~iI~~~p~a~V~~FGS~~----tGL--~LP~SDIDLvV~~~~ 107 (729)
+..|..+... .+..+-+|||+. ||+ -.++|||||.|-.+.
T Consensus 109 l~~l~~~~~~-~g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~ 154 (221)
T PRK02098 109 LRALLALAAA-HGVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPA 154 (221)
T ss_pred HHHHHHHHHh-CCCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCC
Confidence 3344444433 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=89.03 E-value=0.96 Score=46.66 Aligned_cols=30 Identities=23% Similarity=0.170 Sum_probs=26.5
Q ss_pred cCCCceEeecc----ccCC--CCCCCCceEEEecCC
Q 004802 78 LGCEVFPFGSV----PLKT--YLPDGDIDLTAFGGL 107 (729)
Q Consensus 78 p~a~V~~FGS~----~tGL--~LP~SDIDLvV~~~~ 107 (729)
.++.+-+|||+ +||+ -.++|||||.|..+.
T Consensus 107 ~~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~ 142 (202)
T TIGR03135 107 LGVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPS 142 (202)
T ss_pred CCCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCC
Confidence 56799999999 8999 678999999998874
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=81.03 E-value=3.3 Score=38.74 Aligned_cols=57 Identities=25% Similarity=0.214 Sum_probs=39.1
Q ss_pred HHHHHHHHHHh-hcCCCceEeeccccCCCCCCCCceEEEecCCCcc-----hHHHHHHHHHHHH
Q 004802 66 VIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE-----EALANDVCSVLER 123 (729)
Q Consensus 66 Vv~~Lq~iI~~-~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~~-----~~l~~~V~~iL~~ 123 (729)
+.+.|++.++. .|++++.+-|||.-|-.. .+|||+.|..+.... ..++..|.+.|+.
T Consensus 10 i~~~V~~~~~~i~p~~~v~i~GSyRRGK~~-~gDiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~ 72 (112)
T PF14792_consen 10 IEEIVKEALEKIDPGLEVEICGSYRRGKET-SGDIDILITHPDPSSVSKKLEGLLEKLVKRLEE 72 (112)
T ss_dssp HHHHHHHHHHCCSTT-EEEEEHHHHTT-SE-ESSEEEEEEETTCSTTTCSTTCHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCcEEEEccccccCCCc-CCCeEEEEeCCCcCcchhhHHHHHHHHHHHHHh
Confidence 34445556664 489999999999999766 469999999876432 3456667666654
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=69.46 E-value=33 Score=33.68 Aligned_cols=30 Identities=20% Similarity=0.193 Sum_probs=26.8
Q ss_pred CCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
...+..+||+..+=..+.||+|+.++....
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
>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=65.18 E-value=15 Score=38.12 Aligned_cols=54 Identities=20% Similarity=0.263 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhhcCCCceEeecc----ccCC--CCCCCCceEEEecCCCcchHHHHHHHHHHH
Q 004802 65 AVIDYVQRLIRNYLGCEVFPFGSV----PLKT--YLPDGDIDLTAFGGLNVEEALANDVCSVLE 122 (729)
Q Consensus 65 ~Vv~~Lq~iI~~~p~a~V~~FGS~----~tGL--~LP~SDIDLvV~~~~~~~~~l~~~V~~iL~ 122 (729)
..+..++.+. ...+...-+|||+ +||+ -.++|||||.|..+... .+..+...|+
T Consensus 103 ~~l~~l~~~~-~~~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~~---~~~~l~~~L~ 162 (213)
T PF10620_consen 103 PALQALRALL-DALGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSPS---QADALLALLQ 162 (213)
T ss_pred HHHHHHHHHH-HHcCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCChh---HHHHHHHHHH
Confidence 3445555555 4579999999996 4776 25589999999887543 2334444453
No 34
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=64.16 E-value=16 Score=44.42 Aligned_cols=49 Identities=18% Similarity=0.225 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHHHHh--hc-CCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 60 EERRKAVIDYVQRLIRN--YL-GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 60 ~~~R~~Vv~~Lq~iI~~--~p-~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
-+.|+.+......+++. .| ++.+...|+|.-|--.|.|||||.++.+..
