Query 005341
Match_columns 701
No_of_seqs 255 out of 761
Neff 4.8
Searched_HMMs 46136
Date Thu Mar 28 21:56:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005341.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005341hhsearch_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 2E-142 4E-147 1152.5 41.0 490 1-499 1-500 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 8E-135 2E-139 1129.4 53.2 486 9-498 45-541 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 6E-122 1E-126 961.7 33.6 478 13-495 4-525 (552)
4 PF04928 PAP_central: Poly(A) 100.0 1.4E-73 3.1E-78 588.3 20.9 254 13-362 1-254 (254)
5 COG5260 TRF4 DNA polymerase si 100.0 4.1E-31 8.9E-36 288.5 24.7 266 30-347 53-342 (482)
6 PF04926 PAP_RNA-bind: Poly(A) 100.0 6.1E-32 1.3E-36 259.9 9.2 135 363-498 1-156 (157)
7 KOG1906 DNA polymerase sigma [ 100.0 1.7E-28 3.7E-33 272.9 24.2 268 28-347 57-341 (514)
8 cd05402 NT_PAP_TUTase Nucleoti 99.8 5.9E-19 1.3E-23 160.1 13.3 110 56-210 1-113 (114)
9 KOG2277 S-M checkpoint control 99.8 3E-17 6.5E-22 186.8 22.6 252 48-348 126-431 (596)
10 TIGR03671 cca_archaeal CCA-add 99.6 4E-13 8.6E-18 147.4 29.3 343 39-461 3-364 (408)
11 PRK13300 tRNA CCA-pyrophosphor 99.6 1.1E-12 2.3E-17 145.8 30.9 346 38-461 3-367 (447)
12 COG1746 CCA1 tRNA nucleotidylt 99.2 1.2E-08 2.7E-13 111.9 28.5 345 36-461 5-368 (443)
13 PF03813 Nrap: Nrap protein; 99.2 7.5E-09 1.6E-13 125.4 29.2 342 98-460 1-425 (972)
14 KOG2054 Nucleolar RNA-associat 98.3 1.8E-05 3.9E-10 94.3 17.7 292 90-392 147-479 (1121)
15 smart00572 DZF domain in DSRM 98.1 9.2E-05 2E-09 77.3 16.8 213 93-346 5-230 (246)
16 cd05400 NT_2-5OAS_ClassI-CCAas 97.8 0.00015 3.3E-09 68.3 11.2 77 90-169 27-110 (143)
17 PF03828 PAP_assoc: Cid1 famil 97.6 3.4E-05 7.4E-10 62.9 2.4 56 261-319 1-59 (60)
18 cd05397 NT_Pol-beta-like Nucle 97.5 0.00013 2.9E-09 58.1 4.8 26 90-115 17-42 (49)
19 PF01909 NTP_transf_2: Nucleot 97.4 0.00021 4.6E-09 61.9 5.2 32 90-121 14-45 (93)
20 PF03813 Nrap: Nrap protein; 97.3 0.0028 6E-08 77.9 13.9 156 201-361 669-839 (972)
21 PF09249 tRNA_NucTransf2: tRNA 97.2 0.001 2.2E-08 62.2 7.5 93 221-335 3-97 (114)
22 cd05403 NT_KNTase_like Nucleot 96.9 0.0013 2.8E-08 56.4 4.9 32 90-121 18-49 (93)
23 PF14091 DUF4269: Domain of un 96.1 0.054 1.2E-06 53.2 10.9 118 92-236 17-144 (152)
24 COG1669 Predicted nucleotidylt 95.1 0.086 1.9E-06 48.3 7.5 46 58-119 8-53 (97)
25 PF07528 DZF: DZF domain; Int 95.1 0.78 1.7E-05 48.5 15.7 208 96-345 2-231 (248)
26 COG1708 Predicted nucleotidylt 94.6 0.18 3.9E-06 45.5 8.4 29 90-118 26-54 (128)
27 PRK13746 aminoglycoside resist 94.4 0.076 1.6E-06 56.4 6.3 31 91-121 29-59 (262)
28 PF10421 OAS1_C: 2'-5'-oligoad 93.4 0.13 2.8E-06 52.3 5.5 47 214-260 41-88 (190)
29 PRK02098 phosphoribosyl-dephos 91.8 0.32 6.9E-06 50.6 5.9 32 90-121 120-157 (221)
30 cd00141 NT_POLXc Nucleotidyltr 91.7 2.5 5.4E-05 45.8 12.9 113 89-241 159-277 (307)
31 TIGR03135 malonate_mdcG holo-A 91.2 0.38 8.3E-06 49.3 5.7 33 90-122 108-146 (202)
32 PF14792 DNA_pol_B_palm: DNA p 89.6 1.6 3.5E-05 40.6 7.9 53 89-142 23-78 (112)
33 cd05401 NT_GlnE_GlnD_like Nucl 87.6 2.9 6.2E-05 40.9 8.6 48 89-136 54-101 (172)
34 COG1665 Predicted nucleotidylt 86.6 0.11 2.4E-06 55.3 -1.9 25 95-119 126-150 (315)
35 KOG2054 Nucleolar RNA-associat 85.5 4.8 0.0001 49.8 10.5 122 202-330 806-936 (1121)
36 KOG3793 Transcription factor N 84.1 26 0.00056 37.9 13.9 212 31-275 38-264 (362)
37 PF03445 DUF294: Putative nucl 82.3 10 0.00022 36.4 9.5 49 88-136 47-96 (138)
38 COG2844 GlnD UTP:GlnB (protein 74.1 12 0.00027 45.6 8.8 59 60-122 40-98 (867)
39 PF10620 MdcG: Phosphoribosyl- 72.0 6.9 0.00015 40.4 5.4 32 90-121 116-153 (213)
40 PF03281 Mab-21: Mab-21 protei 71.7 1.3E+02 0.0029 31.8 15.2 93 214-339 190-288 (292)
41 PRK05007 PII uridylyl-transfer 70.6 16 0.00036 45.2 9.1 56 60-119 54-109 (884)
42 smart00483 POLXc DNA polymeras 69.2 57 0.0012 35.9 12.1 30 89-119 163-192 (334)
43 PRK01759 glnD PII uridylyl-tra 65.2 24 0.00051 43.7 8.9 56 60-119 30-85 (854)
44 PRK08609 hypothetical protein; 64.7 33 0.00072 40.5 9.7 108 90-241 175-283 (570)
45 PF09970 DUF2204: Nucleotidyl 59.1 28 0.00061 35.1 6.8 80 90-176 16-100 (181)
46 PRK00227 glnD PII uridylyl-tra 59.0 29 0.00064 42.0 8.0 51 55-119 6-56 (693)
47 PRK01293 phosphoribosyl-dephos 58.3 19 0.00041 37.4 5.5 44 90-135 109-158 (207)
48 PF03710 GlnE: Glutamate-ammon 57.6 1.5E+02 0.0033 31.2 12.2 62 75-136 111-179 (247)
49 PF10127 Nuc-transf: Predicted 56.9 9.9 0.00022 39.6 3.3 27 91-117 21-47 (247)
50 KOG2534 DNA polymerase IV (fam 56.3 44 0.00095 37.1 8.0 49 88-137 169-217 (353)
51 PRK03059 PII uridylyl-transfer 52.8 48 0.001 41.1 8.6 54 59-118 36-89 (856)
52 PRK00275 glnD PII uridylyl-tra 51.9 55 0.0012 40.8 9.0 56 60-119 52-107 (895)
53 PRK04374 PII uridylyl-transfer 50.3 57 0.0012 40.6 8.7 55 60-119 47-101 (869)
54 TIGR01693 UTase_glnD [Protein- 49.7 57 0.0012 40.3 8.6 31 89-119 42-72 (850)
55 PRK03381 PII uridylyl-transfer 46.2 50 0.0011 40.5 7.3 29 89-117 56-84 (774)
56 COG2413 Predicted nucleotidylt 43.8 40 0.00088 35.2 5.1 28 91-118 38-65 (228)
57 PF03296 Pox_polyA_pol: Poxvir 42.0 41 0.00088 33.2 4.5 78 38-135 9-92 (149)
58 COG3541 Predicted nucleotidylt 38.3 15 0.00033 39.0 1.2 20 96-115 16-35 (248)
59 PRK14109 bifunctional glutamin 37.8 80 0.0017 40.0 7.4 48 89-136 722-773 (1007)
60 PRK14109 bifunctional glutamin 36.8 1.2E+02 0.0027 38.4 8.8 48 89-136 214-265 (1007)
61 PF10281 Ish1: Putative stress 35.8 32 0.00068 26.0 2.3 31 35-66 6-36 (38)
62 COG1796 POL4 DNA polymerase IV 33.7 91 0.002 34.6 6.1 70 91-169 181-250 (326)
63 PHA02603 nrdC.11 hypothetical 31.5 26 0.00057 38.8 1.7 25 92-116 5-29 (330)
64 PF07357 DRAT: Dinitrogenase r 28.9 24 0.00051 37.9 0.8 20 379-398 96-115 (262)
65 PRK05092 PII uridylyl-transfer 28.5 1.2E+02 0.0025 38.2 6.7 30 89-118 104-133 (931)
66 PRK11072 bifunctional glutamin 24.9 2.3E+02 0.0049 35.9 8.2 48 89-136 153-208 (943)
67 PRK11072 bifunctional glutamin 22.9 2.6E+02 0.0057 35.4 8.3 60 76-136 666-736 (943)
68 PRK14108 bifunctional glutamin 21.0 8.1E+02 0.018 31.3 12.0 48 89-136 185-238 (986)
69 COG1391 GlnE Glutamine synthet 20.8 7.1E+02 0.015 31.7 11.0 32 105-136 188-225 (963)
No 1
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=100.00 E-value=2e-142 Score=1152.54 Aligned_cols=490 Identities=54% Similarity=0.942 Sum_probs=465.1
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 005341 1 MSSSERMSSPPPPKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRG 80 (701)
Q Consensus 1 ~~~~~~~~s~~~~~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g 80 (701)
|.+-. +...+..+.||||+|||+++||++|+++|.+|+++|+++|+||++||..+|++||++|++||++|++++++++|
T Consensus 1 m~~~~-~~~~~~~~~~Gvt~PiS~a~p~~~d~~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~ 79 (562)
T KOG2245|consen 1 MVSVQ-NPMSPSTKSYGVTQPISTAGPTEADIALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKG 79 (562)
T ss_pred CCCcc-cCcCCccccccccCCcccCCCcHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 44433 43334579999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecC
Q 005341 81 YSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDG 160 (701)
Q Consensus 81 ~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~G 160 (701)
+++++..+++|+|+||||||||||+||||||+|||+|+|++|+ |||..|.++|+++++|++|++|++|+||||||+|+|
T Consensus 80 ~p~~~~~~aggkIftfGSYRLGVhg~GADIDtLcV~Prhv~R~-DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfKf~G 158 (562)
T KOG2245|consen 80 LPDGMIENAGGKIFTFGSYRLGVHGPGADIDTLCVGPRHVSRS-DFFTSFYDMLKERPEVTELHAVEDAFVPIIKFKFDG 158 (562)
T ss_pred CChhhhhhcCceEEeccceeecccCCCCCcceeeeccccccHH-HHHHHHHHHHhcCccccccccccccccceEEEEecC
Confidence 9999999999999999999999999999999999999999996 999999999999999999999999999999999999
Q ss_pred ceeeEEeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCc
Q 005341 161 LSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGF 240 (701)
Q Consensus 161 I~iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~ 240 (701)
|+|||+||+++.+.+|++|||.||++|+||||+|+||||||||||+||+|||+.+.||.+|||||+|||+||||+|.+||
T Consensus 159 I~IDllfArL~l~~VP~dldl~ddslLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF 238 (562)
T KOG2245|consen 159 IEIDLLFARLALPVVPEDLDLSDDSLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGF 238 (562)
T ss_pred eeeeeeehhcccccCCCcccccchHhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCCCC
Q 005341 241 LGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCM 320 (701)
Q Consensus 241 LGG~swaLLVa~vcQl~Pnas~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~ 320 (701)
|||++|||||||+|||||||+++.||.+||.+|++|+||+||+|++++++.|++++|||+.|++||+|+||||||+||+|
T Consensus 239 ~GGV~wA~LVARiCQLYPNA~~s~Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~ 318 (562)
T KOG2245|consen 239 LGGVAWAMLVARICQLYPNASPSTLVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQM 318 (562)
T ss_pred cchHHHHHHHHHHHccCCCcchHHHHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCcceecccccCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccCHhhHHHHHHHHHHHHHHHHHhhhcCcCccccccccchhhhcccEEEEEEEeCChhhhhhhhhhhHhhHHHHHH
Q 005341 321 NSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTL 400 (701)
Q Consensus 321 Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~~~~~W~~Lf~p~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~ 400 (701)
|++||||+||+++|.+||+||.+||++|+.++.+|++|||+++||.+|||||+|+++|.++|++.+|.||||||+|+|+.
T Consensus 319 nsthNVS~ST~~Vi~~Ef~~g~~I~~~i~~~k~~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~ 398 (562)
T KOG2245|consen 319 NSTHNVSRSTLKVITEEFKRGLEICDDIELNKLDWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVL 398 (562)
T ss_pred cccccccHHHHHHHHHHHHHHHHHHHHHHhccccHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhcccCceeeccCCCCCCCCCCC----CceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHh----hccccCCc-
Q 005341 401 MIERDTYGKLQCHPYPHEYVDTSKP----CAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSIN----MYMFWKPG- 471 (701)
Q Consensus 401 ~LE~~~~~~l~ahp~P~~f~~~~~~----~~~~~ffIGL~~~~~~~~~~~~~~dl~~~v~eF~~~v~----~~~~~~~~- 471 (701)
+||+.. .++.|||+|+.|.++... .+...|||||.+..+ .++||+..+++|...++ ..+.+.+|
T Consensus 399 klE~~~-~i~~ahp~P~~f~~~~~~~~~~~~~~~~~igl~~~e~------~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~ 471 (562)
T KOG2245|consen 399 KLERNQ-VILIAHPNPKKFKDTYNCPLEEDPESLWFIGLEFDEN------VKIDLTKDIQSFKKNVERQAVNLTLIKAGC 471 (562)
T ss_pred HHHhhc-ceEEecCCcccccccccCCcccchhHhhhhccccccc------ccchhhhhHHHhhhhhhhcceeeeeeeccc
Confidence 999954 678899999999876532 346689999987654 34999999999999887 55677899
Q ss_pred -eEEEEEeeccCCCCCCcCCCCccccCCC
Q 005341 472 -MEICVSHIRRKQIPPYVFPEGYKRTRHP 499 (701)
Q Consensus 472 -m~i~v~~vkr~~LP~~v~~~g~~~~~~~ 499 (701)
|.+.+.|+||++|+.+++++++++.|.-
T Consensus 472 ~~~~~~~~~krr~l~~~~~~~~l~~~k~~ 500 (562)
T KOG2245|consen 472 DVEIDFGHVKRRSLIQTITKEFLRLCKQY 500 (562)
T ss_pred ccccccccccccccccccCHHHhhHHHhh
Confidence 7777889999999999999988775554
No 2
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=7.7e-135 Score=1129.39 Aligned_cols=486 Identities=43% Similarity=0.786 Sum_probs=460.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccc
Q 005341 9 SPPPPKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVED 88 (701)
Q Consensus 9 s~~~~~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~ 88 (701)
+..+++.||||+|||+++||++|++.+.+|+++|+++|+|||+||.++|++||++|++||++|+++++.++|++++++.+
T Consensus 45 ~~~~~~~~Gvt~Pis~~~Pt~~d~~~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~ 124 (593)
T PTZ00418 45 SIECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQ 124 (593)
T ss_pred ccCcccccCCCCCccCCCCChHHHhhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhc
Confidence 34567889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEEee
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYA 168 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~GI~iDLsfa 168 (701)
++++|+|||||+||||+|+||||+|||+|.|++|+ +||..|+++|++.++|++|++|++|+||||||+++||+|||+||
T Consensus 125 ~~g~I~tfGSYrLGV~~pgSDID~L~V~P~~vtre-dFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~~~GI~iDL~fa 203 (593)
T PTZ00418 125 ISGKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRE-SFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDLLFA 203 (593)
T ss_pred CCeEEEEeccccccCCCCCCcccEEEECCCCCCHH-HHHHHHHHHHhcCCCcceeeccCccccCeEEEEECCEEEeeeec
Confidence 99999999999999999999999999999999996 99999999999999999999999999999999999999999999
Q ss_pred ecccccccccccccccc-ccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHH
Q 005341 169 SISRLVVREDLDISDMS-VLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWA 247 (701)
Q Consensus 169 ~l~~~~ip~~ldl~~d~-lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swa 247 (701)
+++...+|+++++.+++ +|++||++++||||||||+|+|+++||+.+.||.+||+||+|||+||||+|++||||||+||
T Consensus 204 ~l~~~~vp~~~~~l~d~~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wA 283 (593)
T PTZ00418 204 NLPLPTIPDCLNSLDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWA 283 (593)
T ss_pred ccCCCCCCccccccCchhhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHH
Confidence 99999999999988886 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCCceeeccccc-----cccCcccccCCCCCCCCCCceEEeCCCCCCCCc
Q 005341 248 LLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDE-----AELGFSVWDPRKNRRDKTHHMPIITPAYPCMNS 322 (701)
Q Consensus 248 LLVa~vcQl~Pnas~~~LL~~FF~~Ys~wdW~~pV~l~~i~~-----g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Ns 322 (701)
|||||+||+|||+++++||.+||.+|++|+||+||+|+++++ |.+++++|||+.|++|++|+||||||+||+||+
T Consensus 284 ILvARVCQLyPna~~s~Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~mNs 363 (593)
T PTZ00418 284 ILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPSMNS 363 (593)
T ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCCccc
Confidence 999999999999999999999999999999999999999875 678899999999999999999999999999999
Q ss_pred ccccCHhhHHHHHHHHHHHHHHHHHhhh-cCcCccccccccchhhhcccEEEEEEEeCChhhhhhhhhhhHhhHHHHHHH
Q 005341 323 SYNVSTSTLRVMMDQFQYGNTICEEVEL-NKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLM 401 (701)
Q Consensus 323 a~nVs~sTlrvI~~EF~Ra~~Il~~i~~-~~~~W~~Lf~p~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~ 401 (701)
|||||.+|+++|++||+||++|++++.. ++.+|++||+|++||.+|++||+|++.+.+++++..|.||||||||.|+.+
T Consensus 364 t~nVt~sT~~vI~~Ef~Ra~~i~~~i~~~~~~~W~~Lfep~~Ff~~Yk~yl~V~v~a~~~~~~~~w~G~VESRlR~Lv~~ 443 (593)
T PTZ00418 364 THNVTYTTKRVITEEFKRAHEIIKYIEKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKK 443 (593)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHcCCcchhhhcceEEEEEEEECCHHHhhhhhhHHHHHHHHHHHH
Confidence 9999999999999999999999999988 889999999999999999999999999999999999999999999999999
Q ss_pred hhhcccCceeeccCCCCCCCCCC-CCceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHhhcc---ccCCceEEEEE
Q 005341 402 IERDTYGKLQCHPYPHEYVDTSK-PCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYM---FWKPGMEICVS 477 (701)
Q Consensus 402 LE~~~~~~l~ahp~P~~f~~~~~-~~~~~~ffIGL~~~~~~~~~~~~~~dl~~~v~eF~~~v~~~~---~~~~~m~i~v~ 477 (701)
||+. +.+.+||||++|.+... ..|.++|||||.++.... .+..++||+.++++|.+.|++|. .|.++|||+|+
T Consensus 444 LE~~--~~i~~~p~P~~f~~~~~~~~~~~~ffIGL~~~~~~~-~~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~ 520 (593)
T PTZ00418 444 LETL--NNLKIRPYPKFFKYQDDGWDYASSFFIGLVFFSKNV-YNNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIK 520 (593)
T ss_pred hhcc--CCceEeecCcccccCCCCceeEEEEEEeEeeccCCC-CCCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEE
Confidence 9974 34678999999988653 356789999999876543 23458999999999999999886 36788999999
Q ss_pred eeccCCCCCCcCCCCccccCC
Q 005341 478 HIRRKQIPPYVFPEGYKRTRH 498 (701)
Q Consensus 478 ~vkr~~LP~~v~~~g~~~~~~ 498 (701)
|||+++||++||++|++|+..
