Query 002779
Match_columns 882
No_of_seqs 285 out of 1276
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 06:57:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002779.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002779hhsearch_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 5.2E-41 1.1E-45 381.4 31.8 293 41-376 62-385 (514)
2 COG5260 TRF4 DNA polymerase si 100.0 4.2E-39 9.1E-44 358.9 24.6 275 33-354 48-346 (482)
3 PTZ00418 Poly(A) polymerase; P 100.0 1.3E-27 2.8E-32 275.3 28.0 263 53-353 83-391 (593)
4 KOG2245 Poly(A) polymerase and 99.9 4E-23 8.7E-28 230.8 27.3 259 53-354 46-349 (562)
5 KOG2277 S-M checkpoint control 99.9 6.4E-23 1.4E-27 239.8 20.9 263 42-352 114-432 (596)
6 cd05402 NT_PAP_TUTase Nucleoti 99.8 1.2E-19 2.5E-24 169.5 11.6 107 62-175 1-113 (114)
7 COG5186 PAP1 Poly(A) polymeras 99.8 5.2E-18 1.1E-22 183.8 24.0 273 39-354 22-341 (552)
8 PRK13300 tRNA CCA-pyrophosphor 99.8 5.2E-17 1.1E-21 184.4 26.0 234 45-348 2-254 (447)
9 TIGR03671 cca_archaeal CCA-add 99.8 4.4E-17 9.5E-22 182.7 24.6 228 46-340 2-247 (408)
10 COG1746 CCA1 tRNA nucleotidylt 99.7 5.7E-16 1.2E-20 172.2 24.5 235 41-348 2-256 (443)
11 PF04928 PAP_central: Poly(A) 99.7 1.7E-17 3.7E-22 176.8 9.0 214 42-353 22-242 (254)
12 PF03828 PAP_assoc: Cid1 famil 98.5 2.9E-08 6.3E-13 83.3 0.9 24 235-258 4-28 (60)
13 PF09249 tRNA_NucTransf2: tRNA 98.3 1.5E-06 3.1E-11 82.7 6.2 98 189-348 3-103 (114)
14 PF10421 OAS1_C: 2'-5'-oligoad 97.9 3.9E-05 8.5E-10 79.2 8.9 63 164-227 22-86 (190)
15 smart00572 DZF domain in DSRM 97.7 0.0016 3.5E-08 69.9 17.5 200 81-349 4-230 (246)
16 PF01909 NTP_transf_2: Nucleot 97.6 4.7E-05 1E-09 68.1 3.1 44 67-110 1-45 (93)
17 cd05400 NT_2-5OAS_ClassI-CCAas 97.5 0.0005 1.1E-08 66.8 9.7 91 60-159 6-107 (143)
18 cd05397 NT_Pol-beta-like Nucle 97.5 0.00014 3E-09 59.5 4.8 40 65-104 2-42 (49)
19 cd05403 NT_KNTase_like Nucleot 97.2 0.0011 2.3E-08 58.7 7.5 44 66-109 3-48 (93)
20 PF03813 Nrap: Nrap protein; 96.8 0.012 2.6E-07 74.4 13.7 136 174-350 155-299 (972)
21 COG1669 Predicted nucleotidylt 96.3 0.018 4E-07 54.0 8.2 46 63-108 7-53 (97)
22 PRK13746 aminoglycoside resist 95.8 0.027 5.7E-07 61.5 7.9 54 68-121 14-70 (262)
23 PF07528 DZF: DZF domain; Int 95.4 0.46 1E-05 51.6 15.7 201 85-349 2-232 (248)
24 COG1708 Predicted nucleotidylt 95.3 0.025 5.4E-07 52.8 5.0 27 79-105 26-52 (128)
25 KOG2054 Nucleolar RNA-associat 94.3 0.26 5.7E-06 61.6 11.2 128 180-350 305-435 (1121)
26 KOG3793 Transcription factor N 92.5 4.5 9.8E-05 44.5 15.5 196 41-249 40-269 (362)
27 PF03813 Nrap: Nrap protein; 92.2 2.3 5E-05 54.5 15.4 145 175-349 675-824 (972)
28 PF14091 DUF4269: Domain of un 90.3 4.2 9.2E-05 41.4 12.0 105 79-193 15-125 (152)
29 PRK02098 phosphoribosyl-dephos 90.2 0.79 1.7E-05 49.1 7.2 40 67-107 109-154 (221)
30 TIGR03135 malonate_mdcG holo-A 89.4 0.9 2E-05 48.0 6.8 41 67-108 97-143 (202)
31 PF14792 DNA_pol_B_palm: DNA p 81.1 3.2 6.9E-05 39.8 5.6 57 66-123 10-72 (112)
32 cd05401 NT_GlnE_GlnD_like Nucl 71.8 28 0.00061 35.1 9.7 30 79-108 55-84 (172)
33 KOG2054 Nucleolar RNA-associat 68.3 46 0.001 42.8 12.1 73 176-253 812-886 (1121)
34 PF10620 MdcG: Phosphoribosyl- 65.6 14 0.0003 39.5 6.2 43 65-108 103-151 (213)
35 PRK00227 glnD PII uridylyl-tra 63.8 16 0.00036 45.3 7.3 47 61-107 6-55 (693)
36 PRK01293 phosphoribosyl-dephos 63.6 15 0.00033 39.2 6.0 42 67-109 98-145 (207)
37 PF03445 DUF294: Putative nucl 61.5 35 0.00076 33.8 7.8 29 79-107 49-77 (138)
38 PRK05007 PII uridylyl-transfer 60.4 39 0.00085 43.3 9.9 33 79-111 80-112 (884)
39 COG2413 Predicted nucleotidylt 55.7 24 0.00052 37.7 5.7 43 62-106 22-64 (228)
40 PF10127 Nuc-transf: Predicted 52.9 7.3 0.00016 41.8 1.6 44 62-106 1-47 (247)
41 PRK03059 PII uridylyl-transfer 52.4 55 0.0012 41.8 9.3 49 59-107 37-89 (856)
42 KOG2534 DNA polymerase IV (fam 49.6 53 0.0012 37.4 7.5 57 66-123 157-216 (353)
43 COG2844 GlnD UTP:GlnB (protein 49.2 71 0.0015 40.5 9.1 41 79-119 66-106 (867)
44 PRK04374 PII uridylyl-transfer 47.0 74 0.0016 40.8 9.2 49 60-108 48-101 (869)
45 PRK00275 glnD PII uridylyl-tra 45.2 90 0.002 40.2 9.6 50 59-108 52-107 (895)
46 TIGR01693 UTase_glnD [Protein- 39.0 1.1E+02 0.0024 39.0 9.0 30 79-108 43-72 (850)
47 PRK01759 glnD PII uridylyl-tra 38.6 1.1E+02 0.0024 39.2 8.9 49 60-108 31-85 (854)
48 cd05398 NT_ClassII-CCAase Nucl 36.1 1.3E+02 0.0028 29.9 7.2 70 78-162 15-86 (139)
49 COG1665 Predicted nucleotidylt 34.5 49 0.0011 37.0 4.3 30 77-106 119-148 (315)
50 cd00141 NT_POLXc Nucleotidyltr 32.9 87 0.0019 35.2 6.1 54 68-122 148-202 (307)
51 PHA02603 nrdC.11 hypothetical 28.5 27 0.0006 39.8 1.2 24 82-105 6-29 (330)
52 PF09970 DUF2204: Nucleotidyl 27.3 2.5E+02 0.0055 29.2 8.0 80 78-168 15-99 (181)
53 smart00483 POLXc DNA polymeras 25.6 2.6E+02 0.0056 31.8 8.3 43 65-108 149-192 (334)
54 PF03296 Pox_polyA_pol: Poxvir 22.4 1.1E+02 0.0024 31.1 3.9 46 59-104 24-78 (149)
55 COG3541 Predicted nucleotidylt 22.3 42 0.0009 36.9 1.1 20 86-105 17-36 (248)
56 KOG1906 DNA polymerase sigma [ 21.1 49 0.0011 39.9 1.5 70 313-385 245-314 (514)
57 PHA02996 poly(A) polymerase la 20.4 1.4E+02 0.0031 35.0 4.9 68 37-105 117-196 (467)
No 1
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=100.00 E-value=5.2e-41 Score=381.37 Aligned_cols=293 Identities=31% Similarity=0.512 Sum_probs=234.2
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEEcC-CCCchHHHHHHH
Q 002779 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGG-LNVEEALANDVC 118 (882)
Q Consensus 41 ~le~~i~efv~~L~PT~eE~~~R~~Vv~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~-~~~~~~ll~~L~ 118 (882)
.++++|..|+++|.||.+|.+.|..++++|+++|+. |+.|.|++|||+.||||||+|||||+|+.. ....+....++.
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 367899999999999999999999999999999997 999999999999999999999999999998 444555555555
Q ss_pred HHHHHHhhccccccceeEEEEE-eeeeeEEEEee--CCeEEEEeeccCCccchHHHHHHHHHHhCCCchhHHHHHHHHHH
Q 002779 119 SVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLV--QNIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRSIILIKAW 195 (882)
Q Consensus 119 ~~L~~~~~n~~~ef~Vk~V~vI-~ARVPIIKf~~--sGI~VDISfnn~~Gi~ns~fLe~v~~~i~~dp~fr~LvlLIK~W 195 (882)
.++..+. .... ..|.+| +||||||||++ ++|.||||||+.+|++++.|++ .++...|.+++|++++|+|
T Consensus 142 l~~~~e~--~~~~---~~v~~v~karvpiik~~d~~s~i~vDISFn~~~G~~aa~~i~---~~~~~~p~~~~lvlvlk~f 213 (514)
T KOG1906|consen 142 LALELEE--DNSA---FHVKVVQKARVPIIKFKDPVSNIHVDISFNQTNGVKAAKFIK---DFLRDHPFLRSLVLVLKQF 213 (514)
T ss_pred HHHhhhh--cccc---ceEEEeeeeeeeeEEeecCccceEEEeeecccCchhHHHHHH---HHHhcCccchhHHHHHHHH
Confidence 5554322 1223 345567 99999999998 6999999999999999999874 4467789999999999999
Q ss_pred HHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCCCh------HH-HHHHHHHhhc-cccCCcceEEccCCcccCCCCc
Q 002779 196 CYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGP------LA-VLYKFLDYFS-KFDWDSYCISLNGPVRISSLPE 267 (882)
Q Consensus 196 ak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~~p------Le-LL~~FFeyYs-~FDw~~~~ISI~gPv~lsslp~ 267 (882)
+. +++++++++|||+||||++||++|||+++....++ ++ +|++||++|+ +|+|++.+|++..+
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 LY-ERRLNGVHTGGISSYALELLVLSFLQLHPRSKSGRLAVLKNLGVLLIKFFELYGRNFGYDKLGISLSLG-------- 284 (514)
T ss_pred HH-hhcccccccccchHHHHHHHHHHHHhhcccccCCccchhcccchHHHHHHHHhccccCchhhceeccCC--------
Confidence 97 79999999999999999999999999986554443 44 6799999997 99999999987522
Q ss_pred cccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCCcccccCHHHHHHHHHHHHHHHHH
Q 002779 268 VVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARK 347 (882)
Q Consensus 268 l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snNlGRSVs~~n~~rIr~aF~~A~~~ 347 (882)
+.+ +.++..++.+ + ....+..|+||||.++.||+||+.+ ++..|+.+|.+|+..
T Consensus 285 ----------g~~-~~~~~~~~~~------------~-~~~~~~~LsieDP~~P~ndigr~s~--~~~~v~~~F~~af~~ 338 (514)
T KOG1906|consen 285 ----------GEY-VSKELTGFFN------------N-SLERPGSLSIEDPVDPTNDIGRSSF--NFSQVKGAFAYAFKV 338 (514)
T ss_pred ----------ccc-ccHHhhhhhc------------c-cccCCCccccCCCCCcccccccccc--cHHHHHHHHHHHHHH
Confidence 122 2233222211 1 0123457999999999999999986 799999999999999
Q ss_pred HHHhhcCCC---------c-------hhH--HHHHHHHHHHHhhcCC
Q 002779 348 LGHILSQPE---------E-------SLT--DELRKFFSNTLDRHGS 376 (882)
Q Consensus 348 L~~iL~~p~---------~-------~i~--~el~~fF~~tl~r~g~ 376 (882)
|......-. . .+. .++.+|+.++...|..
T Consensus 339 l~~~~~~~~s~~~~~~~~~s~lg~~i~~~~~~~~r~~~~~~~~~~~~ 385 (514)
T KOG1906|consen 339 LTNAVFSHGSSSLPEQANKSILGNIIEVSRKDEVRDYRTERDQGFNG 385 (514)
T ss_pred HhhhhcccchhcccccccccccCCeeeccchhhhhhhhhhhhhcccc
Confidence 998665322 0 223 7788899988877763
No 2
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.2e-39 Score=358.93 Aligned_cols=275 Identities=23% Similarity=0.387 Sum_probs=221.1
Q ss_pred CCChhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEEcCCCCc-
Q 002779 33 AIGAEYWQRAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE- 110 (882)
Q Consensus 33 ~I~~~~w~~le~~i~efv~~L~PT~eE~~~R~~Vv~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~- 110 (882)
++..+.-+.+..++.+|+.+|.|+.+|.++|..++++|++++++ ||++.+.+|||+.+||++|.|||||||..+....
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 34455566788899999999999999999999999999999998 9999999999999999999999999999865322
Q ss_pred hHHH-HHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEee--CCeEEEEeeccCCccchHHHHHHHHHHhCCCchhH
Q 002779 111 EALA-NDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLV--QNIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFK 186 (882)
Q Consensus 111 ~~ll-~~L~~~L~~~~~n~~~ef~Vk~V~vI-~ARVPIIKf~~--sGI~VDISfnn~~Gi~ns~fLe~v~~~i~~dp~fr 186 (882)
++.. -.+...|.+. . ....++++ +|||||||+++ .++.|||+||+..|+.|+.++ ..++..+|++|
T Consensus 128 et~~~~~l~~~l~~~-----~--~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~akl~---~~~~~~~P~lr 197 (482)
T COG5260 128 ETRNAGSLASHLFKK-----N--LAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLI---RSYLKEDPRLR 197 (482)
T ss_pred ccccHHHHHHHHHHh-----c--cCeeeEEEEecccceEEEecCccceEEEeecCchhHHHHHHHH---HHHHhcCcccc
Confidence 2211 1233333321 1 12456677 99999999998 499999999999999999886 44567899999
Q ss_pred HHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCC------C---------ChHH-HHHHHHHhhc-cccC
Q 002779 187 RSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSL------N---------GPLA-VLYKFLDYFS-KFDW 249 (882)
Q Consensus 187 ~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l------~---------~pLe-LL~~FFeyYs-~FDw 249 (882)
+|+++||+|++ +++++++++|||+||++++||+.|||++++.+ . .+|+ +|.+||+||+ .|+|
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 99999999999 68999999999999999999999999986421 1 3456 5699999995 8999
Q ss_pred CcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCC-CCCCCcccc
Q 002779 250 DSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPL-KENNNLGRS 328 (882)
Q Consensus 250 ~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPf-d~snNlGRS 328 (882)
+..++++++ | ..++.+. .+||-...+ +..||||||+ ++++++++.
