Query 005778
Match_columns 677
No_of_seqs 256 out of 761
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 13:38:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005778.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005778hhsearch_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 3E-147 1149.4 40.8 491 1-500 1-501 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 3E-135 7E-140 1129.1 52.8 485 11-499 47-542 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 1E-123 2E-128 971.4 33.4 480 13-497 4-527 (552)
4 PF04928 PAP_central: Poly(A) 100.0 9.4E-74 2E-78 587.8 21.1 254 13-362 1-254 (254)
5 COG5260 TRF4 DNA polymerase si 100.0 3.1E-31 6.8E-36 288.4 24.7 266 29-347 52-342 (482)
6 PF04926 PAP_RNA-bind: Poly(A) 100.0 4E-32 8.7E-37 260.4 9.1 135 363-498 1-156 (157)
7 KOG1906 DNA polymerase sigma [ 100.0 8.2E-29 1.8E-33 274.5 24.2 268 28-347 57-341 (514)
8 cd05402 NT_PAP_TUTase Nucleoti 99.8 5.9E-19 1.3E-23 159.6 13.2 110 56-210 1-113 (114)
9 KOG2277 S-M checkpoint control 99.8 5.4E-17 1.2E-21 184.3 22.7 253 47-348 125-431 (596)
10 TIGR03671 cca_archaeal CCA-add 99.6 3.2E-13 6.9E-18 147.7 29.2 343 39-461 3-364 (408)
11 PRK13300 tRNA CCA-pyrophosphor 99.6 6.7E-13 1.5E-17 146.9 30.8 346 38-461 3-367 (447)
12 COG1746 CCA1 tRNA nucleotidylt 99.2 6.6E-09 1.4E-13 113.5 28.2 345 37-461 6-368 (443)
13 PF03813 Nrap: Nrap protein; 99.2 6.5E-09 1.4E-13 125.6 29.2 341 98-460 1-425 (972)
14 KOG2054 Nucleolar RNA-associat 98.4 1.3E-05 2.7E-10 95.1 17.9 292 90-392 147-479 (1121)
15 smart00572 DZF domain in DSRM 98.2 4.2E-05 9E-10 79.5 16.6 213 93-346 5-230 (246)
16 cd05400 NT_2-5OAS_ClassI-CCAas 97.8 0.00021 4.5E-09 67.2 11.0 77 90-169 27-110 (143)
17 PF03828 PAP_assoc: Cid1 famil 97.6 2.9E-05 6.3E-10 63.0 2.4 56 261-319 1-59 (60)
18 cd05397 NT_Pol-beta-like Nucle 97.6 0.00012 2.6E-09 58.0 4.9 26 90-115 17-42 (49)
19 PF09249 tRNA_NucTransf2: tRNA 97.5 0.00036 7.7E-09 64.8 7.6 93 221-335 3-97 (114)
20 PF01909 NTP_transf_2: Nucleot 97.4 0.0002 4.4E-09 61.9 5.1 32 90-121 14-45 (93)
21 PF03813 Nrap: Nrap protein; 97.2 0.003 6.5E-08 77.3 14.0 157 200-361 668-839 (972)
22 cd05403 NT_KNTase_like Nucleot 96.9 0.0011 2.4E-08 56.7 4.5 32 90-121 18-49 (93)
23 PF14091 DUF4269: Domain of un 96.1 0.051 1.1E-06 53.2 10.7 118 92-236 17-144 (152)
24 COG1669 Predicted nucleotidylt 95.3 0.069 1.5E-06 48.7 7.4 29 91-119 25-53 (97)
25 PF07528 DZF: DZF domain; Int 95.3 0.63 1.4E-05 49.0 15.6 209 96-346 2-232 (248)
26 COG1708 Predicted nucleotidylt 94.6 0.18 3.9E-06 45.3 8.3 28 90-117 26-53 (128)
27 PRK13746 aminoglycoside resist 94.5 0.072 1.6E-06 56.4 6.2 31 91-121 29-59 (262)
28 PF10421 OAS1_C: 2'-5'-oligoad 94.2 0.073 1.6E-06 53.9 5.2 47 214-260 41-88 (190)
29 cd00141 NT_POLXc Nucleotidyltr 93.2 1.2 2.5E-05 48.2 12.6 113 89-241 159-277 (307)
30 PRK02098 phosphoribosyl-dephos 91.6 0.33 7.2E-06 50.3 5.8 33 90-122 120-158 (221)
31 TIGR03135 malonate_mdcG holo-A 91.0 0.4 8.7E-06 49.0 5.6 33 90-122 108-146 (202)
32 PF14792 DNA_pol_B_palm: DNA p 89.6 1.6 3.4E-05 40.5 7.8 52 89-141 23-77 (112)
33 KOG2054 Nucleolar RNA-associat 87.3 3.4 7.4E-05 50.8 10.5 124 202-330 806-936 (1121)
34 cd05401 NT_GlnE_GlnD_like Nucl 87.2 3 6.5E-05 40.6 8.5 48 89-136 54-101 (172)
35 KOG3793 Transcription factor N 84.6 27 0.00059 37.6 14.3 212 31-275 38-264 (362)
36 COG1665 Predicted nucleotidylt 83.4 0.19 4E-06 53.5 -2.1 25 95-119 126-150 (315)
37 PF03445 DUF294: Putative nucl 82.5 9.7 0.00021 36.4 9.4 49 88-136 47-96 (138)
38 COG2844 GlnD UTP:GlnB (protein 73.9 12 0.00025 45.7 8.5 57 61-121 41-97 (867)
39 PF03281 Mab-21: Mab-21 protei 70.5 1.3E+02 0.0029 31.6 14.8 93 214-339 190-288 (292)
40 PRK08609 hypothetical protein; 70.2 20 0.00044 42.1 9.4 109 89-241 174-283 (570)
41 smart00483 POLXc DNA polymeras 70.1 54 0.0012 36.0 12.1 30 89-119 163-192 (334)
42 PRK05007 PII uridylyl-transfer 69.8 17 0.00038 44.8 9.1 56 60-119 54-109 (884)
43 PF10620 MdcG: Phosphoribosyl- 69.1 8.7 0.00019 39.6 5.4 31 90-120 116-152 (213)
44 PRK01759 glnD PII uridylyl-tra 63.6 26 0.00056 43.2 8.8 56 60-119 30-85 (854)
45 KOG2534 DNA polymerase IV (fam 59.4 39 0.00084 37.3 8.2 49 88-137 169-217 (353)
46 PRK00227 glnD PII uridylyl-tra 58.1 31 0.00067 41.7 8.0 51 55-119 6-56 (693)
47 PRK01293 phosphoribosyl-dephos 57.5 20 0.00044 37.0 5.6 44 90-135 109-158 (207)
48 PF03710 GlnE: Glutamate-ammon 56.6 1.5E+02 0.0033 31.0 12.0 63 74-136 110-179 (247)
49 PF09970 DUF2204: Nucleotidyl 56.1 33 0.00072 34.4 6.7 80 90-176 16-100 (181)
50 PF10127 Nuc-transf: Predicted 55.9 11 0.00023 39.2 3.3 27 91-117 21-47 (247)
51 PRK04374 PII uridylyl-transfer 50.1 96 0.0021 38.5 10.6 55 60-119 47-101 (869)
52 PRK00275 glnD PII uridylyl-tra 50.0 61 0.0013 40.3 8.9 31 89-119 77-107 (895)
53 PRK03059 PII uridylyl-transfer 49.2 38 0.00083 41.8 7.0 54 59-118 36-89 (856)
54 TIGR01693 UTase_glnD [Protein- 48.0 64 0.0014 39.7 8.7 31 89-119 42-72 (850)
55 COG2413 Predicted nucleotidylt 47.5 33 0.00071 35.6 5.1 28 91-118 38-65 (228)
56 PRK03381 PII uridylyl-transfer 45.5 52 0.0011 40.2 7.3 29 89-117 56-84 (774)
57 PF03296 Pox_polyA_pol: Poxvir 40.2 44 0.00096 32.7 4.5 65 38-116 9-79 (149)
58 COG1796 POL4 DNA polymerase IV 39.8 64 0.0014 35.6 6.1 70 91-169 181-250 (326)
59 PRK14109 bifunctional glutamin 37.1 82 0.0018 39.7 7.4 48 89-136 722-773 (1007)
60 COG3541 Predicted nucleotidylt 36.6 17 0.00037 38.5 1.2 20 96-115 16-35 (248)
61 PRK14109 bifunctional glutamin 36.5 1.2E+02 0.0027 38.2 8.8 48 89-136 214-265 (1007)
62 PF10281 Ish1: Putative stress 32.1 37 0.00081 25.5 2.1 31 35-66 6-36 (38)
63 PF07357 DRAT: Dinitrogenase r 30.6 21 0.00046 38.1 0.8 20 379-398 96-115 (262)
64 PHA02603 nrdC.11 hypothetical 30.1 29 0.00063 38.3 1.7 25 92-116 5-29 (330)
65 PRK05092 PII uridylyl-transfer 27.9 1.2E+02 0.0026 37.8 6.7 30 89-118 104-133 (931)
66 PRK11072 bifunctional glutamin 27.2 2E+02 0.0043 36.3 8.3 48 89-136 153-208 (943)
67 COG1391 GlnE Glutamine synthet 26.9 4.9E+02 0.011 32.9 11.2 47 90-136 173-225 (963)
68 PRK11072 bifunctional glutamin 24.2 2.3E+02 0.005 35.7 8.1 61 75-136 665-736 (943)
69 PRK14108 bifunctional glutamin 22.5 7.4E+02 0.016 31.5 12.0 48 89-136 185-238 (986)
No 1
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=100.00 E-value=1.6e-142 Score=1149.42 Aligned_cols=491 Identities=54% Similarity=0.943 Sum_probs=465.1
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCcCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 005778 1 MSSSERMSSPPPPKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRG 80 (677)
Q Consensus 1 ~~~~~~~~s~~~~~~~Gvt~Pis~~~Pt~~d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g 80 (677)
|.+.. +......+.||||+|||+|+||++|+++|.+|+++|+++|+||++||..+|++||++|++||++|++++++++|
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 45444 33333469999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEecC
Q 005778 81 YSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDG 160 (677)
Q Consensus 81 ~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~G 160 (677)
+++++..+++|+|+||||||||||+||||||+|||+|+|++|+ |||..|.++|+++++|++|++|++|+||||||+|+|
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 ceeeEeeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCC
Q 005778 161 LSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGF 240 (677)
Q Consensus 161 I~iDLsfa~l~~~~~p~~l~i~~~~~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~ 240 (677)
|+|||+||+++.+++|++|||.||++|+||||+|+||||||||||+||+|||+.+.||.+|||||+|||+||||+|.+||
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 005778 241 LGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCM 320 (677)
Q Consensus 241 LGG~swaLLVa~vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~ 320 (677)
|||++|||||||+|||||||+++.|+.+||.+|++|+||+||+|++++++.|++++|||+.|++||+|+||||||+||+|
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 005778 321 NSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTL 400 (677)
Q Consensus 321 Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~~~~~W~~Lf~p~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESrlR~Lv~ 400 (677)
|++||||+||+++|.+||+||.+||++|+.++.+|++|||+++||.+|||||+|+++|.++|++.+|.||||||+|+|+.
