Query 005665
Match_columns 684
No_of_seqs 328 out of 1656
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 11:53:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005665.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005665hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11623 pcnB poly(A) polymera 100.0 2.6E-66 5.7E-71 566.8 30.7 284 52-344 35-326 (472)
2 TIGR01942 pcnB poly(A) polymer 100.0 7.5E-65 1.6E-69 548.7 29.5 282 55-346 1-283 (410)
3 KOG2159 tRNA nucleotidyltransf 100.0 4.1E-58 9E-63 491.4 17.4 375 55-444 2-399 (416)
4 COG0617 PcnB tRNA nucleotidylt 100.0 2E-57 4.3E-62 491.2 20.5 232 63-304 2-234 (412)
5 TIGR02692 tRNA_CCA_actino tRNA 100.0 8.4E-55 1.8E-59 478.6 25.9 254 67-330 11-273 (466)
6 PRK13299 tRNA CCA-pyrophosphor 100.0 6.1E-54 1.3E-58 463.7 21.1 223 68-302 5-229 (394)
7 PRK10885 cca multifunctional t 100.0 9.4E-50 2E-54 433.0 22.6 233 84-330 1-242 (409)
8 PRK13298 tRNA CCA-pyrophosphor 100.0 1.5E-48 3.2E-53 423.1 26.5 232 84-329 1-242 (417)
9 PRK13297 tRNA CCA-pyrophosphor 100.0 3E-48 6.6E-53 413.9 25.7 212 80-305 8-223 (364)
10 PRK13296 tRNA CCA-pyrophosphor 100.0 1E-45 2.2E-50 392.5 20.4 203 84-305 1-212 (360)
11 cd05398 NT_ClassII-CCAase Nucl 100.0 9.5E-33 2.1E-37 260.3 13.6 132 70-211 2-139 (139)
12 PF01743 PolyA_pol: Poly A pol 100.0 1.3E-32 2.9E-37 254.8 11.4 122 86-215 1-126 (126)
13 PHA01806 hypothetical protein 99.9 4.2E-22 9.2E-27 196.1 10.9 112 60-195 12-151 (200)
14 PRK03381 PII uridylyl-transfer 99.6 3.8E-15 8.3E-20 174.2 13.5 143 209-355 313-458 (774)
15 PRK00227 glnD PII uridylyl-tra 99.6 1.6E-14 3.5E-19 166.8 17.8 140 209-354 275-417 (693)
16 TIGR01693 UTase_glnD [Protein- 99.6 5E-15 1.1E-19 174.6 13.4 122 209-332 319-445 (850)
17 PRK00275 glnD PII uridylyl-tra 99.6 4.5E-15 9.7E-20 175.9 12.4 133 199-333 339-478 (895)
18 PRK05092 PII uridylyl-transfer 99.5 3E-14 6.6E-19 169.6 12.0 120 209-332 384-510 (931)
19 PRK03059 PII uridylyl-transfer 99.5 4.8E-14 1E-18 166.6 12.5 125 207-333 327-458 (856)
20 PRK01759 glnD PII uridylyl-tra 99.4 1.4E-12 3E-17 154.3 12.0 122 208-333 325-454 (854)
21 PRK05007 PII uridylyl-transfer 99.3 6E-12 1.3E-16 149.5 12.7 123 209-333 350-479 (884)
22 PF12627 PolyA_pol_RNAbd: Prob 99.2 1.8E-11 3.9E-16 100.3 6.5 62 242-303 1-62 (64)
23 PRK04374 PII uridylyl-transfer 99.1 6.7E-10 1.5E-14 132.0 13.6 121 210-332 340-466 (869)
24 COG2844 GlnD UTP:GlnB (protein 98.9 2.1E-08 4.5E-13 116.5 13.8 147 210-359 337-503 (867)
25 cd07749 NT_Pol-beta-like_1 Nuc 92.2 0.63 1.4E-05 46.0 8.2 70 73-145 7-89 (156)
26 PF09970 DUF2204: Nucleotidyl 90.4 0.68 1.5E-05 46.4 6.5 41 72-112 5-47 (181)
27 PF10706 Aminoglyc_resit: Amin 84.8 2.1 4.6E-05 42.9 6.0 51 71-121 8-62 (174)
28 cd05397 NT_Pol-beta-like Nucle 72.7 4.4 9.5E-05 32.2 3.3 35 74-110 6-42 (49)
29 PF06042 DUF925: Bacterial pro 72.6 4.6 0.0001 40.3 4.1 113 76-217 1-134 (163)
30 cd05402 NT_PAP_TUTase Nucleoti 66.0 30 0.00066 31.1 7.7 63 82-146 18-98 (114)
31 COG3575 Uncharacterized protei 59.6 9.5 0.0002 38.8 3.4 42 69-110 14-64 (184)
32 PF08843 DUF1814: Nucleotidyl 55.4 14 0.0003 36.4 3.9 38 75-112 2-44 (233)
33 PF03458 UPF0126: UPF0126 doma 54.3 7 0.00015 34.3 1.4 16 88-103 39-54 (80)
34 PF14907 NTP_transf_5: Unchara 46.0 1.6E+02 0.0034 29.8 9.8 54 68-121 56-114 (249)
35 PF01909 NTP_transf_2: Nucleot 45.8 23 0.0005 30.2 3.3 34 74-110 6-39 (93)
36 COG2860 Predicted membrane pro 45.0 11 0.00024 39.1 1.3 15 88-102 44-58 (209)
37 COG4914 Predicted nucleotidylt 40.4 15 0.00033 36.9 1.4 40 71-110 9-50 (190)
38 PRK10578 hypothetical protein; 28.3 30 0.00066 35.8 1.4 15 88-102 41-55 (207)
39 TIGR01493 HAD-SF-IA-v2 Haloaci 23.0 2.9E+02 0.0063 26.1 7.0 24 189-213 1-24 (175)
40 COG1654 BirA Biotin operon rep 22.8 60 0.0013 28.9 2.0 29 59-91 27-55 (79)
41 TIGR03671 cca_archaeal CCA-add 22.6 1.5E+02 0.0033 33.9 5.6 62 84-146 41-117 (408)
42 PRK13300 tRNA CCA-pyrophosphor 21.8 2.3E+02 0.0051 32.7 6.9 74 72-146 24-119 (447)
No 1
>PRK11623 pcnB poly(A) polymerase I; Provisional
Probab=100.00 E-value=2.6e-66 Score=566.77 Aligned_cols=284 Identities=29% Similarity=0.468 Sum_probs=257.9
Q ss_pred CceeccccccCCccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccC
Q 005665 52 NWKTVDSRNLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFP 131 (684)
Q Consensus 52 ~~~~~~~~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~eei~k~F~~~~ivG~rF~ 131 (684)
+...++.++|||++.+||++++.|++.|+++||++|||||||||+|||++|+||||+|+|+|+++.+.|++|.++|++|+
T Consensus 35 ~~~~i~~~~H~i~~~~i~~~a~~Vl~~L~~~G~eaYLVGG~VRDlLLG~~pkD~DIaT~A~peev~~lf~~~r~iGrrF~ 114 (472)
T PRK11623 35 QMTVIPREQHAISRKDISENALKVLYRLNKAGYEAYLVGGGVRDLLLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFR 114 (472)
T ss_pred CceEeeccccCcCcccCCHHHHHHHHHHHHCCCeEEEeChHHHHHHcCCCCCCEEEecCCCHHHHHHHhhhCeeecCCCC
Confidence 34699999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEECCEEEEEeccccccccCCC--------CceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCc
Q 005665 132 ICRVHIKGSVIEVSSFETVAKHGEG--------KETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYA 203 (684)
Q Consensus 132 i~~V~~~G~~IEVatfRte~~~~~~--------~~~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~f 203 (684)
++||.+++..|||+|||++.+...+ .......++.+|++++|+ .||||||||||||+.++.|+|||
T Consensus 115 ~~hV~~~~~~iEVaTfR~~~~~~~~~~~~~~~~~~g~~~rdn~~gtieeDl------~RRDFTINALayd~~~~~IiD~~ 188 (472)
T PRK11623 115 LAHVMFGPEIIEVATFRGHHEGNESDRNTSQRGQNGMLLRDNIFGSIEEDA------QRRDFTINSLYYSVADFTVRDYV 188 (472)
T ss_pred EEEEEECCceEEEeccccccccccccccccccCCCCceecccCCCCHHHHH------HhccccHHHheecCCCCeEecCC
Confidence 9999999999999999987643321 122445566788999996 79999999999999889999999
Q ss_pred CcHHHHhcCceeecccccccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHH
Q 005665 204 NGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAES 283 (684)
Q Consensus 204 GGleDLk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~~~~~ 283 (684)
||++||++|+||+||+|..+|.|||+|||||+|||++|||+|+++|..+|++++.+|..+|++||+.|+.|||.++++..
T Consensus 189 gG~~DLk~riLR~IGdp~~rf~EDPlRmLRAvRFAArLgF~Ie~~T~~aI~~~a~lL~~vs~eRI~~El~KlL~~~~~~~ 268 (472)
T PRK11623 189 GGMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRLATLLNDIPPARLFEESLKLLQAGYGYE 268 (472)
T ss_pred CCHHHHhCCceeecCChHhhcccchHHHHHHHHHHHHhCCCcCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHcCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHcCCchhhhhhhhhhhhhhcCCCCCchhHHHHHHHHHHHHHHhCCCCCchhHHHH
Q 005665 284 SICLLRRYNLLKILLPFHAAYLDQQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLWVG 344 (684)
Q Consensus 284 aLrlL~e~GLL~~LfPe~a~~~~qq~~~h~~tvd~hll~lL~~Ld~ll~~~rp~~~slwla 344 (684)
++++|+++|+|..+||++..++...... ....++..++.++|.++..+.++++...++
T Consensus 269 ~~~lL~e~GLl~~lfPel~~~~~~~~~~---~~~~~~~~~l~~tD~ri~~~~~v~p~fl~a 326 (472)
T PRK11623 269 TYKLLCEYHLFQPLFPTITRYFTENGDS---PMERIIEQVLKNTDTRIHNDMRVNPAFLFA 326 (472)
T ss_pred HHHHHHHcCCHHHHhHhHHHHhcccccc---HHHHHHHHHHHHHHHHHhCCCCCCHHHHHH
Confidence 9999999999999999999877543221 234678899999999999999988754333
No 2
>TIGR01942 pcnB poly(A) polymerase. This model describes the pcnB family of poly(A) polymerases (also known as plasmid copy number protein). These enzymes sequentially add adenosine nucleotides to the 3' end of RNAs, targeting them for degradation by the cell. This was originally described for anti-sense RNAs, but was later demonstrated for mRNAs as well. Members of this family are as yet limited to the gamma- and beta-proteobacteria, with putative members in the Chlamydiacae and spirochetes. This family has homology to tRNA nucleotidyltransferase (cca).
