Query 005391
Match_columns 698
No_of_seqs 263 out of 717
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 22:42:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005391.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005391hhsearch_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 3E-143 7E-148 1158.1 39.5 453 6-461 12-502 (562)
2 PTZ00418 Poly(A) polymerase; P 100.0 3E-129 7E-134 1082.6 49.4 452 7-461 50-544 (593)
3 COG5186 PAP1 Poly(A) polymeras 100.0 2E-121 4E-126 958.1 33.1 455 1-460 1-531 (552)
4 PF04928 PAP_central: Poly(A) 100.0 1.5E-74 3.2E-79 594.5 22.2 253 7-357 2-254 (254)
5 COG5260 TRF4 DNA polymerase si 100.0 3.4E-30 7.3E-35 281.1 24.2 260 29-340 55-342 (482)
6 KOG1906 DNA polymerase sigma [ 100.0 5.4E-28 1.2E-32 268.5 24.3 263 25-340 61-341 (514)
7 PF04926 PAP_RNA-bind: Poly(A) 99.8 1.7E-21 3.7E-26 187.0 5.4 100 358-457 1-155 (157)
8 cd05402 NT_PAP_TUTase Nucleoti 99.8 4.7E-19 1E-23 160.2 13.2 98 49-163 1-101 (114)
9 KOG2277 S-M checkpoint control 99.7 7.4E-17 1.6E-21 182.8 20.2 250 42-341 127-431 (596)
10 TIGR03671 cca_archaeal CCA-add 99.5 1.7E-12 3.7E-17 142.4 23.2 241 32-334 3-251 (408)
11 PRK13300 tRNA CCA-pyrophosphor 99.5 1.4E-11 3.1E-16 136.7 26.3 237 31-328 3-248 (447)
12 PF03813 Nrap: Nrap protein; 99.1 1.1E-08 2.5E-13 123.5 23.1 286 91-396 1-360 (972)
13 COG1746 CCA1 tRNA nucleotidylt 99.0 4.1E-08 9E-13 107.8 22.5 237 30-327 6-249 (443)
14 KOG2054 Nucleolar RNA-associat 98.4 5.1E-06 1.1E-10 98.6 16.0 269 84-373 148-465 (1121)
15 smart00572 DZF domain in DSRM 98.4 2.4E-05 5.1E-10 81.6 18.4 213 86-339 5-230 (246)
16 cd05400 NT_2-5OAS_ClassI-CCAas 97.7 0.00036 7.7E-09 65.7 11.0 77 83-162 27-110 (143)
17 PF03828 PAP_assoc: Cid1 famil 97.6 3.4E-05 7.3E-10 62.8 2.6 55 254-312 1-59 (60)
18 cd05397 NT_Pol-beta-like Nucle 97.5 0.00015 3.3E-09 57.7 4.7 26 83-108 17-42 (49)
19 PF01909 NTP_transf_2: Nucleot 97.3 0.00027 5.9E-09 61.1 4.7 32 83-114 14-45 (93)
20 PF09249 tRNA_NucTransf2: tRNA 96.9 0.0025 5.4E-08 59.6 6.9 93 214-328 3-97 (114)
21 cd05403 NT_KNTase_like Nucleot 96.8 0.0029 6.2E-08 54.1 6.0 32 84-115 19-50 (93)
22 PF03813 Nrap: Nrap protein; 96.8 0.012 2.5E-07 72.4 13.3 157 193-356 668-839 (972)
23 PF14091 DUF4269: Domain of un 96.1 0.061 1.3E-06 52.9 11.2 118 85-229 17-144 (152)
24 COG1669 Predicted nucleotidylt 95.5 0.068 1.5E-06 49.0 8.1 47 50-112 7-53 (97)
25 PF07528 DZF: DZF domain; Int 94.7 1.6 3.4E-05 46.2 16.6 209 89-338 2-231 (248)
26 COG1708 Predicted nucleotidylt 94.3 0.07 1.5E-06 48.0 5.0 29 83-111 26-54 (128)
27 PRK13746 aminoglycoside resist 93.9 0.12 2.7E-06 54.8 6.4 31 85-115 30-60 (262)
28 cd00141 NT_POLXc Nucleotidyltr 91.8 2.2 4.8E-05 46.2 12.5 113 82-234 159-277 (307)
29 PRK02098 phosphoribosyl-dephos 91.4 0.4 8.6E-06 49.9 6.2 33 83-115 120-158 (221)
30 TIGR03135 malonate_mdcG holo-A 90.8 0.46 1E-05 48.7 5.8 33 83-115 108-146 (202)
31 PF10421 OAS1_C: 2'-5'-oligoad 90.7 0.61 1.3E-05 47.6 6.5 47 207-253 41-88 (190)
32 PF14792 DNA_pol_B_palm: DNA p 85.5 1.6 3.4E-05 40.6 5.3 53 82-135 23-78 (112)
33 cd05401 NT_GlnE_GlnD_like Nucl 85.2 3.7 8E-05 40.0 8.0 48 82-129 54-101 (172)
34 COG1665 Predicted nucleotidylt 84.7 0.22 4.8E-06 53.2 -0.9 27 86-112 124-150 (315)
35 COG2844 GlnD UTP:GlnB (protein 78.8 6.7 0.00015 47.8 8.3 57 54-114 41-97 (867)
36 KOG2054 Nucleolar RNA-associat 78.0 12 0.00026 46.6 10.0 123 195-324 806-937 (1121)
37 PF03445 DUF294: Putative nucl 77.1 14 0.0003 35.4 8.6 48 82-129 48-96 (138)
38 KOG2534 DNA polymerase IV (fam 73.3 14 0.0003 40.8 8.2 95 21-130 120-217 (353)
39 PF10620 MdcG: Phosphoribosyl- 71.5 11 0.00024 39.0 6.7 42 82-124 115-162 (213)
40 PRK05007 PII uridylyl-transfer 70.7 14 0.00031 45.6 8.6 57 53-113 54-110 (884)
41 PRK08609 hypothetical protein; 68.8 31 0.00066 40.7 10.4 108 83-234 175-283 (570)
42 PF03281 Mab-21: Mab-21 protei 67.2 1.7E+02 0.0038 30.9 15.1 97 207-333 190-289 (292)
43 smart00483 POLXc DNA polymeras 64.3 94 0.002 34.2 12.5 31 82-113 163-193 (334)
44 PF03710 GlnE: Glutamate-ammon 62.6 76 0.0016 33.3 11.0 60 70-129 113-179 (247)
45 PRK01759 glnD PII uridylyl-tra 62.3 25 0.00055 43.4 8.4 56 53-112 30-85 (854)
46 PRK00227 glnD PII uridylyl-tra 60.9 26 0.00057 42.4 8.0 64 48-127 6-69 (693)
47 PRK03059 PII uridylyl-transfer 59.1 24 0.00052 43.6 7.5 53 53-111 37-89 (856)
48 PF09970 DUF2204: Nucleotidyl 59.0 38 0.00082 34.2 7.6 77 82-164 15-95 (181)
49 PRK01293 phosphoribosyl-dephos 57.4 26 0.00057 36.3 6.3 44 83-128 109-158 (207)
50 PF10127 Nuc-transf: Predicted 56.8 9.2 0.0002 39.7 3.0 26 85-110 22-47 (247)
51 PRK03381 PII uridylyl-transfer 48.9 54 0.0012 40.2 8.1 30 82-111 56-85 (774)
52 PF12633 Adenyl_cycl_N: Adenyl 47.3 23 0.00049 36.8 4.0 31 85-115 99-129 (204)
53 PRK00275 glnD PII uridylyl-tra 46.8 66 0.0014 40.1 8.5 32 82-113 77-108 (895)
54 PRK04374 PII uridylyl-transfer 45.6 69 0.0015 39.9 8.4 29 83-111 72-100 (869)
55 COG2413 Predicted nucleotidylt 45.2 45 0.00098 34.9 5.7 29 84-112 38-66 (228)
56 KOG3793 Transcription factor N 43.4 4.9E+02 0.011 28.7 15.5 212 24-268 38-264 (362)
57 TIGR01693 UTase_glnD [Protein- 42.6 81 0.0018 38.9 8.4 31 82-112 42-72 (850)
58 PF03296 Pox_polyA_pol: Poxvir 41.3 37 0.00081 33.5 4.2 78 31-128 9-92 (149)
59 PRK14109 bifunctional glutamin 37.2 82 0.0018 39.8 7.4 48 82-129 722-773 (1007)
60 COG1796 POL4 DNA polymerase IV 33.3 71 0.0015 35.4 5.3 70 84-162 181-250 (326)
61 COG3541 Predicted nucleotidylt 32.9 21 0.00045 38.1 1.2 18 89-106 16-33 (248)
62 PRK14109 bifunctional glutamin 32.6 1.4E+02 0.003 37.9 8.3 48 82-129 214-265 (1007)
63 PF10281 Ish1: Putative stress 28.9 44 0.00096 25.3 2.0 31 28-59 6-36 (38)
64 PHA02603 nrdC.11 hypothetical 28.2 33 0.00071 38.1 1.7 24 86-109 6-29 (330)
65 PRK11072 bifunctional glutamin 26.7 1.7E+02 0.0037 36.9 7.6 48 82-129 153-208 (943)
66 PRK11072 bifunctional glutamin 26.6 1.7E+02 0.0036 37.0 7.5 59 70-129 667-736 (943)
67 PRK05092 PII uridylyl-transfer 26.5 1.9E+02 0.004 36.3 7.9 31 82-112 104-134 (931)
68 PF07357 DRAT: Dinitrogenase r 25.8 25 0.00055 37.7 0.3 22 374-395 96-117 (262)
69 COG1391 GlnE Glutamine synthet 25.1 4.5E+02 0.0098 33.3 10.5 44 86-129 174-225 (963)
70 PF15431 TMEM190: Transmembran 20.6 62 0.0013 30.9 1.7 28 210-237 73-102 (134)
71 PHA02996 poly(A) polymerase la 20.2 1.1E+02 0.0023 35.1 3.7 76 33-128 128-209 (467)
No 1
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification]
Probab=100.00 E-value=3.1e-143 Score=1158.08 Aligned_cols=453 Identities=60% Similarity=1.041 Sum_probs=439.8
Q ss_pred CCcccccCCCCCCCCChHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcE
Q 005391 6 GQRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAK 85 (698)
Q Consensus 6 ~~~~Gvt~PIS~~~Pt~~D~~~t~~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~k 85 (698)
++.||||+|||+++||+.|+++|.+|+++|+++|+||++||..+|++||++|++||++|++++++++|++++++.++||+
T Consensus 12 ~~~~Gvt~PiS~a~p~~~d~~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~~~aggk 91 (562)
T KOG2245|consen 12 TKSYGVTQPISTAGPTEADIALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMIENAGGK 91 (562)
T ss_pred cccccccCCcccCCCcHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhhhcCce
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEecCeeeeEEeecccc
Q 005391 86 IFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSL 165 (698)
Q Consensus 86 I~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~ 165 (698)
|+||||||||||+||||||+|||+|+|++|+ |||..|+++|+++++|++|++|++|+||||||+|+||+|||+||++++
T Consensus 92 IftfGSYRLGVhg~GADIDtLcV~Prhv~R~-DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfKf~GI~IDllfArL~l 170 (562)
T KOG2245|consen 92 IFTFGSYRLGVHGPGADIDTLCVGPRHVSRS-DFFTSFYDMLKERPEVTELHAVEDAFVPIIKFKFDGIEIDLLFARLAL 170 (562)
T ss_pred EEeccceeecccCCCCCcceeeeccccccHH-HHHHHHHHHHhcCccccccccccccccceEEEEecCeeeeeeehhccc
Confidence 9999999999999999999999999999995 999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCchhhhccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHH
Q 005391 166 WVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVAR 245 (698)
Q Consensus 166 ~~iP~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~ 245 (698)
++||++|||+||++|+++||+|+||||||||||+||+|||+.+.||.+|||||+|||+||||+|.+||||||+|||||||
T Consensus 171 ~~VP~dldl~ddslLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA~LVAR 250 (562)
T KOG2245|consen 171 PVVPEDLDLSDDSLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWAMLVAR 250 (562)
T ss_pred ccCCCcccccchHhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHH
Q 005391 246 ICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLR 325 (698)
Q Consensus 246 vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~ 325 (698)
+|||||||++++|+.+||.+|++|+||+||+|+.+++|.++++||||+.|+.||+|+|||||||||+||+|||||+||++
T Consensus 251 iCQLYPNA~~s~Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS~ST~~ 330 (562)
T KOG2245|consen 251 ICQLYPNASPSTLVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVSRSTLK 330 (562)
T ss_pred HHccCCCcchHHHHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCcceecccccCCcccccccccccHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHcccCCCCcccccCCcchhhhcccEEEEEEEecChhhhhccchhhhhHHHHHHhhc--------
Q 005391 326 IMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKR-------- 397 (698)
Q Consensus 326 vI~~EF~RA~~Il~~i~~~~~~~~W~~Lfe~~~FF~~Yk~yL~I~v~a~~~e~~~~w~G~VESRlR~Lv~~~-------- 397 (698)
+|.+||+||++||++|+.++. +|.+|||+++||.+|||||+|+++|.++|++.+|.||||||+|+|+.+.
T Consensus 331 Vi~~Ef~~g~~I~~~i~~~k~--~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~klE~~~~i~~ 408 (562)
T KOG2245|consen 331 VITEEFKRGLEICDDIELNKL--DWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERNQVILI 408 (562)
T ss_pred HHHHHHHHHHHHHHHHHhccc--cHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhhcceEE
Confidence 999999999999999999999 9999999999999999999999999999999999999999999999871
Q ss_pred ------------------------cCCCCCCCCceeeccccHHHHHHHHh----hcccCCCC--cEEEEEeeccCCCCCC
Q 005391 398 ------------------------KQGVPVGEGEQFDIRLTVKEFKQAVS----MYTLRKPG--MQISVAHVTRRNLPNF 447 (698)
Q Consensus 398 ------------------------~~~~~~~~~~~~di~~~v~eF~~~v~----~~~~~~~g--m~i~v~~vk~~~LP~~ 447 (698)
..|+...++.++|++.++++|++.++ +.+.+++| |++.+.|+||++|+.+
T Consensus 409 ahp~P~~f~~~~~~~~~~~~~~~~~igl~~~e~~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr~l~~~ 488 (562)
T KOG2245|consen 409 AHPNPKKFKDTYNCPLEEDPESLWFIGLEFDENVKIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRRSLIQT 488 (562)
T ss_pred ecCCcccccccccCCcccchhHhhhhcccccccccchhhhhHHHhhhhhhhcceeeeeeecccccccccccccccccccc
Confidence 12455556778999999999999998 67889999 8888889999999999
Q ss_pred cCCCCCcCCCCCCC
Q 005391 448 VFPGGVRPSRPSKG 461 (698)
Q Consensus 448 v~~~~~r~~~~~~~ 461 (698)
+++...|..|..+.
T Consensus 489 ~~~~~l~~~k~~~~ 502 (562)
T KOG2245|consen 489 ITKEFLRLCKQYKK 502 (562)
T ss_pred cCHHHhhHHHhhcc
Confidence 99999988887765
No 2
>PTZ00418 Poly(A) polymerase; Provisional
Probab=100.00 E-value=3.2e-129 Score=1082.58 Aligned_cols=452 Identities=48% Similarity=0.902 Sum_probs=429.4
Q ss_pred CcccccCCCCCCCCChHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEE
Q 005391 7 QRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKI 86 (698)
Q Consensus 7 ~~~Gvt~PIS~~~Pt~~D~~~t~~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI 86 (698)
..||||+|||+++||++|++.+++|+++|+++|+|||+||.++|++||++|+++|++|+++++.++|++++++.+++++|
T Consensus 50 ~~~Gvt~Pis~~~Pt~~d~~~s~~L~~~L~~~~~fes~ee~~kR~~vL~~L~~iv~~wv~~vs~~k~~~~~~~~~~~g~I 129 (593)
T PTZ00418 50 LSYGVTDPISLNGPTEEDLKLSNELINLLKSYNLYETEEGKKKRERVLGSLNKLVREFVVEASIEQGINEEEASQISGKL 129 (593)
T ss_pred cccCCCCCccCCCCChHHHhhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhHHhcCCeEE
Confidence 56999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEecCeeeeEEeeccccc
Q 005391 87 FTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLW 166 (698)
Q Consensus 87 ~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~ 166 (698)
+||||||||||+|+||||+|||+|+|++| ++||..|+++|+++++|++|++|++|+||||||+++||+|||+||+++..
T Consensus 130 ~tfGSYrLGV~~pgSDID~L~V~P~~vtr-edFF~~f~~~L~~~~~V~eL~~V~~A~VPiIk~~~~GI~iDL~fa~l~~~ 208 (593)
T PTZ00418 130 FTFGSYRLGVVAPGSDIDTLCLAPRHITR-ESFFSDFYAKLQQDPNITKLQPVPDAYTPVIKFVYDGIDIDLLFANLPLP 208 (593)
T ss_pred EEeccccccCCCCCCcccEEEECCCCCCH-HHHHHHHHHHHhcCCCcceeeccCccccCeEEEEECCEEEeeeecccCCC
Confidence 99999999999999999999999999999 59999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCchh-hhccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHH
Q 005391 167 VIPEDLDISQDS-ILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVAR 245 (698)
Q Consensus 167 ~iP~~ldl~~d~-lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~ 245 (698)
.||+++++.+++ +|+++|++++||||||||+|+|+++||+.+.||.+|||||+|||+||||+|++||||||+|||||||
T Consensus 209 ~vp~~~~~l~d~~lL~nlde~s~rSLNG~Rvtd~Il~lVPn~~~Fr~aLR~IKlWAkrRGIYsNv~GflGGV~wAILvAR 288 (593)
T PTZ00418 209 TIPDCLNSLDDDYILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGVSWAILTAR 288 (593)
T ss_pred CCCccccccCchhhhhcCCHHHhhhhccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHH
Confidence 999999988776 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHhhccCCCCCceeeccccc-----CCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccC
Q 005391 246 ICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEE-----GSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVS 320 (698)
Q Consensus 246 vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~-----G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs 320 (698)
+||+|||+++++||.+||.+|++|+||+||+|+++++ |.++++||||+.|++|+.|+||||||+||+||+|||||
T Consensus 289 VCQLyPna~~s~Lv~~FF~iys~W~Wp~PV~L~~i~~~~~~~g~~~~~VWdPr~~~~dr~h~MPIITPayP~mNst~nVt 368 (593)
T PTZ00418 289 ICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDPRVNPQDRAHLMPIITPAFPSMNSTHNVT 368 (593)
T ss_pred HHHhCCCCCHHHHHHHHHHHhhcCCCCCCeEcccccccccCCcccCCcccCCCCCcccccccCCeecCCCCCcccccccc
Confidence 9999999999999999999999999999999999875 77889999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHc-ccCCCCcccccCCcchhhhcccEEEEEEEecChhhhhccchhhhhHHHHHHhhccC
Q 005391 321 TSTLRIMMDEFQRGHEICEAMEK-NEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKRKQ 399 (698)
Q Consensus 321 ~sTl~vI~~EF~RA~~Il~~i~~-~~~~~~W~~Lfe~~~FF~~Yk~yL~I~v~a~~~e~~~~w~G~VESRlR~Lv~~~~~ 399 (698)
.+|+++|++||+||++||++|.. ++. +|++||++++||.+|+|||+|++.+.+++++.+|.||||||||.|+.+.+.