T Consensus 521 ~Vk~~~Lp~~v~~~~~~~~~~ 541 (593)
T PTZ00418 521 YLKKSQLPAFVLSQTPEEPVK 541 (593)
T ss_pred EeehHhCCHhhccCCCcCCCc
Confidence 999999999999999877433
No 3
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=100.00 E-value=5.7e-122 Score=961.71 Aligned_cols=478 Identities=42% Similarity=0.756 Sum_probs=457.2
Q ss_pred CCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeE
Q 005341 13 PKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANAL 92 (701)
Q Consensus 13 ~~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~ 92 (701)
+++||||+|||+.+.|+++.+++.+|+++|++.|+|+++.|.+.|.+||+.|+.++++|+.++++.+|+.+.|+..++++
T Consensus 4 ~k~~GiTgP~ST~~aTe~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar~aGGK 83 (552)
T COG5186 4 KKKYGITGPLSTREATEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMARPAGGK 83 (552)
T ss_pred cccccccCCcccccccHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCce
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEEeeeccc
Q 005341 93 IFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISR 172 (701)
Q Consensus 93 I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~ 172 (701)
||+|||||||||+||||||++|+.|.|++|+ |||+.|..+|++.++++++.+|++|+||||||+|.||+|||.||+++.
T Consensus 84 IFTyGSYRLGVhgpGsDIDtLvvVPkHVsR~-dFFt~f~~~Lrer~ei~eva~vpDAfVPIIK~KF~GIsIDLifARLs~ 162 (552)
T COG5186 84 IFTYGSYRLGVHGPGSDIDTLVVVPKHVSRS-DFFTHFYEELRERPEIEEVAKVPDAFVPIIKLKFQGISIDLIFARLSI 162 (552)
T ss_pred eeeecceeeeccCCCCCcceEEEecccccHH-HHHHHHHHHhccCcchhhhccCCcccceeEEEEecCccceeeeeeccC
Confidence 9999999999999999999999999999996 999999999999999999999999999999999999999999999999
Q ss_pred cccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHH
Q 005341 173 LVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVAR 252 (701)
Q Consensus 173 ~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~ 252 (701)
+.+|..|+++|+++|++|||+|++||||.||||+||++||+...|+.+||+||+||++|.||.|.+||+||++|+|||||
T Consensus 163 P~Vp~~l~Lsd~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwam~VAR 242 (552)
T COG5186 163 PVVPDGLNLSDDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWAMCVAR 242 (552)
T ss_pred CcCCCcccccchhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCChHHHHHHHHHHhhcCCCCCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHH
Q 005341 253 VCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLR 332 (701)
Q Consensus 253 vcQl~Pnas~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlr 332 (701)
+||||||++...++.+||.++++|+||+||+|+||++|+++.++|||+.|+.|++|.||||||+||+||.|||+|.||..
T Consensus 243 iCQLYPNA~S~vIv~kFF~ils~WnWPqPviLkPieDgplqvrvWnPKvYpsDk~HRMPvITPAYPSMCATHNit~STq~ 322 (552)
T COG5186 243 ICQLYPNASSFVIVCKFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATHNITNSTQH 322 (552)
T ss_pred HHhhccCcchHhHHHHHHHHHHhcCCCCCeEeeeccCCCeeEEeeCCccCcccccccCccccCCchhhhhhccccchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhcCcCccccccccchhhhcccEEEEEEEeCChhhhhhhhhhhHhhHHHHHHHhhhcccCceee
Q 005341 333 VMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQC 412 (701)
Q Consensus 333 vI~~EF~Ra~~Il~~i~~~~~~W~~Lf~p~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~l~a 412 (701)
+|..||-||.+|+++|..+..+|..||+..+||.+||+||.|++.+.++|++.+|.|+||||+|.|+.+||... +++.|
T Consensus 323 vIl~EfvRa~~I~~di~~n~~~w~~lFek~DFF~RYk~yleitA~s~~~E~~lKW~GlvESKiR~Lv~klE~vd-~i~~A 401 (552)
T COG5186 323 VILMEFVRAHKILSDIERNALDWRRLFEKSDFFSRYKLYLEITAMSSCEEDFLKWEGLVESKIRILVSKLEAVD-DILYA 401 (552)
T ss_pred hHHHHHHHHHHhhhhHhhccccHHHHHHhhhHHHHHhHhhhhhhhhcchhhhhhhhhHHHHHHHHHHHHHHHhh-hhhhc
Confidence 99999999999999999988999999999999999999999999999999999999999999999999999754 56889
Q ss_pred ccCCCCCCCC-----C-----------------------------C---------CCceeEEEEeeeeCCCCccCCCcee
Q 005341 413 HPYPHEYVDT-----S-----------------------------K---------PCAHCAFFMGLQRKPGEVVQEGQQF 449 (701)
Q Consensus 413 hp~P~~f~~~-----~-----------------------------~---------~~~~~~ffIGL~~~~~~~~~~~~~~ 449 (701)
||||+.|... . . ..|-+.|||||+.... ..++++
T Consensus 402 hPF~K~F~~~y~c~~Ee~~e~i~~~~~~~~a~~s~d~~kl~~d~~~eees~~d~~k~y~tt~yIgld~~~~---~~~kkv 478 (552)
T COG5186 402 HPFPKAFRKVYNCVAEESIEKIGSGVTLEVAYESTDHEKLANDTVPEEESMEDGMKVYCTTFYIGLDVIPV---KPGKKV 478 (552)
T ss_pred CcCChhhhhhcCCccHHHHHHHhcccceeehhhccchhhhccccCchhhhhccccceeeeEEEEEEEeeec---CCCcee
Confidence 9999999511 0 0 1255689999998653 345789
Q ss_pred cchHHHHHHHHHHhhcccc-CCceEEEEEeeccCCCCCCcCCCCccc
Q 005341 450 DIRGSVEEFKLSINMYMFW-KPGMEICVSHIRRKQIPPYVFPEGYKR 495 (701)
Q Consensus 450 dl~~~v~eF~~~v~~~~~~-~~~m~i~v~~vkr~~LP~~v~~~g~~~ 495 (701)
||..+++||.+.++.|+++ ..+|.|.|+.+|+++||+-||.+|+.|
T Consensus 479 di~~p~~EF~elcr~~d~gd~~~mni~v~~~K~~dlpdeVF~~geer 525 (552)
T COG5186 479 DIEQPVKEFIELCREYDEGDASGMNIEVNSLKRKDLPDEVFYPGEER 525 (552)
T ss_pred eeeccHHHHHHHHHHhhccccceeeeehhhccccCCchhhcCCCccC
Confidence 9999999999999999655 477999999999999999999988755
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=1.4e-73 Score=588.31 Aligned_cols=254 Identities=59% Similarity=1.048 Sum_probs=204.0
Q ss_pred CCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeE
Q 005341 13 PKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANAL 92 (701)
Q Consensus 13 ~~~~Gvt~Pis~~~Pt~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~ 92 (701)
.++||||+|||+++||+.|++.+++|+++|++++++||+||.++|++||++|+++|++|+++
T Consensus 1 ~~~~Gvt~PIS~~~Pt~~Dl~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~------------------ 62 (254)
T PF04928_consen 1 QKQYGVTKPISLAPPTEKDLKRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ------------------ 62 (254)
T ss_dssp -GGGSTT--S------HHHHHHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH------------------
T ss_pred CCccCCCCCccCCCCChhhHHhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh------------------
Confidence 37899999999999999999999999999999999999999999999999999999999853
Q ss_pred EEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEEeeeccc
Q 005341 93 IFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISR 172 (701)
Q Consensus 93 I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~ 172 (701)
..
T Consensus 63 ------------------------------------------------------------------------------~~ 64 (254)
T PF04928_consen 63 ------------------------------------------------------------------------------AL 64 (254)
T ss_dssp ------------------------------------------------------------------------------SS
T ss_pred ------------------------------------------------------------------------------hh
Confidence 45
Q ss_pred cccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHH
Q 005341 173 LVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVAR 252 (701)
Q Consensus 173 ~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~ 252 (701)
..+|+++++.++++|++||++|++||||+||+++|+++||+.+.||.++|+||+|||+||||+|++||||||+||||||+
T Consensus 65 ~~~p~~l~~~~~~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RGIYsn~~GylGGI~waILvAr 144 (254)
T PF04928_consen 65 PRVPEDLDLLDDDPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRGIYSNVFGYLGGIHWAILVAR 144 (254)
T ss_dssp SSB-TT--TT-GGGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT-B-CCCTSB-HHHHHHHHHH
T ss_pred cCCCcccccCCchhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHccccchhhccchHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCChHHHHHHHHHHhhcCCCCCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHH
Q 005341 253 VCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLR 332 (701)
Q Consensus 253 vcQl~Pnas~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlr 332 (701)
+||+|||+++++||.+||.+|++|+|++||+|+++.++.+++++|+|+.|++|++|+|||+||+||+||+|+|||.+|++
T Consensus 145 vcql~Pn~~~~~ll~~FF~~ys~W~W~~PV~l~~~~~~~~~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~ 224 (254)
T PF04928_consen 145 VCQLYPNASPSTLLSRFFQIYSQWDWPNPVVLDPIEDGPLGFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLR 224 (254)
T ss_dssp HHHHSTT--HHHHHHHHHHHHHCS-TTS-EESS-----SSSCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHH
T ss_pred HHHHCccccccchHHHHHHHhcCCCCCCceeecccccCcccccCCCCCCCCCCcccceeEccCCCCccccccccCHHHHH
Confidence 99999999999999999999999999999999999988899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhcCcCcccccccc
Q 005341 333 VMMDQFQYGNTICEEVELNKAQWSALFEPY 362 (701)
Q Consensus 333 vI~~EF~Ra~~Il~~i~~~~~~W~~Lf~p~ 362 (701)
+|++||+||+++++++..++.+|++||+|+
T Consensus 225 ~i~~Ef~ra~~i~~~~~~~~~~W~~L~e~~ 254 (254)
T PF04928_consen 225 IIREEFQRAHEILSEILKGGASWSDLFEPH 254 (254)
T ss_dssp HHHHHHHHHHHHHHHHHTTSS-HHHCT---
T ss_pred HHHHHHHHHHHHHHHHHcCCCCHHHHcCCC
Confidence 999999999999999998899999999985
No 5
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=99.98 E-value=4.1e-31 Score=288.51 Aligned_cols=266 Identities=21% Similarity=0.249 Sum_probs=212.9
Q ss_pred HHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCC
Q 005341 30 ADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGAD 109 (701)
Q Consensus 30 ~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SD 109 (701)
....++.+|.++.. .+.|+.+|.++|...|++|++++++- ++ .+.+++|||+.+|+++|+||
T Consensus 53 ~~~~lt~el~~~y~--~I~ps~eEl~~R~~~leklr~~lk~~--------------~p--da~l~vFGS~~t~L~l~~SD 114 (482)
T COG5260 53 ESDELTSELLEFYD--YIAPSDEELKRRKALLEKLRTLLKKE--------------FP--DADLKVFGSTETGLALPKSD 114 (482)
T ss_pred hHHHHHHHHHHHHH--hhCCCHHHHHHHHHHHHHHHHHHHHh--------------CC--ccceeEecccccccccCccc
Confidence 34466777777776 48899999999999999999999852 23 46999999999999999999
Q ss_pred eeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEe--cCceeeEEeeecccccccccccccccccc
Q 005341 110 IDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISDMSVL 187 (701)
Q Consensus 110 ID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~--~GI~iDLsfa~l~~~~ip~~ldl~~d~lL 187 (701)
||+|++.+....++..-...++..|.......++.+|.+|+||||||.. .|+.|||+|++.
T Consensus 115 iDl~I~s~~~~~~et~~~~~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~----------------- 177 (482)
T COG5260 115 IDLCIISDPRGYKETRNAGSLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNT----------------- 177 (482)
T ss_pred ccEEEecCCccccccccHHHHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCch-----------------
Confidence 9999999776655421112455555555667789999999999999998 699999999983
Q ss_pred CCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHHHHhhCCC--------
Q 005341 188 NDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPN-------- 259 (701)
Q Consensus 188 ~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pn-------- 259 (701)
+|++.|..++.++-.++++|+|+.+||+||++|.++++..|+|+||++++||..++|++|.
T Consensus 178 -----------~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~ 246 (482)
T COG5260 178 -----------NGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGL 246 (482)
T ss_pred -----------hHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCccccccccc
Confidence 6889999999999999999999999999999999999999999999999999999999971
Q ss_pred ----------CChHHHHHHHHHHhh-cCCCCCceeecccccc--ccCcccccCCCCCCCCCCceEEeCCC-CCCCCcccc
Q 005341 260 ----------AVPSMLVSRFFRVYT-MWRWPNPVMLCAIDEA--ELGFSVWDPRKNRRDKTHHMPIITPA-YPCMNSSYN 325 (701)
Q Consensus 260 ----------as~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g--~lg~~vW~p~~~~~dr~~~MpIiTP~-~P~~Nsa~n 325 (701)
..++.|+..||++|+ .|+|..-++...-++- ....+.|--.. + ...++|++|. .+.. .-.