Probab=100.00 E-value=7.5e-65 Score=548.68 Aligned_cols=282 Identities=31% Similarity=0.498 Sum_probs=253.0
Q ss_pred eccccccCCccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccCeEE
Q 005665 55 TVDSRNLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFPICR 134 (684)
Q Consensus 55 ~~~~~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~eei~k~F~~~~ivG~rF~i~~ 134 (684)
++++++|||++++||+.+..|++.|+++||++|||||||||+|||++|+||||+|+++|+++++.|+++.++|++|++++
T Consensus 1 ~~~~~~h~i~r~~i~~~a~~Vl~~L~~~G~~aYlVGG~VRDlLLG~~pkD~DIat~a~peei~~lf~~~~~iG~rf~~~~ 80 (410)
T TIGR01942 1 VIPESEHNIPRQSFSAHALNVVERLKGAGYQAYIVGGAVRDLLLGIEPKDFDVVTSATPEEVRKLFRNSRIVGRRFRLVH 80 (410)
T ss_pred CcchHhCCcChHHCCHHHHHHHHHHHHCCCcEEEECHHHHHHHcCCCCCCEEEEcCCCHHHHHHHhhhCeecCCCCCEEE
Confidence 36788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEECCEEEEEeccccccccCCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCce
Q 005665 135 VHIKGSVIEVSSFETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKL 214 (684)
Q Consensus 135 V~~~G~~IEVatfRte~~~~~~~~~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~I 214 (684)
|.+++..|||+|||++.+...........++.+|++++|+ .||||||||||||+.+++|+||+||++||++|+|
T Consensus 81 v~~~~~~iEvatfR~~~~~~~~~~g~~~~d~~~gtieeDl------~RRDFTINALayd~~~~~IiD~~gG~~DL~~~~L 154 (410)
T TIGR01942 81 VSFGRQIIEVATFRSGHKSSVNAEGRILKDNVYGTLEEDA------WRRDFTVNALYYDPSREVIIDYVGGMEDLKNRRL 154 (410)
T ss_pred EEECCEEEEEecccccccCCCCCCCCcccccccCCHHHHh------hcCCchhhheeecCCCCeeeCCCCcHHHHHCCce
Confidence 9999999999999997543222222334455678999996 7999999999999999999999999999999999
Q ss_pred eecccccccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCc
Q 005665 215 RTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLL 294 (684)
Q Consensus 215 R~v~~p~~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL 294 (684)
|++++|..+|.|||+|||||+|||++|||.|+++|..+|++++..|..+|++||+.|+.|||.++++..++++|.++|+|
T Consensus 155 R~igdp~~rf~EDPlRiLRAvRFaa~LgF~Ie~~T~~~I~~~a~~L~~vs~eRI~~El~Kll~~~~~~~~l~~L~~~gll 234 (410)
T TIGR01942 155 RLIGDPRSRYQEDPVRMLRALRFSVKLEFTIDESTARPIRESAPLLKGIPPARLFEEILKLLFSGRSAALFRMLCGYQLL 234 (410)
T ss_pred eecCChhhcccccHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhhhhhhhcCCCCCchhHHHHHHHHH-HHHHHhCCCCCchhHHHHHH
Q 005665 295 KILLPFHAAYLDQQAGKITAENPMMLMRLFFN-LDKLVSCDRPADYTLWVGLL 346 (684)
Q Consensus 295 ~~LfPe~a~~~~qq~~~h~~tvd~hll~lL~~-Ld~ll~~~rp~~~slwlalL 346 (684)
..+||++...+..... ....++..++.+ +|.++..++++.+..+++++
T Consensus 235 ~~lfPel~~~l~~~~~----~~~~~~~~~l~~~~d~r~~~~~~v~p~fl~a~l 283 (410)
T TIGR01942 235 EPLFPSVAYALRESPK----FESAFTVQALVNDTDFRVKRDKPVTPAFLYAAL 283 (410)
T ss_pred HHHhHhHHHHHhcCCc----hHHHHHHHHHHhhhHHHHhCCCCCCHHHHHHHH
Confidence 9999998865543211 123467777888 99999999999876555543
No 3
>KOG2159 consensus tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.1e-58 Score=491.44 Aligned_cols=375 Identities=31% Similarity=0.456 Sum_probs=297.6
Q ss_pred eccccccCCccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcc-cccccCeE
Q 005665 55 TVDSRNLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEI-IGRRFPIC 133 (684)
Q Consensus 55 ~~~~~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~eei~k~F~~~~i-vG~rF~i~ 133 (684)
+++..++| .+++++....|+..+++.|+++|||||||||+|||++|+|+||+|+|.+.++++.|..+.+ +|.+|+.|
T Consensus 2 k~~~~e~~--~s~~~~~~~~v~~~~~~~~~elRiaGGwVRD~LLg~~p~DiDiatta~~g~~~e~f~~~~~~~~~~~~~~ 79 (416)
T KOG2159|consen 2 KLDSEEFG--TSLLTDSTRLVLSKLKKKGYELRLAGGWVRDLLLGREPKDIDIATTAMSGQMKEMFQSAQIRVGKKFPIC 79 (416)
T ss_pred CccHHHHH--HHhccHHHHHHHHHhhcCCCeeEEecccHHHHHcCCCCcccceeeccccHHHHHHHHHHHHhhcccCCcc
Confidence 45666776 7899999999999999999999999999999999999999999999999999999998877 99999999
Q ss_pred EEEECCE---------------EEEEeccccccccCCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCe
Q 005665 134 RVHIKGS---------------VIEVSSFETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNK 198 (684)
Q Consensus 134 ~V~~~G~---------------~IEVatfRte~~~~~~~~~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~ 198 (684)
|+..+.. .||+.+.|.+.|.... +....|..+|.||+|||||||||+||+++|+
T Consensus 80 h~~~np~~skhletat~~i~~~~iD~v~lr~~~y~e~~-----------~~~~~dgt~~~nalRRD~TIN~Lffn~~~~~ 148 (416)
T KOG2159|consen 80 HVIMGPIKSKHLETATFRITTLRIDFVNLRREAYTETS-----------IPYVTDGTRDENALRRDFTINSLFFNPFDGT 148 (416)
T ss_pred eeecCCcceeeecceeeeeeccccceeecCcccccccC-----------CCCCCcCcchhhhhhhccchhhhhccCCCCc
Confidence 9776543 2333333333322110 1123455567778999999999999999999
Q ss_pred EeeCcCcHHHHhcCceeecccccccccccHHHHHHHHHHHHHhCCCC---cHHHHHHHHHhhhhccCCCHHHHHHHHHHH
Q 005665 199 IYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSF---CKDIDTAMHSLSSSIERLDKSRIMMELNYM 275 (684)
Q Consensus 199 IiD~fGGleDLk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLGF~I---dpeT~~aIr~~a~lL~~Is~eRI~~EL~Ki 275 (684)
|+||+||++||++++||||++|.++|.|||+||||+||||+|+||+| +++|+.+++.++.++.+||+|||+.|+.||
T Consensus 149 VeDytgG~eDL~~~kvrt~~~A~~tf~eDpLRILR~iRFaaRlgftid~~~~e~~~~~k~~~~~~~kIS~ERI~~Ei~km 228 (416)
T KOG2159|consen 149 VEDYTGGLEDLKNKKVRTVLHAKQTFLEDPLRILRGIRFAARLGFTIDEESKETLEAIKENVALLAKISRERIGVEINKM 228 (416)
T ss_pred eeeccccHhHHhcCeEEeeccccceeccchHHHHHHHHHHHhhcCccCcccHHHHhhHHHHHHHhccccHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999 788888889999999999999999999999
Q ss_pred HhCCCHHHHHHHHHH-cCCchhhhhhhhhhhhhhcCCCCCchhHHHHHHHHHHHHHHhCCCCCchhHHHHHHHHHHHhhc
Q 005665 276 LSYGAAESSICLLRR-YNLLKILLPFHAAYLDQQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLWVGLLSFHQALVS 354 (684)
Q Consensus 276 L~~~~~~~aLrlL~e-~GLL~~LfPe~a~~~~qq~~~h~~tvd~hll~lL~~Ld~ll~~~rp~~~slwlalLafh~aLv~ 354 (684)
|.++.+..+|++|++ .|+...++|..+.+..-+.......-..+.+.++.+++.....+.+|+..+|++.+++|..+..
T Consensus 229 L~g~~~~~~L~ll~~~~~~~~i~lp~~~s~~~f~~~~~~~~~s~~~~sl~~~l~~~~~~~~~~~~~l~l~~~~~~~~~~~ 308 (416)
T KOG2159|consen 229 LVGNSAEASLRLLWRLFGFEYIFLPIEASLEEFQGFNRRDGFSNEPLSLLANLDKSLAPDEPCHLRLKLSILELLKKFID 308 (416)
T ss_pred HcCCcHHHHHHHHHHhcCceEEeccchhhhhhccccccccccchhHHHHHhcccccccccchhhhhHHHHHHhhhhHhhc
Confidence 999999999999999 7888888997776544222211222234778889999999999999999999999999999999
Q ss_pred CchhHHHHHHHHHhcccCchhhhhHHhHhhcCCCCCCcccccccccCCchHH--HHHHHHHHHHHHHHhhhccce-eeec
Q 005665 355 DPQDAFVVWVFASVLYHGKWKEGVKFARDRAKEPVKFVPEISGFSEIESDEQ--LAVKVTELALSVQDCVNDLTK-VFVS 431 (684)
Q Consensus 355 ~p~da~v~w~laall~~g~w~e~v~~~r~~~k~~~~~~~el~~~~~~k~~~k--l~~~v~~la~~vk~~~~~mt~-vf~~ 431 (684)
+|..+.+.|+.+.+.+.. .+.+...+.+.+.+.....+++.++.-...++ +-..+..+.+++.+++..++. -++.
T Consensus 309 ~~r~~~v~~~~~~~~~~~--~~~~~i~~~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 386 (416)
T KOG2159|consen 309 QPRFPTVPAVSSSAPLSK--LQDVEIPKKIEKDHDRLRQLLVSQEKNELDNETLLDWSVPDFPISINDLAIEGTSKGSII 386 (416)
T ss_pred cccccceeeeecccchhh--hhhhhcccccccchHHHHHHhcchHhhhhHHHHHhhhccCchHHHHHHHHHhhcccchhH
Confidence 999999998876666433 34455555555666666666666554223222 222356788888888888882 3444
Q ss_pred HHHHHHHHHHHHH
Q 005665 432 KKIERNVQQIFDV 444 (684)
Q Consensus 432 ~~~~~~~~~~~~~ 444 (684)
..+.......++.
T Consensus 387 g~llr~l~~~w~~ 399 (416)
T KOG2159|consen 387 GALLRYLQAPWSD 399 (416)
T ss_pred HHHHHhhhhhHHH
Confidence 4544444444433
No 4
>COG0617 PcnB tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-57 Score=491.22 Aligned_cols=232 Identities=36% Similarity=0.525 Sum_probs=216.7
Q ss_pred CccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccCeEEEEECCEEE
Q 005665 63 ITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFPICRVHIKGSVI 142 (684)
Q Consensus 63 I~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~eei~k~F~~~~ivG~rF~i~~V~~~G~~I 142 (684)
+....+++.+..|+..|+++|+++|||||||||+|||++|+|+||+|++.|+++.+.|+++..+|++|+++++.++|..+
T Consensus 2 ~~~~~~~~~~~~v~~~l~~~g~eaylVGGaVRD~LLG~~~~D~Diat~~~p~~~~~~~~~~~~~G~~f~t~~v~~~~~~~ 81 (412)
T COG0617 2 IMLKDLSPNALKVLSKLKEAGYEAYLVGGAVRDLLLGRPPKDVDIATNATPEEVKKLFRNTRPVGRKFGTVTVPFNGEII 81 (412)
T ss_pred CChhhhhHHHHHHHHHHHhCCCeEEEeCcHHHHHHcCCCCcceeeeCCCCCHHHHHHHhhhhhhhhhcCeEEeccCCEEE
Confidence 55667889999999999999999999999999999999999999999999999999999999999999999999988999
Q ss_pred EEeccccccc-cCCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccc
Q 005665 143 EVSSFETVAK-HGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAY 221 (684)
Q Consensus 143 EVatfRte~~-~~~~~~~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~IR~v~~p~ 221 (684)
||+|||++.+ ....... ...++++++|+ .||||||||||||+.+|+|+|||||+.||++|+||+|++|.
T Consensus 82 ev~T~R~~~~~~~~~~~~----~~~~~tleeDl------~RRDFTINAla~~~~~~~iiD~~gG~~DL~~~~lR~i~~~~ 151 (412)
T COG0617 82 EVTTFRKEGYGYNGRPLP----VVFPGTLEEDL------KRRDFTINALAYDPEDGEIIDPFGGLKDLENRVLRHIGDAS 151 (412)
T ss_pred EEEEeecCCCCcCCCcCC----cCCCCCHHHHH------HHhcccHHhhccCCCCCeEEeCCCCHHHHhcCceeccCCHH
Confidence 9999999875 3222222 23467889996 79999999999999999999999999999999999999999
Q ss_pred ccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhh
Q 005665 222 LSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFH 301 (684)
Q Consensus 222 ~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~LfPe~ 301 (684)
++|.|||+|||||+|||++|||.|++.|..+|+.....+..+|+||++.|+.|||.++++..++++|+++|++..+||++
T Consensus 152 ~rf~EDplRiLRa~RFaa~l~f~i~~~t~~~i~~~~~~~~~is~ERi~~El~KlL~~~~~~~~l~~l~~~g~l~~l~p~~ 231 (412)
T COG0617 152 ERFREDPLRILRAARFAARLGFTIEPETEEAIRLMAPLLAKISRERLWDELKKLLLSPNPREALQLLREYGALKILFPEL 231 (412)
T ss_pred HhcccchHHHHHHHHHHHHcCCCCChhHHHHHHHHHHHhhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCChhhcChhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhh
Q 005665 302 AAY 304 (684)
Q Consensus 302 a~~ 304 (684)
...
T Consensus 232 ~~~ 234 (412)
T COG0617 232 DKL 234 (412)
T ss_pred HHh
Confidence 763
No 5
>TIGR02692 tRNA_CCA_actino tRNA adenylyltransferase. The enzyme tRNA adenylyltransferase, also called tRNA-nucleotidyltransferase and CCA-adding enzyme, can add or repair the required CCA triplet at the 3'-end of tRNA molecules. Genes encoding tRNA include the CCA tail in some but not all bacteria, and this enzyme may be required for viability. Members of this family represent a distinct clade within the larger family pfam01743 (tRNA nucleotidyltransferase/poly(A) polymerase family protein). The example from Streptomyces coelicolor was shown to act as a CCA-adding enzyme and not as a poly(A) polymerase.