T Consensus 277 ~~~~~si~~------------------g-~~~~~K~------------e~g~~~~~~---p~~LsiqdP~td~n~~~~a~ 322 (482)
T COG5260 277 SLVVLSINS------------------G-DFYLPKY------------EKGWLKPSK---PNSLSIQDPGTDRNNDISAV 322 (482)
T ss_pred hheEEEecC------------------C-ceeeehh------------hcccccccC---CCcEeecCCCCCcccccccc
Confidence 999999973 2 2233221 135533222 2579999999 999999988
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHhhcC
Q 002779 329 VSKGNFYRIRSAFTYGARKLGHILSQ 354 (882)
Q Consensus 329 Vs~~n~~rIr~aF~~A~~~L~~iL~~ 354 (882)
.. ++..|+.+|..|.+.|...+..
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 76 7999999999999999887743
No 3
>PTZ00418 Poly(A) polymerase; Provisional
Probab=99.96 E-value=1.3e-27 Score=275.29 Aligned_cols=263 Identities=19% Similarity=0.331 Sum_probs=203.1
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceEEeeeecCCCCCCCceEEEEEcCCCC-chHHH
Q 002779 53 VQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV-EEALA 114 (882)
Q Consensus 53 L~PT~eE~~~R~~Vv~~Lq~lI~~~p-----------------~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~-~~~ll 114 (882)
+-|++||.++|++|++.|++++++|. +++|++||||.+|++.|+||||++++++..+ .++|+
T Consensus 83 ~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I~tfGSYrLGV~~pgSDID~L~V~P~~vtredFF 162 (593)
T PTZ00418 83 LYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRESFF 162 (593)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEEEEeccccccCCCCCCcccEEEECCCCCCHHHHH
Confidence 78999999999999999999998751 4789999999999999999999999999764 35688
Q ss_pred HHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCeEEEEeeccCCc--c-------ch----------------
Q 002779 115 NDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLGG--L-------ST---------------- 168 (882)
Q Consensus 115 ~~L~~~L~~~~~n~~~ef~Vk~V~vI-~ARVPIIKf~~sGI~VDISfnn~~G--i-------~n---------------- 168 (882)
..+.++|++ ...|++++.| .|+||||||...||+|||.|..... + ..
T Consensus 163 ~~f~~~L~~-------~~~V~eL~~V~~A~VPiIk~~~~GI~iDL~fa~l~~~~vp~~~~~l~d~~lL~nlde~s~rSLN 235 (593)
T PTZ00418 163 SDFYAKLQQ-------DPNITKLQPVPDAYTPVIKFVYDGIDIDLLFANLPLPTIPDCLNSLDDDYILRNVDEKTVRSLN 235 (593)
T ss_pred HHHHHHHhc-------CCCcceeeccCccccCeEEEEECCEEEeeeecccCCCCCCccccccCchhhhhcCCHHHhhhhc
Confidence 888888874 2245777777 9999999999999999999973211 0 00
Q ss_pred -HHHHHHHHHHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhccc
Q 002779 169 -LCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKF 247 (882)
Q Consensus 169 -s~fLe~v~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLeLL~~FFeyYs~F 247 (882)
.+-.++|.+++.....||.++++||.||| +|+|+....|+|++-+|.+||..++|+++.. .+-.+|..||.+|+.|
T Consensus 236 G~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAk-rRGIYsNv~GflGGV~wAILvARVCQLyPna--~~s~Lv~~FF~iys~W 312 (593)
T PTZ00418 236 GCRVADLILASVPNKDYFRTTLRFIKLWAK-RRGIYSNVLGYLGGVSWAILTARICQLYPNF--APSQLIHKFFRVYSIW 312 (593)
T ss_pred cHHHHHHHHHHCCChHHHHHHHHHHHHHHH-HhccccccccccchHHHHHHHHHHHHhCCCC--CHHHHHHHHHHHhhcC
Confidence 01122345556667889999999999999 6888899999999999999999999998753 5667899999999999
Q ss_pred cCCcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCC-CCCCCcceEEcCCCCCCCCcc
Q 002779 248 DWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNS-RSFPPKHLNIVDPLKENNNLG 326 (882)
Q Consensus 248 Dw~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~-~~f~~k~L~IEDPfd~snNlG 326 (882)
+|.+- |.+. .+.+ .+..+| .+. .+-|+.+. ...+...|.|..|..|..|.+
T Consensus 313 ~Wp~P-V~L~------~i~~----~~~~~g---~~~--------------~~VWdPr~~~~dr~h~MPIITPayP~mNst 364 (593)
T PTZ00418 313 NWKNP-VLLC------KIKE----VPNIPG---LMN--------------FKVWDPRVNPQDRAHLMPIITPAFPSMNST 364 (593)
T ss_pred CCCCC-eEcc------cccc----cccCCc---ccC--------------CcccCCCCCcccccccCCeecCCCCCcccc
Confidence 99873 2222 1111 011111 000 01233221 112245799999999999999
Q ss_pred cccCHHHHHHHHHHHHHHHHHHHHhhc
Q 002779 327 RSVSKGNFYRIRSAFTYGARKLGHILS 353 (882)
Q Consensus 327 RSVs~~n~~rIr~aF~~A~~~L~~iL~ 353 (882)
++|+..++..|+++|++|.+.+..+..
T Consensus 365 ~nVt~sT~~vI~~Ef~Ra~~i~~~i~~ 391 (593)
T PTZ00418 365 HNVTYTTKRVITEEFKRAHEIIKYIEK 391 (593)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999997664
No 4
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=99.92 E-value=4e-23 Score=230.82 Aligned_cols=259 Identities=22% Similarity=0.373 Sum_probs=200.4
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceEEeeeecCCCCCCCceEEEEEcCCCC-chHHH
Q 002779 53 VQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV-EEALA 114 (882)
Q Consensus 53 L~PT~eE~~~R~~Vv~~Lq~lI~~~p-----------------~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~-~~~ll 114 (882)
+-+++||...|.+|+..|++++++|. +++|++||||..|.+.|++|||-.+++|..+ .++|+
T Consensus 46 ~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggkIftfGSYRLGVhg~GADIDtLcV~Prhv~R~DFF 125 (562)
T KOG2245|consen 46 LFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGKIFTFGSYRLGVHGPGADIDTLCVGPRHVSRSDFF 125 (562)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCceEEeccceeecccCCCCCcceeeeccccccHHHHH
Confidence 67899999999999999999998862 5799999999999999999999777777654 45788
Q ss_pred HHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCeEEEEeeccCC--------ccchHHHHHH-----------
Q 002779 115 NDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG--------GLSTLCFLEQ----------- 174 (882)
Q Consensus 115 ~~L~~~L~~~~~n~~~ef~Vk~V~vI-~ARVPIIKf~~sGI~VDISfnn~~--------Gi~ns~fLe~----------- 174 (882)
..+..+|+. ...|+++..+ .|-||||||..+||.+||-|.... -+..-.+|+.
T Consensus 126 ~sf~~mL~~-------~~eVteL~~V~dAfVPiikfKf~GI~IDllfArL~l~~VP~dldl~ddslLknlDe~~vrSLNG 198 (562)
T KOG2245|consen 126 TSFYDMLKE-------RPEVTELHAVEDAFVPIIKFKFDGIEIDLLFARLALPVVPEDLDLSDDSLLKNLDERCVRSLNG 198 (562)
T ss_pred HHHHHHHhc-------CccccccccccccccceEEEEecCeeeeeeehhcccccCCCcccccchHhhhcccHHHHHHhcC
Confidence 999999974 1235777767 999999999999999999886532 1122222322
Q ss_pred ------HHHHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhcccc
Q 002779 175 ------VDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFD 248 (882)
Q Consensus 175 ------v~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLeLL~~FFeyYs~FD 248 (882)
|=+++.....|+-.++.||.||| +++++....|.|++-++.|||...+|.++.. .|-.|+.+||..|++|+
T Consensus 199 cRVtdqiL~LVPn~~~F~~tLRaiKlWAK-rrgVYsN~~GF~GGV~wA~LVARiCQLYPNA--~~s~Lv~kfF~ifs~W~ 275 (562)
T KOG2245|consen 199 CRVTDQILKLVPNQENFRITLRAIKLWAK-RRGVYSNVMGFLGGVAWAMLVARICQLYPNA--SPSTLVAKFFRVFSQWN 275 (562)
T ss_pred cCHHHHHHHhCCCHHHHHHHHHHHHHHHH-hcccccccccccchHHHHHHHHHHHccCCCc--chHHHHHHHHHHHhhcc
Confidence 12233445678889999999999 6888999999999999999999999998754 35568899999999999
Q ss_pred CCcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCC-CCcceEEcCCCCCCCCccc
Q 002779 249 WDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSF-PPKHLNIVDPLKENNNLGR 327 (882)
Q Consensus 249 w~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f-~~k~L~IEDPfd~snNlGR 327 (882)
|-+-++= ..+ + .+. +- ..-|+.+..+- +...|.|+.|.-|..|...
T Consensus 276 WP~PVlL-------~~i--------e-~~~-L~----------------~~VWdPr~n~~DryHlMPIITPAyP~~nsth 322 (562)
T KOG2245|consen 276 WPNPVLL-------KPI--------E-EGN-LN----------------LPVWDPRVNPSDRYHLMPIITPAYPQMNSTH 322 (562)
T ss_pred CCCceEe-------ccc--------c-ccc-cC----------------ccccCCCCCCCCcceecccccCCcccccccc
Confidence 9874441 111 0 110 00 01233322111 2347999999999999999
Q ss_pred ccCHHHHHHHHHHHHHHHHHHHHhhcC
Q 002779 328 SVSKGNFYRIRSAFTYGARKLGHILSQ 354 (882)
Q Consensus 328 SVs~~n~~rIr~aF~~A~~~L~~iL~~ 354 (882)
+|+..++..|..+|.+|...+.+++..
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=99.90 E-value=6.4e-23 Score=239.84 Aligned_cols=263 Identities=20% Similarity=0.310 Sum_probs=205.1
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-hcCCC--ceEEeeeecCCCCCCCceEEEEEcCCC-Cc-h-----
Q 002779 42 AEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-YLGCE--VFPFGSVPLKTYLPDGDIDLTAFGGLN-VE-E----- 111 (882)
Q Consensus 42 le~~i~efv~~L~PT~eE~~~R~~Vv~~Lq~lI~~-~p~a~--V~~FGS~~tGL~LP~SDIDL~V~~~~~-~~-~----- 111 (882)
++..+.++++...+...+...|..+...++.++.. .|... +..|||..+++....+|+|+++..... .. .
T Consensus 114 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~~~~ 193 (596)
T KOG2277|consen 114 LDPQLNELLESFKLPHSDVKTRKLILDKLRALASLLFPDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKIKGL 193 (596)
T ss_pred hchhhhhhhhccCCCccccchHHHHHHHHHHHHHHhcCCCcceeeccCcccccccccccCcceeecccccccccchhhhH
Confidence 67788888888999999999999888888888876 56444 459999999999999999988776543 21 1
Q ss_pred HHHHHHHHHHHHHhhccccccceeEEE-EEeeeeeEEEEee--CCeEEEEeeccCCccchHHHHHHHHHHhCCCchhHHH
Q 002779 112 ALANDVCSVLEREDQNKAAEFVVKDAQ-LIRAEVKLVKCLV--QNIVVDISFNQLGGLSTLCFLEQVDRLIGKDHLFKRS 188 (882)
Q Consensus 112 ~ll~~L~~~L~~~~~n~~~ef~Vk~V~-vI~ARVPIIKf~~--sGI~VDISfnn~~Gi~ns~fLe~v~~~i~~dp~fr~L 188 (882)
.....+.+++.. ...+. +..++ +..|||||||+.+ .++.|||+++|..++.|+.|++.+ ...|+++++|
T Consensus 194 ~~~~l~~~~~~~----~~~~~-~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~~~~nS~ll~~~---~~~d~r~~~L 265 (596)
T KOG2277|consen 194 EILKLLAKCLAS----LLEEG-VREVQQILSARVPIIKFNDSGSGLECDLSVNNSDAILNSQLLRNY---SEIDPRVRPL 265 (596)
T ss_pred HHHHHHHHHHHh----ccccc-cceeeeeeecCCCEEEecCCCCCCceeeeeccchhhhhhHHHHHh---HhcCCCcchH
Confidence 122334444432 11111 34444 4599999999977 489999999999999999998665 4568899999
Q ss_pred HHHHHHHHHHhhCccCccCCCCC-hHHHHHHHHHHHHhcCCCC-------------------------------------
Q 002779 189 IILIKAWCYYESRILGAHHGLIS-TYALETLVLYIFHLFHSSL------------------------------------- 230 (882)
Q Consensus 189 vlLIK~Wak~e~rIlda~~GgLS-SYAL~LMVI~fLQ~~~~~l------------------------------------- 230 (882)
+++||+|++ ++.++++..|+++ +|+|++|||+|||+..+.+
T Consensus 266 ~~~vk~wa~-~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (596)
T KOG2277|consen 266 VLLVKHWAK-EKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDKPVVKKKVLCSFLRVFQRNPSN 344 (596)
T ss_pred hHHHHHHHH-hccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcccccccchhhhhhhcccccccccccc
Confidence 999999998 6889999999999 5999999999999985432
Q ss_pred ---CChH-HHHHHHHHhhc-cccCCcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCC
Q 002779 231 ---NGPL-AVLYKFLDYFS-KFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNS 305 (882)
Q Consensus 231 ---~~pL-eLL~~FFeyYs-~FDw~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~ 305 (882)
.++| .++++||.||+ .|||.+.+|+++.... +..+ +
T Consensus 345 ~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~--------------------l~~~-------------------~ 385 (596)
T KOG2277|consen 345 SQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRA--------------------LKRA-------------------K 385 (596)
T ss_pred ccccchHHHHHHHHHHHHhhhcccccceeeeeeccc--------------------cccc-------------------c
Confidence 0123 36689999998 8999999999984311 0000 0
Q ss_pred CCCCCcceEEcCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHhh
Q 002779 306 RSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHIL 352 (882)
Q Consensus 306 ~~f~~k~L~IEDPfd~snNlGRSVs~~n~~rIr~aF~~A~~~L~~iL 352 (882)
..+..+.++|+||++..+|++..+....+..|+.+|+.+++.|....