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 HHhhcccCceeeccCCCCCCCCCC----CCceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHh----hccccCCc-
Q 005778 401 MIERDTYGKLQCHPYPHEYVDTSK----PCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSIN----MYMFWKPG- 471 (677)
Q Consensus 401 ~LE~~~~~~l~ahp~P~~f~~~~~----~~~~~~ffIGL~~~~~~~~~~~~~~dl~~~v~eF~~~i~----~~~~~~~~- 471 (677)
+||+.. .++.|||+|+.|.++.. ..+...|||||.+..+ .++||+..+++|...++ ....+.+|
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 999854 67889999999987653 1346689999987654 34999999999999887 45577889
Q ss_pred -eEEEEEeeccCCCCCCcCCCCccccCCCc
Q 005778 472 -MEICVSHIRRKQIPPYVFPEGYKRTRHPR 500 (677)
Q Consensus 472 -m~i~v~~vkr~~LP~~v~~~g~~~~~~~~ 500 (677)
|.+.+.|+||++|+.+++++.+++.|.-+
T Consensus 472 ~~~~~~~~~krr~l~~~~~~~~l~~~k~~~ 501 (562)
T KOG2245|consen 472 DVEIDFGHVKRRSLIQTITKEFLRLCKQYK 501 (562)
T ss_pred ccccccccccccccccccCHHHhhHHHhhc
Confidence 77788899999999999999887755553
No 2
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=3.1e-135 Score=1129.08 Aligned_cols=485 Identities=42% Similarity=0.788 Sum_probs=460.1
Q ss_pred CCCCCCCCCCCCcCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCC
Q 005778 11 PPPKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDAN 90 (677)
Q Consensus 11 ~~~~~~Gvt~Pis~~~Pt~~d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~ 90 (677)
.+++.||||+|||+++||++|++.+.+|+++|+++|+|||+||.++|++||++|++||++|+++++.++|++++++.+++
T Consensus 47 ~~~~~~Gvt~Pis~~~Pt~~d~~~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~ 126 (593)
T PTZ00418 47 ECALSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQIS 126 (593)
T ss_pred CcccccCCCCCccCCCCChHHHhhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCC
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeec
Q 005778 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASI 170 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l 170 (677)
++|+|||||+||||+|+||||+|||+|.|++|+ +||..|+++|++.++|++|++|++|+||||||+++||+|||+||++
T Consensus 127 g~I~tfGSYrLGV~~pgSDID~L~V~P~~vtre-dFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~~~GI~iDL~fa~l 205 (593)
T PTZ00418 127 GKLFTFGSYRLGVVAPGSDIDTLCLAPRHITRE-SFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDLLFANL 205 (593)
T ss_pred eEEEEeccccccCCCCCCcccEEEECCCCCCHH-HHHHHHHHHHhcCCCcceeeccCccccCeEEEEECCEEEeeeeccc
Confidence 999999999999999999999999999999996 9999999999999999999999999999999999999999999999
Q ss_pred ccccccccccccccc-ccCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHH
Q 005778 171 SRLVVREDLDISDMS-VLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALL 249 (677)
Q Consensus 171 ~~~~~p~~l~i~~~~-~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLL 249 (677)
+...+|+++++.+++ +|++||++++||||||||+|+|+++||+.+.||.+||+||+|||+||||+|++||||||+||||
T Consensus 206 ~~~~vp~~~~~l~d~~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAIL 285 (593)
T PTZ00418 206 PLPTIPDCLNSLDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAIL 285 (593)
T ss_pred CCCCCCccccccCchhhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHH
Confidence 999999999988886 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeeccccc-----ccCCcccccCCCCCCCCCCceEEeCCCCCCCCccC
Q 005778 250 VARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDE-----AELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSY 324 (677)
Q Consensus 250 Va~vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~-----g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~ 324 (677)
|||+||+|||+++++||.+||.+|++|+||+||+|+++++ |.+++++|||+.|++|++|+||||||+||+||+||
T Consensus 286 vARVCQLyPna~~s~Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~mNst~ 365 (593)
T PTZ00418 286 TARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPSMNSTH 365 (593)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCCccccc
Confidence 9999999999999999999999999999999999999875 67789999999999999999999999999999999
Q ss_pred ccCHhhHHHHHHHHHHHHHHHHHhhh-cCCcccccccccchhhhcccEEEEEEEecChhhhhhhhhHHHHHHHHHHHHHh
Q 005778 325 NVSTSTLRVMMDQFQYGNTICEEVEL-NKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIE 403 (677)
Q Consensus 325 nVs~sTlrvI~~EF~Ra~~Il~~i~~-~~~~W~~Lf~p~~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESrlR~Lv~~LE 403 (677)
|||.+|+++|++||+||++|++++.. ++.+|++||+|++||.+|++||+|++.+.+++++..|.||||||||.|+.+||
T Consensus 366 nVt~sT~~vI~~Ef~Ra~~i~~~i~~~~~~~W~~Lfep~~Ff~~Yk~yl~V~v~a~~~~~~~~w~G~VESRlR~Lv~~LE 445 (593)
T PTZ00418 366 NVTYTTKRVITEEFKRAHEIIKYIEKNSENTWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKKLE 445 (593)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHcCCcchhhhcceEEEEEEEECCHHHhhhhhhHHHHHHHHHHHHhh
Confidence 99999999999999999999999988 88999999999999999999999999999999999999999999999999999
Q ss_pred hcccCceeeccCCCCCCCCCC-CCceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHhhcc---ccCCceEEEEEee
Q 005778 404 RDTYGKLQCHPYPHEYVDTSK-PCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYM---FWKPGMEICVSHI 479 (677)
Q Consensus 404 ~~~~~~l~ahp~P~~f~~~~~-~~~~~~ffIGL~~~~~~~~~~~~~~dl~~~v~eF~~~i~~~~---~~~~~m~i~v~~v 479 (677)
+. +.+.+||||++|.+... ..|.++|||||.++.... .+..++||+.++++|.+.|++|. .|.++|+|+|+||
T Consensus 446 ~~--~~i~~~p~P~~f~~~~~~~~~~~~ffIGL~~~~~~~-~~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~~V 522 (593)
T PTZ00418 446 TL--NNLKIRPYPKFFKYQDDGWDYASSFFIGLVFFSKNV-YNNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIKYL 522 (593)
T ss_pred cc--CCceEeecCcccccCCCCceeEEEEEEeEeeccCCC-CCCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEEEe
Confidence 74 34678999999988653 356789999999876543 23358999999999999999886 3678899999999
Q ss_pred ccCCCCCCcCCCCccccCCC
Q 005778 480 RRKQIPPYVFPEGYKRTRHP 499 (677)
Q Consensus 480 kr~~LP~~v~~~g~~~~~~~ 499 (677)
|+++||++||++|++|++..
T Consensus 523 k~~~Lp~~v~~~~~~~~~~~ 542 (593)
T PTZ00418 523 KKSQLPAFVLSQTPEEPVKT 542 (593)
T ss_pred ehHhCCHhhccCCCcCCCcc
Confidence 99999999999998774444
No 3
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=100.00 E-value=1e-123 Score=971.43 Aligned_cols=480 Identities=42% Similarity=0.754 Sum_probs=458.4
Q ss_pred CCCCCCCCCCcCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeE
Q 005778 13 PKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANAL 92 (677)
Q Consensus 13 ~~~~Gvt~Pis~~~Pt~~d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~ 92 (677)
+++||+|+|||+.+.|+++.+++.+|+++|+..|+|+++.|.+.|.+||+.|+.++++|+.++++.+|+.+.|+.++|++
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 EEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccc
Q 005778 93 IFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISR 172 (677)
Q Consensus 93 I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~ 172 (677)
|++|||||||||+||||||++|+.|.|++|+ |||+.|..+|++.++++++.+|++|+||||||+|+||+|||.||++..
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 cccccccccccccccCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHH
Q 005778 173 LVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVAR 252 (677)
Q Consensus 173 ~~~p~~l~i~~~~~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~ 252 (677)
+.+|..|.++|+++|++|||+|++||||.||||+||++||+...|+.+||+||+||++|.||.|.+||+||++|+|||||
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 005778 253 VCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLR 332 (677)
Q Consensus 253 vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlr 332 (677)
+||||||++...++.+||.++++|+||+||+|+||++|+++.++|||+.|++|+.|.||||||+||+||.+||||.||..
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 005778 333 VMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQC 412 (677)
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 (677)
+|..||-||.+|+++|+.+..+|..||+..+||.+||+||.|++.+.++|++.+|.|+||||+|.|+.+||... +++.|
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 99999999999999999999999999999999999999999999999999999999999999999999999754 66889
Q ss_pred ccCCCCCCCC-----C-----------------------------C---------CCceeEEEEeeeeCCCCccCCCcee
Q 005778 413 HPYPHEYVDT-----S-----------------------------K---------PCAHCAFFMGLQRKPGEVVQEGQQF 449 (677)
Q Consensus 413 hp~P~~f~~~-----~-----------------------------~---------~~~~~~ffIGL~~~~~~~~~~~~~~ 449 (677)
||||+.|... + . ..|-+.|||||+.... ..++++
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 1245689999998653 235789
Q ss_pred cchHHHHHHHHHHhhccccC-CceEEEEEeeccCCCCCCcCCCCccccC
Q 005778 450 DIRGSVEEFKLSINMYMFWK-PGMEICVSHIRRKQIPPYVFPEGYKRTR 497 (677)
Q Consensus 450 dl~~~v~eF~~~i~~~~~~~-~~m~i~v~~vkr~~LP~~v~~~g~~~~~ 497 (677)
||..+++||.+.++.|++++ .+|.|.|+.+|+++||+-||.+|+.|+.
T Consensus 479 di~~p~~EF~elcr~~d~gd~~~mni~v~~~K~~dlpdeVF~~geerPs 527 (552)
T COG5186 479 DIEQPVKEFIELCREYDEGDASGMNIEVNSLKRKDLPDEVFYPGEERPS 527 (552)
T ss_pred eeeccHHHHHHHHHHhhccccceeeeehhhccccCCchhhcCCCccCcc
Confidence 99999999999999997554 7899999999999999999999986643
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=9.4e-74 Score=587.77 Aligned_cols=254 Identities=59% Similarity=1.048 Sum_probs=204.1
Q ss_pred CCCCCCCCCCcCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeE
Q 005778 13 PKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANAL 92 (677)
Q Consensus 13 ~~~~Gvt~Pis~~~Pt~~d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~ 92 (677)
+|+||||+|||+++||++|++.+++|+++|++++++||+||.++|++||++|+++|++|+++
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 47999999999999999999999999999999999999999999999999999999999963
Q ss_pred EEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccc
Q 005778 93 IFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISR 172 (677)
Q Consensus 93 I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~ 172 (677)
..
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 cccccccccccccccCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHH
Q 005778 173 LVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVAR 252 (677)
Q Consensus 173 ~~~p~~l~i~~~~~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~ 252 (677)
..+|+++++.++++|++||++|++||||+||+++|+++||+.+.||.++|+||+|||+||||+|++||||||+||||||+
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 005778 253 VCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLR 332 (677)
Q Consensus 253 vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlr 332 (677)
+||+|||+++++||.+||.+|++|+|++||+|+++.++.+++++|+|+.|++|++|+||||||+||+||+|+|||.+|++
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 005778 333 VMMDQFQYGNTICEEVELNKAQWSALFEPY 362 (677)
Q Consensus 333 vI~~EF~Ra~~Il~~i~~~~~~W~~Lf~p~ 362 (677)
+|++||+||+++++++..++.+|++||+|+
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=3.1e-31 Score=288.41 Aligned_cols=266 Identities=21% Similarity=0.256 Sum_probs=212.5
Q ss_pred HHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCC
Q 005778 29 EADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGA 108 (677)
Q Consensus 29 ~~d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~S 108 (677)
+....++.+|.+++. .+.|+.+|.++|.+.|++|++++++- ++ .+.+++|||+.+|+++|+|
T Consensus 52 ~~~~~lt~el~~~y~--~I~ps~eEl~~R~~~leklr~~lk~~--------------~p--da~l~vFGS~~t~L~l~~S 113 (482)
T COG5260 52 EESDELTSELLEFYD--YIAPSDEELKRRKALLEKLRTLLKKE--------------FP--DADLKVFGSTETGLALPKS 113 (482)
T ss_pred hhHHHHHHHHHHHHH--hhCCCHHHHHHHHHHHHHHHHHHHHh--------------CC--ccceeEecccccccccCcc
Confidence 344467777777776 48899999999999999999999752 23 4699999999999999999
Q ss_pred CeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEe--cCceeeEeeeeccccccccccccccccc
Q 005778 109 DIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISDMSV 186 (677)
Q Consensus 109 DID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~~p~~l~i~~~~~ 186 (677)
|||++++.+....++..--..++..|.......++.+|..|+||||||.. .|+.|||+|++.
T Consensus 114 DiDl~I~s~~~~~~et~~~~~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~---------------- 177 (482)
T COG5260 114 DIDLCIISDPRGYKETRNAGSLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNT---------------- 177 (482)
T ss_pred cccEEEecCCccccccccHHHHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCch----------------
Confidence 99999999776655421112445555555667789999999999999998 699999999983
Q ss_pred cCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhhCCC-------
Q 005778 187 LNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPN------- 259 (677)
Q Consensus 187 L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pn------- 259 (677)
+|++.|..++.++-.++++|+|+.+||+||++|.++++.+|+|+||++++||..++|++|.
T Consensus 178 ------------~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~ 245 (482)
T COG5260 178 ------------NGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNG 245 (482)
T ss_pred ------------hHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCcccccccc
Confidence 6888999999999999999999999999999999999999999999999999999999971
Q ss_pred -----------CCHHHHHHHHHHHhh-cCCCCCceeeccccccc-C--CcccccCCCCCCCCCCceEEeCCC-CCCCCcc
Q 005778 260 -----------AVPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAE-L--GFSVWDPRKNRRDKTHHMPIITPA-YPCMNSS 323 (677)
Q Consensus 260 -----------~s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~-l--g~~~W~p~~~~~dr~~~MpIiTP~-~P~~Nsa 323 (677)
.+++.|+..||++|+ .|+|..-++...-. +. + ..+.|--.. + ...++|++|. .+.. .
T Consensus 246 ~~~~l~~~~~~~~lgvLf~dFf~~yG~~f~Y~~~~~si~~g-~~~~~K~e~g~~~~~--~--p~~LsiqdP~td~n~--~ 318 (482)
T COG5260 246 LLSPLKYNKNIDNLGVLFDDFFELYGKSFNYSLVVLSINSG-DFYLPKYEKGWLKPS--K--PNSLSIQDPGTDRNN--D 318 (482)
T ss_pred ccchhhccccccccchHHHHHHHHhccccChhheEEEecCC-ceeeehhhccccccc--C--CCcEeecCCCCCccc--c
Confidence 258999999999999 59998755543221 11 1 113443111 1 2689999999 4433 3
Q ss_pred CccCHhhHHHHHHHHHHHHHHHHH
Q 005778 324 YNVSTSTLRVMMDQFQYGNTICEE 347 (677)
Q Consensus 324 ~nVs~sTlrvI~~EF~Ra~~Il~~ 347 (677)
-.....+++.|+.+|.+|.+++.+
T Consensus 319 ~~a~s~~ik~i~~~F~~aF~lls~ 342 (482)
T COG5260 319 ISAVSFNIKDIKAAFIRAFELLSN 342 (482)
T ss_pred cccccchHHHHHHHHHHHHHHHhh
Confidence 334445799999999999999987
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=4e-32 Score=260.35 Aligned_cols=135 Identities=36% Similarity=0.714 Sum_probs=104.9
Q ss_pred chhhhcccEEEEEEEecChhhhhhhhhHHHHHHHHHHHHHhhcccCceeeccCCCCCC------------------CCCC
Q 005778 363 LFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYV------------------DTSK 424 (677)
Q Consensus 363 ~Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESrlR~Lv~~LE~~~~~~l~ahp~P~~f~------------------~~~~ 424 (677)
+||.+|||||+|+|+|.+++++.+|.||||||||.||.+||+.. .+..|||||++|. +...
