Query 005593
Match_columns 689
No_of_seqs 307 out of 1612
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 01:54:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005593.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005593hhsearch_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 1.5E-67 3.2E-72 575.7 33.7 280 54-342 37-324 (472)
2 TIGR01942 pcnB poly(A) polymer 100.0 1.2E-65 2.5E-70 554.2 33.4 282 55-346 1-283 (410)
3 KOG2159 tRNA nucleotidyltransf 100.0 1.3E-59 2.9E-64 502.6 16.2 380 55-442 2-410 (416)
4 COG0617 PcnB tRNA nucleotidylt 100.0 2.1E-58 4.6E-63 497.0 20.2 232 63-304 2-234 (412)
5 TIGR02692 tRNA_CCA_actino tRNA 100.0 2.9E-55 6.4E-60 480.6 25.4 254 67-330 11-273 (466)
6 PRK13299 tRNA CCA-pyrophosphor 100.0 7E-55 1.5E-59 469.9 20.8 223 68-302 5-229 (394)
7 PRK10885 cca multifunctional t 100.0 7E-50 1.5E-54 432.9 27.8 233 84-330 1-242 (409)
8 PRK13298 tRNA CCA-pyrophosphor 100.0 7.2E-49 1.6E-53 424.9 26.1 230 84-328 1-241 (417)
9 PRK13297 tRNA CCA-pyrophosphor 100.0 2E-49 4.2E-54 422.5 20.3 212 80-305 8-223 (364)
10 PRK13296 tRNA CCA-pyrophosphor 100.0 3.5E-46 7.6E-51 395.7 20.0 203 84-305 1-212 (360)
11 cd05398 NT_ClassII-CCAase Nucl 100.0 7.4E-33 1.6E-37 260.5 13.6 132 70-211 2-139 (139)
12 PF01743 PolyA_pol: Poly A pol 100.0 7.6E-33 1.6E-37 255.9 11.5 122 86-215 1-126 (126)
13 PHA01806 hypothetical protein 99.9 3.5E-22 7.6E-27 196.8 10.9 113 59-195 11-151 (200)
14 PRK03381 PII uridylyl-transfer 99.6 8.6E-15 1.9E-19 170.8 12.9 142 209-354 313-457 (774)
15 PRK00227 glnD PII uridylyl-tra 99.6 1.4E-14 3.1E-19 166.9 13.1 140 209-354 275-417 (693)
16 TIGR01693 UTase_glnD [Protein- 99.6 1.4E-14 3.1E-19 170.2 12.9 122 209-332 319-445 (850)
17 PRK00275 glnD PII uridylyl-tra 99.5 1.5E-14 3.3E-19 171.0 11.8 133 199-333 339-478 (895)
18 PRK03059 PII uridylyl-transfer 99.5 1.4E-13 3.1E-18 162.2 12.0 124 207-332 327-457 (856)
19 PRK05092 PII uridylyl-transfer 99.5 1.3E-13 2.7E-18 163.9 11.6 120 209-332 384-510 (931)
20 PRK01759 glnD PII uridylyl-tra 99.3 6.3E-12 1.4E-16 148.5 12.8 122 208-333 325-454 (854)
21 PRK05007 PII uridylyl-transfer 99.3 1.9E-11 4.1E-16 144.9 12.0 123 209-333 350-479 (884)
22 PF12627 PolyA_pol_RNAbd: Prob 99.2 1.3E-11 2.8E-16 101.0 6.6 62 242-303 1-62 (64)
23 PRK04374 PII uridylyl-transfer 98.9 4.2E-09 9.1E-14 125.0 12.8 120 211-332 341-466 (869)
24 COG2844 GlnD UTP:GlnB (protein 98.5 1.4E-06 3E-11 101.7 16.1 147 210-359 337-503 (867)
25 cd07749 NT_Pol-beta-like_1 Nuc 91.5 0.97 2.1E-05 44.8 8.6 71 72-145 6-89 (156)
26 PF09970 DUF2204: Nucleotidyl 90.2 0.73 1.6E-05 46.1 6.5 41 72-112 5-47 (181)
27 PF10706 Aminoglyc_resit: Amin 79.7 4.5 9.7E-05 40.8 6.1 51 71-121 8-62 (174)
28 PF06042 DUF925: Bacterial pro 74.4 3.9 8.4E-05 40.8 4.1 35 76-110 1-44 (163)
29 cd05397 NT_Pol-beta-like Nucle 73.8 4 8.6E-05 32.5 3.3 35 74-110 6-42 (49)
30 cd05402 NT_PAP_TUTase Nucleoti 64.8 27 0.00059 31.4 7.1 63 82-146 18-98 (114)
31 COG3575 Uncharacterized protei 59.3 9.5 0.00021 38.8 3.4 41 69-109 14-63 (184)
32 PF08843 DUF1814: Nucleotidyl 57.3 12 0.00027 36.7 3.9 38 75-112 2-44 (233)
33 PF03458 UPF0126: UPF0126 doma 55.1 6.7 0.00014 34.5 1.4 15 89-103 40-54 (80)
34 COG2860 Predicted membrane pro 49.3 8.7 0.00019 39.9 1.3 15 88-102 44-58 (209)