T Consensus 386 ~~~~~~~l~i~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 432 (596)
T KOG2277|consen 386 KIKSKKFLCIEDPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDVN 432 (596)
T ss_pred hhhhccceeeccccccccCccccchHHHHHHHHHHHHHHHHHhhhhc
Confidence 12235689999999999999999999999999999999999887763
No 6
>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=99.81 E-value=1.2e-19 Score=169.46 Aligned_cols=107 Identities=34% Similarity=0.570 Sum_probs=91.3
Q ss_pred HHHHHHHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEEcCCC--CchHHHHHHHHHHHHHhhccccccceeEEE
Q 002779 62 RRKAVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLN--VEEALANDVCSVLEREDQNKAAEFVVKDAQ 138 (882)
Q Consensus 62 ~R~~Vv~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~--~~~~ll~~L~~~L~~~~~n~~~ef~Vk~V~ 138 (882)
+|++++++|+++|++ +++++|++|||+++|+++|+|||||+|..+.. ....++..+.+.|++. .. +.++.
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 488999999999999 68999999999999999999999999999874 3445778888888752 11 24566
Q ss_pred EE-eeeeeEEEEeeC--CeEEEEeeccCCccchHHHHHHH
Q 002779 139 LI-RAEVKLVKCLVQ--NIVVDISFNQLGGLSTLCFLEQV 175 (882)
Q Consensus 139 vI-~ARVPIIKf~~s--GI~VDISfnn~~Gi~ns~fLe~v 175 (882)
.| +||||||||.+. |+.|||||+|..|+.|+++++++
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 999999999997 99999999999999999987543
No 7
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=99.80 E-value=5.2e-18 Score=183.81 Aligned_cols=273 Identities=20% Similarity=0.323 Sum_probs=193.4
Q ss_pred HHHHHH-HHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhhc-----------------CCCceEEeeeecCCCCCCCce
Q 002779 39 WQRAEE-ATQGIIA-QVQPTVVSEERRKAVIDYVQRLIRNYL-----------------GCEVFPFGSVPLKTYLPDGDI 99 (882)
Q Consensus 39 w~~le~-~i~efv~-~L~PT~eE~~~R~~Vv~~Lq~lI~~~p-----------------~a~V~~FGS~~tGL~LP~SDI 99 (882)
-.+|.. .|+++-+ -..-++.|-+.|.+|+..|+.+++++. |.+|+.||||..|.+-|+|||
T Consensus 22 En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGKIFTyGSYRLGVhgpGsDI 101 (552)
T COG5186 22 ENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGKIFTYGSYRLGVHGPGSDI 101 (552)
T ss_pred HhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCceeeeecceeeeccCCCCCc
Confidence 344443 3344332 356788899999999999999998741 468999999999999999999
Q ss_pred EEEEEcCCCC-chHHHHHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCeEEEEeeccCC------cc--chH
Q 002779 100 DLTAFGGLNV-EEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVDISFNQLG------GL--STL 169 (882)
Q Consensus 100 DL~V~~~~~~-~~~ll~~L~~~L~~~~~n~~~ef~Vk~V~vI-~ARVPIIKf~~sGI~VDISfnn~~------Gi--~ns 169 (882)
|-.++.+..+ .++++..+...|+. ...+.+|..+ .|-|||||+..+||.+|+-|.... |+ ..-
T Consensus 102 DtLvvVPkHVsR~dFFt~f~~~Lre-------r~ei~eva~vpDAfVPIIK~KF~GIsIDLifARLs~P~Vp~~l~Lsd~ 174 (552)
T COG5186 102 DTLVVVPKHVSRSDFFTHFYEELRE-------RPEIEEVAKVPDAFVPIIKLKFQGISIDLIFARLSIPVVPDGLNLSDD 174 (552)
T ss_pred ceEEEecccccHHHHHHHHHHHhcc-------CcchhhhccCCcccceeEEEEecCccceeeeeeccCCcCCCcccccch
Confidence 9777776654 46788888888863 1123555556 999999999999999999886432 21 122
Q ss_pred HHHHHHH-----------------HHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCCC
Q 002779 170 CFLEQVD-----------------RLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNG 232 (882)
Q Consensus 170 ~fLe~v~-----------------~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~~ 232 (882)
.+|+.++ +++..-..|+-.++.||+||+ ++.++..-.|..++-|+.|||..++|+++.. .
T Consensus 175 nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAq-RRavYaN~~GfpGGVAwam~VARiCQLYPNA--~ 251 (552)
T COG5186 175 NLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQ-RRAVYANPYGFPGGVAWAMCVARICQLYPNA--S 251 (552)
T ss_pred hhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHH-hhhhhccccCCcchHHHHHHHHHHHhhccCc--c
Confidence 2333222 233334567888899999998 5778887889999999999999999998753 2
Q ss_pred hHHHHHHHHHhhccccCCcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCC-CCCCc
Q 002779 233 PLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSR-SFPPK 311 (882)
Q Consensus 233 pLeLL~~FFeyYs~FDw~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~-~f~~k 311 (882)
..-++.+||+.++.|+|-.-+| ++ |+ .+| .+-+ |-|..+-- .-...
T Consensus 252 S~vIv~kFF~ils~WnWPqPvi-Lk-Pi--------------eDg-plqv----------------rvWnPKvYpsDk~H 298 (552)
T COG5186 252 SFVIVCKFFEILSSWNWPQPVI-LK-PI--------------EDG-PLQV----------------RVWNPKVYPSDKYH 298 (552)
T ss_pred hHhHHHHHHHHHHhcCCCCCeE-ee-ec--------------cCC-CeeE----------------EeeCCccCcccccc
Confidence 3346799999999999987554 22 11 111 0111 12322110 11234
Q ss_pred ceEEcCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHhhcC
Q 002779 312 HLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILSQ 354 (882)
Q Consensus 312 ~L~IEDPfd~snNlGRSVs~~n~~rIr~aF~~A~~~L~~iL~~ 354 (882)
.|.|+.|..|+.=...+++..+-..|..+|.+|.+.+.++..-
T Consensus 299 RMPvITPAYPSMCATHNit~STq~vIl~EfvRa~~I~~di~~n 341 (552)
T COG5186 299 RMPVITPAYPSMCATHNITNSTQHVILMEFVRAHKILSDIERN 341 (552)
T ss_pred cCccccCCchhhhhhccccchhhhhHHHHHHHHHHhhhhHhhc
Confidence 7999999999865555565555678999999999999988753
No 8
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.77 E-value=5.2e-17 Score=184.38 Aligned_cols=234 Identities=22% Similarity=0.296 Sum_probs=155.3
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhh----c-CCCceEEeeeecCCCCC-CCceEEEEEcCCCCchHHHHHHH
Q 002779 45 ATQGIIAQVQPTVVSEERRKAVIDYVQRLIRNY----L-GCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVC 118 (882)
Q Consensus 45 ~i~efv~~L~PT~eE~~~R~~Vv~~Lq~lI~~~----p-~a~V~~FGS~~tGL~LP-~SDIDL~V~~~~~~~~~ll~~L~ 118 (882)
.++++++.|+||++|.+.-..+++.|...|++. + .++|+++||++.|++|+ +|||||+|.++.......+.++.
T Consensus 2 v~~evl~~i~Ps~eE~~~l~~~~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~GdsDIDIFv~fp~~~~~e~L~~~g 81 (447)
T PRK13300 2 VLEEVLERIKPTEEEREKLKKVAEELIERLEEAIKELGLDAEVELVGSTARGTWLSGDRDIDIFVLFPKDTSREELEEKG 81 (447)
T ss_pred hHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCCCceeEEEEeCCCCCHHHHHHHH
Confidence 357889999999999988888887777777663 2 49999999999999999 89999999998765443333332
Q ss_pred HHHHHHhhcc-ccccceeEEEEEeeeeeEEEEeeCCeEEEEe--eccCCc--cch----HHH-HHHHHHHhCCCchhHHH
Q 002779 119 SVLEREDQNK-AAEFVVKDAQLIRAEVKLVKCLVQNIVVDIS--FNQLGG--LST----LCF-LEQVDRLIGKDHLFKRS 188 (882)
Q Consensus 119 ~~L~~~~~n~-~~ef~Vk~V~vI~ARVPIIKf~~sGI~VDIS--fnn~~G--i~n----s~f-Le~v~~~i~~dp~fr~L 188 (882)
..|-...... ... ..++ .|..|.|+....|++|||. ++...| +.+ +-| .+++...+ +..++..
T Consensus 82 l~i~~~~~~~~~~~---~~~~--yaeHpyv~~~~~G~~VDiVPcy~v~~~~~~~saVDRtp~H~~fv~~rl--~~~~~d~ 154 (447)
T PRK13300 82 LEIGKEVAKELLGD---YEER--YAEHPYVTGEIDGFEVDIVPCYKVESGEEIISAVDRTPFHTKYVKERL--KGKLEDE 154 (447)
T ss_pred HHHHHHHHHhhCCc---ceee--eccCceEEEEECCEEEEEEeeEEccCcCcccccccCchHHHHHHHHhh--hhhHHHH
Confidence 2221111000 111 1223 5999999999999999995 443333 222 222 23343333 3348889
Q ss_pred HHHHHHHHHHhhCccC--ccCCCCChHHHHHHHHHHHHhcCCCCCChHH-HHHHHHHhhccccCCcceEEccCCcccCCC
Q 002779 189 IILIKAWCYYESRILG--AHHGLISTYALETLVLYIFHLFHSSLNGPLA-VLYKFLDYFSKFDWDSYCISLNGPVRISSL 265 (882)
Q Consensus 189 vlLIK~Wak~e~rIld--a~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLe-LL~~FFeyYs~FDw~~~~ISI~gPv~lssl 265 (882)
|+|+|.|+| ..+++| .+++|||||...|||++| +... +|-.+ ++|.. ...|.+..
T Consensus 155 VRLlK~f~k-~~gvYGsE~k~~GFSGYl~ELLv~~y---------G~F~~~l~~a----~~w~~-~~~I~~~~------- 212 (447)
T PRK13300 155 VRLLKQFLK-GIGVYGSELKTRGFSGYLCELLIIHY---------GSFENVLKAA----SKWKP-PVKIDLEK------- 212 (447)
T ss_pred HHHHHHHHH-hCCccchhhccCCccHHHHHHHHHHh---------CCHHHHHHHH----HhCCC-CceEeccc-------
Confidence 999999999 467774 789999999999999995 2322 23222 22211 12222210
Q ss_pred CccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCCcccccCHHHHHHHHHHHHHHH
Q 002779 266 PEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGA 345 (882)
Q Consensus 266 p~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snNlGRSVs~~n~~rIr~aF~~A~ 345 (882)
.+. ...| ..+|.|.||.|+.||+|++++..++ ..|..|+
T Consensus 213 ----------~~~--------------------------~~~f-~~PlvViDPvDp~RNVAaa~S~~~~----~~fv~aa 251 (447)
T PRK13300 213 ----------HGK--------------------------EYKF-DDPLVVIDPVDPNRNVAAALSLENL----ATFILAA 251 (447)
T ss_pred ----------cCc--------------------------cccC-CCCEEEeCCCCCcchHHHHcCHHHH----HHHHHHH
Confidence 010 0022 5689999999999999999998877 4556666
Q ss_pred HHH
Q 002779 346 RKL 348 (882)
Q Consensus 346 ~~L 348 (882)
+.+
T Consensus 252 r~f 254 (447)
T PRK13300 252 REF 254 (447)
T ss_pred HHH
Confidence 555
No 9
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.77 E-value=4.4e-17 Score=182.73 Aligned_cols=228 Identities=22% Similarity=0.308 Sum_probs=151.2
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhh-----cCCCceEEeeeecCCCCC-CCceEEEEEcCCCCchHHHHHHHH
Q 002779 46 TQGIIAQVQPTVVSEERRKAVIDYVQRLIRNY-----LGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVCS 119 (882)
Q Consensus 46 i~efv~~L~PT~eE~~~R~~Vv~~Lq~lI~~~-----p~a~V~~FGS~~tGL~LP-~SDIDL~V~~~~~~~~~ll~~L~~ 119 (882)
++++++.|.||++|.+..+.+.+.|...|++. ..++|+.|||++.|++|+ +|||||+|.++......-++++..
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 46788999999999998888887777777652 368999999999999999 999999999976554432333222
Q ss_pred HHHHHhhccccccceeEEEEEeeeeeEEEEeeCCeEEEEe--eccCCc--cc-h---HHH-HHHHHHHhCCCchhHHHHH
Q 002779 120 VLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDIS--FNQLGG--LS-T---LCF-LEQVDRLIGKDHLFKRSII 190 (882)
Q Consensus 120 ~L~~~~~n~~~ef~Vk~V~vI~ARVPIIKf~~sGI~VDIS--fnn~~G--i~-n---s~f-Le~v~~~i~~dp~fr~Lvl 190 (882)
.|-...... . .....-.|..|.|+....|++|||. +....| +. + +-| .+++...+ +..++..|+
T Consensus 82 ~i~~~~~~~--~---~~~~~~yaeHpYv~~~~~G~~VDiVPcy~v~~g~~~~taVDRtp~H~~fv~~rl--~~~~~d~VR 154 (408)
T TIGR03671 82 EIGHEVLKR--G---GNYEERYAEHPYVSGEIEGFEVDVVPCYKVESGEEIISAVDRTPFHTRYVLERL--DGKLRDDVR 154 (408)
T ss_pred HHHHHHHhh--C---CCHhheeccCceEEEEEccEEEEEEeeEEccCcCeeeccccCchHHHHHHHHhh--hhhHHHHHH
Confidence 221111000 0 1112248999999999999999995 444433 22 2 222 23343333 334888999
Q ss_pred HHHHHHHHhhCccC--ccCCCCChHHHHHHHHHHHHhcCCCCCChHH-HHHHHHHhhccccCCcceEEccCCcccCCCCc
Q 002779 191 LIKAWCYYESRILG--AHHGLISTYALETLVLYIFHLFHSSLNGPLA-VLYKFLDYFSKFDWDSYCISLNGPVRISSLPE 267 (882)
Q Consensus 191 LIK~Wak~e~rIld--a~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLe-LL~~FFeyYs~FDw~~~~ISI~gPv~lsslp~ 267 (882)
|+|.|+| ..+++| .+++|||||...|||++| +... +|-.+ ++ |.. .+.+.