Probab=100.00 E-value=8.4e-55 Score=478.55 Aligned_cols=254 Identities=25% Similarity=0.310 Sum_probs=228.4
Q ss_pred CCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhcc----CcccccccCeEEEEECCEEE
Q 005665 67 MIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHR----SEIIGRRFPICRVHIKGSVI 142 (684)
Q Consensus 67 ~ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~eei~k~F~~----~~ivG~rF~i~~V~~~G~~I 142 (684)
..++.+..|++.|.++|+++|+|||||||+|||++|+|+||+|+++|+++.+.|+. ...+|..|++++|..+|..|
T Consensus 11 ~~~~~~~~i~~~l~~~g~~~y~VGG~VRD~llg~~~~D~Di~~~~~~~~~~~~~~~~~~~~~~~g~~~g~~~v~~~~~~~ 90 (466)
T TIGR02692 11 ELSPLLAPLAAAFAAAGHELYLVGGSVRDALLGRLGHDLDFTTDARPEETLAILRPWADAVWDTGIAFGTVGAEKDGQQI 90 (466)
T ss_pred hccHHHHHHHHHHHhCCCEEEEeCcHHHHHHcCCCCCCEEEEeCCCHHHHHHHHHHhhhhccccCcccceEEEEECCcEE
Confidence 34678889999999999999999999999999999999999999999999999863 45679999999999999999
Q ss_pred EEeccccccccCCCC-ceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCC---eEeeCcCcHHHHhcCceeecc
Q 005665 143 EVSSFETVAKHGEGK-ETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLN---KIYDYANGISDLRCLKLRTLI 218 (684)
Q Consensus 143 EVatfRte~~~~~~~-~~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g---~IiD~fGGleDLk~~~IR~v~ 218 (684)
||++||++.|..++. +.|.+ .+++++|| .||||||||||||+.++ .|+|||||++||++|+||+|+
T Consensus 91 ei~~~r~e~~~~~~~~~~v~~----~~~i~~Dl------~rRDFTiNA~a~~~~~~~~g~l~D~~~G~~Dl~~~~ir~v~ 160 (466)
T TIGR02692 91 EITTFRSDSYDGTSRKPEVTF----GDTLEGDL------IRRDFTVNAMAVRIPADGSLEFHDPVGGLDDLLAKVLDTPA 160 (466)
T ss_pred EEEecccccCcCCCCCCcccC----CCCHHHHH------HhccccHHHhhccccCCCCceeecCCCcHHHHhCCceEecC
Confidence 999999988765443 33333 23678887 79999999999998754 899999999999999999999
Q ss_pred cccccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhh
Q 005665 219 PAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILL 298 (684)
Q Consensus 219 ~p~~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~Lf 298 (684)
+|..+|.|||+|||||+|||+++||.|+++|..+|+..+..+..++.+|++.|+.+||.++++..+++.|+++|+|..+|
T Consensus 161 ~~~~~f~eDPlRiLRa~Rfaa~lgf~i~~~T~~~i~~~~~~l~~i~~eRi~~E~~kil~~~~~~~~l~~l~~~glL~~~~ 240 (466)
T TIGR02692 161 TPEQSFGDDPLRMLRAARFVSQLGFEVAPRVRAAMTEMADQIERISAERVRVELDKLLLGDHPRAGIDLMVETGLADRVL 240 (466)
T ss_pred ChHHhhhhChHHHHHHHHHHHHhCCCcCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCcHHHHHHHHhhhhhhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhh-hhcCCCCCchhHHHHHHHHHHHHH
Q 005665 299 PFHAAYLD-QQAGKITAENPMMLMRLFFNLDKL 330 (684)
Q Consensus 299 Pe~a~~~~-qq~~~h~~tvd~hll~lL~~Ld~l 330 (684)
|++..... +...+|.++++.|++.++..+..+
T Consensus 241 Pe~~~~~~~~~~~~h~~~v~~Htl~vl~~~~~l 273 (466)
T TIGR02692 241 PEIPALRLEIDEHHQHKDVYEHSLTVLRQAIDL 273 (466)
T ss_pred chHHHHhcccccCCCCCcHHHHHHHHHHHHHhc
Confidence 99986543 444678899999999998887654
No 6
>PRK13299 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=6.1e-54 Score=463.73 Aligned_cols=223 Identities=30% Similarity=0.411 Sum_probs=204.6
Q ss_pred CChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccCeEEEEECCEEEEEecc
Q 005665 68 IPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFPICRVHIKGSVIEVSSF 147 (684)
Q Consensus 68 ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~eei~k~F~~~~ivG~rF~i~~V~~~G~~IEVatf 147 (684)
.+..+..|++.|+++|+++|+|||||||+|||++|+|+||+|++.|+++++.|++...+|.+|++++|..+|..|||+||
T Consensus 5 ~~~~~~~i~~~l~~~g~~~ylVGG~VRD~LLg~~~~DiDi~~~~~~~~~~~~~~~~~~~g~~~gt~~v~~~~~~~ei~t~ 84 (394)
T PRK13299 5 EFQKALPILEKIKEAGFEAYFVGGSVRDYLLGRPIHDVDIATSAYPEEVKAIFPRTVDVGIEHGTVLVLENGEEYEVTTF 84 (394)
T ss_pred HHHHHHHHHHHHHHcCCeEeeccchHHHHHcCCCCCCEEEecCCCHHHHHHHhhhhhhccccCCEEEEEECCEEEEEEee
Confidence 44678899999999999999999999999999999999999999999999999887778999999999999999999999
Q ss_pred cccccc--CCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccccccc
Q 005665 148 ETVAKH--GEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFT 225 (684)
Q Consensus 148 Rte~~~--~~~~~~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~IR~v~~p~~rF~ 225 (684)
|++... ...+..+.+. +++++|| .||||||||||||+ +|.|+|||||++||++|+||++++|..+|.
T Consensus 85 R~e~~~~d~~~p~~~~~~----~~i~eDl------~RRDFTINAma~~~-~g~liDpf~G~~DL~~~~iR~v~~~~~~f~ 153 (394)
T PRK13299 85 RTESEYVDYRRPSEVTFV----RSLEEDL------KRRDFTINAIAMDE-NGEIIDLFDGLEDLKNRLIRAVGNAEERFQ 153 (394)
T ss_pred ccccCccCCCCCccccCC----CCHHHHH------HhccccHHHhhcCC-CCCEeeCCCCHHHHhCCceeecCCHHHhhc
Confidence 997322 2223334432 4678886 79999999999998 488999999999999999999999989999
Q ss_pred ccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhh
Q 005665 226 EDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHA 302 (684)
Q Consensus 226 EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~LfPe~a 302 (684)
|||+|||||+|||++|||+|+++|..+|++++..+..+|+|||+.|+.+||.++++..++++|.++|++.. +|++.
T Consensus 154 eDplRiLRa~Rfaa~l~f~i~~~t~~~i~~~~~~l~~vs~eRI~~El~kll~~~~~~~~l~~l~~~gll~~-~p~l~ 229 (394)
T PRK13299 154 EDALRMMRAVRFASQLGFDLETETFEAMKTQAPLLEKISVERIFVEFEKLLLGPFWRKGLKLLIETGLYNY-LPGLK 229 (394)
T ss_pred cCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHCChHHh-Ccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998 89765
No 7
>PRK10885 cca multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed
Probab=100.00 E-value=9.4e-50 Score=433.00 Aligned_cols=233 Identities=29% Similarity=0.353 Sum_probs=200.7
Q ss_pred CcEEEEchhHHHHHhCCCCCCeEEEe-CCCHHHHHHHhccCcccccccCeEEEEECCEEEEEeccccccccCCCCceeee
Q 005665 84 FQAYLVGGCVRDLLLRRVPKDFDVIT-TANLKQIRRQFHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKETVLL 162 (684)
Q Consensus 84 ~eaYLVGG~VRDlLLGr~PkD~DIvT-~a~~eei~k~F~~~~ivG~rF~i~~V~~~G~~IEVatfRte~~~~~~~~~v~~ 162 (684)
+++|+|||||||+|||++|+|+||+| .++|+++.+. ....+|+.|+++.. .+..+|++++|++.+.+.+...+.+
T Consensus 1 ~~~ylVGG~VRD~Llg~~~~D~D~vv~~~~~~~~~~~--~~~~~g~~f~v~~~--~~~~~e~~~~r~er~~~~g~~~~~~ 76 (409)
T PRK10885 1 MKIYLVGGAVRDALLGLPVKDRDWVVVGATPEEMLAQ--GYQQVGKDFPVFLH--PKTHEEYALARTERKSGRGYTGFTC 76 (409)
T ss_pred CcEEEeccHHHHHHcCCCCCCeeEEeeCChHHHHHhC--CCeecCceeEEEEe--CCceEEEEeeeeccccCCCCCCcee
Confidence 57999999999999999999999865 5688887664 33458999998754 3566899999999877666544443
Q ss_pred cCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeecccccccccccHHHHHHHHHHHHHh-
Q 005665 163 SQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL- 241 (684)
Q Consensus 163 s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~IR~v~~p~~rF~EDPlRILRAiRFAARL- 241 (684)
...+..++++|| .||||||||||||+ +|.|||||||++||++|+||+|++ +|.|||+||||++|||+||
T Consensus 77 ~~~~~~~l~eDl------~RRDfTiNA~a~~~-~~~liDp~~G~~Dl~~~~lr~v~~---~f~eDPlRiLRa~RFaarl~ 146 (409)
T PRK10885 77 YAAPDVTLEEDL------IRRDLTINAMAQDD-DGELIDPYGGQRDLEARLLRHVSP---AFAEDPLRVLRVARFAARFA 146 (409)
T ss_pred ccCCCCCHHHHH------HhccchhhhheeCC-CCCEecCCCCHHHHhCCceEeCCc---hhhhCHHHHHHHHHHHHHhc
Confidence 334556889997 79999999999995 589999999999999999999986 5999999999999999999
Q ss_pred --CCCCcHHHHHHHHHhhh--hccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhhh--hhcCCCC-C
Q 005665 242 --GLSFCKDIDTAMHSLSS--SIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYLD--QQAGKIT-A 314 (684)
Q Consensus 242 --GF~IdpeT~~aIr~~a~--lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~LfPe~a~~~~--qq~~~h~-~ 314 (684)
||+|+++|+.+|++.+. .+..+++|||+.|+.++|.++++..+++.|+++|+|..+||++....+ |...+|. +
T Consensus 147 ~lgf~i~~~T~~~i~~~~~~~~L~~~~~ERi~~El~kiL~~~~p~~~l~~L~~~g~L~~l~PEl~~l~~~~Q~~~~H~e~ 226 (409)
T PRK10885 147 HLGFRIAPETLALMREMVASGELDALTPERVWKETERALMERNPQVFFQVLRDCGALAVLLPEIDALFGVPQPAKWHPEI 226 (409)
T ss_pred cCCCCcCHHHHHHHHHhhhhchhhhCCHHHHHHHHHHHHcCCCHHHHHHHHHHhhHHHHHhhHHHHHhcCCCCcCCCCCC
Confidence 99999999999999876 888899999999999999999999999999999999999999998766 3334554 6
Q ss_pred chhHHHHHHHHHHHHH
Q 005665 315 ENPMMLMRLFFNLDKL 330 (684)
Q Consensus 315 tvd~hll~lL~~Ld~l 330 (684)
+++.|++.++..+..+
T Consensus 227 dv~~Htl~~l~~~~~l 242 (409)
T PRK10885 227 DTGIHTLMVLDQAAKL 242 (409)
T ss_pred cHHHHHHHHHHHHHhc
Confidence 8899999988776653
No 8
>PRK13298 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=1.5e-48 Score=423.13 Aligned_cols=232 Identities=27% Similarity=0.269 Sum_probs=193.5
Q ss_pred CcEEEEchhHHHHHhCCCCCCeEEEeCC-CHHHHHHHhccCcccccccCeEEEEECCEEEEEeccccccccCCCCceeee
Q 005665 84 FQAYLVGGCVRDLLLRRVPKDFDVITTA-NLKQIRRQFHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKETVLL 162 (684)
Q Consensus 84 ~eaYLVGG~VRDlLLGr~PkD~DIvT~a-~~eei~k~F~~~~ivG~rF~i~~V~~~G~~IEVatfRte~~~~~~~~~v~~ 162 (684)
+++|+|||||||+|||++|+|+|++|++ +|+++.+. ....+|+.|+++.+ .+...|++++|++.+.+.+.....+
T Consensus 1 m~~YlVGGaVRD~LLg~~~~D~D~vv~g~~~~~~~~~--~~~~vG~~f~v~l~--~~~~~e~a~aRter~~g~g~~g~~~ 76 (417)
T PRK13298 1 MKIYLVGGAVRDSLLNLPVKDKDWVVVGGTPKILLSI--NFQQVGKDFPVFLH--PETHEEYALARTERKSGVGYTGFIT 76 (417)
T ss_pred CcEEEEccHHHHHHcCCCCCCeeEEecCCCHHHHHHH--HHHHhCCeeEEEEe--CceeEEEEeecccccccCCCCCccc
Confidence 5799999999999999999999998866 58877542 12237999998775 4456899999999876665443333
Q ss_pred cCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeecccccccccccHHHHHHHHHHHHHh-
Q 005665 163 SQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL- 241 (684)
Q Consensus 163 s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~IR~v~~p~~rF~EDPlRILRAiRFAARL- 241 (684)
...+..++++|| .||||||||||||+. |.|||||||++||++|+||+|++ +|.|||+|||||+|||+||
T Consensus 77 ~~~~~~tleeDL------~RRDFTINAmA~~~~-g~liDp~~G~~DL~~r~lR~v~~---~F~EDPLRiLRa~RFaar~~ 146 (417)
T PRK13298 77 DTSSDVTLEEDL------IRRDLTINAIAQDEN-GNYIDPFQGKKDIQLRLLRHVSE---SFIEDPLRVLRVARFAALLV 146 (417)
T ss_pred ccCCCCCHHHHH------HhcccceeeeEECCC-CCEEeCCCcHHHHHCCcEecCCc---ccccCHHHHHHHHHHHHHhc
Confidence 333446889997 799999999999985 78999999999999999999984 7999999999999999995
Q ss_pred --CCCCcHHHHHHHHHhh--hhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhhhh-hc---CCCC
Q 005665 242 --GLSFCKDIDTAMHSLS--SSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYLDQ-QA---GKIT 313 (684)
Q Consensus 242 --GF~IdpeT~~aIr~~a--~lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~LfPe~a~~~~q-q~---~~h~ 313 (684)
||+|+++|..+|++.+ ..|..+|+|||+.|+.|+|.+++|..+++.|.++|+|..+||++....+. +. ..|.
