Query 005049
Match_columns 716
No_of_seqs 253 out of 716
Neff 4.8
Searched_HMMs 46136
Date Thu Mar 28 17:13:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005049.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005049hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2245 Poly(A) polymerase and 100.0 1E-139 2E-144 1133.4 38.8 465 6-479 12-502 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 6E-132 1E-136 1108.4 51.2 497 7-510 50-572 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 2E-118 5E-123 936.5 34.7 470 1-478 1-531 (552)
4 PF04928 PAP_central: Poly(A) 100.0 4.7E-73 1E-77 585.8 22.1 253 7-357 2-254 (254)
5 COG5260 TRF4 DNA polymerase si 100.0 1.6E-30 3.5E-35 284.4 24.9 261 26-340 56-342 (482)
6 KOG1906 DNA polymerase sigma [ 100.0 4.1E-28 8.9E-33 270.4 25.0 267 21-340 57-341 (514)
7 PF04926 PAP_RNA-bind: Poly(A) 99.9 3.5E-27 7.6E-32 227.5 8.4 118 358-475 1-155 (157)
8 cd05402 NT_PAP_TUTase Nucleoti 99.8 1.4E-18 3E-23 158.1 13.2 98 49-163 1-101 (114)
9 KOG2277 S-M checkpoint control 99.7 1.3E-16 2.8E-21 182.1 20.3 251 41-341 126-431 (596)
10 PRK13300 tRNA CCA-pyrophosphor 99.5 8.9E-12 1.9E-16 138.9 33.0 302 31-404 3-321 (447)
11 TIGR03671 cca_archaeal CCA-add 99.5 4.3E-12 9.4E-17 139.7 29.9 298 32-404 3-318 (408)
12 COG1746 CCA1 tRNA nucleotidylt 99.1 7.6E-09 1.6E-13 113.7 22.2 303 29-404 5-322 (443)
13 PF03813 Nrap: Nrap protein; 99.0 2.1E-08 4.5E-13 121.9 23.1 284 91-394 1-358 (972)
14 KOG2054 Nucleolar RNA-associat 98.3 9.5E-06 2.1E-10 96.7 16.0 283 83-386 147-478 (1121)
15 smart00572 DZF domain in DSRM 98.2 0.00012 2.6E-09 76.6 18.6 214 85-339 4-230 (246)
16 cd05400 NT_2-5OAS_ClassI-CCAas 97.7 0.00029 6.2E-09 66.7 11.0 77 83-162 27-110 (143)
17 PF03828 PAP_assoc: Cid1 famil 97.7 3.1E-05 6.6E-10 63.3 2.8 55 254-312 1-59 (60)
18 cd05397 NT_Pol-beta-like Nucle 97.5 0.00015 3.3E-09 57.9 4.9 26 83-108 17-42 (49)
19 PF01909 NTP_transf_2: Nucleot 97.3 0.00024 5.3E-09 61.8 4.5 32 83-114 14-45 (93)
20 PF09249 tRNA_NucTransf2: tRNA 97.0 0.0013 2.8E-08 61.6 6.0 93 214-328 3-97 (114)
21 cd05403 NT_KNTase_like Nucleot 96.7 0.0024 5.2E-08 54.9 5.2 31 84-114 19-49 (93)
22 PF03813 Nrap: Nrap protein; 96.3 0.033 7.2E-07 68.8 13.3 156 193-356 668-839 (972)
23 PF14091 DUF4269: Domain of un 96.0 0.07 1.5E-06 52.6 11.0 118 85-229 17-144 (152)
24 COG1669 Predicted nucleotidylt 95.4 0.057 1.2E-06 49.5 7.1 29 84-112 25-53 (97)
25 PF07528 DZF: DZF domain; Int 95.1 0.92 2E-05 48.1 16.4 209 89-338 2-231 (248)
26 COG1708 Predicted nucleotidylt 94.0 0.087 1.9E-06 47.7 5.0 29 83-111 26-54 (128)
27 PRK13746 aminoglycoside resist 93.8 0.12 2.6E-06 55.1 6.2 31 85-115 30-60 (262)
28 PF10421 OAS1_C: 2'-5'-oligoad 92.9 0.11 2.4E-06 52.9 4.0 47 207-253 41-88 (190)
29 cd00141 NT_POLXc Nucleotidyltr 91.9 2.3 5E-05 46.2 12.9 113 82-234 159-277 (307)
30 PRK02098 phosphoribosyl-dephos 91.1 0.44 9.6E-06 49.7 6.1 33 83-115 120-158 (221)
31 TIGR03135 malonate_mdcG holo-A 90.2 0.55 1.2E-05 48.3 5.8 44 83-128 108-157 (202)
32 PF14792 DNA_pol_B_palm: DNA p 84.7 1.9 4.1E-05 40.3 5.4 53 82-135 23-78 (112)
33 COG1665 Predicted nucleotidylt 82.6 0.29 6.4E-06 52.4 -0.9 28 85-112 123-150 (315)
34 cd05401 NT_GlnE_GlnD_like Nucl 82.6 5.5 0.00012 39.0 8.0 48 82-129 54-101 (172)
35 PF03445 DUF294: Putative nucl 76.8 14 0.00031 35.5 8.6 48 82-129 48-96 (138)
36 COG2844 GlnD UTP:GlnB (protein 75.7 9.2 0.0002 46.8 8.3 54 57-114 44-97 (867)
37 KOG2054 Nucleolar RNA-associat 72.6 21 0.00045 44.7 10.3 122 195-323 806-936 (1121)
38 PF10620 MdcG: Phosphoribosyl- 68.9 8.2 0.00018 40.0 5.2 33 82-114 115-153 (213)
39 PRK05007 PII uridylyl-transfer 65.9 20 0.00044 44.6 8.6 57 53-113 54-110 (884)
40 KOG2534 DNA polymerase IV (fam 64.6 27 0.00059 38.7 8.2 77 41-131 142-218 (353)
41 PRK00227 glnD PII uridylyl-tra 63.5 18 0.00039 43.9 7.3 65 47-127 5-69 (693)
42 smart00483 POLXc DNA polymeras 63.1 97 0.0021 34.3 12.4 31 82-113 163-193 (334)
43 PRK08609 hypothetical protein; 62.1 47 0.001 39.4 10.3 109 82-234 174-283 (570)
44 PRK03059 PII uridylyl-transfer 60.5 19 0.00041 44.7 6.9 53 53-111 37-89 (856)
45 PRK01293 phosphoribosyl-dephos 60.0 22 0.00047 37.0 6.3 44 83-128 109-158 (207)
46 KOG3793 Transcription factor N 57.3 3E+02 0.0065 30.3 14.6 212 24-268 38-264 (362)
47 PF03710 GlnE: Glutamate-ammon 57.0 98 0.0021 32.7 10.7 60 70-129 113-179 (247)
48 PRK01759 glnD PII uridylyl-tra 57.0 35 0.00075 42.4 8.4 56 53-112 30-85 (854)
49 PF10127 Nuc-transf: Predicted 56.8 9 0.0002 40.0 3.0 26 85-110 22-47 (247)
50 PF09970 DUF2204: Nucleotidyl 54.1 50 0.0011 33.4 7.6 77 82-164 15-95 (181)
51 PF03281 Mab-21: Mab-21 protei 54.1 3E+02 0.0064 29.3 16.1 97 207-333 190-289 (292)
52 COG2413 Predicted nucleotidylt 43.7 45 0.00097 34.9 5.4 28 85-112 39-66 (228)
53 PRK03381 PII uridylyl-transfer 43.3 73 0.0016 39.2 8.1 30 82-111 56-85 (774)
54 PRK00275 glnD PII uridylyl-tra 42.1 85 0.0018 39.3 8.5 32 82-113 77-108 (895)
55 PRK04374 PII uridylyl-transfer 41.9 83 0.0018 39.3 8.4 29 83-111 72-100 (869)
56 TIGR01693 UTase_glnD [Protein- 39.7 94 0.002 38.5 8.4 31 82-112 42-72 (850)
57 PF03296 Pox_polyA_pol: Poxvir 36.1 50 0.0011 32.6 4.2 78 31-128 9-92 (149)
58 PF10281 Ish1: Putative stress 35.5 30 0.00065 26.2 2.1 31 28-59 6-36 (38)
59 COG3541 Predicted nucleotidylt 33.5 20 0.00044 38.2 1.2 21 88-108 15-35 (248)
60 PF07357 DRAT: Dinitrogenase r 33.2 17 0.00036 39.1 0.5 20 374-393 96-115 (262)
61 PRK14109 bifunctional glutamin 32.6 98 0.0021 39.3 7.0 48 82-129 722-773 (1007)
62 COG1796 POL4 DNA polymerase IV 31.9 78 0.0017 35.2 5.3 70 84-162 181-250 (326)
63 PHA02603 nrdC.11 hypothetical 29.3 31 0.00066 38.4 1.7 24 86-109 6-29 (330)
64 PRK14109 bifunctional glutamin 26.3 2E+02 0.0044 36.6 8.3 48 82-129 214-265 (1007)
65 PF04439 Adenyl_transf: Strept 23.0 65 0.0014 35.0 2.8 79 86-164 24-108 (282)
66 PRK05092 PII uridylyl-transfer 22.6 2.4E+02 0.0053 35.5 7.9 30 83-112 105-134 (931)
67 PRK11072 bifunctional glutamin 22.5 2.1E+02 0.0046 36.3 7.4 59 70-129 667-736 (943)
68 PRK11072 bifunctional glutamin 22.0 7.1E+02 0.015 31.7 11.8 48 82-129 153-208 (943)
69 COG1391 GlnE Glutamine synthet 22.0 5.3E+02 0.011 32.8 10.3 45 85-129 173-225 (963)
70 PF15431 TMEM190: Transmembran 20.3 64 0.0014 30.8 1.8 28 210-237 73-102 (134)
No 1
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=100.00 E-value=1.1e-139 Score=1133.42 Aligned_cols=465 Identities=58% Similarity=1.013 Sum_probs=447.2
Q ss_pred CCcccccCCCCCCCCChHHHHhhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcE
Q 005049 6 GQRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAK 85 (716)
Q Consensus 6 ~~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~ak 85 (716)
++.||||+|||+++||++|.++|.+|+++|+++|+||++||..+|++||++|++||++||+++++++|++++++.++||+
T Consensus 12 ~~~~Gvt~PiS~a~p~~~d~~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggk 91 (562)
T KOG2245|consen 12 TKSYGVTQPISTAGPTEADIALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGK 91 (562)
T ss_pred cccccccCCcccCCCcHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCce
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEecCeeeeEEeeeccc
Q 005049 86 IFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSL 165 (716)
Q Consensus 86 I~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~ 165 (716)
|+||||||||||+||||||+|||+|+|++|+ |||..|.++|+++++|++|++|++|+||||||+|+||+|||+||+++.
T Consensus 92 IftfGSYRLGVhg~GADIDtLcV~Prhv~R~-DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfKf~GI~IDllfArL~l 170 (562)
T KOG2245|consen 92 IFTFGSYRLGVHGPGADIDTLCVGPRHVSRS-DFFTSFYDMLKERPEVTELHAVEDAFVPIIKFKFDGIEIDLLFARLAL 170 (562)
T ss_pred EEeccceeecccCCCCCcceeeeccccccHH-HHHHHHHHHHhcCccccccccccccccceEEEEecCeeeeeeehhccc
Confidence 9999999999999999999999999999996 999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCchhhhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHH
Q 005049 166 WVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVAR 245 (716)
Q Consensus 166 ~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~ 245 (716)
++||+++||+||++|+++|++|+||||||||||+||+|||+.+.||.+|||||+|||+||||+|.+||||||+|||||||
T Consensus 171 ~~VP~dldl~ddslLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA~LVAR 250 (562)
T KOG2245|consen 171 PVVPEDLDLSDDSLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWAMLVAR 250 (562)
T ss_pred ccCCCcccccchHhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHH
Q 005049 246 ICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLR 325 (716)
Q Consensus 246 vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~ 325 (716)
+|||||||+++.||.+||.+|++|+||+||+|+.+++|.++++||||+.|+.||||+|||||||||+||++||||+||++
T Consensus 251 iCQLYPNA~~s~Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS~ST~~ 330 (562)
T KOG2245|consen 251 ICQLYPNASPSTLVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVSRSTLK 330 (562)
T ss_pred HHccCCCcchHHHHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCcceecccccCCcccccccccccHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHccCCCCCcccccCCcchhhhccceEEEEeeecChhhhhchhhHHHHHHHHHHHHhhcCCCcc-
Q 005049 326 IMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKVNATTLHT- 404 (716)
Q Consensus 326 vI~~EF~RA~~Il~~i~~~~~~~~W~~Lfep~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~- 404 (716)
+|++||+||++||++|+.++. +|++|||+++||.+|||||+|+++|.++|++.+|.||||||+|+|+.+||++....
T Consensus 331 Vi~~Ef~~g~~I~~~i~~~k~--~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~klE~~~~i~~ 408 (562)
T KOG2245|consen 331 VITEEFKRGLEICDDIELNKL--DWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERNQVILI 408 (562)
T ss_pred HHHHHHHHHHHHHHHHHhccc--cHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhhcceEE
Confidence 999999999999999999998 99999999999999999999999999999999999999999999999999954311
Q ss_pred -------------------eeEEEEEeccccCCCCCCCCceechHHHHHHHHHHHH----hhccCCCC--cEEEEEEecc
Q 005049 405 -------------------WLFAFFTSIKRKQGVPVGEGEQFDIRLTVKEFKQAVS----MYTLRKPG--MQISVAHVTR 459 (716)
Q Consensus 405 -------------------~~~~ffIGL~~~~~~~~~~~~~~di~~~v~eF~~~v~----~~~~~~~~--m~i~v~~vkr 459 (716)
+...|||||....+ .++|++..+++|+..|+ .++.+++| |++.+.|+||
T Consensus 409 ahp~P~~f~~~~~~~~~~~~~~~~~igl~~~e~------~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~kr 482 (562)
T KOG2245|consen 409 AHPNPKKFKDTYNCPLEEDPESLWFIGLEFDEN------VKIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKR 482 (562)
T ss_pred ecCCcccccccccCCcccchhHhhhhccccccc------ccchhhhhHHHhhhhhhhcceeeeeeecccccccccccccc
Confidence 33468899987553 34999999999999998 67888999 7788889999
Q ss_pred CCCCCCcCCCCCCCCCCCCC
Q 005049 460 RNLPNFVFPGGVRPSRPSKG 479 (716)
Q Consensus 460 ~~LP~~v~~~~~~~~~~~~~ 479 (716)
++|+.++++...|..|..+.
T Consensus 483 r~l~~~~~~~~l~~~k~~~~ 502 (562)
T KOG2245|consen 483 RSLIQTITKEFLRLCKQYKK 502 (562)
T ss_pred cccccccCHHHhhHHHhhcc
Confidence 99999999999888776654
No 2
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=6.3e-132 Score=1108.36 Aligned_cols=497 Identities=44% Similarity=0.831 Sum_probs=459.6
Q ss_pred CcccccCCCCCCCCChHHHHhhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEE
Q 005049 7 QRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKI 86 (716)
Q Consensus 7 ~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI 86 (716)
..||||+|||+++||++|++.+++|+++|+++|+|||+||.++|++||++|++++++|+++++.++|++++++.+++++|
T Consensus 50 ~~~Gvt~Pis~~~Pt~~d~~~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I 129 (593)
T PTZ00418 50 LSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKL 129 (593)
T ss_pred cccCCCCCccCCCCChHHHhhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEE
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEecCeeeeEEeeecccc
Q 005049 87 FTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLW 166 (716)
Q Consensus 87 ~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~~ 166 (716)
+|||||+||||+|+||||+|||+|.|++|+ +||..|+++|+++++|++|++|++|+||||||+++||+|||+||+++..