T Consensus 155 LlK~f~k-~igvYGsE~~~~GFSGYl~ELLv~~y---------G~F~~~l~~a----~~--wk~-~~~id---------- 207 (408)
T TIGR03671 155 LLKQFLK-GIGVYGSELKTRGFSGYLCELLVIHY---------GSFENVLKAA----SK--WKP-GVVID---------- 207 (408)
T ss_pred HHHHHHH-hCCccchhhccCCccHHHHHHHHHHh---------CCHHHHHHHH----Hh--cCC-CeEEe----------
Confidence 9999999 467774 789999999999999995 2322 22222 22 221 12221
Q ss_pred cccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCCcccccCHHHHHHHHHH
Q 002779 268 VVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSA 340 (882)
Q Consensus 268 l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snNlGRSVs~~n~~rIr~a 340 (882)
++..+ ...| ..+|.|.||.|++||||++++..++.+|..+
T Consensus 208 -----~~~~~---------------------------~~~f-~~PlvViDPvDp~RNVAaalS~~~~~~fv~a 247 (408)
T TIGR03671 208 -----IEEHG---------------------------TKKF-DDPLVVIDPVDPKRNVAAALSLENLARFILA 247 (408)
T ss_pred -----cCccc---------------------------cccC-CCCEEEeCCCCCcchHHHHcCHHHHHHHHHH
Confidence 00000 0122 4589999999999999999998888554333
No 10
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.73 E-value=5.7e-16 Score=172.22 Aligned_cols=235 Identities=23% Similarity=0.289 Sum_probs=158.6
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-----hcCCCceEEeeeecCCCCC-CCceEEEEEcCCCCchHHH
Q 002779 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRN-----YLGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALA 114 (882)
Q Consensus 41 ~le~~i~efv~~L~PT~eE~~~R~~Vv~~Lq~lI~~-----~p~a~V~~FGS~~tGL~LP-~SDIDL~V~~~~~~~~~ll 114 (882)
.+++.++++++.+.||++|.++-+.+.+.|...+.+ ..++.|...||++-|+||+ +.||||+|.++......-+
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 467888999999999999999888877777666654 3589999999999999999 8999999999987544333
Q ss_pred HHHH-HHHHHHhhccccccceeEEEEEeeeeeEEEEeeCCeEEEEee--ccCCc------cchHHHH-HHHHHHhCCCch
Q 002779 115 NDVC-SVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIVVDISF--NQLGG------LSTLCFL-EQVDRLIGKDHL 184 (882)
Q Consensus 115 ~~L~-~~L~~~~~n~~~ef~Vk~V~vI~ARVPIIKf~~sGI~VDISf--nn~~G------i~ns~fL-e~v~~~i~~dp~ 184 (882)
.+.- .+.+..... ..+ ..-.|..|.|.....|++|||.- +...| +--|-|. +++...+ +.+
T Consensus 82 ~~~GL~ig~~~l~~--~~~-----~~~YAeHPYV~g~v~G~eVDvVPCy~v~~~~~~~sAVDRTplHt~yv~e~L--~~~ 152 (443)
T COG1746 82 EEKGLEIGREVLKR--GNY-----EERYAEHPYVTGEVDGYEVDVVPCYKVEDGEKIISAVDRTPLHTRYVEEHL--KGR 152 (443)
T ss_pred HHHHHHHHHHHhcC--Cch-----hhhhccCCeeEEEEccEEEEEEecccccCcccccccccCcchhHHHHHHHh--ccc
Confidence 2222 111111100 111 11289999999999999999953 33332 2222222 2333222 234
Q ss_pred hHHHHHHHHHHHHHhhCccC--ccCCCCChHHHHHHHHHHHHhcCCCCCChHH-HHHHHHHhhccccCCcc-eEEccCCc
Q 002779 185 FKRSIILIKAWCYYESRILG--AHHGLISTYALETLVLYIFHLFHSSLNGPLA-VLYKFLDYFSKFDWDSY-CISLNGPV 260 (882)
Q Consensus 185 fr~LvlLIK~Wak~e~rIld--a~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLe-LL~~FFeyYs~FDw~~~-~ISI~gPv 260 (882)
.+.-++|+|+|+| --+++| .+++|||+|...||||+| +..+ +|-. .+. |... .|.+.+
T Consensus 153 ~~deVrLLK~FlK-~iGvYGaE~rt~GFSGYL~ELLII~y---------GsFe~vl~~----a~~--wrp~~~ID~~~-- 214 (443)
T COG1746 153 QKDEVRLLKQFLK-GIGVYGAELRTQGFSGYLCELLIIHY---------GSFENVLKA----ASR--WRPGKIIDLEG-- 214 (443)
T ss_pred chhHHHHHHHHHh-ccCccceeeeeccchHHHHHHHHhhh---------ccHHHHHHH----Hhc--cCCCeEEeccc--
Confidence 4456999999999 356665 788999999999999996 3322 3322 222 5432 221110
Q ss_pred ccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCCcccccCHHHHHHHHHH
Q 002779 261 RISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSA 340 (882)
Q Consensus 261 ~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snNlGRSVs~~n~~rIr~a 340 (882)
+ +...|..++|.|.||.||++|||.+++..++ ..
T Consensus 215 -------------------------~-----------------~~e~f~d~PliVvDPVDP~RNVAAalSl~~l----a~ 248 (443)
T COG1746 215 -------------------------H-----------------KRERFEDEPLIVVDPVDPKRNVAAALSLENL----AR 248 (443)
T ss_pred -------------------------h-----------------hhhccCCCCeEecCCCCCccchhhhcCHHHH----HH
Confidence 0 0123445689999999999999999998877 55
Q ss_pred HHHHHHHH
Q 002779 341 FTYGARKL 348 (882)
Q Consensus 341 F~~A~~~L 348 (882)
|.+|++.+
T Consensus 249 f~~aar~F 256 (443)
T COG1746 249 FVHAAREF 256 (443)
T ss_pred HHHHHHHH
Confidence 67777665
No 11
>PF04928 PAP_central: Poly(A) polymerase central domain; InterPro: IPR007012 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs. Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase which specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analog at 2.5 A resolutio has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta-sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.; GO: 0004652 polynucleotide adenylyltransferase activity, 0006351 transcription, DNA-dependent; PDB: 1Q79_A 1Q78_A 1F5A_A 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A.
Probab=99.71 E-value=1.7e-17 Score=176.79 Aligned_cols=214 Identities=18% Similarity=0.344 Sum_probs=130.8
Q ss_pred HHHHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHhhcCCCceEEeeeecCCCCCCCceEEEEEcCCCCchHHHHHHHH
Q 002779 42 AEEATQGIIAQ--VQPTVVSEERRKAVIDYVQRLIRNYLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCS 119 (882)
Q Consensus 42 le~~i~efv~~--L~PT~eE~~~R~~Vv~~Lq~lI~~~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~~~ll~~L~~ 119 (882)
..+.+.++++. +-||+||.++|++|++.|+++|++|... .
T Consensus 22 ~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~-------------------------~------------- 63 (254)
T PF04928_consen 22 RSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ-------------------------A------------- 63 (254)
T ss_dssp HHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH-------------------------S-------------
T ss_pred hHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh-------------------------h-------------
Confidence 44555666644 4799999999999999999999997533 0
Q ss_pred HHHHHhhccccccceeEEEEEeeeee-EEEEeeCCeEEEEe---eccCCccchHHHHHHHHHHhCCCchhHHHHHHHHHH
Q 002779 120 VLEREDQNKAAEFVVKDAQLIRAEVK-LVKCLVQNIVVDIS---FNQLGGLSTLCFLEQVDRLIGKDHLFKRSIILIKAW 195 (882)
Q Consensus 120 ~L~~~~~n~~~ef~Vk~V~vI~ARVP-IIKf~~sGI~VDIS---fnn~~Gi~ns~fLe~v~~~i~~dp~fr~LvlLIK~W 195 (882)
..+|| .|.+.++.+-.|+. +...+|++.+.+ +.+++.....|+.++++||.|
T Consensus 64 ---------------------~~~~p~~l~~~~~~~l~~ld~~s~~sLnG~Rv~~~---il~~Vp~~~~Fr~~lR~IK~W 119 (254)
T PF04928_consen 64 ---------------------LPRVPEDLDLLDDDPLRNLDEASVRSLNGVRVTDY---ILRLVPNQETFRTALRFIKLW 119 (254)
T ss_dssp ---------------------SSSB-TT--TT-GGGGTT--HHHHHHHHHHHHHHH---HHCTSS-HHHHHHHHHHHHHH
T ss_pred ---------------------hcCCCcccccCCchhhhCCCHhhccCcccccHHHH---HHHHCCCHHHHHHHHHHHHHH
Confidence 01111 11111111111111 112233333333 344555557899999999999
Q ss_pred HHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhccccCCcceEEccCCcccCCCCccccccCCC
Q 002779 196 CYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPEN 275 (882)
Q Consensus 196 ak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLeLL~~FFeyYs~FDw~~~~ISI~gPv~lsslp~l~~e~Pe~ 275 (882)
|+ +|+|++...|.|++.+|++||.+.+|+++.. .+-.+|..||.+|++|||.+ -|.+... .
T Consensus 120 Ak-~RGIYsn~~GylGGI~waILvArvcql~Pn~--~~~~ll~~FF~~ys~W~W~~-PV~l~~~------~--------- 180 (254)
T PF04928_consen 120 AK-RRGIYSNVFGYLGGIHWAILVARVCQLYPNA--SPSTLLSRFFQIYSQWDWPN-PVVLDPI------E--------- 180 (254)
T ss_dssp HH-HTT-B-CCCTSB-HHHHHHHHHHHHHHSTT----HHHHHHHHHHHHHCS-TTS--EESS------------------
T ss_pred HH-HccccchhhccchHHHHHHHHHHHHHHCccc--cccchHHHHHHHhcCCCCCC-ceeeccc------c---------
Confidence 99 6889999999999999999999999998643 34468899999999999997 3333211 0
Q ss_pred CCCCcccCHHHHHHHHhhccCCCCCCCCC-CCCCCCcceEEcCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHhhc
Q 002779 276 SGGDLLLSSEFLKECVEQFSVPSRGFDTN-SRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILS 353 (882)
Q Consensus 276 gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~-~~~f~~k~L~IEDPfd~snNlGRSVs~~n~~rIr~aF~~A~~~L~~iL~ 353 (882)
.+. + ..+.|..+ ........|.|..|..|..|.+++|++.++..|+++|++|++.+..++.
T Consensus 181 ~~~---~--------------~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~i~~Ef~ra~~i~~~~~~ 242 (254)
T PF04928_consen 181 DGP---L--------------GFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRIIREEFQRAHEILSEILK 242 (254)
T ss_dssp --S---S--------------SCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred cCc---c--------------cccCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHc
Confidence 000 0 00112111 0111245799999999999999999999999999999999999999884
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=98.50 E-value=2.9e-08 Score=83.29 Aligned_cols=24 Identities=33% Similarity=0.841 Sum_probs=21.1
Q ss_pred HHHHHHHHhhc-cccCCcceEEccC
Q 002779 235 AVLYKFLDYFS-KFDWDSYCISLNG 258 (882)
Q Consensus 235 eLL~~FFeyYs-~FDw~~~~ISI~g 258 (882)
+||++||+||+ +|||++++|||+.
T Consensus 4 ~Ll~~Ff~~Y~~~Fd~~~~~Isi~~ 28 (60)
T PF03828_consen 4 ELLLGFFEYYGRKFDYENNVISIRN 28 (60)
T ss_dssp HHHHHHHHHHHHTS-TTTEEEESSS
T ss_pred HHHHHHHHHhCCcCCCCceEEEecC
Confidence 47899999998 9999999999984
No 13
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core. It is predominantly found in Archaeal tRNA nucleotidyltransferases, following the catalytic nucleotidyltransferase domain []. ; GO: 0004810 tRNA adenylyltransferase activity, 0016437 tRNA cytidylyltransferase activity; PDB: 3OUY_B 2ZHB_A 2ZH1_A 2ZH2_A 1UET_A 2ZH7_A 1R8B_A 2DR5_A 1TFW_C 3OVA_A ....
Probab=98.26 E-value=1.5e-06 Score=82.67 Aligned_cols=98 Identities=26% Similarity=0.470 Sum_probs=58.8
Q ss_pred HHHHHHHHHHhhCccC--ccCCCCChHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhccccCCc-ceEEccCCcccCCC
Q 002779 189 IILIKAWCYYESRILG--AHHGLISTYALETLVLYIFHLFHSSLNGPLAVLYKFLDYFSKFDWDS-YCISLNGPVRISSL 265 (882)
Q Consensus 189 vlLIK~Wak~e~rIld--a~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLeLL~~FFeyYs~FDw~~-~~ISI~gPv~lssl 265 (882)
|+++|+|+| ..++++ .+++|+|+|...||||+| +... ..++.-+ +|.. ..|.+.