T Consensus 147 ~lgF~i~~~T~~~i~~~~~~~~l~~~s~ERI~~El~k~L~~~~p~~~~~~L~~~g~L~~~~PEl~~~~g~~q~~~~~~~~ 226 (417)
T PRK13298 147 HLGFKIAKETMILMCIMVKKHELLYLTPERIWNETEKALKTDNPHVYFQVLYECNALKFLFPEIDFLYEKPYFLNSFFKK 226 (417)
T ss_pred cCCCccCHHHHHHHHHHhhhhhhhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCHHHhCcchHHHcCCCCCccccCCc
Confidence 9999999999999987 78999999999999999999999999999999999999999999876552 21 2444
Q ss_pred CchhHHHHHHHHHHHH
Q 005665 314 AENPMMLMRLFFNLDK 329 (684)
Q Consensus 314 ~tvd~hll~lL~~Ld~ 329 (684)
.++..|++.++.....
T Consensus 227 ~d~~~htl~~l~~~~~ 242 (417)
T PRK13298 227 FNLGNYILMGLSKISK 242 (417)
T ss_pred hhHHHHHHHHHHHHHh
Confidence 4566677766665543
No 9
>PRK13297 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=3e-48 Score=413.90 Aligned_cols=212 Identities=28% Similarity=0.324 Sum_probs=186.7
Q ss_pred HHCCCcEEEEchhHHHHHhCCCCCCeEEEe-CCCHHHHHHHhccCcccccccCeEEEEECCEEEEEeccccccccCCCCc
Q 005665 80 KSQGFQAYLVGGCVRDLLLRRVPKDFDVIT-TANLKQIRRQFHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKE 158 (684)
Q Consensus 80 ~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT-~a~~eei~k~F~~~~ivG~rF~i~~V~~~G~~IEVatfRte~~~~~~~~ 158 (684)
..+|+++|+|||||||+|||++|+|+|+++ .++|+++.+. ....+|+.|+++.. .+..+|++++|++.+.+.+..
T Consensus 8 ~~~G~~~YlVGGaVRD~LLg~~~~D~D~vv~ga~pe~l~~~--~~~~vG~~f~v~l~--~~~~~e~a~aRterk~g~g~~ 83 (364)
T PRK13297 8 GVAGLQVYIVGGAVRDALLGLPAGDRDWVVVGATPEDMARR--GFIPVGGDFPVFLH--PRTKEEYALARTERKSGRGYK 83 (364)
T ss_pred hhCCCEEEEeCcHHHHHHcCCCCCCeeeeccCChHHHHHhc--CceeeCCEEEEEEe--CCceEEEEEEEEeeccCCCCc
Confidence 357999999999999999999999999865 5679999874 34457988886532 456689999999988877766
Q ss_pred eeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeecccccccccccHHHHHHHHHHH
Q 005665 159 TVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIA 238 (684)
Q Consensus 159 ~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~IR~v~~p~~rF~EDPlRILRAiRFA 238 (684)
.+.+...+..++++|| .||||||||||||+. |.|||||||++||++|+||+|++ +|.|||+||||++|||
T Consensus 84 ~f~~~~~~~~tLeeDL------~RRDFTINAmA~~~~-g~liDpfgG~~DL~~riLR~v~~---~F~EDPLRILRa~RFa 153 (364)
T PRK13297 84 GFTFYTGADVTLEQDL------QRRDLTVNAIARTPQ-GELVDPLDGVADVRARVLRHVGE---AFAEDPVRILRLGRFA 153 (364)
T ss_pred eeEEeCCCCCCHHHHH------HhccceeeeeEECCC-CCEEECCCCHHHHhCCCeeeCcc---ccccCHHHHHHHHHHH
Confidence 6666555556888887 799999999999974 88999999999999999999984 7999999999999999
Q ss_pred HHhC-CCCcHHHHHHHHHhhh--hccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhh
Q 005665 239 ARLG-LSFCKDIDTAMHSLSS--SIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYL 305 (684)
Q Consensus 239 ARLG-F~IdpeT~~aIr~~a~--lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~LfPe~a~~~ 305 (684)
+||| |+|+++|..+|++.+. .+..+++|||+.|+.|+|.++++..+|++|.++|+|..+||++....
T Consensus 154 arlg~F~i~~eT~~~~~~~~~~~~l~~l~~ERI~~El~k~L~~~~p~~~l~~L~~~g~L~~l~Pel~~~~ 223 (364)
T PRK13297 154 ARFGDFSIAPETMQLCRRMVEAGEADALVPERVWKEVSRGLMAQAPSRMLDVLARAGALARVMPELHDDA 223 (364)
T ss_pred HHhCCCCCCHHHHHHHHHHhhhcccccCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCHHHhCccccccc
Confidence 9997 9999999999999875 68999999999999999999999999999999999999999987644
No 10
>PRK13296 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=1e-45 Score=392.53 Aligned_cols=203 Identities=31% Similarity=0.424 Sum_probs=172.6
Q ss_pred CcEEEEchhHHHHHhCCCCCCeEEEeCCCH-HHHHH-HhccCcccccccCeEEEEECCEEEEEeccccccccCCCCc--e
Q 005665 84 FQAYLVGGCVRDLLLRRVPKDFDVITTANL-KQIRR-QFHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKE--T 159 (684)
Q Consensus 84 ~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~-eei~k-~F~~~~ivG~rF~i~~V~~~G~~IEVatfRte~~~~~~~~--~ 159 (684)
+++|+|||||||+|||++|+|+||++++.+ +++.. .|. .+|..|+++. .++..+||+++|++.+..++.. .
T Consensus 1 m~vYLVGGaVRD~LLgr~p~DiDivV~g~~~~~~l~~~~~---~vg~~f~V~~--~~~~~~Eiat~R~E~~~~~g~~~~~ 75 (360)
T PRK13296 1 MKFYLVGGAVRDMLLGITPKDKDWVVVGATEDEMLANGFI---KIAANFPVFI--HPQTKQEYALARSEKKTASGYHGFE 75 (360)
T ss_pred CcEEEeccHHHHHHcCCCCCCeeEEecCCcHHHHHHhhhh---hcCCceEEEE--ECCeeEEEeeccccccccCCCCCCe
Confidence 479999999999999999999999877654 44432 343 3577777653 2677899999999987766543 4
Q ss_pred eeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeecccccccccccHHHHHHHHHHHH
Q 005665 160 VLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAA 239 (684)
Q Consensus 160 v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~IR~v~~p~~rF~EDPlRILRAiRFAA 239 (684)
|.++. .+++++|| .||||||||||||+. |.|+|||||++||++|+||+++ .+|.|||+|||||+|||+
T Consensus 76 v~~~~--~~tieeDL------~RRDFTINAmA~d~~-g~liDpfgG~~DL~~kiLR~v~---~sF~EDPLRILRa~RFaa 143 (360)
T PRK13296 76 VNFSK--YITLEDDL------KRRDLTINSIAIDQN-NKVIDPFNGQADLQNRILRHTS---IAFIEDPLRVVRLARFKA 143 (360)
T ss_pred EeeCC--CCCHHHHH------HhcCcceeeeEECCC-CCEecCCCCHHHHHCCceecCc---cccccCHHHHHHHHHHHH
Confidence 56553 35788987 799999999999985 8899999999999999999985 389999999999999999
Q ss_pred Hh---CCCCcHHHHHHHHHhh--hhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhh
Q 005665 240 RL---GLSFCKDIDTAMHSLS--SSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYL 305 (684)
Q Consensus 240 RL---GF~IdpeT~~aIr~~a--~lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~LfPe~a~~~ 305 (684)
+| ||.|+++|..+|++.+ ..+..+++|||+.|+.|+|.+ +..+|+.|.++|+|..+||++....
T Consensus 144 rL~~~gF~ie~eT~~~i~~~~~~~~L~~vs~ERI~~El~kiL~~--p~~~l~~L~~~glL~~lfPel~~~~ 212 (360)
T PRK13296 144 QLSNFNFSIAQEMLALIKELVKTGELNHLTRERLHIEFVKALNN--PKIFFTTLKELEALKIIFPNISCIL 212 (360)
T ss_pred HhccCCCCcCHHHHHHHHHhhhhhhhhcCCHHHHHHHHHHHHhC--hHHHHHHHHHcCCHHHhCcchHHHh
Confidence 86 9999999999999975 589999999999999999984 5689999999999999999987633
No 11
>cd05398 NT_ClassII-CCAase Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes. 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 II group is comprised mainly of eubacterial and eukaryotic enzymes and includes Bacillus stearothermophilus CCAase, Escherichia coli poly(A) polymerase I, human mitochondrial CCAase, and Saccharomyces cerevisiae CCAase (CCA1). CCA-adding enzymes have a single catalytic pocket, which recognizes both ATP and CTP substrates. Included in this subgroup are CC- and A-adding enzymes from various ancient species of bacteria such as Aquifex aeolicus; these enzymes collaborate to add CCA to tRNAs. 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 io
Probab=100.00 E-value=9.5e-33 Score=260.26 Aligned_cols=132 Identities=36% Similarity=0.541 Sum_probs=110.7
Q ss_pred hhHHHHHHHHHHC-CCcEEEEchhHHHHHhCCCCCCeEEEeCC-CHHHHHHHhcc--Cccc--ccccCeEEEEECCEEEE
Q 005665 70 QPSWVVLKILKSQ-GFQAYLVGGCVRDLLLRRVPKDFDVITTA-NLKQIRRQFHR--SEII--GRRFPICRVHIKGSVIE 143 (684)
Q Consensus 70 ~~a~~VL~~L~~~-G~eaYLVGG~VRDlLLGr~PkD~DIvT~a-~~eei~k~F~~--~~iv--G~rF~i~~V~~~G~~IE 143 (684)
+.+..|++.|.++ |+++|+|||||||+|||++|+|+||+|++ .++.+.++++. ...+ |..|+++++.+++..+|
T Consensus 2 ~~~~~il~~l~~~~g~~~ylVGG~VRD~Llg~~~~DiDi~v~~~~~~~~~~l~~~~~~~~v~~~~~f~t~~v~~~~~~~d 81 (139)
T cd05398 2 PELLKLLRELKKALGYEAYLVGGAVRDLLLGRPPKDIDIATDADGPEFAEALFKKIGGRVVGLGEEFGTATVVINGLTID 81 (139)
T ss_pred HHHHHHHHHHHhccCceEEEECChHHHHHcCCCCCCceEEEeCCCHHHHHHHHHhcCCcEEecCCcccEEEEEECCEEEE
Confidence 5678899999999 99999999999999999999999999999 56666666652 3334 56999999999999999
Q ss_pred EeccccccccCCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhc
Q 005665 144 VSSFETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRC 211 (684)
Q Consensus 144 VatfRte~~~~~~~~~v~~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~ 211 (684)
|+++|++.|..++.. +.....++++|| .|||||||||||++.++.|+|||||++||++
T Consensus 82 i~~~R~e~~~~~~~~----p~~~~~~~~~Dl------~RRDFTINAmA~~~~~~~liDp~~G~~DL~~ 139 (139)
T cd05398 82 VATLRTETYTDPGRR----PPVVGFTIEEDL------LRRDFTINAMAYDLDDGELIDPFGGLKDLEN 139 (139)
T ss_pred EcccccccccCCCCC----CcccCCCCHHHH------hhcCcchhheEecCCCCEEEeCCCCHHHHhC
Confidence 999999988765432 112234566775 7999999999999988999999999999985
No 12
>PF01743 PolyA_pol: Poly A polymerase head domain; InterPro: IPR002646 This group includes nucleic acid independent RNA polymerases, such as polynucleotide adenylyltransferase (2.7.7.19 from EC), which adds the poly (A) tail to mRNA. This group also includes the tRNA nucleotidyltransferase that adds the CCA to the 3' of the tRNA 2.7.7.25 from EC.; GO: 0003723 RNA binding, 0016779 nucleotidyltransferase activity, 0006396 RNA processing; PDB: 1VFG_A 3H38_A 3H3A_B 3H39_B 3H37_A 1MIY_A 1MIV_B 1MIW_B 1OU5_B 3AQN_A ....
Probab=99.98 E-value=1.3e-32 Score=254.83 Aligned_cols=122 Identities=39% Similarity=0.598 Sum_probs=97.3
Q ss_pred EEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCc----ccccccCeEEEEECCEEEEEeccccccccCCCCceee
Q 005665 86 AYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSE----IIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKETVL 161 (684)
Q Consensus 86 aYLVGG~VRDlLLGr~PkD~DIvT~a~~eei~k~F~~~~----ivG~rF~i~~V~~~G~~IEVatfRte~~~~~~~~~v~ 161 (684)
+|+|||||||+|||++|+|+||+|+++++++++.|.... .+|++|+++++..++..+||++||++.+..++.....