T Consensus 369 ~sT~~vI~~Ef~Ra~~i~~~i~~~~~~--~W~~Lfep~~Ff~~Yk~yl~V~v~a~~~~~~~~w~G~VESRlR~Lv~~LE~ 446 (593)
T PTZ00418 369 YTTKRVITEEFKRAHEIIKYIEKNSEN--TWTNVLEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKKLET 446 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC--CHHHHcCCcchhhhcceEEEEEEEECCHHHhhhhhhHHHHHHHHHHHHhhc
Confidence 99999999999999999999987 766 999999999999999999999999999999999999999999999987210
Q ss_pred ----------------------------CCCC-----CCCceeeccccHHHHHHHHhhccc---CCCCcEEEEEeeccCC
Q 005391 400 ----------------------------GVPV-----GEGEQFDIRLTVKEFKQAVSMYTL---RKPGMQISVAHVTRRN 443 (698)
Q Consensus 400 ----------------------------~~~~-----~~~~~~di~~~v~eF~~~v~~~~~---~~~gm~i~v~~vk~~~ 443 (698)
|+.. .++.++||+.++++|++.|++|.. |.++|+|.|+|||+++
T Consensus 447 ~~~i~~~p~P~~f~~~~~~~~~~~~ffIGL~~~~~~~~~~~~~Dl~~~~~~F~~~i~~~~~~~~~~~~~~i~v~~Vk~~~ 526 (593)
T PTZ00418 447 LNNLKIRPYPKFFKYQDDGWDYASSFFIGLVFFSKNVYNNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDINIKYLKKSQ 526 (593)
T ss_pred cCCceEeecCcccccCCCCceeEEEEEEeEeeccCCCCCCceEecHHHHHHHHHHHHhhhhcccCCCCceEEEEEeehHh
Confidence 1111 122489999999999999999963 7889999999999999
Q ss_pred CCCCcCCCCCcCCCCCCC
Q 005391 444 LPNFVFPGGVRPSRPSKG 461 (698)
Q Consensus 444 LP~~v~~~~~r~~~~~~~ 461 (698)
||+|||+.|.++.+..|.
T Consensus 527 Lp~~v~~~~~~~~~~~~~ 544 (593)
T PTZ00418 527 LPAFVLSQTPEEPVKTKA 544 (593)
T ss_pred CCHhhccCCCcCCCcccc
Confidence 999999988777666663
No 3
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification]
Probab=100.00 E-value=1.7e-121 Score=958.13 Aligned_cols=455 Identities=46% Similarity=0.869 Sum_probs=435.2
Q ss_pred CCCCCCCcccccCCCCCCCCChHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhh
Q 005391 1 MGSSNGQRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQ 80 (698)
Q Consensus 1 ~~~~~~~~~Gvt~PIS~~~Pt~~D~~~t~~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~ 80 (698)
|++ .++||||+|||+.+.|+++.+++.+|+++|+..|.||++.|.+.|.+||++|+.++++|+.++++++|+++.++.
T Consensus 1 Ms~--~k~~GiTgP~ST~~aTe~En~Ln~~li~eLk~~g~FE~~~E~~~Rv~VL~~Lq~~~~eFV~~vs~~K~m~dgmar 78 (552)
T COG5186 1 MSE--KKKYGITGPLSTREATEEENRLNGELIKELKERGFFEDDKEGQTRVRVLGKLQFMVREFVARVSRNKGMGDGMAR 78 (552)
T ss_pred CCc--cccccccCCcccccccHHHhhhhHHHHHHHHHcCCcCCchhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCccccc
Confidence 444 489999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcEEEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEecCeeeeEEe
Q 005391 81 EANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLY 160 (698)
Q Consensus 81 ~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsf 160 (698)
++|+|||||||||||||+||||||+|||.|+|++|+ |||+.|+.+|++.++++++.+|++|+||||||+|.||+|||.|
T Consensus 79 ~aGGKIFTyGSYRLGVhgpGsDIDtLvvVPkHVsR~-dFFt~f~~~Lrer~ei~eva~vpDAfVPIIK~KF~GIsIDLif 157 (552)
T COG5186 79 PAGGKIFTYGSYRLGVHGPGSDIDTLVVVPKHVSRS-DFFTHFYEELRERPEIEEVAKVPDAFVPIIKLKFQGISIDLIF 157 (552)
T ss_pred cCCceeeeecceeeeccCCCCCcceEEEecccccHH-HHHHHHHHHhccCcchhhhccCCcccceeEEEEecCccceeee
Confidence 999999999999999999999999999999999994 9999999999999999999999999999999999999999999
Q ss_pred ecccccccCCCCCCCchhhhccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHH
Q 005391 161 ARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWA 240 (698)
Q Consensus 161 a~l~~~~iP~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swa 240 (698)
|+++.+++|..|+|+|+++|++|||+|++||||.||||+||+|||+...|+.+||+||+||+||.||.|.+||.||++|+
T Consensus 158 ARLs~P~Vp~~l~Lsd~nLLk~~dEkcilsLNGtRVTDeiL~LVP~~~vF~~ALRaIK~WAqRRavYaN~~GfpGGVAwa 237 (552)
T COG5186 158 ARLSIPVVPDGLNLSDDNLLKSMDEKCILSLNGTRVTDEILNLVPSVKVFHSALRAIKYWAQRRAVYANPYGFPGGVAWA 237 (552)
T ss_pred eeccCCcCCCcccccchhhhhcchHHHHHhhcCceehHHHHHhCCchHHHHHHHHHHHHHHHhhhhhccccCCcchHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccC
Q 005391 241 LLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVS 320 (698)
Q Consensus 241 ILVa~vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs 320 (698)
|||||+|||||||+...++.+||.++++|+||+||+|++|++|.++.++|||+.|++|++|+||||||+||+||.|||||
T Consensus 238 m~VARiCQLYPNA~S~vIv~kFF~ils~WnWPqPviLkPieDgplqvrvWnPKvYpsDk~HRMPvITPAYPSMCATHNit 317 (552)
T COG5186 238 MCVARICQLYPNASSFVIVCKFFEILSSWNWPQPVILKPIEDGPLQVRVWNPKVYPSDKYHRMPVITPAYPSMCATHNIT 317 (552)
T ss_pred HHHHHHHhhccCcchHhHHHHHHHHHHhcCCCCCeEeeeccCCCeeEEeeCCccCcccccccCccccCCchhhhhhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHcccCCCCcccccCCcchhhhcccEEEEEEEecChhhhhccchhhhhHHHHHHhhcc--
Q 005391 321 TSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKRK-- 398 (698)
Q Consensus 321 ~sTl~vI~~EF~RA~~Il~~i~~~~~~~~W~~Lfe~~~FF~~Yk~yL~I~v~a~~~e~~~~w~G~VESRlR~Lv~~~~-- 398 (698)
.||..+|..||-||++|+.+|+.+.. +|..||+.+|||.+||+||.|++.+.++|++.+|.|+||||+|.|+.+..
T Consensus 318 ~STq~vIl~EfvRa~~I~~di~~n~~--~w~~lFek~DFF~RYk~yleitA~s~~~E~~lKW~GlvESKiR~Lv~klE~v 395 (552)
T COG5186 318 NSTQHVILMEFVRAHKILSDIERNAL--DWRRLFEKSDFFSRYKLYLEITAMSSCEEDFLKWEGLVESKIRILVSKLEAV 395 (552)
T ss_pred chhhhhHHHHHHHHHHhhhhHhhccc--cHHHHHHhhhHHHHHhHhhhhhhhhcchhhhhhhhhHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999888 99999999999999999999999999999999999999999999997700
Q ss_pred ----------------------------------------------------------C-----------CC---CCCCC
Q 005391 399 ----------------------------------------------------------Q-----------GV---PVGEG 406 (698)
Q Consensus 399 ----------------------------------------------------------~-----------~~---~~~~~ 406 (698)
. |+ +..++
T Consensus 396 d~i~~AhPF~K~F~~~y~c~~Ee~~e~i~~~~~~~~a~~s~d~~kl~~d~~~eees~~d~~k~y~tt~yIgld~~~~~~~ 475 (552)
T COG5186 396 DDILYAHPFPKAFRKVYNCVAEESIEKIGSGVTLEVAYESTDHEKLANDTVPEEESMEDGMKVYCTTFYIGLDVIPVKPG 475 (552)
T ss_pred hhhhhcCcCChhhhhhcCCccHHHHHHHhcccceeehhhccchhhhccccCchhhhhccccceeeeEEEEEEEeeecCCC
Confidence 0 00 11236
Q ss_pred ceeeccccHHHHHHHHhhcccCC-CCcEEEEEeeccCCCCCCcC-CCCCcCCCCCC
Q 005391 407 EQFDIRLTVKEFKQAVSMYTLRK-PGMQISVAHVTRRNLPNFVF-PGGVRPSRPSK 460 (698)
Q Consensus 407 ~~~di~~~v~eF~~~v~~~~~~~-~gm~i~v~~vk~~~LP~~v~-~~~~r~~~~~~ 460 (698)
+++||..+++||.+.|+.|++++ .||.|.|+.+|+++||+-|| |++.||+..+|
T Consensus 476 kkvdi~~p~~EF~elcr~~d~gd~~~mni~v~~~K~~dlpdeVF~~geerPs~~sK 531 (552)
T COG5186 476 KKVDIEQPVKEFIELCREYDEGDASGMNIEVNSLKRKDLPDEVFYPGEERPSNSSK 531 (552)
T ss_pred ceeeeeccHHHHHHHHHHhhccccceeeeehhhccccCCchhhcCCCccCcccccc
Confidence 78999999999999999997766 57999999999999999999 58888887555
No 4
>PF04928 PAP_central: Poly(A) polymerase central domain; InterPro: IPR007012 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs. Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase which specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analog at 2.5 A resolutio has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta-sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different.; GO: 0004652 polynucleotide adenylyltransferase activity, 0006351 transcription, DNA-dependent; PDB: 1Q79_A 1Q78_A 1F5A_A 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A.
Probab=100.00 E-value=1.5e-74 Score=594.45 Aligned_cols=253 Identities=62% Similarity=1.102 Sum_probs=203.3
Q ss_pred CcccccCCCCCCCCChHHHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEE
Q 005391 7 QRLGITEPISLAGPTDDDLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKI 86 (698)
Q Consensus 7 ~~~Gvt~PIS~~~Pt~~D~~~t~~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI 86 (698)
++||||+|||+++||+.|++.+++|+++|+++++|||+||.++|++||++|++++++|+++
T Consensus 2 ~~~Gvt~PIS~~~Pt~~Dl~~s~~L~~~l~~~~~~es~ee~~~R~~vl~~L~~iv~~wv~~------------------- 62 (254)
T PF04928_consen 2 KQYGVTKPISLAPPTEKDLKRSASLEEFLKDYGLFESEEEEQKREEVLRKLQQIVKEWVKQ------------------- 62 (254)
T ss_dssp GGGSTT--S------HHHHHHHHHHHHHHHHCT-S--HHHHHHHHHHHHHHHHHHHHHHHH-------------------
T ss_pred CccCCCCCccCCCCChhhHHhHHHHHHHHHHcCCCCChHHHhHHHHHHHHHHHHHHHHHHh-------------------
Confidence 6899999999999999999999999999999999999999999999999999999999954
Q ss_pred EEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEecCeeeeEEeeccccc
Q 005391 87 FTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLW 166 (698)
Q Consensus 87 ~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~ 166 (698)
...
T Consensus 63 -----------------------------------------------------------------------------~~~ 65 (254)
T PF04928_consen 63 -----------------------------------------------------------------------------ALP 65 (254)
T ss_dssp -----------------------------------------------------------------------------SSS
T ss_pred -----------------------------------------------------------------------------hhc
Confidence 456
Q ss_pred ccCCCCCCCchhhhccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHHH
Q 005391 167 VIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARI 246 (698)
Q Consensus 167 ~iP~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~v 246 (698)
++|+++++.++++|++||++|++||||+||+++|+++||+.+.||.++||||+|||+||||+|++||||||+||||||++
T Consensus 66 ~~p~~l~~~~~~~l~~ld~~s~~sLnG~Rv~~~il~~Vp~~~~Fr~~lR~IK~WAk~RGIYsn~~GylGGI~waILvArv 145 (254)
T PF04928_consen 66 RVPEDLDLLDDDPLRNLDEASVRSLNGVRVTDYILRLVPNQETFRTALRFIKLWAKRRGIYSNVFGYLGGIHWAILVARV 145 (254)
T ss_dssp SB-TT--TT-GGGGTT--HHHHHHHHHHHHHHHHHCTSS-HHHHHHHHHHHHHHHHHTT-B-CCCTSB-HHHHHHHHHHH
T ss_pred CCCcccccCCchhhhCCCHhhccCcccccHHHHHHHHCCCHHHHHHHHHHHHHHHHHccccchhhccchHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHH
Q 005391 247 CQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRI 326 (698)
Q Consensus 247 cQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~v 326 (698)
||+|||+++++||.+||.+|++|+|++||+|+++.++.+++++|+|+.|.+|+.|+|||+||+||+||+|+|||.+|+++
T Consensus 146 cql~Pn~~~~~ll~~FF~~ys~W~W~~PV~l~~~~~~~~~~~~w~p~~~~~~~~~~MpIiTP~yP~~Nst~nVt~st~~~ 225 (254)
T PF04928_consen 146 CQLYPNASPSTLLSRFFQIYSQWDWPNPVVLDPIEDGPLGFKVWNPRLYPRDRRHLMPIITPAYPSMNSTYNVTRSTLRI 225 (254)
T ss_dssp HHHSTT--HHHHHHHHHHHHHCS-TTS-EESS-----SSSCGS--TTT-HHHHC-SS-EE-SSSS--BTTTT--HHHHHH
T ss_pred HHHCccccccchHHHHHHHhcCCCCCCceeecccccCcccccCCCCCCCCCCcccceeEccCCCCccccccccCHHHHHH
Confidence 99999999999999999999999999999999999998999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHcccCCCCcccccCCc
Q 005391 327 MMDEFQRGHEICEAMEKNEADVDWDTLFEPF 357 (698)
Q Consensus 327 I~~EF~RA~~Il~~i~~~~~~~~W~~Lfe~~ 357 (698)
|++||+||+++|+++..++. +|++||+|+
T Consensus 226 i~~Ef~ra~~i~~~~~~~~~--~W~~L~e~~ 254 (254)
T PF04928_consen 226 IREEFQRAHEILSEILKGGA--SWSDLFEPH 254 (254)
T ss_dssp HHHHHHHHHHHHHHHHTTSS---HHHCT---
T ss_pred HHHHHHHHHHHHHHHHcCCC--CHHHHcCCC
Confidence 99999999999999998777 999999986
No 5
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair]
Probab=99.97 E-value=3.4e-30 Score=281.10 Aligned_cols=260 Identities=23% Similarity=0.325 Sum_probs=206.1
Q ss_pred HHHHHHHHHc--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEE
Q 005391 29 RKLEKYLRDV--NLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTL 106 (698)
Q Consensus 29 ~~L~~~L~~~--~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~l 106 (698)
++|..+|.++ .+-|+.+|.++|...|++|++++++- + .++.+++|||+.+|+++|+||||++
T Consensus 55 ~~lt~el~~~y~~I~ps~eEl~~R~~~leklr~~lk~~---------~-------pda~l~vFGS~~t~L~l~~SDiDl~ 118 (482)
T COG5260 55 DELTSELLEFYDYIAPSDEELKRRKALLEKLRTLLKKE---------F-------PDADLKVFGSTETGLALPKSDIDLC 118 (482)
T ss_pred HHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHh---------C-------CccceeEecccccccccCcccccEE
Confidence 3444444444 35699999999999999999999752 1 2568999999999999999999999
Q ss_pred eecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEe--cCeeeeEEeecccccccCCCCCCCchhhhccch
Q 005391 107 CVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKF--SGVSIDLLYARLSLWVIPEDLDISQDSILQNAD 184 (698)
Q Consensus 107 cv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~iP~~ldl~~d~lL~~lD 184 (698)
++.+....++..--..++..|.......++.+|..|+||||||.+ .|+.|||+|++.
T Consensus 119 I~s~~~~~~et~~~~~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~--------------------- 177 (482)
T COG5260 119 IISDPRGYKETRNAGSLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNT--------------------- 177 (482)
T ss_pred EecCCccccccccHHHHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCch---------------------
Confidence 988665543211112455555555677889999999999999998 589999999985
Q ss_pred hhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHHHHhhCCC------------
Q 005391 185 EQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPN------------ 252 (698)
Q Consensus 185 e~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~vcQlyPn------------ 252 (698)
+|++.|..++.++-.++++|+|+.+||+||++|.+++...|+|+||++++||..++|++|.
T Consensus 178 -------~~~~~akl~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~~~~l 250 (482)
T COG5260 178 -------NGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGLLSPL 250 (482)
T ss_pred -------hHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCccccccccccchh
Confidence 5889999999999999999999999999999999999999999999999999999999982
Q ss_pred ------CCHHHHHHHHHHhhc-cCCCCCceeecccccC-CC-C--ccccCCCCCCCCCCCCeeEeCCC-CCCCCcccccC
Q 005391 253 ------AVPSMLVSRFFRVYT-QWRWPNPVLLCAIEEG-SL-G--LQVWDPRRNPKDKYHLMPIITPA-YPCMNSSYNVS 320 (698)
Q Consensus 253 ------as~~~LL~~FF~~Ys-~wdW~~pV~L~~i~~G-~l-~--~~vWdP~~~~~Dr~hlMpIiTPa-~P~~Nst~NVs 320 (698)
.+++.|+..||++|+ .|+|.--++ .+..| .+ . .+.|--. .. ...++|++|. .+..+++ ..