T Consensus 3 VrLLK~FlK-~igvYGse~~~~GFSGYL~ELLii~y---------GsF~---~~l~~a~--~W~~~~~Id~~-------- 59 (114)
T PF09249_consen 3 VRLLKQFLK-GIGVYGSELKTRGFSGYLCELLIIHY---------GSFE---NVLEAAA--KWKPPVVIDLE-------- 59 (114)
T ss_dssp HHHHHHHHH-HTT-B-SSTTT-SB-HHHHHHHHHHH---------SSHH---HHHHHHT--T--TTEEEETT--------
T ss_pred hHHHHHHHh-cCCCcchhhhcCcchHHHHHHHHHHH---------CCHH---HHHHHHH--hcCCCeEEccC--------
Confidence 789999999 477775 788999999999999997 2322 2233334 3443 222221
Q ss_pred CccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCCcccccCHHHHHHHHHHHHHHH
Q 002779 266 PEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGA 345 (882)
Q Consensus 266 p~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snNlGRSVs~~n~~rIr~aF~~A~ 345 (882)
..+. ..+.| ..+|.|.||.|+++|||.+++..++ ..|..++
T Consensus 60 ---------~~~~-------------------------~~~~f-~~PlvviDPvDp~RNVAAalS~~~~----~~fv~~a 100 (114)
T PF09249_consen 60 ---------DHGE-------------------------PSKKF-DDPLVVIDPVDPNRNVAAALSLENL----AEFVHAA 100 (114)
T ss_dssp ----------TTE---------------------------EEE--SS-EEEETTEEEEETTTTS-HHHH----HHHHHHH
T ss_pred ---------ccch-------------------------hhhhc-CCCeEEcCCCCCCchHhHhcCHHHH----HHHHHHH
Confidence 0010 00122 4589999999999999999998777 4556666
Q ss_pred HHH
Q 002779 346 RKL 348 (882)
Q Consensus 346 ~~L 348 (882)
+.+
T Consensus 101 r~f 103 (114)
T PF09249_consen 101 REF 103 (114)
T ss_dssp HHH
T ss_pred HHH
Confidence 554
No 14
>PF10421 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus ; InterPro: IPR018952 This is the largely alpha-helical, C-terminal half of 2'-5'-oligoadenylate synthetase 1, being described as domain 2 of the enzyme and homologous to a tandem ubiquitin repeat. It carries the region of enzymic activity between residues 320 and 344 at the extreme C-terminal end []. Oligoadenylate synthetases are antiviral enzymes that counteract viral attack by degrading viral RNA. The enzyme uses ATP in 2'-specific nucleotidyl transfer reactions to synthesise 2'.5'-oligoadenylates, which activate latent ribonuclease, resulting in degradation of viral RNA and inhibition of virus replication []. This domain is often associated with IPR002934 from INTERPRO. ; PDB: 1PX5_B.
Probab=97.91 E-value=3.9e-05 Score=79.22 Aligned_cols=63 Identities=25% Similarity=0.381 Sum_probs=43.2
Q ss_pred CccchHHHHHHHHHHhCCC-chhHHHHHHHHHHHHHhhCcc-CccCCCCChHHHHHHHHHHHHhcC
Q 002779 164 GGLSTLCFLEQVDRLIGKD-HLFKRSIILIKAWCYYESRIL-GAHHGLISTYALETLVLYIFHLFH 227 (882)
Q Consensus 164 ~Gi~ns~fLe~v~~~i~~d-p~fr~LvlLIK~Wak~e~rIl-da~~GgLSSYAL~LMVI~fLQ~~~ 227 (882)
.|-.++||.++=..|+... ..+|.||++||+|.+ ++.-. ....+..++|+|.||+||...+..
T Consensus 22 ~gefS~cftelQ~~Fvk~rP~klK~LIrLVKhWy~-~~~~~~~~~~~lPpsYaLELLtIyAWE~g~ 86 (190)
T PF10421_consen 22 PGEFSACFTELQRNFVKHRPTKLKNLIRLVKHWYQ-QCKKKKCGGGSLPPSYALELLTIYAWEQGC 86 (190)
T ss_dssp TTTTGGGGHHHHHHHHHTS-HHHHHHHHHHHHHHH-HHHCC--HTT-S--HHHHHHHHHHHHHHHT
T ss_pred CccchHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH-HHHhhccCCCCCcHHHHHHHHHHHHHHhcC
Confidence 4555667766555566544 579999999999997 33333 245566779999999999998753
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=97.71 E-value=0.0016 Score=69.94 Aligned_cols=200 Identities=15% Similarity=0.129 Sum_probs=117.5
Q ss_pred CceEEeeeecCCCCC-CCceEEEEEcCCCCchHHHHHHHHHHHHHhhccccccceeEEEEEeeeeeEEEEeeC----CeE
Q 002779 81 EVFPFGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQ----NIV 155 (882)
Q Consensus 81 ~V~~FGS~~tGL~LP-~SDIDL~V~~~~~~~~~ll~~L~~~L~~~~~n~~~ef~Vk~V~vI~ARVPIIKf~~s----GI~ 155 (882)
.|.-.||++.||.+. +-++||+|++...-..++++.|.+.|....+....+ . ..+.+..+.+|.+++..+ .+.
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 577899999999998 588999999875433344444444332211111111 0 112223666677766642 222
Q ss_pred EEEeec----cCC---------------ccchHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHH
Q 002779 156 VDISFN----QLG---------------GLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALE 216 (882)
Q Consensus 156 VDISfn----n~~---------------Gi~ns~fLe~v~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~ 216 (882)
+++... +.. ++.+++-.+|++....--.-++.+++++|-|+. |.-. -.-|++|++.
T Consensus 82 ~~~~~~~~~~~~~~~~p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~---R~~~--~~pL~~w~iE 156 (246)
T smart00572 82 VELLITTVPENLRKLDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCN---RVPT--WQPLSGWPLE 156 (246)
T ss_pred ccccccccCcccccCCccccCCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHH---hccc--ccccccccHH
Confidence 332211 100 111112224544433222368889999999996 2211 1239999999
Q ss_pred HHHHHHHHhcCCCCCChHHHHHHHHHhhc--cccCCcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhc
Q 002779 217 TLVLYIFHLFHSSLNGPLAVLYKFLDYFS--KFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQF 294 (882)
Q Consensus 217 LMVI~fLQ~~~~~l~~pLeLL~~FFeyYs--~FDw~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~f 294 (882)
|++-+.+-.. ....++-+.|.+||+|-+ .| +
T Consensus 157 Ll~~~~i~~~-~~~l~~~~a~RR~fe~lAsG~l----------------------------------~------------ 189 (246)
T smart00572 157 LLVEKAIGSA-RQPLGLGDAFRRVFECLASGIL----------------------------------L------------ 189 (246)
T ss_pred HHHHHHhccC-CCCCCHHHHHHHHHHHHHhccC----------------------------------c------------
Confidence 9998877421 111223357899999873 22 0
Q ss_pred cCCCCCCCCCCCCCCCcceEEcCCCCC-CCCcccccCHHHHHHHHHHHHHHHHHHH
Q 002779 295 SVPSRGFDTNSRSFPPKHLNIVDPLKE-NNNLGRSVSKGNFYRIRSAFTYGARKLG 349 (882)
Q Consensus 295 s~~~rg~e~~~~~f~~k~L~IEDPfd~-snNlGRSVs~~n~~rIr~aF~~A~~~L~ 349 (882)
+....|.||.+. .+|++...+....+.|..+=+.+.+.++
T Consensus 190 ---------------p~~~gI~DPce~~~~nv~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 190 ---------------PGSPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred ---------------CCCCCCcCCCCCCcccHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 112578999997 8999999998888888777776666654
No 16
>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=97.57 E-value=4.7e-05 Score=68.07 Aligned_cols=44 Identities=27% Similarity=0.425 Sum_probs=36.7
Q ss_pred HHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEEcCCCCc
Q 002779 67 IDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE 110 (882)
Q Consensus 67 v~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~ 110 (882)
+++|.+.+++ ++.+.|++|||+++|.+.|+|||||+|+......
T Consensus 1 i~~i~~~l~~~~~~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~~~ 45 (93)
T PF01909_consen 1 IEEIKEILKELFGVAEVYLFGSYARGDATPDSDIDLLIILDEPED 45 (93)
T ss_dssp HHHHHHHHHHHHTTEEEEEEHHHHHTSSCTTSCEEEEEEESSTSC
T ss_pred CHHHHHHHHHHCCCCEEEEECCcccCcCCCCCCEEEEEEeCCccc
Confidence 3566677766 4578999999999999999999999999987543
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=97.52 E-value=0.0005 Score=66.84 Aligned_cols=91 Identities=23% Similarity=0.264 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHHHHHHhh--cCCCceEEeeeecCCCCC-CCceEEEEEcCCCCc------hHHHHHHHHHHHHHhhcccc
Q 002779 60 EERRKAVIDYVQRLIRNY--LGCEVFPFGSVPLKTYLP-DGDIDLTAFGGLNVE------EALANDVCSVLEREDQNKAA 130 (882)
Q Consensus 60 ~~~R~~Vv~~Lq~lI~~~--p~a~V~~FGS~~tGL~LP-~SDIDL~V~~~~~~~------~~ll~~L~~~L~~~~~n~~~ 130 (882)
..+...|.+.|++-.... ....|++|||++.|++++ .|||||+|+.+.... ..++..|.+.|++....
T Consensus 6 ~~~~~~i~~~L~~~~~~~~~~~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~--- 82 (143)
T cd05400 6 KERYREIREALKESLSELAGRVAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGA--- 82 (143)
T ss_pred HHHHHHHHHHHHHhcccccccccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCc---
Confidence 334444555555544331 357899999999999998 899999999875422 23566677777653210
Q ss_pred ccceeEEEEEeeeeeEEEEee--CCeEEEEe
Q 002779 131 EFVVKDAQLIRAEVKLVKCLV--QNIVVDIS 159 (882)
Q Consensus 131 ef~Vk~V~vI~ARVPIIKf~~--sGI~VDIS 159 (882)
-..+..+-|.|.+.. .++.+||.
T Consensus 83 ------~~~~~~~~~~v~v~~~~~~~~vDvv 107 (143)
T cd05400 83 ------NEEVKAQHRSVTVKFKGQGFHVDVV 107 (143)
T ss_pred ------ccccccCceEEEEEEcCCCeEEEEE
Confidence 012334445555554 38999994
No 18
>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=97.52 E-value=0.00014 Score=59.53 Aligned_cols=40 Identities=23% Similarity=0.430 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEE
Q 002779 65 AVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAF 104 (882)
Q Consensus 65 ~Vv~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~ 104 (882)
++++.+++.+++ ....++.+|||++.|.+.+.|||||++.
T Consensus 2 ~~l~~i~~~l~~~~~~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 2 ELLDIIKERLKKLVPGYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred HHHHHHHHHHHhhcCCcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 456677777776 3567899999999999999999999986
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=97.24 E-value=0.0011 Score=58.73 Aligned_cols=44 Identities=27% Similarity=0.403 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhhc--CCCceEEeeeecCCCCCCCceEEEEEcCCCC
Q 002779 66 VIDYVQRLIRNYL--GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNV 109 (882)
Q Consensus 66 Vv~~Lq~lI~~~p--~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~ 109 (882)
.++.+..++++.+ -..|++|||++.|-+.++|||||+|+.....
T Consensus 3 ~~~~i~~~l~~~~~~i~~i~LfGS~arg~~~~~SDiDl~vi~~~~~ 48 (93)
T cd05403 3 ILEEILEILRELLGGVEKVYLFGSYARGDARPDSDIDLLVIFDDPL 48 (93)
T ss_pred hHHHHHHHHHHHhCCccEEEEEeeeecCCCCCCCCeeEEEEeCCCC
Confidence 4556666676655 4689999999999999999999999987654
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=96.77 E-value=0.012 Score=74.43 Aligned_cols=136 Identities=18% Similarity=0.239 Sum_probs=96.8
Q ss_pred HHHHHhCCCchhHHHHHHHHHHHHHhhCccCccC--CCCChHHHHHHHHHHHHhcC----CCCC---ChHHHHHHHHHhh
Q 002779 174 QVDRLIGKDHLFKRSIILIKAWCYYESRILGAHH--GLISTYALETLVLYIFHLFH----SSLN---GPLAVLYKFLDYF 244 (882)
Q Consensus 174 ~v~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~--GgLSSYAL~LMVI~fLQ~~~----~~l~---~pLeLL~~FFeyY 244 (882)
.+.......|.|+..++|+|.|++ +|..+... ||+++|-|.+|+++.+|.-. ..+. ...+++..+++|-
T Consensus 155 ~l~~~~~~~p~f~dA~iLlkvWl~--QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fL 232 (972)
T PF03813_consen 155 YLHEASKSSPAFRDACILLKVWLR--QRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFL 232 (972)
T ss_pred HHHHHHhcCHHHHHHHHHHHHHHh--cCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHH
Confidence 344555667999999999999998 45555444 99999999999999888721 1222 3568899999999
Q ss_pred ccccCCcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCC
Q 002779 245 SKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNN 324 (882)
Q Consensus 245 s~FDw~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snN 324 (882)
+.-||.+.+|.+..-. + ..+.+.... .....++.||-.. .|
T Consensus 233 A~~d~~~~~l~~~~~~---------------~------~~~~~~~~~-----------------~~~~~vf~D~sg~-~N 273 (972)
T PF03813_consen 233 ATTDLSKKPLFFKSSS---------------D------STESLEEFH-----------------SAFDPVFVDPSGG-LN 273 (972)
T ss_pred hccccccCceEEecCC---------------C------ccchhhhhh-----------------ccCCeEEEeCCCC-EE
Confidence 9999988888876310 0 011111111 0124677788776 68
Q ss_pred cccccCHHHHHHHHHHHHHHHHHHHH
Q 002779 325 LGRSVSKGNFYRIRSAFTYGARKLGH 350 (882)
Q Consensus 325 lGRSVs~~n~~rIr~aF~~A~~~L~~ 350 (882)
++..++...+..||.+-+.+.+.|.+
T Consensus 274 l~~~ms~~s~~~L~~eA~~tl~lL~~ 299 (972)
T PF03813_consen 274 LLAKMSPSSYEELQHEAKLTLELLDD 299 (972)
T ss_pred EEEcCCHHHHHHHHHHHHHHHHHhcc
Confidence 99999999999999998887777654
No 21
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=96.30 E-value=0.018 Score=53.96 Aligned_cols=46 Identities=24% Similarity=0.266 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHhhcC-CCceEEeeeecCCCCCCCceEEEEEcCCC
Q 002779 63 RKAVIDYVQRLIRNYLG-CEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (882)
Q Consensus 63 R~~Vv~~Lq~lI~~~p~-a~V~~FGS~~tGL~LP~SDIDL~V~~~~~ 108 (882)
.++++..+...++++++ +++-+|||++-|-.-|+|||||.|.+...