T Consensus 247 ~~~l~~~~~~~~lgvLf~dFf~~yG~~f~Y~~~~~si~~g~~~~~K~e~g~~~~~--~--p~~LsiqdP~td~n~--~~~ 320 (482)
T COG5260 247 LSPLKYNKNIDNLGVLFDDFFELYGKSFNYSLVVLSINSGDFYLPKYEKGWLKPS--K--PNSLSIQDPGTDRNN--DIS 320 (482)
T ss_pred cchhhccccccccchHHHHHHHHhccccChhheEEEecCCceeeehhhccccccc--C--CCcEeecCCCCCccc--ccc
Confidence 258999999999999 5999876554332210 11113453211 1 2689999999 5543 333
Q ss_pred cCHhhHHHHHHHHHHHHHHHHH
Q 005341 326 VSTSTLRVMMDQFQYGNTICEE 347 (701)
Q Consensus 326 Vs~sTlrvI~~EF~Ra~~Il~~ 347 (701)
....+++.|+.+|.+|.+++.+
T Consensus 321 a~s~~ik~i~~~F~~aF~lls~ 342 (482)
T COG5260 321 AVSFNIKDIKAAFIRAFELLSN 342 (482)
T ss_pred cccchHHHHHHHHHHHHHHHhh
Confidence 4445899999999999999987
No 6
>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=99.97 E-value=6.1e-32 Score=259.88 Aligned_cols=135 Identities=36% Similarity=0.714 Sum_probs=104.9
Q ss_pred chhhhcccEEEEEEEeCChhhhhhhhhhhHhhHHHHHHHhhhcccCceeeccCCCCCC------------------CCCC
Q 005341 363 LFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYV------------------DTSK 424 (701)
Q Consensus 363 ~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~------------------~~~~ 424 (701)
+||.+|||||+|+|++.+++++.+|.||||||||.||.+||+.. .+..|||||++|. +...
T Consensus 1 ~FF~~Yk~yl~I~~~a~~~~~~~~W~G~VESrlR~Lv~~LE~~~-~i~~ahp~pk~f~~~~~~~~~~~~~~~~~~~~~~~ 79 (157)
T PF04926_consen 1 DFFSRYKHYLQIDVSAKNEEDHRKWSGWVESRLRHLVQKLERNP-GIKLAHPFPKRFERVYECSEQADENNDEEEEEDPE 79 (157)
T ss_dssp -HHHH-SEEEEEEEEECSHHHHHHHHHHHHCCHHHHHHHHHTST-TEEEEEE-SS-EEEEEE-EBECTTCTTSHHCHCTS
T ss_pred ChhHhCceeEEEEEEeCCHHHHHHhhhHHHHHHHHHHHHHccCC-CeeEecCCCCccccccccccccccccccccccCCC
Confidence 69999999999999999999999999999999999999999865 4677999999998 1122
Q ss_pred CCceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHhhccc---cCCceEEEEEeeccCCCCCCcCCCCccccCC
Q 005341 425 PCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMF---WKPGMEICVSHIRRKQIPPYVFPEGYKRTRH 498 (701)
Q Consensus 425 ~~~~~~ffIGL~~~~~~~~~~~~~~dl~~~v~eF~~~v~~~~~---~~~~m~i~v~~vkr~~LP~~v~~~g~~~~~~ 498 (701)
..+.++|||||++......+.++++||+.++++|+..|++|.. +.++|+|+|+|||+++||++||++|.+|+++
T Consensus 80 ~~~~~~~fIGL~~~~~~~~~~~~~~dL~~~i~~F~~~v~~~~~~~~~~~~m~i~i~~vk~~~Lp~~v~~~~~~r~~k 156 (157)
T PF04926_consen 80 NEYTSSFFIGLEFDSKESNEGSKKLDLTYAIQEFKDLVRNWEKYYYDEEGMDISISHVKRSQLPDFVFEEGEKRPKK 156 (157)
T ss_dssp EEEEEEEEEEEEE--SSSS---S-EE-HHHHHHHHHHHHCCCCTTC-TTTEEEEEEEEEHHHHGGGGS-TTS-----
T ss_pred ceeEEEEEEEEEECCCCccccceEEehHHHHHHHHHHHHhhhccccCCCccEEEEEEechHHCChhhhcccCcCCCC
Confidence 3578999999999876543344679999999999999999754 6688999999999999999999999988665
No 7
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=99.96 E-value=1.7e-28 Score=272.89 Aligned_cols=268 Identities=22% Similarity=0.308 Sum_probs=212.3
Q ss_pred CHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCC
Q 005341 28 TEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPG 107 (701)
Q Consensus 28 t~~D~~~t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~ 107 (701)
.+.=..++++++.+++ .+.||.+|.+.|.+++++++..|++- + ..+.|++||||.+|+++|+
T Consensus 57 ~~~s~~l~~eI~~fv~--~l~pt~~e~~~R~~~~~~i~~~v~~~--------------~--~~a~v~~FGS~~tglyLP~ 118 (514)
T KOG1906|consen 57 NLVSERLRNEILDFVQ--YLIPTPEEIEVRSELVEKIRDVVKQK--------------W--PDASVYVFGSVPTGLYLPD 118 (514)
T ss_pred chhHHHHHHHHHHHHH--HhcCCchHHHHHHHHHHHHHHHHHHh--------------c--ccceeEEeeeeeccccccc
Confidence 4555667788888887 48999999999999999999998721 1 3699999999999999999
Q ss_pred CCeeEEeecCCccCchhhHHHHHHHHHHh--ccCCceEEEeccCccceEEEEe--cCceeeEEeeecccccccccccccc
Q 005341 108 ADIDALCVGPSYVSREEDFFFILHNILAE--MEEVTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISD 183 (701)
Q Consensus 108 SDID~l~v~P~~v~re~~Ff~~l~~~L~~--~~~v~~l~~V~~ArVPIIKf~~--~GI~iDLsfa~l~~~~ip~~ldl~~ 183 (701)
||||+++..+....++ +.+..+.-++.. ...-..+..|..|+||||||+. .+|.|||+|++
T Consensus 119 sDIDl~v~~~~~~~~e-~~~~~~~l~~~~e~~~~~~~v~~v~karvpiik~~d~~s~i~vDISFn~-------------- 183 (514)
T KOG1906|consen 119 SDIDLVVLSKFLNDKE-DRAVKLELALELEEDNSAFHVKVVQKARVPIIKFKDPVSNIHVDISFNQ-------------- 183 (514)
T ss_pred cceEEEEecccccCch-hhHHHHHHHHhhhhccccceEEEeeeeeeeeEEeecCccceEEEeeecc--------------
Confidence 9999999999776664 555554444443 2233457889999999999997 79999999998
Q ss_pred ccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHHHHhhCCCC---
Q 005341 184 MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNA--- 260 (701)
Q Consensus 184 d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pna--- 260 (701)
.|||+.++.|..++-+.+.+|.++.++|+|...|++++...|+++||++++||+.++|++|..
T Consensus 184 --------------~~G~~aa~~i~~~~~~~p~~~~lvlvlk~fl~~r~ln~v~tGgisSyal~~Lv~~fl~l~~~~~s~ 249 (514)
T KOG1906|consen 184 --------------TNGVKAAKFIKDFLRDHPFLRSLVLVLKQFLYERRLNGVHTGGISSYALELLVLSFLQLHPRSKSG 249 (514)
T ss_pred --------------cCchhHHHHHHHHHhcCccchhHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHhhcccccCC
Confidence 478999999999999999999999999999999999999999999999999999999999864
Q ss_pred ------ChHHHHHHHHHHhh-cCCCCC-ceeeccccccccC--cccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhh
Q 005341 261 ------VPSMLVSRFFRVYT-MWRWPN-PVMLCAIDEAELG--FSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTST 330 (701)
Q Consensus 261 ------s~~~LL~~FF~~Ys-~wdW~~-pV~l~~i~~g~lg--~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sT 330 (701)
.++.||.+||++|+ +|.+.. -|.+....+ ..+ ...|- .+...+...+.|+||..|..+.++.- ..
T Consensus 250 ~~~~~~~~~vll~~f~e~yG~~f~~~k~~i~~~~~g~-~~~~~~~~~~--~~~~~~~~~LsieDP~~P~ndigr~s--~~ 324 (514)
T KOG1906|consen 250 RLAVLKNLGVLLIKFFELYGRNFGYDKLGISLSLGGE-YVSKELTGFF--NNSLERPGSLSIEDPVDPTNDIGRSS--FN 324 (514)
T ss_pred ccchhcccchHHHHHHHHhccccCchhhceeccCCcc-cccHHhhhhh--cccccCCCccccCCCCCccccccccc--cc
Confidence 37789999999999 576665 233222111 111 11121 12234556799999999976665322 36
Q ss_pred HHHHHHHHHHHHHHHHH
Q 005341 331 LRVMMDQFQYGNTICEE 347 (701)
Q Consensus 331 lrvI~~EF~Ra~~Il~~ 347 (701)
+..|+.+|..|+.++..
T Consensus 325 ~~~v~~~F~~af~~l~~ 341 (514)
T KOG1906|consen 325 FSQVKGAFAYAFKVLTN 341 (514)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 88899999999988765
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=99.80 E-value=5.9e-19 Score=160.08 Aligned_cols=110 Identities=39% Similarity=0.751 Sum_probs=97.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc-cCchhhHHHHHHHHH
Q 005341 56 KREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY-VSREEDFFFILHNIL 134 (701)
Q Consensus 56 ~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~-v~re~~Ff~~l~~~L 134 (701)
.|++++++|++++++|. .++++++|||+++|+++|+||||+++..|.. ... ..++..+.+.|
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 38899999999999873 3689999999999999999999999999986 333 58999999999
Q ss_pred HhccCCceEEEeccCccceEEEEec--CceeeEEeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHh
Q 005341 135 AEMEEVTELQPVLDAHVPVMKFKFD--GLSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKL 210 (701)
Q Consensus 135 ~~~~~v~~l~~V~~ArVPIIKf~~~--GI~iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~l 210 (701)
++...+.++..|.+|+||||||.+. |++|||+|++ .+|++.+++|..+
T Consensus 64 ~~~~~~~~~~~i~~ArVPiik~~~~~~~i~~Dis~~~----------------------------~~g~~~s~li~~y 113 (114)
T cd05402 64 KKSGEVVEVEPIINARVPIIKFVDKPTGIEVDISFNN----------------------------LNGIRNTKLLRAY 113 (114)
T ss_pred HhCCCceeeEEeccCCCCEEEEEEcCCCeEEEEEccc----------------------------chHHHHHHHHHHh
Confidence 9988788999999999999999997 9999999997 4788888887765
No 9
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.76 E-value=3e-17 Score=186.77 Aligned_cols=252 Identities=22% Similarity=0.293 Sum_probs=190.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc-cCc----
Q 005341 48 YESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY-VSR---- 122 (701)
Q Consensus 48 ~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~-v~r---- 122 (701)
.+...+...|......++.++..-+ +.....+..|||..+|+....+|+|+++..... ..-
T Consensus 126 ~~~~~~~~~~~~~~~~l~~~~~~~~--------------p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~~ 191 (596)
T KOG2277|consen 126 KLPHSDVKTRKLILDKLRALASLLF--------------PDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKIK 191 (596)
T ss_pred CCCccccchHHHHHHHHHHHHHHhc--------------CCCcceeeccCcccccccccccCcceeecccccccccchhh
Confidence 3455566667777777777776432 222334789999999999999999944333222 110
Q ss_pred hhhHHHHHHHHHHhccC--CceEEEeccCccceEEEEe--cCceeeEEeeeccccccccccccccccccCCCCccccccc
Q 005341 123 EEDFFFILHNILAEMEE--VTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSL 198 (701)
Q Consensus 123 e~~Ff~~l~~~L~~~~~--v~~l~~V~~ArVPIIKf~~--~GI~iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe~svrSL 198 (701)
...++..+.+.|....+ +..++.|..|+||||||.+ .++++|+++.+..
T Consensus 192 ~~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~--------------------------- 244 (596)
T KOG2277|consen 192 GLEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSD--------------------------- 244 (596)
T ss_pred hHHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccch---------------------------
Confidence 13456667778877543 7889999999999999976 5999999998742
Q ss_pred chhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccc-hHHHHHHHHHHHhhCCCC-----------------
Q 005341 199 NGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLG-GVNWALLVARVCQLYPNA----------------- 260 (701)
Q Consensus 199 NG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LG-G~swaLLVa~vcQl~Pna----------------- 260 (701)
|.+.+..+..+...+.+|++|...||+||+++++++...|.+. +|++.+||++++|.++..
T Consensus 245 -~~~nS~ll~~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~ 323 (596)
T KOG2277|consen 245 -AILNSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDK 323 (596)
T ss_pred -hhhhhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcccccc
Confidence 3455666666777778999999999999999999999999998 699999999999986310
Q ss_pred --------------------------ChHHHHHHHHHHhh-cCCCCCceeeccccccccCcccccCCCCCCCCCCceEEe
Q 005341 261 --------------------------VPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPII 313 (701)
Q Consensus 261 --------------------------s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIi 313 (701)
+++.|+..||.||+ .|||++-++-...... +... |. ......+.|+
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~-l~~~-~~-----~~~~~~l~i~ 396 (596)
T KOG2277|consen 324 PVVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRA-LKRA-KK-----IKSKKFLCIE 396 (596)
T ss_pred cchhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhcccccceeeeeeccc-cccc-ch-----hhhccceeec
Confidence 25689999999999 7999997663322111 1100 11 1123569999
Q ss_pred CCCCCCCCcccccCHhhHHHHHHHHHHHHHHHHHh
Q 005341 314 TPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEV 348 (701)
Q Consensus 314 TP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i 348 (701)
+|+....|.+..++...+..|+.+|+....++...
T Consensus 397 dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 397 DPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred cccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 99999999999999999999999999999998775
No 10
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.61 E-value=4e-13 Score=147.44 Aligned_cols=343 Identities=20% Similarity=0.242 Sum_probs=209.4
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEeecC
Q 005341 39 EKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALCVGP 117 (701)
Q Consensus 39 ~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v~P 117 (701)
.+.|+ -+-||+||.++-+.+.++|...+++++++. ...++++.|||++-|.+++ +||||++++.|
T Consensus 3 ~~vl~--~i~Ps~eE~~~~~~~~~~l~~~l~~~~~e~------------~~~~~v~~~GS~ArgT~L~G~sDIDIfi~f~ 68 (408)
T TIGR03671 3 EEVLE--RIKPTEEEREKLKKVADELIARLEEIIEEL------------GVDAEVVLVGSYARGTWLKGDRDIDIFILFP 68 (408)
T ss_pred HHHhh--hcCCCHHHHHHHHHHHHHHHHHHHHHHHhc------------CCcceEEEEeeEecCCccCCCCceeEEEEeC
Confidence 34454 377999999999999999999998876431 2247999999999999999 99999999999
Q ss_pred CccCchhhHH---HHHHHHHHhc-cCCceEEEeccCccceEEEEecCceeeEEeeecccccccccccccccc-ccCCCCc
Q 005341 118 SYVSREEDFF---FILHNILAEM-EEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDMS-VLNDVDE 192 (701)
Q Consensus 118 ~~v~re~~Ff---~~l~~~L~~~-~~v~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~~~ip~~ldl~~d~-lL~~lDe 192 (701)
....++ ++= ..+...+.+. +... ..-|--|-++..+.|++|||.=|- ++.+.+ +...+|-
T Consensus 69 ~~~~~e-~l~~~gl~i~~~~~~~~~~~~----~~yaeHpYv~~~~~G~~VDiVPcy----------~v~~g~~~~taVDR 133 (408)
T TIGR03671 69 KDTSRE-ELEEYGLEIGHEVLKRGGNYE----ERYAEHPYVSGEIEGFEVDVVPCY----------KVESGEEIISAVDR 133 (408)
T ss_pred CCCCHH-HHHHHHHHHHHHHHhhCCCHh----heeccCceEEEEEccEEEEEEeeE----------EccCcCeeeccccC
Confidence 887764 331 1222222221 1111 357778999999999999998442 222221 1222221
Q ss_pred ccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCC--CccCccchHHHHHHHHHHHhhCCCCChHHHHHHHH
Q 005341 193 PTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYS--NVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFF 270 (701)
Q Consensus 193 ~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIys--n~~G~LGG~swaLLVa~vcQl~Pnas~~~LL~~FF 270 (701)
. ..-+++|+.-.- +.|+..+|++|.|+|.-|+|+ -+.++++||.+=||++++ -+...++..+
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 1 123466665543 348899999999999999996 457889999999999995 1223333222
Q ss_pred HHhhcCCCCCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHHHHHHHHHHHHHHHHHhhh
Q 005341 271 RVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVEL 350 (701)
Q Consensus 271 ~~Ys~wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~ 350 (701)
+ +|..++.+.....+ .. .-.+++.|+||.+|..|+|.++|..++..+...-+++. .+
T Consensus 198 ---~--~wk~~~~id~~~~~--------~~----~f~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~fl---~~--- 254 (408)
T TIGR03671 198 ---S--KWKPGVVIDIEEHG--------TK----KFDDPLVVIDPVDPKRNVAAALSLENLARFILAARMFL---KN--- 254 (408)
T ss_pred ---H--hcCCCeEEecCccc--------cc----cCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHHH---HC---
Confidence 3 34555666321111 11 12468999999999999999999888777765443332 22
Q ss_pred cCcCcccccccc-----ch---hhhcc-cEEEEEEEeCChhhhhhhhhhhHhhHHHHHHHhhhcccCceeeccCCCCCCC
Q 005341 351 NKAQWSALFEPY-----LF---FESYR-NYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVD 421 (701)
Q Consensus 351 ~~~~W~~Lf~p~-----~F---f~~Yk-~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~~ 421 (701)
+=..+|.|. ++ +.+-. +.+.|..-..+.-+- ..-|-++--.+.|...||+.....+....|- +
T Consensus 255 ---Ps~~fF~p~~~~~~~~~~~l~~r~t~~~~~~f~~p~~v~D-il~pQl~r~~~~i~~~L~~~gF~v~r~~~~~----~ 326 (408)
T TIGR03671 255 ---PSLEFFFPPEIEPEEFLERLERRGTTLLAIVFRTPDVVDD-ILYPQLERSGRSLVKLLEREGFEVLRYGVWA----D 326 (408)
T ss_pred ---CCHHHcCCCCCChHHHHHHHhhcCcEEEEEEeCCCCCCcc-chhHHHHHHHHHHHHHHHHCCCEEEEeeeec----C
Confidence 122344332 11 12222 334444433332222 3346666667777777887654444444442 2
Q ss_pred CCCCCceeEEEEeeeeCCCC--ccCCCceecchHHHHHHHHH
Q 005341 422 TSKPCAHCAFFMGLQRKPGE--VVQEGQQFDIRGSVEEFKLS 461 (701)
Q Consensus 422 ~~~~~~~~~ffIGL~~~~~~--~~~~~~~~dl~~~v~eF~~~ 461 (701)
. -.|..++=|....-. ....|.++.-+.-...|.+.