T Consensus 251 ~~~~~~~~lgvLf~dFf~~yG~~f~Y~~~~~--si~~g~~~~~K~e~g~~~~---~~-p~~LsiqdP~td~n~~~~--a~ 322 (482)
T COG5260 251 KYNKNIDNLGVLFDDFFELYGKSFNYSLVVL--SINSGDFYLPKYEKGWLKP---SK-PNSLSIQDPGTDRNNDIS--AV 322 (482)
T ss_pred hccccccccchHHHHHHHHhccccChhheEE--EecCCceeeehhhcccccc---cC-CCcEeecCCCCCcccccc--cc
Confidence 258999999999999 599987544 34455 21 1 1234211 11 3679999999 5544443 34
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 005391 321 TSTLRIMMDEFQRGHEICEA 340 (698)
Q Consensus 321 ~sTl~vI~~EF~RA~~Il~~ 340 (698)
..+...|+.+|.+|.+++.+
T Consensus 323 s~~ik~i~~~F~~aF~lls~ 342 (482)
T COG5260 323 SFNIKDIKAAFIRAFELLSN 342 (482)
T ss_pred cchHHHHHHHHHHHHHHHhh
Confidence 56889999999999999864
No 6
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair]
Probab=99.96 E-value=5.4e-28 Score=268.49 Aligned_cols=263 Identities=21% Similarity=0.313 Sum_probs=207.6
Q ss_pred HHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCce
Q 005391 25 LMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADID 104 (698)
Q Consensus 25 ~~~t~~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID 104 (698)
..+++++..++. .+.||.+|.+.|.++++++++.|++- + ..++|+.||||.+|+++|+||||
T Consensus 61 ~~l~~eI~~fv~--~l~pt~~e~~~R~~~~~~i~~~v~~~---------~-------~~a~v~~FGS~~tglyLP~sDID 122 (514)
T KOG1906|consen 61 ERLRNEILDFVQ--YLIPTPEEIEVRSELVEKIRDVVKQK---------W-------PDASVYVFGSVPTGLYLPDSDID 122 (514)
T ss_pred HHHHHHHHHHHH--HhcCCchHHHHHHHHHHHHHHHHHHh---------c-------ccceeEEeeeeeccccccccceE
Confidence 344555555555 57899999999999999999988731 1 36899999999999999999999
Q ss_pred EEeecCCCCCchhhHHHHHHHHHhc--CCCceeeEeecCCccceEEEEe--cCeeeeEEeecccccccCCCCCCCchhhh
Q 005391 105 TLCVGPRHATREEDFFGELHQMLTE--MPEVTELHPVPDAHVPVMKFKF--SGVSIDLLYARLSLWVIPEDLDISQDSIL 180 (698)
Q Consensus 105 ~lcv~P~~v~r~edFF~~l~~~L~~--~~~V~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~iP~~ldl~~d~lL 180 (698)
+++.++.+..++ +....+.-++.. ...-..+..|..|+||||||+. .+|.|||+|++.
T Consensus 123 l~v~~~~~~~~e-~~~~~~~l~~~~e~~~~~~~v~~v~karvpiik~~d~~s~i~vDISFn~~----------------- 184 (514)
T KOG1906|consen 123 LVVLSKFLNDKE-DRAVKLELALELEEDNSAFHVKVVQKARVPIIKFKDPVSNIHVDISFNQT----------------- 184 (514)
T ss_pred EEEecccccCch-hhHHHHHHHHhhhhccccceEEEeeeeeeeeEEeecCccceEEEeeeccc-----------------
Confidence 999999776653 555554444433 2334568899999999999998 699999999986
Q ss_pred ccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHHHHhhCCCC-------
Q 005391 181 QNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNA------- 253 (698)
Q Consensus 181 ~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~vcQlyPna------- 253 (698)
|||+.++.|..++-+.+.+|.++.++|.|...|++++...|++++|++++||..++|++|..
T Consensus 185 -----------~G~~aa~~i~~~~~~~p~~~~lvlvlk~fl~~r~ln~v~tGgisSyal~~Lv~~fl~l~~~~~s~~~~~ 253 (514)
T KOG1906|consen 185 -----------NGVKAAKFIKDFLRDHPFLRSLVLVLKQFLYERRLNGVHTGGISSYALELLVLSFLQLHPRSKSGRLAV 253 (514)
T ss_pred -----------CchhHHHHHHHHHhcCccchhHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHhhcccccCCccch
Confidence 68999999999999999999999999999999999999999999999999999999999864
Q ss_pred --CHHHHHHHHHHhhc-cCCCCC-ceeecccccCC-CC--ccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHH
Q 005391 254 --VPSMLVSRFFRVYT-QWRWPN-PVLLCAIEEGS-LG--LQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRI 326 (698)
Q Consensus 254 --s~~~LL~~FF~~Ys-~wdW~~-pV~L~~i~~G~-l~--~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~v 326 (698)
.++.|+.+||++|+ +|.+.. -|.+. ..|. .+ ...|- .+...+...+.|+||..|..+.++ +...+.-
T Consensus 254 ~~~~~vll~~f~e~yG~~f~~~k~~i~~~--~~g~~~~~~~~~~~--~~~~~~~~~LsieDP~~P~ndigr--~s~~~~~ 327 (514)
T KOG1906|consen 254 LKNLGVLLIKFFELYGRNFGYDKLGISLS--LGGEYVSKELTGFF--NNSLERPGSLSIEDPVDPTNDIGR--SSFNFSQ 327 (514)
T ss_pred hcccchHHHHHHHHhccccCchhhceecc--CCcccccHHhhhhh--cccccCCCccccCCCCCccccccc--ccccHHH
Confidence 46789999999999 576665 23221 1121 11 11121 122345567999999999777664 3356788
Q ss_pred HHHHHHHHHHHHHH
Q 005391 327 MMDEFQRGHEICEA 340 (698)
Q Consensus 327 I~~EF~RA~~Il~~ 340 (698)
|+.+|..|+..|..
T Consensus 328 v~~~F~~af~~l~~ 341 (514)
T KOG1906|consen 328 VKGAFAYAFKVLTN 341 (514)
T ss_pred HHHHHHHHHHHHhh
Confidence 99999999998754
No 7
>PF04926 PAP_RNA-bind: Poly(A) polymerase predicted RNA binding domain; InterPro: IPR007010 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs. Poly(A) polymerase, the enzyme at the heart of the polyadenylation machinery, is a template-independent RNA polymerase that specifically incorporates ATP at the 3' end of mRNA. The crystal structure of bovine poly(A) polymerase bound to an ATP analogue at 2.5 A resolution has been determined []. The structure revealed expected and unexpected similarities to other proteins. As expected, the catalytic domain of poly(A) polymerase shares substantial structural homology with other nucleotidyl transferases such as DNA polymerase beta and kanamycin transferase. The C-terminal domain unexpectedly folds into a compact domain reminiscent of the RNA-recognition motif fold. The three invariant aspartates of the catalytic triad ligate two of the three active site metals. One of these metals also contacts the adenine ring. Furthermore, conserved, catalytically important residues contact the nucleotide. These contacts, taken together with metal coordination of the adenine base, provide a structural basis for ATP selection by poly(A) polymerase. ; GO: 0003723 RNA binding, 0004652 polynucleotide adenylyltransferase activity, 0043631 RNA polyadenylation, 0005634 nucleus; PDB: 2O1P_A 2HHP_A 3C66_B 1FA0_A 2Q66_A 1Q79_A 1Q78_A 1F5A_A.
Probab=99.83 E-value=1.7e-21 Score=187.03 Aligned_cols=100 Identities=43% Similarity=0.843 Sum_probs=77.3
Q ss_pred chhhhcccEEEEEEEecChhhhhccchhhhhHHHHHHhhcc--C------------------------------------
Q 005391 358 TFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKRK--Q------------------------------------ 399 (698)
Q Consensus 358 ~FF~~Yk~yL~I~v~a~~~e~~~~w~G~VESRlR~Lv~~~~--~------------------------------------ 399 (698)
+||.+|||||+|+|+|.+++++.+|.||||||||.||.+.. .
T Consensus 1 ~FF~~Yk~yl~I~~~a~~~~~~~~W~G~VESrlR~Lv~~LE~~~~i~~ahp~pk~f~~~~~~~~~~~~~~~~~~~~~~~~ 80 (157)
T PF04926_consen 1 DFFSRYKHYLQIDVSAKNEEDHRKWSGWVESRLRHLVQKLERNPGIKLAHPFPKRFERVYECSEQADENNDEEEEEDPEN 80 (157)
T ss_dssp -HHHH-SEEEEEEEEECSHHHHHHHHHHHHCCHHHHHHHHHTSTTEEEEEE-SS-EEEEEE-EBECTTCTTSHHCHCTSE
T ss_pred ChhHhCceeEEEEEEeCCHHHHHHhhhHHHHHHHHHHHHHccCCCeeEecCCCCccccccccccccccccccccccCCCc
Confidence 69999999999999999999999999999999999997610 0
Q ss_pred --------CCCCC------CCceeeccccHHHHHHHHhhccc---CCCCcEEEEEeeccCCCCCCcCCCCCcCCC
Q 005391 400 --------GVPVG------EGEQFDIRLTVKEFKQAVSMYTL---RKPGMQISVAHVTRRNLPNFVFPGGVRPSR 457 (698)
Q Consensus 400 --------~~~~~------~~~~~di~~~v~eF~~~v~~~~~---~~~gm~i~v~~vk~~~LP~~v~~~~~r~~~ 457 (698)
|+... .+.++||+.++++|++.|++|.. +.++|+|.|+|||+++||+|||+++.++.+
T Consensus 81 ~~~~~~fIGL~~~~~~~~~~~~~~dL~~~i~~F~~~v~~~~~~~~~~~~m~i~i~~vk~~~Lp~~v~~~~~~r~~ 155 (157)
T PF04926_consen 81 EYTSSFFIGLEFDSKESNEGSKKLDLTYAIQEFKDLVRNWEKYYYDEEGMDISISHVKRSQLPDFVFEEGEKRPK 155 (157)
T ss_dssp EEEEEEEEEEEE--SSSS---S-EE-HHHHHHHHHHHHCCCCTTC-TTTEEEEEEEEEHHHHGGGGS-TTS----
T ss_pred eeEEEEEEEEEECCCCccccceEEehHHHHHHHHHHHHhhhccccCCCccEEEEEEechHHCChhhhcccCcCCC
Confidence 11110 12369999999999999999977 678899999999999999999998876554
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=4.7e-19 Score=160.19 Aligned_cols=98 Identities=43% Similarity=0.822 Sum_probs=88.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCCC-CCchhhHHHHHHHHH
Q 005391 49 SREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRH-ATREEDFFGELHQML 127 (698)
Q Consensus 49 ~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~-v~r~edFF~~l~~~L 127 (698)
.|++++++|++++++|. .++++++|||+++|+++|+||||+++..|.. ... .+++..+.+.|
T Consensus 1 ~r~~i~~~l~~~i~~~~----------------~~~~v~~fGS~~~g~~~~~SDiDl~i~~~~~~~~~-~~~l~~l~~~l 63 (114)
T cd05402 1 KREEVLDRLQELIKEWF----------------PGAKLYPFGSYVTGLGLPGSDIDLCLLGPNHRVDR-EDFLRKLAKLL 63 (114)
T ss_pred CHHHHHHHHHHHHHHHC----------------CCCEEEEecccccCCCCCCCCeeEEEEeCCCCccH-HHHHHHHHHHH
Confidence 38899999999999873 3689999999999999999999999999976 333 58999999999
Q ss_pred hcCCCceeeEeecCCccceEEEEec--CeeeeEEeecc
Q 005391 128 TEMPEVTELHPVPDAHVPVMKFKFS--GVSIDLLYARL 163 (698)
Q Consensus 128 ~~~~~V~~l~~I~~ArVPIIKf~~~--GI~iDLsfa~l 163 (698)
++...+.++..|..|+||||||.+. |++|||+|++.
T Consensus 64 ~~~~~~~~~~~i~~ArVPiik~~~~~~~i~~Dis~~~~ 101 (114)
T cd05402 64 KKSGEVVEVEPIINARVPIIKFVDKPTGIEVDISFNNL 101 (114)
T ss_pred HhCCCceeeEEeccCCCCEEEEEEcCCCeEEEEEcccc
Confidence 9988888999999999999999998 99999999873
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=7.4e-17 Score=182.81 Aligned_cols=250 Identities=21% Similarity=0.346 Sum_probs=187.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCCCC--C----c
Q 005391 42 ESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA--T----R 115 (698)
Q Consensus 42 pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v--~----r 115 (698)
+...+...|...+..++.++..- .+. ....+..|||..+|+....+|+| +|+.-... . .
T Consensus 127 ~~~~~~~~~~~~~~~l~~~~~~~---------~p~-----~~~~~~~~gs~~~~~~~~~~d~d-~~~~~~~~~~~~~~~~ 191 (596)
T KOG2277|consen 127 LPHSDVKTRKLILDKLRALASLL---------FPD-----SILSLYLFGSSDLGLGERSSDLD-LCVDFTSSFLSFEKIK 191 (596)
T ss_pred CCccccchHHHHHHHHHHHHHHh---------cCC-----CcceeeccCcccccccccccCcc-eeecccccccccchhh
Confidence 44556666666777777666532 221 22337799999999999999999 66542221 1 1
Q ss_pred hhhHHHHHHHHHhcCCC--ceeeEeecCCccceEEEEe--cCeeeeEEeecccccccCCCCCCCchhhhccchhhhhhhh
Q 005391 116 EEDFFGELHQMLTEMPE--VTELHPVPDAHVPVMKFKF--SGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSL 191 (698)
Q Consensus 116 ~edFF~~l~~~L~~~~~--V~~l~~I~~ArVPIIKf~~--~GI~iDLsfa~l~~~~iP~~ldl~~d~lL~~lDe~svrSL 191 (698)
...++..++++|....+ +..++.|..|+||||||.+ .++++|+++.+..
T Consensus 192 ~~~~~~l~~~~~~~~~~~~~~~~~~i~~A~vPiik~~~~~~~~~~d~s~~n~~--------------------------- 244 (596)
T KOG2277|consen 192 GLEILKLLAKCLASLLEEGVREVQQILSARVPIIKFNDSGSGLECDLSVNNSD--------------------------- 244 (596)
T ss_pred hHHHHHHHHHHHHhccccccceeeeeeecCCCEEEecCCCCCCceeeeeccch---------------------------
Confidence 13456677888887543 8889999999999999966 4799999998652
Q ss_pred cchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccc-hHHHHHHHHHHHhhCCC------------------
Q 005391 192 NGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLG-GINWALLVARICQLYPN------------------ 252 (698)
Q Consensus 192 NG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LG-G~swaILVa~vcQlyPn------------------ 252 (698)
|.+.+..+..+...+.+||.|...||.||+++++++...|.+. +|++.+||++++|.++.
T Consensus 245 -~~~nS~ll~~~~~~d~r~~~L~~~vk~wa~~~~~~d~~~g~~~s~ysl~lmvi~fLq~~~~~ilp~l~~l~~~~~~~~~ 323 (596)
T KOG2277|consen 245 -AILNSQLLRNYSEIDPRVRPLVLLVKHWAKEKGLNDAKPGGLNSSYSLTLMVIHFLQTLSPPILPPLSKLLPESDSNDK 323 (596)
T ss_pred -hhhhhHHHHHhHhcCCCcchHhHHHHHHHHhccCCCCCCCceeccccHHHHHHHHHHhcCCcCCCchhhhchhcccccc
Confidence 2344445555555667999999999999999999999999998 69999999999998631
Q ss_pred -------------------------CCHHHHHHHHHHhhc-cCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEe
Q 005391 253 -------------------------AVPSMLVSRFFRVYT-QWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPII 306 (698)
Q Consensus 253 -------------------------as~~~LL~~FF~~Ys-~wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIi 306 (698)
.+++.|+..||.||+ .|+|++-++ .++.|.....-|.. ...-.+.|+
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~f~~yy~~~Fdf~~~~I--~~r~~~~l~~~~~~-----~~~~~l~i~ 396 (596)
T KOG2277|consen 324 PVVKKKVLCSFLRVFQRNPSNSQNTGSLGELLLGFFSYYASLFDFRKNAI--SIRRGRALKRAKKI-----KSKKFLCIE 396 (596)
T ss_pred cchhhhhhhccccccccccccccccchHHHHHHHHHHHHhhhccccccee--eeeecccccccchh-----hhccceeec
Confidence 035689999999999 799998654 23333211100111 112369999
Q ss_pred CCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHH
Q 005391 307 TPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAM 341 (698)
Q Consensus 307 TPa~P~~Nst~NVs~sTl~vI~~EF~RA~~Il~~i 341 (698)
+|+....|.+..++.....+|+.+|+.+..++...
T Consensus 397 dp~~~~~n~~~~~~~~~~~~i~~~~~~~~~~~~~~ 431 (596)
T KOG2277|consen 397 DPFEVSHNADAGVTLKVLLLIQDEFQESRRVFKDV 431 (596)
T ss_pred cccccccCccccchHHHHHHHHHHHHHHHHHhhhh
Confidence 99999999999999999999999999999998764
No 10
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=99.51 E-value=1.7e-12 Score=142.36 Aligned_cols=241 Identities=20% Similarity=0.246 Sum_probs=160.1
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCC-CCCceEEeecC
Q 005391 32 EKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGP-GADIDTLCVGP 110 (698)
Q Consensus 32 ~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p-~SDID~lcv~P 110 (698)
.+.|+ -+-||+||.++-+++.++|...+++++++. ...++++.|||++-|.+++ +||||++++.|
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 34444 367999999999999999999998876541 1247999999999999999 89999999999
Q ss_pred CCCCchhhHH---HHHHHHHhcC-CCceeeEeecCCccceEEEEecCeeeeEEeecccccccCCCCCCCch-hhhccchh
Q 005391 111 RHATREEDFF---GELHQMLTEM-PEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQD-SILQNADE 185 (698)
Q Consensus 111 ~~v~r~edFF---~~l~~~L~~~-~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~iP~~ldl~~d-~lL~~lDe 185 (698)
....++ ++= ..+...+.+. +.. ...-|-=|-++..+.|++|||.=|-- +.+- .+...+|-
T Consensus 69 ~~~~~e-~l~~~gl~i~~~~~~~~~~~----~~~yaeHpYv~~~~~G~~VDiVPcy~----------v~~g~~~~taVDR 133 (408)
T TIGR03671 69 KDTSRE-ELEEYGLEIGHEVLKRGGNY----EERYAEHPYVSGEIEGFEVDVVPCYK----------VESGEEIISAVDR 133 (408)
T ss_pred CCCCHH-HHHHHHHHHHHHHHhhCCCH----hheeccCceEEEEEccEEEEEEeeEE----------ccCcCeeeccccC
Confidence 887763 332 1223222221 111 14567779999999999999973321 1111 11111111
Q ss_pred hhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCC--CCCCccchHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 005391 186 QTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYS--NVAGFLGGINWALLVARICQLYPNAVPSMLVSRFF 263 (698)
Q Consensus 186 ~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIys--n~~G~LGG~swaILVa~vcQlyPnas~~~LL~~FF 263 (698)
. ..-+++++.-. .+.|+..+|.+|.|+|.-|+|+ -..++++||.+=|||+++ .+-..++..+
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-------PFHTRYVLERL--DGKLRDDVRLLKQFLKGIGVYGSELKTRGFSGYLCELLVIHY------GSFENVLKAA- 197 (408)
T ss_pred c-------hHHHHHHHHhh--hhhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHHH-
Confidence 0 01134554443 2348899999999999999996 458889999999999994 2333344332
Q ss_pred HhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHH
Q 005391 264 RVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRG 334 (698)
Q Consensus 264 ~~Ys~wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~vI~~EF~RA 334 (698)
++| ..++.+ .+.. +.... -...+-|+||.+|..|+|.++|..++..+...-+++
T Consensus 198 ---~~w--k~~~~i-d~~~-------~~~~~----f~~PlvViDPvDp~RNVAaalS~~~~~~fv~aar~f 251 (408)
T TIGR03671 198 ---SKW--KPGVVI-DIEE-------HGTKK----FDDPLVVIDPVDPKRNVAAALSLENLARFILAARMF 251 (408)
T ss_pred ---Hhc--CCCeEE-ecCc-------ccccc----CCCCEEEeCCCCCcchHHHHcCHHHHHHHHHHHHHH
Confidence 334 445554 2221 11100 124799999999999999999998887776544443
No 11
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=99.47 E-value=1.4e-11 Score=136.72 Aligned_cols=237 Identities=20% Similarity=0.269 Sum_probs=157.4
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCC-CCCceEEeec
Q 005391 31 LEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGP-GADIDTLCVG 109 (698)
Q Consensus 31 L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p-~SDID~lcv~ 109 (698)
|.+.|+. +-||+||.++-.++.+.|...+++++.+ .+. .++++.+|||+-|.+++ +||||++++.