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 5678999999998 1122
Q ss_pred CCceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHhhccc---cCCceEEEEEeeccCCCCCCcCCCCccccCC
Q 005778 425 PCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMF---WKPGMEICVSHIRRKQIPPYVFPEGYKRTRH 498 (677)
Q Consensus 425 ~~~~~~ffIGL~~~~~~~~~~~~~~dl~~~v~eF~~~i~~~~~---~~~~m~i~v~~vkr~~LP~~v~~~g~~~~~~ 498 (677)
..+.++|||||++......+.++++||+.++++|++.|++|.. +.++|+|+|+|||+++||++||++|++|+++
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 3578899999999876543334579999999999999999764 6688999999999999999999999988765
No 7
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=99.96 E-value=8.2e-29 Score=274.47 Aligned_cols=268 Identities=22% Similarity=0.310 Sum_probs=212.5
Q ss_pred CHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCC
Q 005778 28 TEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPG 107 (677)
Q Consensus 28 t~~d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~ 107 (677)
.+.-..++++++.+++ .+.||.+|.+.|.++++++++.|++- + ..+.|++||||.+|+++|+
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 5556677778888887 58999999999999999999999721 2 3699999999999999999
Q ss_pred CCeeEEeecCCccCccchHHHHHHHHHHh--ccCCceEEEeccCccceEEEEe--cCceeeEeeeecccccccccccccc
Q 005778 108 ADIDALCVGPSYVSREEDFFFILHNILAE--MEEVTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISD 183 (677)
Q Consensus 108 SDID~l~v~P~~v~re~~Ff~~l~~~L~~--~~~v~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~~p~~l~i~~ 183 (677)
||||+++..+....++ +.+..+.-++.. ...-..+..|..|+||||||+. .+|.|||+|++
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 2233568889999999999997 79999999998
Q ss_pred ccccCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhhCCCC---
Q 005778 184 MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNA--- 260 (677)
Q Consensus 184 ~~~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pn~--- 260 (677)
.|||+.++.|..++-+.+.+|.++.++|+|...|++++..+|+++||++++||+.++|++|..
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-cCCCCCc-eeecccccccCC--cccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhh
Q 005778 261 ------VPSMLVSRFFRVYT-MWRWPNP-VMLCAIDEAELG--FSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTST 330 (677)
Q Consensus 261 ------s~~~LL~~FF~~Ys-~wdW~~p-V~l~~i~~g~lg--~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sT 330 (677)
.++.||.+||++|+ +|.+..= |.+....+ ..+ ...|- .+...+...+.|+||..|..+.++. ...
T Consensus 250 ~~~~~~~~~vll~~f~e~yG~~f~~~k~~i~~~~~g~-~~~~~~~~~~--~~~~~~~~~LsieDP~~P~ndigr~--s~~ 324 (514)
T KOG1906|consen 250 RLAVLKNLGVLLIKFFELYGRNFGYDKLGISLSLGGE-YVSKELTGFF--NNSLERPGSLSIEDPVDPTNDIGRS--SFN 324 (514)
T ss_pred ccchhcccchHHHHHHHHhccccCchhhceeccCCcc-cccHHhhhhh--cccccCCCccccCCCCCcccccccc--ccc
Confidence 37889999999999 5766652 33221111 011 11111 1222355679999999997765532 245
Q ss_pred HHHHHHHHHHHHHHHHH
Q 005778 331 LRVMMDQFQYGNTICEE 347 (677)
Q Consensus 331 lrvI~~EF~Ra~~Il~~ 347 (677)
+..|+.+|..|+..+..
T Consensus 325 ~~~v~~~F~~af~~l~~ 341 (514)
T KOG1906|consen 325 FSQVKGAFAYAFKVLTN 341 (514)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 88899999999988865
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=159.62 Aligned_cols=110 Identities=39% Similarity=0.751 Sum_probs=97.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc-cCccchHHHHHHHHH
Q 005778 56 KREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY-VSREEDFFFILHNIL 134 (677)
Q Consensus 56 ~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~-v~re~~Ff~~l~~~L 134 (677)
.|++++++|++++++|. .++++++|||+++|+++|+||||+++..|.. ... ..++..+.+.|
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 48999999999
Q ss_pred HhccCCceEEEeccCccceEEEEec--CceeeEeeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHh
Q 005778 135 AEMEEVTELQPVLDAHVPVMKFKFD--GLSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKL 210 (677)
Q Consensus 135 ~~~~~v~~l~~I~~ArVPIIKf~~~--GI~iDLsfa~l~~~~~p~~l~i~~~~~L~~lDe~s~rSLNG~Rvtd~Il~l 210 (677)
++...+.++..|.+|+||||||.+. |++|||+|++ .+|++++++|..+
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=99.75 E-value=5.4e-17 Score=184.26 Aligned_cols=253 Identities=22% Similarity=0.297 Sum_probs=190.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc-cCc---
Q 005778 47 LYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY-VSR--- 122 (677)
Q Consensus 47 l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~-v~r--- 122 (677)
..+...+...|...+..++.++..-+ +.....+..|||..+|+....+|+|+++..... ..-
T Consensus 125 ~~~~~~~~~~~~~~~~~l~~~~~~~~--------------p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~ 190 (596)
T KOG2277|consen 125 FKLPHSDVKTRKLILDKLRALASLLF--------------PDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKI 190 (596)
T ss_pred cCCCccccchHHHHHHHHHHHHHHhc--------------CCCcceeeccCcccccccccccCcceeecccccccccchh
Confidence 34455666677777777777776432 222334789999999999999999944433222 110
Q ss_pred -cchHHHHHHHHHHhccC--CceEEEeccCccceEEEEe--cCceeeEeeeeccccccccccccccccccCCCCcccccc
Q 005778 123 -EEDFFFILHNILAEMEE--VTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRS 197 (677)
Q Consensus 123 -e~~Ff~~l~~~L~~~~~--v~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~~p~~l~i~~~~~L~~lDe~s~rS 197 (677)
...++..+.+.|....+ +..++.|..|+|||||+.+ .++++|+++.+..
T Consensus 191 ~~~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~-------------------------- 244 (596)
T KOG2277|consen 191 KGLEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSD-------------------------- 244 (596)
T ss_pred hhHHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccch--------------------------
Confidence 12456667777776543 7889999999999999976 5999999988732
Q ss_pred cchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCcc-HHHHHHHHHHHHhhCCCC----------------
Q 005778 198 LNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLG-GVNWALLVARVCQLYPNA---------------- 260 (677)
Q Consensus 198 LNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LG-G~swaLLVa~vcQl~Pn~---------------- 260 (677)
|.+++..+..+...+.+|++|...||+||+++++++...|.+. +|++.+||++++|.++..
T Consensus 245 --~~~nS~ll~~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~ 322 (596)
T KOG2277|consen 245 --AILNSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSND 322 (596)
T ss_pred --hhhhhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhccccc
Confidence 3455666666666778999999999999999999999999998 699999999999986310
Q ss_pred ---------------------------CHHHHHHHHHHHhh-cCCCCCceeecccccccCCcccccCCCCCCCCCCceEE
Q 005778 261 ---------------------------VPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPI 312 (677)
Q Consensus 261 ---------------------------s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpI 312 (677)
+++.|+..||.||+ .|||++-++-...... +. ..|. ......+.|
T Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~-l~-~~~~-----~~~~~~l~i 395 (596)
T KOG2277|consen 323 KPVVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRA-LK-RAKK-----IKSKKFLCI 395 (596)
T ss_pred ccchhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhcccccceeeeeeccc-cc-ccch-----hhhccceee
Confidence 25689999999999 7999997663322111 11 0011 112356999
Q ss_pred eCCCCCCCCccCccCHhhHHHHHHHHHHHHHHHHHh
Q 005778 313 ITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEV 348 (677)
Q Consensus 313 iTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i 348 (677)
.+|+....|.+..++...+..|+.+|+....++...
T Consensus 396 ~dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 396 EDPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred ccccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999998875
No 10
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.62 E-value=3.2e-13 Score=147.69 Aligned_cols=343 Identities=20% Similarity=0.235 Sum_probs=208.7
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEeecC
Q 005778 39 EKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALCVGP 117 (677)
Q Consensus 39 ~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v~P 117 (677)
.+.|+ -+-||+||.++-+.+.++|...+++++++. ...++++.|||++-|.+++ +||||++++.|
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 377999999999999999999988876432 1347999999999999999 99999999999
Q ss_pred CccCccchHHH---HHHHHHHhc-cCCceEEEeccCccceEEEEecCceeeEeeeecccccccccccccccc-ccCCCCc
Q 005778 118 SYVSREEDFFF---ILHNILAEM-EEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDMS-VLNDVDE 192 (677)
Q Consensus 118 ~~v~re~~Ff~---~l~~~L~~~-~~v~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~~p~~l~i~~~~-~L~~lDe 192 (677)
....++ ++=. .+...+.+. +.. ...-|--|-++..+.|+++||.=|- ++.+.+ +...+|-
T Consensus 69 ~~~~~e-~l~~~gl~i~~~~~~~~~~~----~~~yaeHpYv~~~~~G~~VDiVPcy----------~v~~g~~~~taVDR 133 (408)
T TIGR03671 69 KDTSRE-ELEEYGLEIGHEVLKRGGNY----EERYAEHPYVSGEIEGFEVDVVPCY----------KVESGEEIISAVDR 133 (408)
T ss_pred CCCCHH-HHHHHHHHHHHHHHhhCCCH----hheeccCceEEEEEccEEEEEEeeE----------EccCcCeeeccccC
Confidence 887764 3321 222222211 111 1357777999999999999997442 222221 1122221
Q ss_pred ccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCC--CCCCccHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 005778 193 PTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFF 270 (677)
Q Consensus 193 ~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn--~~G~LGG~swaLLVa~vcQl~Pn~s~~~LL~~FF 270 (677)
. ..-+++++.... +.++..+|++|.|+|.-|+|++ +.++++||..-||++++ -+...++..+
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 123566665543 3488999999999999999955 57899999999999995 2223333222
Q ss_pred HHhhcCCCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhhHHHHHHHHHHHHHHHHHhhh
Q 005778 271 RVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVEL 350 (677)
Q Consensus 271 ~~Ys~wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~ 350 (677)
++ |..++.+.....+ .. .-.+++.|+||.+|.+|+|.++|..++..+...-+++. .+
T Consensus 198 ---~~--wk~~~~id~~~~~--------~~----~f~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~fl---~~--- 254 (408)
T TIGR03671 198 ---SK--WKPGVVIDIEEHG--------TK----KFDDPLVVIDPVDPKRNVAAALSLENLARFILAARMFL---KN--- 254 (408)
T ss_pred ---Hh--cCCCeEEecCccc--------cc----cCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHHH---HC---
Confidence 33 4555666322111 11 12468999999999999999999988877765443332 22
Q ss_pred cCCccccccccc-----ch---hhhcc-cEEEEEEEecChhhhhhhhhHHHHHHHHHHHHHhhcccCceeeccCCCCCCC
Q 005778 351 NKAQWSALFEPY-----LF---FESYR-NYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVD 421 (677)
Q Consensus 351 ~~~~W~~Lf~p~-----~F---f~~Yk-~yl~I~v~a~~~e~~~~w~GwVESrlR~Lv~~LE~~~~~~l~ahp~P~~f~~ 421 (677)
+=..+|.|. ++ +.+-. +.+.|..-.++.-+= ..-|-++--.+.|...||+.....+....|- +
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 112344332 11 12222 333443333332222 3346666667777777887654444444442 2
Q ss_pred CCCCCceeEEEEeeeeCCC--CccCCCceecchHHHHHHHHH
Q 005778 422 TSKPCAHCAFFMGLQRKPG--EVVQEGQQFDIRGSVEEFKLS 461 (677)
Q Consensus 422 ~~~~~~~~~ffIGL~~~~~--~~~~~~~~~dl~~~v~eF~~~ 461 (677)
. -.|..++=|....- -....|.++.-+.-...|.+.
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 12444445543221 111224445555667788864
No 11
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.61 E-value=6.7e-13 Score=146.93 Aligned_cols=346 Identities=20% Similarity=0.238 Sum_probs=206.5
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEeec
Q 005778 38 LEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALCVG 116 (677)
Q Consensus 38 L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v~ 116 (677)
+.+.|+. +.||+||.++-.++.+.|...+++++.+ .+ ..++++.+|||+-|.+++ +||||++++.