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~~ 56 (693)
T PRK00227 5 AQLREDAEASALALLGSLQLPPGTALAATGSLARREMTPYSDLDLILLHPPG 56 (693)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCeEEEEeccccccCcCCCcCceEEEEeCCc
Confidence 35678888888888875 33 678999999999999999999999998743
No 35
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=61.58 E-value=19 Score=37.59 Aligned_cols=32 Identities=25% Similarity=0.150 Sum_probs=24.8
Q ss_pred cCCCceEeeccc----cCC--CCCCCCceEEEecCCCc
Q 004802 78 LGCEVFPFGSVP----LKT--YLPDGDIDLTAFGGLNV 109 (729)
Q Consensus 78 p~a~V~~FGS~~----tGL--~LP~SDIDLvV~~~~~~ 109 (729)
.+...-+|||.. ||+ ..++|||||+|..+...
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 36
>PRK05007 PII uridylyl-transferase; Provisional
Probab=60.11 E-value=41 Score=42.12 Aligned_cols=50 Identities=26% Similarity=0.265 Sum_probs=35.6
Q ss_pred HHHHHHHHHHH-HHHHHhh-----cCCCceEeeccccCCCCCCCCceEEEecCCCc
Q 004802 60 EERRKAVIDYV-QRLIRNY-----LGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV 109 (729)
Q Consensus 60 ~~~R~~Vv~~L-q~iI~~~-----p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~ 109 (729)
...|..+++.+ +.+.... ++..|...|+|.-|--.|.|||||.++.+...
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 45555566543 3333321 24689999999999999999999999987543
No 37
>PRK03059 PII uridylyl-transferase; Provisional
Probab=59.15 E-value=38 Score=42.17 Aligned_cols=50 Identities=18% Similarity=0.227 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHH-HHHHHhh---cCCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 59 SEERRKAVIDYV-QRLIRNY---LGCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 59 E~~~R~~Vv~~L-q~iI~~~---p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
=...|..+++.+ +.+.+.. .+..|...|+|.-|---|.|||||.++.+..
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 344555555533 3333321 2468899999999999999999999998643
No 38
>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=57.85 E-value=54 Score=35.87 Aligned_cols=55 Identities=20% Similarity=0.134 Sum_probs=35.5
Q ss_pred HHHHHHHHHhh-cCCCceEeeccccCCCCCCCCceEEEecCCCcchHHHHHHHHHHH
Q 004802 67 IDYVQRLIRNY-LGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVLE 122 (729)
Q Consensus 67 v~~Lq~iI~~~-p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~~~~l~~~V~~iL~ 122 (729)
.+.|...++.. +.++|.+-||+.-|.-+ .+||||+|..+......+...|...|.
T Consensus 147 a~~i~~~l~~~~~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~~~~~~~v~~~l~ 202 (307)
T cd00141 147 AEIIKEALREVDPVLQVEIAGSYRRGKET-VGDIDILVTHPDATSRGLLEKVVDALV 202 (307)
T ss_pred HHHHHHHHHhCCCceEEEEcccccCCCCc-cCCEEEEEecCCccccccHHHHHHHHH
Confidence 33444444443 67899999999887765 689999998765322223344555553
No 39
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=56.26 E-value=53 Score=31.71 Aligned_cols=29 Identities=14% Similarity=-0.088 Sum_probs=26.9
Q ss_pred CCCceEeeccccCCCCCCCCceEEEecCC
Q 004802 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGL 107 (729)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDLvV~~~~ 107 (729)
...+..+||+.-+=.++.||+|..|+...