T Consensus 3 ~~evl~~--i~Ps~eE~~~l~~~~~~l~~~L~~~~~~----~~~--------~~~V~l~GS~ArgT~L~GdsDIDIFv~f 68 (447)
T PRK13300 3 LEEVLER--IKPTEEEREKLKKVAEELIERLEEAIKE----LGL--------DAEVELVGSTARGTWLSGDRDIDIFVLF 68 (447)
T ss_pred HHHHHHh--cCCCHHHHHHHHHHHHHHHHHHHHHHHh----cCC--------ceEEEEEeeecCCcccCCCCceeEEEEe
Confidence 3444553 7799999999999999999988887643 221 37999999999999999 6899999999
Q ss_pred CCCCCchhhH----HHHHHHHHhc-CCCceeeEeecCCccceEEEEecCeeeeEEeecccccccCCCCCCCch-hhhccc
Q 005391 110 PRHATREEDF----FGELHQMLTE-MPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQD-SILQNA 183 (698)
Q Consensus 110 P~~v~r~edF----F~~l~~~L~~-~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~iP~~ldl~~d-~lL~~l 183 (698)
|....++ ++ .......++. .+.. +++ -|-=|-++..++|++|||.=|- ++.+. .+...+
T Consensus 69 p~~~~~e-~L~~~gl~i~~~~~~~~~~~~-~~~---yaeHpyv~~~~~G~~VDiVPcy----------~v~~~~~~~saV 133 (447)
T PRK13300 69 PKDTSRE-ELEEKGLEIGKEVAKELLGDY-EER---YAEHPYVTGEIDGFEVDIVPCY----------KVESGEEIISAV 133 (447)
T ss_pred CCCCCHH-HHHHHHHHHHHHHHHhhCCcc-eee---eccCceEEEEECCEEEEEEeeE----------EccCcCcccccc
Confidence 9887763 22 1222233333 2222 233 4788999999999999998441 11111 111111
Q ss_pred hhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCC--CCCCccchHHHHHHHHHHHhhCCCCCHHHHHHH
Q 005391 184 DEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYS--NVAGFLGGINWALLVARICQLYPNAVPSMLVSR 261 (698)
Q Consensus 184 De~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIys--n~~G~LGG~swaILVa~vcQlyPnas~~~LL~~ 261 (698)
|-. ..-+.+|+.-. .+.++..+|.+|.|+|.-|+|+ -..++++||..=||++++ .+-..++..
T Consensus 134 DRt-------p~H~~fv~~rl--~~~~~d~VRLlK~f~k~~gvYGsE~k~~GFSGYl~ELLv~~y------G~F~~~l~~ 198 (447)
T PRK13300 134 DRT-------PFHTKYVKERL--KGKLEDEVRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHY------GSFENVLKA 198 (447)
T ss_pred cCc-------hHHHHHHHHhh--hhhHHHHHHHHHHHHHhCCccchhhccCCccHHHHHHHHHHh------CCHHHHHHH
Confidence 111 11144555443 2348899999999999999996 458899999999999995 233444443
Q ss_pred HHHhhccCCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHH
Q 005391 262 FFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMM 328 (698)
Q Consensus 262 FF~~Ys~wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~vI~ 328 (698)
+ ++|.- ++.|. +++.. ... .-...+-|+||.+|..|+|.++|..++..+.
T Consensus 199 a----~~w~~--~~~I~-~~~~~-------~~~---~f~~PlvViDPvDp~RNVAaa~S~~~~~~fv 248 (447)
T PRK13300 199 A----SKWKP--PVKID-LEKHG-------KEY---KFDDPLVVIDPVDPNRNVAAALSLENLATFI 248 (447)
T ss_pred H----HhCCC--CceEe-ccccC-------ccc---cCCCCEEEeCCCCCcchHHHHcCHHHHHHHH
Confidence 3 34533 33332 12110 000 1124799999999999999999988876654
No 12
>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=99.07 E-value=1.1e-08 Score=123.52 Aligned_cols=286 Identities=16% Similarity=0.249 Sum_probs=188.1
Q ss_pred eeccCCCC---CCCCceEEeecCCCCCchhhH------------HHHHHHHH--hcCCCceeeE---eecCCccceEEEE
Q 005391 91 SYRLGVHG---PGADIDTLCVGPRHATREEDF------------FGELHQML--TEMPEVTELH---PVPDAHVPVMKFK 150 (698)
Q Consensus 91 Sy~lGv~~---p~SDID~lcv~P~~v~r~edF------------F~~l~~~L--~~~~~V~~l~---~I~~ArVPIIKf~ 150 (698)
||.++... ++-.||+.+..|..+-.++|| ...++..| ++...+.++. .-.+.+-||+.+.
T Consensus 1 S~~l~t~~k~~~~~~VDl~v~mP~~~fq~KDyln~RY~~KRA~YLa~iA~~L~~~~~~~~~~v~~~~~~gd~~kPil~l~ 80 (972)
T PF03813_consen 1 SYALKTMIKSKPNLTVDLAVEMPKSLFQEKDYLNYRYFHKRALYLAYIAAHLQKKKSKLFVDVSFEYLNGDPLKPILVLR 80 (972)
T ss_pred CcccccccccCCCCeeEEEEeCChhhcCchhhccchHHHHHHHHHHHHHHHHhhhccccceeEEEEeCCCCCCCCeEEEE
Confidence 56666654 467999999999876443343 33466777 2233333333 2367888999988
Q ss_pred ec-----C------eeeeEEeecccc-c----ccCC------------------CCCCCchhhhccchhhhhhhhcchhh
Q 005391 151 FS-----G------VSIDLLYARLSL-W----VIPE------------------DLDISQDSILQNADEQTVRSLNGCRV 196 (698)
Q Consensus 151 ~~-----G------I~iDLsfa~l~~-~----~iP~------------------~ldl~~d~lL~~lDe~svrSLNG~Rv 196 (698)
-. + +.|-|..+.-.. . -.|. .-...|..+|.++-. ..-
T Consensus 81 p~~~~~~~~~~~~~~~iRi~~~~~~~~F~~~rl~P~rnnvR~~~~~~~~~~~~~pTP~YNssIL~D~~~--------~~~ 152 (972)
T PF03813_consen 81 PKGKKDSDDFSKTKFRIRIIPSIPSDTFPLSRLAPSRNNVRPSWFDEEDSSSLPPTPHYNSSILEDMLM--------EEH 152 (972)
T ss_pred ECCccccccccCCcEEEEEEecCCcccCCHHhcCCCCCccCcCcccccccCCCCCCCcchHHHHHHHhH--------HHH
Confidence 42 2 445554433110 0 0010 112345555554422 112
Q ss_pred HHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCC-CCccchHHHHHHHHHHHhh---------CCCCCHHHHHHHHHHhh
Q 005391 197 TDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNV-AGFLGGINWALLVARICQL---------YPNAVPSMLVSRFFRVY 266 (698)
Q Consensus 197 td~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~-~G~LGG~swaILVa~vcQl---------yPnas~~~LL~~FF~~Y 266 (698)
..++.+.....+.|+.++..+|.||++||+.+.. .|++||+-|+||+++.+|- .+..+.-+|+..+..+.
T Consensus 153 l~~l~~~~~~~p~f~dA~iLlkvWl~QRg~~~~~~~~Gf~~f~~s~lla~Ll~~g~~~~~~~l~~~mSsyQlFr~~l~fL 232 (972)
T PF03813_consen 153 LKYLHEASKSSPAFRDACILLKVWLRQRGFGSGISQGGFGGFEWSMLLAYLLQGGGRNGKKKLSKSMSSYQLFRAVLQFL 232 (972)
T ss_pred HHHHHHHHhcCHHHHHHHHHHHHHHhcCCCCcccCCCCcchHHHHHHHHHHHcCCCccCCcccCCCCCHHHHHHHHHHHH
Confidence 3455555566799999999999999999999875 6889999999999999976 34567889999999999
Q ss_pred ccCCC-CCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHHHccc
Q 005391 267 TQWRW-PNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNE 345 (698)
Q Consensus 267 s~wdW-~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~vI~~EF~RA~~Il~~i~~~~ 345 (698)
+..|| .+|+.++.-.+.......| .+.+....+|| .-.+|.+++++.++++.|+.|-+++.++|++-. .
T Consensus 233 A~~d~~~~~l~~~~~~~~~~~~~~~-------~~~~~~vf~D~-sg~~Nl~~~ms~~s~~~L~~eA~~tl~lL~~~~--~ 302 (972)
T PF03813_consen 233 ATTDLSKKPLFFKSSSDSTESLEEF-------HSAFDPVFVDP-SGGLNLLAKMSPSSYEELQHEAKLTLELLDDSS--D 302 (972)
T ss_pred hccccccCceEEecCCCccchhhhh-------hccCCeEEEeC-CCCEEEEEcCCHHHHHHHHHHHHHHHHHhcccc--c
Confidence 99999 5688876544211111111 12345666666 456999999999999999999999999987521 1
Q ss_pred CCCCcccccC-C-cchhhhcccEEEEE---EE----ecChhhhhccchhhhhHHHHHHhh
Q 005391 346 ADVDWDTLFE-P-FTFFEAYKNYLRID---IS----AENADDLRNWKGWVESRLRQLTLK 396 (698)
Q Consensus 346 ~~~~W~~Lfe-~-~~FF~~Yk~yL~I~---v~----a~~~e~~~~w~G~VESRlR~Lv~~ 396 (698)
. ..+.+|- + .++..+|-+++.|. .. .....+...|...+..++-.|+.+
T Consensus 303 d--~F~~lFl~~~~~~~~~fD~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lL~r 360 (972)
T PF03813_consen 303 D--GFDSLFLTKVDPPALRFDHVLRISPDSLLSSFSPDESLDFLSFSNYLLRKIYRLLKR 360 (972)
T ss_pred c--chhhhhcccCCcccccCCEEEEEcchhhcccccccccccccchhHHHHHHHHHHHHH
Confidence 2 5777774 4 46678999999991 11 112233344545677788887765
No 13
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=99.01 E-value=4.1e-08 Score=107.75 Aligned_cols=237 Identities=20% Similarity=0.235 Sum_probs=154.5
Q ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCC-CCCceEEee
Q 005391 30 KLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGP-GADIDTLCV 108 (698)
Q Consensus 30 ~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p-~SDID~lcv 108 (698)
.|.+.|+. +-||+||.++=+++.+.|...+++-+ .+.|+ ++.+...||++=|.|++ +.|||+.|.
T Consensus 6 ~l~evl~~--i~P~~eE~~~~~~~~e~l~~~~~~~~----~e~~~--------~aev~lVGS~AkgTwL~gd~DIDvFi~ 71 (443)
T COG1746 6 VLEEVLKR--IKPTEEERKKLKEVAEELRERINEII----EELGI--------DAEVVLVGSYAKGTWLRGDHDIDVFIA 71 (443)
T ss_pred HHHHHHHH--cCCCHHHHHHHHHHHHHHHHHHHHHH----HhcCC--------cceEEEEeecccCcccCCCcceeEEEE
Confidence 45555654 66999999988888888888887643 34444 58899999999999999 689999999
Q ss_pred cCCCCCchh---hHHHHHHHHHhcCCCceeeEeecCCccceEEEEecCeeeeEEeecccccccCCCCCCCchhhhccchh
Q 005391 109 GPRHATREE---DFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADE 185 (698)
Q Consensus 109 ~P~~v~r~e---dFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~l~~~~iP~~ldl~~d~lL~~lDe 185 (698)
.|....+++ .-+......|.+ .+ -.+.-|-=|-+.-.++|+++|+.=|-.... ++. +...+|-
T Consensus 72 Fp~d~~~eel~~~GL~ig~~~l~~-~~----~~~~YAeHPYV~g~v~G~eVDvVPCy~v~~--~~~-------~~sAVDR 137 (443)
T COG1746 72 FPKDTSEEELEEKGLEIGREVLKR-GN----YEERYAEHPYVTGEVDGYEVDVVPCYKVED--GEK-------IISAVDR 137 (443)
T ss_pred CCCCCCHHHHHHHHHHHHHHHhcC-Cc----hhhhhccCCeeEEEEccEEEEEEecccccC--ccc-------ccccccC
Confidence 999877631 112233444443 11 135578889999999999999985432100 110 1111111
Q ss_pred hhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCC--CCCccchHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 005391 186 QTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSN--VAGFLGGINWALLVARICQLYPNAVPSMLVSRFF 263 (698)
Q Consensus 186 ~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn--~~G~LGG~swaILVa~vcQlyPnas~~~LL~~FF 263 (698)
.- -=|.++..-+... =+.=+|.+|.+.|.=|+|++ ..++++||.-=||++++= .|-
T Consensus 138 Tp-------lHt~yv~e~L~~~--~~deVrLLK~FlK~iGvYGaE~rt~GFSGYL~ELLII~yG-------------sFe 195 (443)
T COG1746 138 TP-------LHTRYVEEHLKGR--QKDEVRLLKQFLKGIGVYGAELRTQGFSGYLCELLIIHYG-------------SFE 195 (443)
T ss_pred cc-------hhHHHHHHHhccc--chhHHHHHHHHHhccCccceeeeeccchHHHHHHHHhhhc-------------cHH
Confidence 00 0023333333221 12347899999999999996 588999999999999873 333
Q ss_pred HhhccCC-CCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHH
Q 005391 264 RVYTQWR-WPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIM 327 (698)
Q Consensus 264 ~~Ys~wd-W~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~vI 327 (698)
.+.-... |.-+++|.. . .|..... .| ..|-|+||.+|..|+|.+||..++..+
T Consensus 196 ~vl~~a~~wrp~~~ID~-~-------~~~~e~f-~d--~PliVvDPVDP~RNVAAalSl~~la~f 249 (443)
T COG1746 196 NVLKAASRWRPGKIIDL-E-------GHKRERF-ED--EPLIVVDPVDPKRNVAAALSLENLARF 249 (443)
T ss_pred HHHHHHhccCCCeEEec-c-------chhhhcc-CC--CCeEecCCCCCccchhhhcCHHHHHHH
Confidence 3333222 777765432 2 1211111 11 279999999999999999998776554
No 14
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=98.39 E-value=5.1e-06 Score=98.63 Aligned_cols=269 Identities=19% Similarity=0.259 Sum_probs=166.6
Q ss_pred cEEE-EeeeeccCCC-CCCCCceEEeecCCCCCchhhH------------HHHHHHHHhcCCCceeeEee---cCCccce
Q 005391 84 AKIF-TFGSYRLGVH-GPGADIDTLCVGPRHATREEDF------------FGELHQMLTEMPEVTELHPV---PDAHVPV 146 (698)
Q Consensus 84 ~kI~-~FGSy~lGv~-~p~SDID~lcv~P~~v~r~edF------------F~~l~~~L~~~~~V~~l~~I---~~ArVPI 146 (698)
+++. ..||+.+|.. .|+.-+|+++..|+..-..+|+ +..+...|-+.+....+... .+-.-||
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 4454 4566665544 6889999999998754322233 23333333333432233222 2455688
Q ss_pred EEEEecCeeeeEEeecccccccCCCCC-CCchhhhccchhhhhhhhcchhh--------------------------HHH
Q 005391 147 MKFKFSGVSIDLLYARLSLWVIPEDLD-ISQDSILQNADEQTVRSLNGCRV--------------------------TDQ 199 (698)
Q Consensus 147 IKf~~~GI~iDLsfa~l~~~~iP~~ld-l~~d~lL~~lDe~svrSLNG~Rv--------------------------td~ 199 (698)
+.+...|-..|++-.+....-||..+. ..++.+|-++ ||+|. ..+
T Consensus 228 l~i~~~~~~~~~~~~~~~~~li~~~~~~f~~~kllp~~--------~~ir~~~e~~e~ppTP~yN~svL~~~~le~~~q~ 299 (1121)
T KOG2054|consen 228 LLIRPRGKDERLVTVRPPDFLIPCRLLPFKNNKLLPWY--------NGIRPAGEGSEEPPTPRYNTSVLEDQVLEEYLQL 299 (1121)
T ss_pred hhccccCCccccccccCccccccccccccccccccchh--------cccCccccCCCCCCCCccchhHHHHHHHHHHHHH
Confidence 888876655555443322222222221 1122222111 11111 123
Q ss_pred HHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHHHHh---hCCCCCHHHHHHHHHHhhccCCCCC-ce
Q 005391 200 ILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQ---LYPNAVPSMLVSRFFRVYTQWRWPN-PV 275 (698)
Q Consensus 200 Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~vcQ---lyPnas~~~LL~~FF~~Ys~wdW~~-pV 275 (698)
+.+.....+.|+.++-..|.|+++|.. +-..|++||+-|++++++... ++-+.+..+++..-|++++.|||.. .|
T Consensus 300 L~K~~s~~~~f~da~~Llk~WlrqRs~-~~~~~gfg~f~~s~lvv~L~s~~ki~~~~S~yqvfR~vl~flat~dlt~~~~ 378 (1121)
T KOG2054|consen 300 LSKTLSSAKGFKDALALLKVWLRQRSL-DIGQGGFGGFLLSALVVYLVSTRKIHTTLSAYQVFRSVLQFLATTDLTVNGI 378 (1121)
T ss_pred HHHHHhhhhhHHHHHHHHHHHHHhhhh-hcccCcchHHHHHHHHHHHHhcCchhhcchHHHHHHHHHHHHhhhhhhccce
Confidence 444445578999999999999999922 225788999999999998873 4566688899999999999999986 45
Q ss_pred eecccccCCCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHHHcccCCCCccccc-
Q 005391 276 LLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLF- 354 (698)
Q Consensus 276 ~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~vI~~EF~RA~~Il~~i~~~~~~~~W~~Lf- 354 (698)
-+++-. -+ -|....-+..+....+|= .-..|...|++.++++.+++|.+-+..+|.+.... .++.+|
T Consensus 379 ~l~~~~-~s------~~~~~~f~e~~~~~f~D~-s~~~NLc~~mt~s~y~~~q~ea~ltl~lL~~~~~~----~F~~IFm 446 (1121)
T KOG2054|consen 379 SLVPSS-PS------LPALADFHEGQLVTFIDS-SGHLNLCANMTASTYEQVQEEARLTLMLLDSRADD----GFSLIFM 446 (1121)
T ss_pred EeccCC-CC------chhhhhhhhcceeeEecc-CCcchhhhhccHHHHHHHHHHHHHHHHHHhhhhhc----Ccceeee
Confidence 443310 00 011001112234444442 45689999999999999999999999999875432 577777
Q ss_pred CCcchhhhcccEEEEEEEe
Q 005391 355 EPFTFFEAYKNYLRIDISA 373 (698)
Q Consensus 355 e~~~FF~~Yk~yL~I~v~a 373 (698)
++-+.|..|.|-+.+....