T Consensus 1 ~ylVGG~VRD~Llg~~~~DiDi~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~di~~~r~~~~~~~~~~~~~ 80 (126)
T PF01743_consen 1 AYLVGGAVRDLLLGRPPKDIDIVTNADPEEFAKLLAKKLGGVFVVGKRFGTVRVVFGGGSIDIASFRGEFYIGDGRNPDV 80 (126)
T ss_dssp EEEETHHHHHHHHTS--SEEEEEESS-HHHHHHHHCTTCCEEEEEETTTTEEEEEETTCEEEEEE-ECE--SSSSS--CC
T ss_pred CEEecHHHHHHHcCCCCCCeEEEEeCCHHHHHHHHHhhcccccccccccceeeecCCCcccccccccccccccccccccc
Confidence 799999999999999999999999999999999987542 3489999999999998999999999887665432111
Q ss_pred ecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCcee
Q 005665 162 LSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLR 215 (684)
Q Consensus 162 ~s~~~~gt~eeDL~~w~Da~RRDFTINALayd~~~g~IiD~fGGleDLk~~~IR 215 (684)
.. ...++++|| .|||||||||||++.+|+|+|||||++||++++||
T Consensus 81 ~~--~~~~i~~Dl------~rRDFTiNAla~~~~~~~liDp~gG~~DL~~~~iR 126 (126)
T PF01743_consen 81 VE--FGPTIEEDL------KRRDFTINALAYDLETGKLIDPFGGLEDLKNKIIR 126 (126)
T ss_dssp CC--CSSTHHHHH------CTSSBGGGSEEEECTTTCEEESSSHHHHHHTTEE-
T ss_pred cc--ccCCHHHHH------HhcCCeehheeEECCCCeEEcCCCCHHHHHcCCCC
Confidence 11 112667775 89999999999999999999999999999999998
No 13
>PHA01806 hypothetical protein
Probab=99.87 E-value=4.2e-22 Score=196.05 Aligned_cols=112 Identities=18% Similarity=0.102 Sum_probs=85.7
Q ss_pred ccCCccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEe-CCCHHHHHHHhccC----cccccccCeEE
Q 005665 60 NLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVIT-TANLKQIRRQFHRS----EIIGRRFPICR 134 (684)
Q Consensus 60 ~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT-~a~~eei~k~F~~~----~ivG~rF~i~~ 134 (684)
..-|+++.|+++++.|++.|++.|+++|+|||||||+|||++|+|+||+| .+.|+++.++.... .....+.++++
T Consensus 12 ~~~I~~~~is~~al~v~~~l~~~g~~aYlVGG~VRD~Llgr~~kDiDivt~~~~pe~v~~L~~klG~k~V~~~~~~ggwr 91 (200)
T PHA01806 12 TKEIPEGLIAKALLLRLYSDARHSEGVALAGGAARDLMHGAEPKDIDIALYGMDDRQAELLIGCILPKLVSRFLRDGGWS 91 (200)
T ss_pred ccccChhHcCHHHHHHHHHHHHCCcEEEEECchHHHHHcCCCCCceEEEccCCCHHHHHHHHHHhCCcccccccccceee
Confidence 45688899999999999999999999999999999999999999999999 46888887764321 11223334444
Q ss_pred ---------------------EEECCEEEEEeccccccccCCCCceeeecCCCCCCchhhhhhhhhhcccccccc--ccc
Q 005665 135 ---------------------VHIKGSVIEVSSFETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTIN--SLF 191 (684)
Q Consensus 135 ---------------------V~~~G~~IEVatfRte~~~~~~~~~v~~s~~~~gt~eeDL~~w~Da~RRDFTIN--ALa 191 (684)
+.++|.+||++. ....++++|| .||||||| |||
T Consensus 92 ~~~~~~gd~~~~~~~~~l~g~~vl~g~tvD~A~------------------~~g~sleeDL------~rRDFTINq~AIA 147 (200)
T PHA01806 92 QEYHDGGDGGIFKGVVSLKGCRGLEGMDVDFNY------------------YDTDSVGEVM------ESFDYTINQVGIA 147 (200)
T ss_pred eeccccccccccccceeeeeeEEeCCeEEEeee------------------ccCCCHHHHH------HHcCCccchhhhc
Confidence 334445555544 4444678997 79999999 888
Q ss_pred ccCC
Q 005665 192 FDPF 195 (684)
Q Consensus 192 yd~~ 195 (684)
|++.
T Consensus 148 ~~~~ 151 (200)
T PHA01806 148 YNWP 151 (200)
T ss_pred ccCC
Confidence 8764
No 14
>PRK03381 PII uridylyl-transferase; Provisional
Probab=99.60 E-value=3.8e-15 Score=174.15 Aligned_cols=143 Identities=19% Similarity=0.081 Sum_probs=116.3
Q ss_pred HhcCceeecccccccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCH-HHHHHH
Q 005665 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAA-ESSICL 287 (684)
Q Consensus 209 Lk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~~~-~~aLrl 287 (684)
+.+|.|-+..+ ..|.+||+||||+||||+++||.|+++|..+|+..+..+..++.||++.|+.++|.++++ ..+++.
T Consensus 313 ~~~~~l~~~~~--~~~~~DplRiLRa~rfaa~lgf~I~~~T~~~i~~~~~~l~~~~~eri~~ef~kiL~~~~~~~~~l~~ 390 (774)
T PRK03381 313 EHAGEVVLARD--ARPARDPGLVLRVAAAAATTGLPIAAATLSRLAASAPPLPTPWPAEARDDLLVLLGAGPAAVAVIEA 390 (774)
T ss_pred EECCEEEeCCc--cccccCHHHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCccccHHHHHHHHHHHcCCCchHHHHHH
Confidence 45567766554 588999999999999999999999999999999999999999999999999999988755 579999
Q ss_pred HHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHhCCCCCchhHHHHHHHHHHHhhcC
Q 005665 288 LRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLWVGLLSFHQALVSD 355 (684)
Q Consensus 288 L~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~~~rp~~~slwlalLafh~aLv~~ 355 (684)
|+++|+|..+||+++...+ |...+|.|+++.|++.++.++..+...-.+...-.| +.| ||++-...
T Consensus 391 m~~~GvL~~~iPE~~~i~~~~Q~~~~H~ytVd~Htl~~l~~~~~~~~~~~~~~lL~l-AaL-lHDiGKg~ 458 (774)
T PRK03381 391 LDRTGLWGRLLPEWEAVRDLPPRDPVHRWTVDRHLVETAVRAAALTRRVARPDLLLL-GAL-LHDIGKGR 458 (774)
T ss_pred HHHhCCHHHhchhHHHhhCCCCCCCCccChHHHHHHHHHHHHHHHHhccCCHHHHHH-HHH-HHhhcCCC
Confidence 9999999999999998776 445689999999999999988766543222222223 322 78875543
No 15
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=99.60 E-value=1.6e-14 Score=166.76 Aligned_cols=140 Identities=15% Similarity=0.050 Sum_probs=115.6
Q ss_pred HhcCceeecccccccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCC-CHHHHHHH
Q 005665 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYG-AAESSICL 287 (684)
Q Consensus 209 Lk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~-~~~~aLrl 287 (684)
+.+|.|++++++. + |||+||||+||||+++||.|+++|+.+|+.. ..+....++|+..|+.++|.++ .+..+|+.
T Consensus 275 ~~~~~I~~~~~~~--~-eDPlRiLRafrfAa~~gf~I~~~Tl~~i~~~-~~L~~~~~er~~~ef~kiL~s~~~~~~~L~~ 350 (693)
T PRK00227 275 DANGTIALSRTPD--L-DDPALPLRVAAAAARTGLPVSESVWKRLEEC-PELPEPWPASAAGDFFRLLSSPVNSRRVIKQ 350 (693)
T ss_pred EECCEEEeCCCCc--c-cCHHHHHHHHHHHHhcCCCcCHHHHHHHHhh-hhcchhhHHHHHHHHHHHHcCCCChHHHHHH
Confidence 5779999999863 4 8999999999999999999999999999987 6677778889999999999996 77899999
Q ss_pred HHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHhCCCCCchhHHHHHHHHHHHhhc
Q 005665 288 LRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLWVGLLSFHQALVS 354 (684)
Q Consensus 288 L~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~~~rp~~~slwlalLafh~aLv~ 354 (684)
|+++|+|..+||++..+.+ |...+|.|+++.|++.++.++..+.....+...-. ++.| ||++-..
T Consensus 351 M~~~GvL~~llPE~~~i~g~~Q~d~yH~ytVDeHTL~~l~~~~~~~~~~~~~~lL~-LAAL-lHDIGKg 417 (693)
T PRK00227 351 MDRHGLWERIVPEWDRIRGLMPREPSHIHTIDEHSLNTVANCALETVTVARPDLLL-LGAL-YHDIGKG 417 (693)
T ss_pred HHHcCCHHHHhHHHHHHhCCCCCCCCCCCcHHHHHHHHHHHHHHhhhccCccHHHH-HHHH-HHhhcCC
Confidence 9999999999999998876 44568999999999999998776654432222222 3322 8887554
No 16
>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=99.59 E-value=5e-15 Score=174.58 Aligned_cols=122 Identities=16% Similarity=0.075 Sum_probs=110.7
Q ss_pred HhcCceeecccccccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCH--HHHHHHHHHHHhCC-CHHHHH
Q 005665 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDK--SRIMMELNYMLSYG-AAESSI 285 (684)
Q Consensus 209 Lk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~Is~--eRI~~EL~KiL~~~-~~~~aL 285 (684)
+.+|.|++.++ .+|.+||+||||+||||+++||.|+++|..+|++.+..+..++. +|++.|+.+||.++ .+..+|
T Consensus 319 ~~~~~l~~~~~--~~f~eDPlriLR~~rfaa~~~~~i~~~T~~~i~~~~~~l~~~~~~~er~~~ef~~iL~~~~~~~~~l 396 (850)
T TIGR01693 319 EDGGELVLART--AVFERDPALLLRLFAIAAQRGLPIHPAALRQLTASLPLLPTPLREDPEARELFLELLTSGNGTVRAL 396 (850)
T ss_pred EECCEEEecCc--cchhhCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCchhhcCHHHHHHHHHHHcCCCchHHHH
Confidence 68899999875 69999999999999999999999999999999999999999877 99999999999976 568899
Q ss_pred HHHHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHh
Q 005665 286 CLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVS 332 (684)
Q Consensus 286 rlL~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~ 332 (684)
+.|+++|+|..+||++....+ +...+|.|+++.|++.++.++..+..
T Consensus 397 ~~m~~~gvL~~~iPe~~~i~~~~Q~~~~H~~tVd~Htl~~l~~~~~~~~ 445 (850)
T TIGR01693 397 RAMNRAGVLGRFLPEWGRIVGQMQFDLFHVYTVDEHTLRTVVHLAPFAR 445 (850)
T ss_pred HHHHHhCCHHHhCchHhhheeccccCceeecchhHHHHHHHHHHHHHhc
Confidence 999999999999999998776 34468999999999999999887643
No 17
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=99.59 E-value=4.5e-15 Score=175.92 Aligned_cols=133 Identities=16% Similarity=0.064 Sum_probs=119.3
Q ss_pred EeeCcCcHHHHhcCceeecccccccccccHHHHHHHHHHHHHhC--CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHH
Q 005665 199 IYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARLG--LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNY 274 (684)
Q Consensus 199 IiD~fGGleDLk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLG--F~IdpeT~~aIr~~a~lL~~I--s~eRI~~EL~K 274 (684)
.+||++|..|+++|.|++++++ .|.+||+||||+|||+++.+ ..|++.|..+|+.....+..+ +.+|++.|+.+
T Consensus 339 ~~~~~~~~~~l~~~~i~~~~~~--~f~~dP~riLr~f~~~a~~~~i~~i~~~t~~~i~~~~~~i~~~~~~~~~~~~~f~~ 416 (895)
T PRK00275 339 TIQPLNSRFQLRDGYIEATHPN--VFKRTPFALLEIFVLMAQHPEIKGVRADTIRLLREHRHLIDDAFRNDIRNTSLFIE 416 (895)
T ss_pred cccccCCCeEEECCEEEecChh--hhhcCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHhcCchhccCHHHHHHHHH
Confidence 6799999999999999999974 69999999999999999965 467799999999999999887 67789999999
Q ss_pred HHhCCC-HHHHHHHHHHcCCchhhhhhhhhhhhhh--cCCCCCchhHHHHHHHHHHHHHHhC
Q 005665 275 MLSYGA-AESSICLLRRYNLLKILLPFHAAYLDQQ--AGKITAENPMMLMRLFFNLDKLVSC 333 (684)
Q Consensus 275 iL~~~~-~~~aLrlL~e~GLL~~LfPe~a~~~~qq--~~~h~~tvd~hll~lL~~Ld~ll~~ 333 (684)
||..++ ...+|+.|+++|+|..+||+|..+.+.. ..+|.|+++.|++.++.+++.+...
T Consensus 417 iL~~~~~~~~~l~~M~~~GvL~~~iPe~~~i~~~~Q~d~yH~ytVdeHtl~~v~~l~~l~~~ 478 (895)
T PRK00275 417 LFKCPIGIHRNLRRMNRYGILGRYLPEFGHIVGQMQHDLFHIYTVDAHTLNLIKNLRKLRYP 478 (895)
T ss_pred HHcCCCchHHHHHHHHHcCCHHHhCchHhhEeeeccCcccccCcHHHHHHHHHHHHHHhhcc
Confidence 999987 4678999999999999999999988744 4699999999999999999887544
No 18
>PRK05092 PII uridylyl-transferase; Provisional
Probab=99.53 E-value=3e-14 Score=169.56 Aligned_cols=120 Identities=15% Similarity=0.133 Sum_probs=105.5
Q ss_pred HhcCceeecccccccccccHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhhhccC-----CCHHHHHHHHHHHHhCCCHHH
Q 005665 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIER-----LDKSRIMMELNYMLSYGAAES 283 (684)
Q Consensus 209 Lk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLGF~IdpeT~~aIr~~a~lL~~-----Is~eRI~~EL~KiL~~~~~~~ 283 (684)
+.+|.|+++++ .+|.+||+||||+||||+++||.|+++|+.+|++++..+.. .+.+|+|.|+. +..+.+..