T Consensus 49 ~~a~lalGS~GR~E~~~~sDqD~alv~~d 77 (138)
T PF03445_consen 49 PFAWLALGSYGRREQTLYSDQDNALVFED 77 (138)
T ss_pred CEEEEEECcccccCCCcCccccceeeecC
Confidence 57899999999999999999999999877
No 40
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=53.92 E-value=58 Score=40.33 Aligned_cols=32 Identities=22% Similarity=0.283 Sum_probs=28.4
Q ss_pred CCCceEeeccccCCCCCCCCceEEEecCCCcc
Q 004802 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE 110 (729)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~~ 110 (729)
++.+...|.|.-|--.|.||||+.++.+....
T Consensus 66 ~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~ 97 (867)
T COG2844 66 GLALVAVGGYGRGELHPLSDIDLLLLSPQKLT 97 (867)
T ss_pred ceEEEEeccccccccCCCccceEEEecCCCCC
Confidence 47899999999999999999999999987543
No 41
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=51.23 E-value=35 Score=37.94 Aligned_cols=57 Identities=19% Similarity=0.095 Sum_probs=38.4
Q ss_pred HHHHHHHHHHh-hcCCCceEeeccccCCCCCCCCceEEEecCCCcc--hHHHHHHHHHHHH
Q 004802 66 VIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE--EALANDVCSVLER 123 (729)
Q Consensus 66 Vv~~Lq~iI~~-~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~~~--~~l~~~V~~iL~~ 123 (729)
+.+.|++.+.. .|++.|.+-|||.-|- .-+.|||+.|.-|.... ..+...|...|++
T Consensus 157 i~~~V~~av~~~~p~~~vt~~GsfRRGk-~~ggDvD~LithP~~~s~~~~~~~~l~~~le~ 216 (353)
T KOG2534|consen 157 IQQTVQEAVWAFDPEAFVTVTGSFRRGK-KMGGDVDFLITHPGSTSTEAKLLQLLMILLEK 216 (353)
T ss_pred HHHHHHHHHhhcCCCcEEEEeccccCCc-ccCCCeeEEEeCCCCCchhhhHHHHHHHHHHh
Confidence 33444555554 4899999999999884 45899999999886432 2344455555543
No 42
>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=49.94 E-value=9.4 Score=40.01 Aligned_cols=44 Identities=16% Similarity=0.126 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHhh-c-CCCceEeeccccCCCCCCCCceEEEecC
Q 004802 63 RKAVIDYVQRLIRNY-L-GCEVFPFGSVPLKTYLPDGDIDLTAFGG 106 (729)
Q Consensus 63 R~~Vv~~Lq~iI~~~-p-~a~V~~FGS~~tGL~LP~SDIDLvV~~~ 106 (729)
|..|.+.++++-+.. . =.-....||.+-|+..|+||.|+..+.-
T Consensus 2 ~~~i~~~l~~ie~~~~~~il~~~~sGS~a~G~~s~dSD~D~r~vy~ 47 (247)
T PF10127_consen 2 RETIQEKLNEIEKEHNVKILYACESGSRAYGFASPDSDYDVRGVYI 47 (247)
T ss_pred chHHHHHHHHHHHhcCCcEEEEecccccccCCCCCCcCcccchhcc
Confidence 456667777776642 1 1235568999999999999999877654
No 43
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=48.49 E-value=43 Score=35.09 Aligned_cols=43 Identities=23% Similarity=0.361 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCceEeeccccCCCCCCCCceEEEecC
Q 004802 62 RRKAVIDYVQRLIRNYLGCEVFPFGSVPLKTYLPDGDIDLTAFGG 106 (729)
Q Consensus 62 ~R~~Vv~~Lq~iI~~~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~ 106 (729)
+|+++.+-++.+.+ .+..-.+|||.+.|=--|+||+|++|..+
T Consensus 22 kRe~A~~i~e~l~~--f~ie~~v~gSvarGDV~p~SDvDV~I~~~ 64 (228)
T COG2413 22 KREKARKIMEGLSD--FGIEAVVYGSVARGDVRPGSDVDVAIPEP 64 (228)
T ss_pred HHHHHHHHHHHHHH--hcchhEEEeeeeccCcCCCCCceEEEecC
Confidence 34444333333333 34467889999999889999999999874
No 44
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=45.88 E-value=92 Score=39.15 Aligned_cols=50 Identities=18% Similarity=0.163 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHH-hh--c---CCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 59 SEERRKAVIDYVQRLIR-NY--L---GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 59 E~~~R~~Vv~~Lq~iI~-~~--p---~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
-...|..+++.+-..+- .. + +..|...|.|.-|---|.|||||.++.+..
