Query 005795
Match_columns 677
No_of_seqs 260 out of 764
Neff 4.9
Searched_HMMs 46136
Date Thu Mar 28 13:50:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005795.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005795hhsearch_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-143 5E-148 1155.8 41.3 491 1-500 1-501 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 6E-136 1E-140 1134.6 52.8 485 11-499 47-542 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 4E-124 8E-129 974.7 33.4 480 13-497 4-527 (552)
4 PF04928 PAP_central: Poly(A) 100.0 3.4E-74 7.3E-79 591.0 21.1 254 13-362 1-254 (254)
5 COG5260 TRF4 DNA polymerase si 100.0 6.8E-31 1.5E-35 285.8 24.6 265 30-347 53-342 (482)
6 PF04926 PAP_RNA-bind: Poly(A) 100.0 4E-32 8.6E-37 260.3 9.2 135 363-498 1-156 (157)
7 KOG1906 DNA polymerase sigma [ 100.0 1.5E-28 3.2E-33 272.5 23.9 268 28-347 57-341 (514)
8 cd05402 NT_PAP_TUTase Nucleoti 99.8 5.2E-19 1.1E-23 159.9 13.3 110 56-210 1-113 (114)
9 KOG2277 S-M checkpoint control 99.7 7.9E-17 1.7E-21 182.8 20.7 251 49-348 127-431 (596)
10 TIGR03671 cca_archaeal CCA-add 99.6 4.5E-13 9.7E-18 146.5 29.3 343 39-461 3-364 (408)
11 PRK13300 tRNA CCA-pyrophosphor 99.6 7.3E-13 1.6E-17 146.6 31.0 305 38-412 3-324 (447)
12 COG1746 CCA1 tRNA nucleotidylt 99.2 8.3E-09 1.8E-13 112.8 28.3 307 36-415 5-328 (443)
13 PF03813 Nrap: Nrap protein; 99.2 8.7E-09 1.9E-13 124.4 28.3 349 98-460 1-425 (972)
14 KOG2054 Nucleolar RNA-associat 98.3 1.7E-05 3.6E-10 94.1 16.5 291 91-392 148-479 (1121)
15 smart00572 DZF domain in DSRM 98.2 4.2E-05 9E-10 79.5 16.7 215 93-346 5-230 (246)
16 cd05400 NT_2-5OAS_ClassI-CCAas 97.8 0.00021 4.6E-09 67.1 11.1 77 90-169 27-110 (143)
17 cd05397 NT_Pol-beta-like Nucle 97.6 0.00011 2.4E-09 58.3 4.8 26 90-115 17-42 (49)
18 PF03828 PAP_assoc: Cid1 famil 97.6 4.2E-05 9E-10 62.1 2.4 56 261-319 1-59 (60)
19 PF09249 tRNA_NucTransf2: tRNA 97.5 0.00037 8E-09 64.7 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; 97.3 0.0027 5.9E-08 77.7 13.8 157 200-361 668-839 (972)
22 cd05403 NT_KNTase_like Nucleot 97.0 0.0011 2.4E-08 56.7 4.9 32 90-121 18-49 (93)
23 PF14091 DUF4269: Domain of un 96.2 0.042 9.1E-07 53.8 10.6 118 92-236 17-144 (152)
24 COG1669 Predicted nucleotidylt 95.5 0.059 1.3E-06 49.1 7.5 47 57-119 7-53 (97)
25 PF07528 DZF: DZF domain; Int 95.4 0.6 1.3E-05 49.2 15.8 210 96-346 2-232 (248)
26 COG1708 Predicted nucleotidylt 94.7 0.17 3.6E-06 45.5 8.5 28 90-117 26-53 (128)
27 PRK13746 aminoglycoside resist 94.5 0.073 1.6E-06 56.4 6.3 31 91-121 29-59 (262)
28 PF10421 OAS1_C: 2'-5'-oligoad 94.3 0.068 1.5E-06 54.1 5.2 47 214-260 41-88 (190)
29 cd00141 NT_POLXc Nucleotidyltr 93.2 1.1 2.4E-05 48.3 12.5 113 89-241 159-277 (307)
30 PRK02098 phosphoribosyl-dephos 92.1 0.28 6E-06 50.8 5.9 32 90-121 120-157 (221)
31 TIGR03135 malonate_mdcG holo-A 91.5 0.34 7.3E-06 49.5 5.7 33 90-122 108-146 (202)
32 PF14792 DNA_pol_B_palm: DNA p 89.3 1.7 3.7E-05 40.3 7.8 53 89-142 23-78 (112)
33 cd05401 NT_GlnE_GlnD_like Nucl 88.2 2.5 5.4E-05 41.1 8.6 48 89-136 54-101 (172)
34 PF03445 DUF294: Putative nucl 83.8 9.5 0.0002 36.5 9.9 49 88-136 47-96 (138)
35 COG1665 Predicted nucleotidylt 82.0 0.23 5.1E-06 52.7 -1.9 26 94-119 125-150 (315)
36 KOG2054 Nucleolar RNA-associat 81.0 7.8 0.00017 47.9 9.8 122 202-330 806-936 (1121)
37 KOG3793 Transcription factor N 76.5 37 0.0008 36.6 12.0 212 31-275 38-264 (362)
38 COG2844 GlnD UTP:GlnB (protein 76.1 9.6 0.00021 46.3 8.5 58 61-122 41-98 (867)
39 smart00483 POLXc DNA polymeras 74.7 44 0.00095 36.7 12.7 30 89-119 163-192 (334)
40 PF10620 MdcG: Phosphoribosyl- 74.5 5.6 0.00012 40.9 5.5 31 90-120 116-152 (213)
41 PRK05007 PII uridylyl-transfer 70.9 16 0.00035 45.1 9.1 56 60-119 54-109 (884)
42 PRK08609 hypothetical protein; 70.6 19 0.00042 42.3 9.3 108 90-241 175-283 (570)
43 PF03281 Mab-21: Mab-21 protei 69.7 1.5E+02 0.0033 31.2 15.2 96 214-339 190-288 (292)
44 PRK01759 glnD PII uridylyl-tra 67.1 21 0.00045 44.0 8.9 56 60-119 30-85 (854)
45 PRK01293 phosphoribosyl-dephos 63.2 14 0.00031 38.1 5.6 44 90-135 109-158 (207)
46 PF09970 DUF2204: Nucleotidyl 62.5 23 0.0005 35.5 6.8 80 90-176 16-100 (181)
47 PF03710 GlnE: Glutamate-ammon 61.2 27 0.00058 36.6 7.3 62 75-136 111-179 (247)
48 PRK00227 glnD PII uridylyl-tra 60.0 28 0.0006 42.0 8.0 51 55-119 6-56 (693)
49 PF10127 Nuc-transf: Predicted 56.6 10 0.00022 39.3 3.3 27 91-117 21-47 (247)
50 PRK03059 PII uridylyl-transfer 55.8 40 0.00087 41.6 8.6 54 59-118 36-89 (856)
51 PRK00275 glnD PII uridylyl-tra 54.9 46 0.001 41.3 8.9 57 60-120 52-108 (895)
52 TIGR01693 UTase_glnD [Protein- 53.5 46 0.00099 40.9 8.6 31 89-119 42-72 (850)
53 PRK04374 PII uridylyl-transfer 52.7 51 0.0011 40.8 8.8 54 60-118 47-100 (869)
54 PRK03381 PII uridylyl-transfer 52.2 49 0.0011 40.4 8.5 29 89-117 56-84 (774)
55 COG2413 Predicted nucleotidylt 50.9 27 0.00058 36.2 5.1 28 91-118 38-65 (228)
56 KOG2534 DNA polymerase IV (fam 50.7 66 0.0014 35.5 8.2 49 88-137 169-217 (353)
57 COG1796 POL4 DNA polymerase IV 43.7 51 0.0011 36.3 6.1 70 91-169 181-250 (326)
58 PF03296 Pox_polyA_pol: Poxvir 41.2 42 0.00091 32.9 4.5 78 38-135 9-92 (149)
59 PRK14109 bifunctional glutamin 40.4 1E+02 0.0022 39.0 8.8 48 89-136 214-265 (1007)
60 PRK14109 bifunctional glutamin 39.9 71 0.0015 40.3 7.4 48 89-136 722-773 (1007)
61 COG3541 Predicted nucleotidylt 39.3 15 0.00031 39.0 1.2 21 96-116 16-36 (248)
62 PF10281 Ish1: Putative stress 35.4 33 0.00071 25.8 2.3 31 35-66 6-36 (38)
63 PRK05092 PII uridylyl-transfer 32.5 1.5E+02 0.0034 36.9 8.7 31 89-119 104-134 (931)
64 PF07357 DRAT: Dinitrogenase r 31.6 20 0.00043 38.3 0.7 20 379-398 96-115 (262)
65 PHA02603 nrdC.11 hypothetical 30.5 28 0.00061 38.4 1.7 25 92-116 5-29 (330)
66 PRK11072 bifunctional glutamin 28.8 1.7E+02 0.0038 36.7 8.2 48 89-136 153-208 (943)
67 COG1391 GlnE Glutamine synthet 27.7 4.8E+02 0.01 33.0 11.3 47 90-136 173-225 (963)
68 PRK11072 bifunctional glutamin 25.3 2.2E+02 0.0048 35.8 8.2 60 76-136 666-736 (943)
69 PRK14108 bifunctional glutamin 24.7 3.6E+02 0.0079 34.2 9.9 48 89-136 185-238 (986)
70 PF12633 Adenyl_cycl_N: Adenyl 20.9 1.5E+02 0.0032 30.9 4.6 32 91-122 98-129 (204)
71 PF07789 DUF1627: Protein of u 20.5 48 0.001 32.8 1.1 43 323-372 110-152 (155)
No 1
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=100.00 E-value=2.4e-143 Score=1155.83 Aligned_cols=491 Identities=54% Similarity=0.942 Sum_probs=465.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 005795 1 MSSSERMSSPPPPKQYGVTKPISMAGPTEADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRG 80 (677)
Q Consensus 1 ~~~~~~~~~~~~~~~~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 44444 33333469999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecC
Q 005795 81 YSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDG 160 (677)
Q Consensus 81 ~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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 ceeeEeeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCC
Q 005795 161 LSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGF 240 (677)
Q Consensus 161 I~iDLsfa~l~~~~~p~~l~l~~d~~L~~lDe~svrSLNG~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 005795 241 LGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCM 320 (677)
Q Consensus 241 LGG~swaLLVa~vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~l~~~~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 005795 321 NSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTL 400 (677)
Q Consensus 321 Nsa~nVs~stl~vI~~Ef~RA~~il~~i~~~~~~W~~Lfep~~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 HhhhcccCceeeccCCCCCCCCCCC----CceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHh----hccccCCc-
Q 005795 401 MIERDTYGKLQCHPYPHEYVDTSKP----CAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSIN----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 999954 678899999999876532 346689999987654 34999999999999887 55677899
Q ss_pred -eEEEEEeeccCCCCCCcCCCCccccCCCc
Q 005795 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=6.2e-136 Score=1134.58 Aligned_cols=485 Identities=42% Similarity=0.788 Sum_probs=460.1
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCC
Q 005795 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 45778999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeec
Q 005795 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASI 170 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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-ccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHH
Q 005795 171 SRLVVREDLDISDMS-VLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALL 249 (677)
Q Consensus 171 ~~~~~p~~l~l~~d~-~L~~lDe~svrSLNG~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 005795 250 VARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDE-----AELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSY 324 (677)
Q Consensus 250 Va~vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~-----g~l~~~~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 9999999999999999999999999999999999998875 67889999999999999999999999999999999
Q ss_pred ccCHhHHHHHHHHHHHHHHHHHHhhh-cCCCccccccccchhhhcccEEEEEEEeCChhhhhhhhhHHHHHHHHHHHHhh
Q 005795 325 NVSTSTLRVMMDQFQYGNTICEEVEL-NKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIE 403 (677)
Q Consensus 325 nVs~stl~vI~~Ef~RA~~il~~i~~-~~~~W~~Lfep~~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 005795 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 356789999999876542 23358999999999999999886 3678899999999
Q ss_pred ccCCCCCCcCCCCccccCCC
Q 005795 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=3.9e-124 Score=974.68 Aligned_cols=480 Identities=42% Similarity=0.754 Sum_probs=458.4
Q ss_pred CCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeE
Q 005795 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 EEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccc
Q 005795 93 IFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISR 172 (677)
Q Consensus 93 I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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 cccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHH
Q 005795 173 LVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVAR 252 (677)
Q Consensus 173 ~~~p~~l~l~~d~~L~~lDe~svrSLNG~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 005795 253 VCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLR 332 (677)
Q Consensus 253 vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~ 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 005795 333 VMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQC 412 (677)
Q Consensus 333 vI~~Ef~RA~~il~~i~~~~~~W~~Lfep~~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 005795 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 1255689999998653 235689
Q ss_pred cchHHHHHHHHHHhhcccc-CCceEEEEEeeccCCCCCCcCCCCccccC
Q 005795 450 DIRGSVEEFKLSINMYMFW-KPGMEICVSHIRRKQIPPYVFPEGYKRTR 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 9999999999999999655 47899999999999999999999986643