T Consensus 130 ~tfGSYrLGV~~pgSDID~L~V~P~~vtre-dFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~~~GI~iDL~fa~l~~~ 208 (593)
T PTZ00418 130 FTFGSYRLGVVAPGSDIDTLCLAPRHITRE-SFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDLLFANLPLP 208 (593)
T ss_pred EEeccccccCCCCCCcccEEEECCCCCCHH-HHHHHHHHHHhcCCCcceeeccCccccCeEEEEECCEEEeeeecccCCC
Confidence 999999999999999999999999999995 9999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCchh-hhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHH
Q 005049 167 VIPEDLDISQDS-ILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVAR 245 (716)
Q Consensus 167 ~ip~~ldl~~d~-lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~ 245 (716)
.||+++++.+++ +|+++|++++|||||+||+|+|+++||+.+.||.+|||||+|||+||||+|++||||||+|||||||
T Consensus 209 ~vp~~~~~l~d~~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAILvAR 288 (593)
T PTZ00418 209 TIPDCLNSLDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAILTAR 288 (593)
T ss_pred CCCccccccCchhhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHH
Confidence 999999988776 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHhhccCCCCCceeeccccc-----CCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccC
Q 005049 246 ICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEE-----GSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVS 320 (716)
Q Consensus 246 vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~-----G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs 320 (716)
+||+|||+++++||.+||.+|++|+||+||+|+.+++ |.++++||||+.|++|++|+||||||+||+||+|||||
T Consensus 289 VCQLyPna~~s~Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~mNst~nVt 368 (593)
T PTZ00418 289 ICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPSMNSTHNVT 368 (593)
T ss_pred HHHhCCCCCHHHHHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCCcccccccc
Confidence 9999999999999999999999999999999998875 77889999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHc-cCCCCCcccccCCcchhhhccceEEEEeeecChhhhhchhhHHHHHHHHHHHHhhc
Q 005049 321 TSTLRIMMDEFQRGHEICEAMEK-NEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKVNA 399 (716)
Q Consensus 321 ~sTl~vI~~EF~RA~~Il~~i~~-~~~~~~W~~Lfep~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~ 399 (716)
.+|+++|++||+||++||+++.. ++. +|++||+|++||.+|++||+|++.+.+++++..|.||||||||.|+.+||+
T Consensus 369 ~sT~~vI~~Ef~Ra~~i~~~i~~~~~~--~W~~Lfep~~Ff~~Yk~yl~V~v~a~~~~~~~~w~G~VESRlR~Lv~~LE~ 446 (593)
T PTZ00418 369 YTTKRVITEEFKRAHEIIKYIEKNSEN--TWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKKLET 446 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC--CHHHHcCCcchhhhcceEEEEEEEECCHHHhhhhhhHHHHHHHHHHHHhhc
Confidence 99999999999999999999887 666 999999999999999999999999999999999999999999999999997
Q ss_pred CCCc----------------ceeEEEEEeccccCCCCCCCCceechHHHHHHHHHHHHhhc---cCCCCcEEEEEEeccC
Q 005049 400 TTLH----------------TWLFAFFTSIKRKQGVPVGEGEQFDIRLTVKEFKQAVSMYT---LRKPGMQISVAHVTRR 460 (716)
Q Consensus 400 ~~~~----------------~~~~~ffIGL~~~~~~~~~~~~~~di~~~v~eF~~~v~~~~---~~~~~m~i~v~~vkr~ 460 (716)
.... .|++||||||.++.+... +.+++||+.++++|++.|++|. .|+++|+|+|+|||++
T Consensus 447 ~~~i~~~p~P~~f~~~~~~~~~~~~ffIGL~~~~~~~~-~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~~Vk~~ 525 (593)
T PTZ00418 447 LNNLKIRPYPKFFKYQDDGWDYASSFFIGLVFFSKNVY-NNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIKYLKKS 525 (593)
T ss_pred cCCceEeecCcccccCCCCceeEEEEEEeEeeccCCCC-CCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEEEeehH
Confidence 5421 267899999998765432 3468999999999999999886 4788999999999999
Q ss_pred CCCCCcCCCCCCCCCCCCCcccchhhhcccCCCCCCCCCCCccccccccc
Q 005049 461 NLPNFVFPGGVRPSRPSKGTWDSRRALERKVSSHTKPGADDGRKRKQTDD 510 (716)
Q Consensus 461 ~LP~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~ 510 (716)
+||+|||+.|.++.+..|...+ .+..+..+++|.|.....+.++.++
T Consensus 526 ~Lp~~v~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~ 572 (593)
T PTZ00418 526 QLPAFVLSQTPEEPVKTKANTK---TNTSSATTSGQSGSSGSTSNSNSNE 572 (593)
T ss_pred hCCHhhccCCCcCCCccccccc---cccccccccccccccCcccCCCCCc
Confidence 9999999988877665553322 2334444555666655555555444
No 3
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=100.00 E-value=2.3e-118 Score=936.46 Aligned_cols=470 Identities=45% Similarity=0.836 Sum_probs=449.0
Q ss_pred CCCCCCCcccccCCCCCCCCChHHHHhhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhh
Q 005049 1 MGSSNGQRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQ 80 (716)
Q Consensus 1 ~~~~~~~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~ 80 (716)
|++ .+.||||+|||+.+.|+++.+++.+|+++|++.|+|+++.|.+.|.+||+.|+.++++++.++++.+|+.+.++.
T Consensus 1 Ms~--~k~~GiTgP~ST~~aTe~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar 78 (552)
T COG5186 1 MSE--KKKYGITGPLSTREATEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMAR 78 (552)
T ss_pred CCc--cccccccCCcccccccHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccc
Confidence 555 489999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcEEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEecCeeeeEEe
Q 005049 81 EANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLY 160 (716)
Q Consensus 81 ~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iDLsf 160 (716)
++|++|+||||||||||+||||||+|||.|.|++|+ |||..|..+|++.++++++.+|++|+||||||+|+||+|||.|
T Consensus 79 ~aGGKIFTyGSYRLGVhgpGsDIDtLvvVPkHVsR~-dFFt~f~~~Lrer~ei~eva~vpDAfVPIIK~KF~GIsIDLif 157 (552)
T COG5186 79 PAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVSRS-DFFTHFYEELRERPEIEEVAKVPDAFVPIIKLKFQGISIDLIF 157 (552)
T ss_pred cCCceeeeecceeeeccCCCCCcceEEEecccccHH-HHHHHHHHHhccCcchhhhccCCcccceeEEEEecCccceeee
Confidence 999999999999999999999999999999999995 9999999999999999999999999999999999999999999
Q ss_pred eeccccccCCCCCCCchhhhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHH
Q 005049 161 ARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWA 240 (716)
Q Consensus 161 a~l~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swa 240 (716)
|++..+++|..|+++|+++|++|||+|++||||.||||+|++|||+...|+.+||+||+||++|.||.|.+||.||++|+
T Consensus 158 ARLs~P~Vp~~l~Lsd~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwa 237 (552)
T COG5186 158 ARLSIPVVPDGLNLSDDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWA 237 (552)
T ss_pred eeccCCcCCCcccccchhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccC
Q 005049 241 LLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVS 320 (716)
Q Consensus 241 LLVa~vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs 320 (716)
|||||+||||||++...++.+||.++++|+||+||+|.+|++|.++.++|||+.|+.|++|+||||||+||+||.|||||
T Consensus 238 m~VARiCQLYPNA~S~vIv~kFF~ils~WnWPqPviLkPieDgplqvrvWnPKvYpsDk~HRMPvITPAYPSMCATHNit 317 (552)
T COG5186 238 MCVARICQLYPNASSFVIVCKFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATHNIT 317 (552)
T ss_pred HHHHHHHhhccCcchHhHHHHHHHHHHhcCCCCCeEeeeccCCCeeEEeeCCccCcccccccCccccCCchhhhhhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHccCCCCCcccccCCcchhhhccceEEEEeeecChhhhhchhhHHHHHHHHHHHHhhcC
Q 005049 321 TSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKVNAT 400 (716)
Q Consensus 321 ~sTl~vI~~EF~RA~~Il~~i~~~~~~~~W~~Lfep~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~ 400 (716)
.||..+|..||-||++|+.+|+.+.. +|..||+..+||.+||+||.|.+.+.++|++.+|.|+|||++|.|+.+||..
T Consensus 318 ~STq~vIl~EfvRa~~I~~di~~n~~--~w~~lFek~DFF~RYk~yleitA~s~~~E~~lKW~GlvESKiR~Lv~klE~v 395 (552)
T COG5186 318 NSTQHVILMEFVRAHKILSDIERNAL--DWRRLFEKSDFFSRYKLYLEITAMSSCEEDFLKWEGLVESKIRILVSKLEAV 395 (552)
T ss_pred chhhhhHHHHHHHHHHhhhhHhhccc--cHHHHHHhhhHHHHHhHhhhhhhhhcchhhhhhhhhHHHHHHHHHHHHHHHh
Confidence 99999999999999999999998877 9999999999999999999999999999999999999999999999999963
Q ss_pred C-------Cc----------------------------------------------------ceeEEEEEeccccCCCCC
Q 005049 401 T-------LH----------------------------------------------------TWLFAFFTSIKRKQGVPV 421 (716)
Q Consensus 401 ~-------~~----------------------------------------------------~~~~~ffIGL~~~~~~~~ 421 (716)
. +. .|++.|||||+.....+
T Consensus 396 d~i~~AhPF~K~F~~~y~c~~Ee~~e~i~~~~~~~~a~~s~d~~kl~~d~~~eees~~d~~k~y~tt~yIgld~~~~~~- 474 (552)
T COG5186 396 DDILYAHPFPKAFRKVYNCVAEESIEKIGSGVTLEVAYESTDHEKLANDTVPEEESMEDGMKVYCTTFYIGLDVIPVKP- 474 (552)
T ss_pred hhhhhcCcCChhhhhhcCCccHHHHHHHhcccceeehhhccchhhhccccCchhhhhccccceeeeEEEEEEEeeecCC-
Confidence 1 10 06778999998754333
Q ss_pred CCCceechHHHHHHHHHHHHhhccCCC-CcEEEEEEeccCCCCCCcCC-CCCCCCCCCC
Q 005049 422 GEGEQFDIRLTVKEFKQAVSMYTLRKP-GMQISVAHVTRRNLPNFVFP-GGVRPSRPSK 478 (716)
Q Consensus 422 ~~~~~~di~~~v~eF~~~v~~~~~~~~-~m~i~v~~vkr~~LP~~v~~-~~~~~~~~~~ 478 (716)
++++||..+++||.+.+++|++++. +|.|.|..+|+.+||+-||. +..||+..+|
T Consensus 475 --~kkvdi~~p~~EF~elcr~~d~gd~~~mni~v~~~K~~dlpdeVF~~geerPs~~sK 531 (552)
T COG5186 475 --GKKVDIEQPVKEFIELCREYDEGDASGMNIEVNSLKRKDLPDEVFYPGEERPSNSSK 531 (552)
T ss_pred --CceeeeeccHHHHHHHHHHhhccccceeeeehhhccccCCchhhcCCCccCcccccc
Confidence 5789999999999999999987764 79999999999999999995 7778876554
No 4
>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=100.00 E-value=4.7e-73 Score=585.78 Aligned_cols=253 Identities=62% Similarity=1.102 Sum_probs=202.9
Q ss_pred CcccccCCCCCCCCChHHHHhhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEE
Q 005049 7 QRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKI 86 (716)
Q Consensus 7 ~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI 86 (716)
++||||+|||+++||+.|++.+++|+++|+++++|||+||.++|++||++|++++++|+++
T Consensus 2 ~~~Gvt~PIS~~~Pt~~Dl~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~------------------- 62 (254)
T PF04928_consen 2 KQYGVTKPISLAPPTEKDLKRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ------------------- 62 (254)
T ss_dssp GGGSTT--S------HHHHHHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH-------------------
T ss_pred CccCCCCCccCCCCChhhHHhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh-------------------
Confidence 7899999999999999999999999999999999999999999999999999999999853
Q ss_pred EEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEecCeeeeEEeeecccc
Q 005049 87 FTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLW 166 (716)
Q Consensus 87 ~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~~ 166 (716)
...
T Consensus 63 -----------------------------------------------------------------------------~~~ 65 (254)
T PF04928_consen 63 -----------------------------------------------------------------------------ALP 65 (254)
T ss_dssp -----------------------------------------------------------------------------SSS
T ss_pred -----------------------------------------------------------------------------hhc
Confidence 455
Q ss_pred ccCCCCCCCchhhhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHH
Q 005049 167 VIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARI 246 (716)
Q Consensus 167 ~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~v 246 (716)
++|+++++.++++|++||++|++||||+||+++|+++||+.+.||.++||||+|||+||||+|++||||||+||||||++
T Consensus 66 ~~p~~l~~~~~~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RGIYsn~~GylGGI~waILvArv 145 (254)
T PF04928_consen 66 RVPEDLDLLDDDPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRGIYSNVFGYLGGIHWAILVARV 145 (254)
T ss_dssp SB-TT--TT-GGGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT-B-CCCTSB-HHHHHHHHHHH
T ss_pred CCCcccccCCchhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHccccchhhccchHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHH
Q 005049 247 CQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRI 326 (716)
Q Consensus 247 cQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~v 326 (716)
||+|||+++++||.+||.+|++|+|++||+|+++.++.+++++|+|+.+.+|+.|+|||+||+||+||+|+|||.+|+++
T Consensus 146 cql~Pn~~~~~ll~~FF~~ys~W~W~~PV~l~~~~~~~~~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~ 225 (254)
T PF04928_consen 146 CQLYPNASPSTLLSRFFQIYSQWDWPNPVVLDPIEDGPLGFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRI 225 (254)
T ss_dssp HHHSTT--HHHHHHHHHHHHHCS-TTS-EESS-----SSSCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHH
T ss_pred HHHCccccccchHHHHHHHhcCCCCCCceeecccccCcccccCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHH
Confidence 99999999999999999999999999999999999988999999999988899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHccCCCCCcccccCCc
Q 005049 327 MMDEFQRGHEICEAMEKNEADVDWDTLFEPF 357 (716)
Q Consensus 327 I~~EF~RA~~Il~~i~~~~~~~~W~~Lfep~ 357 (716)
|++||+||+++++++..++. +|++||+|+
T Consensus 226 i~~Ef~ra~~i~~~~~~~~~--~W~~L~e~~ 254 (254)
T PF04928_consen 226 IREEFQRAHEILSEILKGGA--SWSDLFEPH 254 (254)
T ss_dssp HHHHHHHHHHHHHHHHTTSS---HHHCT---
T ss_pred HHHHHHHHHHHHHHHHcCCC--CHHHHcCCC
Confidence 99999999999999998777 999999985
No 5
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=99.97 E-value=1.6e-30 Score=284.43 Aligned_cols=261 Identities=23% Similarity=0.316 Sum_probs=208.3
Q ss_pred HhhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceE
Q 005049 26 MRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDT 105 (716)
Q Consensus 26 ~~t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~ 105 (716)
..+.+|.+++. .+.|+.+|.++|...|++|++++++- + .++.+++|||+.+|+++|+||||+
T Consensus 56 ~lt~el~~~y~--~I~ps~eEl~~R~~~leklr~~lk~~---------~-------pda~l~vFGS~~t~L~l~~SDiDl 117 (482)
T COG5260 56 ELTSELLEFYD--YIAPSDEELKRRKALLEKLRTLLKKE---------F-------PDADLKVFGSTETGLALPKSDIDL 117 (482)
T ss_pred HHHHHHHHHHH--hhCCCHHHHHHHHHHHHHHHHHHHHh---------C-------CccceeEecccccccccCcccccE
Confidence 45555555555 37799999999999999999999752 1 356899999999999999999999
Q ss_pred EEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEe--cCeeeeEEeeeccccccCCCCCCCchhhhccc
Q 005049 106 LCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKF--SGVSIDLLYARLSLWVIPEDLDISQDSILQNA 183 (716)
Q Consensus 106 lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~--~GI~iDLsfa~l~~~~ip~~ldl~~d~lL~~l 183 (716)
+++.+....++..-...++..|....+..++.+|..|+||||||.+ .|+.|||+|++.
T Consensus 118 ~I~s~~~~~~et~~~~~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~-------------------- 177 (482)
T COG5260 118 CIISDPRGYKETRNAGSLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNT-------------------- 177 (482)
T ss_pred EEecCCccccccccHHHHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCch--------------------
Confidence 9998665443211112455555555677889999999999999998 589999999885
Q ss_pred chhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHHhhCCC-----------
Q 005049 184 DEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPN----------- 252 (716)
Q Consensus 184 De~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQlyPn----------- 252 (716)
+|++.|..++.++-..+++|+|+.+||+||++|.+++...|+|+||++++||..++|++|.
T Consensus 178 --------~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~~~~ 249 (482)
T COG5260 178 --------NGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGLLSP 249 (482)
T ss_pred --------hHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCccccccccccch
Confidence 5788899999999999999999999999999999999999999999999999999999982
Q ss_pred -------CCHHHHHHHHHHhhc-cCCCCCceeecccccC-CC---CccccCCCCCCCCCCCCeeEeCCC-CCCCCccccc
Q 005049 253 -------AVPSMLVSRFFRVYT-QWRWPNPVLLCAIEEG-SL---GLQVWDPRRNPKDKYHLMPIITPA-YPCMNSSYNV 319 (716)
Q Consensus 253 -------as~~~LL~~FF~~Ys-~wdW~~pV~L~~i~~G-~~---~~~vWdP~~~~~dr~hlMpIiTP~-~P~~Nsa~nV 319 (716)
..++.|+..||++|+ .|+|.--++. +..| .+ ..+.|--.. +...++|++|. .+..+++.
T Consensus 250 l~~~~~~~~lgvLf~dFf~~yG~~f~Y~~~~~s--i~~g~~~~~K~e~g~~~~~----~p~~LsiqdP~td~n~~~~a-- 321 (482)
T COG5260 250 LKYNKNIDNLGVLFDDFFELYGKSFNYSLVVLS--INSGDFYLPKYEKGWLKPS----KPNSLSIQDPGTDRNNDISA-- 321 (482)
T ss_pred hhccccccccchHHHHHHHHhccccChhheEEE--ecCCceeeehhhccccccc----CCCcEeecCCCCCccccccc--
Confidence 257899999999999 8999875543 3444 21 112342111 13579999999 66555544
Q ss_pred ChhhHHHHHHHHHHHHHHHHH
Q 005049 320 STSTLRIMMDEFQRGHEICEA 340 (716)
Q Consensus 320 s~sTl~vI~~EF~RA~~Il~~ 340 (716)
...+...|+.+|.+|.+++.+
T Consensus 322 ~s~~ik~i~~~F~~aF~lls~ 342 (482)
T COG5260 322 VSFNIKDIKAAFIRAFELLSN 342 (482)
T ss_pred ccchHHHHHHHHHHHHHHHhh
Confidence 456899999999999998864
No 6
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=99.96 E-value=4.1e-28 Score=270.40 Aligned_cols=267 Identities=20% Similarity=0.294 Sum_probs=212.6
Q ss_pred ChHHHHhhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCC
Q 005049 21 TDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPG 100 (716)
Q Consensus 21 t~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~ 100 (716)
.+.=..+++++..+++- +.||.+|.+.|.++++++++.|++ . -.+++|++||||.||+++|+
T Consensus 57 ~~~s~~l~~eI~~fv~~--l~pt~~e~~~R~~~~~~i~~~v~~-~---------------~~~a~v~~FGS~~tglyLP~ 118 (514)
T KOG1906|consen 57 NLVSERLRNEILDFVQY--LIPTPEEIEVRSELVEKIRDVVKQ-K---------------WPDASVYVFGSVPTGLYLPD 118 (514)
T ss_pred chhHHHHHHHHHHHHHH--hcCCchHHHHHHHHHHHHHHHHHH-h---------------cccceeEEeeeeeccccccc
Confidence 44445667777777774 889999999999999999998873 1 13689999999999999999
Q ss_pred CCceEEEecCCCCCchhhHHHHHHHHHhc--CCCceeeEeecCCcccEEEEEe--cCeeeeEEeeeccccccCCCCCCCc
Q 005049 101 ADIDTLCVGPRHATREEDFFGELHQMLTE--MPEVTELHPVPDAHVPVMKFKF--SGVSIDLLYARLSLWVIPEDLDISQ 176 (716)
Q Consensus 101 SDID~lcv~P~~v~r~e~Ff~~l~~~L~~--~~~V~~l~~V~~ArVPIIKf~~--~GI~iDLsfa~l~~~~ip~~ldl~~ 176 (716)
||||+++.++....++ +.+..+..++.. ...-..+..|..|+||||||+. .+|.|||+|++.