T Consensus 447 tkip~~~~yDh~l~l~~~~ 465 (1121)
T KOG2054|consen 447 TKIPVFRAYDHVLHLSPLS 465 (1121)
T ss_pred ecCCchhhhheeeeccccc
Confidence 7789999999988775543
No 15
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins.
Probab=98.37 E-value=2.4e-05 Score=81.56 Aligned_cols=213 Identities=16% Similarity=0.204 Sum_probs=150.1
Q ss_pred EEEeeeeccCCCCCCC-CceEEeecCCCCCchhhHHHHH----HHHHhcCCCceeeEeecCCccceEEEEec--C--eee
Q 005391 86 IFTFGSYRLGVHGPGA-DIDTLCVGPRHATREEDFFGEL----HQMLTEMPEVTELHPVPDAHVPVMKFKFS--G--VSI 156 (698)
Q Consensus 86 I~~FGSy~lGv~~p~S-DID~lcv~P~~v~r~edFF~~l----~~~L~~~~~V~~l~~I~~ArVPIIKf~~~--G--I~i 156 (698)
+.-.||+.-|+.+.|. +.|+++++...-|. +....+ .+-|+...+=.....|..+.+|.++..+. + ...
T Consensus 5 V~rVG~~aKG~ll~Gd~~~~lVv~c~~~PT~--~ll~~v~~~l~e~l~~~~~~e~~~~~~~~~~~~~~~~i~ltSp~~r~ 82 (246)
T smart00572 5 VMRVGSFAKGTLLKGDNVAELVLLCKEKPTS--ELVARLARKLPEQLKAVTEDEALIIVTSTKEPTMEVGILITSPLARV 82 (246)
T ss_pred eEEeeeeccCceecCCCceeEEEEecCCCcH--HHHHHHHHHHHHHHhhcCcccceeeeeccCCCceeEEEEEecccccc
Confidence 6789999999999885 78999998777665 344444 44444432112233456777788887763 1 233
Q ss_pred eEEeecccccccCCCCCCCc-hhhhccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccc
Q 005391 157 DLLYARLSLWVIPEDLDISQ-DSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLG 235 (698)
Q Consensus 157 DLsfa~l~~~~iP~~ldl~~-d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LG 235 (698)
+...+ ++|+++...+ +..|. -..|+.+|-.+|-+.++..-......|+.++|++|-|.++...... |.
T Consensus 83 ~~~~~-----~~~~~~~~~~p~~~ld--~~~cl~aLAalRhakWFq~~a~~l~s~~iviRilKd~~~R~~~~~p----L~ 151 (246)
T smart00572 83 ELLIT-----TVPENLRKLDPEDHLD--RKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQP----LS 151 (246)
T ss_pred ccccc-----ccCcccccCCccccCC--HHHHHHHHHHHHHhHHHHHhccCCcchhhHHHHHHHHHHhcccccc----cc
Confidence 33332 2355543222 22221 2458888899999999999988889999999999999999765443 88
Q ss_pred hHHHHHHHHHHHhhCCC-CCHHHHHHHHHHhhcc-CCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCCCCC-C
Q 005391 236 GINWALLVARICQLYPN-AVPSMLVSRFFRVYTQ-WRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYP-C 312 (698)
Q Consensus 236 G~swaILVa~vcQlyPn-as~~~LL~~FF~~Ys~-wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTPa~P-~ 312 (698)
++.+=+++++.+--... .++++-+.+||++.++ .=+|.. --|.||+.+ .
T Consensus 152 ~w~iELl~~~~i~~~~~~l~~~~a~RR~fe~lAsG~l~p~~----------------------------~gI~DPce~~~ 203 (246)
T smart00572 152 GWPLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPGS----------------------------PGLTDPCEKDN 203 (246)
T ss_pred cccHHHHHHHHhccCCCCCCHHHHHHHHHHHHHhccCcCCC----------------------------CCCcCCCCCCc
Confidence 99999999998853221 3689999999999885 111110 247788886 8
Q ss_pred CCcccccChhhHHHHHHHHHHHHHHHH
Q 005391 313 MNSSYNVSTSTLRIMMDEFQRGHEICE 339 (698)
Q Consensus 313 ~Nst~NVs~sTl~vI~~EF~RA~~Il~ 339 (698)
.|++...|....+.|...-+.|.+++.
T Consensus 204 ~nv~~~lT~qqrd~It~sAQ~alRl~A 230 (246)
T smart00572 204 TDALTALTLQQREDVTASAQTALRLLA 230 (246)
T ss_pred ccHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 888888898999999998888888763
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=97.69 E-value=0.00036 Score=65.65 Aligned_cols=77 Identities=27% Similarity=0.371 Sum_probs=55.7
Q ss_pred CcEEEEeeeeccCCCCC-CCCceEEeecCCCCC----chhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEec--Cee
Q 005391 83 NAKIFTFGSYRLGVHGP-GADIDTLCVGPRHAT----REEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFS--GVS 155 (698)
Q Consensus 83 ~~kI~~FGSy~lGv~~p-~SDID~lcv~P~~v~----r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~--GI~ 155 (698)
..+++.||||+.|...+ .||||++++.+.... ...+++..+.+.|.+...- .......-|.|.+.+. |++
T Consensus 27 ~~~~~~~GS~a~~T~i~~~sDiD~~v~~~~~~~~~~~~~~~~~~~l~~~L~~~~~~---~~~~~~~~~~v~v~~~~~~~~ 103 (143)
T cd05400 27 VAEVFLQGSYARGTALRGDSDIDLVVVLPDDTSFAEYGPAELLDELGEALKEYYGA---NEEVKAQHRSVTVKFKGQGFH 103 (143)
T ss_pred ccEEEEEcceeCCCCCCCCCceeEEEEEcCcccccccCHHHHHHHHHHHHHHhcCc---ccccccCceEEEEEEcCCCeE
Confidence 46899999999999977 899999999876543 2236777788888764321 1112345578888886 899
Q ss_pred eeEEeec
Q 005391 156 IDLLYAR 162 (698)
Q Consensus 156 iDLsfa~ 162 (698)
|||+-+.
T Consensus 104 vDvvP~~ 110 (143)
T cd05400 104 VDVVPAF 110 (143)
T ss_pred EEEEEEe
Confidence 9997554
No 17
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=97.62 E-value=3.4e-05 Score=62.84 Aligned_cols=55 Identities=22% Similarity=0.423 Sum_probs=37.1
Q ss_pred CHHHHHHHHHHhhc-cCCCCCceeecccccCCC-C--ccccCCCCCCCCCCCCeeEeCCCCCC
Q 005391 254 VPSMLVSRFFRVYT-QWRWPNPVLLCAIEEGSL-G--LQVWDPRRNPKDKYHLMPIITPAYPC 312 (698)
Q Consensus 254 s~~~LL~~FF~~Ys-~wdW~~pV~L~~i~~G~l-~--~~vWdP~~~~~Dr~hlMpIiTPa~P~ 312 (698)
++++||..||+||+ .|||.+-|+ .++.|.. . ...|.. ....+...|+|+||+.|+
T Consensus 1 slg~Ll~~Ff~~Y~~~Fd~~~~~I--si~~g~~~~k~~~~~~~--~~~~~~~~l~IeDP~~~~ 59 (60)
T PF03828_consen 1 SLGELLLGFFEYYGRKFDYENNVI--SIRNGGYFPKEEKNWSK--SRNQRKKRLCIEDPFDPS 59 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-TTTEEE--ESSSSSEEEHHHHTGCH--CCCCECSSSEBBESSSTT
T ss_pred CHHHHHHHHHHHhCCcCCCCceEE--EecCCceEEhhhccccc--cccCCCCeEEEECCCCCC
Confidence 47899999999999 899999765 3455542 1 234431 112335689999999885
No 18
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins. This superfamily includes the NT domains of DNA polymerase beta and other family X DNA polymerases, as well as the NT domains of Class I and Class II CCA-adding enzymes, RelA- and SpoT-like ppGpp synthetases and hydrolases, 2'5'-oligoadenylate (2-5A)synthetases, Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), poly (A) polymerases, terminal uridylyl transferases, and Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. The Escherichia coli CCA-adding enzyme belongs to this superfamily but is not included as this enzyme lacks the N-terminal helix conserved in the remainder of the superfamily. In the majority of the Pol beta-like superfamily NTs, two carboxylates, Dx[D/E], together with a third more distal carboxylate coordinate two divalent metal cations that are essential for catalysis. These divalent metal ions are
Probab=97.50 E-value=0.00015 Score=57.74 Aligned_cols=26 Identities=35% Similarity=0.581 Sum_probs=24.2
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEee
Q 005391 83 NAKIFTFGSYRLGVHGPGADIDTLCV 108 (698)
Q Consensus 83 ~~kI~~FGSy~lGv~~p~SDID~lcv 108 (698)
..+++.||||+.|.+.+.||||++|+
T Consensus 17 ~~~v~lfGS~arg~~~~~SDIDi~v~ 42 (49)
T cd05397 17 GYEIVVYGSLVRGLLKKSSDIDLACV 42 (49)
T ss_pred CcEEEEECCcCCCCCCCCCCEEEEEE
Confidence 46899999999999999999999887
No 19
>PF01909 NTP_transf_2: Nucleotidyltransferase domain A subset of this Pfam family; InterPro: IPR002934 A small region that overlaps with a nuclear localization signal and binds to the RNA primer contains three aspartates that are essential for catalysis. Sequence and secondary structure comparisons of regions surrounding these aspartates with sequences of other polymerases revealed a significant homology to the palm structure of DNA polymerase beta, terminal deoxynucleotidyltransferase and DNA polymerase IV of Saccharomyces cerevisiae, all members of the family X of polymerases. This homology extends as far as cca: tRNA nucleotidyltransferase and streptomycin adenylyltransferase, an antibiotic resistance factor [, ]. Proteins containing this domain include kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTase inactivates antibiotics by catalysing the addition of a nucleotidyl group onto the drug. In experiments, Mn2+ strongly stimulated this reaction due to a 50-fold lower Ki for 8-azido-ATP in the presence of Mn2+. Mutations of the highly conserved Asp residues 113, 115, and 167, critical for metal binding in the catalytic domain of bovine poly(A) polymerase, led to a strong reduction of cross-linking efficiency, and Mn2+ no longer stimulated the reaction. Mutations in the region of the "helical turn motif" (a domain binding the triphosphate moiety of the nucleotide) and in the suspected nucleotide-binding helix of bovine poly(A) polymerase impaired ATP binding and catalysis. The results indicate that ATP is bound in part by the helical turn motif and in part by a region that may be a structural analogue of the fingers domain found in many polymerases.; GO: 0016779 nucleotidyltransferase activity; PDB: 4EBK_B 4EBJ_A 1KNY_A 2B4V_A 2B56_A 2B51_A 1NO5_B 1Q79_A 1Q78_A 1F5A_A ....
Probab=97.33 E-value=0.00027 Score=61.10 Aligned_cols=32 Identities=34% Similarity=0.542 Sum_probs=29.5
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEeecCCCCC
Q 005391 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPRHAT 114 (698)
Q Consensus 83 ~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~ 114 (698)
...++.|||++.|.+.|+||||++++.+....
T Consensus 14 ~~~v~lfGS~a~g~~~~~SDIDl~i~~~~~~~ 45 (93)
T PF01909_consen 14 VAEVYLFGSYARGDATPDSDIDLLIILDEPED 45 (93)
T ss_dssp TEEEEEEHHHHHTSSCTTSCEEEEEEESSTSC
T ss_pred CCEEEEECCcccCcCCCCCCEEEEEEeCCccc
Confidence 47899999999999999999999999998765
No 20
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core. It is predominantly found in Archaeal tRNA nucleotidyltransferases, following the catalytic nucleotidyltransferase domain []. ; GO: 0004810 tRNA adenylyltransferase activity, 0016437 tRNA cytidylyltransferase activity; PDB: 3OUY_B 2ZHB_A 2ZH1_A 2ZH2_A 1UET_A 2ZH7_A 1R8B_A 2DR5_A 1TFW_C 3OVA_A ....
Probab=96.92 E-value=0.0025 Score=59.62 Aligned_cols=93 Identities=19% Similarity=0.320 Sum_probs=57.8
Q ss_pred HHHHHHHHHHcCCCCC--CCCccchHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCCccccC
Q 005391 214 LRCMRFWAKRRGVYSN--VAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWD 291 (698)
Q Consensus 214 lR~IK~WAK~RgIysn--~~G~LGG~swaILVa~vcQlyPnas~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G~l~~~vWd 291 (698)
+|.+|.++|.-|+|++ .+++++||..=|||+++= + +....+.-+ +|..|+.|..-..+.. .+..
T Consensus 3 VrLLK~FlK~igvYGse~~~~GFSGYL~ELLii~yG------s----F~~~l~~a~--~W~~~~~Id~~~~~~~-~~~f- 68 (114)
T PF09249_consen 3 VRLLKQFLKGIGVYGSELKTRGFSGYLCELLIIHYG------S----FENVLEAAA--KWKPPVVIDLEDHGEP-SKKF- 68 (114)
T ss_dssp HHHHHHHHHHTT-B-SSTTT-SB-HHHHHHHHHHHS------S----HHHHHHHHT--T--TTEEEETT-TTE---EEE-
T ss_pred hHHHHHHHhcCCCcchhhhcCcchHHHHHHHHHHHC------C----HHHHHHHHH--hcCCCeEEccCccchh-hhhc-
Confidence 6889999999999996 488999999999999873 1 223333334 5666776543211110 0111
Q ss_pred CCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHH
Q 005391 292 PRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMM 328 (698)
Q Consensus 292 P~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~vI~ 328 (698)
...+.|+||.+|..|+|.+||..++..+.
T Consensus 69 --------~~PlvviDPvDp~RNVAAalS~~~~~~fv 97 (114)
T PF09249_consen 69 --------DDPLVVIDPVDPNRNVAAALSLENLAEFV 97 (114)
T ss_dssp ---------SS-EEEETTEEEEETTTTS-HHHHHHHH
T ss_pred --------CCCeEEcCCCCCCchHhHhcCHHHHHHHH
Confidence 24699999999999999999988766543
No 21
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is
Probab=96.80 E-value=0.0029 Score=54.14 Aligned_cols=32 Identities=34% Similarity=0.536 Sum_probs=28.7
Q ss_pred cEEEEeeeeccCCCCCCCCceEEeecCCCCCc
Q 005391 84 AKIFTFGSYRLGVHGPGADIDTLCVGPRHATR 115 (698)
Q Consensus 84 ~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r 115 (698)
..++.|||++.|-+.++||||++++++.....