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=3.4e-74 Score=590.98 Aligned_cols=254 Identities=59% Similarity=1.048 Sum_probs=204.1
Q ss_pred CCCCCCCCCCCCCCCCHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeE
Q 005795 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 47999999999999999999999999999999999999999999999999999999999863
Q ss_pred EEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccc
Q 005795 93 IFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISR 172 (677)
Q Consensus 93 I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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 cccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHH
Q 005795 173 LVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVAR 252 (677)
Q Consensus 173 ~~~p~~l~l~~d~~L~~lDe~svrSLNG~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 005795 253 VCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLR 332 (677)
Q Consensus 253 vcQl~Pn~s~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~ 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 99999999999999999999999999999999999888899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCcccccccc
Q 005795 333 VMMDQFQYGNTICEEVELNKAQWSALFEPY 362 (677)
Q Consensus 333 vI~~Ef~RA~~il~~i~~~~~~W~~Lfep~ 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=99.97 E-value=6.8e-31 Score=285.79 Aligned_cols=265 Identities=21% Similarity=0.256 Sum_probs=212.2
Q ss_pred HHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCC
Q 005795 30 ADMQRNRELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGAD 109 (677)
Q Consensus 30 ~d~~~t~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SD 109 (677)
....++.+|.+++. .+.|+.+|.++|.+.|++|++++++- ++ .+.+++|||+.+|+++|+||
T Consensus 53 ~~~~lt~el~~~y~--~I~ps~eEl~~R~~~leklr~~lk~~--------------~p--da~l~vFGS~~t~L~l~~SD 114 (482)
T COG5260 53 ESDELTSELLEFYD--YIAPSDEELKRRKALLEKLRTLLKKE--------------FP--DADLKVFGSTETGLALPKSD 114 (482)
T ss_pred hHHHHHHHHHHHHH--hhCCCHHHHHHHHHHHHHHHHHHHHh--------------CC--ccceeEecccccccccCccc
Confidence 33456666666665 47899999999999999999999852 23 35999999999999999999
Q ss_pred eeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEe--cCceeeEeeeecccccccccccccccccc
Q 005795 110 IDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISDMSVL 187 (677)
Q Consensus 110 IDil~v~P~~v~re~dFf~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~~p~~l~l~~d~~L 187 (677)
||++++.+....++..-...++..|.......++.+|..|+||||||.. .|+.|||+|++
T Consensus 115 iDl~I~s~~~~~~et~~~~~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~------------------ 176 (482)
T COG5260 115 IDLCIISDPRGYKETRNAGSLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNN------------------ 176 (482)
T ss_pred ccEEEecCCccccccccHHHHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCc------------------
Confidence 9999999776665422222455555555677889999999999999998 69999999998
Q ss_pred CCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhhCCC--------
Q 005795 188 NDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPN-------- 259 (677)
Q Consensus 188 ~~lDe~svrSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pn-------- 259 (677)
-+|++.|..++.++-.++++|+|+.+||+||++|.++++.+|+|+||++++||..++|++|.
T Consensus 177 ----------~~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~ 246 (482)
T COG5260 177 ----------TNGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGL 246 (482)
T ss_pred ----------hhHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCccccccccc
Confidence 36889999999999999999999999999999999999999999999999999999999981
Q ss_pred ----------CCHHHHHHHHHHHhh-cCCCCCceeeccccccc-CC--cccccCCCCCCCCCCceEEeCCC-CCCCCccC
Q 005795 260 ----------AVPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAE-LG--FSVWDPRKNRRDKTHHMPIITPA-YPCMNSSY 324 (677)
Q Consensus 260 ----------~s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~-l~--~~~W~p~~~~~dr~~~MpIitP~-~P~~Nsa~ 324 (677)
..++.|+..||++|+ .|+|..-++...-. +. +. -..|--.. + ...++|++|. .+..++
T Consensus 247 ~~~l~~~~~~~~lgvLf~dFf~~yG~~f~Y~~~~~si~~g-~~~~~K~e~g~~~~~--~--p~~LsiqdP~td~n~~~-- 319 (482)
T COG5260 247 LSPLKYNKNIDNLGVLFDDFFELYGKSFNYSLVVLSINSG-DFYLPKYEKGWLKPS--K--PNSLSIQDPGTDRNNDI-- 319 (482)
T ss_pred cchhhccccccccchHHHHHHHHhccccChhheEEEecCC-ceeeehhhccccccc--C--CCcEeecCCCCCccccc--
Confidence 247999999999999 59998766543322 11 11 13443211 1 2689999999 554433
Q ss_pred ccCHhHHHHHHHHHHHHHHHHHH
Q 005795 325 NVSTSTLRVMMDQFQYGNTICEE 347 (677)
Q Consensus 325 nVs~stl~vI~~Ef~RA~~il~~ 347 (677)
....-+.+.|+.+|.+|.+++.+
T Consensus 320 ~a~s~~ik~i~~~F~~aF~lls~ 342 (482)
T COG5260 320 SAVSFNIKDIKAAFIRAFELLSN 342 (482)
T ss_pred ccccchHHHHHHHHHHHHHHHhh
Confidence 33345799999999999999987
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=260.33 Aligned_cols=135 Identities=36% Similarity=0.714 Sum_probs=104.8
Q ss_pred chhhhcccEEEEEEEeCChhhhhhhhhHHHHHHHHHHHHhhhcccCceeeccCCCCCC------------------CCCC
Q 005795 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 005795 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 3578899999999876543334579999999999999999754 6688999999999999999999999988765
No 7
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=99.96 E-value=1.5e-28 Score=272.48 Aligned_cols=268 Identities=22% Similarity=0.311 Sum_probs=210.5
Q ss_pred CHHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCC
Q 005795 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 4444556667777776 58899999999999999999999721 2 3699999999999999999
Q ss_pred CCeeEEeecCCccCchhhHHHHHHHHHHh--ccCCceEEEeccCccceEEEEe--cCceeeEeeeecccccccccccccc
Q 005795 108 ADIDALCVGPSYVSREEDFFFILHNILAE--MEEVTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISD 183 (677)
Q Consensus 108 SDIDil~v~P~~v~re~dFf~~l~~~L~~--~~~V~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~~p~~l~l~~ 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 555555444443 2333568889999999999997 79999999998
Q ss_pred ccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhhCCCC---
Q 005795 184 MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNA--- 260 (677)
Q Consensus 184 d~~L~~lDe~svrSLNG~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 479999999999999999999999999999999999999999999999999999999999864
Q ss_pred ------CHHHHHHHHHHHhh-cCCCCC-ceeecccccccCC--cccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhH
Q 005795 261 ------VPSMLVSRFFRVYT-MWRWPN-PVMLCAIDEAELG--FSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTST 330 (677)
Q Consensus 261 ------s~~~LL~~FF~~Ys-~wdW~~-pV~l~~i~~g~l~--~~~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 36789999999999 566654 233221111 011 11121 1222345679999999997665532 245
Q ss_pred HHHHHHHHHHHHHHHHH
Q 005795 331 LRVMMDQFQYGNTICEE 347 (677)
Q Consensus 331 l~vI~~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 88899999999988876
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=5.2e-19 Score=159.93 Aligned_cols=110 Identities=39% Similarity=0.751 Sum_probs=97.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc-cCchhhHHHHHHHHH
Q 005795 56 KREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY-VSREEDFFFILHNIL 134 (677)
Q Consensus 56 ~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~-v~re~dFf~~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 38899999999999862 3689999999999999999999999999986 333 58999999999
Q ss_pred HhccCCceEEEeccCccceEEEEec--CceeeEeeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHh
Q 005795 135 AEMEEVTELQPVLDAHVPVMKFKFD--GLSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKL 210 (677)
Q Consensus 135 ~~~~~V~~l~~I~~ArVPIIKf~~~--GI~iDLsfa~l~~~~~p~~l~l~~d~~L~~lDe~svrSLNG~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 9988888999999999999999997 9999999997 4788988887765
No 9
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.74 E-value=7.9e-17 Score=182.82 Aligned_cols=251 Identities=22% Similarity=0.293 Sum_probs=190.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCccCc-----h
Q 005795 49 ESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR-----E 123 (677)
Q Consensus 49 pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~r-----e 123 (677)
+...+...|...+..++.++..-+ +.....+..|||..+|+....+|+|+++........ .
T Consensus 127 ~~~~~~~~~~~~~~~l~~~~~~~~--------------p~~~~~~~~~gs~~~~~~~~~~d~d~~~~~~~~~~~~~~~~~ 192 (596)
T KOG2277|consen 127 LPHSDVKTRKLILDKLRALASLLF--------------PDSILSLYLFGSSDLGLGERSSDLDLCVDFTSSFLSFEKIKG 192 (596)
T ss_pred CCccccchHHHHHHHHHHHHHHhc--------------CCCcceeeccCcccccccccccCcceeecccccccccchhhh
Confidence 455566667777777777776422 222344789999999999999999944433322111 1
Q ss_pred hhHHHHHHHHHHhccC--CceEEEeccCccceEEEEe--cCceeeEeeeeccccccccccccccccccCCCCcccccccc
Q 005795 124 EDFFFILHNILAEMEE--VTELQPVLDAHVPVMKFKF--DGLSIDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLN 199 (677)
Q Consensus 124 ~dFf~~l~~~L~~~~~--V~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~~p~~l~l~~d~~L~~lDe~svrSLN 199 (677)
..++..+.+.|+...+ +..++.|..|+|||||+.+ .++++|+++.+..
T Consensus 193 ~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~---------------------------- 244 (596)
T KOG2277|consen 193 LEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSD---------------------------- 244 (596)
T ss_pred HHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccch----------------------------
Confidence 3456677778877543 8889999999999999965 5999999988732
Q ss_pred hhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCcc-HHHHHHHHHHHHhhCCCC------------------
Q 005795 200 GCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLG-GVNWALLVARVCQLYPNA------------------ 260 (677)
Q Consensus 200 G~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~~~~~~~~~~ 324 (596)
T KOG2277|consen 245 AILNSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDKP 324 (596)
T ss_pred hhhhhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhccccccc
Confidence 3456667777777778999999999999999999999999998 699999999999986310
Q ss_pred -------------------------CHHHHHHHHHHHhh-cCCCCCceeecccccccCCcccccCCCCCCCCCCceEEeC
Q 005795 261 -------------------------VPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIIT 314 (677)
Q Consensus 261 -------------------------s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIit 314 (677)
+++.|+..||.||+ .|+|++-++-...... +... |. ......+.|.+
T Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I~~r~~~~-l~~~-~~-----~~~~~~l~i~d 397 (596)
T KOG2277|consen 325 VVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAISIRRGRA-LKRA-KK-----IKSKKFLCIED 397 (596)
T ss_pred chhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhcccccceeeeeeccc-cccc-ch-----hhhccceeecc
Confidence 25689999999999 7999997663322111 1100 11 11234699999
Q ss_pred CCCCCCCccCccCHhHHHHHHHHHHHHHHHHHHh
Q 005795 315 PAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEV 348 (677)
Q Consensus 315 P~~P~~Nsa~nVs~stl~vI~~Ef~RA~~il~~i 348 (677)
|+....|.+..++...+..|+.+|+....++...