T Consensus 119 sDIDl~v~~~~~~~~e-~~~~~~~l~~~~e~~~~~~~v~~v~karvpiik~~d~~s~i~vDISFn~~------------- 184 (514)
T KOG1906|consen 119 SDIDLVVLSKFLNDKE-DRAVKLELALELEEDNSAFHVKVVQKARVPIIKFKDPVSNIHVDISFNQT------------- 184 (514)
T ss_pred cceEEEEecccccCch-hhHHHHHHHHhhhhccccceEEEeeeeeeeeEEeecCccceEEEeeeccc-------------
Confidence 9999999999766653 555555444443 2333568899999999999997 699999999986
Q ss_pred hhhhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHHhhCCCC---
Q 005049 177 DSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNA--- 253 (716)
Q Consensus 177 d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQlyPna--- 253 (716)
|||+.++.|...+-+.+.+|.++.++|+|...|++++...|+++||++++||+.++|++|..
T Consensus 185 ---------------~G~~aa~~i~~~~~~~p~~~~lvlvlk~fl~~r~ln~v~tGgisSyal~~Lv~~fl~l~~~~~s~ 249 (514)
T KOG1906|consen 185 ---------------NGVKAAKFIKDFLRDHPFLRSLVLVLKQFLYERRLNGVHTGGISSYALELLVLSFLQLHPRSKSG 249 (514)
T ss_pred ---------------CchhHHHHHHHHHhcCccchhHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHhhcccccCC
Confidence 68999999999999999999999999999999999999999999999999999999999864
Q ss_pred ------CHHHHHHHHHHhhc-cCCCCCc-eeecccccCC-CC--ccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChh
Q 005049 254 ------VPSMLVSRFFRVYT-QWRWPNP-VLLCAIEEGS-LG--LQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTS 322 (716)
Q Consensus 254 ------s~~~LL~~FF~~Ys-~wdW~~p-V~L~~i~~G~-~~--~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~s 322 (716)
.++.|+.+||++|+ +|.+..- |.+ ...|. .+ ...|- .+...+...++|+||..|..+.++ +..
T Consensus 250 ~~~~~~~~~vll~~f~e~yG~~f~~~k~~i~~--~~~g~~~~~~~~~~~--~~~~~~~~~LsieDP~~P~ndigr--~s~ 323 (514)
T KOG1906|consen 250 RLAVLKNLGVLLIKFFELYGRNFGYDKLGISL--SLGGEYVSKELTGFF--NNSLERPGSLSIEDPVDPTNDIGR--SSF 323 (514)
T ss_pred ccchhcccchHHHHHHHHhccccCchhhceec--cCCcccccHHhhhhh--cccccCCCccccCCCCCccccccc--ccc
Confidence 36789999999999 6777652 222 11121 11 11121 112234557999999999888775 346
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 005049 323 TLRIMMDEFQRGHEICEA 340 (716)
Q Consensus 323 Tl~vI~~EF~RA~~Il~~ 340 (716)
.+..|+.+|..|+..+..
T Consensus 324 ~~~~v~~~F~~af~~l~~ 341 (514)
T KOG1906|consen 324 NFSQVKGAFAYAFKVLTN 341 (514)
T ss_pred cHHHHHHHHHHHHHHHhh
Confidence 788999999999998754
No 7
>PF04926 PAP_RNA-bind: Poly(A) polymerase predicted RNA binding domain; InterPro: IPR007010 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 that specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analogue at 2.5 A resolution 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 C-terminal domain unexpectedly folds into a compact domain reminiscent of the RNA-recognition motif fold. The three invariant aspartates of the catalytic triad ligate two of the three active site metals. One of these metals also contacts the adenine ring. Furthermore, conserved, catalytically important residues contact the nucleotide. These contacts, taken together with metal coordination of the adenine base, provide a structural basis for ATP selection by poly(A) polymerase. ; GO: 0003723 RNA binding, 0004652 polynucleotide adenylyltransferase activity, 0043631 RNA polyadenylation, 0005634 nucleus; PDB: 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A 1Q79_A 1Q78_A 1F5A_A.
Probab=99.94 E-value=3.5e-27 Score=227.47 Aligned_cols=118 Identities=37% Similarity=0.715 Sum_probs=94.3
Q ss_pred chhhhccceEEEEeeecChhhhhchhhHHHHHHHHHHHHhhcCCCcc---------------------------------
Q 005049 358 TFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKVNATTLHT--------------------------------- 404 (716)
Q Consensus 358 ~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~--------------------------------- 404 (716)
+||.+|||||+|.|+|.+++++.+|.||||||||.|+.+||+.....
T Consensus 1 ~FF~~Yk~yl~I~~~a~~~~~~~~W~G~VESrlR~Lv~~LE~~~~i~~ahp~pk~f~~~~~~~~~~~~~~~~~~~~~~~~ 80 (157)
T PF04926_consen 1 DFFSRYKHYLQIDVSAKNEEDHRKWSGWVESRLRHLVQKLERNPGIKLAHPFPKRFERVYECSEQADENNDEEEEEDPEN 80 (157)
T ss_dssp -HHHH-SEEEEEEEEECSHHHHHHHHHHHHCCHHHHHHHHHTSTTEEEEEE-SS-EEEEEE-EBECTTCTTSHHCHCTSE
T ss_pred ChhHhCceeEEEEEEeCCHHHHHHhhhHHHHHHHHHHHHHccCCCeeEecCCCCccccccccccccccccccccccCCCc
Confidence 69999999999999999999999999999999999999999865311
Q ss_pred -eeEEEEEeccccCCCCCCCCceechHHHHHHHHHHHHhhcc---CCCCcEEEEEEeccCCCCCCcCCCCCCCCC
Q 005049 405 -WLFAFFTSIKRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTL---RKPGMQISVAHVTRRNLPNFVFPGGVRPSR 475 (716)
Q Consensus 405 -~~~~ffIGL~~~~~~~~~~~~~~di~~~v~eF~~~v~~~~~---~~~~m~i~v~~vkr~~LP~~v~~~~~~~~~ 475 (716)
++++|||||++........++++||+.++++|++.|++|+. +.++|+|+|+||||++||++||++|.++.+
T Consensus 81 ~~~~~~fIGL~~~~~~~~~~~~~~dL~~~i~~F~~~v~~~~~~~~~~~~m~i~i~~vk~~~Lp~~v~~~~~~r~~ 155 (157)
T PF04926_consen 81 EYTSSFFIGLEFDSKESNEGSKKLDLTYAIQEFKDLVRNWEKYYYDEEGMDISISHVKRSQLPDFVFEEGEKRPK 155 (157)
T ss_dssp EEEEEEEEEEEE--SSSS---S-EE-HHHHHHHHHHHHCCCCTTC-TTTEEEEEEEEEHHHHGGGGS-TTS----
T ss_pred eeEEEEEEEEEECCCCccccceEEehHHHHHHHHHHHHhhhccccCCCccEEEEEEechHHCChhhhcccCcCCC
Confidence 67899999998876554334689999999999999999877 567899999999999999999998876654
No 8
>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=99.78 E-value=1.4e-18 Score=158.08 Aligned_cols=98 Identities=43% Similarity=0.822 Sum_probs=88.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCCC-CCchhhHHHHHHHHH
Q 005049 49 SREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRH-ATREEDFFGELHQML 127 (716)
Q Consensus 49 ~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~-v~r~e~Ff~~l~~~L 127 (716)
.|++++++|++++++|. .++++++|||+++|+++|+||||+++..|.. ... ..++..+.+.|
T Consensus 1 ~r~~i~~~l~~~i~~~~----------------~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~~~~~-~~~l~~l~~~l 63 (114)
T cd05402 1 KREEVLDRLQELIKEWF----------------PGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHRVDR-EDFLRKLAKLL 63 (114)
T ss_pred CHHHHHHHHHHHHHHHC----------------CCCEEEEecccccCCCCCCCCeeEEEEeCCCCccH-HHHHHHHHHHH
Confidence 38899999999999862 3688999999999999999999999999976 333 48999999999
Q ss_pred hcCCCceeeEeecCCcccEEEEEec--CeeeeEEeeec
Q 005049 128 TEMPEVTELHPVPDAHVPVMKFKFS--GVSIDLLYARL 163 (716)
Q Consensus 128 ~~~~~V~~l~~V~~ArVPIIKf~~~--GI~iDLsfa~l 163 (716)
++...+.++..|.+|+||||||.+. |++|||+|++.
T Consensus 64 ~~~~~~~~~~~i~~ArVPiik~~~~~~~i~~Dis~~~~ 101 (114)
T cd05402 64 KKSGEVVEVEPIINARVPIIKFVDKPTGIEVDISFNNL 101 (114)
T ss_pred HhCCCceeeEEeccCCCCEEEEEEcCCCeEEEEEcccc
Confidence 9988888999999999999999998 99999999874
No 9
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.73 E-value=1.3e-16 Score=182.07 Aligned_cols=251 Identities=21% Similarity=0.341 Sum_probs=185.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCCCC--C----
Q 005049 41 YESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA--T---- 114 (716)
Q Consensus 41 ~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v--~---- 114 (716)
.+...+...|......++.++..- .+ .....+..|||..+|+....+|+| +|+.-... .
T Consensus 126 ~~~~~~~~~~~~~~~~l~~~~~~~---------~p-----~~~~~~~~~gs~~~~~~~~~~d~d-~~~~~~~~~~~~~~~ 190 (596)
T KOG2277|consen 126 KLPHSDVKTRKLILDKLRALASLL---------FP-----DSILSLYLFGSSDLGLGERSSDLD-LCVDFTSSFLSFEKI 190 (596)
T ss_pred CCCccccchHHHHHHHHHHHHHHh---------cC-----CCcceeeccCcccccccccccCcc-eeecccccccccchh
Confidence 355566666766777777666531 11 122336799999999999999999 66653221 1
Q ss_pred chhhHHHHHHHHHhcCCC--ceeeEeecCCcccEEEEEe--cCeeeeEEeeeccccccCCCCCCCchhhhcccchhhhhh
Q 005049 115 REEDFFGELHQMLTEMPE--VTELHPVPDAHVPVMKFKF--SGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRS 190 (716)
Q Consensus 115 r~e~Ff~~l~~~L~~~~~--V~~l~~V~~ArVPIIKf~~--~GI~iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe~svrS 190 (716)
....++..+.++|....+ +..++.|..|+||||||.+ .++++|+++.+.. .+.
T Consensus 191 ~~~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~--------~~~--------------- 247 (596)
T KOG2277|consen 191 KGLEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSD--------AIL--------------- 247 (596)
T ss_pred hhHHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccch--------hhh---------------
Confidence 112456677888887543 8899999999999999966 4799999998752 233
Q ss_pred hcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccc-hHHHHHHHHHHHhhCCCC----------------
Q 005049 191 LNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLG-GINWALLVARICQLYPNA---------------- 253 (716)
Q Consensus 191 LNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LG-G~swaLLVa~vcQlyPna---------------- 253 (716)
.+..+........+|+.|...||+||+++++++...|.+. +|++++||++++|.++..
T Consensus 248 -----nS~ll~~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~ 322 (596)
T KOG2277|consen 248 -----NSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSND 322 (596)
T ss_pred -----hhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhccccc
Confidence 3344444444556999999999999999999999999999 699999999999986420
Q ss_pred ---------------------------CHHHHHHHHHHhhc-cCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeE
Q 005049 254 ---------------------------VPSMLVSRFFRVYT-QWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPI 305 (716)
Q Consensus 254 ---------------------------s~~~LL~~FF~~Ys-~wdW~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpI 305 (716)
+++.|+..||.||+ .|+|++-++- ++.|.....-|.. .....+.|
T Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~--~r~~~~l~~~~~~-----~~~~~l~i 395 (596)
T KOG2277|consen 323 KPVVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAIS--IRRGRALKRAKKI-----KSKKFLCI 395 (596)
T ss_pred ccchhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhcccccceee--eeecccccccchh-----hhccceee
Confidence 35689999999999 8999997652 2223211100111 11236999
Q ss_pred eCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHH
Q 005049 306 ITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAM 341 (716)
Q Consensus 306 iTP~~P~~Nsa~nVs~sTl~vI~~EF~RA~~Il~~i 341 (716)
++|++...|.+..++.....+|+.+|+.+..++...
T Consensus 396 ~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 396 EDPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred ccccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999998753
No 10
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.55 E-value=8.9e-12 Score=138.88 Aligned_cols=302 Identities=19% Similarity=0.230 Sum_probs=186.5
Q ss_pred HHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCC-CCCceEEEec
Q 005049 31 LEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGP-GADIDTLCVG 109 (716)
Q Consensus 31 L~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p-~SDID~lcv~ 109 (716)
+.+.|+. +-||+||.++-.++.+.|...+++++++ .+. .++++.+|||+-|.|++ +||||++++.
T Consensus 3 ~~evl~~--i~Ps~eE~~~l~~~~~~l~~~L~~~~~~----~~~--------~~~V~l~GS~ArgT~L~GdsDIDIFv~f 68 (447)
T PRK13300 3 LEEVLER--IKPTEEEREKLKKVAEELIERLEEAIKE----LGL--------DAEVELVGSTARGTWLSGDRDIDIFVLF 68 (447)
T ss_pred HHHHHHh--cCCCHHHHHHHHHHHHHHHHHHHHHHHh----cCC--------ceEEEEEeeecCCcccCCCCceeEEEEe
Confidence 3445554 7799999999999999999888877643 221 37899999999999999 7899999999
Q ss_pred CCCCCchhhHH---HHHH-HHHhcCCCceeeEeecCCcccEEEEEecCeeeeEEee-eccccccCCCCCCCchhhhcccc
Q 005049 110 PRHATREEDFF---GELH-QMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYA-RLSLWVIPEDLDISQDSILQNAD 184 (716)
Q Consensus 110 P~~v~r~e~Ff---~~l~-~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iDLsfa-~l~~~~ip~~ldl~~d~lL~~lD 184 (716)
|....++ ++= ..+. ..++..-.-..++ -|-=|-++..+.|++|||.=| .+... ..+...+|
T Consensus 69 p~~~~~e-~L~~~gl~i~~~~~~~~~~~~~~~---yaeHpyv~~~~~G~~VDiVPcy~v~~~----------~~~~saVD 134 (447)
T PRK13300 69 PKDTSRE-ELEEKGLEIGKEVAKELLGDYEER---YAEHPYVTGEIDGFEVDIVPCYKVESG----------EEIISAVD 134 (447)
T ss_pred CCCCCHH-HHHHHHHHHHHHHHHhhCCcceee---eccCceEEEEECCEEEEEEeeEEccCc----------Cccccccc
Confidence 9887763 221 1222 2223211112333 378899999999999999744 22100 11111122
Q ss_pred hhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCC--CCCccchHHHHHHHHHHHhhCCCCCHHHHHHHH
Q 005049 185 EQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSN--VAGFLGGINWALLVARICQLYPNAVPSMLVSRF 262 (716)
Q Consensus 185 e~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn--~~G~LGG~swaLLVa~vcQlyPnas~~~LL~~F 262 (716)
-. ..-+.+|+... .+.++..+|.+|.|+|.-|+|++ +.++++||..-||++++ -+-..++..+
T Consensus 135 Rt-------p~H~~fv~~rl--~~~~~d~VRLlK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~y------G~F~~~l~~a 199 (447)
T PRK13300 135 RT-------PFHTKYVKERL--KGKLEDEVRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY------GSFENVLKAA 199 (447)
T ss_pred Cc-------hHHHHHHHHhh--hhhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHHH
Confidence 11 11244555443 23488899999999999999964 57899999999999995 2444444443
Q ss_pred HHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHHH
Q 005049 263 FRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAME 342 (716)
Q Consensus 263 F~~Ys~wdW~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~vI~~EF~RA~~Il~~i~ 342 (716)
+.|. -++.+...+.|.. . .-...+.|+||.+|..|+|.++|..++..+... |.+.|+
T Consensus 200 ----~~w~--~~~~I~~~~~~~~--------~---~f~~PlvViDPvDp~RNVAaa~S~~~~~~fv~a---ar~fL~--- 256 (447)
T PRK13300 200 ----SKWK--PPVKIDLEKHGKE--------Y---KFDDPLVVIDPVDPNRNVAAALSLENLATFILA---AREFLK--- 256 (447)
T ss_pred ----HhCC--CCceEeccccCcc--------c---cCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHH---HHHHHh---
Confidence 3443 3343321111110 0 012479999999999999999998877666432 222232
Q ss_pred ccCCCCCcccccCCcc--------hhhh-ccceEEEEeeecChhhhhchhhHHHHHHHHHHHHhhcCCCcc
Q 005049 343 KNEADVDWDTLFEPFT--------FFEA-YKNYLRIDISAENADDLRNWKGWVESRLRQLTLKVNATTLHT 404 (716)
Q Consensus 343 ~~~~~~~W~~Lfep~~--------Ff~~-Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~ 404 (716)
.. =.++|.|.+ -+.+ =.+.+.|....++.-+ ...-|-++-=.+.|...||+..+..