T Consensus 52 ~~~~~s~~~d~~l~~~~~~~~~~~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 52 LIEDRAWFVDQILQQAWHQFDWSDDADIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 34556666665433332 22 1 357889999999999999999999998754
No 45
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=43.29 E-value=50 Score=41.66 Aligned_cols=73 Identities=26% Similarity=0.373 Sum_probs=52.2
Q ss_pred HhcCCchhHHHHHHHHHHHHHhhCccCCCCCCCChHHHHHHHHHHHHhcCCCCCCch--H-HHHHHhhcccccccccceE
Q 004802 178 LIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPL--A-VLYKFLDYFSKFDWDSYCI 254 (729)
Q Consensus 178 ~i~kdp~fr~LvlLIK~Wak~er~Ln~a~~GgLSSYaL~LMVI~fLQ~~~psl~~pL--g-LL~~FFeyYs~FDw~~~~I 254 (729)
+...++.+-..++|.|+|+. ..++ .|++.=-++.|+|++.++...+ ...|- + =+++|+.+-++|||...-.
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 3443 4566688999999998875332 22222 2 4678999999999987554
Q ss_pred Ec
Q 004802 255 SL 256 (729)
Q Consensus 255 SI 256 (729)
-+
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=42.62 E-value=30 Score=37.68 Aligned_cols=29 Identities=28% Similarity=0.328 Sum_probs=25.5
Q ss_pred hcCCCceEeeccccCCCCCCCCceEEEec
Q 004802 77 YLGCEVFPFGSVPLKTYLPDGDIDLTAFG 105 (729)
Q Consensus 77 ~p~a~V~~FGS~~tGL~LP~SDIDLvV~~ 105 (729)
.|--.+=+-||...||+-.+||||++|.+
T Consensus 119 Vp~~~mGVTGSiL~gl~~~nSDIDfVVYG 147 (315)
T COG1665 119 VPVNSMGVTGSILLGLYDENSDIDFVVYG 147 (315)
T ss_pred CchhhccccccccccccCCCCCceEEEEc
Confidence 35556778899999999999999999998
No 47
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=40.28 E-value=1e+02 Score=38.59 Aligned_cols=49 Identities=16% Similarity=0.261 Sum_probs=34.9
Q ss_pred HHHHHHHHHHH-HHHHHhh--c---CCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 60 EERRKAVIDYV-QRLIRNY--L---GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 60 ~~~R~~Vv~~L-q~iI~~~--p---~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
...|..+++.+ +++.... + ++.+...|+|.-|---|.|||||.|+.+..
T Consensus 31 ~~~~~~~~D~~l~~l~~~~~~~~~~~iaLvAvGGYGR~eL~P~SDIDlliL~~~~ 85 (854)
T PRK01759 31 IENRSDFYDQLLIHLWQQFGLEEQSDLALIAVGGYGRREMFPLSDLDILILTEQP 85 (854)
T ss_pred HHHHHHHHHHHHHHHHHHccCCCCCCeEEEEeCCcccccCCCcccceEEEEeCCC
Confidence 45555666543 3333322 2 357899999999999999999999998754
No 48
>PRK04374 PII uridylyl-transferase; Provisional
Probab=39.32 E-value=1.4e+02 Score=37.50 Aligned_cols=49 Identities=18% Similarity=0.289 Sum_probs=34.5
Q ss_pred HHHHHHHHHHH-HHHHHhh-c---CCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 60 EERRKAVIDYV-QRLIRNY-L---GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 60 ~~~R~~Vv~~L-q~iI~~~-p---~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
...|..+++.+ +.+...+ | +..|...|+|.-|---|.|||||.++.+..