T Consensus 19 ~~i~LfGS~arg~~~~~SDiDl~vi~~~~~~~ 50 (93)
T cd05403 19 EKVYLFGSYARGDARPDSDIDLLVIFDDPLDP 50 (93)
T ss_pred cEEEEEeeeecCCCCCCCCeeEEEEeCCCCCH
Confidence 57999999999999999999999999877643
No 22
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=96.79 E-value=0.012 Score=72.43 Aligned_cols=157 Identities=22% Similarity=0.377 Sum_probs=105.4
Q ss_pred chhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHHHH-hhCC---CCCHHHHHHHHHHhhcc
Q 005391 193 GCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARIC-QLYP---NAVPSMLVSRFFRVYTQ 268 (698)
Q Consensus 193 G~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~vc-QlyP---nas~~~LL~~FF~~Ys~ 268 (698)
..+-+..|..+.-..+.|..++|.+|.|.-.+-+ .|++.--..=||||++. +-+| +.++..=+.+|..+-++
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 4455667777777789999999999999999977 56778889999999887 3344 45666667788888899
Q ss_pred CCCCC-ceeecccccCC--------CCccccCCCCCCCCCCCCeeEeCCCCCCCCc--ccccChhhHHHHHHHHHHHHHH
Q 005391 269 WRWPN-PVLLCAIEEGS--------LGLQVWDPRRNPKDKYHLMPIITPAYPCMNS--SYNVSTSTLRIMMDEFQRGHEI 337 (698)
Q Consensus 269 wdW~~-pV~L~~i~~G~--------l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Ns--t~NVs~sTl~vI~~EF~RA~~I 337 (698)
|||.+ |+++.--.+=. ..+..|.. ..+......|.|.||.+|.-.. ...-+..-+++|+.--+.+.++
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 99996 87654321100 01222321 1223345679999999985332 1234445567777777777777
Q ss_pred HHHHHcccCCCCcccccCC
Q 005391 338 CEAMEKNEADVDWDTLFEP 356 (698)
Q Consensus 338 l~~i~~~~~~~~W~~Lfe~ 356 (698)
++. .+-...+|..||.+
T Consensus 823 l~~--~~~~~~~~~~lF~~ 839 (972)
T PF03813_consen 823 LEE--QGLSDLDWKSLFRP 839 (972)
T ss_pred HHh--cCCCCCCHHHhcCC
Confidence 762 22124599999975
No 23
>PF14091 DUF4269: Domain of unknown function (DUF4269)
Probab=96.13 E-value=0.061 Score=52.92 Aligned_cols=118 Identities=21% Similarity=0.366 Sum_probs=75.3
Q ss_pred EEEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceee-EeecCCccceEEEEecCeeeeEEeecc
Q 005391 85 KIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTEL-HPVPDAHVPVMKFKFSGVSIDLLYARL 163 (698)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l-~~I~~ArVPIIKf~~~GI~iDLsfa~l 163 (698)
.-...|..-+|+..++||||++|.++.. +.|-..+.+...+.++.+-- ..|..-..=+..|.+.|..|-| |++-
T Consensus 17 ~PiL~GTiPi~Idi~~SDLDIic~~~d~----~~F~~~l~~~f~~~~~f~~~~~~i~~~~~~~~~F~~~~~~~Ei-F~Q~ 91 (152)
T PF14091_consen 17 DPILVGTIPIGIDIPGSDLDIICEVPDP----EAFEQLLQSLFGQFEGFTIKEKTIRGEPSIVANFRYEGFPFEI-FGQP 91 (152)
T ss_pred CCEEecccccccCCCCCCccEEEEeCCH----HHHHHHHHHHhccCCCceeeeceeCCceeEEEEEEECCceEEE-eecC
Confidence 3456799999999999999999999863 23444455555554553211 2344445556778888988886 4432
Q ss_pred cccccCCCCCCCchhhhccchhhhhhhhcchhhHHHHHHhccCc-hhHHHHHHHHH--------HHHHHcCCCCC
Q 005391 164 SLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKI-QNFRTTLRCMR--------FWAKRRGVYSN 229 (698)
Q Consensus 164 ~~~~iP~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~-~~FR~llR~IK--------~WAK~RgIysn 229 (698)
. .+..-||+|=..--.++.-.. +.||.-+|-+| .||+--||-++
T Consensus 92 ~----------------------Pv~~QnayrHm~iE~rLL~~~g~~~r~~Ii~LK~~GlKTEPAFa~lLgL~GD 144 (152)
T PF14091_consen 92 I----------------------PVEEQNAYRHMLIEHRLLELHGPSFREEIIELKESGLKTEPAFAKLLGLEGD 144 (152)
T ss_pred C----------------------ChhhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcCCcchHHHHHHhCCCCC
Confidence 1 133457777554334444444 88999998888 36666666544
No 24
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=95.49 E-value=0.068 Score=49.00 Aligned_cols=47 Identities=28% Similarity=0.426 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCCC
Q 005391 50 REEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (698)
Q Consensus 50 R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (698)
.+++++++...+++|. |. .++-.||||.=|=..|+||||+++-.-..
T Consensus 7 ~~~~lr~~~~~l~~k~-------gv---------~~~~vFGS~aRgE~~~~SDIDILVef~~~ 53 (97)
T COG1669 7 LKKILRKIKPELKEKY-------GV---------KRVAVFGSYARGEQKPDSDIDILVEFEPG 53 (97)
T ss_pred HHHHHHHHHHHHHHHh-------CC---------ceEEEeeeeecCCCCCCCCceeEEeecCC
Confidence 3344566666666553 22 57999999999999999999998876444
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=94.67 E-value=1.6 Score=46.23 Aligned_cols=209 Identities=17% Similarity=0.247 Sum_probs=134.1
Q ss_pred eeeeccCCCCCCC-CceEEeecCCCCCchhhHHHHHHHHHh----cC-CC-ce---e-eEeecCCccceEEEEe--cC--
Q 005391 89 FGSYRLGVHGPGA-DIDTLCVGPRHATREEDFFGELHQMLT----EM-PE-VT---E-LHPVPDAHVPVMKFKF--SG-- 153 (698)
Q Consensus 89 FGSy~lGv~~p~S-DID~lcv~P~~v~r~edFF~~l~~~L~----~~-~~-V~---~-l~~I~~ArVPIIKf~~--~G-- 153 (698)
.||+.-|+.+.|. +.|+|+++..-.|. +++..+.+.|. .. ++ |. + ...|...+.|.+...+ .+
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 5999999999885 88999999877775 56666554443 32 22 11 0 1111222335555544 22
Q ss_pred eeeeEEeecccccccCCCCCCCchhhhccchh-hhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCC
Q 005391 154 VSIDLLYARLSLWVIPEDLDISQDSILQNADE-QTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAG 232 (698)
Q Consensus 154 I~iDLsfa~l~~~~iP~~ldl~~d~lL~~lDe-~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G 232 (698)
+.+.+..+. .+++..-.+.. ..+|. .|..+|-.+|=+.++.+........+.++|++|-..+|--- ++
T Consensus 80 ~r~~~~~~~-----~~~~~~~~dp~--~~Ld~~~cl~aLaalRhakWFq~~a~~l~s~~~viRIlrDl~~R~p~----w~ 148 (248)
T PF07528_consen 80 MRVRVLITT-----IPENLSKLDPE--DHLDRKKCLSALAALRHAKWFQARANGLQSCVIVIRILRDLRQRVPT----WQ 148 (248)
T ss_pred eEEEEeccc-----cCccccccChh--hcCCHHHHHHHHHHHHHhHHHHHHhccCCCcceehhhHHHHHHhCCC----CC
Confidence 333333322 23333211111 12333 57888888999999999988888899999999999888533 55
Q ss_pred ccchHHHHHHHHHHHhhCCC---CCHHHHHHHHHHhhcc-CCCCCceeecccccCCCCccccCCCCCCCCCCCCeeEeCC
Q 005391 233 FLGGINWALLVARICQLYPN---AVPSMLVSRFFRVYTQ-WRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITP 308 (698)
Q Consensus 233 ~LGG~swaILVa~vcQlyPn---as~~~LL~~FF~~Ys~-wdW~~pV~L~~i~~G~l~~~vWdP~~~~~Dr~hlMpIiTP 308 (698)
-|+++.+=+|+-+..---|+ .+++.-+.|||+..|. +=-|. . | =|.||
T Consensus 149 ~L~~W~leLL~~~~i~~~~~~~~l~~g~a~RRvle~lasGillp~----------~-------~-----------gl~DP 200 (248)
T PF07528_consen 149 PLSSWALELLVEKAISNNSSRQPLSPGDAFRRVLECLASGILLPG----------S-------P-----------GLRDP 200 (248)
T ss_pred CCChhHHHHHHHHHeeeCCCCCCCChHHHHHHHHHHHhCceecCC----------C-------C-----------CCcCC
Confidence 68888888877766652233 4689999999999874 22221 0 0 13456
Q ss_pred CC-CCCCcccccChhhHHHHHHHHHHHHHHH
Q 005391 309 AY-PCMNSSYNVSTSTLRIMMDEFQRGHEIC 338 (698)
Q Consensus 309 a~-P~~Nst~NVs~sTl~vI~~EF~RA~~Il 338 (698)
+. ...++..+.|..-++.|..--|.+.+++
T Consensus 201 cE~~~~~~~~~lt~qq~e~it~sAQ~~LRll 231 (248)
T PF07528_consen 201 CEKDPVDVLDTLTLQQREDITSSAQTALRLL 231 (248)
T ss_pred CCCCCceeeccCCHHHHHHHHHHHHHHHHHH
Confidence 66 5577777888888888887777777665
No 26
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=94.32 E-value=0.07 Score=48.02 Aligned_cols=29 Identities=38% Similarity=0.534 Sum_probs=26.3
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEeecCC
Q 005391 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (698)
Q Consensus 83 ~~kI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (698)
...++.|||++-|=+.+.||||++++++.
T Consensus 26 ~~~v~LfGS~arG~~~~~SDiDv~vv~~~ 54 (128)
T COG1708 26 DLLIYLFGSYARGDFVKESDIDLLVVSDD 54 (128)
T ss_pred CeEEEEEccCcccccccCCCeeEEEEcCC
Confidence 57899999999999999999999999843
No 27
>PRK13746 aminoglycoside resistance protein; Provisional
Probab=93.86 E-value=0.12 Score=54.81 Aligned_cols=31 Identities=29% Similarity=0.267 Sum_probs=27.9
Q ss_pred EEEEeeeeccCCCCCCCCceEEeecCCCCCc
Q 005391 85 KIFTFGSYRLGVHGPGADIDTLCVGPRHATR 115 (698)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r 115 (698)
-|+.|||+..|-..|.||||++++.....+.
T Consensus 30 ~vyLfGS~~~G~~~p~SDIDllvvv~~~l~~ 60 (262)
T PRK13746 30 AIHLYGSAVDGGLKPHSDIDLLVTVAVPLDE 60 (262)
T ss_pred EEEEECCcccCCCCCCCceeEEEEeCCCCCH
Confidence 5899999999999999999999999877653
No 28
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=91.77 E-value=2.2 Score=46.17 Aligned_cols=113 Identities=23% Similarity=0.264 Sum_probs=71.5
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEec------Cee
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFS------GVS 155 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~------GI~ 155 (698)
...++.+-||||=|-.+ .+|||+|+..+.... ..++..+...|.+.+.+..+..- -..-....+. |+.
T Consensus 159 ~~~~v~i~GS~RRg~et-~gDiDilv~~~~~~~--~~~~~~v~~~l~~~~~~~~~~~~---g~~k~~~~~~~~~~~~~~r 232 (307)
T cd00141 159 PVLQVEIAGSYRRGKET-VGDIDILVTHPDATS--RGLLEKVVDALVELGFVTEVLSK---GDTKASGILKLPGGWKGRR 232 (307)
T ss_pred CceEEEEcccccCCCCc-cCCEEEEEecCCccc--cccHHHHHHHHHhCCCeehhhhC---CCceEEEEEecCCCCCceE
Confidence 36789999999999765 479999888876544 25677888888887776542211 1111222222 899
Q ss_pred eeEEeecccccccCCCCCCCchhhhccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCcc
Q 005391 156 IDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFL 234 (698)
Q Consensus 156 iDLsfa~l~~~~iP~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~L 234 (698)
|||.++....+ .-.++.+--+ .. ..|.++.||++||..=+..|..
T Consensus 233 VDl~~~p~~~~------------------------------~~all~fTGs-~~---~nr~lR~~A~~~G~~L~~~GL~ 277 (307)
T cd00141 233 VDLRVVPPEEF------------------------------GAALLYFTGS-KQ---FNRALRRLAKEKGLKLNEYGLF 277 (307)
T ss_pred EEEEEeCHHHH------------------------------HHHHHHhhCC-HH---HHHHHHHHHHHcCCeeeccccc
Confidence 99998754211 0112222222 22 2567799999999887776654
No 29
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=91.43 E-value=0.4 Score=49.87 Aligned_cols=33 Identities=27% Similarity=0.337 Sum_probs=28.0
Q ss_pred CcEEEEeeeec----cCC--CCCCCCceEEeecCCCCCc
Q 005391 83 NAKIFTFGSYR----LGV--HGPGADIDTLCVGPRHATR 115 (698)
Q Consensus 83 ~~kI~~FGSy~----lGv--~~p~SDID~lcv~P~~v~r 115 (698)
+..+.+|||+. +|+ -.++||||+|+-.|.....
T Consensus 120 g~~~gv~GS~a~qlaTG~~~l~~~SDLDLLi~~~~~~~~ 158 (221)
T PRK02098 120 GVDCRVFGSLAWQALTGLPYLSASSDLDLLWPLPAAAQI 158 (221)
T ss_pred CCcEEEeeehHHHHhhCCcccCCCCCeeEEEecCChhhH
Confidence 56799999999 999 7899999999988865544
No 30
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific. Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.
Probab=90.77 E-value=0.46 Score=48.68 Aligned_cols=33 Identities=21% Similarity=0.247 Sum_probs=28.2
Q ss_pred CcEEEEeeee----ccCC--CCCCCCceEEeecCCCCCc
Q 005391 83 NAKIFTFGSY----RLGV--HGPGADIDTLCVGPRHATR 115 (698)
Q Consensus 83 ~~kI~~FGSy----~lGv--~~p~SDID~lcv~P~~v~r 115 (698)
+..+.+|||+ .+|+ -.++||||+|+-.|....+
T Consensus 108 ~~~~gv~GS~~~qlaTg~~~~~~~SDLDLLi~~~~~~~~ 146 (202)
T TIGR03135 108 GVPWGVYGSAGWQLLTGLPYLHASSDLDLLLRAPSPLSL 146 (202)
T ss_pred CCcEEEecchHHHHhcCCcccCCCCCeeEEEcCCChhhH
Confidence 5689999999 8999 7899999999988865554
No 31
>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=90.70 E-value=0.61 Score=47.58 Aligned_cols=47 Identities=11% Similarity=0.089 Sum_probs=33.1
Q ss_pred chhHHHHHHHHHHHHHHcCCCCCC-CCccchHHHHHHHHHHHhhCCCC
Q 005391 207 IQNFRTTLRCMRFWAKRRGVYSNV-AGFLGGINWALLVARICQLYPNA 253 (698)
Q Consensus 207 ~~~FR~llR~IK~WAK~RgIysn~-~G~LGG~swaILVa~vcQlyPna 253 (698)
....+.|+|.||+|-+...-.... -+-+.+|++-||+++.-..-...
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 467889999999999986666333 34577899999999998765543
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=85.51 E-value=1.6 Score=40.60 Aligned_cols=53 Identities=30% Similarity=0.416 Sum_probs=39.8
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCCCc---hhhHHHHHHHHHhcCCCcee
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATR---EEDFFGELHQMLTEMPEVTE 135 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r---~edFF~~l~~~L~~~~~V~~ 135 (698)
.+..+..-||||=|-.+.| |||+|+..|..... ...++..+...|.+..-+++
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 4689999999999988765 99999998876542 13688889999988655544
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=85.22 E-value=3.7 Score=40.02 Aligned_cols=48 Identities=25% Similarity=0.396 Sum_probs=36.6
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhc
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTE 129 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~ 129 (698)
...-++.+|||.-+=-.+.||||++++.+........+|..+.+.+.+
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 467899999999999999999999998875432123577776665554
No 34
>COG1665 Predicted nucleotidyltransferase [General function prediction only]
Probab=84.65 E-value=0.22 Score=53.20 Aligned_cols=27 Identities=30% Similarity=0.348 Sum_probs=23.2
Q ss_pred EEEeeeeccCCCCCCCCceEEeecCCC
Q 005391 86 IFTFGSYRLGVHGPGADIDTLCVGPRH 112 (698)
Q Consensus 86 I~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (698)
+=.-||..+|++..+||||+++.++.+
T Consensus 124 mGVTGSiL~gl~~~nSDIDfVVYG~~~ 150 (315)
T COG1665 124 MGVTGSILLGLYDENSDIDFVVYGQMW 150 (315)
T ss_pred ccccccccccccCCCCCceEEEEcHHH
Confidence 445799999999999999999999544
No 35
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=78.79 E-value=6.7 Score=47.80 Aligned_cols=57 Identities=23% Similarity=0.384 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCCCCC
Q 005391 54 LGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHAT 114 (698)
Q Consensus 54 L~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~ 114 (698)
++...+++..|+..+-...|+++ ..+.-|...|.|.=|--.|.||||++++.|...+
T Consensus 41 ~~~~~~~~d~~L~~lw~~~g~~~----~~~~aLvAVGGyGRgEL~P~SDiDlL~L~p~~~~ 97 (867)
T COG2844 41 IELRTDLVDQLLIRLWQEIGFAD----ASGLALVAVGGYGRGELHPLSDIDLLLLSPQKLT 97 (867)
T ss_pred HHHHHHHHHHHHHHHHHHcCccc----ccceEEEEeccccccccCCCccceEEEecCCCCC
Confidence 33444566666666666778775 3568899999999999999999999999998765
No 36
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown]
Probab=77.97 E-value=12 Score=46.60 Aligned_cols=123 Identities=18% Similarity=0.290 Sum_probs=72.4
Q ss_pred hhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHHHHh-hC---CCCCHHHHHHHHHHhhccCC
Q 005391 195 RVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQ-LY---PNAVPSMLVSRFFRVYTQWR 270 (698)
Q Consensus 195 Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~vcQ-ly---Pnas~~~LL~~FF~~Ys~wd 270 (698)
|.+-.|..+...++.|-.++|.-|.|...+=+-+. .+ -=++=||||...+ -+ |..++-.=..+|..+-|+||
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 LHTLALQSLSQSHPFYSSVVRLAKRWLGSHLLSGH---HL-DEAIELLVAALFLKPGPLVPPSSPENGFLRFLSLLSTWD 881 (1121)
T ss_pred HHHHHHHHHhhcccchhHHHHHHHHHHHHHhhccc---hH-HHHHHHHHHHHhcCccCCCCCCCcchhHHHHHHHHhcCc
Confidence 44445555555678899999999999988754321 22 4567788887664 23 45566666788999999999
Q ss_pred CCC-ceeecccccCCCCc----cccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhH
Q 005391 271 WPN-PVLLCAIEEGSLGL----QVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTL 324 (698)
Q Consensus 271 W~~-pV~L~~i~~G~l~~----~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl 324 (698)
|.. |.++. ...+ ... ....--...+..+..|.|+||.+ ..++.+.=+..+.
T Consensus 882 W~~~PLIvd-~nn~-~~ed~~~e~~e~f~s~R~~lp~m~vit~yD-~~~~~~t~~~P~~ 937 (1121)
T KOG2054|consen 882 WKFDPLIVD-FNNG-FPEDERSELEEKFISARKQLPPMVVITPYD-HLGSKFTRTSPNQ 937 (1121)
T ss_pred ccCCceEEE-cCCC-CcHHHHHHHHHHHhhhcccCCceEEeeccc-cccccccccCchH
Confidence 986 66553 2221 100 00000000112234799999954 3444444344443
No 37
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=77.09 E-value=14 Score=35.42 Aligned_cols=48 Identities=17% Similarity=0.222 Sum_probs=37.2
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCCCc-hhhHHHHHHHHHhc
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATR-EEDFFGELHQMLTE 129 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r-~edFF~~l~~~L~~ 129 (698)
...-++.+||+.=+=.++.||+|..+|....... ...+|..|.+.+..