T Consensus 257 -~P----s~~fF~~~~~~~~~~~~~l~~R~t~~~~v~f~~p~~v~-Dil~pQl~r~~~~i~~~L~~~gF~v 321 (447)
T PRK13300 257 -NP----SLEFFFPSDLSPEEILEELERRGTTVLALEFPRPDIVE-DILYPQLERSLRSIVKLLEREGFEV 321 (447)
T ss_pred -CC----CHHhcCCCCCChHHHHHHHhhcCceEEEEEeCCCCCCc-cchhHHHHHHHHHHHHHHHHCCCEE
Confidence 22 234554444 1111 1244455554443222 2234666666677777788877655
No 11
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.55 E-value=4.3e-12 Score=139.70 Aligned_cols=298 Identities=19% Similarity=0.231 Sum_probs=187.7
Q ss_pred HHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCC-CCCceEEEecC
Q 005049 32 EKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGP-GADIDTLCVGP 110 (716)
Q Consensus 32 ~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p-~SDID~lcv~P 110 (716)
.+.|+. +-||+||.++-+++.++|...+++++++. ...++++.|||++-|.|++ +||||++++.|
T Consensus 3 ~~vl~~--i~Ps~eE~~~~~~~~~~l~~~l~~~~~e~------------~~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~ 68 (408)
T TIGR03671 3 EEVLER--IKPTEEEREKLKKVADELIARLEEIIEEL------------GVDAEVVLVGSYARGTWLKGDRDIDIFILFP 68 (408)
T ss_pred HHHhhh--cCCCHHHHHHHHHHHHHHHHHHHHHHHhc------------CCcceEEEEeeEecCCccCCCCceeEEEEeC
Confidence 344553 77999999999999999999988876541 1347999999999999999 89999999999
Q ss_pred CCCCchhhHH---HHHHHHHhcC-CCceeeEeecCCcccEEEEEecCeeeeEEeeeccccccCCCCCCCch-hhhcccch
Q 005049 111 RHATREEDFF---GELHQMLTEM-PEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQD-SILQNADE 185 (716)
Q Consensus 111 ~~v~r~e~Ff---~~l~~~L~~~-~~V~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~~~ip~~ldl~~d-~lL~~lDe 185 (716)
....++ ++= ..+...+.+. +.. ...-|-=|-++..+.|++|||.=|-- +.+- .+...+|-
T Consensus 69 ~~~~~e-~l~~~gl~i~~~~~~~~~~~----~~~yaeHpYv~~~~~G~~VDiVPcy~----------v~~g~~~~taVDR 133 (408)
T TIGR03671 69 KDTSRE-ELEEYGLEIGHEVLKRGGNY----EERYAEHPYVSGEIEGFEVDVVPCYK----------VESGEEIISAVDR 133 (408)
T ss_pred CCCCHH-HHHHHHHHHHHHHHhhCCCH----hheeccCceEEEEEccEEEEEEeeEE----------ccCcCeeeccccC
Confidence 887763 331 1223333221 111 14567779999999999999974321 1111 11111111
Q ss_pred hhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCC--CCCccchHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 005049 186 QTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSN--VAGFLGGINWALLVARICQLYPNAVPSMLVSRFF 263 (716)
Q Consensus 186 ~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn--~~G~LGG~swaLLVa~vcQlyPnas~~~LL~~FF 263 (716)
. ..-+++++...- +.|+..+|.+|.|+|.-|+|++ +.++++||.+-||++++ -+-..++..+
T Consensus 134 t-------p~H~~fv~~rl~--~~~~d~VRLlK~f~k~igvYGsE~~~~GFSGYl~ELLv~~y------G~F~~~l~~a- 197 (408)
T TIGR03671 134 T-------PFHTRYVLERLD--GKLRDDVRLLKQFLKGIGVYGSELKTRGFSGYLCELLVIHY------GSFENVLKAA- 197 (408)
T ss_pred c-------hHHHHHHHHhhh--hhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHHH-
Confidence 0 112345544432 3488899999999999999964 57889999999999995 2333444332
Q ss_pred HhhccCCCCCceeecccc-cCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHHH
Q 005049 264 RVYTQWRWPNPVLLCAIE-EGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAME 342 (716)
Q Consensus 264 ~~Ys~wdW~~pV~L~~i~-~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~vI~~EF~RA~~Il~~i~ 342 (716)
++ |..++.+ .+. .+.. +. ...+.|+||.+|..|+|.++|..++..+...-+++.+
T Consensus 198 ---~~--wk~~~~i-d~~~~~~~-------~f-----~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~fl~------ 253 (408)
T TIGR03671 198 ---SK--WKPGVVI-DIEEHGTK-------KF-----DDPLVVIDPVDPKRNVAAALSLENLARFILAARMFLK------ 253 (408)
T ss_pred ---Hh--cCCCeEE-ecCccccc-------cC-----CCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHHHH------
Confidence 33 4445554 222 1111 00 2479999999999999999999888777654444332
Q ss_pred ccCCCCCcccccCCc-----ch---hhhcc-ceEEEEeeecChhhhhchhhHHHHHHHHHHHHhhcCCCcc
Q 005049 343 KNEADVDWDTLFEPF-----TF---FEAYK-NYLRIDISAENADDLRNWKGWVESRLRQLTLKVNATTLHT 404 (716)
Q Consensus 343 ~~~~~~~W~~Lfep~-----~F---f~~Yk-~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~ 404 (716)
.. =..+|.|. ++ +.+-. +.+.|....++.-+ ...-|-++--.+.|...||+..+..
T Consensus 254 -~P----s~~fF~p~~~~~~~~~~~l~~r~t~~~~~~f~~p~~v~-Dil~pQl~r~~~~i~~~L~~~gF~v 318 (408)
T TIGR03671 254 -NP----SLEFFFPPEIEPEEFLERLERRGTTLLAIVFRTPDVVD-DILYPQLERSGRSLVKLLEREGFEV 318 (408)
T ss_pred -CC----CHHHcCCCCCChHHHHHHHhhcCcEEEEEEeCCCCCCc-cchhHHHHHHHHHHHHHHHHCCCEE
Confidence 22 23555443 11 22222 34444444433211 2334666666677777788777644
No 12
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.11 E-value=7.6e-09 Score=113.72 Aligned_cols=303 Identities=19% Similarity=0.199 Sum_probs=184.1
Q ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCC-CCCceEEE
Q 005049 29 RKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGP-GADIDTLC 107 (716)
Q Consensus 29 ~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p-~SDID~lc 107 (716)
+.|.+.|+. +-||+||.++=+++.+.|...+++.+ ++.|+ ++.+..+||++=|.|++ +.|||+.|
T Consensus 5 ~~l~evl~~--i~P~~eE~~~~~~~~e~l~~~~~~~~----~e~~~--------~aev~lVGS~AkgTwL~gd~DIDvFi 70 (443)
T COG1746 5 EVLEEVLKR--IKPTEEERKKLKEVAEELRERINEII----EELGI--------DAEVVLVGSYAKGTWLRGDHDIDVFI 70 (443)
T ss_pred HHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHHHH----HhcCC--------cceEEEEeecccCcccCCCcceeEEE
Confidence 456666665 67999999988888888888887643 44444 58899999999999999 68999999
Q ss_pred ecCCCCCchh---hHHHHHHHHHhcCCCceeeEeecCCcccEEEEEecCeeeeEEeeeccccccCCCCCCCchhhhcccc
Q 005049 108 VGPRHATREE---DFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNAD 184 (716)
Q Consensus 108 v~P~~v~r~e---~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~~~ip~~ldl~~d~lL~~lD 184 (716)
..|....+++ .=+......|.+ .+ -.+.-|-=|-+.-.++|++||+.=|-.... ++ .+...+|
T Consensus 71 ~Fp~d~~~eel~~~GL~ig~~~l~~-~~----~~~~YAeHPYV~g~v~G~eVDvVPCy~v~~--~~-------~~~sAVD 136 (443)
T COG1746 71 AFPKDTSEEELEEKGLEIGREVLKR-GN----YEERYAEHPYVTGEVDGYEVDVVPCYKVED--GE-------KIISAVD 136 (443)
T ss_pred ECCCCCCHHHHHHHHHHHHHHHhcC-Cc----hhhhhccCCeeEEEEccEEEEEEecccccC--cc-------ccccccc
Confidence 9999877641 111222333332 11 135678889999999999999975532100 11 0111111
Q ss_pred hhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCC--CCccchHHHHHHHHHHHhhCCCCCHHHHHHHH
Q 005049 185 EQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNV--AGFLGGINWALLVARICQLYPNAVPSMLVSRF 262 (716)
Q Consensus 185 e~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~--~G~LGG~swaLLVa~vcQlyPnas~~~LL~~F 262 (716)
-.- -=+.++..-+-. +-+.=+|.+|.+.|.=|+|++- .++++||.--||++++= .|
T Consensus 137 RTp-------lHt~yv~e~L~~--~~~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~yG-------------sF 194 (443)
T COG1746 137 RTP-------LHTRYVEEHLKG--RQKDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHYG-------------SF 194 (443)
T ss_pred Ccc-------hhHHHHHHHhcc--cchhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhhc-------------cH
Confidence 100 012333333222 1123478999999999999964 78999999999999872 34
Q ss_pred HHhhccCC-CCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHH
Q 005049 263 FRVYTQWR-WPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAM 341 (716)
Q Consensus 263 F~~Ys~wd-W~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~vI~~EF~RA~~Il~~i 341 (716)
-.+--... |.-+++|.. . .|..... .| ..|-|+||.+|..|+|.+||..++..+ .-|.+. .
T Consensus 195 e~vl~~a~~wrp~~~ID~-~-------~~~~e~f-~d--~PliVvDPVDP~RNVAAalSl~~la~f----~~aar~---F 256 (443)
T COG1746 195 ENVLKAASRWRPGKIIDL-E-------GHKRERF-ED--EPLIVVDPVDPKRNVAAALSLENLARF----VHAARE---F 256 (443)
T ss_pred HHHHHHHhccCCCeEEec-c-------chhhhcc-CC--CCeEecCCCCCccchhhhcCHHHHHHH----HHHHHH---H
Confidence 34433333 877765522 2 1211111 11 279999999999999999998776544 333332 2
Q ss_pred HccCCCCCcccccCCcc--------hhhhccceEEEEeeecChhhhhchhhHHHHHHHHHHHHhhcCCCcc
Q 005049 342 EKNEADVDWDTLFEPFT--------FFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKVNATTLHT 404 (716)
Q Consensus 342 ~~~~~~~~W~~Lfep~~--------Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~ 404 (716)
+.+. =...|.|.. ..++=.+-+.+.+-.++.-+ ...-|-++---+.|...||...+..
T Consensus 257 L~~P----S~efF~p~~~~~~~~~~~~~rgt~v~~l~~~~pd~vd-DilypQl~r~~~~l~r~Le~~gF~v 322 (443)
T COG1746 257 LKNP----SPEFFFPRKPKPLLLSKLRRRGTHVLALVFPKPDLVD-DILYPQLERTARSLFRALEEEGFRV 322 (443)
T ss_pred hcCC----ChhhcCCCCcCcccccchhhcCceEEEEEeCCCCCCc-chhhHHHHHHHHHHHHHHHHcCCEE
Confidence 3232 223443321 11222233333333344222 2345667766777788888776643
No 13
>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=99.02 E-value=2.1e-08 Score=121.94 Aligned_cols=284 Identities=17% Similarity=0.242 Sum_probs=183.2
Q ss_pred eeccCCCC---CCCCceEEEecCCCCCchhhH------------HHHHHHHH--hcCCCceeeEe---ecCCcccEEEEE
Q 005049 91 SYRLGVHG---PGADIDTLCVGPRHATREEDF------------FGELHQML--TEMPEVTELHP---VPDAHVPVMKFK 150 (716)
Q Consensus 91 Sy~lGv~~---p~SDID~lcv~P~~v~r~e~F------------f~~l~~~L--~~~~~V~~l~~---V~~ArVPIIKf~ 150 (716)
||.++... ++-.||+.+..|..+-.++|+ ...++..| .+...+.++.. -.+.+-||+.+.
T Consensus 1 S~~l~t~~k~~~~~~VDl~v~mP~~~fq~KDyln~RY~~KRA~YLa~iA~~L~~~~~~~~~~v~~~~~~gd~~kPil~l~ 80 (972)
T PF03813_consen 1 SYALKTMIKSKPNLTVDLAVEMPKSLFQEKDYLNYRYFHKRALYLAYIAAHLQKKKSKLFVDVSFEYLNGDPLKPILVLR 80 (972)
T ss_pred CcccccccccCCCCeeEEEEeCChhhcCchhhccchHHHHHHHHHHHHHHHHhhhccccceeEEEEeCCCCCCCCeEEEE
Confidence 56666654 467999999999865433333 33466677 22333333332 357888999988
Q ss_pred ec-----C------eeeeEEeeecccc-----ccC------------------CCCCCCchhhhcccchhhhhhhcchhh
Q 005049 151 FS-----G------VSIDLLYARLSLW-----VIP------------------EDLDISQDSILQNADEQTVRSLNGCRV 196 (716)
Q Consensus 151 ~~-----G------I~iDLsfa~l~~~-----~ip------------------~~ldl~~d~lL~~lDe~svrSLNG~Rv 196 (716)
-. + +.|-|..+..... -.| ..-...|..+|.++-. ..-
T Consensus 81 p~~~~~~~~~~~~~~~iRi~~~~~~~~F~~~rl~P~rnnvR~~~~~~~~~~~~~pTP~YNssIL~D~~~--------~~~ 152 (972)
T PF03813_consen 81 PKGKKDSDDFSKTKFRIRIIPSIPSDTFPLSRLAPSRNNVRPSWFDEEDSSSLPPTPHYNSSILEDMLM--------EEH 152 (972)
T ss_pred ECCccccccccCCcEEEEEEecCCcccCCHHhcCCCCCccCcCcccccccCCCCCCCcchHHHHHHHhH--------HHH
Confidence 42 2 4555554431100 001 0112345555554321 112
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCC-CCccchHHHHHHHHHHHhh---------CCCCCHHHHHHHHHHhh
Q 005049 197 TDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNV-AGFLGGINWALLVARICQL---------YPNAVPSMLVSRFFRVY 266 (716)
Q Consensus 197 td~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~-~G~LGG~swaLLVa~vcQl---------yPnas~~~LL~~FF~~Y 266 (716)
..++.+..-..+.|+.++..+|.||++||+.+.. .|++||+-|++|+++.+|- .+..+.-+|+..+..+-
T Consensus 153 l~~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fL 232 (972)
T PF03813_consen 153 LKYLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFL 232 (972)
T ss_pred HHHHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHH
Confidence 3455555556789999999999999999999875 6899999999999999976 34567889999999999
Q ss_pred ccCCC-CCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHHHccC
Q 005049 267 TQWRW-PNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNE 345 (716)
Q Consensus 267 s~wdW-~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~vI~~EF~RA~~Il~~i~~~~ 345 (716)
+..|| .+|+.++.-.+.......| .+.+....+||. =.+|.+.+++.++++.|+.|-+++.++|++-. .
T Consensus 233 A~~d~~~~~l~~~~~~~~~~~~~~~-------~~~~~~vf~D~s-g~~Nl~~~ms~~s~~~L~~eA~~tl~lL~~~~--~ 302 (972)
T PF03813_consen 233 ATTDLSKKPLFFKSSSDSTESLEEF-------HSAFDPVFVDPS-GGLNLLAKMSPSSYEELQHEAKLTLELLDDSS--D 302 (972)
T ss_pred hccccccCceEEecCCCccchhhhh-------hccCCeEEEeCC-CCEEEEEcCCHHHHHHHHHHHHHHHHHhcccc--c
Confidence 99999 6688776543211111111 123456677774 46999999999999999999999999886421 1
Q ss_pred CCCCcccccC-C-cchhhhccceEEEE---ee----ecChhhhhchhhHHHHHHHHHH
Q 005049 346 ADVDWDTLFE-P-FTFFEAYKNYLRID---IS----AENADDLRNWKGWVESRLRQLT 394 (716)
Q Consensus 346 ~~~~W~~Lfe-p-~~Ff~~Yk~yl~I~---v~----a~~~e~~~~w~GwVESRlR~Lv 394 (716)
. ..+.+|- + .++..+|.+++.|. .. .....+...|..++..++-.|+
T Consensus 303 d--~F~~lFl~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL 358 (972)
T PF03813_consen 303 D--GFDSLFLTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLL 358 (972)
T ss_pred c--chhhhhcccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHH
Confidence 2 5666663 3 46678999999991 11 1122333444445666665554
No 14
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=98.32 E-value=9.5e-06 Score=96.67 Aligned_cols=283 Identities=18% Similarity=0.232 Sum_probs=170.9
Q ss_pred CcEEE-EeeeeccCCC-CCCCCceEEEecCCCCCchhhHH------------HHHHHHHhcCCCceeeEee---cCCccc
Q 005049 83 NAKIF-TFGSYRLGVH-GPGADIDTLCVGPRHATREEDFF------------GELHQMLTEMPEVTELHPV---PDAHVP 145 (716)
Q Consensus 83 ~akI~-~FGSy~lGv~-~p~SDID~lcv~P~~v~r~e~Ff------------~~l~~~L~~~~~V~~l~~V---~~ArVP 145 (716)
.+++. ..||+.+|.. .|+.-+|+++..|+..-..+|++ ..+..-|.+.+....+... .+-.-|
T Consensus 147 p~~v~~vv~sal~~~~~~P~i~vDvll~mP~e~~~~kd~ln~Ryf~kra~yla~~~~hl~e~l~~~~~~f~~~n~d~~~p 226 (1121)
T KOG2054|consen 147 PAQVTKVVGSALLGTCLRPDISVDVLLTMPREILQQKDGLNQRYFRKRALYLAYLAHHLLEDLLFGSLEFSYTNGDHLKP 226 (1121)
T ss_pred ccccceeeeecccCcccCCcchhhhhhhhhHHhhcCcccccccccchHHHHHHHHHHHHHhccccceeeecccCCccccc
Confidence 35565 5566666554 68899999999987543222332 2333334443432223222 245568
Q ss_pred EEEEEecCeeeeEEeeeccccccCCCCC---------------------------CCchhhhcccchhhhhhhcchhhHH
Q 005049 146 VMKFKFSGVSIDLLYARLSLWVIPEDLD---------------------------ISQDSILQNADEQTVRSLNGCRVTD 198 (716)
Q Consensus 146 IIKf~~~GI~iDLsfa~l~~~~ip~~ld---------------------------l~~d~lL~~lDe~svrSLNG~Rvtd 198 (716)
|+.+.-.|-..|++-.+....-||..+. ..|..+|...-.. -...