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 3445543 7899999999999999999888887643 22 138999999999999999 7899999999
Q ss_pred CCccCccchHH----HHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccccccccccccccc-cccCCCC
Q 005778 117 PSYVSREEDFF----FILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDM-SVLNDVD 191 (677)
Q Consensus 117 P~~v~re~~Ff----~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~~p~~l~i~~~-~~L~~lD 191 (677)
|....++ ++= .....+++..-.-.+++ -|--|-++..+.|+++||.=|- ++.+. .+...+|
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 221 12223333311112333 4888999999999999998442 22222 1222222
Q ss_pred cccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCC--CCCCccHHHHHHHHHHHHhhCCCCCHHHHHHHH
Q 005778 192 EPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAVPSMLVSRF 269 (677)
Q Consensus 192 e~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn--~~G~LGG~swaLLVa~vcQl~Pn~s~~~LL~~F 269 (677)
-. ..-+++|+.... +.++..+|++|.|+|.-|+|++ +.++++||..-||++++ -+...++..+
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 123567766553 3488999999999999999955 57899999999999995 2333333332
Q ss_pred HHHhhcCCCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhhHHHHHHHHHHHHHHHHHhh
Q 005778 270 FRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVE 349 (677)
Q Consensus 270 F~~Ys~wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~ 349 (677)
++| .-++.+...+.+ .. ....+++.|+||.+|.+|+|.++|..++..+... |..-+.+
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 434554321111 00 0124689999999999999999998887766532 2222332
Q ss_pred hcCCcccccccccc-----h---hhh-cccEEEEEEEecChhhhhhhhhHHHHHHHHHHHHHhhcccCceeeccCCCCCC
Q 005778 350 LNKAQWSALFEPYL-----F---FES-YRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYV 420 (677)
Q Consensus 350 ~~~~~W~~Lf~p~~-----F---f~~-Yk~yl~I~v~a~~~e~~~~w~GwVESrlR~Lv~~LE~~~~~~l~ahp~P~~f~ 420 (677)
+=...|.|.+ + +.+ =.+.+.|..-..+.-+- ..-|-++--.+.|...||+.....+....| .
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-ILYPQLERSLRSIVKLLEREGFEVLRSGAW----A 328 (447)
T ss_pred ----CCHHhcCCCCCChHHHHHHHhhcCceEEEEEeCCCCCCcc-chhHHHHHHHHHHHHHHHHCCCEEEEeeee----c
Confidence 1223333333 1 111 12444454444333222 333666666777777788765444433222 2
Q ss_pred CCCCCCceeEEEEeeeeCC--CCccCCCceecchHHHHHHHHH
Q 005778 421 DTSKPCAHCAFFMGLQRKP--GEVVQEGQQFDIRGSVEEFKLS 461 (677)
Q Consensus 421 ~~~~~~~~~~ffIGL~~~~--~~~~~~~~~~dl~~~v~eF~~~ 461 (677)
+ . -.|..++=|.... .-....|.++..+.-...|.+.
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 1343344443221 1111123345555557788763
No 12
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.23 E-value=6.6e-09 Score=113.49 Aligned_cols=345 Identities=19% Similarity=0.195 Sum_probs=202.6
Q ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEee
Q 005778 37 ELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALCV 115 (677)
Q Consensus 37 ~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDID~l~v 115 (677)
.|.+.|+. +.||+||.++=+.+.+.|...+++-+ +++|+ .+.+...||++=|.|++ +.|||+.|.
T Consensus 6 ~l~evl~~--i~P~~eE~~~~~~~~e~l~~~~~~~~----~e~~~--------~aev~lVGS~AkgTwL~gd~DIDvFi~ 71 (443)
T COG1746 6 VLEEVLKR--IKPTEEERKKLKEVAEELRERINEII----EELGI--------DAEVVLVGSYAKGTWLRGDHDIDVFIA 71 (443)
T ss_pred HHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHHHH----HhcCC--------cceEEEEeecccCcccCCCcceeEEEE
Confidence 45556654 67999999988888888877777644 34443 58899999999999999 789999999
Q ss_pred cCCccCccchH----HHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccccccccccccccccccCCCC
Q 005778 116 GPSYVSREEDF----FFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDMSVLNDVD 191 (677)
Q Consensus 116 ~P~~v~re~~F----f~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~~p~~l~i~~~~~L~~lD 191 (677)
.|....++ .. +......|.+ .--.+.-|-=|-+.-.+.|+++|+.=|-... -++ .+...+|
T Consensus 72 Fp~d~~~e-el~~~GL~ig~~~l~~-----~~~~~~YAeHPYV~g~v~G~eVDvVPCy~v~--~~~-------~~~sAVD 136 (443)
T COG1746 72 FPKDTSEE-ELEEKGLEIGREVLKR-----GNYEERYAEHPYVTGEVDGYEVDVVPCYKVE--DGE-------KIISAVD 136 (443)
T ss_pred CCCCCCHH-HHHHHHHHHHHHHhcC-----CchhhhhccCCeeEEEEccEEEEEEeccccc--Ccc-------ccccccc
Confidence 99988764 22 1222333332 0112457777999999999999998554211 011 1122222
Q ss_pred cccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCC--CCCccHHHHHHHHHHHHhhCCCCCHHHHHHHH
Q 005778 192 EPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNV--TGFLGGVNWALLVARVCQLYPNAVPSMLVSRF 269 (677)
Q Consensus 192 e~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~--~G~LGG~swaLLVa~vcQl~Pn~s~~~LL~~F 269 (677)
- +. -=+.++..-+-... +.=+|++|.+.|.=|+|++- .++++||.--||+++|= .|
T Consensus 137 R----Tp---lHt~yv~e~L~~~~--~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~yG-------------sF 194 (443)
T COG1746 137 R----TP---LHTRYVEEHLKGRQ--KDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHYG-------------SF 194 (443)
T ss_pred C----cc---hhHHHHHHHhcccc--hhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhhc-------------cH
Confidence 1 11 11455555443321 23479999999999999975 78999999999999872 23
Q ss_pred HHHhhcC-CCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhhHHHHHHHHHHHHHHHHHh
Q 005778 270 FRVYTMW-RWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEV 348 (677)
Q Consensus 270 F~~Ys~w-dW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i 348 (677)
-..--.. +|..+++|..- .|..+.. ...+|.|+||.+|..|+|.+||..++..++ -|.+..-+
T Consensus 195 e~vl~~a~~wrp~~~ID~~--------~~~~e~f---~d~PliVvDPVDP~RNVAAalSl~~la~f~----~aar~FL~- 258 (443)
T COG1746 195 ENVLKAASRWRPGKIIDLE--------GHKRERF---EDEPLIVVDPVDPKRNVAAALSLENLARFV----HAAREFLK- 258 (443)
T ss_pred HHHHHHHhccCCCeEEecc--------chhhhcc---CCCCeEecCCCCCccchhhhcCHHHHHHHH----HHHHHHhc-
Confidence 3333332 38877776541 2211221 123899999999999999999987766544 33322211
Q ss_pred hhcCCccccccccc---c-----hhhhcccEEEEEEEecChhhhhhhhhHHHHHHHHHHHHHhhcccCceeeccCCCCCC
Q 005778 349 ELNKAQWSALFEPY---L-----FFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYV 420 (677)
Q Consensus 349 ~~~~~~W~~Lf~p~---~-----Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESrlR~Lv~~LE~~~~~~l~ahp~P~~f~ 420 (677)
.+=...|.|. . ...+=.+-+.|.+-..+.-+- ..-|-++---+.|...||......+.++.| .
T Consensus 259 ----~PS~efF~p~~~~~~~~~~~~~rgt~v~~l~~~~pd~vdD-ilypQl~r~~~~l~r~Le~~gF~vl~~~~~----~ 329 (443)
T COG1746 259 ----NPSPEFFFPRKPKPLLLSKLRRRGTHVLALVFPKPDLVDD-ILYPQLERTARSLFRALEEEGFRVLRSGVW----S 329 (443)
T ss_pred ----CCChhhcCCCCcCcccccchhhcCceEEEEEeCCCCCCcc-hhhHHHHHHHHHHHHHHHHcCCEEeeeeee----e
Confidence 1112223221 1 111111223333333343222 344777777788888888765444444433 2
Q ss_pred CCCCCCceeEEEEeeeeCCCC--ccCCCceecchHHHHHHHHH
Q 005778 421 DTSKPCAHCAFFMGLQRKPGE--VVQEGQQFDIRGSVEEFKLS 461 (677)
Q Consensus 421 ~~~~~~~~~~ffIGL~~~~~~--~~~~~~~~dl~~~v~eF~~~ 461 (677)
|... ++.-|+=+....-. ....+.++.-+.+++ |.+.
T Consensus 330 D~~~---~~~v~~E~~~~~l~~i~~r~GPp~~~e~a~r-F~~k 368 (443)
T COG1746 330 DESE---RIYVLLELESKELPRIELRVGPPVWTEHAVR-FIEK 368 (443)
T ss_pred cCCc---ceEEEEEEecccccceeeecCCCccchhHHH-HHHh
Confidence 2211 34445555422110 011233344466776 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=99.20 E-value=6.5e-09 Score=125.55 Aligned_cols=341 Identities=15% Similarity=0.224 Sum_probs=206.7
Q ss_pred cccccCcC---CCCCeeEEeecCCccCccchH------------HHHHHHHH--HhccCCceEEEe---ccCccceEEEE
Q 005778 98 SYRLGVHG---PGADIDALCVGPSYVSREEDF------------FFILHNIL--AEMEEVTELQPV---LDAHVPVMKFK 157 (677)
Q Consensus 98 Sy~lGv~~---p~SDID~l~v~P~~v~re~~F------------f~~l~~~L--~~~~~v~~l~~I---~~ArVPIIKf~ 157 (677)
||.++... ++-.||+.+.-|..+-.++|| ...++..| .+...+.++... .+.+-|||.+.
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 56666554 477999999999866554443 23456667 223333344333 67888999999
Q ss_pred ec-----C------ceeeEeeeeccccccccc-c-----c------------------cccccccCCCCcccccccchhh
Q 005778 158 FD-----G------LSIDLLYASISRLVVRED-L-----D------------------ISDMSVLNDVDEPTVRSLNGCR 202 (677)
Q Consensus 158 ~~-----G------I~iDLsfa~l~~~~~p~~-l-----~------------------i~~~~~L~~lDe~s~rSLNG~R 202 (677)
-. + +.|-|..+.... .+|.. + + ..|..+|.++- =..
T Consensus 81 p~~~~~~~~~~~~~~~iRi~~~~~~~-~F~~~rl~P~rnnvR~~~~~~~~~~~~~pTP~YNssIL~D~~--------~~~ 151 (972)
T PF03813_consen 81 PKGKKDSDDFSKTKFRIRIIPSIPSD-TFPLSRLAPSRNNVRPSWFDEEDSSSLPPTPHYNSSILEDML--------MEE 151 (972)
T ss_pred ECCccccccccCCcEEEEEEecCCcc-cCCHHhcCCCCCccCcCcccccccCCCCCCCcchHHHHHHHh--------HHH
Confidence 42 2 445554443111 11110 0 0 11122221110 011
Q ss_pred HHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCC-CCCccHHHHHHHHHHHHhh---------CCCCCHHHHHHHHHHH
Q 005778 203 VADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNV-TGFLGGVNWALLVARVCQL---------YPNAVPSMLVSRFFRV 272 (677)
Q Consensus 203 vtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~-~G~LGG~swaLLVa~vcQl---------~Pn~s~~~LL~~FF~~ 272 (677)
-..++.+.....+.|+.+++++|.||++||+.+.. .|++||+-|+||+++.+|- .+..+.-+|+..+..+
T Consensus 152 ~l~~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~f 231 (972)
T PF03813_consen 152 HLKYLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQF 231 (972)
T ss_pred HHHHHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHH
Confidence 23344455556799999999999999999998875 5899999999999999986 3556788999999999
Q ss_pred hhcCCC-CCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhhHHHHHHHHHHHHHHHHHhhhc
Q 005778 273 YTMWRW-PNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELN 351 (677)
Q Consensus 273 Ys~wdW-~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~~ 351 (677)
.+..|| .+|+.++...+.......| .+.+....++|. -..|.+++++.++++.++.|-+++.+++++..
T Consensus 232 LA~~d~~~~~l~~~~~~~~~~~~~~~-------~~~~~~vf~D~s-g~~Nl~~~ms~~s~~~L~~eA~~tl~lL~~~~-- 301 (972)
T PF03813_consen 232 LATTDLSKKPLFFKSSSDSTESLEEF-------HSAFDPVFVDPS-GGLNLLAKMSPSSYEELQHEAKLTLELLDDSS-- 301 (972)
T ss_pred HhccccccCceEEecCCCccchhhhh-------hccCCeEEEeCC-CCEEEEEcCCHHHHHHHHHHHHHHHHHhcccc--
Confidence 999999 6688887644211111111 123455666664 56899999999999999999999999998632
Q ss_pred CCccccccc-c-cchhhhcccEEEEE---EEe----cChhhhhhhhhHHHHHHHHHHH-HHhhcccCceeeccC---CCC
Q 005778 352 KAQWSALFE-P-YLFFESYRNYLQVD---IVA----ANADDLLAWKGWVESRLRQLTL-MIERDTYGKLQCHPY---PHE 418 (677)
Q Consensus 352 ~~~W~~Lf~-p-~~Ff~~Yk~yl~I~---v~a----~~~e~~~~w~GwVESrlR~Lv~-~LE~~~~~~l~ahp~---P~~ 418 (677)
....+.+|- + ..+..+|.+++.|. ... ....+...|...++.++-.|+. .|..... .++++ +.+
T Consensus 302 ~d~F~~lFl~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL~raLgdR~~---~i~v~~~~~~~ 378 (972)
T PF03813_consen 302 DDGFDSLFLTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLLKRALGDRAK---LIRVLRPSQPP 378 (972)
T ss_pred ccchhhhhcccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHHHHHHHHHHH---eEEEeCCCCCC
Confidence 346777774 4 46678999999991 111 1223334444456667766664 3543221 22333 122
Q ss_pred CCCCCC--CCceeEEEEeeeeCCCCc---cCCCceecchHHHHHHHH
Q 005778 419 YVDTSK--PCAHCAFFMGLQRKPGEV---VQEGQQFDIRGSVEEFKL 460 (677)
Q Consensus 419 f~~~~~--~~~~~~ffIGL~~~~~~~---~~~~~~~dl~~~v~eF~~ 460 (677)
+.-... ........|||..+.... ..-|-..|-.....+|++
T Consensus 379 w~i~~~~~~~~~~~l~vGl~ln~~~~~r~vd~GP~a~d~~ea~~FR~ 425 (972)
T PF03813_consen 379 WSISSKPPKSKPKTLTVGLILNPENAFRLVDRGPSAEDKEEAAAFRE 425 (972)
T ss_pred cccCCCCCCCCCceEEEEEEEchhhceeeeeeCcCCcCcHHHHHHHH
Confidence 211111 111226889998875211 111112233456677776
No 14
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=98.35 E-value=1.3e-05 Score=95.14 Aligned_cols=292 Identities=17% Similarity=0.200 Sum_probs=172.3
Q ss_pred CeEEE-EeccccccCc-CCCCCeeEEeecCCccCccchH------------HHHHHHHHHhccCCceEEEe---ccCccc
Q 005778 90 NALIF-TFGSYRLGVH-GPGADIDALCVGPSYVSREEDF------------FFILHNILAEMEEVTELQPV---LDAHVP 152 (677)
Q Consensus 90 ~~~I~-~FGSy~lGv~-~p~SDID~l~v~P~~v~re~~F------------f~~l~~~L~~~~~v~~l~~I---~~ArVP 152 (677)
.+++. ..||+.+|.. .|+.-+|+++..|+..-...|+ ++.+...|.+.+....+... .+-.-|
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 5566666544 6889999999999754322233 33344445444433333333 234558
Q ss_pred eEEEEecCceeeEeeeeccccccccccc-cccccccCCCC----------cccccccch--------hhHHHHHHHhCCC
Q 005778 153 VMKFKFDGLSIDLLYASISRLVVREDLD-ISDMSVLNDVD----------EPTVRSLNG--------CRVADQILKLVPN 213 (677)
Q Consensus 153 IIKf~~~GI~iDLsfa~l~~~~~p~~l~-i~~~~~L~~lD----------e~s~rSLNG--------~Rvtd~Il~lVp~ 213 (677)
|+.+.-.|-..|++-.+.+..-+|-.+. ..++.+|-+.- +..---.|- --..+++.+....