T Consensus 398 p~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 398 PFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred ccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999998875
No 10
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.61 E-value=4.5e-13 Score=146.52 Aligned_cols=343 Identities=20% Similarity=0.249 Sum_probs=208.3
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEeecC
Q 005795 39 EKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALCVGP 117 (677)
Q Consensus 39 ~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDIDil~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 367999999999999999998888876532 1247999999999999999 99999999999
Q ss_pred CccCchhhHH---HHHHHHHHhc-cCCceEEEeccCccceEEEEecCceeeEeeeeccccccccccccccc-cccCCCCc
Q 005795 118 SYVSREEDFF---FILHNILAEM-EEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDM-SVLNDVDE 192 (677)
Q Consensus 118 ~~v~re~dFf---~~l~~~L~~~-~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~~p~~l~l~~d-~~L~~lDe 192 (677)
....++ ++= ..+...+.+. +.. + ...|--|-++..+.|++|||.=|- .+.+. .+...+|-
T Consensus 69 ~~~~~e-~l~~~gl~i~~~~~~~~~~~-~---~~yaeHpYv~~~~~G~~VDiVPcy----------~v~~g~~~~taVDR 133 (408)
T TIGR03671 69 KDTSRE-ELEEYGLEIGHEVLKRGGNY-E---ERYAEHPYVSGEIEGFEVDVVPCY----------KVESGEEIISAVDR 133 (408)
T ss_pred CCCCHH-HHHHHHHHHHHHHHhhCCCH-h---heeccCceEEEEEccEEEEEEeeE----------EccCcCeeeccccC
Confidence 887764 332 1222222221 111 1 357777999999999999998442 12221 11112221
Q ss_pred ccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCC--CCCCccHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 005795 193 PTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFF 270 (677)
Q Consensus 193 ~svrSLNG~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 122566665543 3489999999999999999965 56889999999999995 1222332222
Q ss_pred HHhhcCCCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhHHHHHHHHHHHHHHHHHHhhh
Q 005795 271 RVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVEL 350 (677)
Q Consensus 271 ~~Ys~wdW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~vI~~Ef~RA~~il~~i~~ 350 (677)
+ +|..++.+.....+. . .-..++.|+||.+|..|+|.++|..++..+...-+++. .+
T Consensus 198 ---~--~wk~~~~id~~~~~~--------~----~f~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~fl---~~--- 254 (408)
T TIGR03671 198 ---S--KWKPGVVIDIEEHGT--------K----KFDDPLVVIDPVDPKRNVAAALSLENLARFILAARMFL---KN--- 254 (408)
T ss_pred ---H--hcCCCeEEecCcccc--------c----cCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHHH---HC---
Confidence 2 355566663221111 1 12468999999999999999999988877765443332 22
Q ss_pred cCCCcccccccc-----ch---hhhcc-cEEEEEEEeCChhhhhhhhhHHHHHHHHHHHHhhhcccCceeeccCCCCCCC
Q 005795 351 NKAQWSALFEPY-----LF---FESYR-NYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVD 421 (677)
Q Consensus 351 ~~~~W~~Lfep~-----~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 112344432 11 12222 334444433332222 3346666667777777887654444444442 2
Q ss_pred CCCCCceeEEEEeeeeCCCC--ccCCCceecchHHHHHHHHH
Q 005795 422 TSKPCAHCAFFMGLQRKPGE--VVQEGQQFDIRGSVEEFKLS 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 124444455432211 11123445555667778763
No 11
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.61 E-value=7.3e-13 Score=146.63 Aligned_cols=305 Identities=20% Similarity=0.245 Sum_probs=190.6
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEeec
Q 005795 38 LEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALCVG 116 (677)
Q Consensus 38 L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDIDil~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 LEEVLE--RIKPTEEEREKLKKVAEELIERLEEAIKE----LG--------LDAEVELVGSTARGTWLSGDRDIDIFVLF 68 (447)
T ss_pred HHHHHH--hcCCCHHHHHHHHHHHHHHHHHHHHHHHh----cC--------CceEEEEEeeecCCcccCCCCceeEEEEe
Confidence 344554 36799999999999999998888887643 21 138999999999999999 8899999999
Q ss_pred CCccCchhhH----HHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccccccccccccccc-cccCCCC
Q 005795 117 PSYVSREEDF----FFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDM-SVLNDVD 191 (677)
Q Consensus 117 P~~v~re~dF----f~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~~p~~l~l~~d-~~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 22 122223333312222333 4888999999999999998442 12221 1122222
Q ss_pred cccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCC--CCCCccHHHHHHHHHHHHhhCCCCCHHHHHHHH
Q 005795 192 EPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSN--VTGFLGGVNWALLVARVCQLYPNAVPSMLVSRF 269 (677)
Q Consensus 192 e~svrSLNG~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 123566765553 3489999999999999999965 57899999999999995 2233333332
Q ss_pred HHHhhcCCCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhHHHHHHHHHHHHHHHHHHhh
Q 005795 270 FRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVE 349 (677)
Q Consensus 270 F~~Ys~wdW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~vI~~Ef~RA~~il~~i~ 349 (677)
+. |.-++.|.....+. . .....++.|+||.+|..|+|.++|..++..+... |...+.+.
T Consensus 200 ----~~--w~~~~~I~~~~~~~--------~---~~f~~PlvViDPvDp~RNVAaa~S~~~~~~fv~a---ar~fL~~P- 258 (447)
T PRK13300 200 ----SK--WKPPVKIDLEKHGK--------E---YKFDDPLVVIDPVDPNRNVAAALSLENLATFILA---AREFLKNP- 258 (447)
T ss_pred ----Hh--CCCCceEeccccCc--------c---ccCCCCEEEeCCCCCcchHHHHcCHHHHHHHHHH---HHHHHhCC-
Confidence 33 44445543321110 0 0124689999999999999999998887666532 22333332
Q ss_pred hcCCCccccccccc-----h---hhh-cccEEEEEEEeCChhhhhhhhhHHHHHHHHHHHHhhhcccCceee
Q 005795 350 LNKAQWSALFEPYL-----F---FES-YRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQC 412 (677)
Q Consensus 350 ~~~~~W~~Lfep~~-----F---f~~-Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~lE~~~~~~l~a 412 (677)
=..+|.|.+ + +.+ -.+.+.|..-.++.-+- ..-|-++--.+.|...||+.....+..
T Consensus 259 -----s~~fF~~~~~~~~~~~~~l~~R~t~~~~v~f~~p~~v~D-il~pQl~r~~~~i~~~L~~~gF~v~~~ 324 (447)
T PRK13300 259 -----SLEFFFPSDLSPEEILEELERRGTTVLALEFPRPDIVED-ILYPQLERSLRSIVKLLEREGFEVLRS 324 (447)
T ss_pred -----CHHhcCCCCCChHHHHHHHhhcCceEEEEEeCCCCCCcc-chhHHHHHHHHHHHHHHHHCCCEEEEe
Confidence 223333333 1 111 12444554444332222 334666666777777788765444433
No 12
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.22 E-value=8.3e-09 Score=112.75 Aligned_cols=307 Identities=19% Similarity=0.206 Sum_probs=189.0
Q ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCC-CCCeeEEe
Q 005795 36 RELEKFLVEAGLYESKEEDEKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGP-GADIDALC 114 (677)
Q Consensus 36 ~~L~~~L~~~~l~pS~EE~~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p-~SDIDil~ 114 (677)
+.|.+.|+. +-||+||.++=+++.+.|...+++.+ ++.|+ .+.+..+||++=|.|++ +.|||+.|
T Consensus 5 ~~l~evl~~--i~P~~eE~~~~~~~~e~l~~~~~~~~----~e~~~--------~aev~lVGS~AkgTwL~gd~DIDvFi 70 (443)
T COG1746 5 EVLEEVLKR--IKPTEEERKKLKEVAEELRERINEII----EELGI--------DAEVVLVGSYAKGTWLRGDHDIDVFI 70 (443)
T ss_pred HHHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHHHH----HhcCC--------cceEEEEeecccCcccCCCcceeEEE
Confidence 345566654 67999999988888888887777654 34443 58899999999999999 78999999
Q ss_pred ecCCccCchhhH----HHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeeeccccccccccccccccccCCC
Q 005795 115 VGPSYVSREEDF----FFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYASISRLVVREDLDISDMSVLNDV 190 (677)
Q Consensus 115 v~P~~v~re~dF----f~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~~p~~l~l~~d~~L~~l 190 (677)
..|....++ .. +......|.+ .--.+.-|-=|-+.-.+.|+++|+.=|-... -++ .+...+
T Consensus 71 ~Fp~d~~~e-el~~~GL~ig~~~l~~-----~~~~~~YAeHPYV~g~v~G~eVDvVPCy~v~--~~~-------~~~sAV 135 (443)
T COG1746 71 AFPKDTSEE-ELEEKGLEIGREVLKR-----GNYEERYAEHPYVTGEVDGYEVDVVPCYKVE--DGE-------KIISAV 135 (443)
T ss_pred ECCCCCCHH-HHHHHHHHHHHHHhcC-----CchhhhhccCCeeEEEEccEEEEEEeccccc--Ccc-------cccccc
Confidence 999988764 12 1222333332 0112457777999999999999998554211 011 122222
Q ss_pred CcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCC--CCCccHHHHHHHHHHHHhhCCCCCHHHHHHH
Q 005795 191 DEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNV--TGFLGGVNWALLVARVCQLYPNAVPSMLVSR 268 (677)
Q Consensus 191 De~svrSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~--~G~LGG~swaLLVa~vcQl~Pn~s~~~LL~~ 268 (677)
|- +. -=+.++..-+.... +.=+|++|.+.|.=|+|++- .++++||.--||+++| -.
T Consensus 136 DR----Tp---lHt~yv~e~L~~~~--~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~y-------------Gs 193 (443)
T COG1746 136 DR----TP---LHTRYVEEHLKGRQ--KDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHY-------------GS 193 (443)
T ss_pred cC----cc---hhHHHHHHHhcccc--hhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhh-------------cc
Confidence 21 11 11455555443322 23478999999999999985 6899999999999987 33
Q ss_pred HHHHhhcC-CCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhHHHHHHHHHHHHHHH-HH
Q 005795 269 FFRVYTMW-RWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTI-CE 346 (677)
Q Consensus 269 FF~~Ys~w-dW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~vI~~Ef~RA~~i-l~ 346 (677)
|-.+.-.. +|.-+++|..- .|..... ...+|.|++|.+|..|+|.+||..++..++ .|.+. +.
T Consensus 194 Fe~vl~~a~~wrp~~~ID~~--------~~~~e~f---~d~PliVvDPVDP~RNVAAalSl~~la~f~----~aar~FL~ 258 (443)
T COG1746 194 FENVLKAASRWRPGKIIDLE--------GHKRERF---EDEPLIVVDPVDPKRNVAAALSLENLARFV----HAAREFLK 258 (443)
T ss_pred HHHHHHHHhccCCCeEEecc--------chhhhcc---CCCCeEecCCCCCccchhhhcCHHHHHHHH----HHHHHHhc
Confidence 44444333 38888777541 2211111 123899999999999999999987765543 33222 22
Q ss_pred HhhhcCCCcccccccc---c-----hhhhcccEEEEEEEeCChhhhhhhhhHHHHHHHHHHHHhhhcccCceeeccC
Q 005795 347 EVELNKAQWSALFEPY---L-----FFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPY 415 (677)
Q Consensus 347 ~i~~~~~~W~~Lfep~---~-----Ff~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~lE~~~~~~l~ahp~ 415 (677)
+ +=...|.|. . ...+=.+-+.|.+-..+.-+- ..-|-++---+.|...||......+.++.|
T Consensus 259 ~------PS~efF~p~~~~~~~~~~~~~rgt~v~~l~~~~pd~vdD-ilypQl~r~~~~l~r~Le~~gF~vl~~~~~ 328 (443)
T COG1746 259 N------PSPEFFFPRKPKPLLLSKLRRRGTHVLALVFPKPDLVDD-ILYPQLERTARSLFRALEEEGFRVLRSGVW 328 (443)
T ss_pred C------CChhhcCCCCcCcccccchhhcCceEEEEEeCCCCCCcc-hhhHHHHHHHHHHHHHHHHcCCEEeeeeee
Confidence 2 222233221 1 111111223333333443222 344777777788888888765444444333
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=99.17 E-value=8.7e-09 Score=124.45 Aligned_cols=349 Identities=14% Similarity=0.210 Sum_probs=206.9
Q ss_pred cccccCcC---CCCCeeEEeecCCccCchhhHH------------HHHHHHH--HhccCCceEEEe---ccCccceEEEE
Q 005795 98 SYRLGVHG---PGADIDALCVGPSYVSREEDFF------------FILHNIL--AEMEEVTELQPV---LDAHVPVMKFK 157 (677)
Q Consensus 98 Sy~lGv~~---p~SDIDil~v~P~~v~re~dFf------------~~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 4779999999998766554542 2355667 223333344333 67888999998
Q ss_pred ec-----C------ceeeEeeeeccccccccccccccccccCCCC--c------ccccccchh--------hHHHHHHHh
Q 005795 158 FD-----G------LSIDLLYASISRLVVREDLDISDMSVLNDVD--E------PTVRSLNGC--------RVADQILKL 210 (677)
Q Consensus 158 ~~-----G------I~iDLsfa~l~~~~~p~~l~l~~d~~L~~lD--e------~svrSLNG~--------Rvtd~Il~l 210 (677)
-. + +.|-|..+.... ..|..--.++.+-++.-. + ..---.|.. .-..++.+.