T Consensus 227 il~i~~~~~~~~~~~~~~~~~li~~~~~~f~~~kllp~~~~ir~~~e~~e~ppTP~yN~svL~~~~le--------~~~q 298 (1121)
T KOG2054|consen 227 ILLIRPRGKDERLVTVRPPDFLIPCRLLPFKNNKLLPWYNGIRPAGEGSEEPPTPRYNTSVLEDQVLE--------EYLQ 298 (1121)
T ss_pred hhhccccCCccccccccCccccccccccccccccccchhcccCccccCCCCCCCCccchhHHHHHHHH--------HHHH
Confidence 8888776655554433322222222211 1222222211000 0112
Q ss_pred HHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHHh---hCCCCCHHHHHHHHHHhhccCCCCC-c
Q 005049 199 QILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQ---LYPNAVPSMLVSRFFRVYTQWRWPN-P 274 (716)
Q Consensus 199 ~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQ---lyPnas~~~LL~~FF~~Ys~wdW~~-p 274 (716)
++.+.....+.|+.++-..|.|+++|-. +-..|++||+-|++++++... ++-+.+..+++..-|+|.+.|||.. -
T Consensus 299 ~L~K~~s~~~~f~da~~Llk~WlrqRs~-~~~~~gfg~f~~s~lvv~L~s~~ki~~~~S~yqvfR~vl~flat~dlt~~~ 377 (1121)
T KOG2054|consen 299 LLSKTLSSAKGFKDALALLKVWLRQRSL-DIGQGGFGGFLLSALVVYLVSTRKIHTTLSAYQVFRSVLQFLATTDLTVNG 377 (1121)
T ss_pred HHHHHHhhhhhHHHHHHHHHHHHHhhhh-hcccCcchHHHHHHHHHHHHhcCchhhcchHHHHHHHHHHHHhhhhhhccc
Confidence 3334444567899999999999999921 225789999999999998873 4667788999999999999999987 4
Q ss_pred eeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHHHccCCCCCccccc
Q 005049 275 VLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLF 354 (716)
Q Consensus 275 V~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~vI~~EF~RA~~Il~~i~~~~~~~~W~~Lf 354 (716)
+.+++-. -. .|....-+..+..+.+|= .-..|...|++.++++.+++|.+-+..+|.+.... .++.+|
T Consensus 378 ~~l~~~~-~s------~~~~~~f~e~~~~~f~D~-s~~~NLc~~mt~s~y~~~q~ea~ltl~lL~~~~~~----~F~~IF 445 (1121)
T KOG2054|consen 378 ISLVPSS-PS------LPALADFHEGQLVTFIDS-SGHLNLCANMTASTYEQVQEEARLTLMLLDSRADD----GFSLIF 445 (1121)
T ss_pred eEeccCC-CC------chhhhhhhhcceeeEecc-CCcchhhhhccHHHHHHHHHHHHHHHHHHhhhhhc----Ccceee
Confidence 4443310 00 011101112244445443 34589999999999999999999999999865432 567776
Q ss_pred -CCcchhhhccceEEEEeeecChhhhhchhhHH
Q 005049 355 -EPFTFFEAYKNYLRIDISAENADDLRNWKGWV 386 (716)
Q Consensus 355 -ep~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwV 386 (716)
.+.+.|.+|.|-+.+.....-+.....-.||.
T Consensus 446 mtkip~~~~yDh~l~l~~~~~l~~~~~~~~~~~ 478 (1121)
T KOG2054|consen 446 MTKIPVFRAYDHVLHLSPLSRLQAAEHLLSGFC 478 (1121)
T ss_pred eecCCchhhhheeeeccccchhhhHHhhcccch
Confidence 67899999999887765433333333333333
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.17 E-value=0.00012 Score=76.64 Aligned_cols=214 Identities=16% Similarity=0.199 Sum_probs=149.7
Q ss_pred EEEEeeeeccCCCCCCC-CceEEEecCCCCCchhhHHHHH----HHHHhcCCCceeeEeecCCcccEEEEEec--C--ee
Q 005049 85 KIFTFGSYRLGVHGPGA-DIDTLCVGPRHATREEDFFGEL----HQMLTEMPEVTELHPVPDAHVPVMKFKFS--G--VS 155 (716)
Q Consensus 85 kI~~FGSy~lGv~~p~S-DID~lcv~P~~v~r~e~Ff~~l----~~~L~~~~~V~~l~~V~~ArVPIIKf~~~--G--I~ 155 (716)
.+.-+||+.-|+.+.|. +.|+|+++....|. .....+ .+.|+...+=.....|..+++|.++..+. + ..
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 GVMRVGSFAKGTLLKGDNVAELVLLCKEKPTS--ELVARLARKLPEQLKAVTEDEALIIVTSTKEPTMEVGILITSPLAR 81 (246)
T ss_pred ceEEeeeeccCceecCCCceeEEEEecCCCcH--HHHHHHHHHHHHHHhhcCcccceeeeeccCCCceeEEEEEeccccc
Confidence 37789999999999874 88999999877775 344444 44444432112233466777788887762 2 33
Q ss_pred eeEEeeeccccccCCCCCCCc-hhhhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCcc
Q 005049 156 IDLLYARLSLWVIPEDLDISQ-DSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFL 234 (716)
Q Consensus 156 iDLsfa~l~~~~ip~~ldl~~-d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~L 234 (716)
.+...+. +|+++.-.+ +..|. -..|+.+|-..|-+.++.........|+.++|++|-|.++-...+. |
T Consensus 82 ~~~~~~~-----~~~~~~~~~p~~~ld--~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~~p----L 150 (246)
T smart00572 82 VELLITT-----VPENLRKLDPEDHLD--RKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQP----L 150 (246)
T ss_pred ccccccc-----cCcccccCCccccCC--HHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhcccccc----c
Confidence 3333322 344433222 11221 2357888889999999999988889999999999999998765444 8
Q ss_pred chHHHHHHHHHHHhhCC-CCCHHHHHHHHHHhhcc-CCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCC-
Q 005049 235 GGINWALLVARICQLYP-NAVPSMLVSRFFRVYTQ-WRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYP- 311 (716)
Q Consensus 235 GG~swaLLVa~vcQlyP-nas~~~LL~~FF~~Ys~-wdW~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP~~P- 311 (716)
.++.+-+++++.+-... ..++++-+.+||++.++ .=+|.. --|.||+.+
T Consensus 151 ~~w~iELl~~~~i~~~~~~l~~~~a~RR~fe~lAsG~l~p~~----------------------------~gI~DPce~~ 202 (246)
T smart00572 151 SGWPLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPGS----------------------------PGLTDPCEKD 202 (246)
T ss_pred ccccHHHHHHHHhccCCCCCCHHHHHHHHHHHHHhccCcCCC----------------------------CCCcCCCCCC
Confidence 99999999999986332 24789999999999772 111110 247788986
Q ss_pred CCCcccccChhhHHHHHHHHHHHHHHHH
Q 005049 312 CMNSSYNVSTSTLRIMMDEFQRGHEICE 339 (716)
Q Consensus 312 ~~Nsa~nVs~sTl~vI~~EF~RA~~Il~ 339 (716)
..|++...|....+.|...-+.|..++.
T Consensus 203 ~~nv~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 203 NTDALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred cccHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 8889888898999999988888887763
No 16
>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=97.73 E-value=0.00029 Score=66.66 Aligned_cols=77 Identities=27% Similarity=0.371 Sum_probs=56.2
Q ss_pred CcEEEEeeeeccCCCCC-CCCceEEEecCCCCC----chhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEec--Cee
Q 005049 83 NAKIFTFGSYRLGVHGP-GADIDTLCVGPRHAT----REEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFS--GVS 155 (716)
Q Consensus 83 ~akI~~FGSy~lGv~~p-~SDID~lcv~P~~v~----r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~--GI~ 155 (716)
...++.||||+.|...+ .||||++++.+.... ...+++..+.+.|.+...- .......-|.|.+.+. |++
T Consensus 27 ~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~---~~~~~~~~~~v~v~~~~~~~~ 103 (143)
T cd05400 27 VAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGA---NEEVKAQHRSVTVKFKGQGFH 103 (143)
T ss_pred ccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCc---ccccccCceEEEEEEcCCCeE
Confidence 46899999999999977 899999999876543 2236677777788774321 1122355578888886 899
Q ss_pred eeEEeee
Q 005049 156 IDLLYAR 162 (716)
Q Consensus 156 iDLsfa~ 162 (716)
|||+-+.
T Consensus 104 vDvvP~~ 110 (143)
T cd05400 104 VDVVPAF 110 (143)
T ss_pred EEEEEEe
Confidence 9997554
No 17
>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=97.66 E-value=3.1e-05 Score=63.35 Aligned_cols=55 Identities=22% Similarity=0.408 Sum_probs=36.8
Q ss_pred CHHHHHHHHHHhhc-cCCCCCceeecccccCCC---CccccCCCCCCCCCCCCeeEeCCCCCC
Q 005049 254 VPSMLVSRFFRVYT-QWRWPNPVLLCAIEEGSL---GLQVWDPRRNPKDKYHLMPIITPAYPC 312 (716)
Q Consensus 254 s~~~LL~~FF~~Ys-~wdW~~pV~L~~i~~G~~---~~~vWdP~~~~~dr~hlMpIiTP~~P~ 312 (716)
++++||..||+||+ .|||.+-|+. +..|.. ....|.. ....+...|+|+||+.|.
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~~~~~Is--i~~g~~~~k~~~~~~~--~~~~~~~~l~IeDP~~~~ 59 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDYENNVIS--IRNGGYFPKEEKNWSK--SRNQRKKRLCIEDPFDPS 59 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-TTTEEEE--SSSSSEEEHHHHTGCH--CCCCECSSSEBBESSSTT
T ss_pred CHHHHHHHHHHHhCCcCCCCceEEE--ecCCceEEhhhccccc--cccCCCCeEEEECCCCCC
Confidence 57999999999999 9999997764 344432 1234431 011234689999999885
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=97.51 E-value=0.00015 Score=57.89 Aligned_cols=26 Identities=35% Similarity=0.581 Sum_probs=24.1
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEEe
Q 005049 83 NAKIFTFGSYRLGVHGPGADIDTLCV 108 (716)
Q Consensus 83 ~akI~~FGSy~lGv~~p~SDID~lcv 108 (716)
..+++.||||+.|.+.+.||||++|+
T Consensus 17 ~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 17 GYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred CcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 46899999999999999999998887
No 19
>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=97.34 E-value=0.00024 Score=61.75 Aligned_cols=32 Identities=34% Similarity=0.542 Sum_probs=29.5
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEEecCCCCC
Q 005049 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPRHAT 114 (716)
Q Consensus 83 ~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~ 114 (716)
...++.|||++.|.+.|+||||++++.+....
T Consensus 14 ~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~~~ 45 (93)
T PF01909_consen 14 VAEVYLFGSYARGDATPDSDIDLLIILDEPED 45 (93)
T ss_dssp TEEEEEEHHHHHTSSCTTSCEEEEEEESSTSC
T ss_pred CCEEEEECCcccCcCCCCCCEEEEEEeCCccc
Confidence 47899999999999999999999999998765
No 20
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core. It is predominantly found in Archaeal tRNA nucleotidyltransferases, following the catalytic nucleotidyltransferase domain []. ; GO: 0004810 tRNA adenylyltransferase activity, 0016437 tRNA cytidylyltransferase activity; PDB: 3OUY_B 2ZHB_A 2ZH1_A 2ZH2_A 1UET_A 2ZH7_A 1R8B_A 2DR5_A 1TFW_C 3OVA_A ....
Probab=97.02 E-value=0.0013 Score=61.57 Aligned_cols=93 Identities=19% Similarity=0.319 Sum_probs=57.4
Q ss_pred HHHHHHHHHHhCCCCCC--CCccchHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccC
Q 005049 214 LRCMRFWAKRRGVYSNV--AGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWD 291 (716)
Q Consensus 214 lr~IK~WAK~RGIysn~--~G~LGG~swaLLVa~vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~~~~~vWd 291 (716)
+|.+|.++|.-|+|++- .++++||..-|||+++= + +....+.-+ +|..++.|..-..+.. .+..
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~yG------s----F~~~l~~a~--~W~~~~~Id~~~~~~~-~~~f- 68 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHYG------S----FENVLEAAA--KWKPPVVIDLEDHGEP-SKKF- 68 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHHS------S----HHHHHHHHT--T--TTEEEETT-TTE---EEE-
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHHC------C----HHHHHHHHH--hcCCCeEEccCccchh-hhhc-
Confidence 68899999999999964 78999999999999873 2 222333334 6766776533211110 0111
Q ss_pred CCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHH
Q 005049 292 PRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMM 328 (716)
Q Consensus 292 P~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~vI~ 328 (716)
...+.|+||.+|..|+|.+||..++..+.
T Consensus 69 --------~~PlvviDPvDp~RNVAAalS~~~~~~fv 97 (114)
T PF09249_consen 69 --------DDPLVVIDPVDPNRNVAAALSLENLAEFV 97 (114)
T ss_dssp ---------SS-EEEETTEEEEETTTTS-HHHHHHHH
T ss_pred --------CCCeEEcCCCCCCchHhHhcCHHHHHHHH
Confidence 13699999999999999999987765543
No 21
>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=96.75 E-value=0.0024 Score=54.91 Aligned_cols=31 Identities=35% Similarity=0.563 Sum_probs=28.3
Q ss_pred cEEEEeeeeccCCCCCCCCceEEEecCCCCC
Q 005049 84 AKIFTFGSYRLGVHGPGADIDTLCVGPRHAT 114 (716)
Q Consensus 84 akI~~FGSy~lGv~~p~SDID~lcv~P~~v~ 114 (716)
..++.|||++.|-+.++||||++++.+....
T Consensus 19 ~~i~LfGS~arg~~~~~SDiDl~vi~~~~~~ 49 (93)
T cd05403 19 EKVYLFGSYARGDARPDSDIDLLVIFDDPLD 49 (93)
T ss_pred cEEEEEeeeecCCCCCCCCeeEEEEeCCCCC
Confidence 5799999999999999999999999987664
No 22
>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=96.35 E-value=0.033 Score=68.83 Aligned_cols=156 Identities=22% Similarity=0.392 Sum_probs=103.7
Q ss_pred chhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHH-hhCC---CCCHHHHHHHHHHhhcc
Q 005049 193 GCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARIC-QLYP---NAVPSMLVSRFFRVYTQ 268 (716)
Q Consensus 193 G~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vc-QlyP---nas~~~LL~~FF~~Ys~ 268 (716)
..+-+..|..+--..+.|..++|.+|.|...+-+ .|++.--.+=||||++. +-+| +.++-.=+.+|.++-+.
T Consensus 668 ~p~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~~p~~~P~S~~~GFlRfL~lLs~ 743 (972)
T PF03813_consen 668 LPKHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSPAPWSPPSSPQTGFLRFLHLLST 743 (972)
T ss_pred hHHHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCCCCCCCCCCHhHHHHHHHHHHHh
Confidence 3445566666666778999999999999999977 56778889999999887 3344 45666667788888899
Q ss_pred CCCCC-ceeecccccCC--------CCccccCCCCCCCCCCCCeeEeCCCCCCCCcccc---cChhhHHHHHHHHHHHHH
Q 005049 269 WRWPN-PVLLCAIEEGS--------LGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYN---VSTSTLRIMMDEFQRGHE 336 (716)
Q Consensus 269 wdW~~-pV~L~~i~~G~--------~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~n---Vs~sTl~vI~~EF~RA~~ 336 (716)
|||.+ |+++..-.+=. ..+..|.. ..+......|.|.||.+|.-. ..+ -+..-+.+|+.--+.+.+
T Consensus 744 ~dW~~~PLiVd~~~~l~~~~~~~i~~~f~~~R~-~dp~~~~p~~~IaT~~D~~g~-~wT~~~Ps~~v~~Rl~~LAk~sl~ 821 (972)
T PF03813_consen 744 WDWREEPLIVDFNNELTEEDRAEIETNFDAWRK-IDPAMNLPAMFIATPYDPEGS-LWTRNGPSKVVAKRLTALAKASLK 821 (972)
T ss_pred CCCCcCCEEEECCCCCCHHHHHHHHHHHHHhhc-cCccccCCcEEEEeCCCCCCC-EeECCCCCHHHHHHHHHHHHHHHH
Confidence 99985 77653321100 01222321 112233457999999998533 232 344456777777677777
Q ss_pred HHHHHHccCCCCCcccccCC
Q 005049 337 ICEAMEKNEADVDWDTLFEP 356 (716)
Q Consensus 337 Il~~i~~~~~~~~W~~Lfep 356 (716)
+++. .+-...+|..||.+
T Consensus 822 ~l~~--~~~~~~~~~~lF~~ 839 (972)
T PF03813_consen 822 LLEE--QGLSDLDWKSLFRP 839 (972)
T ss_pred HHHh--cCCCCCCHHHhcCC
Confidence 7762 22123499999976
No 23
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=96.00 E-value=0.07 Score=52.63 Aligned_cols=118 Identities=21% Similarity=0.366 Sum_probs=75.8
Q ss_pred EEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceee-EeecCCcccEEEEEecCeeeeEEeeec
Q 005049 85 KIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTEL-HPVPDAHVPVMKFKFSGVSIDLLYARL 163 (716)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l-~~V~~ArVPIIKf~~~GI~iDLsfa~l 163 (716)
.-...|...+|+..++||||++|.++.. +.|-..+.....+.++.+-- ..|..-..=+..|.+.|..|-| |++.
T Consensus 17 ~PiL~GTiPi~Idi~~SDLDIic~~~d~----~~F~~~l~~~f~~~~~f~~~~~~i~~~~~~~~~F~~~~~~~Ei-F~Q~ 91 (152)
T PF14091_consen 17 DPILVGTIPIGIDIPGSDLDIICEVPDP----EAFEQLLQSLFGQFEGFTIKEKTIRGEPSIVANFRYEGFPFEI-FGQP 91 (152)
T ss_pred CCEEecccccccCCCCCCccEEEEeCCH----HHHHHHHHHHhccCCCceeeeceeCCceeEEEEEEECCceEEE-eecC
Confidence 3566799999999999999999999853 23444444444444443211 2344455556778889988886 4442
Q ss_pred cccccCCCCCCCchhhhcccchhhhhhhcchhhHHHHHHhcCCc-hhHHHHHHHHH--------HHHHHhCCCCC
Q 005049 164 SLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKI-QNFRTTLRCMR--------FWAKRRGVYSN 229 (716)
Q Consensus 164 ~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~-~~FR~llr~IK--------~WAK~RGIysn 229 (716)
. .+..-||+|=-..-.+++-.. +.||.-+|-+| +||+--||-++
T Consensus 92 ~----------------------Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~GD 144 (152)
T PF14091_consen 92 I----------------------PVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLEGD 144 (152)
T ss_pred C----------------------ChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCCCC
Confidence 1 133457787544333444444 78999888887 46666666554
No 24
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.35 E-value=0.057 Score=49.54 Aligned_cols=29 Identities=34% Similarity=0.511 Sum_probs=25.2
Q ss_pred cEEEEeeeeccCCCCCCCCceEEEecCCC
Q 005049 84 AKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (716)
Q Consensus 84 akI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (716)
.++-.||||+=|=..|+||||+++-.-..