T Consensus 7 ~~~~lr~~~~~l~~k~gv~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKYGVKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 44557777888887775 68999999999999999999999998654
No 22
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=95.79 E-value=0.027 Score=61.50 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=38.3
Q ss_pred HHHHHHHHhhcCC---CceEEeeeecCCCCCCCceEEEEEcCCCCchHHHHHHHHHH
Q 002779 68 DYVQRLIRNYLGC---EVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVL 121 (882)
Q Consensus 68 ~~Lq~lI~~~p~a---~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~~~ll~~L~~~L 121 (882)
..+++++++.++- .|++|||++.|-+-|.|||||.|+...........+|...|
T Consensus 14 ~~~~~~l~~~l~~~l~~vyLfGS~~~G~~~p~SDIDllvvv~~~l~~~~~~~L~~~L 70 (262)
T PRK13746 14 SEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVPLDETTRRALMNDL 70 (262)
T ss_pred HHHHHHHHHhCcccEEEEEEECCcccCCCCCCCceeEEEEeCCCCCHHHHHHHHHHH
Confidence 3445666665542 58999999999999999999999987765443333444444
No 23
>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=95.43 E-value=0.46 Score=51.62 Aligned_cols=201 Identities=19% Similarity=0.193 Sum_probs=107.0
Q ss_pred EeeeecCCCCC-CCceEEEEEcCCCCchHHHHHHHHHHHHHhhcccccccee--EEE-EE-eeeeeEEEEee--C--CeE
Q 002779 85 FGSVPLKTYLP-DGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVK--DAQ-LI-RAEVKLVKCLV--Q--NIV 155 (882)
Q Consensus 85 FGS~~tGL~LP-~SDIDL~V~~~~~~~~~ll~~L~~~L~~~~~n~~~ef~Vk--~V~-vI-~ARVPIIKf~~--s--GI~ 155 (882)
.||++.||.+. +-++||||++...-..+++++|.+.|....+....+.... +.. ++ ..+.|.+.+.. + .+.
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kPT~~lL~~v~~~L~~~L~~~~~~ev~~~~e~~~~~~~~~~~~~~~~~~lts~~~r 81 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKPTKELLNRVAEKLPEQLKKVTPEEVTNSVEAAIIIDSCKEPKLEVGIDLTSPVMR 81 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCCcHHHHHHHHHHHHHHHhhhCccccccchhhhhhhcccccccceeeEEecCCceE
Confidence 49999999998 5789999998764444556665555543221111110000 110 11 23334443332 2 333
Q ss_pred EEEeec----cCC---------------ccchHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHH
Q 002779 156 VDISFN----QLG---------------GLSTLCFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALE 216 (882)
Q Consensus 156 VDISfn----n~~---------------Gi~ns~fLe~v~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~ 216 (882)
+.+.+. +.. ++.+.+-.+|++.....-+-++.+++++|..+. |.- -...|++|++.
T Consensus 82 ~~~~~~~~~~~~~~~dp~~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~---R~p--~w~~L~~W~le 156 (248)
T PF07528_consen 82 VRVLITTIPENLSKLDPEDHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQ---RVP--TWQPLSSWALE 156 (248)
T ss_pred EEEeccccCccccccChhhcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHH---hCC--CCCCCChhHHH
Confidence 443321 110 011111124454444444456778889998885 342 35679999999
Q ss_pred HHHHHHHHhcCCCC-CChHHHHHHHHHhhccccCCcceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhcc
Q 002779 217 TLVLYIFHLFHSSL-NGPLAVLYKFLDYFSKFDWDSYCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFS 295 (882)
Q Consensus 217 LMVI~fLQ~~~~~l-~~pLeLL~~FFeyYs~FDw~~~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs 295 (882)
||+-+.+....... .++-+.|.+||+.-+. + +++
T Consensus 157 LL~~~~i~~~~~~~~l~~g~a~RRvle~las------G--------------------------ill------------- 191 (248)
T PF07528_consen 157 LLVEKAISNNSSRQPLSPGDAFRRVLECLAS------G--------------------------ILL------------- 191 (248)
T ss_pred HHHHHHeeeCCCCCCCChHHHHHHHHHHHhC------c--------------------------eec-------------
Confidence 98887665322111 1122466777665521 1 111
Q ss_pred CCCCCCCCCCCCCCCcceEEcCCCC-CCCCcccccCHHHHHHHHHHHHHHHHHHH
Q 002779 296 VPSRGFDTNSRSFPPKHLNIVDPLK-ENNNLGRSVSKGNFYRIRSAFTYGARKLG 349 (882)
Q Consensus 296 ~~~rg~e~~~~~f~~k~L~IEDPfd-~snNlGRSVs~~n~~rIr~aF~~A~~~L~ 349 (882)
+.--.|.||-+ .+.|+...++....+-|...-+++.+.|+
T Consensus 192 --------------p~~~gl~DPcE~~~~~~~~~lt~qq~e~it~sAQ~~LRlla 232 (248)
T PF07528_consen 192 --------------PGSPGLRDPCEKDPVDVLDTLTLQQREDITSSAQTALRLLA 232 (248)
T ss_pred --------------CCCCCCcCCCCCCCceeeccCCHHHHHHHHHHHHHHHHHHH
Confidence 11235678888 66778888887666666666666555543
No 24
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.34 E-value=0.025 Score=52.77 Aligned_cols=27 Identities=26% Similarity=0.488 Sum_probs=25.8
Q ss_pred CCCceEEeeeecCCCCCCCceEEEEEc
Q 002779 79 GCEVFPFGSVPLKTYLPDGDIDLTAFG 105 (882)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDL~V~~ 105 (882)
.+.|++|||++.|-+.+.||||++|..
T Consensus 26 ~~~v~LfGS~arG~~~~~SDiDv~vv~ 52 (128)
T COG1708 26 DLLIYLFGSYARGDFVKESDIDLLVVS 52 (128)
T ss_pred CeEEEEEccCcccccccCCCeeEEEEc
Confidence 589999999999999999999999997
No 25
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=94.31 E-value=0.26 Score=61.58 Aligned_cols=128 Identities=20% Similarity=0.314 Sum_probs=90.3
Q ss_pred CCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCCC---hHHHHHHHHHhhccccCCcceEEc
Q 002779 180 GKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNG---PLAVLYKFLDYFSKFDWDSYCISL 256 (882)
Q Consensus 180 ~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~~---pLeLL~~FFeyYs~FDw~~~~ISI 256 (882)
...+-|+.-+.|+|.|+. .|-.+-..|||+.+-|++++++.+... .++. .++++..-|+|.+..||...+|++
T Consensus 305 s~~~~f~da~~Llk~Wlr--qRs~~~~~~gfg~f~~s~lvv~L~s~~--ki~~~~S~yqvfR~vl~flat~dlt~~~~~l 380 (1121)
T KOG2054|consen 305 SSAKGFKDALALLKVWLR--QRSLDIGQGGFGGFLLSALVVYLVSTR--KIHTTLSAYQVFRSVLQFLATTDLTVNGISL 380 (1121)
T ss_pred hhhhhHHHHHHHHHHHHH--hhhhhcccCcchHHHHHHHHHHHHhcC--chhhcchHHHHHHHHHHHHhhhhhhccceEe
Confidence 446788999999999997 455566789999999999988876543 3443 357888899999999999999987
Q ss_pred cCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCCcccccCHHHHHH
Q 002779 257 NGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGRSVSKGNFYR 336 (882)
Q Consensus 257 ~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snNlGRSVs~~n~~r 336 (882)
.. -+ .+++ ..++ ... ...++..| .....|++..+....+++
T Consensus 381 ~~-~~-~s~~------------------~~~~-f~e-----------------~~~~~f~D-~s~~~NLc~~mt~s~y~~ 421 (1121)
T KOG2054|consen 381 VP-SS-PSLP------------------ALAD-FHE-----------------GQLVTFID-SSGHLNLCANMTASTYEQ 421 (1121)
T ss_pred cc-CC-CCch------------------hhhh-hhh-----------------cceeeEec-cCCcchhhhhccHHHHHH
Confidence 52 00 1111 1111 100 01234444 234578899898888999
Q ss_pred HHHHHHHHHHHHHH
Q 002779 337 IRSAFTYGARKLGH 350 (882)
Q Consensus 337 Ir~aF~~A~~~L~~ 350 (882)
++++.+.+++.|.+
T Consensus 422 ~q~ea~ltl~lL~~ 435 (1121)
T KOG2054|consen 422 VQEEARLTLMLLDS 435 (1121)
T ss_pred HHHHHHHHHHHHhh
Confidence 99999999999984
No 26
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=92.48 E-value=4.5 Score=44.49 Aligned_cols=196 Identities=21% Similarity=0.222 Sum_probs=112.1
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhh--c---CC---CceEEeeeecCCCCCCCce-EEEEEcCCC-Cc
Q 002779 41 RAEEATQGIIAQVQPTVVSEERRKAVIDYVQRLIRNY--L---GC---EVFPFGSVPLKTYLPDGDI-DLTAFGGLN-VE 110 (882)
Q Consensus 41 ~le~~i~efv~~L~PT~eE~~~R~~Vv~~Lq~lI~~~--p---~a---~V~~FGS~~tGL~LP~SDI-DL~V~~~~~-~~ 110 (882)
.+++++.+=-+.+.|+.+|...-..++.+++.++... + +| .|.-.|||.+|+.+-++|+ |++|+...- ..
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 3555555555779999999998888888888888762 3 33 5677899999999987665 777776542 11
Q ss_pred h---HHHHHHHHHHHHHh--------hccccccceeEEEEEeeeeeEEEEeeC--------CeEEEEeecc--CCccchH
Q 002779 111 E---ALANDVCSVLERED--------QNKAAEFVVKDAQLIRAEVKLVKCLVQ--------NIVVDISFNQ--LGGLSTL 169 (882)
Q Consensus 111 ~---~ll~~L~~~L~~~~--------~n~~~ef~Vk~V~vI~ARVPIIKf~~s--------GI~VDISfnn--~~Gi~ns 169 (882)
+ .+.+++.+-|+... .++ ..| .|.-.+|+|-|+--+.- .+..|+-.-+ ..+++.+
T Consensus 120 EaV~aLg~Kv~e~lka~d~~Evltvl~~e-~G~---~I~s~~~~VRiLIt~iP~n~~KLEP~lHLD~K~M~~~l~a~RH~ 195 (362)
T KOG3793|consen 120 EAVAALGNKVVESLRAQDPSEVLTVLTNE-TGF---EISSSDATVRILITTVPPNLRKLEPELHLDIKVMQSALAAIRHA 195 (362)
T ss_pred HHHHHHHHHHHHHhhhcChHHHHHHHhhc-cce---eeecccceEEEEEeecCchhcccChhhhhhHHHHHHHHHHHhhh
Confidence 2 23345554444321 111 122 12223888888766641 4566663322 2233333
Q ss_pred HHHHHHHHHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCCChHHH-HHHHHHhh--cc
Q 002779 170 CFLEQVDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLNGPLAV-LYKFLDYF--SK 246 (882)
Q Consensus 170 ~fLe~v~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~~pLeL-L~~FFeyY--s~ 246 (882)
.++++. +-...++-|++++|-.-. |.-+ ..=|+-+.|-++.-+-+.+.+.+..-+|.+ ..+||+.. +-
T Consensus 196 ~WFee~----A~~s~~~~lir~LKDlr~---r~~~--F~PLs~W~ldll~h~avmNnp~RQ~l~ln~Afrr~~qilaAG~ 266 (362)
T KOG3793|consen 196 RWFEEN----ASQSTVKVLIRLLKDLRI---RFPG--FEPLTPWILDLLGHYAVMNNPTRQPLALNVAYRRCLQILAAGL 266 (362)
T ss_pred hhhhhh----hhHHHHHHHHHHHHHHHh---hcCC--CCCchHHHHHHHHHHHHHcCCccccchhhHHHHHHHHHHHhcc
Confidence 333332 223446777888887542 3322 123666666666655555544443334553 56777777 35
Q ss_pred ccC
Q 002779 247 FDW 249 (882)
Q Consensus 247 FDw 249 (882)
|--
T Consensus 267 FlP 269 (362)
T KOG3793|consen 267 FLP 269 (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=92.23 E-value=2.3 Score=54.47 Aligned_cols=145 Identities=23% Similarity=0.275 Sum_probs=90.4
Q ss_pred HHHHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCCC---ChHHHHHHHHHhhccccCCc
Q 002779 175 VDRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSLN---GPLAVLYKFLDYFSKFDWDS 251 (882)
Q Consensus 175 v~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l~---~pLeLL~~FFeyYs~FDw~~ 251 (882)
+..+..++|.|.+.|+++|+|+. +.++ .+.|+.=+++|||++.+-.-. ... .+..-+++||++-+.|||..
T Consensus 675 i~~l~~~~p~fs~tvRL~KrW~~--shlL---s~~i~~E~vELlva~vfl~~~-p~~~P~S~~~GFlRfL~lLs~~dW~~ 748 (972)
T PF03813_consen 675 IHGLHTRFPSFSPTVRLAKRWLS--SHLL---SGHISEEAVELLVASVFLSPA-PWSPPSSPQTGFLRFLHLLSTWDWRE 748 (972)
T ss_pred HHHHHhhCCchhHHHHHHHHHHH--hccC---cccCCHHHHHHHHHHHhcCCC-CCCCCCCHhHHHHHHHHHHHhCCCCc
Confidence 44455678999999999999997 5666 567899999999999886422 222 23445678888889999997
Q ss_pred ceEEccCCcccCCCCccccccCCCCCCCcccCHHHHHHHHhhccCCCCCCCCCCCCCCCcceEEcCCCCCCCCccc--cc
Q 002779 252 YCISLNGPVRISSLPEVVVETPENSGGDLLLSSEFLKECVEQFSVPSRGFDTNSRSFPPKHLNIVDPLKENNNLGR--SV 329 (882)
Q Consensus 252 ~~ISI~gPv~lsslp~l~~e~Pe~gg~~~lL~kE~Lr~~~~~fs~~~rg~e~~~~~f~~k~L~IEDPfd~snNlGR--SV 329 (882)
.-+=|. + . + -++.+....+...|....+. +. ......|+|--|.|+..-+-. .-
T Consensus 749 ~PLiVd----~-----------~--~---~l~~~~~~~i~~~f~~~R~~-dp---~~~~p~~~IaT~~D~~g~~wT~~~P 804 (972)
T PF03813_consen 749 EPLIVD----F-----------N--N---ELTEEDRAEIETNFDAWRKI-DP---AMNLPAMFIATPYDPEGSLWTRNGP 804 (972)
T ss_pred CCEEEE----C-----------C--C---CCCHHHHHHHHHHHHHhhcc-Cc---cccCCcEEEEeCCCCCCCEeECCCC
Confidence 644332 0 0 0 12334444444444322110 11 112346999999998654322 23
Q ss_pred CHHHHHHHHHHHHHHHHHHH
Q 002779 330 SKGNFYRIRSAFTYGARKLG 349 (882)
Q Consensus 330 s~~n~~rIr~aF~~A~~~L~ 349 (882)
++-.+.||+..=+.+.+.|.