T Consensus 81 p~~~~~~~~~~~~~~~iRi~~~~~~~-~F~~~rl~P~rnnvR~~~~~~~~~~~~~pTP~YNssIL~D~~~~~~l~~l~~~ 159 (972)
T PF03813_consen 81 PKGKKDSDDFSKTKFRIRIIPSIPSD-TFPLSRLAPSRNNVRPSWFDEEDSSSLPPTPHYNSSILEDMLMEEHLKYLHEA 159 (972)
T ss_pred ECCccccccccCCcEEEEEEecCCcc-cCCHHhcCCCCCccCcCcccccccCCCCCCCcchHHHHHHHhHHHHHHHHHHH
Confidence 42 2 445555443211 111100011111111100 0 000001111 122344455
Q ss_pred CCCchhHHHHHHHHHHHHHHhCCCCCC-CCCccHHHHHHHHHHHHhh---------CCCCCHHHHHHHHHHHhhcCCC-C
Q 005795 211 VPNVEHFCTTLRCLKFWAKRRGVYSNV-TGFLGGVNWALLVARVCQL---------YPNAVPSMLVSRFFRVYTMWRW-P 279 (677)
Q Consensus 211 Vp~~~~FR~llr~IK~WAK~RGIysn~-~G~LGG~swaLLVa~vcQl---------~Pn~s~~~LL~~FF~~Ys~wdW-~ 279 (677)
....+.|+.+++++|.||++||+.+.. .|++||+-|++|+++.+|- .+..+.-+|+..+..+.+..|| .
T Consensus 160 ~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fLA~~d~~~ 239 (972)
T PF03813_consen 160 SKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFLATTDLSK 239 (972)
T ss_pred HhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHHhcccccc
Confidence 556799999999999999999998875 4899999999999999976 3456788999999999999999 6
Q ss_pred CceeecccccccCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhHHHHHHHHHHHHHHHHHHhhhcCCCccccc
Q 005795 280 NPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALF 359 (677)
Q Consensus 280 ~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~vI~~Ef~RA~~il~~i~~~~~~W~~Lf 359 (677)
+|+.++...+.......| ...+....++|. =..|.+++++.++++.|+.|-+++.+++++.. ....+.+|
T Consensus 240 ~~l~~~~~~~~~~~~~~~-------~~~~~~vf~D~s-g~~Nl~~~ms~~s~~~L~~eA~~tl~lL~~~~--~d~F~~lF 309 (972)
T PF03813_consen 240 KPLFFKSSSDSTESLEEF-------HSAFDPVFVDPS-GGLNLLAKMSPSSYEELQHEAKLTLELLDDSS--DDGFDSLF 309 (972)
T ss_pred CceEEecCCCccchhhhh-------hccCCeEEEeCC-CCEEEEEcCCHHHHHHHHHHHHHHHHHhcccc--ccchhhhh
Confidence 788887644211111111 123456666664 56899999999999999999999999998632 34577777
Q ss_pred c-c-cchhhhcccEEEEE---EEe----CChhhhhhhhhHHHHHHHHHHHH-hhhcccCceeeccC---CCCCCCCCC--
Q 005795 360 E-P-YLFFESYRNYLQVD---IVA----ANADDLLAWKGWVESRLRQLTLM-IERDTYGKLQCHPY---PHEYVDTSK-- 424 (677)
Q Consensus 360 e-p-~~Ff~~Yk~yl~I~---v~a----~~~e~~~~w~GwVESRlR~Lv~~-lE~~~~~~l~ahp~---P~~f~~~~~-- 424 (677)
- + ..+..+|.+++.|. ... ....+...|...+..++-.|+.+ |.... -.++++ +.++.-...
T Consensus 310 l~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL~raLgdR~---~~i~v~~~~~~~w~i~~~~~ 386 (972)
T PF03813_consen 310 LTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLLKRALGDRA---KLIRVLRPSQPPWSISSKPP 386 (972)
T ss_pred cccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHHHHHHHHHH---HeEEEeCCCCCCcccCCCCC
Confidence 4 4 45678999999991 111 12233344444566677666643 43221 122333 122211111
Q ss_pred CCceeEEEEeeeeCCCCc---cCCCceecchHHHHHHHH
Q 005795 425 PCAHCAFFMGLQRKPGEV---VQEGQQFDIRGSVEEFKL 460 (677)
Q Consensus 425 ~~~~~~ffIGL~~~~~~~---~~~~~~~dl~~~v~eF~~ 460 (677)
........|||..++... ..-|-..|-.....+|++
T Consensus 387 ~~~~~~l~vGl~ln~~~~~r~vd~GP~a~d~~ea~~FR~ 425 (972)
T PF03813_consen 387 KSKPKTLTVGLILNPENAFRLVDRGPSAEDKEEAAAFRE 425 (972)
T ss_pred CCCCceEEEEEEEchhhceeeeeeCcCCcCcHHHHHHHH
Confidence 111226889998865211 111112233456677876
No 14
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=98.27 E-value=1.7e-05 Score=94.12 Aligned_cols=291 Identities=17% Similarity=0.205 Sum_probs=170.5
Q ss_pred eEEE-EeccccccC-cCCCCCeeEEeecCCccCchhhHH------------HHHHHHHHhccCCceEEEe---ccCccce
Q 005795 91 ALIF-TFGSYRLGV-HGPGADIDALCVGPSYVSREEDFF------------FILHNILAEMEEVTELQPV---LDAHVPV 153 (677)
Q Consensus 91 ~~I~-~FGSy~lGv-~~p~SDIDil~v~P~~v~re~dFf------------~~l~~~L~~~~~V~~l~~I---~~ArVPI 153 (677)
++|. ..||+.+|. ..|+.-+|+++..|+..-..+|++ ..+...|.+.+....+... .+-.-||
T Consensus 148 ~~v~~vv~sal~~~~~~P~i~vDvll~mP~e~~~~kd~ln~Ryf~kra~yla~~~~hl~e~l~~~~~~f~~~n~d~~~pi 227 (1121)
T KOG2054|consen 148 AQVTKVVGSALLGTCLRPDISVDVLLTMPREILQQKDGLNQRYFRKRALYLAYLAHHLLEDLLFGSLEFSYTNGDHLKPI 227 (1121)
T ss_pred cccceeeeecccCcccCCcchhhhhhhhhHHhhcCcccccccccchHHHHHHHHHHHHHhccccceeeecccCCccccch
Confidence 4455 556766654 458899999999997543333333 3334444444433333332 2345588
Q ss_pred EEEEecCceeeEeeeeccccccccccc-cccccccCCCC----------cccccccchhh--------HHHHHHHhCCCc
Q 005795 154 MKFKFDGLSIDLLYASISRLVVREDLD-ISDMSVLNDVD----------EPTVRSLNGCR--------VADQILKLVPNV 214 (677)
Q Consensus 154 IKf~~~GI~iDLsfa~l~~~~~p~~l~-l~~d~~L~~lD----------e~svrSLNG~R--------vtd~Il~lVp~~ 214 (677)
+.+.-.|-..|++=.+.+..-+|-.+. ..++.+|-..- +..---.|-.- ...++.+.....
T Consensus 228 l~i~~~~~~~~~~~~~~~~~li~~~~~~f~~~kllp~~~~ir~~~e~~e~ppTP~yN~svL~~~~le~~~q~L~K~~s~~ 307 (1121)
T KOG2054|consen 228 LLIRPRGKDERLVTVRPPDFLIPCRLLPFKNNKLLPWYNGIRPAGEGSEEPPTPRYNTSVLEDQVLEEYLQLLSKTLSSA 307 (1121)
T ss_pred hhccccCCccccccccCccccccccccccccccccchhcccCccccCCCCCCCCccchhHHHHHHHHHHHHHHHHHHhhh
Confidence 888765554444433321111111111 11111110000 00000011111 112333444556
Q ss_pred hhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHh---hCCCCCHHHHHHHHHHHhhcCCCCC-ceeecccccc
Q 005795 215 EHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQ---LYPNAVPSMLVSRFFRVYTMWRWPN-PVMLCAIDEA 290 (677)
Q Consensus 215 ~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQ---l~Pn~s~~~LL~~FF~~Ys~wdW~~-pV~l~~i~~g 290 (677)
+.|+.++.++|.|+++|.. +-..|++||+-|++++++... ++-+.+..+++..-+++.+.|||.. -+-+++-. .
T Consensus 308 ~~f~da~~Llk~WlrqRs~-~~~~~gfg~f~~s~lvv~L~s~~ki~~~~S~yqvfR~vl~flat~dlt~~~~~l~~~~-~ 385 (1121)
T KOG2054|consen 308 KGFKDALALLKVWLRQRSL-DIGQGGFGGFLLSALVVYLVSTRKIHTTLSAYQVFRSVLQFLATTDLTVNGISLVPSS-P 385 (1121)
T ss_pred hhHHHHHHHHHHHHHhhhh-hcccCcchHHHHHHHHHHHHhcCchhhcchHHHHHHHHHHHHhhhhhhccceEeccCC-C
Confidence 8999999999999999922 224689999999999998773 4567788999999999999999986 45554411 0
Q ss_pred cCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhHHHHHHHHHHHHHHHHHHhhhcCCCccccc-cccchhhhcc
Q 005795 291 ELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALF-EPYLFFESYR 369 (677)
Q Consensus 291 ~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~vI~~Ef~RA~~il~~i~~~~~~W~~Lf-ep~~Ff~~Yk 369 (677)
.+ |....-+..+....++ ..-..|...|++.++++.+++|.+-+..++.+.. ....+.+| ++.+.|..|.
T Consensus 386 s~------~~~~~f~e~~~~~f~D-~s~~~NLc~~mt~s~y~~~q~ea~ltl~lL~~~~--~~~F~~IFmtkip~~~~yD 456 (1121)
T KOG2054|consen 386 SL------PALADFHEGQLVTFID-SSGHLNLCANMTASTYEQVQEEARLTLMLLDSRA--DDGFSLIFMTKIPVFRAYD 456 (1121)
T ss_pred Cc------hhhhhhhhcceeeEec-cCCcchhhhhccHHHHHHHHHHHHHHHHHHhhhh--hcCcceeeeecCCchhhhh
Confidence 00 0000000112333333 2345788999999999999999999999999865 34677777 7889999999
Q ss_pred cEEEEEEEeCChhhhhhhhhHHH
Q 005795 370 NYLQVDIVAANADDLLAWKGWVE 392 (677)
Q Consensus 370 ~yl~I~v~a~~~e~~~~w~GwVE 392 (677)
|-+.+..-..-+.....-.||.|
T Consensus 457 h~l~l~~~~~l~~~~~~~~~~~~ 479 (1121)
T KOG2054|consen 457 HVLHLSPLSRLQAAEHLLSGFCE 479 (1121)
T ss_pred eeeeccccchhhhHHhhcccchh
Confidence 98887655333333444444443
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.24 E-value=4.2e-05 Score=79.49 Aligned_cols=215 Identities=16% Similarity=0.143 Sum_probs=146.3
Q ss_pred EEEeccccccCcCCCC-CeeEEeecCCccCch--hhHHHHHHHHHHhccCCceEEEeccCccceEEEEec----CceeeE
Q 005795 93 IFTFGSYRLGVHGPGA-DIDALCVGPSYVSRE--EDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFD----GLSIDL 165 (677)
Q Consensus 93 I~~FGSy~lGv~~p~S-DIDil~v~P~~v~re--~dFf~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~----GI~iDL 165 (677)
|.-.||+.-|+.+.|. +.|+++++....+.+ +..-..+.+-|+...+=.....|..+.+|.++..+. -...+.