T Consensus 48 ~~~a~lalGS~GR~E~~~~sDqD~alv~~d~~~~~~~~~f~~~a~~~~~ 96 (138)
T PF03445_consen 48 VPFAWLALGSYGRREQTLYSDQDNALVFEDEESEEDRAYFEAFAERLVD 96 (138)
T ss_pred CCEEEEEECcccccCCCcCccccceeeecCccchhHHHHHHHHHHHHHH
Confidence 5788999999999999999999999998873221 13677777666553
No 38
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=73.32 E-value=14 Score=40.76 Aligned_cols=95 Identities=27% Similarity=0.327 Sum_probs=57.5
Q ss_pred ChHHHH-hhHHHHHHHHHcCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCC
Q 005391 21 TDDDLM-RTRKLEKYLRDVNL--YESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVH 97 (698)
Q Consensus 21 t~~D~~-~t~~L~~~L~~~~l--~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~ 97 (698)
|..|++ ..++|....+ .|+ |+.=.....|+++.+.. ++|++-++. . ..++.+..-||||=|-
T Consensus 120 Tled~Rk~~~kft~qqk-~Gl~yy~Df~~~v~ReE~~~i~-~~V~~av~~-----~-------~p~~~vt~~GsfRRGk- 184 (353)
T KOG2534|consen 120 TLEDVRKKPDKFTRQQK-AGLKYYEDFLKRVTREEATAIQ-QTVQEAVWA-----F-------DPEAFVTVTGSFRRGK- 184 (353)
T ss_pred HHHHHHhCHHHHHHHHH-HhHHHHHHHhhhccHHHHHHHH-HHHHHHHhh-----c-------CCCcEEEEeccccCCc-
Confidence 444555 2344433332 233 45555556666665543 334332321 1 3467899999999984
Q ss_pred CCCCCceEEeecCCCCCchhhHHHHHHHHHhcC
Q 005391 98 GPGADIDTLCVGPRHATREEDFFGELHQMLTEM 130 (698)
Q Consensus 98 ~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~ 130 (698)
..+.|||+|+-.|..-..+.-.+..|...|.+.
T Consensus 185 ~~ggDvD~LithP~~~s~~~~~~~~l~~~le~~ 217 (353)
T KOG2534|consen 185 KMGGDVDFLITHPGSTSTEAKLLQLLMILLEKK 217 (353)
T ss_pred ccCCCeeEEEeCCCCCchhhhHHHHHHHHHHhc
Confidence 678999998888876543345677788887764
No 39
>PF10620 MdcG: Phosphoribosyl-dephospho-CoA transferase MdcG; InterPro: IPR017557 Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A. Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase (2.7.7.61 from EC). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family.; GO: 0016779 nucleotidyltransferase activity
Probab=71.47 E-value=11 Score=39.00 Aligned_cols=42 Identities=19% Similarity=0.311 Sum_probs=29.4
Q ss_pred cCcEEEEeeeec----cCCC--CCCCCceEEeecCCCCCchhhHHHHHH
Q 005391 82 ANAKIFTFGSYR----LGVH--GPGADIDTLCVGPRHATREEDFFGELH 124 (698)
Q Consensus 82 ~~~kI~~FGSy~----lGv~--~p~SDID~lcv~P~~v~r~edFF~~l~ 124 (698)
.+...-+|||+. +|+. .++||||+++-.+..... +.+...+.
T Consensus 115 ~~~~~gv~GS~g~qlaTGl~~l~~~SDLDLli~~~~~~~~-~~l~~~L~ 162 (213)
T PF10620_consen 115 LGLRWGVYGSLGFQLATGLPYLHADSDLDLLIRPPSPSQA-DALLALLQ 162 (213)
T ss_pred cCCCEEEehhHHHHHHhCccccCCCCCceEEEeCCChhHH-HHHHHHHH
Confidence 367899999985 4544 699999999888876643 23444443
No 40
>PRK05007 PII uridylyl-transferase; Provisional
Probab=70.68 E-value=14 Score=45.61 Aligned_cols=57 Identities=16% Similarity=0.327 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCCCC
Q 005391 53 VLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA 113 (698)
Q Consensus 53 VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v 113 (698)
++..+..++.++++..-...+++. ..+.-|...|+|.=|=-.|.||||++++.+...
T Consensus 54 ~~~~~s~~~D~~l~~l~~~~~~~~----~~~~alvAvGgyGR~EL~p~SDiDll~l~~~~~ 110 (884)
T PRK05007 54 LVEARTEFIDQLLQRLWIEAGFDQ----IPDLALVAVGGYGRGELHPLSDIDLLILSRKKL 110 (884)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCC----cCceEEEecCCCCCcccCCcccceEEEEeCCCC
Confidence 455555555555555444445432 246789999999999999999999999988443
No 41
>PRK08609 hypothetical protein; Provisional
Probab=68.76 E-value=31 Score=40.74 Aligned_cols=108 Identities=19% Similarity=0.259 Sum_probs=62.1
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEe-cCeeeeEEee
Q 005391 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKF-SGVSIDLLYA 161 (698)
Q Consensus 83 ~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~-~GI~iDLsfa 161 (698)
..++..-||||=|--+ ..|||+|+..+... .+.+.|.+.+.|+++..-...+.-+ .+.. .|+.|||-+.
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 4689999999999765 46999888775421 1223334444444332222222211 2232 3899999987
Q ss_pred cccccccCCCCCCCchhhhccchhhhhhhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCcc
Q 005391 162 RLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFL 234 (698)
Q Consensus 162 ~l~~~~iP~~ldl~~d~lL~~lDe~svrSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~L 234 (698)
....+ | -.++..--. ..| .|.++.||++||+.=|-.|..
T Consensus 245 ~~~~~--------------------------~----~aL~yfTGS-~~h---n~~lr~~A~~~g~~l~e~gl~ 283 (570)
T PRK08609 245 EPEAF--------------------------A----TTLHHFTGS-KDH---NVRMRQLAKERGEKISEYGVE 283 (570)
T ss_pred CHHHH--------------------------H----HHHHHHhcc-HHH---HHHHHHHHHHcCCcccccccc
Confidence 54211 0 011111111 222 566689999999988888764
No 42
>PF03281 Mab-21: Mab-21 protein
Probab=67.15 E-value=1.7e+02 Score=30.86 Aligned_cols=97 Identities=19% Similarity=0.244 Sum_probs=66.0
Q ss_pred chhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHHHHHHHHhhCCCC---CHHHHHHHHHHhhccCCCCCceeecccccC
Q 005391 207 IQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNA---VPSMLVSRFFRVYTQWRWPNPVLLCAIEEG 283 (698)
Q Consensus 207 ~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaILVa~vcQlyPna---s~~~LL~~FF~~Ys~wdW~~pV~L~~i~~G 283 (698)
....+.++|++|.-..... ...+.|++|++--++.+.|..+|.. ....|-.+|.++... +++.+++|
T Consensus 190 ~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~p~~~~W~~~~l~~~l~~~l~~-------L~~~L~~~ 259 (292)
T PF03281_consen 190 NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKHPSSSDWSEENLGERLLDLLDF-------LIKCLQEG 259 (292)
T ss_pred cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHH-------HHHHHhcC
Confidence 4567889999999887766 5677899999999999999999876 234444455444321 22233444
Q ss_pred CCCccccCCCCCCCCCCCCeeEeCCCCCCCCcccccChhhHHHHHHHHHH
Q 005391 284 SLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQR 333 (698)
Q Consensus 284 ~l~~~vWdP~~~~~Dr~hlMpIiTPa~P~~Nst~NVs~sTl~vI~~EF~R 333 (698)
.+. | -+.|.+|.=.+.+..++..+.+++.+
T Consensus 260 ~Lp--------------h------ff~~~~NLf~~~~~~~~~~~~~~~~~ 289 (292)
T PF03281_consen 260 RLP--------------H------FFIPNLNLFQHLSPEELDELARKLER 289 (292)
T ss_pred CCC--------------c------cCCCCcccCCCCCHHHHHHHHHHHHH
Confidence 321 1 14577888888888877777766554
No 43
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=64.32 E-value=94 Score=34.24 Aligned_cols=31 Identities=35% Similarity=0.535 Sum_probs=24.7
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCC
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA 113 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v 113 (698)
....+..-||||=|-.+ ..|||+|+..+...
T Consensus 163 ~~~~v~i~GSyRRgket-~gDIDili~~~~~~ 193 (334)
T smart00483 163 PDAIVTLTGSFRRGKET-GHDVDFLITSPHPA 193 (334)
T ss_pred CCcEEEEecccccCCCc-CCCeeEEEecCCcc
Confidence 35789999999999765 47999988877643
No 44
>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=62.62 E-value=76 Score=33.34 Aligned_cols=60 Identities=20% Similarity=0.200 Sum_probs=33.2
Q ss_pred hhcCCChhhh-hccCcEEEEeeeeccCCCCCCCCceEEeecCCCCC------chhhHHHHHHHHHhc
Q 005391 70 RAKGLNDQLL-QEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHAT------REEDFFGELHQMLTE 129 (698)
Q Consensus 70 ~~~g~~e~~~-~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~------r~edFF~~l~~~L~~ 129 (698)
...|.|.... ...+.-|.-.|-+.-+=-..+||||+++|.+..-. ....||..+.+.|.+
T Consensus 113 ~~~G~p~~~~~~~~~~~ViamGKlGg~ELny~SDiDLifvy~~~~~~~~~~~~~~~~~~rl~~~~~~ 179 (247)
T PF03710_consen 113 ARYGRPPDEDGEPAGFAVIAMGKLGGRELNYSSDIDLIFVYDPDGETGRRSISNQEFFTRLAQRLIR 179 (247)
T ss_dssp HHCTSCCCCTTCC-SEEEEE-HHHHTT---TT--EEEEEEE---TT-SSS-SBHHHHHHHHHHHHHH
T ss_pred HHcCCCCcccCCcCCeEEEEeccccccccCCccCCceEEEeccccccccChhhHHHHHHHHHHHHHH
Confidence 3456653211 12367788888888888899999999999764321 113689888777664
No 45
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=62.29 E-value=25 Score=43.38 Aligned_cols=56 Identities=14% Similarity=0.255 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCCC
Q 005391 53 VLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (698)
Q Consensus 53 VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (698)
++.....++.++++..-...+++. ..+.-|...|+|.=|=-.|.||||++++.+..
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 555555666666655443333321 13478999999999999999999999998743
No 46
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=60.93 E-value=26 Score=42.38 Aligned_cols=64 Identities=20% Similarity=0.164 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHH
Q 005391 48 VSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQML 127 (698)
Q Consensus 48 ~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L 127 (698)
+.|+++-+.-..++++ .++++ +.-|...|+|.=|=-.|.||||++++.+.... +++.+.|-..|
T Consensus 6 ~~~~~~~~~~~~~~~~--------~~~~~------~~aLvAvGGYGR~EL~P~SDIDLLiL~~~~~~--~~~i~~~~~~L 69 (693)
T PRK00227 6 QLREDAEASALALLGS--------LQLPP------GTALAATGSLARREMTPYSDLDLILLHPPGAT--PDGVEDLWYPI 69 (693)
T ss_pred HHHHHHHHHHHHHHHh--------cCCCC------CeEEEEeccccccCcCCCcCceEEEEeCCccc--HHHHHHHHHHH
Confidence 4566666666666654 24552 56799999999999999999999999884332 24444444443
No 47
>PRK03059 PII uridylyl-transferase; Provisional
Probab=59.14 E-value=24 Score=43.61 Aligned_cols=53 Identities=28% Similarity=0.431 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCceEEeecCC
Q 005391 53 VLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (698)
Q Consensus 53 VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (698)
++..+..++.++++..-...+++ .+.-|...|+|.=|--.|.||||++++.+.
T Consensus 37 ~~~~~s~l~d~~l~~~~~~~~~~------~~~alvAvGgyGR~EL~p~SDiDll~l~~~ 89 (856)
T PRK03059 37 LLHALSRLVDQALRRLWQECGLP------AGAALVAVGGYGRGELFPYSDVDLLVLLPD 89 (856)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCC------CCeEEEEcCCCCCcccCCCCCCEEEEEecC
Confidence 66666666666665543333332 256899999999999999999999999864
No 48
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=58.98 E-value=38 Score=34.15 Aligned_cols=77 Identities=21% Similarity=0.186 Sum_probs=45.0
Q ss_pred cCcEEEEeeeecc----CCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEecCeeee
Q 005391 82 ANAKIFTFGSYRL----GVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSID 157 (698)
Q Consensus 82 ~~~kI~~FGSy~l----Gv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iD 157 (698)
.+.+.+..|++.+ |.-....|||+++..+.... ..++|..++....-.-+-+.+ ...-.++++...++.||
T Consensus 15 ~gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~~~~~-~~~~~~~~a~~~g~~~~~~~~----~~~~~~~~~~~~~v~ID 89 (181)
T PF09970_consen 15 RGVEYVIVGGAAVNLAYGRRRTTKDIDLFIENPSPNL-EADALREVAEENGWDLGWTDF----GTPRYVVKVGGEDVRID 89 (181)
T ss_pred cCCeEEEECHHHHHHHhCCCCCCCCeEEEeCCCchHH-HHHHHHHHHHHcCCCcCcccc----CCCceEEEeCCCCeEEE
Confidence 3568999999864 66678899998776664433 235565554322110111111 12334566666789999
Q ss_pred EEeeccc
Q 005391 158 LLYARLS 164 (698)
Q Consensus 158 Lsfa~l~ 164 (698)
| +.++.
T Consensus 90 l-~~ni~ 95 (181)
T PF09970_consen 90 L-LENIG 95 (181)
T ss_pred c-hhccC
Confidence 9 55554
No 49
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=57.38 E-value=26 Score=36.34 Aligned_cols=44 Identities=30% Similarity=0.312 Sum_probs=30.8
Q ss_pred CcEEEEeeeec----cCCC--CCCCCceEEeecCCCCCchhhHHHHHHHHHh
Q 005391 83 NAKIFTFGSYR----LGVH--GPGADIDTLCVGPRHATREEDFFGELHQMLT 128 (698)
Q Consensus 83 ~~kI~~FGSy~----lGv~--~p~SDID~lcv~P~~v~r~edFF~~l~~~L~ 128 (698)
+..--+|||.. +|+. .++||||+++-+|....+ +-+..+.+.|.
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 56788999975 4443 689999999999877665 33444544444
No 50
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms.
Probab=56.79 E-value=9.2 Score=39.74 Aligned_cols=26 Identities=27% Similarity=0.210 Sum_probs=21.9
Q ss_pred EEEEeeeeccCCCCCCCCceEEeecC
Q 005391 85 KIFTFGSYRLGVHGPGADIDTLCVGP 110 (698)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P 110 (698)
-...+||..-|+.+|+||.|+-+|.-
T Consensus 22 ~~~~sGS~a~G~~s~dSD~D~r~vy~ 47 (247)
T PF10127_consen 22 YACESGSRAYGFASPDSDYDVRGVYI 47 (247)
T ss_pred EEecccccccCCCCCCcCcccchhcc
Confidence 34678999999999999999876653
No 51
>PRK03381 PII uridylyl-transferase; Provisional
Probab=48.85 E-value=54 Score=40.17 Aligned_cols=30 Identities=13% Similarity=0.158 Sum_probs=27.0
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCC
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (698)
...-|...|+|.-|--.|.||||++++.+.
T Consensus 56 ~~~alvAvg~~gr~el~p~SD~Dll~l~~~ 85 (774)
T PRK03381 56 SGVALVAVGGLGRRELLPYSDLDLVLLHDG 85 (774)
T ss_pred CCeEEEEeCCcCCcCcCCCCCCeEEEEeCC
Confidence 357899999999999999999999999873
No 52
>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=47.28 E-value=23 Score=36.84 Aligned_cols=31 Identities=13% Similarity=0.193 Sum_probs=24.1
Q ss_pred EEEEeeeeccCCCCCCCCceEEeecCCCCCc
Q 005391 85 KIFTFGSYRLGVHGPGADIDTLCVGPRHATR 115 (698)
Q Consensus 85 kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r 115 (698)
-||+-||..+=-.++.||+|+=++.....+.
T Consensus 99 GlY~MGS~gSi~Qs~~SDlDiWvCh~~~L~~ 129 (204)
T PF12633_consen 99 GLYSMGSTGSIGQSSSSDLDIWVCHDSDLSP 129 (204)
T ss_pred EEEecCCCccccCCCCCCCeEEEEcCCCCCH
Confidence 3899999999999999999994444444543
No 53
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=46.75 E-value=66 Score=40.09 Aligned_cols=32 Identities=28% Similarity=0.367 Sum_probs=28.1
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCC
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA 113 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v 113 (698)
.+.-|...|.|.=|-=.|.||||++++.+...
T Consensus 77 ~~~alvAvGgyGR~EL~p~SDiDll~l~~~~~ 108 (895)
T PRK00275 77 ADIALVAVGGYGRGELHPYSDIDLLILLDSAD 108 (895)
T ss_pred CCEEEEEcCCccccCcCCCCCceEEEEecCCC
Confidence 35789999999999999999999999987543
No 54
>PRK04374 PII uridylyl-transferase; Provisional
Probab=45.59 E-value=69 Score=39.85 Aligned_cols=29 Identities=28% Similarity=0.489 Sum_probs=26.6
Q ss_pred CcEEEEeeeeccCCCCCCCCceEEeecCC
Q 005391 83 NAKIFTFGSYRLGVHGPGADIDTLCVGPR 111 (698)
Q Consensus 83 ~~kI~~FGSy~lGv~~p~SDID~lcv~P~ 111 (698)
+.-|...|+|.=|=-.|.||||++++.+.
T Consensus 72 ~~alvAvGgYGR~EL~p~SDIDLliL~~~ 100 (869)
T PRK04374 72 GLSLHAVGGYGRGELFPRSDVDLLVLGET 100 (869)
T ss_pred CEEEEEcCCccccccCCcccceEEEEecC
Confidence 46899999999999999999999999874
No 55
>COG2413 Predicted nucleotidyltransferase [General function prediction only]
Probab=45.23 E-value=45 Score=34.87 Aligned_cols=29 Identities=28% Similarity=0.436 Sum_probs=24.0
Q ss_pred cEEEEeeeeccCCCCCCCCceEEeecCCC
Q 005391 84 AKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (698)
Q Consensus 84 ~kI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (698)
..-+.+||-+.|=-.|+||+|+.+.-|..
T Consensus 38 ie~~v~gSvarGDV~p~SDvDV~I~~~vp 66 (228)
T COG2413 38 IEAVVYGSVARGDVRPGSDVDVAIPEPVP 66 (228)
T ss_pred chhEEEeeeeccCcCCCCCceEEEecCCC
Confidence 34578999999988999999998877443
No 56
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription]
Probab=43.45 E-value=4.9e+02 Score=28.70 Aligned_cols=212 Identities=18% Similarity=0.255 Sum_probs=109.7
Q ss_pred HHHhhHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCCCCc
Q 005391 24 DLMRTRKLEKYLRDVNLYESQEEAVSREEVLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPGADI 103 (698)
Q Consensus 24 D~~~t~~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~SDI 103 (698)
|-..+++|.+- +.++-|+.+|...=.+...+++.++..-+ +.|+-+ -.-..|--.|||..|..+.++|.