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 8888876555554433321111111111 11111111000 000000010 0112233444555
Q ss_pred hhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHh---hCCCCCHHHHHHHHHHHhhcCCCCC-ceeeccccc
Q 005778 214 VEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQ---LYPNAVPSMLVSRFFRVYTMWRWPN-PVMLCAIDE 289 (677)
Q Consensus 214 ~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQ---l~Pn~s~~~LL~~FF~~Ys~wdW~~-pV~l~~i~~ 289 (677)
.+.|+.++.+.|.|+++|.. +-..|++||+-|++++++... ++.+.+..+++..-|++.+.|||.. -+-+++-.
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 35554411
Q ss_pred ccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhhHHHHHHHHHHHHHHHHHhhhcCCcccccc-cccchhhhc
Q 005778 290 AELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALF-EPYLFFESY 368 (677)
Q Consensus 290 g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~~i~~~~~~W~~Lf-~p~~Ff~~Y 368 (677)
.. . |....-+..+....++ ..-..|...|++.++++.+++|.+-+..++.+.. ...++.+| ++.+.|..|
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 PS--L----PALADFHEGQLVTFID-SSGHLNLCANMTASTYEQVQEEARLTLMLLDSRA--DDGFSLIFMTKIPVFRAY 455 (1121)
T ss_pred CC--c----hhhhhhhhcceeeEec-cCCcchhhhhccHHHHHHHHHHHHHHHHHHhhhh--hcCcceeeeecCCchhhh
Confidence 00 0 0000000112333333 2346788999999999999999999999999765 35678777 788999999
Q ss_pred ccEEEEEEEecChhhhhhhhhHHH
Q 005778 369 RNYLQVDIVAANADDLLAWKGWVE 392 (677)
Q Consensus 369 k~yl~I~v~a~~~e~~~~w~GwVE 392 (677)
.|-+.+..-..-+.....-.||.|
T Consensus 456 Dh~l~l~~~~~l~~~~~~~~~~~~ 479 (1121)
T KOG2054|consen 456 DHVLHLSPLSRLQAAEHLLSGFCE 479 (1121)
T ss_pred heeeeccccchhhhHHhhcccchh
Confidence 998877654333333344444433
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.23 E-value=4.2e-05 Score=79.49 Aligned_cols=213 Identities=16% Similarity=0.148 Sum_probs=147.3
Q ss_pred EEEeccccccCcCCCC-CeeEEeecCCccCccchHHHHHH----HHHHhccCCceEEEeccCccceEEEEec----Ccee
Q 005778 93 IFTFGSYRLGVHGPGA-DIDALCVGPSYVSREEDFFFILH----NILAEMEEVTELQPVLDAHVPVMKFKFD----GLSI 163 (677)
Q Consensus 93 I~~FGSy~lGv~~p~S-DID~l~v~P~~v~re~~Ff~~l~----~~L~~~~~v~~l~~I~~ArVPIIKf~~~----GI~i 163 (677)
+.-.||+.-|+.+.|. +.|+++++....+. ...+.+. +-|+...+=.....|..+.+|.++..+. -...
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 5678999999999876 78999999887775 3444443 3344322112223456777788888762 2222
Q ss_pred eEeeeeccccccccccccccccccCCCC-cccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCcc
Q 005778 164 DLLYASISRLVVREDLDISDMSVLNDVD-EPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLG 242 (677)
Q Consensus 164 DLsfa~l~~~~~p~~l~i~~~~~L~~lD-e~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LG 242 (677)
+...+. .|+++.-.+ .-.-+| +.|+.+|-.+|-+.+..........|+.++|++|-|.++....+ -|.
T Consensus 83 ~~~~~~-----~~~~~~~~~--p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~~----pL~ 151 (246)
T smart00572 83 ELLITT-----VPENLRKLD--PEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQ----PLS 151 (246)
T ss_pred cccccc-----cCcccccCC--ccccCCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhccccc----ccc
Confidence 333222 233332211 112233 45888889999999999888888899999999999999876543 389
Q ss_pred HHHHHHHHHHHHhhCC-CCCHHHHHHHHHHHhhc-CCCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCC-C
Q 005778 243 GVNWALLVARVCQLYP-NAVPSMLVSRFFRVYTM-WRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYP-C 319 (677)
Q Consensus 243 G~swaLLVa~vcQl~P-n~s~~~LL~~FF~~Ys~-wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P-~ 319 (677)
++.+-|++++.+-... ..++++-+.+||++.++ .-+|. ---|+||+.+ .
T Consensus 152 ~w~iELl~~~~i~~~~~~l~~~~a~RR~fe~lAsG~l~p~----------------------------~~gI~DPce~~~ 203 (246)
T smart00572 152 GWPLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPG----------------------------SPGLTDPCEKDN 203 (246)
T ss_pred cccHHHHHHHHhccCCCCCCHHHHHHHHHHHHHhccCcCC----------------------------CCCCcCCCCCCc
Confidence 9999999999886332 23689999999999985 21221 0137788886 7
Q ss_pred CCccCccCHhhHHHHHHHHHHHHHHHH
Q 005778 320 MNSSYNVSTSTLRVMMDQFQYGNTICE 346 (677)
Q Consensus 320 ~Nsa~nVs~sTlrvI~~EF~Ra~~Il~ 346 (677)
.|++...|......|...-+.+.+++.
T Consensus 204 ~nv~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 204 TDALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred ccHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 888888888888889888888887764
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=97.78 E-value=0.00021 Score=67.19 Aligned_cols=77 Identities=27% Similarity=0.317 Sum_probs=55.9
Q ss_pred CeEEEEeccccccCcCC-CCCeeEEeecCCccC----ccchHHHHHHHHHHhccCCceEEEeccCccceEEEEec--Cce
Q 005778 90 NALIFTFGSYRLGVHGP-GADIDALCVGPSYVS----REEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFD--GLS 162 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p-~SDID~l~v~P~~v~----re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~--GI~ 162 (677)
...++.||||+.|...+ .||||++++.+.... ...++...+.+.|.+...- -.. ....-|.|.+.+. +++
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 47899999999999977 899999999886643 1135666777777764321 112 2455578888886 899
Q ss_pred eeEeeee
Q 005778 163 IDLLYAS 169 (677)
Q Consensus 163 iDLsfa~ 169 (677)
|||+-+.
T Consensus 104 vDvvP~~ 110 (143)
T cd05400 104 VDVVPAF 110 (143)
T ss_pred EEEEEEe
Confidence 9997554
No 17
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=97.63 E-value=2.9e-05 Score=63.04 Aligned_cols=56 Identities=20% Similarity=0.322 Sum_probs=36.6
Q ss_pred CHHHHHHHHHHHhh-cCCCCCceeecccccccC--CcccccCCCCCCCCCCceEEeCCCCCC
Q 005778 261 VPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAEL--GFSVWDPRKNRRDKTHHMPIITPAYPC 319 (677)
Q Consensus 261 s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~l--g~~~W~p~~~~~dr~~~MpIiTP~~P~ 319 (677)
++++||..||+||+ .|||.+-|+.... .+.+ ....|.. ....+...|+|++|+.|.
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 8999997765432 1111 1234431 112245789999999885
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=97.56 E-value=0.00012 Score=58.00 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=24.6
Q ss_pred CeEEEEeccccccCcCCCCCeeEEee
Q 005778 90 NALIFTFGSYRLGVHGPGADIDALCV 115 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v 115 (677)
..+++.||||+.|.+.+.||||++|+
T Consensus 17 ~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 17 GYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred CcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 57899999999999999999999987
No 19
>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=97.48 E-value=0.00036 Score=64.76 Aligned_cols=93 Identities=24% Similarity=0.335 Sum_probs=60.1
Q ss_pred HHHHHHHHHHhCCCCCC--CCCccHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecccccccCCccccc
Q 005778 221 LRCLKFWAKRRGVYSNV--TGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWD 298 (677)
Q Consensus 221 lr~IK~WAK~RGIysn~--~G~LGG~swaLLVa~vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~lg~~~W~ 298 (677)
+|++|.++|.-|+|++- .++++||..-||+++|=- +....+.-+ +|..|+.|..-..+... +
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 68999999999999875 789999999999998731 233333334 77778887653211100 1
Q ss_pred CCCCCCCCCCceEEeCCCCCCCCccCccCHhhHHHHH
Q 005778 299 PRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMM 335 (677)
Q Consensus 299 p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~ 335 (677)
.-..++.|+||.+|.+|+|.+||..++..+.
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 1136899999999999999999988766554
No 20
>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=0.0002 Score=61.87 Aligned_cols=32 Identities=34% Similarity=0.464 Sum_probs=29.6
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005778 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~ 121 (677)
...++.|||++.|.+.|+||||++++.+....
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 58999999999999999999999999988754
No 21
>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=97.25 E-value=0.003 Score=77.34 Aligned_cols=157 Identities=23% Similarity=0.344 Sum_probs=108.9
Q ss_pred hhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHH-hhCC---CCCHHHHHHHHHHHhhc
Q 005778 200 GCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVC-QLYP---NAVPSMLVSRFFRVYTM 275 (677)
Q Consensus 200 G~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vc-Ql~P---n~s~~~LL~~FF~~Ys~ 275 (677)
..+-+..|..+.-..+.|.+++|++|.|...+-+ .|++.--.+=||||++. +-+| ..++..=+.+|+++-++
T Consensus 668 ~p~h~~~i~~l~~~~p~fs~tvRL~KrW~~shlL----s~~i~~E~vELlva~vfl~~~p~~~P~S~~~GFlRfL~lLs~ 743 (972)
T PF03813_consen 668 LPKHTSAIHGLHTRFPSFSPTVRLAKRWLSSHLL----SGHISEEAVELLVASVFLSPAPWSPPSSPQTGFLRFLHLLST 743 (972)
T ss_pred hHHHHHHHHHHHhhCCchhHHHHHHHHHHHhccC----cccCCHHHHHHHHHHHhcCCCCCCCCCCHhHHHHHHHHHHHh
Confidence 3445566666666778999999999999999977 46788888999999877 3344 34566667888888899
Q ss_pred CCCCC-ceeeccccccc--------CCcccccCCCCCCCCCCceEEeCCCCCCCCc--cCccCHhhHHHHHHHHHHHHHH
Q 005778 276 WRWPN-PVMLCAIDEAE--------LGFSVWDPRKNRRDKTHHMPIITPAYPCMNS--SYNVSTSTLRVMMDQFQYGNTI 344 (677)
Q Consensus 276 wdW~~-pV~l~~i~~g~--------lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Ns--a~nVs~sTlrvI~~EF~Ra~~I 344 (677)
|||.. |++++..++-. ..|..|.. ..+......|.|.||.+|.-.. ...-+..-+++|+.--+.+.++
T Consensus 744 ~dW~~~PLiVd~~~~l~~~~~~~i~~~f~~~R~-~dp~~~~p~~~IaT~~D~~g~~wT~~~Ps~~v~~Rl~~LAk~sl~~ 822 (972)
T PF03813_consen 744 WDWREEPLIVDFNNELTEEDRAEIETNFDAWRK-IDPAMNLPAMFIATPYDPEGSLWTRNGPSKVVAKRLTALAKASLKL 822 (972)
T ss_pred CCCCcCCEEEECCCCCCHHHHHHHHHHHHHhhc-cCccccCCcEEEEeCCCCCCCEeECCCCCHHHHHHHHHHHHHHHHH
Confidence 99985 88876532110 12333432 3344455789999999985432 1234455577777777778888
Q ss_pred HHHhhhcCCcccccccc
Q 005778 345 CEEVELNKAQWSALFEP 361 (677)
Q Consensus 345 l~~i~~~~~~W~~Lf~p 361 (677)
++.-..+..+|..||.|
T Consensus 823 l~~~~~~~~~~~~lF~~ 839 (972)
T PF03813_consen 823 LEEQGLSDLDWKSLFRP 839 (972)
T ss_pred HHhcCCCCCCHHHhcCC
Confidence 87433346789999976
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=96.93 E-value=0.0011 Score=56.73 Aligned_cols=32 Identities=31% Similarity=0.492 Sum_probs=28.8
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005778 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~ 121 (677)
-..++.|||++.|-+.++||||++++++....