T Consensus 5 V~rVG~~aKG~ll~Gd~~~~lVv~c~~~PT~~ll~~v~~~l~e~l~~~~~~e~~~~~~~~~~~~~~~~i~ltSp~~r~~~ 84 (246)
T smart00572 5 VMRVGSFAKGTLLKGDNVAELVLLCKEKPTSELVARLARKLPEQLKAVTEDEALIIVTSTKEPTMEVGILITSPLARVEL 84 (246)
T ss_pred eEEeeeeccCceecCCCceeEEEEecCCCcHHHHHHHHHHHHHHHhhcCcccceeeeeccCCCceeEEEEEecccccccc
Confidence 5678999999999876 789999998777753 122233344444322112233456777788888762 222233
Q ss_pred eeeeccccccccccccccccccCCCC-cccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHH
Q 005795 166 LYASISRLVVREDLDISDMSVLNDVD-EPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGV 244 (677)
Q Consensus 166 sfa~l~~~~~p~~l~l~~d~~L~~lD-e~svrSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~LGG~ 244 (677)
..+ ..|+++.-.+ +-.-+| ..|+.+|-.+|-+.+..........|+.++|++|-|.++....+ -|.++
T Consensus 85 ~~~-----~~~~~~~~~~--p~~~ld~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~~----pL~~w 153 (246)
T smart00572 85 LIT-----TVPENLRKLD--PEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQ----PLSGW 153 (246)
T ss_pred ccc-----ccCcccccCC--ccccCCHHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhccccc----ccccc
Confidence 222 2344432211 112234 45888899999999999998888899999999999999876544 38999
Q ss_pred HHHHHHHHHHhhCCC-CCHHHHHHHHHHHhhc-CCCCCceeecccccccCCcccccCCCCCCCCCCceEEeCCCCC-CCC
Q 005795 245 NWALLVARVCQLYPN-AVPSMLVSRFFRVYTM-WRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYP-CMN 321 (677)
Q Consensus 245 swaLLVa~vcQl~Pn-~s~~~LL~~FF~~Ys~-wdW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP~~P-~~N 321 (677)
.+-|++++.+--... .++++-+.+||++.+. .-+|.- --|+||+.+ ..|
T Consensus 154 ~iELl~~~~i~~~~~~l~~~~a~RR~fe~lAsG~l~p~~----------------------------~gI~DPce~~~~n 205 (246)
T smart00572 154 PLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPGS----------------------------PGLTDPCEKDNTD 205 (246)
T ss_pred cHHHHHHHHhccCCCCCCHHHHHHHHHHHHHhccCcCCC----------------------------CCCcCCCCCCccc
Confidence 999999998863322 3689999999999884 212210 236788886 778
Q ss_pred ccCccCHhHHHHHHHHHHHHHHHHH
Q 005795 322 SSYNVSTSTLRVMMDQFQYGNTICE 346 (677)
Q Consensus 322 sa~nVs~stl~vI~~Ef~RA~~il~ 346 (677)
++...|......|...-+.+.+++.
T Consensus 206 v~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 206 ALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred HHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 8888888888888887777777664
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=97.79 E-value=0.00021 Score=67.14 Aligned_cols=77 Identities=27% Similarity=0.317 Sum_probs=56.5
Q ss_pred CeEEEEeccccccCcCC-CCCeeEEeecCCccC----chhhHHHHHHHHHHhccCCceEEEeccCccceEEEEec--Cce
Q 005795 90 NALIFTFGSYRLGVHGP-GADIDALCVGPSYVS----REEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFD--GLS 162 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p-~SDIDil~v~P~~v~----re~dFf~~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 47899999999999987 899999999886643 1246677777888764321 111 2455578888886 899
Q ss_pred eeEeeee
Q 005795 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 9997654
No 17
>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=97.58 E-value=0.00011 Score=58.28 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=24.5
Q ss_pred CeEEEEeccccccCcCCCCCeeEEee
Q 005795 90 NALIFTFGSYRLGVHGPGADIDALCV 115 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDIDil~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 18
>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=97.57 E-value=4.2e-05 Score=62.13 Aligned_cols=56 Identities=20% Similarity=0.317 Sum_probs=36.7
Q ss_pred CHHHHHHHHHHHhh-cCCCCCceeecccccccCC--cccccCCCCCCCCCCceEEeCCCCCC
Q 005795 261 VPSMLVSRFFRVYT-MWRWPNPVMLCAIDEAELG--FSVWDPRKNRRDKTHHMPIITPAYPC 319 (677)
Q Consensus 261 s~~~LL~~FF~~Ys-~wdW~~pV~l~~i~~g~l~--~~~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 47899999999999 8999998775432 22111 233441 112245789999999885
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=0.00037 Score=64.68 Aligned_cols=93 Identities=24% Similarity=0.344 Sum_probs=59.5
Q ss_pred HHHHHHHHHHhCCCCCC--CCCccHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecccccccCCccccc
Q 005795 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~l~~~~W~ 298 (677)
+|++|.++|.-|+|++- .++++||..-|||+++=- +....+.-+ +|..|+.|..-..+...
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~yGs----------F~~~l~~a~--~W~~~~~Id~~~~~~~~----- 65 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHYGS----------FENVLEAAA--KWKPPVVIDLEDHGEPS----- 65 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHHSS----------HHHHHHHHT--T--TTEEEETT-TTE-------
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHHCC----------HHHHHHHHH--hcCCCeEEccCccchhh-----
Confidence 58999999999999985 689999999999998731 122233333 77778888653211100
Q ss_pred CCCCCCCCCCceEEeCCCCCCCCccCccCHhHHHHHH
Q 005795 299 PRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMM 335 (677)
Q Consensus 299 p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~vI~ 335 (677)
+.-..++.|+||.+|.+|+|.+||..++..+.
T Consensus 66 -----~~f~~PlvviDPvDp~RNVAAalS~~~~~~fv 97 (114)
T PF09249_consen 66 -----KKFDDPLVVIDPVDPNRNVAAALSLENLAEFV 97 (114)
T ss_dssp -----EEE-SS-EEEETTEEEEETTTTS-HHHHHHHH
T ss_pred -----hhcCCCeEEcCCCCCCchHhHhcCHHHHHHHH
Confidence 11136899999999999999999988766544
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=97.44 E-value=0.0002 Score=61.88 Aligned_cols=32 Identities=34% Similarity=0.464 Sum_probs=29.7
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005795 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDIDil~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 58999999999999999999999999988764
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=97.26 E-value=0.0027 Score=77.72 Aligned_cols=157 Identities=23% Similarity=0.344 Sum_probs=108.0
Q ss_pred hhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHH-hhCC---CCCHHHHHHHHHHHhhc
Q 005795 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 3445566666666789999999999999999977 46788899999999987 3344 34566667888888899
Q ss_pred CCCCC-ceeeccccccc--------CCcccccCCCCCCCCCCceEEeCCCCCCCCc--cCccCHhHHHHHHHHHHHHHHH
Q 005795 276 WRWPN-PVMLCAIDEAE--------LGFSVWDPRKNRRDKTHHMPIITPAYPCMNS--SYNVSTSTLRVMMDQFQYGNTI 344 (677)
Q Consensus 276 wdW~~-pV~l~~i~~g~--------l~~~~W~p~~~~~dr~~~MpIitP~~P~~Ns--a~nVs~stl~vI~~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 88775432110 01333432 3344455789999999985432 1234444577777666667777
Q ss_pred HHHhhhcCCCccccccc
Q 005795 345 CEEVELNKAQWSALFEP 361 (677)
Q Consensus 345 l~~i~~~~~~W~~Lfep 361 (677)
++.-..+..+|..||.|
T Consensus 823 l~~~~~~~~~~~~lF~~ 839 (972)
T PF03813_consen 823 LEEQGLSDLDWKSLFRP 839 (972)
T ss_pred HHhcCCCCCCHHHhcCC
Confidence 77433346789999976
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=96.97 E-value=0.0011 Score=56.66 Aligned_cols=32 Identities=31% Similarity=0.492 Sum_probs=28.9
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005795 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDIDil~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 36899999999999999999999999987654
No 23
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=96.22 E-value=0.042 Score=53.75 Aligned_cols=118 Identities=22% Similarity=0.348 Sum_probs=75.7
Q ss_pred EEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceE-EEeccCccceEEEEecCceeeEeeeec
Q 005795 92 LIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTEL-QPVLDAHVPVMKFKFDGLSIDLLYASI 170 (677)
Q Consensus 92 ~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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 13434444444444443211 22344445567777889988874 431
Q ss_pred cccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCc-hhHHHHHHHHH--------HHHHHhCCCCC
Q 005795 171 SRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNV-EHFCTTLRCLK--------FWAKRRGVYSN 236 (677)
Q Consensus 171 ~~~~~p~~l~l~~d~~L~~lDe~svrSLNG~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 1234568888554444555544 88999999888 46666666554
No 24
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.45 E-value=0.059 Score=49.08 Aligned_cols=47 Identities=30% Similarity=0.396 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005795 57 REQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 57 R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~ 119 (677)
.+++++++...+++|. | -.++-.||||+=|=..|+||||+++-....
T Consensus 7 ~~~~lr~~~~~l~~k~-------g---------v~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKY-------G---------VKRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHh-------C---------CceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 3344666666666553 2 267899999999999999999999976544
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=95.37 E-value=0.6 Score=49.19 Aligned_cols=210 Identities=13% Similarity=0.151 Sum_probs=130.8
Q ss_pred eccccccCcCCCC-CeeEEeecCCccCchhhHHHHHHHHH----HhccCCceEEEe------ccCccceEEEEe--c--C
Q 005795 96 FGSYRLGVHGPGA-DIDALCVGPSYVSREEDFFFILHNIL----AEMEEVTELQPV------LDAHVPVMKFKF--D--G 160 (677)
Q Consensus 96 FGSy~lGv~~p~S-DIDil~v~P~~v~re~dFf~~l~~~L----~~~~~V~~l~~I------~~ArVPIIKf~~--~--G 160 (677)
.||+.-|+.+.|. ++|+++++..-.+. +++..+.+.| +....-+-...+ ...+.|.+...+ . .