T Consensus 327 ~----~~~~l~~el~~~~lp~~~~h~GPpv~~~~~a~~F~~k 364 (408)
T TIGR03671 327 E----NTCYLLLELESAELPRVKLHVGPPVWVRDHAEKFIEK 364 (408)
T ss_pred C----CeEEEEEEeeccccCCceeeeCCCccchhHHHHHHHH
Confidence 1 124445555432211 11234455555667788764
No 11
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.59 E-value=1.1e-12 Score=145.78 Aligned_cols=346 Identities=20% Similarity=0.240 Sum_probs=207.2
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEeec
Q 005341 38 LEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALCVG 116 (701)
Q Consensus 38 L~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v~ 116 (701)
+.+.|+. +-||+||.++-.++.+.|...+++++++ .+ ..++++.+|||+-|.|++ +||||++++.
T Consensus 3 ~~evl~~--i~Ps~eE~~~l~~~~~~l~~~L~~~~~~----~~--------~~~~V~l~GS~ArgT~L~GdsDIDIFv~f 68 (447)
T PRK13300 3 LEEVLER--IKPTEEEREKLKKVAEELIERLEEAIKE----LG--------LDAEVELVGSTARGTWLSGDRDIDIFVLF 68 (447)
T ss_pred HHHHHHh--cCCCHHHHHHHHHHHHHHHHHHHHHHHh----cC--------CceEEEEEeeecCCcccCCCCceeEEEEe
Confidence 3455553 7799999999999999999888887643 11 138999999999999999 7899999999
Q ss_pred CCccCchhhH----HHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEEeeeccccccccccccccc-cccCCCC
Q 005341 117 PSYVSREEDF----FFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDM-SVLNDVD 191 (701)
Q Consensus 117 P~~v~re~~F----f~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~~~ip~~ldl~~d-~lL~~lD 191 (701)
|....++ ++ ......+++..-.-.+++ -|--|-++..+.|++|||.=|- ++.+. .+...+|
T Consensus 69 p~~~~~e-~L~~~gl~i~~~~~~~~~~~~~~~---yaeHpyv~~~~~G~~VDiVPcy----------~v~~~~~~~saVD 134 (447)
T PRK13300 69 PKDTSRE-ELEEKGLEIGKEVAKELLGDYEER---YAEHPYVTGEIDGFEVDIVPCY----------KVESGEEIISAVD 134 (447)
T ss_pred CCCCCHH-HHHHHHHHHHHHHHHhhCCcceee---eccCceEEEEECCEEEEEEeeE----------EccCcCccccccc
Confidence 9887764 22 112223333311112333 4888999999999999998542 22222 1222222
Q ss_pred cccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCC--CccCccchHHHHHHHHHHHhhCCCCChHHHHHHH
Q 005341 192 EPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYS--NVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRF 269 (701)
Q Consensus 192 e~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIys--n~~G~LGG~swaLLVa~vcQl~Pnas~~~LL~~F 269 (701)
-. ..-+++|+.-.- +.++..+|++|.|+|.-|+|+ -+.++++||..=||++++ -+-..+|..+
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-------PFHTKYVKERLK--GKLEDEVRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY------GSFENVLKAA 199 (447)
T ss_pred Cc-------hHHHHHHHHhhh--hhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHHH
Confidence 11 123566765543 348899999999999999996 457899999999999995 2233333332
Q ss_pred HHHhhcCCCCCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHHHHHHHHHHHHHHHHHhh
Q 005341 270 FRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVE 349 (701)
Q Consensus 270 F~~Ys~wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~ 349 (701)
++| .-++.+.....+ .. ....+++.|+||.+|..|+|.++|..++..+... |..-+.+
T Consensus 200 ----~~w--~~~~~I~~~~~~--------~~---~~f~~PlvViDPvDp~RNVAaa~S~~~~~~fv~a---ar~fL~~-- 257 (447)
T PRK13300 200 ----SKW--KPPVKIDLEKHG--------KE---YKFDDPLVVIDPVDPNRNVAAALSLENLATFILA---AREFLKN-- 257 (447)
T ss_pred ----HhC--CCCceEeccccC--------cc---ccCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHH---HHHHHhC--
Confidence 334 434544321111 00 0224789999999999999999998877666532 2222332
Q ss_pred hcCcCccccccccc-----h---hhh-cccEEEEEEEeCChhhhhhhhhhhHhhHHHHHHHhhhcccCceeeccCCCCCC
Q 005341 350 LNKAQWSALFEPYL-----F---FES-YRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYV 420 (701)
Q Consensus 350 ~~~~~W~~Lf~p~~-----F---f~~-Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~ 420 (701)
+=..+|.|.+ + +.+ =.+.+.|..-..+.-+- ..-|-++--.+.|...||+.....+.... |.
T Consensus 258 ----Ps~~fF~~~~~~~~~~~~~l~~R~t~~~~v~f~~p~~v~D-il~pQl~r~~~~i~~~L~~~gF~v~~~~~----~~ 328 (447)
T PRK13300 258 ----PSLEFFFPSDLSPEEILEELERRGTTVLALEFPRPDIVED-ILYPQLERSLRSIVKLLEREGFEVLRSGA----WA 328 (447)
T ss_pred ----CCHHhcCCCCCChHHHHHHHhhcCceEEEEEeCCCCCCcc-chhHHHHHHHHHHHHHHHHCCCEEEEeee----ec
Confidence 1223333333 1 111 12444455444442222 23466666677777778876544343322 22
Q ss_pred CCCCCCceeEEEEeeeeCC--CCccCCCceecchHHHHHHHHH
Q 005341 421 DTSKPCAHCAFFMGLQRKP--GEVVQEGQQFDIRGSVEEFKLS 461 (701)
Q Consensus 421 ~~~~~~~~~~ffIGL~~~~--~~~~~~~~~~dl~~~v~eF~~~ 461 (701)
+ . -.|..++=|.... .-....|.++....-...|.+.
T Consensus 329 d-~---~~~~l~~el~~~~lp~~~~h~GPpv~~~~~a~~F~~k 367 (447)
T PRK13300 329 D-E---DRAYLLLELEVAELPNVKLHIGPPVWVREHAENFIEK 367 (447)
T ss_pred C-C---CeEEEEEEeecccCCCeeeeeCCCcCchhhHHHHHHH
Confidence 2 1 1344444444221 1111223445555557788763
No 12
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.20 E-value=1.2e-08 Score=111.85 Aligned_cols=345 Identities=19% Similarity=0.204 Sum_probs=203.5
Q ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEe
Q 005341 36 RELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALC 114 (701)
Q Consensus 36 ~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~ 114 (701)
..|.+.|+. +.||+||.++=+++.+.|...+++-+ ++.|+ .+.+...||++=|.|++ +.|||+.|
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 345666664 67999999988888888877777654 34443 58899999999999999 78999999
Q ss_pred ecCCccCchhhH----HHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEEeeeccccccccccccccc-cccCC
Q 005341 115 VGPSYVSREEDF----FFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDM-SVLND 189 (701)
Q Consensus 115 v~P~~v~re~~F----f~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~GI~iDLsfa~l~~~~ip~~ldl~~d-~lL~~ 189 (701)
..|....++ .. +......|.+ .=-.+.-|-=|-+.-.+.|+++|+.=|-. +.+- .+...
T Consensus 71 ~Fp~d~~~e-el~~~GL~ig~~~l~~-----~~~~~~YAeHPYV~g~v~G~eVDvVPCy~----------v~~~~~~~sA 134 (443)
T COG1746 71 AFPKDTSEE-ELEEKGLEIGREVLKR-----GNYEERYAEHPYVTGEVDGYEVDVVPCYK----------VEDGEKIISA 134 (443)
T ss_pred ECCCCCCHH-HHHHHHHHHHHHHhcC-----CchhhhhccCCeeEEEEccEEEEEEeccc----------ccCccccccc
Confidence 999987764 11 1222333332 01124577889999999999999985532 1111 12222
Q ss_pred CCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCC--ccCccchHHHHHHHHHHHhhCCCCChHHHHH
Q 005341 190 VDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAVPSMLVS 267 (701)
Q Consensus 190 lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn--~~G~LGG~swaLLVa~vcQl~Pnas~~~LL~ 267 (701)
+| |+.= =+.++..-+-... +.=+|++|.+.|.=|+|++ +.++++||.-=||+++|=
T Consensus 135 VD----RTpl---Ht~yv~e~L~~~~--~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~yG------------- 192 (443)
T COG1746 135 VD----RTPL---HTRYVEEHLKGRQ--KDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHYG------------- 192 (443)
T ss_pred cc----Ccch---hHHHHHHHhcccc--hhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhhc-------------
Confidence 22 1111 1345554443321 2347899999999999996 479999999999999872
Q ss_pred HHHHHhhcC-CCCCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHHHHHHHHHHHHHHHH
Q 005341 268 RFFRVYTMW-RWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICE 346 (701)
Q Consensus 268 ~FF~~Ys~w-dW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~ 346 (701)
.|-..--.. +|..+++|..- .|..... ...+|.|++|.+|..|+|.+||..++..++ .|.+..-
T Consensus 193 sFe~vl~~a~~wrp~~~ID~~--------~~~~e~f---~d~PliVvDPVDP~RNVAAalSl~~la~f~----~aar~FL 257 (443)
T COG1746 193 SFENVLKAASRWRPGKIIDLE--------GHKRERF---EDEPLIVVDPVDPKRNVAAALSLENLARFV----HAAREFL 257 (443)
T ss_pred cHHHHHHHHhccCCCeEEecc--------chhhhcc---CCCCeEecCCCCCccchhhhcCHHHHHHHH----HHHHHHh
Confidence 233333322 38877776541 2211111 224899999999999999999987765543 3332221
Q ss_pred HhhhcCcCcccccccc---c-----hhhhcccEEEEEEEeCChhhhhhhhhhhHhhHHHHHHHhhhcccCceeeccCCCC
Q 005341 347 EVELNKAQWSALFEPY---L-----FFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHE 418 (701)
Q Consensus 347 ~i~~~~~~W~~Lf~p~---~-----Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~ 418 (701)
+ .+=...|.|. . ...+=.+-+.|.+-..+.-+- ..-|-++---+.|...||......+..+.|
T Consensus 258 ~-----~PS~efF~p~~~~~~~~~~~~~rgt~v~~l~~~~pd~vdD-ilypQl~r~~~~l~r~Le~~gF~vl~~~~~--- 328 (443)
T COG1746 258 K-----NPSPEFFFPRKPKPLLLSKLRRRGTHVLALVFPKPDLVDD-ILYPQLERTARSLFRALEEEGFRVLRSGVW--- 328 (443)
T ss_pred c-----CCChhhcCCCCcCcccccchhhcCceEEEEEeCCCCCCcc-hhhHHHHHHHHHHHHHHHHcCCEEeeeeee---
Confidence 1 1222233221 1 111112233333333442222 344777777788888888765444444433
Q ss_pred CCCCCCCCceeEEEEeeeeCCCC--ccCCCceecchHHHHHHHHH
Q 005341 419 YVDTSKPCAHCAFFMGLQRKPGE--VVQEGQQFDIRGSVEEFKLS 461 (701)
Q Consensus 419 f~~~~~~~~~~~ffIGL~~~~~~--~~~~~~~~dl~~~v~eF~~~ 461 (701)
.|... +|.-|+=+....-. ....+.++.-..+++ |.+.
T Consensus 329 -~D~~~---~~~v~~E~~~~~l~~i~~r~GPp~~~e~a~r-F~~k 368 (443)
T COG1746 329 -SDESE---RIYVLLELESKELPRIELRVGPPVWTEHAVR-FIEK 368 (443)
T ss_pred -ecCCc---ceEEEEEEecccccceeeecCCCccchhHHH-HHHh
Confidence 22221 34445555432211 011233344466777 7764
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=99.19 E-value=7.5e-09 Score=125.41 Aligned_cols=342 Identities=15% Similarity=0.215 Sum_probs=207.0
Q ss_pred cccccCcC---CCCCeeEEeecCCccCchhhH------------HHHHHHHH--HhccCCceEEEe---ccCccceEEEE
Q 005341 98 SYRLGVHG---PGADIDALCVGPSYVSREEDF------------FFILHNIL--AEMEEVTELQPV---LDAHVPVMKFK 157 (701)
Q Consensus 98 Sy~lGv~~---p~SDID~l~v~P~~v~re~~F------------f~~l~~~L--~~~~~v~~l~~V---~~ArVPIIKf~ 157 (701)
||.++... ++-.||+.+.-|..+-.++|| +..++..| .+...+.++... .+.+-|||.+.
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 477999999999876555443 23456667 223333344332 57888999999
Q ss_pred ec-----C------ceeeEEeeecccc-c----cccccc------------------cccccccCCCCcccccccchhhH
Q 005341 158 FD-----G------LSIDLLYASISRL-V----VREDLD------------------ISDMSVLNDVDEPTVRSLNGCRV 203 (701)
Q Consensus 158 ~~-----G------I~iDLsfa~l~~~-~----ip~~ld------------------l~~d~lL~~lDe~svrSLNG~Rv 203 (701)
-. + +.|-|..+..... . .|..-+ ..|..+|.++- -..-
T Consensus 81 p~~~~~~~~~~~~~~~iRi~~~~~~~~F~~~rl~P~rnnvR~~~~~~~~~~~~~pTP~YNssIL~D~~--------~~~~ 152 (972)
T PF03813_consen 81 PKGKKDSDDFSKTKFRIRIIPSIPSDTFPLSRLAPSRNNVRPSWFDEEDSSSLPPTPHYNSSILEDML--------MEEH 152 (972)
T ss_pred ECCccccccccCCcEEEEEEecCCcccCCHHhcCCCCCccCcCcccccccCCCCCCCcchHHHHHHHh--------HHHH
Confidence 42 2 4455544432111 0 111000 11222222210 0112
Q ss_pred HHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCc-cCccchHHHHHHHHHHHhh---------CCCCChHHHHHHHHHHh
Q 005341 204 ADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNV-TGFLGGVNWALLVARVCQL---------YPNAVPSMLVSRFFRVY 273 (701)
Q Consensus 204 td~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~-~G~LGG~swaLLVa~vcQl---------~Pnas~~~LL~~FF~~Y 273 (701)
..++.+.....+.|+.+++++|.||++||+.+.. .|++||+-|+||+++.+|- .+..+.-+|+..+.+|.