T Consensus 384 ~~~~~i~~~~~--~~f~edPlriLR~fr~aa~~~~~i~~~T~~~i~~~~~~i~~~~~~~~~~~r~f~eil--~~~~~~~~ 459 (931)
T PRK05092 384 VDNGRINLADP--DVFERDPVNLIRLFHLADRHGLDIHPDAMRLVTRSLRLIDAALREDPEANRLFLDIL--TSRRNPER 459 (931)
T ss_pred EECCEEEecCh--hhhhhCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcChhhccCHHHHHHHHHHH--cCCCchHH
Confidence 57899999986 48999999999999999999999999999999999887766 56799998873 44457789
Q ss_pred HHHHHHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHh
Q 005665 284 SICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVS 332 (684)
Q Consensus 284 aLrlL~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~ 332 (684)
+|++|+++|+|..+||+|..+.+ |...+|.|+++.|++.++.++..+..
T Consensus 460 ~l~~m~~~GvL~~~iPef~~i~~~~Q~d~~H~ytVd~Htl~~l~~l~~~~~ 510 (931)
T PRK05092 460 VLRRMNEAGVLGRFIPDFGRIVAMMQFNMYHHYTVDEHTIRAIGVLAEIER 510 (931)
T ss_pred HHHHHHHhCChHHhcccHHhcccccccccceeccHhHHHHHHHHHHHHHhc
Confidence 99999999999999999998776 44569999999999999999987754
No 19
>PRK03059 PII uridylyl-transferase; Provisional
Probab=99.52 E-value=4.8e-14 Score=166.58 Aligned_cols=125 Identities=11% Similarity=0.043 Sum_probs=111.6
Q ss_pred HHHhcCceeecccccccccccHHHHHHHHHHHHHh-C-CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHHHHhCCCH-
Q 005665 207 SDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL-G-LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNYMLSYGAA- 281 (684)
Q Consensus 207 eDLk~~~IR~v~~p~~rF~EDPlRILRAiRFAARL-G-F~IdpeT~~aIr~~a~lL~~I--s~eRI~~EL~KiL~~~~~- 281 (684)
-.+.+|.||+++++ .|.+||+||||+|||++++ | +.|++.|..+|+.....+..+ +.+|++.|+.+||..+++
T Consensus 327 f~~~~~~i~~~~~~--~f~~dP~riLr~fr~aa~~~~~~~i~~~T~~~i~~~~~~i~~~~~~~er~~~ef~~iL~~~~~~ 404 (856)
T PRK03059 327 FVEKQGMLEIASDD--LFERHPHAILEAFLLYQQTPGLKGLSARTLRALYNARDVMNAAFRRDPVNRALFMQILQQPRGI 404 (856)
T ss_pred eEEECCEEEecCch--hhhcCHHHHHHHHHHHHhcCCccCcCHHHHHHHHHHHHhcCcccccCHHHHHHHHHHHcCCCch
Confidence 45789999999874 6999999999999999999 5 699999999999999999887 679999999999999875
Q ss_pred HHHHHHHHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHhC
Q 005665 282 ESSICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSC 333 (684)
Q Consensus 282 ~~aLrlL~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~~ 333 (684)
..+|+.|+++|+|..+||++....+ |...+|.|+++.|++.++.+++.+...
T Consensus 405 ~~~l~~m~~~GlL~~~lPe~~~i~~~~Q~~~~H~ytVd~Htl~~v~~l~~~~~~ 458 (856)
T PRK03059 405 THALRLMNQTSVLGRYLPNFRRIVGQMQHDLFHVYTVDQHILMVLRNLRRFAMA 458 (856)
T ss_pred HHHHHHHHHhCCHHHhCchHhheeeeecccccccCcHhHHHHHHHHHHHHhhcc
Confidence 6899999999999999999998776 444589999999999999998876443
No 20
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=99.39 E-value=1.4e-12 Score=154.34 Aligned_cols=122 Identities=12% Similarity=0.090 Sum_probs=104.2
Q ss_pred HHhcCceeecccccccccccHHHHHHHHHHHHHh-CCCCcHHHHHHHHHhh----hhccCCCHHHHHHHHHHHHhCCCH-
Q 005665 208 DLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL-GLSFCKDIDTAMHSLS----SSIERLDKSRIMMELNYMLSYGAA- 281 (684)
Q Consensus 208 DLk~~~IR~v~~p~~rF~EDPlRILRAiRFAARL-GF~IdpeT~~aIr~~a----~lL~~Is~eRI~~EL~KiL~~~~~- 281 (684)
.+.++.|.+..+ ..|.+||+||||+|||++++ ||.|+++|..+|++.. ..+..++.+| .|+.+||.++.+
T Consensus 325 ~~~~~~i~~~~~--~~f~~dp~riLr~fr~~a~~~~~~i~~~t~~~i~~~~~~~~~~l~~~~~eR--~ef~kiL~~~~~~ 400 (854)
T PRK01759 325 YLINNAICLRNP--DCFEQQPESILDLFFYLTQYPQAEIHSTTLRQLRLALEQLQQPLCELPAAR--ERFLRLFNQPNAI 400 (854)
T ss_pred EEECCEEEecCh--hhhhhCHHHHHHHHHHHHHCCCCCcCHHHHHHHHHHHHhccchhccCHHHH--HHHHHHHcCCCch
Confidence 467788877664 58999999999999999999 6999999999887653 4556678887 899999999775
Q ss_pred HHHHHHHHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHhC
Q 005665 282 ESSICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSC 333 (684)
Q Consensus 282 ~~aLrlL~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~~ 333 (684)
..+|+.|+++|+|..++|++....+ |...+|.|+++.|++.++.+++.+...
T Consensus 401 ~~~l~~M~~~GvL~~~iPe~~~i~~~~Q~d~yH~ytVd~Htl~~l~~l~~~~~~ 454 (854)
T PRK01759 401 KRALVPMHQYGVLTAYLPQWKGIVGLMQFDLFHIYTVDEHTLRVMLKLESFLDE 454 (854)
T ss_pred HHHHHHHHHhCCHHHhChHHHheeeccCCcccccCcHHHHHHHHHHHHHHHhcc
Confidence 6899999999999999999998776 445689999999999999999876543
No 21
>PRK05007 PII uridylyl-transferase; Provisional
Probab=99.33 E-value=6e-12 Score=149.47 Aligned_cols=123 Identities=13% Similarity=0.091 Sum_probs=105.5
Q ss_pred HhcCceeecccccccccccHHHHHHHHHHHHHhC--CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHHHHhCCCHH-H
Q 005665 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLG--LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNYMLSYGAAE-S 283 (684)
Q Consensus 209 Lk~~~IR~v~~p~~rF~EDPlRILRAiRFAARLG--F~IdpeT~~aIr~~a~lL~~I--s~eRI~~EL~KiL~~~~~~-~ 283 (684)
+.++.|++++++ .|.+||+||||+|||+++.+ ..|+++|..+|+..+..+... ..++++.|+.+||.++.+. .
T Consensus 350 ~~~~~i~~~~~~--~f~~dp~~iLr~f~~aa~~~~i~~i~~~t~~~i~~~~~~i~~~~~~~~~~~~~f~~iL~~~~~~~~ 427 (884)
T PRK05007 350 LRGTLIDLRDET--LFQRQPEAILRMFYLMARNSNITGIYSTTLRQLRHARRHLNQPLCEIPEARKLFMEILRHPGAVSR 427 (884)
T ss_pred EECCEEeecChh--hhhhCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHhcCcccccCHHHHHHHHHHHcCCCchHH
Confidence 577889999975 59999999999999999965 357799999999998877642 2456999999999998876 4
Q ss_pred HHHHHHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHhC
Q 005665 284 SICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSC 333 (684)
Q Consensus 284 aLrlL~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~~ 333 (684)
+|+.|+++|+|..++|++..+.+ |...+|.|+++.|++.++.++..+...
T Consensus 428 ~l~~m~~~GlL~~~iPe~~~i~~~~Q~d~~H~ytVd~Htl~~l~~l~~~~~~ 479 (884)
T PRK05007 428 ALLPMHRHSVLSAYMPQWSHIVGQMQFDLFHAYTVDEHTIRVLLKLESFADE 479 (884)
T ss_pred HHHHHHHhCCHHHhCchHhheeeccccCccccCcHhHHHHHHHHHHHHHhcc
Confidence 99999999999999999998876 334699999999999999999876543
No 22
>PF12627 PolyA_pol_RNAbd: Probable RNA and SrmB- binding site of polymerase A; PDB: 1OU5_B 3H38_A 3H3A_B 3H39_B 3H37_A 3AQN_A 3AQK_A 3AQM_B 3AQL_B 1MIY_A ....
Probab=99.23 E-value=1.8e-11 Score=100.33 Aligned_cols=62 Identities=24% Similarity=0.360 Sum_probs=57.2
Q ss_pred CCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhh
Q 005665 242 GLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAA 303 (684)
Q Consensus 242 GF~IdpeT~~aIr~~a~lL~~Is~eRI~~EL~KiL~~~~~~~aLrlL~e~GLL~~LfPe~a~ 303 (684)
||+|+++|..+|++.+..+..+|+|||+.|+.|||.++++..+++.|+++|++..+||++.+
T Consensus 1 gF~ie~~t~~ai~~~~~~L~~is~ERi~~El~kil~~~~~~~~~~~l~~~gll~~ifP~l~~ 62 (64)
T PF12627_consen 1 GFKIEPETEEAIKENAELLSKISKERIREELEKILSSPNPSRAFKLLDELGLLEYIFPELDA 62 (64)
T ss_dssp T-EE-HHHHHHHHHHGGGGGGS-HHHHHHHHHHHHTSTTHHHHHHHHHHTTCHHHHSTTHHT
T ss_pred CCccCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCHHHHCccccc
Confidence 89999999999999999999999999999999999999999999999999999999998864
No 23
>PRK04374 PII uridylyl-transferase; Provisional
Probab=99.09 E-value=6.7e-10 Score=131.95 Aligned_cols=121 Identities=11% Similarity=-0.028 Sum_probs=104.7
Q ss_pred hcCceeecccccccccccHHHHHHHHHHHHHhC--CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHHHHhCCCHHHHH
Q 005665 210 RCLKLRTLIPAYLSFTEDCARILRGLRIAARLG--LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNYMLSYGAAESSI 285 (684)
Q Consensus 210 k~~~IR~v~~p~~rF~EDPlRILRAiRFAARLG--F~IdpeT~~aIr~~a~lL~~I--s~eRI~~EL~KiL~~~~~~~aL 285 (684)
.+|.|-+.. | ..|..||.+|||+|.++++.+ ..|++.|+..|++....+..- ..+|++.|+.+||.++++..+|
T Consensus 340 ~~~~i~~~~-~-~~f~~~P~~il~lf~~~~~~~~~~~i~~~t~r~l~~~~~~l~~~~~~~~ri~~ef~kiL~~~~~~~~l 417 (869)
T PRK04374 340 RRGYLAADA-D-SWPDGDVLQVFALFAQWAAHREVRGLHSLTARALAEVLRDLPAYDVADATARERFMALLRGPRAVETL 417 (869)
T ss_pred ECCEEeecC-c-ccchhCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHhcCccccCCHHHHHHHHHHHcCCChhHHH
Confidence 344554443 3 579999999999999999999 899999999999988777553 6779999999999999998999
Q ss_pred HHHHHcCCchhhhhhhhhhhh--hhcCCCCCchhHHHHHHHHHHHHHHh
Q 005665 286 CLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVS 332 (684)
Q Consensus 286 rlL~e~GLL~~LfPe~a~~~~--qq~~~h~~tvd~hll~lL~~Ld~ll~ 332 (684)
+.|+++|+|..++|++....+ |...+|.|+++.|++.++.+++.+..
T Consensus 418 ~~m~~~GvL~~~lPE~~~i~~~~Q~d~yH~ytVd~Htl~~l~~l~~~~~ 466 (869)
T PRK04374 418 NRMARLGVLGQWIPAFASVSGRMQFDLFHVYTVDQHTLMVLRNIALFAA 466 (869)
T ss_pred HHHHHhCCHHHHhhhHHHHhccccccCccCCcHHHHHHHHHHHHHHHhc
Confidence 999999999999999999886 44569999999999999999986653
No 24
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=2.1e-08 Score=116.50 Aligned_cols=147 Identities=18% Similarity=0.164 Sum_probs=111.8
Q ss_pred hcCceeecccccccccccHHHHHHHHHHHHHhCCCC-cHHHHHHHHHhhhhccCCCH--HHHHHHHHHHHhCC-CHHHHH
Q 005665 210 RCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSF-CKDIDTAMHSLSSSIERLDK--SRIMMELNYMLSYG-AAESSI 285 (684)
Q Consensus 210 k~~~IR~v~~p~~rF~EDPlRILRAiRFAARLGF~I-dpeT~~aIr~~a~lL~~Is~--eRI~~EL~KiL~~~-~~~~aL 285 (684)
.+|.|-+-++ .-|+.||..|||.|-++++.|... +|+|+..+..+...+...=. +.-..-+..||..+ .+..+|
T Consensus 337 ~~g~I~l~~~--~~f~~dP~~ilrlf~~~~~~~~~~~~~~Tlr~L~~a~~~l~~~l~~~peA~~~Fl~il~~~~~~~r~l 414 (867)
T COG2844 337 RNGRIELRDP--DLFERDPEAILRLFAIMAQTGLITGHPDTLRQLRRALRLLNQPLREDPEARRLFLSILRSPNAIRRTL 414 (867)
T ss_pred eCCEEEecCc--hhhhhChHHHHHHHHHHHhcCCcccchHHHHHHHHhccccCcccccCHHHHHHHHHHHhCCCcHHHHH
Confidence 4566766654 479999999999999999999988 79999999988777665311 33334445556766 567899
Q ss_pred HHHHHcCCchhhhhhhhhhhhhhcC--CCCCchhHHHHHHHHHHHHHHhCC-C---CCch----------hHHHHHHHHH
Q 005665 286 CLLRRYNLLKILLPFHAAYLDQQAG--KITAENPMMLMRLFFNLDKLVSCD-R---PADY----------TLWVGLLSFH 349 (684)
Q Consensus 286 rlL~e~GLL~~LfPe~a~~~~qq~~--~h~~tvd~hll~lL~~Ld~ll~~~-r---p~~~----------slwlalLafh 349 (684)
+.|+++|+|..++|+|..+.+++++ +|.||+|+|++.++.++..+.... + |... -++++. .||
T Consensus 415 ~~Mn~~GVLgrylPew~~Ivg~MQfdlfH~YTVDeH~lr~v~~l~~~a~~~~~~~hPl~~~l~~~~~~~elLylAa-LfH 493 (867)
T COG2844 415 RPMNRYGVLGRYLPEWGKIVGLMQFDLFHIYTVDEHTLRVVLKLARFARGEARHEHPLASQLMPRLEKRELLYLAA-LFH 493 (867)
T ss_pred HHHHHhhhHHHhcccHHhhhcccccCcceecchhHHHHHHHHHHHHhhcccccccCccHHhhccCCCChhHHHHHH-HHH
Confidence 9999999999999999999986654 999999999999999988765542 2 2111 133443 389
Q ss_pred HHhhcCchhH
Q 005665 350 QALVSDPQDA 359 (684)
Q Consensus 350 ~aLv~~p~da 359 (684)
++-...+.|-
T Consensus 494 DIaKGRggDH 503 (867)
T COG2844 494 DIAKGRGGDH 503 (867)
T ss_pred HhhcCCCCch
Confidence 9887777554
No 25
>cd07749 NT_Pol-beta-like_1 Nucleotidyltransferase (NT) domain of an uncharacterized subgroup of the Pol beta-like NT superfamily. The Pol beta-like NT superfamily includes DNA polymerase beta and other family X DNA Polymerases, as well as 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, Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. Proteins belonging to this subgroup are uncharacterized. 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 essential for catalysis. These divalent metal ions are involved in a two-metal ion mechanism of nucleotide addition. These carboxylate residues are conserved in this subgroup.