T Consensus 805 s~~v~~Rl~~LAk~sl~~l~ 824 (972)
T PF03813_consen 805 SKVVAKRLTALAKASLKLLE 824 (972)
T ss_pred CHHHHHHHHHHHHHHHHHHH
Confidence 44457788766666666655
No 28
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=90.26 E-value=4.2 Score=41.36 Aligned_cols=105 Identities=19% Similarity=0.239 Sum_probs=61.6
Q ss_pred CCCceEEeeeecCCCCCCCceEEEEEcCCCCchHHHHHHHHHHHHHhhccccccceeEEEEE-eeeeeEEEEeeCCeEEE
Q 002779 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLI-RAEVKLVKCLVQNIVVD 157 (882)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~~~ll~~L~~~L~~~~~n~~~ef~Vk~V~vI-~ARVPIIKf~~sGI~VD 157 (882)
.....+.|..+.|+..|+|||||++.... .+.+.+.+.+.-. + ...|.++.- .| .-..=++.|...|..+.
T Consensus 15 ~~~PiL~GTiPi~Idi~~SDLDIic~~~d--~~~F~~~l~~~f~----~-~~~f~~~~~-~i~~~~~~~~~F~~~~~~~E 86 (152)
T PF14091_consen 15 AYDPILVGTIPIGIDIPGSDLDIICEVPD--PEAFEQLLQSLFG----Q-FEGFTIKEK-TIRGEPSIVANFRYEGFPFE 86 (152)
T ss_pred cCCCEEecccccccCCCCCCccEEEEeCC--HHHHHHHHHHHhc----c-CCCceeeec-eeCCceeEEEEEEECCceEE
Confidence 45888999999999999999999999864 2333333333322 1 234544431 23 22222446666899999
Q ss_pred EeeccCCcc--chH--HHHHHHHHHhCC-CchhHHHHHHHH
Q 002779 158 ISFNQLGGL--STL--CFLEQVDRLIGK-DHLFKRSIILIK 193 (882)
Q Consensus 158 ISfnn~~Gi--~ns--~fLe~v~~~i~~-dp~fr~LvlLIK 193 (882)
|-. +..-+ ++. .++-+ .+++.. .+.||.-|+-+|
T Consensus 87 iF~-Q~~Pv~~QnayrHm~iE-~rLL~~~g~~~r~~Ii~LK 125 (152)
T PF14091_consen 87 IFG-QPIPVEEQNAYRHMLIE-HRLLELHGPSFREEIIELK 125 (152)
T ss_pred Eee-cCCChhhHHHHHHHHHH-HHHHHhcCHHHHHHHHHHH
Confidence 944 33222 222 12111 223333 488888888888
No 29
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=90.19 E-value=0.79 Score=49.11 Aligned_cols=40 Identities=20% Similarity=0.154 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhcCCCceEEeeee----cCC--CCCCCceEEEEEcCC
Q 002779 67 IDYVQRLIRNYLGCEVFPFGSVP----LKT--YLPDGDIDLTAFGGL 107 (882)
Q Consensus 67 v~~Lq~lI~~~p~a~V~~FGS~~----tGL--~LP~SDIDL~V~~~~ 107 (882)
++.|..+... .++.+.+|||+. ||+ -.++|||||.|..+.
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 3444444443 667999999999 999 667999999998875
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=89.44 E-value=0.9 Score=47.98 Aligned_cols=41 Identities=20% Similarity=0.187 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhcCCCceEEeee----ecCC--CCCCCceEEEEEcCCC
Q 002779 67 IDYVQRLIRNYLGCEVFPFGSV----PLKT--YLPDGDIDLTAFGGLN 108 (882)
Q Consensus 67 v~~Lq~lI~~~p~a~V~~FGS~----~tGL--~LP~SDIDL~V~~~~~ 108 (882)
++.|..+... .++.+-+|||+ +||+ -.++|||||.|..+..
T Consensus 97 l~~l~~~~~~-~~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~~ 143 (202)
T TIGR03135 97 LRALDALLDA-LGVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPSP 143 (202)
T ss_pred HHHHHHHHHh-CCCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCCh
Confidence 3344444333 67899999999 9999 6679999999988753
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=81.14 E-value=3.2 Score=39.78 Aligned_cols=57 Identities=25% Similarity=0.214 Sum_probs=40.5
Q ss_pred HHHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEEcCCCCc-----hHHHHHHHHHHHH
Q 002779 66 VIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE-----EALANDVCSVLER 123 (882)
Q Consensus 66 Vv~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~-----~~ll~~L~~~L~~ 123 (882)
+.+.|++.+++ .++++|.+-|||.-|-.. .+||||.|..+.... ..++.+|...|++
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 34455666666 479999999999998765 469999999876433 3467777777764
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=71.80 E-value=28 Score=35.05 Aligned_cols=30 Identities=20% Similarity=0.193 Sum_probs=26.8
Q ss_pred CCCceEEeeeecCCCCCCCceEEEEEcCCC
Q 002779 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (882)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~ 108 (882)
...+..+||+..+=..+.||+|+.++....
T Consensus 55 ~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~ 84 (172)
T cd05401 55 PFALLALGSYGRGELNPSSDQDLLLLYDDD 84 (172)
T ss_pred cEEEEEeCCcccCCcCCCcCcceEEEeCCC
Confidence 467899999999999999999999998654
No 33
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=68.33 E-value=46 Score=42.81 Aligned_cols=73 Identities=23% Similarity=0.325 Sum_probs=52.5
Q ss_pred HHHhCCCchhHHHHHHHHHHHHHhhCccCccCCCCChHHHHHHHHHHHHhcCCCC-CChHH-HHHHHHHhhccccCCcce
Q 002779 176 DRLIGKDHLFKRSIILIKAWCYYESRILGAHHGLISTYALETLVLYIFHLFHSSL-NGPLA-VLYKFLDYFSKFDWDSYC 253 (882)
Q Consensus 176 ~~~i~~dp~fr~LvlLIK~Wak~e~rIlda~~GgLSSYAL~LMVI~fLQ~~~~~l-~~pLe-LL~~FFeyYs~FDw~~~~ 253 (882)
..+...++.+-..++|.|+|+. ..++ .||+.=-++.|+|++.++...+-. ....+ =+++|+.+-++|||...-
T Consensus 812 ~~l~qsh~~ys~vvrLaKrWl~--shLL---~~h~~De~iELLva~lf~~p~p~~~psS~~~gFlRfL~llS~~dW~~~P 886 (1121)
T KOG2054|consen 812 QSLSQSHPFYSSVVRLAKRWLG--SHLL---SGHHLDEAIELLVAALFLKPGPLVPPSSPENGFLRFLSLLSTWDWKFDP 886 (1121)
T ss_pred HHHhhcccchhHHHHHHHHHHH--HHhh---ccchHHHHHHHHHHHHhcCccCCCCCCCcchhHHHHHHHHhcCcccCCc
Confidence 3445567888899999999997 4565 356668999999999888743311 11122 367888888999998753
No 34
>PF10620 MdcG: Phosphoribosyl-dephospho-CoA transferase MdcG; InterPro: IPR017557 Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61 from EC). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.; GO: 0016779 nucleotidyltransferase activity
Probab=65.62 E-value=14 Score=39.47 Aligned_cols=43 Identities=23% Similarity=0.308 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhcCCCceEEeee----ecCC-C-CCCCceEEEEEcCCC
Q 002779 65 AVIDYVQRLIRNYLGCEVFPFGSV----PLKT-Y-LPDGDIDLTAFGGLN 108 (882)
Q Consensus 65 ~Vv~~Lq~lI~~~p~a~V~~FGS~----~tGL-~-LP~SDIDL~V~~~~~ 108 (882)
..+..|+.+. ...++..-+|||+ +||+ | .++|||||.|..+..
T Consensus 103 ~~l~~l~~~~-~~~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~ 151 (213)
T PF10620_consen 103 PALQALRALL-DALGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSP 151 (213)
T ss_pred HHHHHHHHHH-HHcCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCCh
Confidence 3445555555 4579999999996 6777 3 358999999998764
No 35
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=63.84 E-value=16 Score=45.34 Aligned_cols=47 Identities=19% Similarity=0.232 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHh--hc-CCCceEEeeeecCCCCCCCceEEEEEcCC
Q 002779 61 ERRKAVIDYVQRLIRN--YL-GCEVFPFGSVPLKTYLPDGDIDLTAFGGL 107 (882)
Q Consensus 61 ~~R~~Vv~~Lq~lI~~--~p-~a~V~~FGS~~tGL~LP~SDIDL~V~~~~ 107 (882)
+.|+.+......+++. ++ ++.+...|+|.-|--.|.|||||.|+.+.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~ 55 (693)
T PRK00227 6 QLREDAEASALALLGSLQLPPGTALAATGSLARREMTPYSDLDLILLHPP 55 (693)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCeEEEEeccccccCcCCCcCceEEEEeCC
Confidence 5678888888888877 33 67899999999999999999999999874
No 36
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=63.59 E-value=15 Score=39.21 Aligned_cols=42 Identities=21% Similarity=0.199 Sum_probs=29.0
Q ss_pred HHHHHHHHHhhcCCCceEEeee----ecCC--CCCCCceEEEEEcCCCC
Q 002779 67 IDYVQRLIRNYLGCEVFPFGSV----PLKT--YLPDGDIDLTAFGGLNV 109 (882)
Q Consensus 67 v~~Lq~lI~~~p~a~V~~FGS~----~tGL--~LP~SDIDL~V~~~~~~ 109 (882)
+..+..+... .+...-+|||. +||+ ..++|||||+|..+...
T Consensus 98 l~~l~~~~~~-~~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~~l 145 (207)
T PRK01293 98 LQALAALLDA-LGLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQPL 145 (207)
T ss_pred HHHHHHHHHh-CCCceeeehhHHHHHhhCCccccCCCCccEeecCCCcc
Confidence 3344444433 58899999996 4676 24589999999887543
No 37
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=61.55 E-value=35 Score=33.75 Aligned_cols=29 Identities=14% Similarity=-0.088 Sum_probs=26.7
Q ss_pred CCCceEEeeeecCCCCCCCceEEEEEcCC
Q 002779 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGL 107 (882)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDL~V~~~~ 107 (882)
.+.+..+||+.-+=.++.||+|..|+...
T Consensus 49 ~~a~lalGS~GR~E~~~~sDqD~alv~~d 77 (138)
T PF03445_consen 49 PFAWLALGSYGRREQTLYSDQDNALVFED 77 (138)
T ss_pred CEEEEEECcccccCCCcCccccceeeecC
Confidence 46789999999999999999999999876
No 38
>PRK05007 PII uridylyl-transferase; Provisional
Probab=60.35 E-value=39 Score=43.25 Aligned_cols=33 Identities=18% Similarity=0.237 Sum_probs=28.1
Q ss_pred CCCceEEeeeecCCCCCCCceEEEEEcCCCCch
Q 002779 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEE 111 (882)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~~ 111 (882)
++.|...|+|.-|--.|.|||||.++.+.....
T Consensus 80 ~~alvAvGgyGR~EL~p~SDiDll~l~~~~~~~ 112 (884)
T PRK05007 80 DLALVAVGGYGRGELHPLSDIDLLILSRKKLPD 112 (884)
T ss_pred ceEEEecCCCCCcccCCcccceEEEEeCCCCCh
Confidence 468899999999999999999999998754333
No 39
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=55.66 E-value=24 Score=37.72 Aligned_cols=43 Identities=23% Similarity=0.361 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCceEEeeeecCCCCCCCceEEEEEcC
Q 002779 62 RRKAVIDYVQRLIRNYLGCEVFPFGSVPLKTYLPDGDIDLTAFGG 106 (882)
Q Consensus 62 ~R~~Vv~~Lq~lI~~~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~ 106 (882)
+|+++...++.+.+ ++..-..+||.+.|=--|+||+|++|..+
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 45555555555544 34467889999999888999999999975
No 40
>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=52.86 E-value=7.3 Score=41.84 Aligned_cols=44 Identities=16% Similarity=0.148 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHhhcCC---CceEEeeeecCCCCCCCceEEEEEcC
Q 002779 62 RRKAVIDYVQRLIRNYLGC---EVFPFGSVPLKTYLPDGDIDLTAFGG 106 (882)
Q Consensus 62 ~R~~Vv~~Lq~lI~~~p~a---~V~~FGS~~tGL~LP~SDIDL~V~~~ 106 (882)
||..|.+.|+++-++. +. -+...||.+-||..|+||.|+..+.-
T Consensus 1 m~~~i~~~l~~ie~~~-~~~il~~~~sGS~a~G~~s~dSD~D~r~vy~ 47 (247)
T PF10127_consen 1 MRETIQEKLNEIEKEH-NVKILYACESGSRAYGFASPDSDYDVRGVYI 47 (247)
T ss_pred CchHHHHHHHHHHHhc-CCcEEEEecccccccCCCCCCcCcccchhcc
Confidence 3566777777777652 33 34678999999999999999876653
No 41
>PRK03059 PII uridylyl-transferase; Provisional
Probab=52.36 E-value=55 Score=41.80 Aligned_cols=49 Identities=18% Similarity=0.226 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHH-HHHHHhh--c-CCCceEEeeeecCCCCCCCceEEEEEcCC
Q 002779 59 SEERRKAVIDYV-QRLIRNY--L-GCEVFPFGSVPLKTYLPDGDIDLTAFGGL 107 (882)
Q Consensus 59 E~~~R~~Vv~~L-q~lI~~~--p-~a~V~~FGS~~tGL~LP~SDIDL~V~~~~ 107 (882)
=...|..+++.+ +.+.+.. + ++.|...|+|.-|--.|.|||||.++...
T Consensus 37 ~~~~~s~l~d~~l~~~~~~~~~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 37 LLHALSRLVDQALRRLWQECGLPAGAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 344455555433 3333321 1 46789999999999999999999999864
No 42
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=49.57 E-value=53 Score=37.36 Aligned_cols=57 Identities=19% Similarity=0.095 Sum_probs=40.0
Q ss_pred HHHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEEcCCCCc--hHHHHHHHHHHHH
Q 002779 66 VIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVE--EALANDVCSVLER 123 (882)
Q Consensus 66 Vv~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~--~~ll~~L~~~L~~ 123 (882)
+.+.|++.+.. .|++.|.+-|||.-|- ..+.|||+.|..|.... ..++..|...|++
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 33445555555 4799999999999884 46899999999886533 3355566655554
No 43
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=49.22 E-value=71 Score=40.53 Aligned_cols=41 Identities=20% Similarity=0.255 Sum_probs=32.2
Q ss_pred CCCceEEeeeecCCCCCCCceEEEEEcCCCCchHHHHHHHH
Q 002779 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCS 119 (882)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~~~ll~~L~~ 119 (882)
++.+...|.|.-|--.|.|||||.++.+....+..-+.|..