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 3344455566799999999999999999998865 5899999999999999986 34567889999999999
Q ss_pred hcCCC-CCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHHHHHHHHHHHHHHHHHhhhcC
Q 005341 274 TMWRW-PNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNK 352 (701)
Q Consensus 274 s~wdW-~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~~~ 352 (701)
+..|| .+|+.++...+.......| .+.+....++|. -.+|.+++++.++++.|+.|-+++.+++.+.. .
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 6688887644211111111 123455666664 56999999999999999999999999997632 3
Q ss_pred cCcccccc-c-cchhhhcccEEEEE---EEe----CChhhhhhhhhhhHhhHHHHHHH-hhhcccCceeeccC---CCCC
Q 005341 353 AQWSALFE-P-YLFFESYRNYLQVD---IVA----ANADDLLAWKGWVESRLRQLTLM-IERDTYGKLQCHPY---PHEY 419 (701)
Q Consensus 353 ~~W~~Lf~-p-~~Ff~~Yk~yl~I~---v~a----~~~e~~~~w~GwVESRlR~Lv~~-LE~~~~~~l~ahp~---P~~f 419 (701)
...+.+|- + ..+..+|.+++.|. ... ....+...|...+..++-.|+.+ |..... .++++ +.++
T Consensus 303 d~F~~lFl~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL~raLgdR~~---~i~v~~~~~~~w 379 (972)
T PF03813_consen 303 DGFDSLFLTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLLKRALGDRAK---LIRVLRPSQPPW 379 (972)
T ss_pred cchhhhhcccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHHHHHHHHHHH---eEEEeCCCCCCc
Confidence 46777774 4 46778999999991 111 11233344444566677666643 543221 23333 2222
Q ss_pred CCCCC--CCceeEEEEeeeeCCCCc---cCCCceecchHHHHHHHH
Q 005341 420 VDTSK--PCAHCAFFMGLQRKPGEV---VQEGQQFDIRGSVEEFKL 460 (701)
Q Consensus 420 ~~~~~--~~~~~~ffIGL~~~~~~~---~~~~~~~dl~~~v~eF~~ 460 (701)
.-... ........|||..+.... ..-|-..|-.....+|++
T Consensus 380 ~i~~~~~~~~~~~l~vGl~ln~~~~~r~vd~GP~a~d~~ea~~FR~ 425 (972)
T PF03813_consen 380 SISSKPPKSKPKTLTVGLILNPENAFRLVDRGPSAEDKEEAAAFRE 425 (972)
T ss_pred ccCCCCCCCCCceEEEEEEEchhhceeeeeeCcCCcCcHHHHHHHH
Confidence 11111 111226789998875211 111112233456677776
No 14
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=98.31 E-value=1.8e-05 Score=94.26 Aligned_cols=292 Identities=17% Similarity=0.204 Sum_probs=172.1
Q ss_pred CeEEE-EeccccccCc-CCCCCeeEEeecCCccCchhhH------------HHHHHHHHHhccCCceEEEe---ccCccc
Q 005341 90 NALIF-TFGSYRLGVH-GPGADIDALCVGPSYVSREEDF------------FFILHNILAEMEEVTELQPV---LDAHVP 152 (701)
Q Consensus 90 ~~~I~-~FGSy~lGv~-~p~SDID~l~v~P~~v~re~~F------------f~~l~~~L~~~~~v~~l~~V---~~ArVP 152 (701)
.+++. ..||+.+|.. .|+.-+|+++..|+..-..+|+ +..+...|.+.+....+... -+-.-|
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 34555 5566666654 6889999999999754332233 33344444444433333332 234558
Q ss_pred eEEEEecCceeeEEeeeccccccccccc-cccccccCCCC----------cccccccchhh--------HHHHHHHhCCC
Q 005341 153 VMKFKFDGLSIDLLYASISRLVVREDLD-ISDMSVLNDVD----------EPTVRSLNGCR--------VADQILKLVPN 213 (701)
Q Consensus 153 IIKf~~~GI~iDLsfa~l~~~~ip~~ld-l~~d~lL~~lD----------e~svrSLNG~R--------vtd~Il~lVP~ 213 (701)
|+.+...|-..|++-.+....-+|-.+. ..++.+|-+.- +..---.|-.- -..++.+....
T Consensus 227 il~i~~~~~~~~~~~~~~~~~li~~~~~~f~~~kllp~~~~ir~~~e~~e~ppTP~yN~svL~~~~le~~~q~L~K~~s~ 306 (1121)
T KOG2054|consen 227 ILLIRPRGKDERLVTVRPPDFLIPCRLLPFKNNKLLPWYNGIRPAGEGSEEPPTPRYNTSVLEDQVLEEYLQLLSKTLSS 306 (1121)
T ss_pred hhhccccCCccccccccCccccccccccccccccccchhcccCccccCCCCCCCCccchhHHHHHHHHHHHHHHHHHHhh
Confidence 8888876555554433322111221111 11111111100 00000011111 11233344455
Q ss_pred chhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHHHHh---hCCCCChHHHHHHHHHHhhcCCCCC-ceeeccccc
Q 005341 214 VEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQ---LYPNAVPSMLVSRFFRVYTMWRWPN-PVMLCAIDE 289 (701)
Q Consensus 214 ~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQ---l~Pnas~~~LL~~FF~~Ys~wdW~~-pV~l~~i~~ 289 (701)
-+.|+.++.+.|.|+++|-. +-..|++||+-|++++++... ++.+.+..+++..-|+|.+.|||.. -+-+++-.
T Consensus 307 ~~~f~da~~Llk~WlrqRs~-~~~~~gfg~f~~s~lvv~L~s~~ki~~~~S~yqvfR~vl~flat~dlt~~~~~l~~~~- 384 (1121)
T KOG2054|consen 307 AKGFKDALALLKVWLRQRSL-DIGQGGFGGFLLSALVVYLVSTRKIHTTLSAYQVFRSVLQFLATTDLTVNGISLVPSS- 384 (1121)
T ss_pred hhhHHHHHHHHHHHHHhhhh-hcccCcchHHHHHHHHHHHHhcCchhhcchHHHHHHHHHHHHhhhhhhccceEeccCC-
Confidence 68999999999999999922 224689999999999998774 4567788999999999999999987 45454310
Q ss_pred cccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHHHHHHHHHHHHHHHHHhhhcCcCccccc-cccchhhhc
Q 005341 290 AELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALF-EPYLFFESY 368 (701)
Q Consensus 290 g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~~~~~W~~Lf-~p~~Ff~~Y 368 (701)
..+ |....-+..+....++ ..-..|...|++.++++.+++|.+-+..++.+.. ...++.+| ++.+.|..|
T Consensus 385 ~s~------~~~~~f~e~~~~~f~D-~s~~~NLc~~mt~s~y~~~q~ea~ltl~lL~~~~--~~~F~~IFmtkip~~~~y 455 (1121)
T KOG2054|consen 385 PSL------PALADFHEGQLVTFID-SSGHLNLCANMTASTYEQVQEEARLTLMLLDSRA--DDGFSLIFMTKIPVFRAY 455 (1121)
T ss_pred CCc------hhhhhhhhcceeeEec-cCCcchhhhhccHHHHHHHHHHHHHHHHHHhhhh--hcCcceeeeecCCchhhh
Confidence 000 0000001112333333 2346889999999999999999999999998765 35688777 789999999
Q ss_pred ccEEEEEEEeCChhhhhhhhhhhH
Q 005341 369 RNYLQVDIVAANADDLLAWKGWVE 392 (701)
Q Consensus 369 k~yl~I~v~a~~~e~~~~w~GwVE 392 (701)
.|-+.+.--..-+.....-.||.|
T Consensus 456 Dh~l~l~~~~~l~~~~~~~~~~~~ 479 (1121)
T KOG2054|consen 456 DHVLHLSPLSRLQAAEHLLSGFCE 479 (1121)
T ss_pred heeeeccccchhhhHHhhcccchh
Confidence 998887654333333334444443
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.14 E-value=9.2e-05 Score=77.31 Aligned_cols=213 Identities=16% Similarity=0.146 Sum_probs=146.7
Q ss_pred EEEeccccccCcCCCC-CeeEEeecCCccCchhhHHHHH----HHHHHhccCCceEEEeccCccceEEEEec----Ccee
Q 005341 93 IFTFGSYRLGVHGPGA-DIDALCVGPSYVSREEDFFFIL----HNILAEMEEVTELQPVLDAHVPVMKFKFD----GLSI 163 (701)
Q Consensus 93 I~~FGSy~lGv~~p~S-DID~l~v~P~~v~re~~Ff~~l----~~~L~~~~~v~~l~~V~~ArVPIIKf~~~----GI~i 163 (701)
|.-.||+.-|+.+.|. +.|+++++....+. .....+ .+-|+...+=.....|..+.+|.++..+. -...
T Consensus 5 V~rVG~~aKG~ll~Gd~~~~lVv~c~~~PT~--~ll~~v~~~l~e~l~~~~~~e~~~~~~~~~~~~~~~~i~ltSp~~r~ 82 (246)
T smart00572 5 VMRVGSFAKGTLLKGDNVAELVLLCKEKPTS--ELVARLARKLPEQLKAVTEDEALIIVTSTKEPTMEVGILITSPLARV 82 (246)
T ss_pred eEEeeeeccCceecCCCceeEEEEecCCCcH--HHHHHHHHHHHHHHhhcCcccceeeeeccCCCceeEEEEEecccccc
Confidence 5678999999999866 78999999877775 344444 33444321111223456777788888762 2222
Q ss_pred eEEeeeccccccccccccccccccCCCC-cccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccc
Q 005341 164 DLLYASISRLVVREDLDISDMSVLNDVD-EPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLG 242 (701)
Q Consensus 164 DLsfa~l~~~~ip~~ldl~~d~lL~~lD-e~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LG 242 (701)
+...+ .+|+++.-.+ .-.-+| ..|+.+|-.+|-+....+.......|+.++|++|-|.++.-... -|.
T Consensus 83 ~~~~~-----~~~~~~~~~~--p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~~----pL~ 151 (246)
T smart00572 83 ELLIT-----TVPENLRKLD--PEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQ----PLS 151 (246)
T ss_pred ccccc-----ccCcccccCC--ccccCCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhccccc----ccc
Confidence 33322 2344432211 122334 35888899999999998888888899999999999999876544 389
Q ss_pred hHHHHHHHHHHHhhCC-CCChHHHHHHHHHHhhc-CCCCCceeeccccccccCcccccCCCCCCCCCCceEEeCCCCC-C
Q 005341 243 GVNWALLVARVCQLYP-NAVPSMLVSRFFRVYTM-WRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYP-C 319 (701)
Q Consensus 243 G~swaLLVa~vcQl~P-nas~~~LL~~FF~~Ys~-wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P-~ 319 (701)
++.+=+++++.+-... ..++++-+.+||++.++ .-+|.- --|.||+.+ .
T Consensus 152 ~w~iELl~~~~i~~~~~~l~~~~a~RR~fe~lAsG~l~p~~----------------------------~gI~DPce~~~ 203 (246)
T smart00572 152 GWPLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPGS----------------------------PGLTDPCEKDN 203 (246)
T ss_pred cccHHHHHHHHhccCCCCCCHHHHHHHHHHHHHhccCcCCC----------------------------CCCcCCCCCCc
Confidence 9999999999885332 24689999999999985 212210 136788886 7
Q ss_pred CCcccccCHhhHHHHHHHHHHHHHHHH
Q 005341 320 MNSSYNVSTSTLRVMMDQFQYGNTICE 346 (701)
Q Consensus 320 ~Nsa~nVs~sTlrvI~~EF~Ra~~Il~ 346 (701)
.|++...|......|...-+.+.+++.
T Consensus 204 ~nv~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 204 TDALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred ccHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 888888888888888888888877764
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=97.85 E-value=0.00015 Score=68.32 Aligned_cols=77 Identities=27% Similarity=0.317 Sum_probs=56.6
Q ss_pred CeEEEEeccccccCcCC-CCCeeEEeecCCccC----chhhHHHHHHHHHHhccCCceEEEeccCccceEEEEec--Cce
Q 005341 90 NALIFTFGSYRLGVHGP-GADIDALCVGPSYVS----REEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFD--GLS 162 (701)
Q Consensus 90 ~~~I~~FGSy~lGv~~p-~SDID~l~v~P~~v~----re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~--GI~ 162 (701)
...++.||||+.|...+ .||||++++.+.... ...+++..+.+.|.+...- -.. ....-|.|.+.+. +++
T Consensus 27 ~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~--~~~-~~~~~~~v~v~~~~~~~~ 103 (143)
T cd05400 27 VAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGA--NEE-VKAQHRSVTVKFKGQGFH 103 (143)
T ss_pred ccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCc--ccc-cccCceEEEEEEcCCCeE
Confidence 47899999999999987 899999999886643 1245677777788764321 111 2455578888886 899
Q ss_pred eeEEeee
Q 005341 163 IDLLYAS 169 (701)
Q Consensus 163 iDLsfa~ 169 (701)
|||+-+.
T Consensus 104 vDvvP~~ 110 (143)
T cd05400 104 VDVVPAF 110 (143)
T ss_pred EEEEEEe
Confidence 9997654
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=97.60 E-value=3.4e-05 Score=62.91 Aligned_cols=56 Identities=20% Similarity=0.322 Sum_probs=36.7
Q ss_pred ChHHHHHHHHHHhh-cCCCCCceeecccccccc--CcccccCCCCCCCCCCceEEeCCCCCC
Q 005341 261 VPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAEL--GFSVWDPRKNRRDKTHHMPIITPAYPC 319 (701)
Q Consensus 261 s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~l--g~~vW~p~~~~~dr~~~MpIiTP~~P~ 319 (701)
++++||..||+||+ .|||.+-|+.... .+.+ ....|.. ....+...|+|++|+.|.
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~-g~~~~k~~~~~~~--~~~~~~~~l~IeDP~~~~ 59 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDYENNVISIRN-GGYFPKEEKNWSK--SRNQRKKRLCIEDPFDPS 59 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-TTTEEEESSS-SSEEEHHHHTGCH--CCCCECSSSEBBESSSTT
T ss_pred CHHHHHHHHHHHhCCcCCCCceEEEecC-CceEEhhhccccc--cccCCCCeEEEECCCCCC
Confidence 47999999999999 8999997775432 1111 1233441 112345789999999885
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=97.54 E-value=0.00013 Score=58.05 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=24.5
Q ss_pred CeEEEEeccccccCcCCCCCeeEEee
Q 005341 90 NALIFTFGSYRLGVHGPGADIDALCV 115 (701)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v 115 (701)
..+++.||||+.|.+.+.||||++|+
T Consensus 17 ~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 17 GYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred CcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 57899999999999999999999987
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=97.43 E-value=0.00021 Score=61.94 Aligned_cols=32 Identities=34% Similarity=0.464 Sum_probs=29.6
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005341 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (701)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~ 121 (701)
...|+.|||++.|.+.|+||||++++.+....