T Consensus 2 VG~~aKGllL~Gd~~~eLVVlck~kPT~--~lL~~v~~~L~~~L~~~~~~ev~~~~e~~~~~~~~~~~~~~~~~~lts~~ 79 (248)
T PF07528_consen 2 VGSFAKGLLLKGDNDVELVVLCKEKPTK--ELLNRVAEKLPEQLKKVTPEEVTNSVEAAIIIDSCKEPKLEVGIDLTSPV 79 (248)
T ss_pred cceecCCceecCCceEeEEEEcCCCCcH--HHHHHHHHHHHHHHhhhCccccccchhhhhhhcccccccceeeEEecCCc
Confidence 5999999999876 89999999877775 4555554444 332111111122 222335555543 2 2
Q ss_pred ceeeEeeeeccccccccccccccccccCCCCc-ccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCC
Q 005795 161 LSIDLLYASISRLVVREDLDISDMSVLNDVDE-PTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTG 239 (677)
Q Consensus 161 I~iDLsfa~l~~~~~p~~l~l~~d~~L~~lDe-~svrSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G 239 (677)
+.+.+.... .+++..- .+.-..||. .|..+|-.+|-+.+..+........+.++|++|-...|--- ++
T Consensus 80 ~r~~~~~~~-----~~~~~~~--~dp~~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~p~----w~ 148 (248)
T PF07528_consen 80 MRVRVLITT-----IPENLSK--LDPEDHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRVPT----WQ 148 (248)
T ss_pred eEEEEeccc-----cCccccc--cChhhcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhCCC----CC
Confidence 333333222 2222221 112223454 58888889999999999888888899999999999887533 56
Q ss_pred CccHHHHHHHHHHHHhhCCC---CCHHHHHHHHHHHhhc-CCCCCceeecccccccCCcccccCCCCCCCCCCceEEeCC
Q 005795 240 FLGGVNWALLVARVCQLYPN---AVPSMLVSRFFRVYTM-WRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITP 315 (677)
Q Consensus 240 ~LGG~swaLLVa~vcQl~Pn---~s~~~LL~~FF~~Ys~-wdW~~pV~l~~i~~g~l~~~~W~p~~~~~dr~~~MpIitP 315 (677)
.|+++.+-+|+-+..---|+ .++++-+.+||+..|. +--|.-. -|.||
T Consensus 149 ~L~~W~leLL~~~~i~~~~~~~~l~~g~a~RRvle~lasGillp~~~----------------------------gl~DP 200 (248)
T PF07528_consen 149 PLSSWALELLVEKAISNNSSRQPLSPGDAFRRVLECLASGILLPGSP----------------------------GLRDP 200 (248)
T ss_pred CCChhHHHHHHHHHeeeCCCCCCCChHHHHHHHHHHHhCceecCCCC----------------------------CCcCC
Confidence 78888888888776653343 4689999999999874 3222100 13355
Q ss_pred CC-CCCCccCccCHhHHHHHHHHHHHHHHHHH
Q 005795 316 AY-PCMNSSYNVSTSTLRVMMDQFQYGNTICE 346 (677)
Q Consensus 316 ~~-P~~Nsa~nVs~stl~vI~~Ef~RA~~il~ 346 (677)
+. ...++..+.|......|..--|.+.+++.
T Consensus 201 cE~~~~~~~~~lt~qq~e~it~sAQ~~LRlla 232 (248)
T PF07528_consen 201 CEKDPVDVLDTLTLQQREDITSSAQTALRLLA 232 (248)
T ss_pred CCCCCceeeccCCHHHHHHHHHHHHHHHHHHH
Confidence 55 44666677777777777766665555543
No 26
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=94.73 E-value=0.17 Score=45.54 Aligned_cols=28 Identities=43% Similarity=0.630 Sum_probs=26.3
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecC
Q 005795 90 NALIFTFGSYRLGVHGPGADIDALCVGP 117 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDIDil~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=94.49 E-value=0.073 Score=56.36 Aligned_cols=31 Identities=29% Similarity=0.269 Sum_probs=28.2
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccC
Q 005795 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVS 121 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDIDil~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 4689999999999999999999999988765
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=94.26 E-value=0.068 Score=54.07 Aligned_cols=47 Identities=13% Similarity=0.051 Sum_probs=33.1
Q ss_pred chhHHHHHHHHHHHHHHhCCCCCC-CCCccHHHHHHHHHHHHhhCCCC
Q 005795 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 478899999999999976555333 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=93.20 E-value=1.1 Score=48.29 Aligned_cols=113 Identities=25% Similarity=0.286 Sum_probs=71.5
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEe------cCce
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF------DGLS 162 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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 46899999999999877 579999998877544 256777888888877664321 11111122222 2899
Q ss_pred eeEeeeeccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCc
Q 005795 163 IDLLYASISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFL 241 (677)
Q Consensus 163 iDLsfa~l~~~~~p~~l~l~~d~~L~~lDe~svrSLNG~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-KQF---NRALRRLAKEKGLKLNEYGLF 277 (307)
T ss_pred EEEEEeCHHH------H------------------------HHHHHHhhCC-HHH---HHHHHHHHHHcCCeeeccccc
Confidence 9999876321 0 1122222222 222 456699999999887776664
No 30
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=92.10 E-value=0.28 Score=50.84 Aligned_cols=32 Identities=25% Similarity=0.308 Sum_probs=27.7
Q ss_pred CeEEEEecccc----ccC--cCCCCCeeEEeecCCccC
Q 005795 90 NALIFTFGSYR----LGV--HGPGADIDALCVGPSYVS 121 (677)
Q Consensus 90 ~~~I~~FGSy~----lGv--~~p~SDIDil~v~P~~v~ 121 (677)
+..+.+|||+. +|+ -.++||||+++-.|....
T Consensus 120 g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~~~~ 157 (221)
T PRK02098 120 GVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPAAAQ 157 (221)
T ss_pred CCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCChhh
Confidence 57899999999 999 789999999998886544
No 31
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific. Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.
Probab=91.54 E-value=0.34 Score=49.51 Aligned_cols=33 Identities=27% Similarity=0.272 Sum_probs=28.2
Q ss_pred CeEEEEeccc----cccC--cCCCCCeeEEeecCCccCc
Q 005795 90 NALIFTFGSY----RLGV--HGPGADIDALCVGPSYVSR 122 (677)
Q Consensus 90 ~~~I~~FGSy----~lGv--~~p~SDIDil~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=89.29 E-value=1.7 Score=40.27 Aligned_cols=53 Identities=32% Similarity=0.330 Sum_probs=39.7
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCc---hhhHHHHHHHHHHhccCCce
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR---EEDFFFILHNILAEMEEVTE 142 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~r---e~dFf~~l~~~L~~~~~V~~ 142 (677)
.+..+..-||||=|-.+.+ |||+++..|..... ...++..+.+.|.+..-++.
T Consensus 23 p~~~v~i~GSyRRGK~~~g-DiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~i~~ 78 (112)
T PF14792_consen 23 PGLEVEICGSYRRGKETSG-DIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGFITD 78 (112)
T ss_dssp TT-EEEEEHHHHTT-SEES-SEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTSEEE
T ss_pred CCcEEEEccccccCCCcCC-CeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCeEEE
Confidence 4699999999999988865 99999999876552 13688888899987554443
No 33
>cd05401 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins. Escherichia coli GlnD and -E participate in the Glutamine synthetase (GS)/Glutamate synthase (GOGAT) pathway for the assimilation of ammonium nitrogen. In nitrogen sufficiency, GlnE adenylates GS, reducing GS activity; when nitrogen is limiting, GlnE deadenylates GS-AMP, restoring GS activity. When nitrogen is limiting, GlnD uridylylates the nitrogen regulatory protein PII to PII-UTP, and in nitrogen sufficiency, it removes the modifying groups. The activity of Escherichia coli GlnE is modulated by PII-proteins. PII-UMP promotes GlnE deadenylation activity, and PII promotes GlnE adenylation activity. Escherichia coli GlnE has two separate NT domains. The N-terminal NT domain catalyzes the deadenylylation of GS, and the C-terminal NT domain the adenylylation reaction. The majority of proteins in this family conta
Probab=88.22 E-value=2.5 Score=41.13 Aligned_cols=48 Identities=23% Similarity=0.275 Sum_probs=36.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHh
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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 468999999999999999999999999875432113567666655554
No 34
>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=83.83 E-value=9.5 Score=36.45 Aligned_cols=49 Identities=20% Similarity=0.148 Sum_probs=38.2
Q ss_pred cCCeEEEEeccccccCcCCCCCeeEEeecCCccCch-hhHHHHHHHHHHh
Q 005795 88 DANALIFTFGSYRLGVHGPGADIDALCVGPSYVSRE-EDFFFILHNILAE 136 (677)
Q Consensus 88 ~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re-~dFf~~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 357999999999999999999999999998733222 4677776665553
No 35
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=82.03 E-value=0.23 Score=52.75 Aligned_cols=26 Identities=31% Similarity=0.395 Sum_probs=22.5
Q ss_pred EEeccccccCcCCCCCeeEEeecCCc
Q 005795 94 FTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 94 ~~FGSy~lGv~~p~SDIDil~v~P~~ 119 (677)
=+-||..+|++..+||||+++.|+.+
T Consensus 125 GVTGSiL~gl~~~nSDIDfVVYG~~~ 150 (315)
T COG1665 125 GVTGSILLGLYDENSDIDFVVYGQMW 150 (315)
T ss_pred cccccccccccCCCCCceEEEEcHHH
Confidence 34599999999999999999999543
No 36
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=80.96 E-value=7.8 Score=47.89 Aligned_cols=122 Identities=18% Similarity=0.269 Sum_probs=72.9
Q ss_pred hHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhh-C---CCCCHHHHHHHHHHHhhcCC
Q 005795 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 4445555555567899999999999988775433 222 55677888876643 3 44566666888999999999
Q ss_pred CCC-ceeecccccccCCc----ccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhH
Q 005795 278 WPN-PVMLCAIDEAELGF----SVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTST 330 (677)
Q Consensus 278 W~~-pV~l~~i~~g~l~~----~~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 WKFDPLIVDF-NNG-FPEDERSELEEKFISARKQLPPMVVITPYDH-LGSKFTRTSPN 936 (1121)
T ss_pred ccCCceEEEc-CCC-CcHHHHHHHHHHHhhhcccCCceEEeecccc-ccccccccCch
Confidence 986 666543 211 000 000000111223448999999654 33334333344
No 37
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=76.45 E-value=37 Score=36.63 Aligned_cols=212 Identities=17% Similarity=0.199 Sum_probs=109.3
Q ss_pred HHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCe
Q 005795 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~~alLk--RnqdL~P~~~~q~~I~~~vtKV~~vLdn~~~-----~~L~~----~~ieevrqVGSF~k~T~~tg~~~ 106 (362)
T KOG3793|consen 38 DTSFSEALLK--RNQDLAPNSAEQASILSLVTKVNNVLDNLVA-----PGLFE----VQIEEVRQVGSFKKGTMTTGHNV 106 (362)
T ss_pred chHHHHHHHh--hhccCCCCHHHHHHHHHHHHHHHHHHHhhcc-----CCceE----eehhhhhhccceeccccccCCcc
Confidence 6666666655 3357999999887777777777776665321 22221 11245777899999999998886
Q ss_pred -eEEeecCCccCch--hhHHHHHHHHHHh-cc-CCceEEEeccCccceEEEEe----cCceeeEeeeecccccccccccc
Q 005795 111 -DALCVGPSYVSRE--EDFFFILHNILAE-ME-EVTELQPVLDAHVPVMKFKF----DGLSIDLLYASISRLVVREDLDI 181 (677)
Q Consensus 111 -Dil~v~P~~v~re--~dFf~~l~~~L~~-~~-~V~~l~~I~~ArVPIIKf~~----~GI~iDLsfa~l~~~~~p~~l~l 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 1112223333332 11 1111 11111111 12233334333 3443321
Q ss_pred ccccccCCCCcccc-cccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHH-HHHHHHhhC-C
Q 005795 182 SDMSVLNDVDEPTV-RSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWAL-LVARVCQLY-P 258 (677)
Q Consensus 182 ~~d~~L~~lDe~sv-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 122233343221 123334444333322 2234567788888865443 234533334665 777887653 5
Q ss_pred C---CCHHHHHHHHHHHhhc
Q 005795 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 3477889999999885
No 38
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=76.09 E-value=9.6 Score=46.33 Aligned_cols=58 Identities=21% Similarity=0.354 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCccCc
Q 005795 61 LGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR 122 (677)
Q Consensus 61 L~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~r 122 (677)
++....++..|..++-...|+++ ..+.-|..+|.|+=|--.|.||||++++.|...+.