T Consensus 25 ~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 25 KRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred ceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 57999999999999999999988866443
No 25
>PF07528 DZF: DZF domain; InterPro: IPR006561 This domain is found in proteins containing the double-stranded RNA-binding motif, DSRM (IPR001159 from INTERPRO), or the zinc finger domain C2H2 (IPR007087 from INTERPRO). This domain is found exclusively in the metazoa.
Probab=95.14 E-value=0.92 Score=48.14 Aligned_cols=209 Identities=18% Similarity=0.244 Sum_probs=133.6
Q ss_pred eeeeccCCCCCCC-CceEEEecCCCCCchhhHHHHHHHHHhc----C-CC-ce---e-eEeecCCcccEEEEEe--cC--
Q 005049 89 FGSYRLGVHGPGA-DIDTLCVGPRHATREEDFFGELHQMLTE----M-PE-VT---E-LHPVPDAHVPVMKFKF--SG-- 153 (716)
Q Consensus 89 FGSy~lGv~~p~S-DID~lcv~P~~v~r~e~Ff~~l~~~L~~----~-~~-V~---~-l~~V~~ArVPIIKf~~--~G-- 153 (716)
.||+.-|+.+.|. ++|+|+++..-.|. +++..+.+.|.+ . +. |. + ...|...+.|.+...+ .+
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kPT~--~lL~~v~~~L~~~L~~~~~~ev~~~~e~~~~~~~~~~~~~~~~~~lts~~ 79 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKPTK--ELLNRVAEKLPEQLKKVTPEEVTNSVEAAIIIDSCKEPKLEVGIDLTSPV 79 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCCcH--HHHHHHHHHHHHHHhhhCccccccchhhhhhhcccccccceeeEEecCCc
Confidence 5999999999875 89999999887775 566665554443 2 22 11 0 1112223335555543 22
Q ss_pred eeeeEEeeeccccccCCCCCCCchhhhcccch-hhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCC
Q 005049 154 VSIDLLYARLSLWVIPEDLDISQDSILQNADE-QTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAG 232 (716)
Q Consensus 154 I~iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe-~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G 232 (716)
+.+.+.... .+++..-.+. -..+|. .|..+|-..|-+.++.+........+.++|++|-..+|-- -++
T Consensus 80 ~r~~~~~~~-----~~~~~~~~dp--~~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~p----~w~ 148 (248)
T PF07528_consen 80 MRVRVLITT-----IPENLSKLDP--EDHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRVP----TWQ 148 (248)
T ss_pred eEEEEeccc-----cCccccccCh--hhcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhCC----CCC
Confidence 333433322 2333221111 112333 5778888899999999998888889999999999988753 356
Q ss_pred ccchHHHHHHHHHHHhhCCC---CCHHHHHHHHHHhhc-cCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCC
Q 005049 233 FLGGINWALLVARICQLYPN---AVPSMLVSRFFRVYT-QWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITP 308 (716)
Q Consensus 233 ~LGG~swaLLVa~vcQlyPn---as~~~LL~~FF~~Ys-~wdW~~pV~L~~i~~G~~~~~vWdP~~~~~dr~hlMpIiTP 308 (716)
-|+++.+=+|+-+..---|+ .++++-+.+||+..| -+=.|. . | -|.||
T Consensus 149 ~L~~W~leLL~~~~i~~~~~~~~l~~g~a~RRvle~lasGillp~----------~-------~-----------gl~DP 200 (248)
T PF07528_consen 149 PLSSWALELLVEKAISNNSSRQPLSPGDAFRRVLECLASGILLPG----------S-------P-----------GLRDP 200 (248)
T ss_pred CCChhHHHHHHHHHeeeCCCCCCCChHHHHHHHHHHHhCceecCC----------C-------C-----------CCcCC
Confidence 68888888888776653332 478999999999876 222221 0 0 13466
Q ss_pred CC-CCCCcccccChhhHHHHHHHHHHHHHHH
Q 005049 309 AY-PCMNSSYNVSTSTLRIMMDEFQRGHEIC 338 (716)
Q Consensus 309 ~~-P~~Nsa~nVs~sTl~vI~~EF~RA~~Il 338 (716)
+. ...++..+.|..-...|..--|.+..++
T Consensus 201 cE~~~~~~~~~lt~qq~e~it~sAQ~~LRll 231 (248)
T PF07528_consen 201 CEKDPVDVLDTLTLQQREDITSSAQTALRLL 231 (248)
T ss_pred CCCCCceeeccCCHHHHHHHHHHHHHHHHHH
Confidence 66 5577777888888888887666666654
No 26
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=94.00 E-value=0.087 Score=47.71 Aligned_cols=29 Identities=38% Similarity=0.534 Sum_probs=26.2
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEEecCC
Q 005049 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (716)
Q Consensus 83 ~akI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (716)
...++.|||++-|=+.+.||||++++++.
T Consensus 26 ~~~v~LfGS~arG~~~~~SDiDv~vv~~~ 54 (128)
T COG1708 26 DLLIYLFGSYARGDFVKESDIDLLVVSDD 54 (128)
T ss_pred CeEEEEEccCcccccccCCCeeEEEEcCC
Confidence 47899999999999999999999999833
No 27
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=93.75 E-value=0.12 Score=55.11 Aligned_cols=31 Identities=29% Similarity=0.267 Sum_probs=28.0
Q ss_pred EEEEeeeeccCCCCCCCCceEEEecCCCCCc
Q 005049 85 KIFTFGSYRLGVHGPGADIDTLCVGPRHATR 115 (716)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r 115 (716)
-|+.|||+..|-..|.||||++++.....+.
T Consensus 30 ~vyLfGS~~~G~~~p~SDIDllvvv~~~l~~ 60 (262)
T PRK13746 30 AIHLYGSAVDGGLKPHSDIDLLVTVAVPLDE 60 (262)
T ss_pred EEEEECCcccCCCCCCCceeEEEEeCCCCCH
Confidence 5899999999999999999999999887653
No 28
>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=92.85 E-value=0.11 Score=52.94 Aligned_cols=47 Identities=11% Similarity=0.089 Sum_probs=33.0
Q ss_pred chhHHHHHHHHHHHHHHhCCCCCC-CCccchHHHHHHHHHHHhhCCCC
Q 005049 207 IQNFRTTLRCMRFWAKRRGVYSNV-AGFLGGINWALLVARICQLYPNA 253 (716)
Q Consensus 207 ~~~FR~llr~IK~WAK~RGIysn~-~G~LGG~swaLLVa~vcQlyPna 253 (716)
....+.|+|.||+|-+...-.... -+...+|++-||+++.-..-...
T Consensus 41 P~klK~LIrLVKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~g~~~ 88 (190)
T PF10421_consen 41 PTKLKNLIRLVKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQGCGA 88 (190)
T ss_dssp -HHHHHHHHHHHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHHHT-S
T ss_pred CHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHhcCCC
Confidence 367889999999999987666433 34567899999999999765443
No 29
>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=91.86 E-value=2.3 Score=46.19 Aligned_cols=113 Identities=24% Similarity=0.285 Sum_probs=71.8
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEec------Cee
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFS------GVS 155 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~------GI~ 155 (716)
...++.+-||||=|-.+- +|||+|+..+....+ .++..+...|.+.+.+..+.. .-..-....+. |+.
T Consensus 159 ~~~~v~i~GS~RRg~et~-gDiDilv~~~~~~~~--~~~~~v~~~l~~~~~~~~~~~---~g~~k~~~~~~~~~~~~~~r 232 (307)
T cd00141 159 PVLQVEIAGSYRRGKETV-GDIDILVTHPDATSR--GLLEKVVDALVELGFVTEVLS---KGDTKASGILKLPGGWKGRR 232 (307)
T ss_pred CceEEEEcccccCCCCcc-CCEEEEEecCCcccc--ccHHHHHHHHHhCCCeehhhh---CCCceEEEEEecCCCCCceE
Confidence 467899999999987764 799988887765442 567788888888776644211 11122222222 899
Q ss_pred eeEEeeeccccccCCCCCCCchhhhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCcc
Q 005049 156 IDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFL 234 (716)
Q Consensus 156 iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~L 234 (716)
|||.++....+ .-.++-+.-+ .. ..|.++.||++||..=+..|..
T Consensus 233 VDl~~~p~~~~------------------------------~~all~fTGs-~~---~nr~lR~~A~~~G~~L~~~GL~ 277 (307)
T cd00141 233 VDLRVVPPEEF------------------------------GAALLYFTGS-KQ---FNRALRRLAKEKGLKLNEYGLF 277 (307)
T ss_pred EEEEEeCHHHH------------------------------HHHHHHhhCC-HH---HHHHHHHHHHHcCCeeeccccc
Confidence 99998764211 0112222222 22 3566799999999887777654
No 30
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=91.08 E-value=0.44 Score=49.70 Aligned_cols=33 Identities=27% Similarity=0.337 Sum_probs=27.7
Q ss_pred CcEEEEeeeec----cCC--CCCCCCceEEEecCCCCCc
Q 005049 83 NAKIFTFGSYR----LGV--HGPGADIDTLCVGPRHATR 115 (716)
Q Consensus 83 ~akI~~FGSy~----lGv--~~p~SDID~lcv~P~~v~r 115 (716)
+..+.+|||+. +|+ -.++||||+|+-.|.....
T Consensus 120 g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~~~~~ 158 (221)
T PRK02098 120 GVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPAAAQI 158 (221)
T ss_pred CCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCChhhH
Confidence 46799999999 999 6899999999888765544
No 31
>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=90.16 E-value=0.55 Score=48.31 Aligned_cols=44 Identities=23% Similarity=0.226 Sum_probs=32.1
Q ss_pred CcEEEEeeee----ccCC--CCCCCCceEEEecCCCCCchhhHHHHHHHHHh
Q 005049 83 NAKIFTFGSY----RLGV--HGPGADIDTLCVGPRHATREEDFFGELHQMLT 128 (716)
Q Consensus 83 ~akI~~FGSy----~lGv--~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~ 128 (716)
+..+.+|||+ .+|+ -.++||||+|+-.|.....+ .+ ..+.+.|.
T Consensus 108 ~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~~~~~~-~~-~~ll~~l~ 157 (202)
T TIGR03135 108 GVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPSPLSLA-RL-LALLQALE 157 (202)
T ss_pred CCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCChhhHH-HH-HHHHHHHh
Confidence 4679999999 8999 68999999999888655542 33 33444444
No 32
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=84.67 E-value=1.9 Score=40.27 Aligned_cols=53 Identities=30% Similarity=0.416 Sum_probs=40.0
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCCCc---hhhHHHHHHHHHhcCCCcee
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATR---EEDFFGELHQMLTEMPEVTE 135 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r---~e~Ff~~l~~~L~~~~~V~~ 135 (716)
.+..+..-||||=|-.+.+ |||+|+..|..... ...++..+...|.+..-++.
T Consensus 23 p~~~v~i~GSyRRGK~~~g-DiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~i~~ 78 (112)
T PF14792_consen 23 PGLEVEICGSYRRGKETSG-DIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGFITD 78 (112)
T ss_dssp TT-EEEEEHHHHTT-SEES-SEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTSEEE
T ss_pred CCcEEEEccccccCCCcCC-CeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCeEEE
Confidence 4688999999999988776 99999998876542 13688999999998655543
No 33
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=82.63 E-value=0.29 Score=52.38 Aligned_cols=28 Identities=29% Similarity=0.337 Sum_probs=23.7
Q ss_pred EEEEeeeeccCCCCCCCCceEEEecCCC
Q 005049 85 KIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (716)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (716)
.+=.-||..+|++..+||||+++-|+.+
T Consensus 123 ~mGVTGSiL~gl~~~nSDIDfVVYG~~~ 150 (315)
T COG1665 123 SMGVTGSILLGLYDENSDIDFVVYGQMW 150 (315)
T ss_pred hccccccccccccCCCCCceEEEEcHHH
Confidence 3456799999999999999999999544
No 34
>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=82.56 E-value=5.5 Score=39.01 Aligned_cols=48 Identities=25% Similarity=0.396 Sum_probs=36.2
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhc
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTE 129 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~ 129 (716)
...-+..+|||.-+=-.+.||||++++.+........+|..+.+.+.+
T Consensus 54 ~~~~~la~Gs~GR~E~~~~SD~D~~~v~~~~~~~~~~~~~~l~~~i~~ 101 (172)
T cd05401 54 VPFALLALGSYGRGELNPSSDQDLLLLYDDDGDEVAAYFEELAERLIK 101 (172)
T ss_pred CcEEEEEeCCcccCCcCCCcCcceEEEeCCCCchHHHHHHHHHHHHHH
Confidence 457899999999999999999999998875432122567666655554
No 35
>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=76.79 E-value=14 Score=35.49 Aligned_cols=48 Identities=17% Similarity=0.222 Sum_probs=36.8
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCCCc-hhhHHHHHHHHHhc
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATR-EEDFFGELHQMLTE 129 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r-~e~Ff~~l~~~L~~ 129 (716)
...-++.+||+.=+=.++.||+|..+|....... ...+|..|.+.+..
T Consensus 48 ~~~a~lalGS~GR~E~~~~sDqD~alv~~d~~~~~~~~~f~~~a~~~~~ 96 (138)
T PF03445_consen 48 VPFAWLALGSYGRREQTLYSDQDNALVFEDEESEEDRAYFEAFAERLVD 96 (138)
T ss_pred CCEEEEEECcccccCCCcCccccceeeecCccchhHHHHHHHHHHHHHH
Confidence 5678999999999999999999999998873221 13677776665553
No 36
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=75.66 E-value=9.2 Score=46.80 Aligned_cols=54 Identities=24% Similarity=0.407 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCCCCC
Q 005049 57 LDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHAT 114 (716)
Q Consensus 57 L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~ 114 (716)
...++..|+..+-...|+++ ..+.-|..+|.|.=|-=.|.||||++++.|...+
T Consensus 44 ~~~~~d~~L~~lw~~~g~~~----~~~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~ 97 (867)
T COG2844 44 RTDLVDQLLIRLWQEIGFAD----ASGLALVAVGGYGRGELHPLSDIDLLLLSPQKLT 97 (867)
T ss_pred HHHHHHHHHHHHHHHcCccc----ccceEEEEeccccccccCCCccceEEEecCCCCC
Confidence 33455555555555667764 3467899999999999999999999999998766
No 37
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=72.63 E-value=21 Score=44.70 Aligned_cols=122 Identities=18% Similarity=0.288 Sum_probs=71.2
Q ss_pred hhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHHhh----CCCCCHHHHHHHHHHhhccCC
Q 005049 195 RVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQL----YPNAVPSMLVSRFFRVYTQWR 270 (716)
Q Consensus 195 Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl----yPnas~~~LL~~FF~~Ys~wd 270 (716)
|.+-.|..+-..+..|-.++|.-|.|...+=+-+ |.+ -=++-||||...+. .|..++-.=+.+|..+-|+||
T Consensus 806 ~ht~aL~~l~qsh~~ys~vvrLaKrWl~shLL~~---h~~-De~iELLva~lf~~p~p~~~psS~~~gFlRfL~llS~~d 881 (1121)
T KOG2054|consen 806 LHTLALQSLSQSHPFYSSVVRLAKRWLGSHLLSG---HHL-DEAIELLVAALFLKPGPLVPPSSPENGFLRFLSLLSTWD 881 (1121)
T ss_pred HHHHHHHHHhhcccchhHHHHHHHHHHHHHhhcc---chH-HHHHHHHHHHHhcCccCCCCCCCcchhHHHHHHHHhcCc
Confidence 3444444444557789999999999987764432 122 44677888877642 345566666789999999999
Q ss_pred CCC-ceeecccccCCCCcc----ccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhh
Q 005049 271 WPN-PVLLCAIEEGSLGLQ----VWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTST 323 (716)
Q Consensus 271 W~~-pV~L~~i~~G~~~~~----vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sT 323 (716)
|.. |.++.- ..+ .... ....-...+..+..|.|+||.+- .+..+.-+..+
T Consensus 882 W~~~PLIvd~-nn~-~~ed~~~e~~e~f~s~R~~lp~m~vit~yD~-~~~~~t~~~P~ 936 (1121)
T KOG2054|consen 882 WKFDPLIVDF-NNG-FPEDERSELEEKFISARKQLPPMVVITPYDH-LGSKFTRTSPN 936 (1121)
T ss_pred ccCCceEEEc-CCC-CcHHHHHHHHHHHhhhcccCCceEEeecccc-ccccccccCch
Confidence 986 666532 211 1000 00000011122347999999654 44444444444
No 38
>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=68.92 E-value=8.2 Score=40.04 Aligned_cols=33 Identities=21% Similarity=0.308 Sum_probs=25.6
Q ss_pred cCcEEEEeeeec----cCCC--CCCCCceEEEecCCCCC
Q 005049 82 ANAKIFTFGSYR----LGVH--GPGADIDTLCVGPRHAT 114 (716)
Q Consensus 82 ~~akI~~FGSy~----lGv~--~p~SDID~lcv~P~~v~ 114 (716)
.+...-+|||+. +|+. .++||||+++-.+....
T Consensus 115 ~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~~~ 153 (213)
T PF10620_consen 115 LGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSPSQ 153 (213)
T ss_pred cCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCChhH
Confidence 356799999985 4544 68999999988887664
No 39
>PRK05007 PII uridylyl-transferase; Provisional
Probab=65.90 E-value=20 Score=44.56 Aligned_cols=57 Identities=16% Similarity=0.327 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCCCC
Q 005049 53 VLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA 113 (716)
Q Consensus 53 VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v 113 (716)
++.....++.++++.+-...+++. ..+.-|...|+|+=|=-.|.||||++++.+...