T Consensus 48 ~~~~s~~~D~~l~~~~~~~~~~~~~~alvAvGgYGR~EL~p~SDIDLliL~~~~ 101 (869)
T PRK04374 48 LALRARAVDQLMRNAWTRCIPADSGLSLHAVGGYGRGELFPRSDVDLLVLGETA 101 (869)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCcCCEEEEEcCCccccccCCcccceEEEEecCC
Confidence 34455555543 3333322 3 357899999999999999999999998743
No 49
>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=38.24 E-value=1.1e+02 Score=37.97 Aligned_cols=30 Identities=23% Similarity=0.264 Sum_probs=26.9
Q ss_pred CCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
+..+...|++.-|--.|.||||+.++....
T Consensus 43 ~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 43 GIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 567999999999999999999999998754
No 50
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=35.40 E-value=18 Score=40.16 Aligned_cols=24 Identities=29% Similarity=0.281 Sum_probs=20.2
Q ss_pred ceEeeccccCCCCCCCCceEEEec
Q 004802 82 VFPFGSVPLKTYLPDGDIDLTAFG 105 (729)
Q Consensus 82 V~~FGS~~tGL~LP~SDIDLvV~~ 105 (729)
...+||.+.||..|+||+|+-=+.
T Consensus 6 ~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEecccceeCCCCCCcccccceee
Confidence 457999999999999999975443
No 51
>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=33.98 E-value=58 Score=32.22 Aligned_cols=51 Identities=27% Similarity=0.479 Sum_probs=27.2
Q ss_pred cCCCHHHHHHHHHH---HHHHHHHHHhh---cCCCceEeeccccCCCCCC---CCceEEEe
Q 004802 53 VQPTVVSEERRKAV---IDYVQRLIRNY---LGCEVFPFGSVPLKTYLPD---GDIDLTAF 104 (729)
Q Consensus 53 I~PT~eE~~~R~~V---v~~Lq~iI~~~---p~a~V~~FGS~~tGL~LP~---SDIDLvV~ 104 (729)
..|+. +...|..| +..|.++++++ ..-.+.+||||..-+--|+ +|||+.=.
T Consensus 19 ~~~~~-~~~grh~vS~lV~~V~klmeEyLrrhNk~CicYGSyslhllN~~I~YgDIDilqT 78 (149)
T PF03296_consen 19 ANPSG-KVMGRHNVSDLVENVNKLMEEYLRRHNKSCICYGSYSLHLLNPNIKYGDIDILQT 78 (149)
T ss_dssp S--------------THHHHHHHHHHHHHHH-TTTEEEESHHHHHTTSTTS--SS-EEEES
T ss_pred cccCc-cccccccCcHHHHHHHHHHHHHHHhhCCCeEEeeeeeEEecCCCcccCcchhhhc
Confidence 34443 45556554 55566666643 4678999999998876664 99998754
No 52
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=28.68 E-value=82 Score=36.05 Aligned_cols=73 Identities=18% Similarity=0.264 Sum_probs=44.7
Q ss_pred CCCChhhHHHHHHHHHHHH---HHcCCCHHHHHHHHH---HHHHHHHHHHhh---cCCCceEeeccccCCCCCC---CCc
Q 004802 32 TAIGAEYWQRAEEATQGII---AQVQPTVVSEERRKA---VIDYVQRLIRNY---LGCEVFPFGSVPLKTYLPD---GDI 99 (729)
Q Consensus 32 ~~i~~e~w~~lE~ei~efv---~~I~PT~eE~~~R~~---Vv~~Lq~iI~~~---p~a~V~~FGS~~tGL~LP~---SDI 99 (729)
++...-....++...++++ .-.+|.+ ...-|.. ++..|.++++++ .+-.+.+||||..-+--|. +||
T Consensus 112 ss~~~~d~~sm~~la~~~L~synv~~~~~-kvmgrh~VSdLV~~V~klmeEyLrrhNk~CicYGSySlhllNp~I~YgDI 190 (467)
T PHA02996 112 SSNIRYDYSSMEKLARDALNSYNVAVISE-KVMGRHNVSDLVGNVNKLMEEYLRRHNKSCICYGSYSLHLLNPEIEYGDI 190 (467)
T ss_pred cceeecchHHHHHHHHHHHHhccccCCCc-cccccccccHHHHHHHHHHHHHHHhcCCceEEeeceeeeecCCccccCCc
Confidence 3333444444554444444 4455553 3222433 566667777654 4678999999998887664 999
Q ss_pred eEEEec
Q 004802 100 DLTAFG 105 (729)
Q Consensus 100 DLvV~~ 105 (729)
|+.=..