T Consensus 41 ~~~~~~~~d~~L~~lw~~~g~~~----~~~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~~ 98 (867)
T COG2844 41 IELRTDLVDQLLIRLWQEIGFAD----ASGLALVAVGGYGRGELHPLSDIDLLLLSPQKLTD 98 (867)
T ss_pred HHHHHHHHHHHHHHHHHHcCccc----ccceEEEEeccccccccCCCccceEEEecCCCCCh
Confidence 34445555666666666777764 35789999999999999999999999999987653
No 39
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=74.71 E-value=44 Score=36.66 Aligned_cols=30 Identities=33% Similarity=0.548 Sum_probs=25.1
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~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 35789999999999776 5799999988764
No 40
>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=74.49 E-value=5.6 Score=40.94 Aligned_cols=31 Identities=23% Similarity=0.216 Sum_probs=24.9
Q ss_pred CeEEEEeccccccC------cCCCCCeeEEeecCCcc
Q 005795 90 NALIFTFGSYRLGV------HGPGADIDALCVGPSYV 120 (677)
Q Consensus 90 ~~~I~~FGSy~lGv------~~p~SDIDil~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 68899999986433 34899999999888765
No 41
>PRK05007 PII uridylyl-transferase; Provisional
Probab=70.90 E-value=16 Score=45.10 Aligned_cols=56 Identities=18% Similarity=0.271 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005795 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 60 VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~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 555566666666665544445431 24689999999999999999999999999744
No 42
>PRK08609 hypothetical protein; Provisional
Probab=70.59 E-value=19 Score=42.27 Aligned_cols=108 Identities=17% Similarity=0.175 Sum_probs=61.8
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEe-cCceeeEeee
Q 005795 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKF-DGLSIDLLYA 168 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~-~GI~iDLsfa 168 (677)
..++.+-||||=|--+ ..|||+|+..+... .+.+.|.+.+.+.++..-...+.-+ .+.. .|+.|||.++
T Consensus 175 ~~~v~~~GS~RR~~et-~gDiDili~~~~~~--------~~~~~l~~~~~v~~~~~~g~~~~~~-~~~~~~~~~vDl~~v 244 (570)
T PRK08609 175 IIRFSRAGSLRRARET-VKDLDFIIATDEPE--------AVREQLLQLPNIVEVIAAGDTKVSV-ELEYEYTISVDFRLV 244 (570)
T ss_pred ccEEEeccchhccccc-cCCeeEEEecCCHH--------HHHHHHHcCccHHHHHhcCCceEEE-EEecCCCeEEEEEEe
Confidence 5789999999999876 56999999875421 1223344444443322111222211 2332 4999999987
Q ss_pred eccccccccccccccccccCCCCcccccccchhhHHHHHHHhCCCchhHHHHHHHHHHHHHHhCCCCCCCCCc
Q 005795 169 SISRLVVREDLDISDMSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFL 241 (677)
Q Consensus 169 ~l~~~~~p~~l~l~~d~~L~~lDe~svrSLNG~Rvtd~Il~lVp~~~~FR~llr~IK~WAK~RGIysn~~G~L 241 (677)
.... . .-.++-+-.. ..| .|-++.||++||+.=|-+|..
T Consensus 245 ~~~~------~------------------------~~aL~yfTGS-~~h---n~~lr~~A~~~g~~l~e~gl~ 283 (570)
T PRK08609 245 EPEA------F------------------------ATTLHHFTGS-KDH---NVRMRQLAKERGEKISEYGVE 283 (570)
T ss_pred CHHH------H------------------------HHHHHHHhcc-HHH---HHHHHHHHHHcCCcccccccc
Confidence 6321 1 0111212122 223 345589999999988888874
No 43
>PF03281 Mab-21: Mab-21 protein
Probab=69.67 E-value=1.5e+02 Score=31.18 Aligned_cols=96 Identities=17% Similarity=0.171 Sum_probs=63.2
Q ss_pred chhHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHhhCCCC-C--HHHHHHHHHHHhhcCCCCCceeecccccc
Q 005795 214 VEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNA-V--PSMLVSRFFRVYTMWRWPNPVMLCAIDEA 290 (677)
Q Consensus 214 ~~~FR~llr~IK~WAK~RGIysn~~G~LGG~swaLLVa~vcQl~Pn~-s--~~~LL~~FF~~Ys~wdW~~pV~l~~i~~g 290 (677)
....+.+++++|.-..+.. ...+.|++|++-.++.+.|..+|.. . ...|-.+|.++.... ++...++
T Consensus 190 ~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~p~~~~W~~~~l~~~l~~~l~~L-------~~~L~~~ 259 (292)
T PF03281_consen 190 NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKHPSSSDWSEENLGERLLDLLDFL-------IKCLQEG 259 (292)
T ss_pred cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHH-------HHHHhcC
Confidence 4567889999999977766 5678899999999999999999876 2 333333343332210 1111122
Q ss_pred cCCcccccCCCCCCCCCCceEEeCCCCCCCCccCccCHhHHHHHHHHHH
Q 005795 291 ELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQ 339 (677)
Q Consensus 291 ~l~~~~W~p~~~~~dr~~~MpIitP~~P~~Nsa~nVs~stl~vI~~Ef~ 339 (677)
.+ + .-+.|..|.=.+.+..++..+..++.
T Consensus 260 ~L----------p----------hff~~~~NLf~~~~~~~~~~~~~~~~ 288 (292)
T PF03281_consen 260 RL----------P----------HFFIPNLNLFQHLSPEELDELARKLE 288 (292)
T ss_pred CC----------C----------ccCCCCcccCCCCCHHHHHHHHHHHH
Confidence 11 1 12567888888888877777776654
No 44
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=67.12 E-value=21 Score=44.00 Aligned_cols=56 Identities=14% Similarity=0.199 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005795 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 60 VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~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 666666667776665543333221 13589999999999999999999999998743
No 45
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=63.23 E-value=14 Score=38.13 Aligned_cols=44 Identities=25% Similarity=0.192 Sum_probs=30.0
Q ss_pred CeEEEEecccccc------CcCCCCCeeEEeecCCccCchhhHHHHHHHHHH
Q 005795 90 NALIFTFGSYRLG------VHGPGADIDALCVGPSYVSREEDFFFILHNILA 135 (677)
Q Consensus 90 ~~~I~~FGSy~lG------v~~p~SDIDil~v~P~~v~re~dFf~~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 5677899998644 33489999999999876654 33344444443
No 46
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=62.50 E-value=23 Score=35.53 Aligned_cols=80 Identities=20% Similarity=0.179 Sum_probs=46.9
Q ss_pred CeEEEEeccccc----cCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhcc-CCceEEEeccCccceEEEEecCceee
Q 005795 90 NALIFTFGSYRL----GVHGPGADIDALCVGPSYVSREEDFFFILHNILAEME-EVTELQPVLDAHVPVMKFKFDGLSID 164 (677)
Q Consensus 90 ~~~I~~FGSy~l----Gv~~p~SDIDil~v~P~~v~re~dFf~~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 GVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPNLE-ADALREVAEENG-WDLGWTDF----GTPRYVVKVGGEDVRID 89 (181)
T ss_pred CCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchHHH-HHHHHHHHHHcC-CCcCcccc----CCCceEEEeCCCCeEEE
Confidence 568899999864 556678999998877654322 244444332111 11 11111 22334566667899999
Q ss_pred Eeeeeccccccc
Q 005795 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 6665554454
No 47
>PF03710 GlnE: Glutamate-ammonia ligase adenylyltransferase; InterPro: IPR005190 This is a conserved repeated domain found in GlnE proteins. These proteins adenylate and deadenylate glutamine synthases: ATP + {L-Glutamate:ammonia ligase (ADP-forming)} = Diphosphate + Adenylyl-{L-Glutamate:Ammonia ligase (ADP-forming)}. The domain is related to the nucleotidyltransferase domain IPR002934 from INTERPRO.; GO: 0008882 [glutamate-ammonia-ligase] adenylyltransferase activity; PDB: 1V4A_A 3K7D_A.
Probab=61.17 E-value=27 Score=36.57 Aligned_cols=62 Identities=21% Similarity=0.168 Sum_probs=35.1
Q ss_pred HHhhcCCCccc-cccCCeEEEEeccccccCcCCCCCeeEEeecCCccCc------hhhHHHHHHHHHHh
Q 005795 75 LTRLRGYSDQM-VEDANALIFTFGSYRLGVHGPGADIDALCVGPSYVSR------EEDFFFILHNILAE 136 (677)
Q Consensus 75 v~~~~g~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~r------e~dFf~~l~~~L~~ 136 (677)
+....|.+... -...+.-|.-.|-+.-+=-..+||||++++.+..-.. ...||..+.+.|.+
T Consensus 111 ~~~~~G~p~~~~~~~~~~~ViamGKlGg~ELny~SDiDLifvy~~~~~~~~~~~~~~~~~~rl~~~~~~ 179 (247)
T PF03710_consen 111 LAARYGRPPDEDGEPAGFAVIAMGKLGGRELNYSSDIDLIFVYDPDGETGRRSISNQEFFTRLAQRLIR 179 (247)
T ss_dssp HHHHCTSCCCCTTCC-SEEEEE-HHHHTT---TT--EEEEEEE---TT-SSS-SBHHHHHHHHHHHHHH
T ss_pred HHHHcCCCCcccCCcCCeEEEEeccccccccCCccCCceEEEeccccccccChhhHHHHHHHHHHHHHH
Confidence 44555665321 1123688999999999999999999999998653221 13688888776664
No 48
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=59.97 E-value=28 Score=42.05 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005795 55 EKREQVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 55 ~~R~~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~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 45666666666666642 333 2678999999999999999999999999843
No 49
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms.
Probab=56.55 E-value=10 Score=39.32 Aligned_cols=27 Identities=26% Similarity=0.214 Sum_probs=23.1
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecC
Q 005795 91 ALIFTFGSYRLGVHGPGADIDALCVGP 117 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDIDil~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 455678999999999999999987664
No 50
>PRK03059 PII uridylyl-transferase; Provisional
Probab=55.78 E-value=40 Score=41.61 Aligned_cols=54 Identities=24% Similarity=0.369 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCC
Q 005795 59 QVLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPS 118 (677)
Q Consensus 59 ~VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~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 366666677777766543332222 357999999999999999999999999863
No 51
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=54.87 E-value=46 Score=41.32 Aligned_cols=57 Identities=21% Similarity=0.243 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCCcc
Q 005795 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPSYV 120 (677)
Q Consensus 60 VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v 120 (677)
++..+..++.+-++.+-.....+ ...+.-|...|.|+=|--.|.||||++++.+...
T Consensus 52 ~~~~~s~~~d~~l~~~~~~~~~~----~~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~~ 108 (895)
T PRK00275 52 LIEDRAWFVDQILQQAWHQFDWS----DDADIALVAVGGYGRGELHPYSDIDLLILLDSAD 108 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHhccC----CCCCEEEEEcCCccccCcCCCCCceEEEEecCCC
Confidence 44444445544444433332221 1246899999999999999999999999987543
No 52
>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=53.50 E-value=46 Score=40.91 Aligned_cols=31 Identities=26% Similarity=0.389 Sum_probs=27.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~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 53
>PRK04374 PII uridylyl-transferase; Provisional
Probab=52.69 E-value=51 Score=40.83 Aligned_cols=54 Identities=19% Similarity=0.263 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCCCCeeEEeecCC
Q 005795 60 VLGRIRQIAKDWVKELTRLRGYSDQMVEDANALIFTFGSYRLGVHGPGADIDALCVGPS 118 (677)
Q Consensus 60 VL~~L~~iv~~wv~~v~~~~g~~~~~~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~ 118 (677)
++..+..++..+++.+-.... + ...+.-|...|+|+=|=-.|.||||++++.+.