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 58999999999999999999999999988764
No 20
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=97.26 E-value=0.0028 Score=77.87 Aligned_cols=156 Identities=23% Similarity=0.356 Sum_probs=108.7
Q ss_pred hhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHHHH-hhCC---CCChHHHHHHHHHHhhcC
Q 005341 201 CRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVC-QLYP---NAVPSMLVSRFFRVYTMW 276 (701)
Q Consensus 201 ~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vc-Ql~P---nas~~~LL~~FF~~Ys~w 276 (701)
.+-+..|..+.-.++.|.+++|++|.|...+-+ .|++.--.+=||||++. +-+| ..++..=+.+|.++-++|
T Consensus 669 p~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~~p~~~P~S~~~GFlRfL~lLs~~ 744 (972)
T PF03813_consen 669 PKHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSPAPWSPPSSPQTGFLRFLHLLSTW 744 (972)
T ss_pred HHHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCCCCCCCCCCHhHHHHHHHHHHHhC
Confidence 345566666666788999999999999999977 46778888999999876 3344 445666678888888999
Q ss_pred CCCC-ceeeccccccc--------cCcccccCCCCCCCCCCceEEeCCCCCCCCc--ccccCHhhHHHHHHHHHHHHHHH
Q 005341 277 RWPN-PVMLCAIDEAE--------LGFSVWDPRKNRRDKTHHMPIITPAYPCMNS--SYNVSTSTLRVMMDQFQYGNTIC 345 (701)
Q Consensus 277 dW~~-pV~l~~i~~g~--------lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Ns--a~nVs~sTlrvI~~EF~Ra~~Il 345 (701)
||.+ |++++...+-. ..|..|.. ..|......|.|.||.+|.-.. ...-+..-+++|+.--+.+.+++
T Consensus 745 dW~~~PLiVd~~~~l~~~~~~~i~~~f~~~R~-~dp~~~~p~~~IaT~~D~~g~~wT~~~Ps~~v~~Rl~~LAk~sl~~l 823 (972)
T PF03813_consen 745 DWREEPLIVDFNNELTEEDRAEIETNFDAWRK-IDPAMNLPAMFIATPYDPEGSLWTRNGPSKVVAKRLTALAKASLKLL 823 (972)
T ss_pred CCCcCCEEEECCCCCCHHHHHHHHHHHHHhhc-cCccccCCcEEEEeCCCCCCCEeECCCCCHHHHHHHHHHHHHHHHHH
Confidence 9995 88876532110 12333432 2344456789999999985431 12345555777777777788888
Q ss_pred HHhhhcCcCccccccc
Q 005341 346 EEVELNKAQWSALFEP 361 (701)
Q Consensus 346 ~~i~~~~~~W~~Lf~p 361 (701)
+.-..+..+|..||.|
T Consensus 824 ~~~~~~~~~~~~lF~~ 839 (972)
T PF03813_consen 824 EEQGLSDLDWKSLFRP 839 (972)
T ss_pred HhcCCCCCCHHHhcCC
Confidence 7433346799999976
No 21
>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=97.24 E-value=0.001 Score=62.16 Aligned_cols=93 Identities=24% Similarity=0.335 Sum_probs=59.4
Q ss_pred HHHHHHHHHHhCCCCC--ccCccchHHHHHHHHHHHhhCCCCChHHHHHHHHHHhhcCCCCCceeeccccccccCccccc
Q 005341 221 LRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWD 298 (701)
Q Consensus 221 lr~IK~WAK~RGIysn--~~G~LGG~swaLLVa~vcQl~Pnas~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~vW~ 298 (701)
+|++|.++|.-|+|++ +.++++||..=|||++|=- +....+.-+ +|..|+.|..-..+... +
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~yGs----------F~~~l~~a~--~W~~~~~Id~~~~~~~~-~--- 66 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHYGS----------FENVLEAAA--KWKPPVVIDLEDHGEPS-K--- 66 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHHSS----------HHHHHHHHT--T--TTEEEETT-TTE---E---
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHHCC----------HHHHHHHHH--hcCCCeEEccCccchhh-h---
Confidence 5899999999999996 4789999999999998731 223333334 77778887653211100 1
Q ss_pred CCCCCCCCCCceEEeCCCCCCCCcccccCHhhHHHHH
Q 005341 299 PRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMM 335 (701)
Q Consensus 299 p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~ 335 (701)
.-.+++.|+||.+|..|+|.+||..++..+.
T Consensus 67 ------~f~~PlvviDPvDp~RNVAAalS~~~~~~fv 97 (114)
T PF09249_consen 67 ------KFDDPLVVIDPVDPNRNVAAALSLENLAEFV 97 (114)
T ss_dssp ------EE-SS-EEEETTEEEEETTTTS-HHHHHHHH
T ss_pred ------hcCCCeEEcCCCCCCchHhHhcCHHHHHHHH
Confidence 1136899999999999999999987766544
No 22
>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=96.92 E-value=0.0013 Score=56.43 Aligned_cols=32 Identities=31% Similarity=0.492 Sum_probs=28.8
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005341 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (701)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~ 121 (701)
-..++.|||++.|-+.++||||++++.+....
T Consensus 18 i~~i~LfGS~arg~~~~~SDiDl~vi~~~~~~ 49 (93)
T cd05403 18 VEKVYLFGSYARGDARPDSDIDLLVIFDDPLD 49 (93)
T ss_pred ccEEEEEeeeecCCCCCCCCeeEEEEeCCCCC
Confidence 37899999999999999999999999987654
No 23
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=96.14 E-value=0.054 Score=53.25 Aligned_cols=118 Identities=23% Similarity=0.361 Sum_probs=74.9
Q ss_pred EEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceE-EEeccCccceEEEEecCceeeEEeeec
Q 005341 92 LIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTEL-QPVLDAHVPVMKFKFDGLSIDLLYASI 170 (701)
Q Consensus 92 ~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l-~~V~~ArVPIIKf~~~GI~iDLsfa~l 170 (701)
.-...|.+.+|+..++||||++|.++.. +.|-..+.....+.++.+-- ..|..-..=+..|.+.|..|-|---+.
T Consensus 17 ~PiL~GTiPi~Idi~~SDLDIic~~~d~----~~F~~~l~~~f~~~~~f~~~~~~i~~~~~~~~~F~~~~~~~EiF~Q~~ 92 (152)
T PF14091_consen 17 DPILVGTIPIGIDIPGSDLDIICEVPDP----EAFEQLLQSLFGQFEGFTIKEKTIRGEPSIVANFRYEGFPFEIFGQPI 92 (152)
T ss_pred CCEEecccccccCCCCCCccEEEEeCCH----HHHHHHHHHHhccCCCceeeeceeCCceeEEEEEEECCceEEEeecCC
Confidence 3456799999999999999999998753 23433444444444443221 223444455677888999988753222
Q ss_pred cccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCc-hhHHHHHHHHH--------HHHHHhCCCCC
Q 005341 171 SRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNV-EHFCTTLRCLK--------FWAKRRGVYSN 236 (701)
Q Consensus 171 ~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~-~~FR~llr~IK--------~WAK~RGIysn 236 (701)
.+..-||+|=...-.+++-.. +.||.-+|-+| +||+--||-++
T Consensus 93 -----------------------Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~GD 144 (152)
T PF14091_consen 93 -----------------------PVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLEGD 144 (152)
T ss_pred -----------------------ChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCCCC
Confidence 234568888543334444444 78999888888 46666666554
No 24
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.13 E-value=0.086 Score=48.29 Aligned_cols=46 Identities=30% Similarity=0.420 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 58 EQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 58 ~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
+++++++...+++|. | -..+-.||||+=|=..|+||||+++-.-..
T Consensus 8 ~~~lr~~~~~l~~k~-------g---------v~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 8 KKILRKIKPELKEKY-------G---------VKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHh-------C---------CceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 344566666666553 2 267999999999999999999999966443
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=95.09 E-value=0.78 Score=48.53 Aligned_cols=208 Identities=14% Similarity=0.166 Sum_probs=130.8
Q ss_pred eccccccCcCCCC-CeeEEeecCCccCchhhHHHHHHHHHHh----c-cCCceEEEe------ccCccceEEEEe--c--
Q 005341 96 FGSYRLGVHGPGA-DIDALCVGPSYVSREEDFFFILHNILAE----M-EEVTELQPV------LDAHVPVMKFKF--D-- 159 (701)
Q Consensus 96 FGSy~lGv~~p~S-DID~l~v~P~~v~re~~Ff~~l~~~L~~----~-~~v~~l~~V------~~ArVPIIKf~~--~-- 159 (701)
.||+.-|+.+.|. ++|+|+++..-.+. ++++.+.+.|.+ . ++ +-...+ .....|.+...+ .
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kPT~--~lL~~v~~~L~~~L~~~~~~-ev~~~~e~~~~~~~~~~~~~~~~~~lts~ 78 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKPTK--ELLNRVAEKLPEQLKKVTPE-EVTNSVEAAIIIDSCKEPKLEVGIDLTSP 78 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCCcH--HHHHHHHHHHHHHHhhhCcc-ccccchhhhhhhcccccccceeeEEecCC
Confidence 5999999999876 89999999887775 466665544443 2 22 111122 222335555543 2
Q ss_pred CceeeEEeeeccccccccccccccccccCCCCc-ccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCcc
Q 005341 160 GLSIDLLYASISRLVVREDLDISDMSVLNDVDE-PTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVT 238 (701)
Q Consensus 160 GI~iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe-~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~ 238 (701)
.+.+.+.... .+++..- .+.-..||. .|..+|-.+|-|....+........+.++|++|-...+--- +
T Consensus 79 ~~r~~~~~~~-----~~~~~~~--~dp~~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~p~----w 147 (248)
T PF07528_consen 79 VMRVRVLITT-----IPENLSK--LDPEDHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRVPT----W 147 (248)
T ss_pred ceEEEEeccc-----cCccccc--cChhhcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhCCC----C
Confidence 2333333222 2222211 112223454 58888989999999988888888889999999999887533 4
Q ss_pred CccchHHHHHHHHHHHhhCCC---CChHHHHHHHHHHhhc-CCCCCceeeccccccccCcccccCCCCCCCCCCceEEeC
Q 005341 239 GFLGGVNWALLVARVCQLYPN---AVPSMLVSRFFRVYTM-WRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIIT 314 (701)
Q Consensus 239 G~LGG~swaLLVa~vcQl~Pn---as~~~LL~~FF~~Ys~-wdW~~pV~l~~i~~g~lg~~vW~p~~~~~dr~~~MpIiT 314 (701)
+-|+++.+=+|+-+..--.|+ .++++-+.+||+..|. +-.|.-. -|.|
T Consensus 148 ~~L~~W~leLL~~~~i~~~~~~~~l~~g~a~RRvle~lasGillp~~~----------------------------gl~D 199 (248)
T PF07528_consen 148 QPLSSWALELLVEKAISNNSSRQPLSPGDAFRRVLECLASGILLPGSP----------------------------GLRD 199 (248)
T ss_pred CCCChhHHHHHHHHHeeeCCCCCCCChHHHHHHHHHHHhCceecCCCC----------------------------CCcC
Confidence 568888877877766652332 4689999999999874 3333200 1234
Q ss_pred CCC-CCCCcccccCHhhHHHHHHHHHHHHHHH
Q 005341 315 PAY-PCMNSSYNVSTSTLRVMMDQFQYGNTIC 345 (701)
Q Consensus 315 P~~-P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il 345 (701)
|+. ...++..+.|......|..--|.+.+++
T Consensus 200 PcE~~~~~~~~~lt~qq~e~it~sAQ~~LRll 231 (248)
T PF07528_consen 200 PCEKDPVDVLDTLTLQQREDITSSAQTALRLL 231 (248)
T ss_pred CCCCCCceeeccCCHHHHHHHHHHHHHHHHHH
Confidence 555 4566777777777777777666666555
No 26
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=94.62 E-value=0.18 Score=45.54 Aligned_cols=29 Identities=41% Similarity=0.614 Sum_probs=26.6
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCC
Q 005341 90 NALIFTFGSYRLGVHGPGADIDALCVGPS 118 (701)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P~ 118 (701)
...++.|||++-|=+.+.||||++++++.
T Consensus 26 ~~~v~LfGS~arG~~~~~SDiDv~vv~~~ 54 (128)
T COG1708 26 DLLIYLFGSYARGDFVKESDIDLLVVSDD 54 (128)
T ss_pred CeEEEEEccCcccccccCCCeeEEEEcCC
Confidence 58999999999999999999999999833
No 27
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=94.44 E-value=0.076 Score=56.45 Aligned_cols=31 Identities=29% Similarity=0.269 Sum_probs=28.1
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005341 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (701)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~ 121 (701)
.-|+.|||++.|-..|.||||++++.....+
T Consensus 29 ~~vyLfGS~~~G~~~p~SDIDllvvv~~~l~ 59 (262)
T PRK13746 29 LAIHLYGSAVDGGLKPHSDIDLLVTVAVPLD 59 (262)
T ss_pred EEEEEECCcccCCCCCCCceeEEEEeCCCCC
Confidence 4689999999999999999999999987765
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=93.42 E-value=0.13 Score=52.30 Aligned_cols=47 Identities=13% Similarity=0.051 Sum_probs=33.1
Q ss_pred chhHHHHHHHHHHHHHHhCCCCCcc-CccchHHHHHHHHHHHhhCCCC
Q 005341 214 VEHFCTTLRCLKFWAKRRGVYSNVT-GFLGGVNWALLVARVCQLYPNA 260 (701)
Q Consensus 214 ~~~FR~llr~IK~WAK~RGIysn~~-G~LGG~swaLLVa~vcQl~Pna 260 (701)
....+.|+|+||+|-+...--.... +-+.+|++-||+++.-..-.+.
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 4788999999999999876553333 4567999999999998765544
No 29
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=91.77 E-value=0.32 Score=50.62 Aligned_cols=32 Identities=25% Similarity=0.308 Sum_probs=27.5
Q ss_pred CeEEEEecccc----ccC--cCCCCCeeEEeecCCccC
Q 005341 90 NALIFTFGSYR----LGV--HGPGADIDALCVGPSYVS 121 (701)
Q Consensus 90 ~~~I~~FGSy~----lGv--~~p~SDID~l~v~P~~v~ 121 (701)
+..+.+|||+. +|+ -.++||||+++-.|....
T Consensus 120 g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~~~~ 157 (221)
T PRK02098 120 GVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPAAAQ 157 (221)
T ss_pred CCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCChhh
Confidence 57899999999 999 789999999998875544
No 30
>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=91.70 E-value=2.5 Score=45.84 Aligned_cols=113 Identities=25% Similarity=0.286 Sum_probs=71.3
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEe------cCce
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF------DGLS 162 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~------~GI~ 162 (701)
...++.+-||||=|-.+ .+|||+|+..+.... ..++..+...|.+.+.+..+. ..-..-....+ .|+.
T Consensus 159 ~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~--~~~~~~v~~~l~~~~~~~~~~---~~g~~k~~~~~~~~~~~~~~r 232 (307)
T cd00141 159 PVLQVEIAGSYRRGKET-VGDIDILVTHPDATS--RGLLEKVVDALVELGFVTEVL---SKGDTKASGILKLPGGWKGRR 232 (307)
T ss_pred CceEEEEcccccCCCCc-cCCEEEEEecCCccc--cccHHHHHHHHHhCCCeehhh---hCCCceEEEEEecCCCCCceE
Confidence 46899999999998776 679999998876544 256777888888776654321 11111122222 2899
Q ss_pred eeEEeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCcc
Q 005341 163 IDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFL 241 (701)
Q Consensus 163 iDLsfa~l~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~L 241 (701)
|||.++.... + .-.++-+-.+ ..| .|-++.||++||..=+..|..
T Consensus 233 VDl~~~p~~~------~------------------------~~all~fTGs-~~~---nr~lR~~A~~~G~~L~~~GL~ 277 (307)
T cd00141 233 VDLRVVPPEE------F------------------------GAALLYFTGS-KQF---NRALRRLAKEKGLKLNEYGLF 277 (307)
T ss_pred EEEEEeCHHH------H------------------------HHHHHHhhCC-HHH---HHHHHHHHHHcCCeeeccccc
Confidence 9999876321 1 1122222222 222 466699999999877766654
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=91.18 E-value=0.38 Score=49.31 Aligned_cols=33 Identities=27% Similarity=0.272 Sum_probs=28.1
Q ss_pred CeEEEEeccc----cccC--cCCCCCeeEEeecCCccCc
Q 005341 90 NALIFTFGSY----RLGV--HGPGADIDALCVGPSYVSR 122 (701)
Q Consensus 90 ~~~I~~FGSy----~lGv--~~p~SDID~l~v~P~~v~r 122 (701)
+..+.+|||+ .+|+ -.++||||+++-.|.....
T Consensus 108 ~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~~~~~ 146 (202)
T TIGR03135 108 GVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPSPLSL 146 (202)
T ss_pred CCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCChhhH
Confidence 5789999999 8999 7899999999988865443
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=89.58 E-value=1.6 Score=40.55 Aligned_cols=53 Identities=32% Similarity=0.330 Sum_probs=39.5
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCc---hhhHHHHHHHHHHhccCCce
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR---EEDFFFILHNILAEMEEVTE 142 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~r---e~~Ff~~l~~~L~~~~~v~~ 142 (701)
.+..+..-||||=|-.+.+ |||+++..|..... ...++..+.+.|.+..-++.