T Consensus 191 DilqTN 196 (467)
T PHA02996 191 DILQTN 196 (467)
T ss_pred ceeeec
Confidence 987653
No 53
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=27.28 E-value=31 Score=36.99 Aligned_cols=20 Identities=30% Similarity=0.305 Sum_probs=18.0
Q ss_pred eccccCCCCCCCCceEEEec
Q 004802 86 GSVPLKTYLPDGDIDLTAFG 105 (729)
Q Consensus 86 GS~~tGL~LP~SDIDLvV~~ 105 (729)
||..-|+.-|+||+|+--+.
T Consensus 17 GS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 17 GSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred cccccCCCCCCCccceeeEE
Confidence 99999999999999987664
No 54
>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=26.90 E-value=2.6e+02 Score=27.03 Aligned_cols=70 Identities=14% Similarity=0.172 Sum_probs=43.2
Q ss_pred cCCCceEeeccccCC--CCCCCCceEEEecCCCcchHHHHHHHHHHHHHhhccccccceEEEEEEecceeeEEEeeCCeE
Q 004802 78 LGCEVFPFGSVPLKT--YLPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIV 155 (729)
Q Consensus 78 p~a~V~~FGS~~tGL--~LP~SDIDLvV~~~~~~~~~l~~~V~~iL~~~~~n~~~~f~Vk~Vq~I~ARVPIIKf~~~gI~ 155 (729)
.+.++++.|-++-.+ ..+..|||+++.... .. .+.++++.. .. +.+ ....+.+++++...+..
T Consensus 15 ~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~~---~~---~~~~l~~~~------~~--~~v-~~~~~f~t~~v~~~~~~ 79 (139)
T cd05398 15 LGYEAYLVGGAVRDLLLGRPPKDIDIATDADG---PE---FAEALFKKI------GG--RVV-GLGEEFGTATVVINGLT 79 (139)
T ss_pred cCceEEEECChHHHHHcCCCCCCceEEEeCCC---HH---HHHHHHHhc------CC--cEE-ecCCcccEEEEEECCEE
Confidence 488999999887444 457899999998742 22 222222210 01 111 11356777788888999
Q ss_pred EEEeeec
Q 004802 156 VDISFNQ 162 (729)
Q Consensus 156 VDISfNn 162 (729)
+||+.-.
T Consensus 80 ~di~~~R 86 (139)
T cd05398 80 IDVATLR 86 (139)
T ss_pred EEEcccc
Confidence 9997543
No 55
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=26.42 E-value=2.8e+02 Score=28.10 Aligned_cols=81 Identities=20% Similarity=0.180 Sum_probs=44.1
Q ss_pred cCCCceEeecccc----CCCCCCCCceEEEecCCCcchHHHHHHHHHHHHHhhccccccceEEEEEEecceeeEEEeeCC
Q 004802 78 LGCEVFPFGSVPL----KTYLPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQN 153 (729)
Q Consensus 78 p~a~V~~FGS~~t----GL~LP~SDIDLvV~~~~~~~~~l~~~V~~iL~~~~~n~~~~f~Vk~Vq~I~ARVPIIKf~~~g 153 (729)
.+.++.+.|+++. |.--.+.|||+++..+..... ...+..+.+. + .+.... .-....-.++++...+
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 4678899999864 555568999999976543211 1112222211 1 111110 0112333445666678
Q ss_pred eEEEEeeecCCcchh
Q 004802 154 IVVDISFNQLGGLST 168 (729)
Q Consensus 154 I~VDISfNn~~Gi~n 168 (729)
+.||+ +.|..++..