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=96.13 E-value=0.051 Score=53.16 Aligned_cols=118 Identities=22% Similarity=0.348 Sum_probs=75.4
Q ss_pred EEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceE-EEeccCccceEEEEecCceeeEeeeec
Q 005778 92 LIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTEL-QPVLDAHVPVMKFKFDGLSIDLLYASI 170 (677)
Q Consensus 92 ~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l-~~I~~ArVPIIKf~~~GI~iDLsfa~l 170 (677)
.-...|.+.+|+..|+||||++|.++.. +.|-..+.....+.++.+-- ..|..-..=+..|.+.|..|-|- ++.
T Consensus 17 ~PiL~GTiPi~Idi~~SDLDIic~~~d~----~~F~~~l~~~f~~~~~f~~~~~~i~~~~~~~~~F~~~~~~~EiF-~Q~ 91 (152)
T PF14091_consen 17 DPILVGTIPIGIDIPGSDLDIICEVPDP----EAFEQLLQSLFGQFEGFTIKEKTIRGEPSIVANFRYEGFPFEIF-GQP 91 (152)
T ss_pred CCEEecccccccCCCCCCccEEEEeCCH----HHHHHHHHHHhccCCCceeeeceeCCceeEEEEEEECCceEEEe-ecC
Confidence 3456799999999999999999999853 13333344444444443221 23344455567788889998874 431
Q ss_pred cccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCh-hhHHHHHHHHH--------HHHHHhCCCCC
Q 005778 171 SRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNV-EHFCTTLRCLK--------FWAKRRGVYSN 236 (677)
Q Consensus 171 ~~~~~p~~l~i~~~~~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~-~~FR~llr~IK--------~WAK~RGIysn 236 (677)
..+..-||+|=...-.+++-.. +.||.-+|-+| +||+--||-++
T Consensus 92 ----------------------~Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~GD 144 (152)
T PF14091_consen 92 ----------------------IPVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLEGD 144 (152)
T ss_pred ----------------------CChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCCCC
Confidence 1234568888554334454444 78999999888 46666666554
No 24
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.30 E-value=0.069 Score=48.66 Aligned_cols=29 Identities=34% Similarity=0.438 Sum_probs=25.7
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 91 ALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
..+-.||||+=|=..|+||||+++-....
T Consensus 25 ~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 25 KRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred ceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 67999999999999999999999976543
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=95.28 E-value=0.63 Score=49.01 Aligned_cols=209 Identities=14% Similarity=0.165 Sum_probs=132.2
Q ss_pred eccccccCcCCCC-CeeEEeecCCccCccchHHHHHHHHHHh----c-cCCceEEEe------ccCccceEEEEe--c--
Q 005778 96 FGSYRLGVHGPGA-DIDALCVGPSYVSREEDFFFILHNILAE----M-EEVTELQPV------LDAHVPVMKFKF--D-- 159 (677)
Q Consensus 96 FGSy~lGv~~p~S-DID~l~v~P~~v~re~~Ff~~l~~~L~~----~-~~v~~l~~I------~~ArVPIIKf~~--~-- 159 (677)
.||+.-|+.+.|. ++|+|+++..-.+. ++++.+.+.|.+ . +. +-...+ ...+.|.+...+ .
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 89999999888775 566665554443 2 22 111122 222335555543 2
Q ss_pred CceeeEeeeeccccccccccccccccccCCCCc-ccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCC
Q 005778 160 GLSIDLLYASISRLVVREDLDISDMSVLNDVDE-PTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVT 238 (677)
Q Consensus 160 GI~iDLsfa~l~~~~~p~~l~i~~~~~L~~lDe-~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~ 238 (677)
.+.+.+.... .+++..- .+.-..||. .|..+|-.+|-+.+..+........+.++|++|-..++--- +
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 111123444 58888888999999998888888889999999999887533 5
Q ss_pred CCccHHHHHHHHHHHHhhCCC---CCHHHHHHHHHHHhhc-CCCCCceeecccccccCCcccccCCCCCCCCCCceEEeC
Q 005778 239 GFLGGVNWALLVARVCQLYPN---AVPSMLVSRFFRVYTM-WRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIIT 314 (677)
Q Consensus 239 G~LGG~swaLLVa~vcQl~Pn---~s~~~LL~~FF~~Ys~-wdW~~pV~l~~i~~g~lg~~~W~p~~~~~dr~~~MpIiT 314 (677)
+-|+++.+=+|+-+..---|+ .++++-+.+||+..|. +-.|.-. -|.|
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 668888888877766653332 4689999999999874 3222100 1345
Q ss_pred CCC-CCCCccCccCHhhHHHHHHHHHHHHHHHH
Q 005778 315 PAY-PCMNSSYNVSTSTLRVMMDQFQYGNTICE 346 (677)
Q Consensus 315 P~~-P~~Nsa~nVs~sTlrvI~~EF~Ra~~Il~ 346 (677)
|+. ...++..+.|......|..--|.+.+++.
T Consensus 200 PcE~~~~~~~~~lt~qq~e~it~sAQ~~LRlla 232 (248)
T PF07528_consen 200 PCEKDPVDVLDTLTLQQREDITSSAQTALRLLA 232 (248)
T ss_pred CCCCCCceeeccCCHHHHHHHHHHHHHHHHHHH
Confidence 555 45677777887777777776666666653
No 26
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=94.57 E-value=0.18 Score=45.34 Aligned_cols=28 Identities=43% Similarity=0.630 Sum_probs=26.3
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecC
Q 005778 90 NALIFTFGSYRLGVHGPGADIDALCVGP 117 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P 117 (677)
...++.|||++-|=+.+.||||++++++
T Consensus 26 ~~~v~LfGS~arG~~~~~SDiDv~vv~~ 53 (128)
T COG1708 26 DLLIYLFGSYARGDFVKESDIDLLVVSD 53 (128)
T ss_pred CeEEEEEccCcccccccCCCeeEEEEcC
Confidence 5899999999999999999999999983
No 27
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=94.48 E-value=0.072 Score=56.37 Aligned_cols=31 Identities=29% Similarity=0.269 Sum_probs=28.1
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005778 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~ 121 (677)
..|+.|||+..|-..|.||||++++.....+
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=94.19 E-value=0.073 Score=53.86 Aligned_cols=47 Identities=13% Similarity=0.051 Sum_probs=33.0
Q ss_pred hhhHHHHHHHHHHHHHHhCCCCCC-CCCccHHHHHHHHHHHHhhCCCC
Q 005778 214 VEHFCTTLRCLKFWAKRRGVYSNV-TGFLGGVNWALLVARVCQLYPNA 260 (677)
Q Consensus 214 ~~~FR~llr~IK~WAK~RGIysn~-~G~LGG~swaLLVa~vcQl~Pn~ 260 (677)
....+.|+|+||+|-+...-.... -+.+.+|++-||+++.-..-.+.
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 367899999999999986555333 34567999999999998765544
No 29
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=93.22 E-value=1.2 Score=48.20 Aligned_cols=113 Identities=24% Similarity=0.259 Sum_probs=71.6
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEe------cCce
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF------DGLS 162 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~------~GI~ 162 (677)
...++.+-||||=|-.+ .+|||+|+..+.... ..++..+...|.+.+.+..+. ..-..-....+ .|+.
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 46899999999999876 579999998876544 256777888888777654321 11111122222 2899
Q ss_pred eeEeeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCc
Q 005778 163 IDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFL 241 (677)
Q Consensus 163 iDLsfa~l~~~~~p~~l~i~~~~~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~L 241 (677)
|||.++.... . .-.++-+-.+ .. -.|-++.||++||..=+..|..
T Consensus 233 VDl~~~p~~~------~------------------------~~all~fTGs-~~---~nr~lR~~A~~~G~~L~~~GL~ 277 (307)
T cd00141 233 VDLRVVPPEE------F------------------------GAALLYFTGS-KQ---FNRALRRLAKEKGLKLNEYGLF 277 (307)
T ss_pred EEEEEeCHHH------H------------------------HHHHHHhhCC-HH---HHHHHHHHHHHcCCeeeccccc
Confidence 9999876311 0 1122222222 22 2466799999999887776664
No 30
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=91.58 E-value=0.33 Score=50.25 Aligned_cols=33 Identities=24% Similarity=0.274 Sum_probs=28.0
Q ss_pred CeEEEEecccc----ccC--cCCCCCeeEEeecCCccCc
Q 005778 90 NALIFTFGSYR----LGV--HGPGADIDALCVGPSYVSR 122 (677)
Q Consensus 90 ~~~I~~FGSy~----lGv--~~p~SDID~l~v~P~~v~r 122 (677)
+..+.+|||+. +|+ -.++||||+++-.|.....
T Consensus 120 g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~~~~~ 158 (221)
T PRK02098 120 GVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPAAAQI 158 (221)
T ss_pred CCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCChhhH
Confidence 57899999999 999 7899999999988765443
No 31
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific. Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.
Probab=90.99 E-value=0.4 Score=48.96 Aligned_cols=33 Identities=27% Similarity=0.272 Sum_probs=28.2
Q ss_pred CeEEEEeccc----cccC--cCCCCCeeEEeecCCccCc
Q 005778 90 NALIFTFGSY----RLGV--HGPGADIDALCVGPSYVSR 122 (677)
Q Consensus 90 ~~~I~~FGSy----~lGv--~~p~SDID~l~v~P~~v~r 122 (677)
+..+.+|||+ .+|+ -.++||||+++-.|.....
T Consensus 108 ~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~~~~~ 146 (202)
T TIGR03135 108 GVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPSPLSL 146 (202)
T ss_pred CCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCChhhH
Confidence 5789999999 8999 7899999999988865543
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=89.55 E-value=1.6 Score=40.46 Aligned_cols=52 Identities=33% Similarity=0.319 Sum_probs=39.3
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCc---cchHHHHHHHHHHhccCCc
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR---EEDFFFILHNILAEMEEVT 141 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~r---e~~Ff~~l~~~L~~~~~v~ 141 (677)
.+..+..-||||=|-.+.+ |||+++..|..... ...++..+.+.|.+..-++
T Consensus 23 p~~~v~i~GSyRRGK~~~g-DiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~i~ 77 (112)
T PF14792_consen 23 PGLEVEICGSYRRGKETSG-DIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGFIT 77 (112)
T ss_dssp TT-EEEEEHHHHTT-SEES-SEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTSEE
T ss_pred CCcEEEEccccccCCCcCC-CeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCeEE
Confidence 4699999999999988765 99999999876552 1368888999998754444
No 33
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=87.34 E-value=3.4 Score=50.83 Aligned_cols=124 Identities=18% Similarity=0.236 Sum_probs=73.1
Q ss_pred hHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhh-C---CCCCHHHHHHHHHHHhhcCC
Q 005778 202 RVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQL-Y---PNAVPSMLVSRFFRVYTMWR 277 (677)
Q Consensus 202 Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl-~---Pn~s~~~LL~~FF~~Ys~wd 277 (677)
|.+..|-.+-..++.|-.++|+-|.|...+=+-+ |.+ ==++-||||...+. + |..++-.=+.+|..+-|+||
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 4444555555567889999999999998875543 222 45567888876643 3 45566667889999999999
Q ss_pred CCC-ceeecccccccCCc--ccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhh
Q 005778 278 WPN-PVMLCAIDEAELGF--SVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTST 330 (677)
Q Consensus 278 W~~-pV~l~~i~~g~lg~--~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sT 330 (677)
|.. |.+++-..+-+-+. ..-+.-...|.....|.|+||-+- .++.++-+..+
T Consensus 882 W~~~PLIvd~nn~~~ed~~~e~~e~f~s~R~~lp~m~vit~yD~-~~~~~t~~~P~ 936 (1121)
T KOG2054|consen 882 WKFDPLIVDFNNGFPEDERSELEEKFISARKQLPPMVVITPYDH-LGSKFTRTSPN 936 (1121)
T ss_pred ccCCceEEEcCCCCcHHHHHHHHHHHhhhcccCCceEEeecccc-ccccccccCch
Confidence 986 76664311000000 000000112223458999999654 33344444444
No 34
>cd05401 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins. Escherichia coli GlnD and -E participate in the Glutamine synthetase (GS)/Glutamate synthase (GOGAT) pathway for the assimilation of ammonium nitrogen. In nitrogen sufficiency, GlnE adenylates GS, reducing GS activity; when nitrogen is limiting, GlnE deadenylates GS-AMP, restoring GS activity. When nitrogen is limiting, GlnD uridylylates the nitrogen regulatory protein PII to PII-UTP, and in nitrogen sufficiency, it removes the modifying groups. The activity of Escherichia coli GlnE is modulated by PII-proteins. PII-UMP promotes GlnE deadenylation activity, and PII promotes GlnE adenylation activity. Escherichia coli GlnE has two separate NT domains. The N-terminal NT domain catalyzes the deadenylylation of GS, and the C-terminal NT domain the adenylylation reaction. The majority of proteins in this family conta
Probab=87.17 E-value=3 Score=40.57 Aligned_cols=48 Identities=23% Similarity=0.275 Sum_probs=36.5
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHh
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~ 136 (677)
...-++.+|||.-|=-.+.||||++++.+........+|..+.+.+.+
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 468999999999999999999999999865432112467666655554
No 35
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=84.65 E-value=27 Score=37.58 Aligned_cols=212 Identities=17% Similarity=0.197 Sum_probs=108.0
Q ss_pred HHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCe
Q 005778 31 DMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADI 110 (677)
Q Consensus 31 d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDI 110 (677)
|-..+++|.+- +.++.|+.+|...=-..+.+++.++.+-+ ..|+- .-.-..|--.|||..|..+-++|.