T Consensus 54 ~~~~~s~~~D~~l~~l~~~~~~~~----~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~~ 110 (884)
T PRK05007 54 LVEARTEFIDQLLQRLWIEAGFDQ----IPDLALVAVGGYGRGELHPLSDIDLLILSRKKL 110 (884)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCC----cCceEEEecCCCCCcccCCcccceEEEEeCCCC
Confidence 444445555555555444444432 246789999999999999999999999988443
No 40
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=64.56 E-value=27 Score=38.70 Aligned_cols=77 Identities=29% Similarity=0.320 Sum_probs=50.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHH
Q 005049 41 YESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFF 120 (716)
Q Consensus 41 ~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff 120 (716)
|+.-.....|+++.+.. ++|++-++. ...++.+..-|||+=|- ..+.|||+|+..|..-..+...+
T Consensus 142 y~Df~~~v~ReE~~~i~-~~V~~av~~------------~~p~~~vt~~GsfRRGk-~~ggDvD~LithP~~~s~~~~~~ 207 (353)
T KOG2534|consen 142 YEDFLKRVTREEATAIQ-QTVQEAVWA------------FDPEAFVTVTGSFRRGK-KMGGDVDFLITHPGSTSTEAKLL 207 (353)
T ss_pred HHHHhhhccHHHHHHHH-HHHHHHHhh------------cCCCcEEEEeccccCCc-ccCCCeeEEEeCCCCCchhhhHH
Confidence 44444455666665533 333332221 24568899999999984 56889999988887655334677
Q ss_pred HHHHHHHhcCC
Q 005049 121 GELHQMLTEMP 131 (716)
Q Consensus 121 ~~l~~~L~~~~ 131 (716)
..|...|.+..
T Consensus 208 ~~l~~~le~~g 218 (353)
T KOG2534|consen 208 QLLMILLEKKG 218 (353)
T ss_pred HHHHHHHHhcC
Confidence 78888888743
No 41
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=63.46 E-value=18 Score=43.89 Aligned_cols=65 Identities=22% Similarity=0.174 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHH
Q 005049 47 AVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQM 126 (716)
Q Consensus 47 ~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~ 126 (716)
.+.|+++.+.-..+++. .++++ +.-|...|+|+=|=-.|.||||++++.+.... +.+.+.|...
T Consensus 5 ~~~~~~~~~~~~~~~~~--------~~~~~------~~aLvAvGGYGR~EL~P~SDIDLLiL~~~~~~--~~~i~~~~~~ 68 (693)
T PRK00227 5 AQLREDAEASALALLGS--------LQLPP------GTALAATGSLARREMTPYSDLDLILLHPPGAT--PDGVEDLWYP 68 (693)
T ss_pred HHHHHHHHHHHHHHHHh--------cCCCC------CeEEEEeccccccCcCCCcCceEEEEeCCccc--HHHHHHHHHH
Confidence 34566666666666664 24542 46799999999999999999999999884333 2444444444
Q ss_pred H
Q 005049 127 L 127 (716)
Q Consensus 127 L 127 (716)
|
T Consensus 69 L 69 (693)
T PRK00227 69 I 69 (693)
T ss_pred H
Confidence 3
No 42
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=63.09 E-value=97 Score=34.28 Aligned_cols=31 Identities=32% Similarity=0.447 Sum_probs=24.7
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCC
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA 113 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v 113 (716)
....+..-||||=|-.+- .|||+|+..+...
T Consensus 163 ~~~~v~i~GSyRRgket~-gDIDili~~~~~~ 193 (334)
T smart00483 163 PDAIVTLTGSFRRGKETG-HDVDFLITSPHPA 193 (334)
T ss_pred CCcEEEEecccccCCCcC-CCeeEEEecCCcc
Confidence 357899999999987664 6999888877643
No 43
>PRK08609 hypothetical protein; Provisional
Probab=62.11 E-value=47 Score=39.38 Aligned_cols=109 Identities=18% Similarity=0.259 Sum_probs=62.4
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEe-cCeeeeEEe
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKF-SGVSIDLLY 160 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~-~GI~iDLsf 160 (716)
...++..-||||=|--+- .|||+|+..+.. ..+.+.|.+.+.|+++..-...+.-+ .+.. .|+.|||-+
T Consensus 174 ~~~~v~~~GS~RR~~et~-gDiDili~~~~~--------~~~~~~l~~~~~v~~~~~~g~~~~~~-~~~~~~~~~vDl~~ 243 (570)
T PRK08609 174 EIIRFSRAGSLRRARETV-KDLDFIIATDEP--------EAVREQLLQLPNIVEVIAAGDTKVSV-ELEYEYTISVDFRL 243 (570)
T ss_pred CccEEEeccchhcccccc-CCeeEEEecCCH--------HHHHHHHHcCccHHHHHhcCCceEEE-EEecCCCeEEEEEE
Confidence 346899999999997664 699988877542 12223344444444332222222211 2332 389999988
Q ss_pred eeccccccCCCCCCCchhhhcccchhhhhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCcc
Q 005049 161 ARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFL 234 (716)
Q Consensus 161 a~l~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~L 234 (716)
+....+ | -.++-..-. .. -.|-++.||++||+.=|-.|..
T Consensus 244 v~~~~~--------------------------~----~aL~yfTGS-~~---hn~~lr~~A~~~g~~l~e~gl~ 283 (570)
T PRK08609 244 VEPEAF--------------------------A----TTLHHFTGS-KD---HNVRMRQLAKERGEKISEYGVE 283 (570)
T ss_pred eCHHHH--------------------------H----HHHHHHhcc-HH---HHHHHHHHHHHcCCcccccccc
Confidence 764311 0 011111111 22 2456689999999988888874
No 44
>PRK03059 PII uridylyl-transferase; Provisional
Probab=60.46 E-value=19 Score=44.67 Aligned_cols=53 Identities=28% Similarity=0.431 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCC
Q 005049 53 VLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (716)
Q Consensus 53 VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (716)
++..+..++.++++.+-...+++ .+.-|...|+|+=|--.|.||||++++.+.
T Consensus 37 ~~~~~s~l~d~~l~~~~~~~~~~------~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 37 LLHALSRLVDQALRRLWQECGLP------AGAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCC------CCeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 55555566666555443222222 246799999999999999999999999864
No 45
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=59.95 E-value=22 Score=37.03 Aligned_cols=44 Identities=30% Similarity=0.312 Sum_probs=30.8
Q ss_pred CcEEEEeeeec----cCCC--CCCCCceEEEecCCCCCchhhHHHHHHHHHh
Q 005049 83 NAKIFTFGSYR----LGVH--GPGADIDTLCVGPRHATREEDFFGELHQMLT 128 (716)
Q Consensus 83 ~akI~~FGSy~----lGv~--~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~ 128 (716)
+...-+|||.. +|+. .++||||+++.+|....+ +-+..+.+.|.
T Consensus 109 ~~~wgv~GS~g~qlaTGl~~l~~~SDLDLlir~~~~l~~--~~~~~ll~~l~ 158 (207)
T PRK01293 109 GLAWGVTGSAGFELATGIPVLHADSDLDLLIRAPQPLAR--DQARELLQLLD 158 (207)
T ss_pred CCceeeehhHHHHHhhCCccccCCCCccEeecCCCcccH--HHHHHHHHHHh
Confidence 46688999975 4443 689999999999877665 33445555544
No 46
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=57.31 E-value=3e+02 Score=30.28 Aligned_cols=212 Identities=18% Similarity=0.257 Sum_probs=110.2
Q ss_pred HHHhhHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCc
Q 005049 24 DLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADI 103 (716)
Q Consensus 24 D~~~t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDI 103 (716)
|-..+++|.+- +.++-|+.+|..+=.+...+++..+..-+ +.|+-+ -.-..|.-+|||..|.-+-++|.
T Consensus 38 D~~f~~alLkR--nqdL~P~~~~q~~I~~~vtKV~~vLdn~~-----~~~L~~----~~ieevrqVGSF~k~T~~tg~~~ 106 (362)
T KOG3793|consen 38 DTSFSEALLKR--NQDLAPNSAEQASILSLVTKVNNVLDNLV-----APGLFE----VQIEEVRQVGSFKKGTMTTGHNV 106 (362)
T ss_pred chHHHHHHHhh--hccCCCCHHHHHHHHHHHHHHHHHHHhhc-----cCCceE----eehhhhhhccceeccccccCCcc
Confidence 66777776553 34799999998777777777766665422 122322 12256788999999999998876
Q ss_pred -eEEEecCCCCCch--hhHHHHHHHHHhcC-C-CceeeEeecCCcccEEE--EEe--cCeeeeEEeeeccccccCCCCCC
Q 005049 104 -DTLCVGPRHATRE--EDFFGELHQMLTEM-P-EVTELHPVPDAHVPVMK--FKF--SGVSIDLLYARLSLWVIPEDLDI 174 (716)
Q Consensus 104 -D~lcv~P~~v~r~--e~Ff~~l~~~L~~~-~-~V~~l~~V~~ArVPIIK--f~~--~GI~iDLsfa~l~~~~ip~~ldl 174 (716)
|+|++-.--.+.+ ...-.++.+-|+.. + +|-. |-+.+ |.+ ..-.+-|+.+.+ |+++.-
T Consensus 107 advVViLkTLPt~EaV~aLg~Kv~e~lka~d~~Evlt--------vl~~e~G~~I~s~~~~VRiLIt~i-----P~n~~K 173 (362)
T KOG3793|consen 107 ADLVVILKTLPTLEAVAALGNKVVESLRAQDPSEVLT--------VLTNETGFEISSSDATVRILITTV-----PPNLRK 173 (362)
T ss_pred cceEEEeecCCcHHHHHHHHHHHHHHhhhcChHHHHH--------HHhhccceeeecccceEEEEEeec-----Cchhcc
Confidence 5555543332321 01112233333321 1 2211 11112 111 123344444443 555421
Q ss_pred Cchhhhcccchhh-hhhhcchhhHHHHHHhcCCchhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHH-HHHHHHhhC-C
Q 005049 175 SQDSILQNADEQT-VRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWAL-LVARICQLY-P 251 (716)
Q Consensus 175 ~~d~lL~~lDe~s-vrSLNG~Rvtd~IlrlVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaL-LVa~vcQly-P 251 (716)
. +++-.+|.+- ...|-.+|-+.++-+. -.....+.++|++|---.+ +-||=.=-.|+| |++++|-+. |
T Consensus 174 L--EP~lHLD~K~M~~~l~a~RH~~WFee~-A~~s~~~~lir~LKDlr~r------~~~F~PLs~W~ldll~h~avmNnp 244 (362)
T KOG3793|consen 174 L--EPELHLDIKVMQSALAAIRHARWFEEN-ASQSTVKVLIRLLKDLRIR------FPGFEPLTPWILDLLGHYAVMNNP 244 (362)
T ss_pred c--ChhhhhhHHHHHHHHHHHhhhhhhhhh-hhHHHHHHHHHHHHHHHhh------cCCCCCchHHHHHHHHHHHHHcCC
Confidence 1 1222233322 1223345555444332 2234567788888865443 334422234544 567777543 4
Q ss_pred C---CCHHHHHHHHHHhhcc
Q 005049 252 N---AVPSMLVSRFFRVYTQ 268 (716)
Q Consensus 252 n---as~~~LL~~FF~~Ys~ 268 (716)
+ +.++.-..+||++.+.
T Consensus 245 ~RQ~l~ln~Afrr~~qilaA 264 (362)
T KOG3793|consen 245 TRQPLALNVAYRRCLQILAA 264 (362)
T ss_pred ccccchhhHHHHHHHHHHHh
Confidence 3 4678889999999873
No 47
>PF03710 GlnE: Glutamate-ammonia ligase adenylyltransferase; InterPro: IPR005190 This is a conserved repeated domain found in GlnE proteins. These proteins adenylate and deadenylate glutamine synthases: ATP + {L-Glutamate:ammonia ligase (ADP-forming)} = Diphosphate + Adenylyl-{L-Glutamate:Ammonia ligase (ADP-forming)}. The domain is related to the nucleotidyltransferase domain IPR002934 from INTERPRO.; GO: 0008882 [glutamate-ammonia-ligase] adenylyltransferase activity; PDB: 1V4A_A 3K7D_A.
Probab=57.04 E-value=98 Score=32.67 Aligned_cols=60 Identities=20% Similarity=0.200 Sum_probs=33.0
Q ss_pred hhcCCChhhh-hccCcEEEEeeeeccCCCCCCCCceEEEecCCCCC------chhhHHHHHHHHHhc
Q 005049 70 RAKGLNDQLL-QEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHAT------REEDFFGELHQMLTE 129 (716)
Q Consensus 70 ~~~g~~~~~~-~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~------r~e~Ff~~l~~~L~~ 129 (716)
...|.+.... ...+.-|.-.|-+.-+==..+||||+++|.+..-. ....||..+.+.|.+
T Consensus 113 ~~~G~p~~~~~~~~~~~ViamGKlGg~ELny~SDiDLifvy~~~~~~~~~~~~~~~~~~rl~~~~~~ 179 (247)
T PF03710_consen 113 ARYGRPPDEDGEPAGFAVIAMGKLGGRELNYSSDIDLIFVYDPDGETGRRSISNQEFFTRLAQRLIR 179 (247)
T ss_dssp HHCTSCCCCTTCC-SEEEEE-HHHHTT---TT--EEEEEEE---TT-SSS-SBHHHHHHHHHHHHHH
T ss_pred HHcCCCCcccCCcCCeEEEEeccccccccCCccCCceEEEeccccccccChhhHHHHHHHHHHHHHH
Confidence 3446553211 12356788888888888899999999999764322 113688888877665
No 48
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=56.99 E-value=35 Score=42.40 Aligned_cols=56 Identities=14% Similarity=0.255 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEEecCCC
Q 005049 53 VLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (716)
Q Consensus 53 VL~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (716)
++.....++.++++.+-....++. ..+.-|...|+|+=|==.|.||||++++.+..
T Consensus 30 ~~~~~~~~~D~~l~~l~~~~~~~~----~~~iaLvAvGGYGR~eL~P~SDIDlliL~~~~ 85 (854)
T PRK01759 30 LIENRSDFYDQLLIHLWQQFGLEE----QSDLALIAVGGYGRREMFPLSDLDILILTEQP 85 (854)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCC----CCCeEEEEeCCcccccCCCcccceEEEEeCCC
Confidence 555555555555554433333221 13478999999999999999999999998744
No 49
>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=56.85 E-value=9 Score=40.00 Aligned_cols=26 Identities=27% Similarity=0.210 Sum_probs=22.2
Q ss_pred EEEEeeeeccCCCCCCCCceEEEecC
Q 005049 85 KIFTFGSYRLGVHGPGADIDTLCVGP 110 (716)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P 110 (716)
-...+||..-|+.+|+||.|+-+|.-
T Consensus 22 ~~~~sGS~a~G~~s~dSD~D~r~vy~ 47 (247)
T PF10127_consen 22 YACESGSRAYGFASPDSDYDVRGVYI 47 (247)
T ss_pred EEecccccccCCCCCCcCcccchhcc
Confidence 35678999999999999999877653
No 50
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=54.08 E-value=50 Score=33.39 Aligned_cols=77 Identities=21% Similarity=0.186 Sum_probs=44.4
Q ss_pred cCcEEEEeeeecc----CCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEecCeeee
Q 005049 82 ANAKIFTFGSYRL----GVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSID 157 (716)
Q Consensus 82 ~~akI~~FGSy~l----Gv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iD 157 (716)
.+.+.+..|++++ |.--...|||+++..+.... ..++|..++....-.-+-+.+ .....++++...++.||
T Consensus 15 ~gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~~-~~~~~~~~a~~~g~~~~~~~~----~~~~~~~~~~~~~v~ID 89 (181)
T PF09970_consen 15 RGVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPNL-EADALREVAEENGWDLGWTDF----GTPRYVVKVGGEDVRID 89 (181)
T ss_pred cCCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchHH-HHHHHHHHHHHcCCCcCcccc----CCCceEEEeCCCCeEEE
Confidence 3557999999864 55567899997776664433 235555554322110111111 12334556666789999
Q ss_pred EEeeecc
Q 005049 158 LLYARLS 164 (716)
Q Consensus 158 Lsfa~l~ 164 (716)
| +.++.
T Consensus 90 l-~~ni~ 95 (181)
T PF09970_consen 90 L-LENIG 95 (181)
T ss_pred c-hhccC
Confidence 9 55543
No 51
>PF03281 Mab-21: Mab-21 protein
Probab=54.06 E-value=3e+02 Score=29.26 Aligned_cols=97 Identities=20% Similarity=0.275 Sum_probs=63.8
Q ss_pred chhHHHHHHHHHHHHHHhCCCCCCCCccchHHHHHHHHHHHhhCCCC---CHHHHHHHHHHhhccCCCCCceeecccccC
Q 005049 207 IQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNA---VPSMLVSRFFRVYTQWRWPNPVLLCAIEEG 283 (716)
Q Consensus 207 ~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQlyPna---s~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G 283 (716)
....+.++|++|.-..... ...+.|++|++-.++.+.|..+|.. ....|-.+|.++... ++..+++|
T Consensus 190 ~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~p~~~~W~~~~l~~~l~~~l~~-------L~~~L~~~ 259 (292)
T PF03281_consen 190 NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKHPSSSDWSEENLGERLLDLLDF-------LIKCLQEG 259 (292)
T ss_pred cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHH-------HHHHHhcC
Confidence 4566889999998877766 6678899999999999999999875 234444444443210 12222333
Q ss_pred CCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHH
Q 005049 284 SLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQR 333 (716)
Q Consensus 284 ~~~~~vWdP~~~~~dr~hlMpIiTP~~P~~Nsa~nVs~sTl~vI~~EF~R 333 (716)
.+ | | -+.|.+|.=.+.+..++..+..++.+
T Consensus 260 ~L------p--------h------ff~~~~NLf~~~~~~~~~~~~~~~~~ 289 (292)
T PF03281_consen 260 RL------P--------H------FFIPNLNLFQHLSPEELDELARKLER 289 (292)
T ss_pred CC------C--------c------cCCCCcccCCCCCHHHHHHHHHHHHH
Confidence 22 0 1 15667888888887777777666554
No 52
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=43.66 E-value=45 Score=34.94 Aligned_cols=28 Identities=29% Similarity=0.461 Sum_probs=23.3
Q ss_pred EEEEeeeeccCCCCCCCCceEEEecCCC
Q 005049 85 KIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (716)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (716)
.-+.+||.+.|=--|+||+|+.+.-|..
T Consensus 39 e~~v~gSvarGDV~p~SDvDV~I~~~vp 66 (228)
T COG2413 39 EAVVYGSVARGDVRPGSDVDVAIPEPVP 66 (228)
T ss_pred hhEEEeeeeccCcCCCCCceEEEecCCC
Confidence 4578999999988999999988877543
No 53
>PRK03381 PII uridylyl-transferase; Provisional
Probab=43.27 E-value=73 Score=39.24 Aligned_cols=30 Identities=13% Similarity=0.158 Sum_probs=27.0
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCC
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (716)
...-|...|+|+-|--.|.||||++++.+.