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
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=25.96 E-value=34 Score=40.30 Aligned_cols=70 Identities=36% Similarity=0.450 Sum_probs=52.5
Q ss_pred eEEeCCCCCCCCcccCcCHHHHHHHHHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 004802 313 LNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILSQPEESLTDELRKFFSNTLDRHGSGQRPDVQDP 385 (729)
Q Consensus 313 L~IeDPfdpsnNlGRSVs~~~~~rIr~aF~~Aa~~L~~il~~p~~~i~~el~~fF~~tl~r~g~g~rpd~~~~ 385 (729)
.....++.+..|+| +-...|...-. |.++|.+++..+.++.+.+..+...||.+++.|.|.+.++|..+|
T Consensus 245 ~~~s~~~~~~~~~~--vll~~f~e~yG-~~f~~~k~~i~~~~~g~~~~~~~~~~~~~~~~~~~~LsieDP~~P 314 (514)
T KOG1906|consen 245 RSKSGRLAVLKNLG--VLLIKFFELYG-RNFGYDKLGISLSLGGEYVSKELTGFFNNSLERPGSLSIEDPVDP 314 (514)
T ss_pred cccCCccchhcccc--hHHHHHHHHhc-cccCchhhceeccCCcccccHHhhhhhcccccCCCccccCCCCCc
Confidence 34445666666776 32222333332 567788999999999999999999999999999999999998555
No 57
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=25.70 E-value=1.6e+02 Score=32.64 Aligned_cols=43 Identities=23% Similarity=0.115 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHh-hcCCCceEeeccccCCCCCCCCceEEEecCCC
Q 004802 65 AVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (729)
Q Consensus 65 ~Vv~~Lq~iI~~-~p~a~V~~FGS~~tGL~LP~SDIDLvV~~~~~ 108 (729)
.+.+.|...++. .+.++|.+-||+.-|.-+ .+||||+|..+..
T Consensus 149 ~i~~~i~~~l~~~~~~~~v~i~GSyRRgket-~gDIDili~~~~~ 192 (334)
T smart00483 149 AVEYIVKRAVRKILPDAIVTLTGSFRRGKET-GHDVDFLITSPHP 192 (334)
T ss_pred HHHHHHHHHHHhhCCCcEEEEecccccCCCc-CCCeeEEEecCCc
Confidence 334445555554 478999999999988765 6899999987663
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=21.21 E-value=1.7e+02 Score=30.73 Aligned_cols=38 Identities=11% Similarity=0.101 Sum_probs=28.7
Q ss_pred CceEeeccccCCCCCCCCceEEEecCCCcchHHHHHHH
Q 004802 81 EVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVC 118 (729)
Q Consensus 81 ~V~~FGS~~tGL~LP~SDIDLvV~~~~~~~~~l~~~V~ 118 (729)
-|+.-||..+=--.+.||+||=|+....+.+.-.+.+.
T Consensus 99 GlY~MGS~gSi~Qs~~SDlDiWvCh~~~L~~~~~~~Lq 136 (204)
T PF12633_consen 99 GLYSMGSTGSIGQSSSSDLDIWVCHDSDLSPEERQLLQ 136 (204)
T ss_pred EEEecCCCccccCCCCCCCeEEEEcCCCCCHHHHHHHH
Confidence 58888999988899999999999887665443333333
Done!