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 4699999999999988765 99999999876552 13688889999987544443
No 33
>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=87.57 E-value=2.9 Score=40.87 Aligned_cols=48 Identities=23% Similarity=0.275 Sum_probs=36.7
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHh
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAE 136 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~ 136 (701)
...-++.+|||+-|=-.+.||||++++.+........+|..+.+.+.+
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 468999999999999999999999999865432113567666655554
No 34
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=86.63 E-value=0.11 Score=55.29 Aligned_cols=25 Identities=32% Similarity=0.480 Sum_probs=22.1
Q ss_pred EeccccccCcCCCCCeeEEeecCCc
Q 005341 95 TFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 95 ~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
+-||..+|++..+||||+++.|+.+
T Consensus 126 VTGSiL~gl~~~nSDIDfVVYG~~~ 150 (315)
T COG1665 126 VTGSILLGLYDENSDIDFVVYGQMW 150 (315)
T ss_pred ccccccccccCCCCCceEEEEcHHH
Confidence 4599999999999999999999544
No 35
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=85.53 E-value=4.8 Score=49.82 Aligned_cols=122 Identities=18% Similarity=0.255 Sum_probs=73.1
Q ss_pred hHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHHHHh-hC---CCCChHHHHHHHHHHhhcCC
Q 005341 202 RVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQ-LY---PNAVPSMLVSRFFRVYTMWR 277 (701)
Q Consensus 202 Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQ-l~---Pnas~~~LL~~FF~~Ys~wd 277 (701)
|.+-.|-.+...++.|-.++|+-|.|...+=+-+ |.+ ==++=||||...+ -+ |..++-.=+.+|..+-|+||
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 4445555555567899999999999988875443 222 4456678887654 23 45566677889999999999
Q ss_pred CCC-ceeeccccccccCc----ccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhh
Q 005341 278 WPN-PVMLCAIDEAELGF----SVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTST 330 (701)
Q Consensus 278 W~~-pV~l~~i~~g~lg~----~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sT 330 (701)
|.. |.+++-. .+ +.. ..-+.-...|.....|.|+||-+- .++.+.=+..+
T Consensus 882 W~~~PLIvd~n-n~-~~ed~~~e~~e~f~s~R~~lp~m~vit~yD~-~~~~~t~~~P~ 936 (1121)
T KOG2054|consen 882 WKFDPLIVDFN-NG-FPEDERSELEEKFISARKQLPPMVVITPYDH-LGSKFTRTSPN 936 (1121)
T ss_pred ccCCceEEEcC-CC-CcHHHHHHHHHHHhhhcccCCceEEeecccc-ccccccccCch
Confidence 986 7666432 10 000 000000011233458999999654 33334333344
No 36
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=84.09 E-value=26 Score=37.93 Aligned_cols=212 Identities=17% Similarity=0.204 Sum_probs=109.5
Q ss_pred HHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCe
Q 005341 31 DMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADI 110 (701)
Q Consensus 31 D~~~t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDI 110 (701)
|-..+++|.+- +.++.|+.+|...=.+.+.+++.++.+-+ .-|+- .-.-..|--.|||..|..+.++|.
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-----APGLF----EVQIEEVRQVGSFKKGTMTTGHNV 106 (362)
T ss_pred chHHHHHHHhh--hccCCCCHHHHHHHHHHHHHHHHHHHhhc-----cCCce----EeehhhhhhccceeccccccCCcc
Confidence 66666666553 35799999988776666677666665432 11221 112256778899999999988886
Q ss_pred -eEEeecCCccCch--hhHHHHHHHHHHhc-c-CCceEEEeccCccceEEEEe----cCceeeEEeeecccccccccccc
Q 005341 111 -DALCVGPSYVSRE--EDFFFILHNILAEM-E-EVTELQPVLDAHVPVMKFKF----DGLSIDLLYASISRLVVREDLDI 181 (701)
Q Consensus 111 -D~l~v~P~~v~re--~~Ff~~l~~~L~~~-~-~v~~l~~V~~ArVPIIKf~~----~GI~iDLsfa~l~~~~ip~~ldl 181 (701)
|++++-.--.+.| ...=.++.+-|+.. + ++-. |=+.+--+ ..-.+-|+++. +|+++.
T Consensus 107 advVViLkTLPt~EaV~aLg~Kv~e~lka~d~~Evlt--------vl~~e~G~~I~s~~~~VRiLIt~-----iP~n~~- 172 (362)
T KOG3793|consen 107 ADLVVILKTLPTLEAVAALGNKVVESLRAQDPSEVLT--------VLTNETGFEISSSDATVRILITT-----VPPNLR- 172 (362)
T ss_pred cceEEEeecCCcHHHHHHHHHHHHHHhhhcChHHHHH--------HHhhccceeeecccceEEEEEee-----cCchhc-
Confidence 6655543333322 01112233333321 1 1111 11111111 12233444443 344332
Q ss_pred ccccccCCCCcccc-cccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCccchHHHHH-HHHHHHhhC-C
Q 005341 182 SDMSVLNDVDEPTV-RSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWAL-LVARVCQLY-P 258 (701)
Q Consensus 182 ~~d~lL~~lDe~sv-rSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaL-LVa~vcQl~-P 258 (701)
.-+++-.||-+-+ ..+-.+|-+...-+. ......+.++|++|---.+ +.||--=-.|+| |++++|-+. |
T Consensus 173 -KLEP~lHLD~K~M~~~l~a~RH~~WFee~-A~~s~~~~lir~LKDlr~r------~~~F~PLs~W~ldll~h~avmNnp 244 (362)
T KOG3793|consen 173 -KLEPELHLDIKVMQSALAAIRHARWFEEN-ASQSTVKVLIRLLKDLRIR------FPGFEPLTPWILDLLGHYAVMNNP 244 (362)
T ss_pred -ccChhhhhhHHHHHHHHHHHhhhhhhhhh-hhHHHHHHHHHHHHHHHhh------cCCCCCchHHHHHHHHHHHHHcCC
Confidence 1122334443322 123333433322221 2234567788888865443 234533334655 778888653 4
Q ss_pred C---CChHHHHHHHHHHhhc
Q 005341 259 N---AVPSMLVSRFFRVYTM 275 (701)
Q Consensus 259 n---as~~~LL~~FF~~Ys~ 275 (701)
+ +.++.-..+||++.+.
T Consensus 245 ~RQ~l~ln~Afrr~~qilaA 264 (362)
T KOG3793|consen 245 TRQPLALNVAYRRCLQILAA 264 (362)
T ss_pred ccccchhhHHHHHHHHHHHh
Confidence 4 3577889999999985
No 37
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=82.33 E-value=10 Score=36.38 Aligned_cols=49 Identities=20% Similarity=0.148 Sum_probs=37.9
Q ss_pred cCCeEEEEeccccccCcCCCCCeeEEeecCCccCch-hhHHHHHHHHHHh
Q 005341 88 DANALIFTFGSYRLGVHGPGADIDALCVGPSYVSRE-EDFFFILHNILAE 136 (701)
Q Consensus 88 ~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re-~~Ff~~l~~~L~~ 136 (701)
....-++.+||++=+=.++.||+|..++.......+ ..+|..|.+.+..
T Consensus 47 p~~~a~lalGS~GR~E~~~~sDqD~alv~~d~~~~~~~~~f~~~a~~~~~ 96 (138)
T PF03445_consen 47 PVPFAWLALGSYGRREQTLYSDQDNALVFEDEESEEDRAYFEAFAERLVD 96 (138)
T ss_pred CCCEEEEEECcccccCCCcCccccceeeecCccchhHHHHHHHHHHHHHH
Confidence 457999999999999999999999999988732221 3677776665553
No 38
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=74.14 E-value=12 Score=45.64 Aligned_cols=59 Identities=20% Similarity=0.358 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCccCc
Q 005341 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR 122 (701)
Q Consensus 60 Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~r 122 (701)
.+.....++..|..++-...|.++ ..+.-|...|.|.=|--.|.||||++++.|...+.
T Consensus 40 l~~~~~~~~d~~L~~lw~~~g~~~----~~~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~~ 98 (867)
T COG2844 40 LIELRTDLVDQLLIRLWQEIGFAD----ASGLALVAVGGYGRGELHPLSDIDLLLLSPQKLTD 98 (867)
T ss_pred HHHHHHHHHHHHHHHHHHHcCccc----ccceEEEEeccccccccCCCccceEEEecCCCCCh
Confidence 334445556666666666777754 35789999999999999999999999999987663
No 39
>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=71.97 E-value=6.9 Score=40.45 Aligned_cols=32 Identities=25% Similarity=0.298 Sum_probs=25.2
Q ss_pred CeEEEEeccccc----cCc--CCCCCeeEEeecCCccC
Q 005341 90 NALIFTFGSYRL----GVH--GPGADIDALCVGPSYVS 121 (701)
Q Consensus 90 ~~~I~~FGSy~l----Gv~--~p~SDID~l~v~P~~v~ 121 (701)
+...-+|||+.. |+. .++||||+++-.+....
T Consensus 116 ~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~~~ 153 (213)
T PF10620_consen 116 GLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSPSQ 153 (213)
T ss_pred CCCEEEehhHHHHHHhCccccCCCCCceEEEeCCChhH
Confidence 678999999854 433 58999999998887653
No 40
>PF03281 Mab-21: Mab-21 protein
Probab=71.68 E-value=1.3e+02 Score=31.77 Aligned_cols=93 Identities=15% Similarity=0.122 Sum_probs=62.5
Q ss_pred chhHHHHHHHHHHHHHHhCCCCCccCccchHHHHHHHHHHHhhCCCC------ChHHHHHHHHHHhhcCCCCCceeeccc
Q 005341 214 VEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNA------VPSMLVSRFFRVYTMWRWPNPVMLCAI 287 (701)
Q Consensus 214 ~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pna------s~~~LL~~FF~~Ys~wdW~~pV~l~~i 287 (701)
....+.+++++|....+.. ...+.|++|++-.++.+.|..+|.. .+++.+.+.+...- +-.
T Consensus 190 ~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~p~~~~W~~~~l~~~l~~~l~~L~----------~~L 256 (292)
T PF03281_consen 190 NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKHPSSSDWSEENLGERLLDLLDFLI----------KCL 256 (292)
T ss_pred cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHH----------HHH
Confidence 4567889999999987766 5568899999999999999999875 23444444433322 111
Q ss_pred cccccCcccccCCCCCCCCCCceEEeCCCCCCCCcccccCHhhHHHHHHHHH
Q 005341 288 DEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQ 339 (701)
Q Consensus 288 ~~g~lg~~vW~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~ 339 (701)
.++.+ | .-+.|.+|.=.+.+..++..+..++.
T Consensus 257 ~~~~L----------p----------hff~~~~NLf~~~~~~~~~~~~~~~~ 288 (292)
T PF03281_consen 257 QEGRL----------P----------HFFIPNLNLFQHLSPEELDELARKLE 288 (292)
T ss_pred hcCCC----------C----------ccCCCCcccCCCCCHHHHHHHHHHHH
Confidence 11111 0 12567888888888777777766654
No 41
>PRK05007 PII uridylyl-transferase; Provisional
Probab=70.58 E-value=16 Score=45.20 Aligned_cols=56 Identities=18% Similarity=0.271 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 60 Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
++..+..++.++++.+-...+.+. ..+..|...|+|+=|=-.|.||||++++.+..
T Consensus 54 ~~~~~s~~~D~~l~~l~~~~~~~~----~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 109 (884)
T PRK05007 54 LVEARTEFIDQLLQRLWIEAGFDQ----IPDLALVAVGGYGRGELHPLSDIDLLILSRKK 109 (884)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCC----cCceEEEecCCCCCcccCCcccceEEEEeCCC
Confidence 555666666666665544445431 24689999999999999999999999998744
No 42
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=69.24 E-value=57 Score=35.94 Aligned_cols=30 Identities=33% Similarity=0.548 Sum_probs=25.0
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
....+.+-||||=|-.+ ..|||+|+..+..
T Consensus 163 ~~~~v~i~GSyRRgket-~gDIDili~~~~~ 192 (334)
T smart00483 163 PDAIVTLTGSFRRGKET-GHDVDFLITSPHP 192 (334)
T ss_pred CCcEEEEecccccCCCc-CCCeeEEEecCCc
Confidence 35789999999999776 5799999987764
No 43
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=65.23 E-value=24 Score=43.69 Aligned_cols=56 Identities=14% Similarity=0.199 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 60 Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
++.....++..+++.+-...+.+. ..+.-|...|+|+=|=-.|.||||++++.+..
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 666667777777766544333221 23589999999999999999999999998744
No 44
>PRK08609 hypothetical protein; Provisional
Probab=64.73 E-value=33 Score=40.53 Aligned_cols=108 Identities=17% Similarity=0.170 Sum_probs=61.3
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEe-cCceeeEEee
Q 005341 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF-DGLSIDLLYA 168 (701)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~-~GI~iDLsfa 168 (701)
..++..-||||=|--+ ..|||+|+..+... .+.+.|.+.+.+.++..-...+.-+ .+.. .|+.|||-+.
T Consensus 175 ~~~v~~~GS~RR~~et-~gDiDili~~~~~~--------~~~~~l~~~~~v~~~~~~g~~~~~~-~~~~~~~~~vDl~~v 244 (570)
T PRK08609 175 IIRFSRAGSLRRARET-VKDLDFIIATDEPE--------AVREQLLQLPNIVEVIAAGDTKVSV-ELEYEYTISVDFRLV 244 (570)
T ss_pred ccEEEeccchhccccc-cCCeeEEEecCCHH--------HHHHHHHcCccHHHHHhcCCceEEE-EEecCCCeEEEEEEe
Confidence 5789999999999776 57999998775421 1223333344443321111111111 2332 4999999987
Q ss_pred eccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCccCcc
Q 005341 169 SISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFL 241 (701)
Q Consensus 169 ~l~~~~ip~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llr~IK~WAK~RGIysn~~G~L 241 (701)
.... + .-.++- ...-..| .|-++.||+++|+.-|-+|..
T Consensus 245 ~~~~------~------------------------~~aL~y-fTGS~~h---n~~lr~~A~~~g~~l~e~gl~ 283 (570)
T PRK08609 245 EPEA------F------------------------ATTLHH-FTGSKDH---NVRMRQLAKERGEKISEYGVE 283 (570)
T ss_pred CHHH------H------------------------HHHHHH-HhccHHH---HHHHHHHHHHcCCcccccccc
Confidence 6321 1 011221 2222223 355689999999888887764
No 45
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=59.15 E-value=28 Score=35.07 Aligned_cols=80 Identities=21% Similarity=0.192 Sum_probs=46.3
Q ss_pred CeEEEEeccccc----cCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhcc-CCceEEEeccCccceEEEEecCceee
Q 005341 90 NALIFTFGSYRL----GVHGPGADIDALCVGPSYVSREEDFFFILHNILAEME-EVTELQPVLDAHVPVMKFKFDGLSID 164 (701)
Q Consensus 90 ~~~I~~FGSy~l----Gv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~-~v~~l~~V~~ArVPIIKf~~~GI~iD 164 (701)
+.+.+..|++++ |.--...|||+++..+.... +.++|..+..... .+ +-+.+ ...-.++++...++.||
T Consensus 16 gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~~-~~~~~~~~a~~~g-~~~~~~~~----~~~~~~~~~~~~~v~ID 89 (181)
T PF09970_consen 16 GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPNL-EADALREVAEENG-WDLGWTDF----GTPRYVVKVGGEDVRID 89 (181)
T ss_pred CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchHH-HHHHHHHHHHHcC-CCcCcccc----CCCceEEEeCCCCeEEE
Confidence 457899999865 55567899999887664432 2244444432111 11 11111 22334566666899999
Q ss_pred EEeeeccccccc
Q 005341 165 LLYASISRLVVR 176 (701)
Q Consensus 165 Lsfa~l~~~~ip 176 (701)
| +.++....+|
T Consensus 90 l-~~ni~~~~v~ 100 (181)
T PF09970_consen 90 L-LENIGDFYVP 100 (181)
T ss_pred c-hhccCCcccC
Confidence 9 6665555554
No 46
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=59.04 E-value=29 Score=42.02 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 55 EKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 55 ~~R~~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
+.|+++.+.-..+++.. +++ .+.-|...|+|+=|=-.|.||||++++.+..
T Consensus 6 ~~~~~~~~~~~~~~~~~--------~~~------~~~aLvAvGGYGR~EL~P~SDIDLLiL~~~~ 56 (693)
T PRK00227 6 QLREDAEASALALLGSL--------QLP------PGTALAATGSLARREMTPYSDLDLILLHPPG 56 (693)
T ss_pred HHHHHHHHHHHHHHHhc--------CCC------CCeEEEEeccccccCcCCCcCceEEEEeCCc
Confidence 44666666666666642 333 2679999999999999999999999998743
No 47
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=58.34 E-value=19 Score=37.37 Aligned_cols=44 Identities=25% Similarity=0.252 Sum_probs=29.7
Q ss_pred CeEEEEeccccc----cCc--CCCCCeeEEeecCCccCchhhHHHHHHHHHH
Q 005341 90 NALIFTFGSYRL----GVH--GPGADIDALCVGPSYVSREEDFFFILHNILA 135 (701)
Q Consensus 90 ~~~I~~FGSy~l----Gv~--~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~ 135 (701)
+...-+|||... |+. .++||||+++..|....+ +-+..+.+.|.