Probab=92.24 E-value=0.63 Score=46.04 Aligned_cols=70 Identities=24% Similarity=0.296 Sum_probs=49.9
Q ss_pred HHHHHHHHHCCCcEEEEchhHHHHHhCCC--CCCeEEEeC-CCHHHHHHHhccCc----------ccccccCeEEEEECC
Q 005665 73 WVVLKILKSQGFQAYLVGGCVRDLLLRRV--PKDFDVITT-ANLKQIRRQFHRSE----------IIGRRFPICRVHIKG 139 (684)
Q Consensus 73 ~~VL~~L~~~G~eaYLVGG~VRDlLLGr~--PkD~DIvT~-a~~eei~k~F~~~~----------ivG~rF~i~~V~~~G 139 (684)
..+.+.|++.+ =.|.|||.+.=.+-|.+ |+|+||-|+ .+.+++.+.|.... .+=+.|+. ..++|
T Consensus 7 ~~i~~~ln~~~-i~W~lgGS~~L~l~Gl~~~p~DIDI~~D~~d~e~i~~il~~~~~~~~~~~~~~~~ts~F~e--~~I~g 83 (156)
T cd07749 7 RKFYERLKNIN-VNWALTGSLSFALQGVPVEPHDIDIQTDNEGAYEIERIFHEFVNTEVRFSESEGIRSHFGE--LQIDG 83 (156)
T ss_pred HHHHHHhccCC-ceEEehhhHHHHHcCCCCCCCcceEEEchhhHHHHHHHHHHhccCCCccCCCCceeeeeeE--EEECC
Confidence 45667777777 46999999999998876 999999997 46788888876432 11223333 34578
Q ss_pred EEEEEe
Q 005665 140 SVIEVS 145 (684)
Q Consensus 140 ~~IEVa 145 (684)
..|||-
T Consensus 84 v~Vdvm 89 (156)
T cd07749 84 IKVEIM 89 (156)
T ss_pred EEEEEe
Confidence 888875
No 26
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=90.41 E-value=0.68 Score=46.35 Aligned_cols=41 Identities=27% Similarity=0.399 Sum_probs=35.9
Q ss_pred HHHHHHHHHHCCCcEEEEchhHHHHHhCCC--CCCeEEEeCCC
Q 005665 72 SWVVLKILKSQGFQAYLVGGCVRDLLLRRV--PKDFDVITTAN 112 (684)
Q Consensus 72 a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~--PkD~DIvT~a~ 112 (684)
...+++.|++.|.+.++|||++=.+..|.+ ++|+|+.+..+
T Consensus 5 l~~~~~~L~~~gv~~~ivGG~av~l~~g~~r~T~DIDlfi~~~ 47 (181)
T PF09970_consen 5 LKEILEELNKRGVEYVIVGGAAVNLAYGRRRTTKDIDLFIENP 47 (181)
T ss_pred HHHHHHHHHHcCCeEEEECHHHHHHHhCCCCCCCCeEEEeCCC
Confidence 457899999999999999999999888865 89999988654
No 27
>PF10706 Aminoglyc_resit: Aminoglycoside-2''-adenylyltransferase; InterPro: IPR019646 Aminoglycoside-2''-adenylyltransferase is conserved in Bacteria. It confers resistance to kanamycin, gentamicin, and tobramycin []. The protein is also produced by plasmids in various bacterial species and confers resistance to essentially all clinically available aminoglycosides except streptomycin, and it eliminates the synergism between aminoglycosides and cell-wall active agents []. ; PDB: 4E8I_A 4E8J_B.
Probab=84.78 E-value=2.1 Score=42.93 Aligned_cols=51 Identities=22% Similarity=0.370 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHCCCcEEEEchhHHHHHhCCC---CCCeEEEeCCC-HHHHHHHhc
Q 005665 71 PSWVVLKILKSQGFQAYLVGGCVRDLLLRRV---PKDFDVITTAN-LKQIRRQFH 121 (684)
Q Consensus 71 ~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~---PkD~DIvT~a~-~eei~k~F~ 121 (684)
.+..|+..+.+.|.+.||-|||-=|+++|+. ..|+||.+.++ -.++.+.++
T Consensus 8 ~I~~Il~~~~~~~i~~wi~GGWaiD~~lG~qTReH~DiDi~~~~~~~~~l~~~L~ 62 (174)
T PF10706_consen 8 LIHEILDAADELGIPWWIAGGWAIDALLGRQTREHRDIDIFVPREDQAELRALLK 62 (174)
T ss_dssp --------HHHTT--EEEEHHHHHHHHHTS--S--SEEEEEEEGGGHHHHHHHHH
T ss_pred cchhhhhhHhhCCCCEEEECceeeeEeccccccCcCCeEEEEEcchhHHHHHHHH
Confidence 3457889999999999999999999999974 68999988765 456666654
No 28
>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=72.68 E-value=4.4 Score=32.24 Aligned_cols=35 Identities=29% Similarity=0.524 Sum_probs=26.5
Q ss_pred HHHHHHHHC--CCcEEEEchhHHHHHhCCCCCCeEEEeC
Q 005665 74 VVLKILKSQ--GFQAYLVGGCVRDLLLRRVPKDFDVITT 110 (684)
Q Consensus 74 ~VL~~L~~~--G~eaYLVGG~VRDlLLGr~PkD~DIvT~ 110 (684)
.+.+.+++. +..+|+.|..+|... .+..|+||++.
T Consensus 6 ~i~~~l~~~~~~~~v~lfGS~arg~~--~~~SDIDi~v~ 42 (49)
T cd05397 6 IIKERLKKLVPGYEIVVYGSLVRGLL--KKSSDIDLACV 42 (49)
T ss_pred HHHHHHHhhcCCcEEEEECCcCCCCC--CCCCCEEEEEE
Confidence 344555555 789999999999764 55789999875
No 29
>PF06042 DUF925: Bacterial protein of unknown function (DUF925); InterPro: IPR009267 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2LA3_A.
Probab=72.56 E-value=4.6 Score=40.28 Aligned_cols=113 Identities=29% Similarity=0.382 Sum_probs=50.7
Q ss_pred HHHHHHCCC-cEEEEchhHHHHH----hCCCC----CCeEEEeCCC----H---HHHHHHhccCcccccccCeEEEEECC
Q 005665 76 LKILKSQGF-QAYLVGGCVRDLL----LRRVP----KDFDVITTAN----L---KQIRRQFHRSEIIGRRFPICRVHIKG 139 (684)
Q Consensus 76 L~~L~~~G~-eaYLVGG~VRDlL----LGr~P----kD~DIvT~a~----~---eei~k~F~~~~ivG~rF~i~~V~~~G 139 (684)
|+.+.+.|. +.||++||||..+ -|+++ +|+||+--.+ . .++.+.. .+.|+ +
T Consensus 1 L~~~~~L~Lpd~~l~AG~vrn~VWn~L~g~~~~~~i~DiDviYfD~~d~s~e~e~~~e~~l------~~~~p-------~ 67 (163)
T PF06042_consen 1 LEIVRSLGLPDWWLAAGFVRNTVWNHLHGRPPSTPINDIDVIYFDPSDLSYEAEDAIEARL------RALFP-------G 67 (163)
T ss_dssp HHHHHHT--SS-EEETHHHHHHHHGGGTTS-TT---SEEEEEE--T-TS-HHHHHHHHHHH------HHH-T-------T
T ss_pred CchHhhCCCCceEeehhhHHHHHHHHhcCCCCCCCCCceeEEEeCCCCCCHHHHHHHHHHH------HHhCC-------C
Confidence 445566663 5899999999765 46665 9999996432 1 1122221 12222 1
Q ss_pred EEEEEecc-ccccccCCCCceeeecCCCCCCchhhhhhhhhhccccc-ccccccccCC---CCeEeeCcCcHHHHhcCce
Q 005665 140 SVIEVSSF-ETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDF-TINSLFFDPF---LNKIYDYANGISDLRCLKL 214 (684)
Q Consensus 140 ~~IEVatf-Rte~~~~~~~~~v~~s~~~~gt~eeDL~~w~Da~RRDF-TINALayd~~---~g~IiD~fGGleDLk~~~I 214 (684)
..+||-.- |-+...+. . .++.+.++ |..+-- |.-|++.... +.+|+-|| |++||-+++|
T Consensus 68 ~~weVkNQArmHl~~~~---~-----~py~S~~d-------Ai~~wpe~~Tavgvrl~~~~~~~l~AP~-GL~dlf~~~v 131 (163)
T PF06042_consen 68 YPWEVKNQARMHLWNGD---K-----PPYTSTED-------AISRWPETATAVGVRLNEDGQLELYAPF-GLDDLFALRV 131 (163)
T ss_dssp SEEEEEESTTTTSSSSS------------SSHHH-------HHTTSSSTTTS-EEE--TTS--EEE-TT--THHHHTTEE
T ss_pred CCEEEEeeeeeeeecCC---C-----CCcccHHH-------HHHhcchhheEEEEEECCCCcEEEEccc-ChHHHhCCEE
Confidence 22233221 22211111 0 23444433 334444 4566666443 34788887 5999999999
Q ss_pred eec
Q 005665 215 RTL 217 (684)
Q Consensus 215 R~v 217 (684)
|.-
T Consensus 132 rpn 134 (163)
T PF06042_consen 132 RPN 134 (163)
T ss_dssp ---
T ss_pred eeC
Confidence 864
No 30
>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=65.97 E-value=30 Score=31.07 Aligned_cols=63 Identities=27% Similarity=0.386 Sum_probs=42.2
Q ss_pred CCCcEEEEchhHHHHHhCCCCCCeEEEeCCCH-----H----HHHHHhccC-------cccccccCeEEEEEC--CEEEE
Q 005665 82 QGFQAYLVGGCVRDLLLRRVPKDFDVITTANL-----K----QIRRQFHRS-------EIIGRRFPICRVHIK--GSVIE 143 (684)
Q Consensus 82 ~G~eaYLVGG~VRDlLLGr~PkD~DIvT~a~~-----e----ei~k~F~~~-------~ivG~rF~i~~V~~~--G~~IE 143 (684)
.+.++|+.|.++..+.+ +..|+|+++..+. . .+.+.+++. .+.+.+.|+.++... |..+|
T Consensus 18 ~~~~v~~fGS~~~g~~~--~~SDiDl~i~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i~~ArVPiik~~~~~~~i~~D 95 (114)
T cd05402 18 PGAKLYPFGSYVTGLGL--PGSDIDLCLLGPNHRVDREDFLRKLAKLLKKSGEVVEVEPIINARVPIIKFVDKPTGIEVD 95 (114)
T ss_pred CCCEEEEecccccCCCC--CCCCeeEEEEeCCCCccHHHHHHHHHHHHHhCCCceeeEEeccCCCCEEEEEEcCCCeEEE
Confidence 46789999999998755 4579999876542 2 223334332 234667788888777 77777
Q ss_pred Eec
Q 005665 144 VSS 146 (684)
Q Consensus 144 Vat 146 (684)
|+-
T Consensus 96 is~ 98 (114)
T cd05402 96 ISF 98 (114)
T ss_pred EEc
Confidence 764
No 31
>COG3575 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.59 E-value=9.5 Score=38.77 Aligned_cols=42 Identities=26% Similarity=0.393 Sum_probs=31.8
Q ss_pred ChhHHHHHHHHHHCCCc-EEEEchhHHHHH----hCCC----CCCeEEEeC
Q 005665 69 PQPSWVVLKILKSQGFQ-AYLVGGCVRDLL----LRRV----PKDFDVITT 110 (684)
Q Consensus 69 p~~a~~VL~~L~~~G~e-aYLVGG~VRDlL----LGr~----PkD~DIvT~ 110 (684)
++....+|+++.+.|.+ .||++|+||-.. -|.. .+||||+--
T Consensus 14 ~p~~~~~L~~v~~L~LP~~~laaGsV~n~VWn~l~gn~~~~~ikDiDv~yF 64 (184)
T COG3575 14 SPLLMAILDTVRQLGLPDWWLAAGSVRNTVWNHLFGNNPMTGIKDIDVIYF 64 (184)
T ss_pred ChHHHHHHHHHHHcCCchhhhhhhHHHHHHHHHhcCCCCCCCcccceEEEe
Confidence 34556788888888865 699999999755 4554 489999863
No 32
>PF08843 DUF1814: Nucleotidyl transferase of unknown function (DUF1814); InterPro: IPR014942 This large group of proteins are largely uncharacterised. Some are annotated as abortive infective proteins but support for this annotation could not be found.