35 PF01909 NTP_transf_2: Nucleot 45.1 24 0.00052 30.1 3.3 34 74-110 6-39 (93)
36 PF14907 NTP_transf_5: Unchara 42.7 2E+02 0.0043 29.0 9.9 55 67-121 55-114 (249)
37 COG4914 Predicted nucleotidylt 41.6 15 0.00032 37.1 1.6 39 71-109 9-49 (190)
38 PRK10578 hypothetical protein; 29.7 28 0.0006 36.1 1.4 13 90-102 43-55 (207)
39 TIGR01493 HAD-SF-IA-v2 Haloaci 28.7 1.6E+02 0.0035 27.8 6.4 24 189-213 1-24 (175)
40 PRK13973 thymidylate kinase; P 23.2 1E+02 0.0022 31.1 4.0 44 62-105 10-61 (213)
41 TIGR03671 cca_archaeal CCA-add 21.4 1.6E+02 0.0036 33.6 5.6 74 72-146 23-117 (408)
No 1
>PRK11623 pcnB poly(A) polymerase I; Provisional
Probab=100.00 E-value=1.5e-67 Score=575.74 Aligned_cols=280 Identities=30% Similarity=0.475 Sum_probs=256.7
Q ss_pred eeccCcccCcccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccCeE
Q 005593 54 KTVDSRNLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFPIC 133 (689)
Q Consensus 54 ~~~~~~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT~A~peei~k~F~~~~ivG~rF~i~ 133 (689)
..++.++|||++.+||+.++.|++.|+++||++|||||||||+|||++|+||||+|+|+|+++.+.|++|.++|++|+++
T Consensus 37 ~~i~~~~H~i~~~~i~~~a~~Vl~~L~~~G~eaYLVGG~VRDlLLG~~pkD~DIaT~A~peev~~lf~~~r~iGrrF~~~ 116 (472)
T PRK11623 37 TVIPREQHAISRKDISENALKVLYRLNKAGYEAYLVGGGVRDLLLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFRLA 116 (472)
T ss_pred eEeeccccCcCcccCCHHHHHHHHHHHHCCCeEEEeChHHHHHHcCCCCCCEEEecCCCHHHHHHHhhhCeeecCCCCEE
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEECCEEEEEecccccccccCC--------CceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCc
Q 005593 134 RVHIKGSVIEVSSFETVAKHGEG--------KETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANG 205 (689)
Q Consensus 134 ~V~~~g~~IEVaTFRte~~~~~~--------~~~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGG 205 (689)
||.+++..|||+|||++.+...+ ...+.+.++.+|++++|+ .||||||||||||+.++.|+|||||
T Consensus 117 hV~~~~~~iEVaTfR~~~~~~~~~~~~~~~~~~g~~~rdn~~gtieeDl------~RRDFTINALayd~~~~~IiD~~gG 190 (472)
T PRK11623 117 HVMFGPEIIEVATFRGHHEGNESDRNTSQRGQNGMLLRDNIFGSIEEDA------QRRDFTINSLYYSVADFTVRDYVGG 190 (472)
T ss_pred EEEECCceEEEeccccccccccccccccccCCCCceecccCCCCHHHHH------HhccccHHHheecCCCCeEecCCCC
Confidence 99999999999999987643321 123455667788999996 7999999999999988999999999
Q ss_pred HHHHhcCceeeccccccccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHH
Q 005593 206 ISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSI 285 (689)
Q Consensus 206 leDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~~~~L 285 (689)
++||++|+||+||+|..+|.|||+|||||+|||++|||+|+++|..+|++++.+|..+|++||++|+.|||.++++..++
T Consensus 191 ~~DLk~riLR~IGdp~~rf~EDPlRmLRAvRFAArLgF~Ie~~T~~aI~~~a~lL~~vs~eRI~~El~KlL~~~~~~~~~ 270 (472)
T PRK11623 191 MKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRLATLLNDIPPARLFEESLKLLQAGYGYETY 270 (472)
T ss_pred HHHHhCCceeecCChHhhcccchHHHHHHHHHHHHhCCCcCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHcCCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCchhhhhhhhhhhhhccCcCCCchhHHHHHHHHhHHhhhhCCCCCchhhH
Q 005593 286 CLLRRYNLLKILLPFHAAYLDQQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLW 342 (689)
Q Consensus 286 ~lL~e~GLL~~lfPe~a~~~~~q~~~h~~t~d~~Ll~lL~~Ld~ll~~~rp~~~~lW 342 (689)
++|+++|||..+||++..++..... .....++..++.++|.++..++++++...