T Consensus 38 D~~f~~alLkR--nqdL~P~~~~q~~I~~~vtKV~~vLdn~~-----~~~L~~----~~ieevrqVGSF~k~T~~tg~~~ 106 (362)
T KOG3793|consen 38 DTSFSEALLKR--NQDLAPNSAEQASILSLVTKVNNVLDNLV-----APGLFE----VQIEEVRQVGSFKKGTMTTGHNV 106 (362)
T ss_pred chHHHHHHHhh--hccCCCCHHHHHHHHHHHHHHHHHHHhhc-----cCCceE----eehhhhhhccceeccccccCCcc
Confidence 66666666553 35789999988766666666666664322 123322 12246778999999999999876
Q ss_pred -eEEeecCCCCCch--hhHHHHHHHHHhcC-C-CceeeEeecCCccceEEEEe----cCeeeeEEeecccccccCCCCCC
Q 005391 104 -DTLCVGPRHATRE--EDFFGELHQMLTEM-P-EVTELHPVPDAHVPVMKFKF----SGVSIDLLYARLSLWVIPEDLDI 174 (698)
Q Consensus 104 -D~lcv~P~~v~r~--edFF~~l~~~L~~~-~-~V~~l~~I~~ArVPIIKf~~----~GI~iDLsfa~l~~~~iP~~ldl 174 (698)
|+|++-.--.+.+ ...=.+..+-|+.. + +|-. |-+.+--+ ..-.+-|+++. +|+++.-
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 5555543322221 01112233333321 1 2211 11121111 12333444443 4555432
Q ss_pred Cchhhhccchhhhh-hhhcchhhHHHHHHhccCchhHHHHHHHHHHHHHHcCCCCCCCCccchHHHHH-HHHHHHhhC-C
Q 005391 175 SQDSILQNADEQTV-RSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWAL-LVARICQLY-P 251 (698)
Q Consensus 175 ~~d~lL~~lDe~sv-rSLNG~Rvtd~Il~lVP~~~~FR~llR~IK~WAK~RgIysn~~G~LGG~swaI-LVa~vcQly-P 251 (698)
. +.+-.+|.+-+ -.|-.+|-+.++-+. ..+...+.++|++|---.+ +-||=-=-.|+| |++++|-+. |
T Consensus 174 L--EP~lHLD~K~M~~~l~a~RH~~WFee~-A~~s~~~~lir~LKDlr~r------~~~F~PLs~W~ldll~h~avmNnp 244 (362)
T KOG3793|consen 174 L--EPELHLDIKVMQSALAAIRHARWFEEN-ASQSTVKVLIRLLKDLRIR------FPGFEPLTPWILDLLGHYAVMNNP 244 (362)
T ss_pred c--ChhhhhhHHHHHHHHHHHhhhhhhhhh-hhHHHHHHHHHHHHHHHhh------cCCCCCchHHHHHHHHHHHHHcCC
Confidence 1 11222333222 223345554444332 2245567788888876554 234422224544 567777553 4
Q ss_pred C---CCHHHHHHHHHHhhcc
Q 005391 252 N---AVPSMLVSRFFRVYTQ 268 (698)
Q Consensus 252 n---as~~~LL~~FF~~Ys~ 268 (698)
+ +.++.-..+||++.+.
T Consensus 245 ~RQ~l~ln~Afrr~~qilaA 264 (362)
T KOG3793|consen 245 TRQPLALNVAYRRCLQILAA 264 (362)
T ss_pred ccccchhhHHHHHHHHHHHh
Confidence 3 4578889999999885
No 57
>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=42.58 E-value=81 Score=38.92 Aligned_cols=31 Identities=26% Similarity=0.411 Sum_probs=27.5
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCC
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (698)
.+.-|...|||.=|=-.|.||||++++.+..
T Consensus 42 ~~~aliA~GgyGR~El~p~SDiDll~l~~~~ 72 (850)
T TIGR01693 42 SGIALVAVGGYGRGELAPYSDIDLLFLHDGK 72 (850)
T ss_pred CCeEEEEeCCccccCcCCCCCCeEEEEeCCC
Confidence 3578999999999999999999999998744
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=41.34 E-value=37 Score=33.45 Aligned_cols=78 Identities=22% Similarity=0.481 Sum_probs=38.7
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCC---CCce
Q 005391 31 LEKYLRDVNLYESQEEAVSREEV---LGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPG---ADID 104 (698)
Q Consensus 31 L~~~L~~~~l~pSeEE~~~R~~V---L~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~---SDID 104 (698)
..+.|..+++..-.++...|..| +..+..++++.+++ + +-....||||.+-+-.|. .|||
T Consensus 9 a~~~l~s~~v~~~~~~~~grh~vS~lV~~V~klmeEyLrr----h----------Nk~CicYGSyslhllN~~I~YgDID 74 (149)
T PF03296_consen 9 ASDYLNSYNVANPSGKVMGRHNVSDLVENVNKLMEEYLRR----H----------NKSCICYGSYSLHLLNPNIKYGDID 74 (149)
T ss_dssp HHHHHHHH--S-------------THHHHHHHHHHHHHHH---------------TTTEEEESHHHHHTTSTTS--SS-E
T ss_pred HHHHHHHhcccccCccccccccCcHHHHHHHHHHHHHHHh----h----------CCCeEEeeeeeEEecCCCcccCcch
Confidence 45677777887767777777765 44455566665554 3 234789999988777665 8999
Q ss_pred EEeecCCCCCchhhHHHHHHHHHh
Q 005391 105 TLCVGPRHATREEDFFGELHQMLT 128 (698)
Q Consensus 105 ~lcv~P~~v~r~edFF~~l~~~L~ 128 (698)
++=... ..|+-.|+-++.
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 653221 256655555554
No 59
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=37.24 E-value=82 Score=39.80 Aligned_cols=48 Identities=17% Similarity=0.193 Sum_probs=36.7
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCC--C--chhhHHHHHHHHHhc
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHA--T--REEDFFGELHQMLTE 129 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v--~--r~edFF~~l~~~L~~ 129 (698)
.+.-|..+|+|.-+=-+++||||++++..... . ....||..+.+.+..
T Consensus 722 ~~~avia~Gk~Gr~EL~~~SDlDl~fl~~~~~~~~~~~~~~~~~rlaq~l~~ 773 (1007)
T PRK14109 722 ARIAVIGMGRLGGRELGYGSDADVMFVHEPAPGADEAEAVRWATAVAEELRR 773 (1007)
T ss_pred CCEEEEEeccccccccCCCCCCcEEEEeCCCCCCCchhHHHHHHHHHHHHHH
Confidence 45789999999999999999999999986321 1 112688888777664
No 60
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=33.27 E-value=71 Score=35.44 Aligned_cols=70 Identities=26% Similarity=0.296 Sum_probs=53.4
Q ss_pred cEEEEeeeeccCCCCCCCCceEEeecCCCCCchhhHHHHHHHHHhcCCCceeeEeecCCccceEEEEecCeeeeEEeec
Q 005391 84 AKIFTFGSYRLGVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYAR 162 (698)
Q Consensus 84 ~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~r~edFF~~l~~~L~~~~~V~~l~~I~~ArVPIIKf~~~GI~iDLsfa~ 162 (698)
.++---||.|=|-.+ .+|||++|..... . . +.+.|-+++++.++.+-.+.+|-++.--..|++|||-++.
T Consensus 181 ~~~~~aGs~RR~ret-v~DiD~~~s~~~~-~---~----v~~~~~~~~~~~~vi~~G~~k~s~~~~~~~~~svD~r~v~ 250 (326)
T COG1796 181 IQASIAGSLRRGRET-VGDIDILISTSHP-E---S----VLEELLEMPNVQEVIAKGETKVSMLLILDEGTSVDFRVVP 250 (326)
T ss_pred heeeeccchhhcccc-ccceeeEeccCCc-H---H----HHHHHhcCCCcceeeecCCceeeEEEEecCCCeeEEEEcC
Confidence 456667899887765 5899977765422 1 1 4445566899999999999999999999999999997764
No 61
>COG3541 Predicted nucleotidyltransferase [General function prediction only]
Probab=32.95 E-value=21 Score=38.05 Aligned_cols=18 Identities=33% Similarity=0.425 Sum_probs=16.3
Q ss_pred eeeeccCCCCCCCCceEE
Q 005391 89 FGSYRLGVHGPGADIDTL 106 (698)
Q Consensus 89 FGSy~lGv~~p~SDID~l 106 (698)
-||+.-|+..|+||+|+=
T Consensus 16 sGS~~yGf~spdSDyDvR 33 (248)
T COG3541 16 SGSHLYGFPSPDSDYDVR 33 (248)
T ss_pred ccccccCCCCCCCcccee
Confidence 499999999999999973
No 62
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=32.63 E-value=1.4e+02 Score=37.90 Aligned_cols=48 Identities=13% Similarity=0.093 Sum_probs=36.0
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCCCC----chhhHHHHHHHHHhc
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRHAT----REEDFFGELHQMLTE 129 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~v~----r~edFF~~l~~~L~~ 129 (698)
.+.-|..+|+|.-+=-.++||||++++.+.... ....||..+.+.|..
T Consensus 214 ~~~aviamGklG~~EL~~~SDiDLi~ly~~~~~~~~~~~~~~~~rl~q~l~~ 265 (1007)
T PRK14109 214 VRLAVIAMGKCGARELNYVSDVDVIFVAEPAEGVDEAAALAVATRLASELMR 265 (1007)
T ss_pred CCeEEEEeccccccccCCccCCCEEEEeCCCCCcccccHHHHHHHHHHHHHH
Confidence 356899999999999999999999999864321 112577777776664
No 63
>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=28.85 E-value=44 Score=25.29 Aligned_cols=31 Identities=16% Similarity=0.317 Sum_probs=24.3
Q ss_pred hHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 005391 28 TRKLEKYLRDVNLYESQEEAVSREEVLGRLDQ 59 (698)
Q Consensus 28 t~~L~~~L~~~~l~pSeEE~~~R~~VL~~L~~ 59 (698)
+.+|.+.|++.|+..++.. ..|+++|+.+++
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 4789999999999766554 688888887664
No 64
>PHA02603 nrdC.11 hypothetical protein; Provisional
Probab=28.20 E-value=33 Score=38.08 Aligned_cols=24 Identities=29% Similarity=0.285 Sum_probs=20.6
Q ss_pred EEEeeeeccCCCCCCCCceEEeec
Q 005391 86 IFTFGSYRLGVHGPGADIDTLCVG 109 (698)
Q Consensus 86 I~~FGSy~lGv~~p~SDID~lcv~ 109 (698)
+-.+||...|+.+|+||+|.--|+
T Consensus 6 ~~~~GShaYG~~tp~SD~D~rGV~ 29 (330)
T PHA02603 6 KGLFGSHLYGTSTPESDVDYKGIF 29 (330)
T ss_pred EEecccceeCCCCCCcccccceee
Confidence 567999999999999999985444
No 65
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=26.70 E-value=1.7e+02 Score=36.89 Aligned_cols=48 Identities=27% Similarity=0.335 Sum_probs=35.1
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCC-CC-------chhhHHHHHHHHHhc
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRH-AT-------REEDFFGELHQMLTE 129 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~-v~-------r~edFF~~l~~~L~~ 129 (698)
.+.-|+..|-|.-+==.+.||||++++.+.. .+ ....||..+.+.|-.
T Consensus 153 ~~~aViamGKlG~~ELn~~SDIDLifly~~~~~~~~~~~~~~~~~~f~rl~q~li~ 208 (943)
T PRK11072 153 QPLLILGMGKLGGRELNFSSDIDLIFTYPEHGETQGGRRSIDNQQFFTRLGQRLIK 208 (943)
T ss_pred CCEEEEEeccccCccCCCccCCceEEEeCCCCCCCCCcccchHHHHHHHHHHHHHH
Confidence 4567888888888888999999999998632 11 113688887776654
No 66
>PRK11072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed
Probab=26.62 E-value=1.7e+02 Score=37.01 Aligned_cols=59 Identities=17% Similarity=0.235 Sum_probs=39.0
Q ss_pred hhcCCChhh-hhccCcEEEEeeeeccCCCCCCCCceEEeecCC----------CCCchhhHHHHHHHHHhc
Q 005391 70 RAKGLNDQL-LQEANAKIFTFGSYRLGVHGPGADIDTLCVGPR----------HATREEDFFGELHQMLTE 129 (698)
Q Consensus 70 ~~~g~~e~~-~~~~~~kI~~FGSy~lGv~~p~SDID~lcv~P~----------~v~r~edFF~~l~~~L~~ 129 (698)
...|.+... ....+.-|.-+|-+.-+=-+-+||||++.|... ... ...||..+.+.|.+
T Consensus 667 ~~~G~p~~~~~~~~~~aViamGKlGg~EL~y~SDlDlifvy~~~~~~~t~g~~~~~-~~~~~~rl~qrli~ 736 (943)
T PRK11072 667 KRHGEPPHLEGRERGFAVIGYGKLGGKELGYASDLDLVFLHDCPEDAMTDGDKSID-GRQFYLRLAQRIIH 736 (943)
T ss_pred HHhCCCCCccCCCCCEEEEeecCccCCccCCcccceEEEEeecCccccCCCCCccc-HHHHHHHHHHHHHH
Confidence 345765321 112346788888877777788999999998851 111 13689888887765
No 67
>PRK05092 PII uridylyl-transferase; Provisional
Probab=26.53 E-value=1.9e+02 Score=36.33 Aligned_cols=31 Identities=32% Similarity=0.579 Sum_probs=27.4
Q ss_pred cCcEEEEeeeeccCCCCCCCCceEEeecCCC
Q 005391 82 ANAKIFTFGSYRLGVHGPGADIDTLCVGPRH 112 (698)
Q Consensus 82 ~~~kI~~FGSy~lGv~~p~SDID~lcv~P~~ 112 (698)
.+.-|...|.|.-|--.|.||||++++.+..
T Consensus 104 ~~~alvA~GgyGr~EL~p~SDiDLl~l~~~~ 134 (931)
T PRK05092 104 ERLAVLAVGGYGRGELAPGSDIDLLFLLPYK 134 (931)
T ss_pred CceEEEEecCcCCcccCCCCCceEEEEeCCC
Confidence 3468999999999999999999999998743
No 68
>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=25.75 E-value=25 Score=37.73 Aligned_cols=22 Identities=41% Similarity=0.596 Sum_probs=17.9
Q ss_pred cChhhhhccchhhhhHHHHHHh
Q 005391 374 ENADDLRNWKGWVESRLRQLTL 395 (698)
Q Consensus 374 ~~~e~~~~w~G~VESRlR~Lv~ 395 (698)
+|.-+...++||||||+-.+-.
T Consensus 96 Sn~~EGAVLKGWVESRFGL~Pt 117 (262)
T PF07357_consen 96 SNSPEGAVLKGWVESRFGLLPT 117 (262)
T ss_pred CCChhhhhhhhhhhhccCcCcc
Confidence 4667789999999999986653
No 69
>COG1391 GlnE Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]
Probab=25.07 E-value=4.5e+02 Score=33.32 Aligned_cols=44 Identities=30% Similarity=0.507 Sum_probs=27.5
Q ss_pred EEEeeeeccCCC--CCCCCceEEeecCCCCCc------hhhHHHHHHHHHhc
Q 005391 86 IFTFGSYRLGVH--GPGADIDTLCVGPRHATR------EEDFFGELHQMLTE 129 (698)
Q Consensus 86 I~~FGSy~lGv~--~p~SDID~lcv~P~~v~r------~edFF~~l~~~L~~ 129 (698)
++..|=--+|-. .=.||||++.+.|..-.. ..+||+.+.+.|-+
T Consensus 174 l~VlgMGKlGa~ELNysSDIDlIf~y~~~~~t~g~~~dn~~fFtRl~qrLIr 225 (963)
T COG1391 174 LLVLGMGKLGARELNYSSDIDLIFVYPESGPTQGGELDNAEFFTRLGQRLIR 225 (963)
T ss_pred eEEEeccccCccccccccccceEEEeCCCCCccCCccchHHHHHHHHHHHHH
Confidence 444443344444 456999999998765432 23699887776654
No 70
>PF15431 TMEM190: Transmembrane protein 190
Probab=20.64 E-value=62 Score=30.88 Aligned_cols=28 Identities=32% Similarity=0.723 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHcCCCCCC--CCccchH
Q 005391 210 FRTTLRCMRFWAKRRGVYSNV--AGFLGGI 237 (698)
Q Consensus 210 FR~llR~IK~WAK~RgIysn~--~G~LGG~ 237 (698)
|-....++=-|||+|++|.+. -|||.||
T Consensus 73 ~Li~~iclFWWAkRrd~~k~lh~P~fL~~~ 102 (134)
T PF15431_consen 73 LLICSICLFWWAKRRDMCKHLHMPRFLSGF 102 (134)
T ss_pred HHHHHHHHHHHHHHhchHhhccCchhhccC
Confidence 445677888999999998764 5666654
No 71
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=20.20 E-value=1.1e+02 Score=35.10 Aligned_cols=76 Identities=22% Similarity=0.472 Sum_probs=46.7
Q ss_pred HHHHHcCCCCCHHHHHHHHH---HHHHHHHHHHHHHHHHHhhcCCChhhhhccCcEEEEeeeeccCCCCCC---CCceEE
Q 005391 33 KYLRDVNLYESQEEAVSREE---VLGRLDQIVKIWVKKISRAKGLNDQLLQEANAKIFTFGSYRLGVHGPG---ADIDTL 106 (698)
Q Consensus 33 ~~L~~~~l~pSeEE~~~R~~---VL~~L~~ivk~wv~~v~~~~g~~e~~~~~~~~kI~~FGSy~lGv~~p~---SDID~l 106 (698)
+.|+.+++-+..+...-|.. ++..+..++++.+++ + +-....||||.+-+-.|. .|||++
T Consensus 128 ~~L~synv~~~~~kvmgrh~VSdLV~~V~klmeEyLrr----h----------Nk~CicYGSySlhllNp~I~YgDIDil 193 (467)
T PHA02996 128 DALNSYNVAVISEKVMGRHNVSDLVGNVNKLMEEYLRR----H----------NKSCICYGSYSLHLLNPEIEYGDIDIL 193 (467)
T ss_pred HHHHhccccCCCccccccccccHHHHHHHHHHHHHHHh----c----------CCceEEeeceeeeecCCccccCCccee
Confidence 56677776654455444554 455566666666654 2 345889999988777665 899965
Q ss_pred eecCCCCCchhhHHHHHHHHHh
Q 005391 107 CVGPRHATREEDFFGELHQMLT 128 (698)
Q Consensus 107 cv~P~~v~r~edFF~~l~~~L~ 128 (698)
=... ..|+--|+-+++
T Consensus 194 qTNa------r~fLInlaflI~ 209 (467)
T PHA02996 194 QTNS------RTFLINLAFLIK 209 (467)
T ss_pred eecc------HHHHHHHHHHHh
Confidence 3222 256655554444
Done!