T Consensus 56 ~~~alvAvg~~gr~el~p~SD~Dll~l~~~ 85 (774)
T PRK03381 56 SGVALVAVGGLGRRELLPYSDLDLVLLHDG 85 (774)
T ss_pred CCeEEEEeCCcCCcCcCCCCCCeEEEEeCC
Confidence 346899999999999999999999999873
No 54
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=42.09 E-value=85 Score=39.33 Aligned_cols=32 Identities=28% Similarity=0.367 Sum_probs=28.1
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCC
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA 113 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v 113 (716)
.+.-|...|.|+=|-=.|.||||++++.+...
T Consensus 77 ~~~alvAvGgyGR~EL~p~SDiDll~l~~~~~ 108 (895)
T PRK00275 77 ADIALVAVGGYGRGELHPYSDIDLLILLDSAD 108 (895)
T ss_pred CCEEEEEcCCccccCcCCCCCceEEEEecCCC
Confidence 35789999999999999999999999987543
No 55
>PRK04374 PII uridylyl-transferase; Provisional
Probab=41.85 E-value=83 Score=39.33 Aligned_cols=29 Identities=28% Similarity=0.489 Sum_probs=26.5
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEEecCC
Q 005049 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (716)
Q Consensus 83 ~akI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (716)
+.-|...|+|+=|==.|.||||++++.+.
T Consensus 72 ~~alvAvGgYGR~EL~p~SDIDLliL~~~ 100 (869)
T PRK04374 72 GLSLHAVGGYGRGELFPRSDVDLLVLGET 100 (869)
T ss_pred CEEEEEcCCccccccCCcccceEEEEecC
Confidence 46899999999999999999999999874
No 56
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=39.70 E-value=94 Score=38.54 Aligned_cols=31 Identities=26% Similarity=0.411 Sum_probs=27.4
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCC
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (716)
.+.-|...|||+=|=-.|.||||++++.+..
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 3577999999999999999999999998744
No 57
>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=36.11 E-value=50 Score=32.63 Aligned_cols=78 Identities=22% Similarity=0.481 Sum_probs=38.0
Q ss_pred HHHHHHhcCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCC---CCce
Q 005049 31 LEKYLRDVNLYESQEEAVSREEV---LGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPG---ADID 104 (716)
Q Consensus 31 L~~~L~~~~l~pS~EE~~~R~~V---L~~L~~ivk~wv~~v~~~~g~~~~~~~~~~akI~~FGSy~lGv~~p~---SDID 104 (716)
..+.|....+..-.++...|..| +..+.+++.+.+++ + +-....||||.+-+--|+ .|||
T Consensus 9 a~~~l~s~~v~~~~~~~~grh~vS~lV~~V~klmeEyLrr----h----------Nk~CicYGSyslhllN~~I~YgDID 74 (149)
T PF03296_consen 9 ASDYLNSYNVANPSGKVMGRHNVSDLVENVNKLMEEYLRR----H----------NKSCICYGSYSLHLLNPNIKYGDID 74 (149)
T ss_dssp HHHHHHHH--S-------------THHHHHHHHHHHHHHH---------------TTTEEEESHHHHHTTSTTS--SS-E
T ss_pred HHHHHHHhcccccCccccccccCcHHHHHHHHHHHHHHHh----h----------CCCeEEeeeeeEEecCCCcccCcch
Confidence 34567777777666677777764 44555566666554 2 234789999988877665 8999
Q ss_pred EEEecCCCCCchhhHHHHHHHHHh
Q 005049 105 TLCVGPRHATREEDFFGELHQMLT 128 (716)
Q Consensus 105 ~lcv~P~~v~r~e~Ff~~l~~~L~ 128 (716)
++=.-. ..|+-.|+-++.
T Consensus 75 ilqTNa------r~flI~laflI~ 92 (149)
T PF03296_consen 75 ILQTNA------RTFLINLAFLIK 92 (149)
T ss_dssp EEESTH------HHHHHHHHHHHH
T ss_pred hhhccc------HHHHHHHHHHHh
Confidence 653222 256555554444
No 58
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=35.45 E-value=30 Score=26.25 Aligned_cols=31 Identities=16% Similarity=0.317 Sum_probs=24.5
Q ss_pred hHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Q 005049 28 TRKLEKYLRDVNLYESQEEAVSREEVLGRLDQ 59 (716)
Q Consensus 28 t~eL~~~L~~~~l~pS~EE~~~R~~VL~~L~~ 59 (716)
+++|.++|...|+..++.. ..|+++|+.+++
T Consensus 6 ~~~L~~wL~~~gi~~~~~~-~~rd~Ll~~~k~ 36 (38)
T PF10281_consen 6 DSDLKSWLKSHGIPVPKSA-KTRDELLKLAKK 36 (38)
T ss_pred HHHHHHHHHHcCCCCCCCC-CCHHHHHHHHHH
Confidence 4789999999998766554 788888887664
No 59
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=33.54 E-value=20 Score=38.25 Aligned_cols=21 Identities=33% Similarity=0.385 Sum_probs=17.5
Q ss_pred EeeeeccCCCCCCCCceEEEe
Q 005049 88 TFGSYRLGVHGPGADIDTLCV 108 (716)
Q Consensus 88 ~FGSy~lGv~~p~SDID~lcv 108 (716)
--||+.-|+..|+||+|+=-|
T Consensus 15 esGS~~yGf~spdSDyDvR~V 35 (248)
T COG3541 15 ESGSHLYGFPSPDSDYDVRGV 35 (248)
T ss_pred cccccccCCCCCCCccceeeE
Confidence 349999999999999996443
No 60
>PF07357 DRAT: Dinitrogenase reductase ADP-ribosyltransferase (DRAT); InterPro: IPR009953 This family consists of several bacterial dinitrogenase reductase ADP-ribosyltransferase (DRAT) proteins. Members of this family seem to be specific to Rhodospirillum, Rhodobacter and Azospirillum species. Dinitrogenase reductase ADP-ribosyl transferase (DRAT) carries out the transfer of the ADP-ribose from NAD to the Arg-101 residue of one subunit of the dinitrogenase reductase homodimer, resulting in inactivation of that enzyme. Dinitrogenase reductase-activating glycohydrolase (DRAG) removes the ADP-ribose group attached to dinitrogenase reductase, thus restoring nitrogenase activity. The DRAT-DRAG system negatively regulates nitrogenase activity in response to exogenous NH4+ or energy limitation in the form of a shift to darkness or to anaerobic conditions [].
Probab=33.24 E-value=17 Score=39.12 Aligned_cols=20 Identities=45% Similarity=0.675 Sum_probs=16.3
Q ss_pred cChhhhhchhhHHHHHHHHH
Q 005049 374 ENADDLRNWKGWVESRLRQL 393 (716)
Q Consensus 374 ~~~e~~~~w~GwVESRlR~L 393 (716)
+|.-+...++||||||+-.+
T Consensus 96 Sn~~EGAVLKGWVESRFGL~ 115 (262)
T PF07357_consen 96 SNSPEGAVLKGWVESRFGLL 115 (262)
T ss_pred CCChhhhhhhhhhhhccCcC
Confidence 46778899999999998543
No 61
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=32.59 E-value=98 Score=39.34 Aligned_cols=48 Identities=17% Similarity=0.193 Sum_probs=36.7
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCC--C--chhhHHHHHHHHHhc
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA--T--REEDFFGELHQMLTE 129 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v--~--r~e~Ff~~l~~~L~~ 129 (716)
.+.-|..+|+|.-+=-.+.||||++++..... . ....||..+.+.+..
T Consensus 722 ~~~avia~Gk~Gr~EL~~~SDlDl~fl~~~~~~~~~~~~~~~~~rlaq~l~~ 773 (1007)
T PRK14109 722 ARIAVIGMGRLGGRELGYGSDADVMFVHEPAPGADEAEAVRWATAVAEELRR 773 (1007)
T ss_pred CCEEEEEeccccccccCCCCCCcEEEEeCCCCCCCchhHHHHHHHHHHHHHH
Confidence 45789999999999999999999999986321 1 112588888777665
No 62
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=31.87 E-value=78 Score=35.22 Aligned_cols=70 Identities=27% Similarity=0.329 Sum_probs=53.7
Q ss_pred cEEEEeeeeccCCCCCCCCceEEEecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCcccEEEEEecCeeeeEEeee
Q 005049 84 AKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYAR 162 (716)
Q Consensus 84 akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~e~Ff~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~iDLsfa~ 162 (716)
.++---||.|=|-.+ .+|||++|... +.. . +.+.|-+++++.++.+-.+.+|-++.-...|++|||-++.
T Consensus 181 ~~~~~aGs~RR~ret-v~DiD~~~s~~-~~~---~----v~~~~~~~~~~~~vi~~G~~k~s~~~~~~~~~svD~r~v~ 250 (326)
T COG1796 181 IQASIAGSLRRGRET-VGDIDILISTS-HPE---S----VLEELLEMPNVQEVIAKGETKVSMLLILDEGTSVDFRVVP 250 (326)
T ss_pred heeeeccchhhcccc-ccceeeEeccC-CcH---H----HHHHHhcCCCcceeeecCCceeeEEEEecCCCeeEEEEcC
Confidence 456677899887765 47999766553 321 1 4555667899999999999999999988999999997755
No 63
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=29.30 E-value=31 Score=38.43 Aligned_cols=24 Identities=29% Similarity=0.285 Sum_probs=21.1
Q ss_pred EEEeeeeccCCCCCCCCceEEEec
Q 005049 86 IFTFGSYRLGVHGPGADIDTLCVG 109 (716)
Q Consensus 86 I~~FGSy~lGv~~p~SDID~lcv~ 109 (716)
+..+||...|+.+|+||+|.--|.
T Consensus 6 ~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEecccceeCCCCCCcccccceee
Confidence 567999999999999999986655
No 64
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=26.26 E-value=2e+02 Score=36.59 Aligned_cols=48 Identities=13% Similarity=0.084 Sum_probs=36.2
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCCCCc----hhhHHHHHHHHHhc
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATR----EEDFFGELHQMLTE 129 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~v~r----~e~Ff~~l~~~L~~ 129 (716)
.+.-|..+|+|.-+=-.+.||||++++.+..... ...||..+.+.|.+
T Consensus 214 ~~~aviamGklG~~EL~~~SDiDLi~ly~~~~~~~~~~~~~~~~rl~q~l~~ 265 (1007)
T PRK14109 214 VRLAVIAMGKCGARELNYVSDVDVIFVAEPAEGVDEAAALAVATRLASELMR 265 (1007)
T ss_pred CCeEEEEeccccccccCCccCCCEEEEeCCCCCcccccHHHHHHHHHHHHHH
Confidence 3568999999999999999999999998643211 12577777777665
No 65
>PF04439 Adenyl_transf: Streptomycin adenylyltransferase; InterPro: IPR007530 Also known as aminoglycoside 6-adenylyltransferase (2.7.7 from EC), this protein confers resistance to aminoglycoside antibiotics.; PDB: 2PBE_A.
Probab=23.04 E-value=65 Score=34.95 Aligned_cols=79 Identities=20% Similarity=0.209 Sum_probs=29.4
Q ss_pred EEEeeeeccCCCCC--CCCceEEEecCCCC--CchhhHHHHHHHHHh-cCCCceeeEeecCCcccEEEEEe-cCeeeeEE
Q 005049 86 IFTFGSYRLGVHGP--GADIDTLCVGPRHA--TREEDFFGELHQMLT-EMPEVTELHPVPDAHVPVMKFKF-SGVSIDLL 159 (716)
Q Consensus 86 I~~FGSy~lGv~~p--~SDID~lcv~P~~v--~r~e~Ff~~l~~~L~-~~~~V~~l~~V~~ArVPIIKf~~-~GI~iDLs 159 (716)
|..-||.+.--.-+ =+|.|++.++.... ..+..+...|-+.|- +.|+=.+..+......+..-+.| +|.+|||.
T Consensus 24 V~l~GSR~n~~~~~D~fqDyDIv~~v~d~~~f~~d~~Wi~~FG~~li~q~pe~~~~~~~~~~~~~~~L~~f~dg~rIDlt 103 (282)
T PF04439_consen 24 VILNGSRANPNAPKDEFQDYDIVYVVTDIESFIKDDSWIDQFGERLIMQKPEDMDLFPPDLGNWFSYLMLFEDGNRIDLT 103 (282)
T ss_dssp EEE----------------EEEEEEES-HHHHHT-SGGGGGG--EEEEE-TTS-SSS---STT-EEEEEEETTS-EEEEE
T ss_pred EEEecCCCCCCCCccccccccEEEEecchhhhhhcchHHHHhChHHhEecccccccCCcccCCCeeEEEEecCCcEEEEE
Confidence 77889998876554 48999999986410 001122223333221 22221112122223344555556 69999999
Q ss_pred eeecc
Q 005049 160 YARLS 164 (716)
Q Consensus 160 fa~l~ 164 (716)
+..+.
T Consensus 104 l~~~~ 108 (282)
T PF04439_consen 104 LIPLE 108 (282)
T ss_dssp EEEGG
T ss_pred EecHH
Confidence 98875
No 66
>PRK05092 PII uridylyl-transferase; Provisional
Probab=22.56 E-value=2.4e+02 Score=35.51 Aligned_cols=30 Identities=33% Similarity=0.598 Sum_probs=27.0
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEEecCCC
Q 005049 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (716)
Q Consensus 83 ~akI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (716)
+.-|...|.|+-|--.|.||||++++.+..
T Consensus 105 ~~alvA~GgyGr~EL~p~SDiDLl~l~~~~ 134 (931)
T PRK05092 105 RLAVLAVGGYGRGELAPGSDIDLLFLLPYK 134 (931)
T ss_pred ceEEEEecCcCCcccCCCCCceEEEEeCCC
Confidence 468999999999999999999999998743
No 67
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=22.54 E-value=2.1e+02 Score=36.26 Aligned_cols=59 Identities=17% Similarity=0.235 Sum_probs=38.6
Q ss_pred hhcCCChhh-hhccCcEEEEeeeeccCCCCCCCCceEEEecCC----------CCCchhhHHHHHHHHHhc
Q 005049 70 RAKGLNDQL-LQEANAKIFTFGSYRLGVHGPGADIDTLCVGPR----------HATREEDFFGELHQMLTE 129 (716)
Q Consensus 70 ~~~g~~~~~-~~~~~akI~~FGSy~lGv~~p~SDID~lcv~P~----------~v~r~e~Ff~~l~~~L~~ 129 (716)
..+|.+... ....+.-|.-+|-+.-+=-+-+||||++.|... ... ...||..+.+.|.+
T Consensus 667 ~~~G~p~~~~~~~~~~aViamGKlGg~EL~y~SDlDlifvy~~~~~~~t~g~~~~~-~~~~~~rl~qrli~ 736 (943)
T PRK11072 667 KRHGEPPHLEGRERGFAVIGYGKLGGKELGYASDLDLVFLHDCPEDAMTDGDKSID-GRQFYLRLAQRIIH 736 (943)
T ss_pred HHhCCCCCccCCCCCEEEEeecCccCCccCCcccceEEEEeecCccccCCCCCccc-HHHHHHHHHHHHHH
Confidence 345765321 112345688888777777788999999999851 111 13689988888776
No 68
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=22.01 E-value=7.1e+02 Score=31.72 Aligned_cols=48 Identities=27% Similarity=0.335 Sum_probs=35.1
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEEecCCC-CC-------chhhHHHHHHHHHhc
Q 005049 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRH-AT-------REEDFFGELHQMLTE 129 (716)
Q Consensus 82 ~~akI~~FGSy~lGv~~p~SDID~lcv~P~~-v~-------r~e~Ff~~l~~~L~~ 129 (716)
.+.-|...|-|.-+==.+.||||++++.+.. .+ ....||..+.+.|-+
T Consensus 153 ~~~aViamGKlG~~ELn~~SDIDLifly~~~~~~~~~~~~~~~~~~f~rl~q~li~ 208 (943)
T PRK11072 153 QPLLILGMGKLGGRELNFSSDIDLIFTYPEHGETQGGRRSIDNQQFFTRLGQRLIK 208 (943)
T ss_pred CCEEEEEeccccCccCCCccCCceEEEeCCCCCCCCCcccchHHHHHHHHHHHHHH
Confidence 4567888888888888999999999998632 11 113688888776665
No 69
>COG1391 GlnE Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]
Probab=21.96 E-value=5.3e+02 Score=32.84 Aligned_cols=45 Identities=29% Similarity=0.488 Sum_probs=28.7
Q ss_pred EEEEeeeeccCCC--CCCCCceEEEecCCCCCc------hhhHHHHHHHHHhc
Q 005049 85 KIFTFGSYRLGVH--GPGADIDTLCVGPRHATR------EEDFFGELHQMLTE 129 (716)
Q Consensus 85 kI~~FGSy~lGv~--~p~SDID~lcv~P~~v~r------~e~Ff~~l~~~L~~ 129 (716)
.++..|=--+|-. .=.||||++.+.|..-.. ..+||..+.+.|-+
T Consensus 173 ~l~VlgMGKlGa~ELNysSDIDlIf~y~~~~~t~g~~~dn~~fFtRl~qrLIr 225 (963)
T COG1391 173 GLLVLGMGKLGARELNYSSDIDLIFVYPESGPTQGGELDNAEFFTRLGQRLIR 225 (963)
T ss_pred ceEEEeccccCccccccccccceEEEeCCCCCccCCccchHHHHHHHHHHHHH
Confidence 3444444444444 346999999998765432 23599988877765
No 70
>PF15431 TMEM190: Transmembrane protein 190
Probab=20.31 E-value=64 Score=30.78 Aligned_cols=28 Identities=32% Similarity=0.723 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHhCCCCCC--CCccchH
Q 005049 210 FRTTLRCMRFWAKRRGVYSNV--AGFLGGI 237 (716)
Q Consensus 210 FR~llr~IK~WAK~RGIysn~--~G~LGG~ 237 (716)
|-....++=-|||+|++|.+. -|||.||
T Consensus 73 ~Li~~iclFWWAkRrd~~k~lh~P~fL~~~ 102 (134)
T PF15431_consen 73 LLICSICLFWWAKRRDMCKHLHMPRFLSGF 102 (134)
T ss_pred HHHHHHHHHHHHHHhchHhhccCchhhccC
Confidence 445677888999999998875 4677664
Done!