T Consensus 66 ~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~~~~e~~ie~ 106 (867)
T COG2844 66 GLALVAVGGYGRGELHPLSDIDLLLLSPQKLTDWLEQKIER 106 (867)
T ss_pred ceEEEEeccccccccCCCccceEEEecCCCCChHHHHHHHH
Confidence 47899999999999999999999999987554433333333
No 44
>PRK04374 PII uridylyl-transferase; Provisional
Probab=47.04 E-value=74 Score=40.80 Aligned_cols=49 Identities=18% Similarity=0.289 Sum_probs=34.1
Q ss_pred HHHHHHHHHHH-HHHHHhh-c---CCCceEEeeeecCCCCCCCceEEEEEcCCC
Q 002779 60 EERRKAVIDYV-QRLIRNY-L---GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (882)
Q Consensus 60 ~~~R~~Vv~~L-q~lI~~~-p---~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~ 108 (882)
.+.|..+++.+ +.+...+ + ++.|...|+|.-|--.|.|||||.++.+..
T Consensus 48 ~~~~s~~~D~~l~~~~~~~~~~~~~~alvAvGgYGR~EL~p~SDIDLliL~~~~ 101 (869)
T PRK04374 48 LALRARAVDQLMRNAWTRCIPADSGLSLHAVGGYGRGELFPRSDVDLLVLGETA 101 (869)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCcCCEEEEEcCCccccccCCcccceEEEEecCC
Confidence 33455555433 3333332 3 357899999999999999999999998743
No 45
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=45.23 E-value=90 Score=40.16 Aligned_cols=50 Identities=18% Similarity=0.178 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHH-Hhh--c---CCCceEEeeeecCCCCCCCceEEEEEcCCC
Q 002779 59 SEERRKAVIDYVQRLI-RNY--L---GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (882)
Q Consensus 59 E~~~R~~Vv~~Lq~lI-~~~--p---~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~ 108 (882)
=.+.|..+++.+-..+ +.. + ++.|...|.|.-|--.|.|||||.++.+..
T Consensus 52 ~~~~~s~~~d~~l~~~~~~~~~~~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 52 LIEDRAWFVDQILQQAWHQFDWSDDADIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCCEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 3455666665443333 222 1 357899999999999999999999998754
No 46
>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=38.99 E-value=1.1e+02 Score=39.01 Aligned_cols=30 Identities=23% Similarity=0.264 Sum_probs=26.9
Q ss_pred CCCceEEeeeecCCCCCCCceEEEEEcCCC
Q 002779 79 GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (882)
Q Consensus 79 ~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~ 108 (882)
++.+...|++.-|--.|.||||+.++....
T Consensus 43 ~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 43 GIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 567999999999999999999999998754
No 47
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=38.56 E-value=1.1e+02 Score=39.23 Aligned_cols=49 Identities=18% Similarity=0.307 Sum_probs=34.4
Q ss_pred HHHHHHHHHHH-HHHHHhh-c----CCCceEEeeeecCCCCCCCceEEEEEcCCC
Q 002779 60 EERRKAVIDYV-QRLIRNY-L----GCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (882)
Q Consensus 60 ~~~R~~Vv~~L-q~lI~~~-p----~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~ 108 (882)
.+.|..+++.+ +.+.+.+ + ++.+...|+|.-|---|.|||||.|+.+..
T Consensus 31 ~~~~~~~~D~~l~~l~~~~~~~~~~~iaLvAvGGYGR~eL~P~SDIDlliL~~~~ 85 (854)
T PRK01759 31 IENRSDFYDQLLIHLWQQFGLEEQSDLALIAVGGYGRREMFPLSDLDILILTEQP 85 (854)
T ss_pred HHHHHHHHHHHHHHHHHHccCCCCCCeEEEEeCCcccccCCCcccceEEEEeCCC
Confidence 34455555433 3333332 2 357899999999999999999999998753
No 48
>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=36.10 E-value=1.3e+02 Score=29.88 Aligned_cols=70 Identities=14% Similarity=0.191 Sum_probs=43.3
Q ss_pred cCCCceEEeeeecCCC--CCCCceEEEEEcCCCCchHHHHHHHHHHHHHhhccccccceeEEEEEeeeeeEEEEeeCCeE
Q 002779 78 LGCEVFPFGSVPLKTY--LPDGDIDLTAFGGLNVEEALANDVCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQNIV 155 (882)
Q Consensus 78 p~a~V~~FGS~~tGL~--LP~SDIDL~V~~~~~~~~~ll~~L~~~L~~~~~n~~~ef~Vk~V~vI~ARVPIIKf~~sGI~ 155 (882)
.+.++++.|-++-.+- .+..||||++.... .. .+.++++.. .. +.| ....+..++++...+..
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 4889999999886664 46799999998742 22 222222210 00 111 11356677777778999
Q ss_pred EEEeecc
Q 002779 156 VDISFNQ 162 (882)
Q Consensus 156 VDISfnn 162 (882)
+||+.-.
T Consensus 80 ~di~~~R 86 (139)
T cd05398 80 IDVATLR 86 (139)
T ss_pred EEEcccc
Confidence 9997543
No 49
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=34.47 E-value=49 Score=36.96 Aligned_cols=30 Identities=27% Similarity=0.306 Sum_probs=25.6
Q ss_pred hcCCCceEEeeeecCCCCCCCceEEEEEcC
Q 002779 77 YLGCEVFPFGSVPLKTYLPDGDIDLTAFGG 106 (882)
Q Consensus 77 ~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~ 106 (882)
.|--.+=+-||...||+-.+||||++|.+.
T Consensus 119 Vp~~~mGVTGSiL~gl~~~nSDIDfVVYG~ 148 (315)
T COG1665 119 VPVNSMGVTGSILLGLYDENSDIDFVVYGQ 148 (315)
T ss_pred CchhhccccccccccccCCCCCceEEEEcH
Confidence 355566778999999999999999999983
No 50
>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=32.94 E-value=87 Score=35.17 Aligned_cols=54 Identities=20% Similarity=0.141 Sum_probs=35.7
Q ss_pred HHHHHHHHhh-cCCCceEEeeeecCCCCCCCceEEEEEcCCCCchHHHHHHHHHHH
Q 002779 68 DYVQRLIRNY-LGCEVFPFGSVPLKTYLPDGDIDLTAFGGLNVEEALANDVCSVLE 122 (882)
Q Consensus 68 ~~Lq~lI~~~-p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~~~~~ll~~L~~~L~ 122 (882)
+.|...++.. +.++|.+-||+.-|..+ .+||||+|..+......++.+|...|.
T Consensus 148 ~~i~~~l~~~~~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~~~~~~~v~~~l~ 202 (307)
T cd00141 148 EIIKEALREVDPVLQVEIAGSYRRGKET-VGDIDILVTHPDATSRGLLEKVVDALV 202 (307)
T ss_pred HHHHHHHHhCCCceEEEEcccccCCCCc-cCCEEEEEecCCccccccHHHHHHHHH
Confidence 3444444443 57899999999887654 689999998765322333455555554
No 51
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=28.48 E-value=27 Score=39.76 Aligned_cols=24 Identities=29% Similarity=0.281 Sum_probs=20.3
Q ss_pred ceEEeeeecCCCCCCCceEEEEEc
Q 002779 82 VFPFGSVPLKTYLPDGDIDLTAFG 105 (882)
Q Consensus 82 V~~FGS~~tGL~LP~SDIDL~V~~ 105 (882)
+..+||.+.||..|+||+|+--+.
T Consensus 6 ~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEecccceeCCCCCCcccccceee
Confidence 357999999999999999976443
No 52
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=27.34 E-value=2.5e+02 Score=29.18 Aligned_cols=80 Identities=19% Similarity=0.194 Sum_probs=44.0
Q ss_pred cCCCceEEeeeecC----CCCCCCceEEEEEcCCCCchHHHHH-HHHHHHHHhhccccccceeEEEEEeeeeeEEEEeeC
Q 002779 78 LGCEVFPFGSVPLK----TYLPDGDIDLTAFGGLNVEEALAND-VCSVLEREDQNKAAEFVVKDAQLIRAEVKLVKCLVQ 152 (882)
Q Consensus 78 p~a~V~~FGS~~tG----L~LP~SDIDL~V~~~~~~~~~ll~~-L~~~L~~~~~n~~~ef~Vk~V~vI~ARVPIIKf~~s 152 (882)
.+.++.+.|+++.. .--.+.|||+++..+... ...+ +..+.+.. .+....- -....--++++...
T Consensus 15 ~gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~---~~~~~~~~~a~~~------g~~~~~~-~~~~~~~~~~~~~~ 84 (181)
T PF09970_consen 15 RGVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPN---LEADALREVAEEN------GWDLGWT-DFGTPRYVVKVGGE 84 (181)
T ss_pred cCCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchH---HHHHHHHHHHHHc------CCCcCcc-ccCCCceEEEeCCC
Confidence 36788999998654 444589999999765421 1122 22222211 1111100 11233334566667
Q ss_pred CeEEEEeeccCCccch
Q 002779 153 NIVVDISFNQLGGLST 168 (882)
Q Consensus 153 GI~VDISfnn~~Gi~n 168 (882)
++.||+ +.|..++.-
T Consensus 85 ~v~IDl-~~ni~~~~v 99 (181)
T PF09970_consen 85 DVRIDL-LENIGDFYV 99 (181)
T ss_pred CeEEEc-hhccCCccc
Confidence 999999 666666653
No 53
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=25.57 E-value=2.6e+02 Score=31.84 Aligned_cols=43 Identities=23% Similarity=0.115 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHh-hcCCCceEEeeeecCCCCCCCceEEEEEcCCC
Q 002779 65 AVIDYVQRLIRN-YLGCEVFPFGSVPLKTYLPDGDIDLTAFGGLN 108 (882)
Q Consensus 65 ~Vv~~Lq~lI~~-~p~a~V~~FGS~~tGL~LP~SDIDL~V~~~~~ 108 (882)
.+.+.|...++. .+.++|.+-||+.-|.-+ .+||||+|..+..
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 344445555555 467899999999988754 6899999997763
No 54
>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=22.38 E-value=1.1e+02 Score=31.12 Aligned_cols=46 Identities=28% Similarity=0.483 Sum_probs=26.2
Q ss_pred HHHHHHHH---HHHHHHHHHhh---cCCCceEEeeeecCCCCCC---CceEEEEE
Q 002779 59 SEERRKAV---IDYVQRLIRNY---LGCEVFPFGSVPLKTYLPD---GDIDLTAF 104 (882)
Q Consensus 59 E~~~R~~V---v~~Lq~lI~~~---p~a~V~~FGS~~tGL~LP~---SDIDL~V~ 104 (882)
+...|..| +..+.++++++ -.-.+..|||+..-+--|. +|||+.=.
T Consensus 24 ~~~grh~vS~lV~~V~klmeEyLrrhNk~CicYGSyslhllN~~I~YgDIDilqT 78 (149)
T PF03296_consen 24 KVMGRHNVSDLVENVNKLMEEYLRRHNKSCICYGSYSLHLLNPNIKYGDIDILQT 78 (149)
T ss_dssp ---------THHHHHHHHHHHHHHH-TTTEEEESHHHHHTTSTTS--SS-EEEES
T ss_pred cccccccCcHHHHHHHHHHHHHHHhhCCCeEEeeeeeEEecCCCcccCcchhhhc
Confidence 44445544 45555555553 3678999999988886664 99998743
No 55
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=22.27 E-value=42 Score=36.85 Aligned_cols=20 Identities=30% Similarity=0.305 Sum_probs=18.0
Q ss_pred eeeecCCCCCCCceEEEEEc
Q 002779 86 GSVPLKTYLPDGDIDLTAFG 105 (882)
Q Consensus 86 GS~~tGL~LP~SDIDL~V~~ 105 (882)
||..-|+..|+||+||-.+.
T Consensus 17 GS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 17 GSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred cccccCCCCCCCccceeeEE
Confidence 99999999999999987664
No 56
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=21.06 E-value=49 Score=39.89 Aligned_cols=70 Identities=36% Similarity=0.450 Sum_probs=52.3
Q ss_pred eEEcCCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhcCCCCCCCCCCC
Q 002779 313 LNIVDPLKENNNLGRSVSKGNFYRIRSAFTYGARKLGHILSQPEESLTDELRKFFSNTLDRHGSGQRPDVQDP 385 (882)
Q Consensus 313 L~IEDPfd~snNlGRSVs~~n~~rIr~aF~~A~~~L~~iL~~p~~~i~~el~~fF~~tl~r~g~g~rpd~~~~ 385 (882)
.....++....|+| +-.-.|...-. |.+.+.++.-.+.++.+.+..+...||.+++.+.|.+.++|..+|
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 33445666667777 32223433322 567788888888899999999999999999999999999997555
No 57
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=20.38 E-value=1.4e+02 Score=34.95 Aligned_cols=68 Identities=19% Similarity=0.307 Sum_probs=41.0
Q ss_pred hhHHHHHHHHHHHH---HHcCCCHHHHHHH---HHHHHHHHHHHHhh---cCCCceEEeeeecCCCCCC---CceEEEEE
Q 002779 37 EYWQRAEEATQGII---AQVQPTVVSEERR---KAVIDYVQRLIRNY---LGCEVFPFGSVPLKTYLPD---GDIDLTAF 104 (882)
Q Consensus 37 ~~w~~le~~i~efv---~~L~PT~eE~~~R---~~Vv~~Lq~lI~~~---p~a~V~~FGS~~tGL~LP~---SDIDL~V~ 104 (882)
-....++....+++ .-..|.+ ...-| ..++..|.++++++ -.-.+..||||..-+--|. +|||+.=.
T Consensus 117 ~d~~sm~~la~~~L~synv~~~~~-kvmgrh~VSdLV~~V~klmeEyLrrhNk~CicYGSySlhllNp~I~YgDIDilqT 195 (467)
T PHA02996 117 YDYSSMEKLARDALNSYNVAVISE-KVMGRHNVSDLVGNVNKLMEEYLRRHNKSCICYGSYSLHLLNPEIEYGDIDILQT 195 (467)
T ss_pred cchHHHHHHHHHHHHhccccCCCc-cccccccccHHHHHHHHHHHHHHHhcCCceEEeeceeeeecCCccccCCcceeee
Confidence 33444444444444 3345553 21113 33566666666664 3678899999998887664 99999754
Q ss_pred c
Q 002779 105 G 105 (882)
Q Consensus 105 ~ 105 (882)
.
T Consensus 196 N 196 (467)
T PHA02996 196 N 196 (467)
T ss_pred c
Confidence 3
Done!