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 35799999987766666666666665432 12221 111255777899999999988886
Q ss_pred -eEEeecCCccCcc--chHHHHHHHHHHh-cc-CCceEEEeccCccceEEEEe----cCceeeEeeeecccccccccccc
Q 005778 111 -DALCVGPSYVSRE--EDFFFILHNILAE-ME-EVTELQPVLDAHVPVMKFKF----DGLSIDLLYASISRLVVREDLDI 181 (677)
Q Consensus 111 -D~l~v~P~~v~re--~~Ff~~l~~~L~~-~~-~v~~l~~I~~ArVPIIKf~~----~GI~iDLsfa~l~~~~~p~~l~i 181 (677)
|++++-.--.+.| ...=.++.+-|+- ++ ++-. |-+.+--+ ..-.+-|+++. +|+++.-
T Consensus 107 advVViLkTLPt~EaV~aLg~Kv~e~lka~d~~Evlt--------vl~~e~G~~I~s~~~~VRiLIt~-----iP~n~~K 173 (362)
T KOG3793|consen 107 ADLVVILKTLPTLEAVAALGNKVVESLRAQDPSEVLT--------VLTNETGFEISSSDATVRILITT-----VPPNLRK 173 (362)
T ss_pred cceEEEeecCCcHHHHHHHHHHHHHHhhhcChHHHHH--------HHhhccceeeecccceEEEEEee-----cCchhcc
Confidence 6666554333332 0111223333332 11 1111 11111101 12233334333 3433221
Q ss_pred ccccccCCCCcccc-cccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHH-HHHHHHhhC-C
Q 005778 182 SDMSVLNDVDEPTV-RSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWAL-LVARVCQLY-P 258 (677)
Q Consensus 182 ~~~~~L~~lDe~s~-rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaL-LVa~vcQl~-P 258 (677)
-+++-.||-+-+ ..+-.+|-+.+.-+. ......+.|+|++|---.+ +.||--=-.|+| |++++|-+. |
T Consensus 174 --LEP~lHLD~K~M~~~l~a~RH~~WFee~-A~~s~~~~lir~LKDlr~r------~~~F~PLs~W~ldll~h~avmNnp 244 (362)
T KOG3793|consen 174 --LEPELHLDIKVMQSALAAIRHARWFEEN-ASQSTVKVLIRLLKDLRIR------FPGFEPLTPWILDLLGHYAVMNNP 244 (362)
T ss_pred --cChhhhhhHHHHHHHHHHHhhhhhhhhh-hhHHHHHHHHHHHHHHHhh------cCCCCCchHHHHHHHHHHHHHcCC
Confidence 112223332211 122334443333222 2234567788888865443 234533334665 778888653 4
Q ss_pred C---CCHHHHHHHHHHHhhc
Q 005778 259 N---AVPSMLVSRFFRVYTM 275 (677)
Q Consensus 259 n---~s~~~LL~~FF~~Ys~ 275 (677)
+ +.++.-..+||++.+.
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 36
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=83.37 E-value=0.19 Score=53.47 Aligned_cols=25 Identities=32% Similarity=0.480 Sum_probs=22.1
Q ss_pred EeccccccCcCCCCCeeEEeecCCc
Q 005778 95 TFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 95 ~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
.-||..+|++..+||||+++-|+.+
T Consensus 126 VTGSiL~gl~~~nSDIDfVVYG~~~ 150 (315)
T COG1665 126 VTGSILLGLYDENSDIDFVVYGQMW 150 (315)
T ss_pred ccccccccccCCCCCceEEEEcHHH
Confidence 4599999999999999999999543
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=82.53 E-value=9.7 Score=36.38 Aligned_cols=49 Identities=20% Similarity=0.148 Sum_probs=37.6
Q ss_pred cCCeEEEEeccccccCcCCCCCeeEEeecCCccCcc-chHHHHHHHHHHh
Q 005778 88 DANALIFTFGSYRLGVHGPGADIDALCVGPSYVSRE-EDFFFILHNILAE 136 (677)
Q Consensus 88 ~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re-~~Ff~~l~~~L~~ 136 (677)
....-++.+||+.=+=.++.||+|..+|.......+ ..+|..|.+.+..
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 3677766655553
No 38
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=73.93 E-value=12 Score=45.68 Aligned_cols=57 Identities=21% Similarity=0.362 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005778 61 LGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (677)
Q Consensus 61 L~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~ 121 (677)
+.....++..|..++-...|.++ ..+.-|...|.|.=|--.|.||||++++.|...+
T Consensus 41 ~~~~~~~~d~~L~~lw~~~g~~~----~~~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~ 97 (867)
T COG2844 41 IELRTDLVDQLLIRLWQEIGFAD----ASGLALVAVGGYGRGELHPLSDIDLLLLSPQKLT 97 (867)
T ss_pred HHHHHHHHHHHHHHHHHHcCccc----ccceEEEEeccccccccCCCccceEEEecCCCCC
Confidence 34445555666666666777764 3578999999999999999999999999998765
No 39
>PF03281 Mab-21: Mab-21 protein
Probab=70.51 E-value=1.3e+02 Score=31.64 Aligned_cols=93 Identities=15% Similarity=0.122 Sum_probs=62.6
Q ss_pred hhhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhhCCCC------CHHHHHHHHHHHhhcCCCCCceeeccc
Q 005778 214 VEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNA------VPSMLVSRFFRVYTMWRWPNPVMLCAI 287 (677)
Q Consensus 214 ~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pn~------s~~~LL~~FF~~Ys~wdW~~pV~l~~i 287 (677)
....+.+++++|....+.. ...+.|++|++-.++.+.|..+|.. .+++.+.+.+...- +..
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 4567889999999977766 5678899999999999999999876 24444444443322 111
Q ss_pred ccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhhHHHHHHHHH
Q 005778 288 DEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQ 339 (677)
Q Consensus 288 ~~g~lg~~~W~p~~~~~dr~~~MpIiTP~~P~~Nsa~nVs~sTlrvI~~EF~ 339 (677)
.++.+ + .-+.|..|.=.+.+..++..+..++.
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 1 12567888888888777777666554
No 40
>PRK08609 hypothetical protein; Provisional
Probab=70.22 E-value=20 Score=42.09 Aligned_cols=109 Identities=17% Similarity=0.168 Sum_probs=62.3
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEe-cCceeeEee
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF-DGLSIDLLY 167 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~-~GI~iDLsf 167 (677)
...++..-||||=|--+ ..|||+|+..+... .+.+.|.+.+.+.++..-...+.-+ .+.. .|+.|||-+
T Consensus 174 ~~~~v~~~GS~RR~~et-~gDiDili~~~~~~--------~~~~~l~~~~~v~~~~~~g~~~~~~-~~~~~~~~~vDl~~ 243 (570)
T PRK08609 174 EIIRFSRAGSLRRARET-VKDLDFIIATDEPE--------AVREQLLQLPNIVEVIAAGDTKVSV-ELEYEYTISVDFRL 243 (570)
T ss_pred CccEEEeccchhccccc-cCCeeEEEecCCHH--------HHHHHHHcCccHHHHHhcCCceEEE-EEecCCCeEEEEEE
Confidence 35789999999999876 57999999775421 1233344444443321111222211 2332 499999998
Q ss_pred eeccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCChhhHHHHHHHHHHHHHHhCCCCCCCCCc
Q 005778 168 ASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFL 241 (677)
Q Consensus 168 a~l~~~~~p~~l~i~~~~~L~~lDe~s~rSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~L 241 (677)
+.... + .-.++- ...-..| .|-++.||++||+.=|-+|..
T Consensus 244 v~~~~------~------------------------~~aL~y-fTGS~~h---n~~lr~~A~~~g~~l~e~gl~ 283 (570)
T PRK08609 244 VEPEA------F------------------------ATTLHH-FTGSKDH---NVRMRQLAKERGEKISEYGVE 283 (570)
T ss_pred eCHHH------H------------------------HHHHHH-HhccHHH---HHHHHHHHHHcCCcccccccc
Confidence 76311 1 011111 2222222 355689999999988888774
No 41
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=70.12 E-value=54 Score=35.96 Aligned_cols=30 Identities=33% Similarity=0.548 Sum_probs=25.2
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
...++.+-||||=|-.+ ..|||+|+..+..
T Consensus 163 ~~~~v~i~GSyRRgket-~gDIDili~~~~~ 192 (334)
T smart00483 163 PDAIVTLTGSFRRGKET-GHDVDFLITSPHP 192 (334)
T ss_pred CCcEEEEecccccCCCc-CCCeeEEEecCCc
Confidence 36889999999999776 5799999988764
No 42
>PRK05007 PII uridylyl-transferase; Provisional
Probab=69.85 E-value=17 Score=44.81 Aligned_cols=56 Identities=18% Similarity=0.271 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 60 VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
++.....++.++++.+-...+++. ..+.-|...|+|+=|=-.|.||||++++.+..
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 455555566666655544444431 24689999999999999999999999998744
No 43
>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=69.05 E-value=8.7 Score=39.57 Aligned_cols=31 Identities=26% Similarity=0.306 Sum_probs=24.9
Q ss_pred CeEEEEeccccc----cCc--CCCCCeeEEeecCCcc
Q 005778 90 NALIFTFGSYRL----GVH--GPGADIDALCVGPSYV 120 (677)
Q Consensus 90 ~~~I~~FGSy~l----Gv~--~p~SDID~l~v~P~~v 120 (677)
+...-+|||+.. |+. .++||||+++-.+...
T Consensus 116 ~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~~ 152 (213)
T PF10620_consen 116 GLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSPS 152 (213)
T ss_pred CCCEEEehhHHHHHHhCccccCCCCCceEEEeCCChh
Confidence 688999999854 443 5899999999888765
No 44
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=63.61 E-value=26 Score=43.22 Aligned_cols=56 Identities=14% Similarity=0.199 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 60 VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
++.....++..+++++-...+.+. ..+.-|...|+|+=|=-.|.||||++++.+..
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 666666666666665543333221 23589999999999999999999999998743
No 45
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=59.39 E-value=39 Score=37.25 Aligned_cols=49 Identities=31% Similarity=0.482 Sum_probs=38.3
Q ss_pred cCCeEEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhc
Q 005778 88 DANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEM 137 (677)
Q Consensus 88 ~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~ 137 (677)
++++.+..-|||+=| ...+.|||+|+-.|..-+.+...+..+...|.+.
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 4568999999998876553446777777777764
No 46
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=58.14 E-value=31 Score=41.69 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 55 EKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 55 ~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
+.|+.+...-..+++.. +++ .+.-|...|+|.=|=-.|.||||++++.+..
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 2679999999999999999999999999743
No 47
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=57.54 E-value=20 Score=36.98 Aligned_cols=44 Identities=25% Similarity=0.252 Sum_probs=29.8
Q ss_pred CeEEEEeccccc----cCc--CCCCCeeEEeecCCccCccchHHHHHHHHHH
Q 005778 90 NALIFTFGSYRL----GVH--GPGADIDALCVGPSYVSREEDFFFILHNILA 135 (677)
Q Consensus 90 ~~~I~~FGSy~l----Gv~--~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~ 135 (677)
+...-+|||... |+. .++||||+++..|....+ +-+..+.+.|.
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 589999999999876654 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=56.59 E-value=1.5e+02 Score=30.98 Aligned_cols=63 Identities=22% Similarity=0.184 Sum_probs=35.1
Q ss_pred HHHhhcCCCccc-cccCCeEEEEeccccccCcCCCCCeeEEeecCCccCc------cchHHHHHHHHHHh
Q 005778 74 ELTRLRGYSDQM-VEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR------EEDFFFILHNILAE 136 (677)
Q Consensus 74 ~v~~~~g~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~r------e~~Ff~~l~~~L~~ 136 (677)
++....|.+... ....+..|.-.|-+.-+=-..+||||++++.+..-.. ...||..+.+.+.+
T Consensus 110 ~~~~~~G~p~~~~~~~~~~~ViamGKlGg~ELny~SDiDLifvy~~~~~~~~~~~~~~~~~~rl~~~~~~ 179 (247)
T PF03710_consen 110 ELAARYGRPPDEDGEPAGFAVIAMGKLGGRELNYSSDIDLIFVYDPDGETGRRSISNQEFFTRLAQRLIR 179 (247)
T ss_dssp HHHHHCTSCCCCTTCC-SEEEEE-HHHHTT---TT--EEEEEEE---TT-SSS-SBHHHHHHHHHHHHHH
T ss_pred HHHHHcCCCCcccCCcCCeEEEEeccccccccCCccCCceEEEeccccccccChhhHHHHHHHHHHHHHH
Confidence 344555665321 1123688888998888888999999999998643221 13688888777664
No 49
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=56.11 E-value=33 Score=34.41 Aligned_cols=80 Identities=21% Similarity=0.192 Sum_probs=46.0
Q ss_pred CeEEEEeccccc----cCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhcc-CCceEEEeccCccceEEEEecCceee
Q 005778 90 NALIFTFGSYRL----GVHGPGADIDALCVGPSYVSREEDFFFILHNILAEME-EVTELQPVLDAHVPVMKFKFDGLSID 164 (677)
Q Consensus 90 ~~~I~~FGSy~l----Gv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~-~v~~l~~I~~ArVPIIKf~~~GI~iD 164 (677)
+.+.+..|++++ |.--...|||+.+..+.... +.+++..+..... .+ +-+.+ ...-.++++...++.||
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 567899999865 55567899999887764432 2244444332111 11 11111 22334556666899999
Q ss_pred Eeeeeccccccc
Q 005778 165 LLYASISRLVVR 176 (677)
Q Consensus 165 Lsfa~l~~~~~p 176 (677)
| +.++....+|
T Consensus 90 l-~~ni~~~~v~ 100 (181)
T PF09970_consen 90 L-LENIGDFYVP 100 (181)
T ss_pred c-hhccCCcccC
Confidence 9 5555544444
No 50
>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=55.86 E-value=11 Score=39.22 Aligned_cols=27 Identities=26% Similarity=0.214 Sum_probs=23.1
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecC
Q 005778 91 ALIFTFGSYRLGVHGPGADIDALCVGP 117 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P 117 (677)
.-...+||.+-|+.+|+||.|+-.|.-
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 455678999999999999999987654
No 51
>PRK04374 PII uridylyl-transferase; Provisional
Probab=50.09 E-value=96 Score=38.53 Aligned_cols=55 Identities=18% Similarity=0.245 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 60 VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
++..+..++..+++.+-.... + ...+.-|...|+|+=|=-.|.||||++++.+..