Probab=55.43 E-value=14 Score=36.43 Aligned_cols=38 Identities=29% Similarity=0.397 Sum_probs=30.2
Q ss_pred HHHHH--HHCCCcEEEEchhHHHHHhC---CCCCCeEEEeCCC
Q 005665 75 VLKIL--KSQGFQAYLVGGCVRDLLLR---RVPKDFDVITTAN 112 (684)
Q Consensus 75 VL~~L--~~~G~eaYLVGG~VRDlLLG---r~PkD~DIvT~a~ 112 (684)
+|..| ...+.+.++.||..-.+..+ |.+.|+||++...
T Consensus 2 ~L~~l~~~~~~~~~~l~GGtal~l~~~~~~R~S~DiD~~~~~~ 44 (233)
T PF08843_consen 2 LLRRLASSSLGDPFVLKGGTALSLRYGGSHRFSEDIDFVVDRD 44 (233)
T ss_pred hHHHhhccccCCCEEEECHHHHHHhcCCCcEecCcccEEEecc
Confidence 44555 56788999999999999843 6689999998764
No 33
>PF03458 UPF0126: UPF0126 domain; InterPro: IPR005115 This domain is duplicated in bacterial membrane proteins of unknown function and each domain contains three transmembrane helices. The conserved glycines are suggestive of an ion channel.
Probab=54.29 E-value=7 Score=34.33 Aligned_cols=16 Identities=50% Similarity=0.858 Sum_probs=13.4
Q ss_pred EEchhHHHHHhCCCCC
Q 005665 88 LVGGCVRDLLLRRVPK 103 (684)
Q Consensus 88 LVGG~VRDlLLGr~Pk 103 (684)
+-||-+||.|+|+.|.
T Consensus 39 ~GGG~lRDvll~~~P~ 54 (80)
T PF03458_consen 39 VGGGILRDVLLGRTPV 54 (80)
T ss_pred hhcHHHHHHHcCCCCh
Confidence 3499999999999763
No 34
>PF14907 NTP_transf_5: Uncharacterised nucleotidyltransferase
Probab=46.00 E-value=1.6e+02 Score=29.81 Aligned_cols=54 Identities=19% Similarity=0.280 Sum_probs=39.1
Q ss_pred CChhHHHHHHHHHHCCCcEEEEchhHHHHHhC----CCCCCeEEEeC-CCHHHHHHHhc
Q 005665 68 IPQPSWVVLKILKSQGFQAYLVGGCVRDLLLR----RVPKDFDVITT-ANLKQIRRQFH 121 (684)
Q Consensus 68 ip~~a~~VL~~L~~~G~eaYLVGG~VRDlLLG----r~PkD~DIvT~-a~~eei~k~F~ 121 (684)
+-.....|++.|+++|.+..+.+|..=-.+-+ |...|+||.+. .+...+.+.+.
T Consensus 56 ~~~~~~~i~~~l~~~gI~~~~lKG~~l~~~Y~~~~~R~~~DiDlLV~~~d~~~a~~~L~ 114 (249)
T PF14907_consen 56 LLAELQEILAALNANGIPVILLKGAALAQLYPDPGLRPMGDIDLLVPPEDLERAVELLE 114 (249)
T ss_pred HHHHHHHHHHHHHHcCCCEEEEchHHHHHhCCCCCCCCCCCeEEEEeCCcHHHHHHHHH
Confidence 44566778999999999999997765333443 45799999885 45666666654
No 35
>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=45.76 E-value=23 Score=30.20 Aligned_cols=34 Identities=26% Similarity=0.307 Sum_probs=23.6
Q ss_pred HHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeC
Q 005665 74 VVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITT 110 (684)
Q Consensus 74 ~VL~~L~~~G~eaYLVGG~VRDlLLGr~PkD~DIvT~ 110 (684)
..++.... ...+|+.|..+|.... +..|+|+++-
T Consensus 6 ~~l~~~~~-~~~v~lfGS~a~g~~~--~~SDIDl~i~ 39 (93)
T PF01909_consen 6 EILKELFG-VAEVYLFGSYARGDAT--PDSDIDLLII 39 (93)
T ss_dssp HHHHHHHT-TEEEEEEHHHHHTSSC--TTSCEEEEEE
T ss_pred HHHHHHCC-CCEEEEECCcccCcCC--CCCCEEEEEE
Confidence 34444444 7789999999996533 3489999764
No 36
>COG2860 Predicted membrane protein [Function unknown]
Probab=45.01 E-value=11 Score=39.11 Aligned_cols=15 Identities=53% Similarity=0.950 Sum_probs=12.9
Q ss_pred EEchhHHHHHhCCCC
Q 005665 88 LVGGCVRDLLLRRVP 102 (684)
Q Consensus 88 LVGG~VRDlLLGr~P 102 (684)
+=||.+||+|||+.|
T Consensus 44 iGGGtiRDlLLG~~P 58 (209)
T COG2860 44 IGGGTIRDLLLGHYP 58 (209)
T ss_pred hcchHHHHHHccCCC
Confidence 449999999999766
No 37
>COG4914 Predicted nucleotidyltransferase [General function prediction only]
Probab=40.45 E-value=15 Score=36.90 Aligned_cols=40 Identities=28% Similarity=0.450 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHCCCcEEEEchhHHHHHhCCC--CCCeEEEeC
Q 005665 71 PSWVVLKILKSQGFQAYLVGGCVRDLLLRRV--PKDFDVITT 110 (684)
Q Consensus 71 ~a~~VL~~L~~~G~eaYLVGG~VRDlLLGr~--PkD~DIvT~ 110 (684)
.+..||+.|+..|++--+.||.|=|..||+. |.|+|+-..
T Consensus 9 ~v~~vl~~L~d~g~~FviIG~tvv~~~l~~~~~~~DVDLF~~ 50 (190)
T COG4914 9 AVRKVLKSLNDKGVEFVIIGSTVVPFVLNIDYDPRDVDLFII 50 (190)
T ss_pred HHHHHHHHHHhcCeEEEEECCeEEEEEeccCCCccccceeec
Confidence 4567999999999999999999999999986 899998543
No 38
>PRK10578 hypothetical protein; Provisional
Probab=28.26 E-value=30 Score=35.80 Aligned_cols=15 Identities=40% Similarity=0.747 Sum_probs=13.0
Q ss_pred EEchhHHHHHhCCCC
Q 005665 88 LVGGCVRDLLLRRVP 102 (684)
Q Consensus 88 LVGG~VRDlLLGr~P 102 (684)
+=||-+||+|+|+.|
T Consensus 41 ~GGG~iRDill~~~P 55 (207)
T PRK10578 41 VGGGTIRDMALDNGP 55 (207)
T ss_pred hhcHHHHHHHcCCCC
Confidence 349999999999977
No 39
>TIGR01493 HAD-SF-IA-v2 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase. The Subfamily IA and IB capping domains are predicted by PSI-PRED to consist of an alpha helical bundle. Subfamily I encompasses such a wide region of sequence space (the sequences are highly divergent) that modelling it with a single alignment is impossible, resulting in an overly broad description which allows in many unrelated sequences. Subfamily IA and IB are separated based on an aparrent phylogenetic bifurcation. Subfamily IA is still too broad to model, but cannot be further subdivided into large chunks based on phylogenetic trees. Of the three motifs defining the HAD superfamily, the third has three variant forms : (1) hhhhsDxxx(x)D, (2) hhhhssxxx(x)D and (3) hhhhDDxxx(x)s where _s_ refers to a small amino acid and _h_ to a hydrophobic one. All three of these variants are found in subfamily IA. Individual models were made based on seeds exhibiting only o
Probab=23.05 E-value=2.9e+02 Score=26.12 Aligned_cols=24 Identities=17% Similarity=0.307 Sum_probs=15.5
Q ss_pred cccccCCCCeEeeCcCcHHHHhcCc
Q 005665 189 SLFFDPFLNKIYDYANGISDLRCLK 213 (684)
Q Consensus 189 ALayd~~~g~IiD~fGGleDLk~~~ 213 (684)
|+.+|. +|+|+|...+....-+..
T Consensus 1 ~viFD~-DGTL~D~~~~~~~~~~~~ 24 (175)
T TIGR01493 1 AMVFDV-YGTLVDVHGGVRACLAAI 24 (175)
T ss_pred CeEEec-CCcCcccHHHHHHHHHHh
Confidence 456775 588888887665554433
No 40
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=22.76 E-value=60 Score=28.88 Aligned_cols=29 Identities=31% Similarity=0.620 Sum_probs=25.0
Q ss_pred cccCCccCCCChhHHHHHHHHHHCCCcEEEEch
Q 005665 59 RNLGITRAMIPQPSWVVLKILKSQGFQAYLVGG 91 (684)
Q Consensus 59 ~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG 91 (684)
+..||++ ..+|+-++.|++.|+++..|.+
T Consensus 27 ~~LgiSR----taVwK~Iq~Lr~~G~~I~s~~~ 55 (79)
T COG1654 27 EELGISR----TAVWKHIQQLREEGVDIESVRG 55 (79)
T ss_pred HHHCccH----HHHHHHHHHHHHhCCceEecCC
Confidence 4778887 6779999999999999988876
No 41
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=22.58 E-value=1.5e+02 Score=33.89 Aligned_cols=62 Identities=19% Similarity=0.255 Sum_probs=38.4
Q ss_pred CcEEEEchhHHHHHhCCCCCCeEEEeCC----CHHHHHHH--------h---ccCcccccccCeEEEEECCEEEEEec
Q 005665 84 FQAYLVGGCVRDLLLRRVPKDFDVITTA----NLKQIRRQ--------F---HRSEIIGRRFPICRVHIKGSVIEVSS 146 (684)
Q Consensus 84 ~eaYLVGG~VRDlLLGr~PkD~DIvT~a----~~eei~k~--------F---~~~~ivG~rF~i~~V~~~G~~IEVat 146 (684)
.++|++|.+.|+-.|.-. .|+||.+-- +-+++.+. . ......-..++-+++.+.|..+||..
T Consensus 41 ~~v~~~GS~ArgT~L~G~-sDIDIfi~f~~~~~~e~l~~~gl~i~~~~~~~~~~~~~~yaeHpYv~~~~~G~~VDiVP 117 (408)
T TIGR03671 41 AEVVLVGSYARGTWLKGD-RDIDIFILFPKDTSREELEEYGLEIGHEVLKRGGNYEERYAEHPYVSGEIEGFEVDVVP 117 (408)
T ss_pred ceEEEEeeEecCCccCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHHHHhhCCCHhheeccCceEEEEEccEEEEEEe
Confidence 589999999999887622 499987532 23444433 1 01111122346677788888887754
No 42
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=21.77 E-value=2.3e+02 Score=32.74 Aligned_cols=74 Identities=18% Similarity=0.243 Sum_probs=44.2
Q ss_pred HHHHHHHHH----HCC--CcEEEEchhHHHHHhCCCCCCeEEEeCC----CHHHHHHH------------hccCcccccc
Q 005665 72 SWVVLKILK----SQG--FQAYLVGGCVRDLLLRRVPKDFDVITTA----NLKQIRRQ------------FHRSEIIGRR 129 (684)
Q Consensus 72 a~~VL~~L~----~~G--~eaYLVGG~VRDlLLGr~PkD~DIvT~a----~~eei~k~------------F~~~~ivG~r 129 (684)
+..++..|+ +.| .++++||-+.|+-.|--. .|+||.+-- +-+++.+. +++...--..
T Consensus 24 ~~~l~~~L~~~~~~~~~~~~V~l~GS~ArgT~L~Gd-sDIDIFv~fp~~~~~e~L~~~gl~i~~~~~~~~~~~~~~~yae 102 (447)
T PRK13300 24 AEELIERLEEAIKELGLDAEVELVGSTARGTWLSGD-RDIDIFVLFPKDTSREELEEKGLEIGKEVAKELLGDYEERYAE 102 (447)
T ss_pred HHHHHHHHHHHHHhcCCceEEEEEeeecCCcccCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHHHHHhhCCcceeeecc
Confidence 334444444 344 789999999999887633 599997532 22334332 1121111234
Q ss_pred cCeEEEEECCEEEEEec
Q 005665 130 FPICRVHIKGSVIEVSS 146 (684)
Q Consensus 130 F~i~~V~~~G~~IEVat 146 (684)
++-+++.++|..+||..
T Consensus 103 Hpyv~~~~~G~~VDiVP 119 (447)
T PRK13300 103 HPYVTGEIDGFEVDIVP 119 (447)
T ss_pred CceEEEEECCEEEEEEe
Confidence 56777778888887764
Done!