T Consensus 47 ~~~~~s~~~D~~l~~~~~~~~-~----~~~~~alvAvGgYGR~EL~p~SDIDLliL~~~ 100 (869)
T PRK04374 47 LLALRARAVDQLMRNAWTRCI-P----ADSGLSLHAVGGYGRGELFPRSDVDLLVLGET 100 (869)
T ss_pred HHHHHHHHHHHHHHHHHHHhC-C----CcCCEEEEEcCCccccccCCcccceEEEEecC
Confidence 444544455555554433222 2 12358999999999999999999999999874
No 54
>PRK03381 PII uridylyl-transferase; Provisional
Probab=52.19 E-value=49 Score=40.39 Aligned_cols=29 Identities=14% Similarity=0.166 Sum_probs=27.1
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecC
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGP 117 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~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 55
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=50.91 E-value=27 Score=36.25 Aligned_cols=28 Identities=29% Similarity=0.430 Sum_probs=23.6
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCC
Q 005795 91 ALIFTFGSYRLGVHGPGADIDALCVGPS 118 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDIDil~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 3457899999998889999999997743
No 56
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=50.70 E-value=66 Score=35.54 Aligned_cols=49 Identities=31% Similarity=0.482 Sum_probs=37.8
Q ss_pred cCCeEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhc
Q 005795 88 DANALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEM 137 (677)
Q Consensus 88 ~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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 357889999999998 4568999999999876553345677777777764
No 57
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=43.65 E-value=51 Score=36.31 Aligned_cols=70 Identities=24% Similarity=0.214 Sum_probs=56.1
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccCchhhHHHHHHHHHHhccCCceEEEeccCccceEEEEecCceeeEeeee
Q 005795 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVSREEDFFFILHNILAEMEEVTELQPVLDAHVPVMKFKFDGLSIDLLYAS 169 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re~dFf~~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-VGDIDILISTSHPE----S----VLEELLEMPNVQEVIAKGETKVSMLLILDEGTSVDFRVVP 250 (326)
T ss_pred heeeeccchhhcccc-ccceeeEeccCCcH----H----HHHHHhcCCCcceeeecCCceeeEEEEecCCCeeEEEEcC
Confidence 566777999988776 68999988764321 1 5666777899999999999999999888899999998765
No 58
>PF03296 Pox_polyA_pol: Poxvirus poly(A) polymerase nucleotidyltransferase domain; InterPro: IPR024231 Poly(A) polymerase (2.7.7.19 from EC) catalyses template-independent extension of the 3'-end of a DNA or RNA strand by one nucleotide at a time. The Poxvirus enzyme creates the 3'(poly)A tail of mRNAs, and is a heterodimer of a catalytic and a regulatory subunit. This entry represents the nucleotidyltransferase domain of the catalytic subunit [].; PDB: 3ERC_C 3ER8_D 3OWG_A 2GA9_D 2GAF_D 3ER9_B.
Probab=41.24 E-value=42 Score=32.88 Aligned_cols=78 Identities=19% Similarity=0.386 Sum_probs=39.0
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHhhcCCCccccccCCeEEEEeccccccCcCCC---CCee
Q 005795 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~klmeEyLrrh--------------Nk~CicYGSyslhllN~~I~YgDID 74 (149)
T PF03296_consen 9 ASDYLNSYNVANPSGKVMGRHNVSDLVENVNKLMEEYLRRH--------------NKSCICYGSYSLHLLNPNIKYGDID 74 (149)
T ss_dssp HHHHHHHH--S-------------THHHHHHHHHHHHHHH---------------TTTEEEESHHHHHTTSTTS--SS-E
T ss_pred HHHHHHHhcccccCccccccccCcHHHHHHHHHHHHHHHhh--------------CCCeEEeeeeeEEecCCCcccCcch
Confidence 34567777777767777777765 455566666766541 344788999998777665 7999
Q ss_pred EEeecCCccCchhhHHHHHHHHHH
Q 005795 112 ALCVGPSYVSREEDFFFILHNILA 135 (677)
Q Consensus 112 il~v~P~~v~re~dFf~~l~~~L~ 135 (677)
++=... ..|+-.|+-++.
T Consensus 75 ilqTNa------r~flI~laflI~ 92 (149)
T PF03296_consen 75 ILQTNA------RTFLINLAFLIK 92 (149)
T ss_dssp EEESTH------HHHHHHHHHHHH
T ss_pred hhhccc------HHHHHHHHHHHh
Confidence 964432 255544444444
No 59
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=40.35 E-value=1e+02 Score=38.97 Aligned_cols=48 Identities=13% Similarity=0.066 Sum_probs=36.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccCch----hhHHHHHHHHHHh
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVSRE----EDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~re----~dFf~~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 46899999999999999999999999986432111 3577777776665
No 60
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=39.90 E-value=71 Score=40.26 Aligned_cols=48 Identities=19% Similarity=0.169 Sum_probs=37.3
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccC-ch---hhHHHHHHHHHHh
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVS-RE---EDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~-re---~dFf~~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 568999999999999999999999999863211 11 2688888777664
No 61
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=39.34 E-value=15 Score=39.01 Aligned_cols=21 Identities=33% Similarity=0.366 Sum_probs=18.0
Q ss_pred eccccccCcCCCCCeeEEeec
Q 005795 96 FGSYRLGVHGPGADIDALCVG 116 (677)
Q Consensus 96 FGSy~lGv~~p~SDIDil~v~ 116 (677)
=||+.-|+..|+||+|+=-|.
T Consensus 16 sGS~~yGf~spdSDyDvR~V~ 36 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVRGVH 36 (248)
T ss_pred ccccccCCCCCCCccceeeEE
Confidence 399999999999999995543
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=35.41 E-value=33 Score=25.82 Aligned_cols=31 Identities=19% Similarity=0.429 Sum_probs=24.5
Q ss_pred hHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 005795 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 4679999999998866555 679998887764
No 63
>PRK05092 PII uridylyl-transferase; Provisional
Probab=32.51 E-value=1.5e+02 Score=36.93 Aligned_cols=31 Identities=32% Similarity=0.542 Sum_probs=27.8
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY 119 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~ 119 (677)
.+.-|...|.|+-|--.|.||||++++.+..
T Consensus 104 ~~~alvA~GgyGr~EL~p~SDiDLl~l~~~~ 134 (931)
T PRK05092 104 ERLAVLAVGGYGRGELAPGSDIDLLFLLPYK 134 (931)
T ss_pred CceEEEEecCcCCcccCCCCCceEEEEeCCC
Confidence 3578999999999999999999999998743
No 64
>PF07357 DRAT: Dinitrogenase reductase ADP-ribosyltransferase (DRAT); InterPro: IPR009953 This family consists of several bacterial dinitrogenase reductase ADP-ribosyltransferase (DRAT) proteins. Members of this family seem to be specific to Rhodospirillum, Rhodobacter and Azospirillum species. Dinitrogenase reductase ADP-ribosyl transferase (DRAT) carries out the transfer of the ADP-ribose from NAD to the Arg-101 residue of one subunit of the dinitrogenase reductase homodimer, resulting in inactivation of that enzyme. Dinitrogenase reductase-activating glycohydrolase (DRAG) removes the ADP-ribose group attached to dinitrogenase reductase, thus restoring nitrogenase activity. The DRAT-DRAG system negatively regulates nitrogenase activity in response to exogenous NH4+ or energy limitation in the form of a shift to darkness or to anaerobic conditions [].
Probab=31.64 E-value=20 Score=38.32 Aligned_cols=20 Identities=45% Similarity=0.719 Sum_probs=17.0
Q ss_pred CChhhhhhhhhHHHHHHHHH
Q 005795 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 65
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=30.55 E-value=28 Score=38.41 Aligned_cols=25 Identities=28% Similarity=0.307 Sum_probs=21.6
Q ss_pred EEEEeccccccCcCCCCCeeEEeec
Q 005795 92 LIFTFGSYRLGVHGPGADIDALCVG 116 (677)
Q Consensus 92 ~I~~FGSy~lGv~~p~SDIDil~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 66
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=28.82 E-value=1.7e+02 Score=36.72 Aligned_cols=48 Identities=25% Similarity=0.299 Sum_probs=36.4
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCc-cC----c--h-hhHHHHHHHHHHh
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSY-VS----R--E-EDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~-v~----r--e-~dFf~~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 4688999999999999999999999998743 11 1 1 3688887766654
No 67
>COG1391 GlnE Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]
Probab=27.68 E-value=4.8e+02 Score=32.96 Aligned_cols=47 Identities=23% Similarity=0.294 Sum_probs=29.9
Q ss_pred CeEEEEeccccccCcCCCCCeeEEeecCCccCc------hhhHHHHHHHHHHh
Q 005795 90 NALIFTFGSYRLGVHGPGADIDALCVGPSYVSR------EEDFFFILHNILAE 136 (677)
Q Consensus 90 ~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~r------e~dFf~~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 455555444443333458999999998865433 13599887776654
No 68
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=25.34 E-value=2.2e+02 Score=35.84 Aligned_cols=60 Identities=12% Similarity=0.238 Sum_probs=41.2
Q ss_pred HhhcCCCccc-cccCCeEEEEeccccccCcCCCCCeeEEeecCCc----------cCchhhHHHHHHHHHHh
Q 005795 76 TRLRGYSDQM-VEDANALIFTFGSYRLGVHGPGADIDALCVGPSY----------VSREEDFFFILHNILAE 136 (677)
Q Consensus 76 ~~~~g~~~~~-~~~~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~----------v~re~dFf~~l~~~L~~ 136 (677)
+..+|.+... ....+.-|.-+|-++-+=-+-+||||++.+.... ..- ..||..+.+.|.+
T Consensus 666 ~~~~G~p~~~~~~~~~~aViamGKlGg~EL~y~SDlDlifvy~~~~~~~t~g~~~~~~-~~~~~rl~qrli~ 736 (943)
T PRK11072 666 VKRHGEPPHLEGRERGFAVIGYGKLGGKELGYASDLDLVFLHDCPEDAMTDGDKSIDG-RQFYLRLAQRIIH 736 (943)
T ss_pred HHHhCCCCCccCCCCCEEEEeecCccCCccCCcccceEEEEeecCccccCCCCCcccH-HHHHHHHHHHHHH
Confidence 4456765321 1123578999998888888899999999998521 111 3689888877765
No 69
>PRK14108 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=24.68 E-value=3.6e+02 Score=34.17 Aligned_cols=48 Identities=19% Similarity=0.285 Sum_probs=36.1
Q ss_pred CCeEEEEeccccccCcCCCCCeeEEeecCCccC---ch---hhHHHHHHHHHHh
Q 005795 89 ANALIFTFGSYRLGVHGPGADIDALCVGPSYVS---RE---EDFFFILHNILAE 136 (677)
Q Consensus 89 ~~~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~---re---~dFf~~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 358899999999999999999999999873321 11 3688887766554
No 70
>PF12633 Adenyl_cycl_N: Adenylate cyclase NT domain; InterPro: IPR024685 Adenylate cyclase is the enzyme responsible for the synthesis of cAMP from ATP. On the basis of sequence similarity, it has been proposed that there are three different classes of adenylate cyclases [, ]. Class I cyclases are found in enterobacteria and related Gram-negative bacteria. This entry represents the N-terminal domain of class-I adenylate cyclases.
Probab=20.86 E-value=1.5e+02 Score=30.88 Aligned_cols=32 Identities=19% Similarity=0.169 Sum_probs=27.6
Q ss_pred eEEEEeccccccCcCCCCCeeEEeecCCccCc
Q 005795 91 ALIFTFGSYRLGVHGPGADIDALCVGPSYVSR 122 (677)
Q Consensus 91 ~~I~~FGSy~lGv~~p~SDIDil~v~P~~v~r 122 (677)
--||.-||..+=-.++.||+|+=++.....+.
T Consensus 98 ~GlY~MGS~gSi~Qs~~SDlDiWvCh~~~L~~ 129 (204)
T PF12633_consen 98 LGLYSMGSTGSIGQSSSSDLDIWVCHDSDLSP 129 (204)
T ss_pred EEEEecCCCccccCCCCCCCeEEEEcCCCCCH
Confidence 56999999999999999999998877766654
No 71
>PF07789 DUF1627: Protein of unknown function (DUF1627); InterPro: IPR012432 This is a group of sequences found in hypothetical proteins predicted to be expressed in a number of bacterial species. The region in question is approximately 150 amino acid residues long.
Probab=20.51 E-value=48 Score=32.82 Aligned_cols=43 Identities=9% Similarity=0.232 Sum_probs=36.5
Q ss_pred cCccCHhHHHHHHHHHHHHHHHHHHhhhcCCCccccccccchhhhcccEE
Q 005795 323 SYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYL 372 (677)
Q Consensus 323 a~nVs~stl~vI~~Ef~RA~~il~~i~~~~~~W~~Lfep~~Ff~~Yk~yl 372 (677)
+.++--.+++.+..|++||..-++. |..+|....=+.+|++.+
T Consensus 110 ~d~li~pslr~a~rElRRak~kvqk-------wErvcaAlRELnKhRdiv 152 (155)
T PF07789_consen 110 ADDLILPSLRKANRELRRAKSKVQK-------WERVCAALRELNKHRDIV 152 (155)
T ss_pred CcceechhHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
Confidence 4678888999999999999987776 999998888888888754
Done!