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 567789999764 433 589999999998876654 33333444443
No 48
>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=57.55 E-value=1.5e+02 Score=31.17 Aligned_cols=62 Identities=21% Similarity=0.168 Sum_probs=34.7
Q ss_pred HHhhcCCCccc-cccCCeEEEEeccccccCcCCCCCeeEEeecCCccCc------hhhHHHHHHHHHHh
Q 005341 75 LTRLRGYSDQM-VEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR------EEDFFFILHNILAE 136 (701)
Q Consensus 75 v~~~~g~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~r------e~~Ff~~l~~~L~~ 136 (701)
+....|.+... ....+..|.-.|-+.-+=-..+||||++++.+..-.. ...||.++.+.|.+
T Consensus 111 ~~~~~G~p~~~~~~~~~~~ViamGKlGg~ELny~SDiDLifvy~~~~~~~~~~~~~~~~~~rl~~~~~~ 179 (247)
T PF03710_consen 111 LAARYGRPPDEDGEPAGFAVIAMGKLGGRELNYSSDIDLIFVYDPDGETGRRSISNQEFFTRLAQRLIR 179 (247)
T ss_dssp HHHHCTSCCCCTTCC-SEEEEE-HHHHTT---TT--EEEEEEE---TT-SSS-SBHHHHHHHHHHHHHH
T ss_pred HHHHcCCCCcccCCcCCeEEEEeccccccccCCccCCceEEEeccccccccChhhHHHHHHHHHHHHHH
Confidence 44455665321 1123688889998888888999999999988653221 13688888777665
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=56.86 E-value=9.9 Score=39.59 Aligned_cols=27 Identities=26% Similarity=0.214 Sum_probs=23.0
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecC
Q 005341 91 ALIFTFGSYRLGVHGPGADIDALCVGP 117 (701)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P 117 (701)
.-...+||.+-|+.+|+||.|+-.|.-
T Consensus 21 l~~~~sGS~a~G~~s~dSD~D~r~vy~ 47 (247)
T PF10127_consen 21 LYACESGSRAYGFASPDSDYDVRGVYI 47 (247)
T ss_pred EEEecccccccCCCCCCcCcccchhcc
Confidence 455678999999999999999987653
No 50
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=56.27 E-value=44 Score=37.06 Aligned_cols=49 Identities=31% Similarity=0.482 Sum_probs=38.1
Q ss_pred cCCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhc
Q 005341 88 DANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEM 137 (701)
Q Consensus 88 ~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~ 137 (701)
++++.+..-|||+=| ...+.|||+|+-.|..-+.+...+..+...|.+.
T Consensus 169 ~p~~~vt~~GsfRRG-k~~ggDvD~LithP~~~s~~~~~~~~l~~~le~~ 217 (353)
T KOG2534|consen 169 DPEAFVTVTGSFRRG-KKMGGDVDFLITHPGSTSTEAKLLQLLMILLEKK 217 (353)
T ss_pred CCCcEEEEeccccCC-cccCCCeeEEEeCCCCCchhhhHHHHHHHHHHhc
Confidence 457899999999998 4568999999998876553445777777777763
No 51
>PRK03059 PII uridylyl-transferase; Provisional
Probab=52.78 E-value=48 Score=41.14 Aligned_cols=54 Identities=24% Similarity=0.369 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCC
Q 005341 59 QVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPS 118 (701)
Q Consensus 59 ~Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~ 118 (701)
+++..+..++..+++..-...+.+ .+.-|...|+|+=|--.|.||||++++.+.
T Consensus 36 ~~~~~~s~l~d~~l~~~~~~~~~~------~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 36 ALLHALSRLVDQALRRLWQECGLP------AGAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCC------CCeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 366666777777766543332222 357999999999999999999999999863
No 52
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=51.88 E-value=55 Score=40.84 Aligned_cols=56 Identities=21% Similarity=0.264 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 60 Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
++..+..++.+.++.+-.....+ ...+..|...|.|+=|--.|.||||++++.+..
T Consensus 52 ~~~~~s~~~d~~l~~~~~~~~~~----~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 52 LIEDRAWFVDQILQQAWHQFDWS----DDADIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHhccC----CCCCEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 44445555554444433332221 223589999999999999999999999998754
No 53
>PRK04374 PII uridylyl-transferase; Provisional
Probab=50.27 E-value=57 Score=40.64 Aligned_cols=55 Identities=18% Similarity=0.245 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 60 Vl~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
++..+..++..+++.+-.... + ...+.-|...|+|+=|=-.|.||||++++.+..
T Consensus 47 ~~~~~s~~~D~~l~~~~~~~~-~----~~~~~alvAvGgYGR~EL~p~SDIDLliL~~~~ 101 (869)
T PRK04374 47 LLALRARAVDQLMRNAWTRCI-P----ADSGLSLHAVGGYGRGELFPRSDVDLLVLGETA 101 (869)
T ss_pred HHHHHHHHHHHHHHHHHHHhC-C----CcCCEEEEEcCCccccccCCcccceEEEEecCC
Confidence 455555555555554433222 1 123589999999999999999999999998743
No 54
>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=49.67 E-value=57 Score=40.26 Aligned_cols=31 Identities=26% Similarity=0.389 Sum_probs=27.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (701)
.+.-|...|||+=|=-.|.||||++++.+..
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 4688999999999999999999999998643
No 55
>PRK03381 PII uridylyl-transferase; Provisional
Probab=46.16 E-value=50 Score=40.51 Aligned_cols=29 Identities=14% Similarity=0.166 Sum_probs=27.0
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecC
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGP 117 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P 117 (701)
...-|...|+|+=|--.|.||||++++.+
T Consensus 56 ~~~alvAvg~~gr~el~p~SD~Dll~l~~ 84 (774)
T PRK03381 56 SGVALVAVGGLGRRELLPYSDLDLVLLHD 84 (774)
T ss_pred CCeEEEEeCCcCCcCcCCCCCCeEEEEeC
Confidence 45899999999999999999999999987
No 56
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=43.83 E-value=40 Score=35.17 Aligned_cols=28 Identities=29% Similarity=0.430 Sum_probs=23.3
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCC
Q 005341 91 ALIFTFGSYRLGVHGPGADIDALCVGPS 118 (701)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~ 118 (701)
..-+.+||.+.|=--|+||+|+.+.-|-
T Consensus 38 ie~~v~gSvarGDV~p~SDvDV~I~~~v 65 (228)
T COG2413 38 IEAVVYGSVARGDVRPGSDVDVAIPEPV 65 (228)
T ss_pred chhEEEeeeeccCcCCCCCceEEEecCC
Confidence 3456789999998889999999987743
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=41.96 E-value=41 Score=33.15 Aligned_cols=78 Identities=19% Similarity=0.382 Sum_probs=38.2
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC---CCCee
Q 005341 38 LEKFLVEAGLYESKEEDEKREQV---LGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP---GADID 111 (701)
Q Consensus 38 L~~~L~~~~l~pS~EE~~~R~~V---l~~L~~ivk~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p---~SDID 111 (701)
..+.|.++++..-.++...|..| +..+..++++.+++ + +-....||||.+-+--| =.|||
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 45667777777777777777765 45556666666654 1 34478899998877665 47999
Q ss_pred EEeecCCccCchhhHHHHHHHHHH
Q 005341 112 ALCVGPSYVSREEDFFFILHNILA 135 (701)
Q Consensus 112 ~l~v~P~~v~re~~Ff~~l~~~L~ 135 (701)
++=.. . ..|+-.|.-++.
T Consensus 75 ilqTN----a--r~flI~laflI~ 92 (149)
T PF03296_consen 75 ILQTN----A--RTFLINLAFLIK 92 (149)
T ss_dssp EEEST----H--HHHHHHHHHHHH
T ss_pred hhhcc----c--HHHHHHHHHHHh
Confidence 96332 1 256555444444
No 58
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=38.30 E-value=15 Score=39.03 Aligned_cols=20 Identities=35% Similarity=0.408 Sum_probs=17.6
Q ss_pred eccccccCcCCCCCeeEEee
Q 005341 96 FGSYRLGVHGPGADIDALCV 115 (701)
Q Consensus 96 FGSy~lGv~~p~SDID~l~v 115 (701)
=||+.-|+..|+||+|+=-|
T Consensus 16 sGS~~yGf~spdSDyDvR~V 35 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVRGV 35 (248)
T ss_pred ccccccCCCCCCCccceeeE
Confidence 49999999999999998544
No 59
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=37.80 E-value=80 Score=39.98 Aligned_cols=48 Identities=17% Similarity=0.144 Sum_probs=37.3
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccC-c---hhhHHHHHHHHHHh
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVS-R---EEDFFFILHNILAE 136 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~-r---e~~Ff~~l~~~L~~ 136 (701)
.+.-|..+|+|.=+=-+++||||++++...... . ...||..+.+.+..
T Consensus 722 ~~~avia~Gk~Gr~EL~~~SDlDl~fl~~~~~~~~~~~~~~~~~rlaq~l~~ 773 (1007)
T PRK14109 722 ARIAVIGMGRLGGRELGYGSDADVMFVHEPAPGADEAEAVRWATAVAEELRR 773 (1007)
T ss_pred CCEEEEEeccccccccCCCCCCcEEEEeCCCCCCCchhHHHHHHHHHHHHHH
Confidence 468999999999999999999999999863211 1 02688888777765
No 60
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=36.83 E-value=1.2e+02 Score=38.37 Aligned_cols=48 Identities=13% Similarity=0.066 Sum_probs=36.7
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCch----hhHHHHHHHHHHh
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSRE----EDFFFILHNILAE 136 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re----~~Ff~~l~~~L~~ 136 (701)
.+..|..+|+|.=+=-.++||||++++.+...... ..||..+.+.|..
T Consensus 214 ~~~aviamGklG~~EL~~~SDiDLi~ly~~~~~~~~~~~~~~~~rl~q~l~~ 265 (1007)
T PRK14109 214 VRLAVIAMGKCGARELNYVSDVDVIFVAEPAEGVDEAAALAVATRLASELMR 265 (1007)
T ss_pred CCeEEEEeccccccccCCccCCCEEEEeCCCCCcccccHHHHHHHHHHHHHH
Confidence 46899999999999999999999999986432110 2577777776665
No 61
>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=35.85 E-value=32 Score=26.05 Aligned_cols=31 Identities=19% Similarity=0.429 Sum_probs=24.7
Q ss_pred hHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 005341 35 NRELEKFLVEAGLYESKEEDEKREQVLGRIRQ 66 (701)
Q Consensus 35 t~eL~~~L~~~~l~pS~EE~~~R~~Vl~~L~~ 66 (701)
+.+|.++|+++|+..++.. ..|+++|+.++.
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 4689999999998776655 679998887764
No 62
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=33.68 E-value=91 Score=34.62 Aligned_cols=70 Identities=24% Similarity=0.220 Sum_probs=55.2
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEEeee
Q 005341 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYAS 169 (701)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~V~~ArVPIIKf~~~GI~iDLsfa~ 169 (701)
.++-.-||.|=|-.+ .+|||++|... +.. . +.+.|.+++.+.++..-.+.+|-++.--..|++|||-++.
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 566677999988776 68999987653 221 1 5566777889999988899999988888899999998775
No 63
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=31.55 E-value=26 Score=38.80 Aligned_cols=25 Identities=28% Similarity=0.307 Sum_probs=21.6
Q ss_pred EEEEeccccccCcCCCCCeeEEeec
Q 005341 92 LIFTFGSYRLGVHGPGADIDALCVG 116 (701)
Q Consensus 92 ~I~~FGSy~lGv~~p~SDID~l~v~ 116 (701)
-+..+||...|+.+|+||+|.--|+
T Consensus 5 ~~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 5 MKGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEEecccceeCCCCCCcccccceee
Confidence 4567999999999999999997655
No 64
>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=28.92 E-value=24 Score=37.92 Aligned_cols=20 Identities=45% Similarity=0.719 Sum_probs=16.7
Q ss_pred CChhhhhhhhhhhHhhHHHH
Q 005341 379 ANADDLLAWKGWVESRLRQL 398 (701)
Q Consensus 379 ~~~e~~~~w~GwVESRlR~L 398 (701)
+|.-+...++||||||+-.+
T Consensus 96 Sn~~EGAVLKGWVESRFGL~ 115 (262)
T PF07357_consen 96 SNSPEGAVLKGWVESRFGLL 115 (262)
T ss_pred CCChhhhhhhhhhhhccCcC
Confidence 56677889999999999755
No 65
>PRK05092 PII uridylyl-transferase; Provisional
Probab=28.55 E-value=1.2e+02 Score=38.17 Aligned_cols=30 Identities=33% Similarity=0.583 Sum_probs=27.4
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCC
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPS 118 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~ 118 (701)
.+..|...|.|+-|--.|.||||++++.+.
T Consensus 104 ~~~alvA~GgyGr~EL~p~SDiDLl~l~~~ 133 (931)
T PRK05092 104 ERLAVLAVGGYGRGELAPGSDIDLLFLLPY 133 (931)
T ss_pred CceEEEEecCcCCcccCCCCCceEEEEeCC
Confidence 357899999999999999999999999874
No 66
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=24.89 E-value=2.3e+02 Score=35.91 Aligned_cols=48 Identities=25% Similarity=0.287 Sum_probs=35.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc-cC----c---hhhHHHHHHHHHHh
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY-VS----R---EEDFFFILHNILAE 136 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~-v~----r---e~~Ff~~l~~~L~~ 136 (701)
.+..|.-.|-|.-+=-.+.||||++++.+.. .+ + -..||..+.+.|..
T Consensus 153 ~~~aViamGKlG~~ELn~~SDIDLifly~~~~~~~~~~~~~~~~~~f~rl~q~li~ 208 (943)
T PRK11072 153 QPLLILGMGKLGGRELNFSSDIDLIFTYPEHGETQGGRRSIDNQQFFTRLGQRLIK 208 (943)
T ss_pred CCEEEEEeccccCccCCCccCCceEEEeCCCCCCCCCcccchHHHHHHHHHHHHHH
Confidence 4678888898888888999999999998743 11 1 13688888776654
No 67
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=22.90 E-value=2.6e+02 Score=35.36 Aligned_cols=60 Identities=12% Similarity=0.245 Sum_probs=40.3
Q ss_pred HhhcCCCccc-cccCCeEEEEeccccccCcCCCCCeeEEeecCC----------ccCchhhHHHHHHHHHHh
Q 005341 76 TRLRGYSDQM-VEDANALIFTFGSYRLGVHGPGADIDALCVGPS----------YVSREEDFFFILHNILAE 136 (701)
Q Consensus 76 ~~~~g~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~----------~v~re~~Ff~~l~~~L~~ 136 (701)
+...|.+... ....+..|.-+|-+.-+=-+-+||||++.+... .... ..||..+.+.|.+
T Consensus 666 ~~~~G~p~~~~~~~~~~aViamGKlGg~EL~y~SDlDlifvy~~~~~~~t~g~~~~~~-~~~~~rl~qrli~ 736 (943)
T PRK11072 666 VKRHGEPPHLEGRERGFAVIGYGKLGGKELGYASDLDLVFLHDCPEDAMTDGDKSIDG-RQFYLRLAQRIIH 736 (943)
T ss_pred HHHhCCCCCccCCCCCEEEEeecCccCCccCCcccceEEEEeecCccccCCCCCcccH-HHHHHHHHHHHHH
Confidence 4456765321 112357888888887777788999999998851 1111 3689988887775
No 68
>PRK14108 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=21.02 E-value=8.1e+02 Score=31.33 Aligned_cols=48 Identities=19% Similarity=0.270 Sum_probs=35.7
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCcc-C--ch---hhHHHHHHHHHHh
Q 005341 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYV-S--RE---EDFFFILHNILAE 136 (701)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v-~--re---~~Ff~~l~~~L~~ 136 (701)
.+..|.-.|-|.-+=-.++||||++++.+... + +. ..||..+.+.|..
T Consensus 185 ~~~aViamGklGg~ELn~~SDiDLifly~~~~~~~~~~~~~~~~~~rl~q~li~ 238 (986)
T PRK14108 185 SGLIVLGMGKLGAGELNYSSDIDLIVFFDETAPILGDPIEAQPFFVRLTRRLVR 238 (986)
T ss_pred CCeEEEeeccccccccCCCCCCceEEEeCCCCCCccccchHHHHHHHHHHHHHH
Confidence 35789999999888889999999999987321 1 10 3588887776654
No 69
>COG1391 GlnE Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]
Probab=20.80 E-value=7.1e+02 Score=31.72 Aligned_cols=32 Identities=28% Similarity=0.342 Sum_probs=23.1
Q ss_pred CCCCCeeEEeecCCccCc------hhhHHHHHHHHHHh
Q 005341 105 GPGADIDALCVGPSYVSR------EEDFFFILHNILAE 136 (701)
Q Consensus 105 ~p~SDID~l~v~P~~v~r------e~~Ff~~l~~~L~~ 136 (701)
.=+||||++.+.|..-.. ..+||+.+.+.|-+
T Consensus 188 NysSDIDlIf~y~~~~~t~g~~~dn~~fFtRl~qrLIr 225 (963)
T COG1391 188 NYSSDIDLIFVYPESGPTQGGELDNAEFFTRLGQRLIR 225 (963)
T ss_pred ccccccceEEEeCCCCCccCCccchHHHHHHHHHHHHH
Confidence 358999999998865433 13599988777665
Done!