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 444444455555544332222 1 123588999999999999999999999998743
No 52
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=50.03 E-value=61 Score=40.27 Aligned_cols=31 Identities=32% Similarity=0.385 Sum_probs=28.0
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
.+..|...|.|+=|--.|.||||++++.+..
T Consensus 77 ~~~alvAvGgyGR~EL~p~SDiDll~l~~~~ 107 (895)
T PRK00275 77 ADIALVAVGGYGRGELHPYSDIDLLILLDSA 107 (895)
T ss_pred CCEEEEEcCCccccCcCCCCCceEEEEecCC
Confidence 3589999999999999999999999998754
No 53
>PRK03059 PII uridylyl-transferase; Provisional
Probab=49.21 E-value=38 Score=41.78 Aligned_cols=54 Identities=24% Similarity=0.369 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCC
Q 005778 59 QVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPS 118 (677)
Q Consensus 59 ~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~ 118 (677)
+++..+..++..+++.+-...+.+ .+.-|...|+|+=|--.|.||||++++.+.
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 356666666666665543332222 357999999999999999999999999863
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=48.00 E-value=64 Score=39.69 Aligned_cols=31 Identities=26% Similarity=0.389 Sum_probs=27.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~ 119 (677)
.+.-|...|||+=|=-.|.||||++++.+..
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 4688999999999999999999999998743
No 55
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=47.47 E-value=33 Score=35.62 Aligned_cols=28 Identities=29% Similarity=0.430 Sum_probs=23.5
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCC
Q 005778 91 ALIFTFGSYRLGVHGPGADIDALCVGPS 118 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~ 118 (677)
..-+.+||.+.|=--|+||+|+.+..|-
T Consensus 38 ie~~v~gSvarGDV~p~SDvDV~I~~~v 65 (228)
T COG2413 38 IEAVVYGSVARGDVRPGSDVDVAIPEPV 65 (228)
T ss_pred chhEEEeeeeccCcCCCCCceEEEecCC
Confidence 3456789999998889999999997743
No 56
>PRK03381 PII uridylyl-transferase; Provisional
Probab=45.48 E-value=52 Score=40.17 Aligned_cols=29 Identities=14% Similarity=0.166 Sum_probs=27.0
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecC
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGP 117 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P 117 (677)
...-|...|+|+=|--.|.||||++++.+
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 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=40.18 E-value=44 Score=32.71 Aligned_cols=65 Identities=20% Similarity=0.408 Sum_probs=32.4
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCC---CCee
Q 005778 38 LEKFLVEAGLYESKEEDEKREQV---LGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPG---ADID 111 (677)
Q Consensus 38 L~~~L~~~~l~pS~EE~~~R~~V---L~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~---SDID 111 (677)
..+.|..+++..-.++...|..| +..+..++++.+++ + +-....||||.+-+--|+ .|||
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 34566667777666777777765 44555566666653 1 345788999988776654 7999
Q ss_pred EEeec
Q 005778 112 ALCVG 116 (677)
Q Consensus 112 ~l~v~ 116 (677)
++=..
T Consensus 75 ilqTN 79 (149)
T PF03296_consen 75 ILQTN 79 (149)
T ss_dssp EEEST
T ss_pred hhhcc
Confidence 96543
No 58
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=39.77 E-value=64 Score=35.58 Aligned_cols=70 Identities=24% Similarity=0.224 Sum_probs=55.8
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccCccchHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeee
Q 005778 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYAS 169 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re~~Ff~~l~~~L~~~~~v~~l~~I~~ArVPIIKf~~~GI~iDLsfa~ 169 (677)
.++-.-||.|=|-.+ .+|||++|..... . . +.+.|.+++++.++.+-.+.+|-++.--..|++||+-++.
T Consensus 181 ~~~~~aGs~RR~ret-v~DiD~~~s~~~~-~---~----v~~~~~~~~~~~~vi~~G~~k~s~~~~~~~~~svD~r~v~ 250 (326)
T COG1796 181 IQASIAGSLRRGRET-VGDIDILISTSHP-E---S----VLEELLEMPNVQEVIAKGETKVSMLLILDEGTSVDFRVVP 250 (326)
T ss_pred heeeeccchhhcccc-ccceeeEeccCCc-H---H----HHHHHhcCCCcceeeecCCceeeEEEEecCCCeeEEEEcC
Confidence 566777999988776 6899998865332 1 1 5666777899999999999999998888899999998765
No 59
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=37.08 E-value=82 Score=39.71 Aligned_cols=48 Identities=19% Similarity=0.169 Sum_probs=37.2
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccC-cc---chHHHHHHHHHHh
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVS-RE---EDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~-re---~~Ff~~l~~~L~~ 136 (677)
.+.-|..+|+|.=+=-++.||||++++...... .+ ..||..+.+.+..
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 11 2688888777765
No 60
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=36.60 E-value=17 Score=38.51 Aligned_cols=20 Identities=35% Similarity=0.408 Sum_probs=17.6
Q ss_pred eccccccCcCCCCCeeEEee
Q 005778 96 FGSYRLGVHGPGADIDALCV 115 (677)
Q Consensus 96 FGSy~lGv~~p~SDID~l~v 115 (677)
=||+.-|+..|+||+|+=-|
T Consensus 16 sGS~~yGf~spdSDyDvR~V 35 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVRGV 35 (248)
T ss_pred ccccccCCCCCCCccceeeE
Confidence 49999999999999998544
No 61
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=36.54 E-value=1.2e+02 Score=38.18 Aligned_cols=48 Identities=13% Similarity=0.066 Sum_probs=36.7
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCcc----chHHHHHHHHHHh
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSRE----EDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~re----~~Ff~~l~~~L~~ 136 (677)
.+.-|..+|+|.-+=-.++||||++++.+...... ..||..+.+.|..
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 62
>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=32.06 E-value=37 Score=25.50 Aligned_cols=31 Identities=19% Similarity=0.429 Sum_probs=24.4
Q ss_pred hHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 005778 35 NRELEKFLVEAGLYESKEEDEKREQVLGRIRQ 66 (677)
Q Consensus 35 t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~ 66 (677)
+.+|.+.|+++|+..++.. ..|+++|+.++.
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 4679999999998776554 678888887764
No 63
>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=30.56 E-value=21 Score=38.07 Aligned_cols=20 Identities=45% Similarity=0.719 Sum_probs=17.1
Q ss_pred cChhhhhhhhhHHHHHHHHH
Q 005778 379 ANADDLLAWKGWVESRLRQL 398 (677)
Q Consensus 379 ~~~e~~~~w~GwVESrlR~L 398 (677)
+|.-+...++||||||+-.+
T Consensus 96 Sn~~EGAVLKGWVESRFGL~ 115 (262)
T PF07357_consen 96 SNSPEGAVLKGWVESRFGLL 115 (262)
T ss_pred CCChhhhhhhhhhhhccCcC
Confidence 46778899999999999755
No 64
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=30.12 E-value=29 Score=38.32 Aligned_cols=25 Identities=28% Similarity=0.307 Sum_probs=21.6
Q ss_pred EEEEeccccccCcCCCCCeeEEeec
Q 005778 92 LIFTFGSYRLGVHGPGADIDALCVG 116 (677)
Q Consensus 92 ~I~~FGSy~lGv~~p~SDID~l~v~ 116 (677)
-+..+||...|+.+|+||+|.--|+
T Consensus 5 ~~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 5 MKGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEEecccceeCCCCCCcccccceee
Confidence 3567999999999999999997655
No 65
>PRK05092 PII uridylyl-transferase; Provisional
Probab=27.86 E-value=1.2e+02 Score=37.81 Aligned_cols=30 Identities=33% Similarity=0.583 Sum_probs=27.3
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCC
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPS 118 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~ 118 (677)
.+..|...|.|+-|--.|.||||++++.+.
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=27.22 E-value=2e+02 Score=36.26 Aligned_cols=48 Identities=25% Similarity=0.287 Sum_probs=35.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc-cC----c---cchHHHHHHHHHHh
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY-VS----R---EEDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~-v~----r---e~~Ff~~l~~~L~~ 136 (677)
.+..|+-.|-|.-+=-.+.||||++++.+.. .+ + ...||..+.+.|-.
T Consensus 153 ~~~aViamGKlG~~ELn~~SDIDLifly~~~~~~~~~~~~~~~~~~f~rl~q~li~ 208 (943)
T PRK11072 153 QPLLILGMGKLGGRELNFSSDIDLIFTYPEHGETQGGRRSIDNQQFFTRLGQRLIK 208 (943)
T ss_pred CCEEEEEeccccCccCCCccCCceEEEeCCCCCCCCCcccchHHHHHHHHHHHHHH
Confidence 4678888898888888999999999998733 11 1 03688888766654
No 67
>COG1391 GlnE Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]
Probab=26.88 E-value=4.9e+02 Score=32.88 Aligned_cols=47 Identities=23% Similarity=0.294 Sum_probs=28.5
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccCc------cchHHHHHHHHHHh
Q 005778 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVSR------EEDFFFILHNILAE 136 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v~r------e~~Ff~~l~~~L~~ 136 (677)
+..|.--|-..-+==.=+||||++.+.|..-.. ..+||+.+.+.|-+
T Consensus 173 ~l~VlgMGKlGa~ELNysSDIDlIf~y~~~~~t~g~~~dn~~fFtRl~qrLIr 225 (963)
T COG1391 173 GLLVLGMGKLGARELNYSSDIDLIFVYPESGPTQGGELDNAEFFTRLGQRLIR 225 (963)
T ss_pred ceEEEeccccCccccccccccceEEEeCCCCCccCCccchHHHHHHHHHHHHH
Confidence 344444333332222458999999998765433 13599988777665
No 68
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=24.21 E-value=2.3e+02 Score=35.68 Aligned_cols=61 Identities=11% Similarity=0.250 Sum_probs=40.8
Q ss_pred HHhhcCCCccc-cccCCeEEEEeccccccCcCCCCCeeEEeecCCc----------cCccchHHHHHHHHHHh
Q 005778 75 LTRLRGYSDQM-VEDANALIFTFGSYRLGVHGPGADIDALCVGPSY----------VSREEDFFFILHNILAE 136 (677)
Q Consensus 75 v~~~~g~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~----------v~re~~Ff~~l~~~L~~ 136 (677)
++...|.+... ....+..|.-+|-+.-+=-+-+||||++.+.... ..- ..||..+.+.|.+
T Consensus 665 l~~~~G~p~~~~~~~~~~aViamGKlGg~EL~y~SDlDlifvy~~~~~~~t~g~~~~~~-~~~~~rl~qrli~ 736 (943)
T PRK11072 665 MVKRHGEPPHLEGRERGFAVIGYGKLGGKELGYASDLDLVFLHDCPEDAMTDGDKSIDG-RQFYLRLAQRIIH 736 (943)
T ss_pred HHHHhCCCCCccCCCCCEEEEeecCccCCccCCcccceEEEEeecCccccCCCCCcccH-HHHHHHHHHHHHH
Confidence 34456765321 1123578888888887777889999999998511 111 3689988887775
No 69
>PRK14108 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=22.51 E-value=7.4e+02 Score=31.51 Aligned_cols=48 Identities=19% Similarity=0.270 Sum_probs=35.7
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCcc-C--cc---chHHHHHHHHHHh
Q 005778 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYV-S--RE---EDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDID~l~v~P~~v-~--re---~~Ff~~l~~~L~~ 136 (677)
.+..|.-.|-|.-+=-.++||||++++.+... + +. ..||..+.+.|-.
T Consensus 185 ~~~aViamGklGg~ELn~~SDiDLifly~~~~~~~~~~~~~~~~~~rl~q~li~ 238 (986)
T PRK14108 185 SGLIVLGMGKLGAGELNYSSDIDLIVFFDETAPILGDPIEAQPFFVRLTRRLVR 238 (986)
T ss_pred CCeEEEeeccccccccCCCCCCceEEEeCCCCCCccccchHHHHHHHHHHHHHH
Confidence 35789999999988889999999999987322 1 11 2588887776654
Done!