T Consensus 271 ~lL~e~GLl~~lfPel~~~~~~~~~---~~~~~~~~~~l~~tD~ri~~~~~v~p~fl 324 (472)
T PRK11623 271 KLLCEYHLFQPLFPTITRYFTENGD---SPMERIIEQVLKNTDTRIHNDMRVNPAFL 324 (472)
T ss_pred HHHHHcCCHHHHhHhHHHHhccccc---cHHHHHHHHHHHHHHHHHhCCCCCCHHHH
Confidence 9999999999999999987653322 12346788999999999999999987433
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=1.2e-65 Score=554.18 Aligned_cols=282 Identities=31% Similarity=0.498 Sum_probs=253.2
Q ss_pred eccCcccCcccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccCeEE
Q 005593 55 TVDSRNLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFPICR 134 (689)
Q Consensus 55 ~~~~~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT~A~peei~k~F~~~~ivG~rF~i~~ 134 (689)
++++++|||++++||+.+..|++.|+++||++|||||||||+|||++|+||||+|+|+|+++++.|+++.++|++|++++
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 005593 135 VHIKGSVIEVSSFETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKL 214 (689)
Q Consensus 135 V~~~g~~IEVaTFRte~~~~~~~~~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiI 214 (689)
|.+++..|||+|||++.+...........++.+|++++|+ .||||||||||||+.+++|+||+||++||++|+|
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 9999999999999997543222223344556678999996 7999999999999998999999999999999999
Q ss_pred eeccccccccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCc
Q 005593 215 RTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLL 294 (689)
Q Consensus 215 R~Vg~p~~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL 294 (689)
|+||+|..+|.|||+|||||+|||++|||.|+++|..+|++++..|..+|++||++|+.|||.++++..++++|.++|+|
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 hhhhhhhhhhhhhccCcCCCchhHHHHHHHHh-HHhhhhCCCCCchhhHHHHH
Q 005593 295 KILLPFHAAYLDQQAGKITAENPMMLMRLFFN-LDKLVSCDRPADYTLWVGLL 346 (689)
Q Consensus 295 ~~lfPe~a~~~~~q~~~h~~t~d~~Ll~lL~~-Ld~ll~~~rp~~~~lWlalL 346 (689)
..+||++...+..... ....++..++.+ +|.++..++++++..+++++
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 9999998865432211 124467777888 99999999999875554433
No 3
>KOG2159 consensus tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-59 Score=502.58 Aligned_cols=380 Identities=32% Similarity=0.444 Sum_probs=306.2
Q ss_pred eccCcccCcccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcc-cccccCeE
Q 005593 55 TVDSRNLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEI-IGRRFPIC 133 (689)
Q Consensus 55 ~~~~~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT~A~peei~k~F~~~~i-vG~rF~i~ 133 (689)
+++..++| .+++++....|++.+++.|+++|+|||||||+|||++|+|+||+|+|.+.|+++.|..+.+ +|.+|+.|
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 45566666 7899999999999999999999999999999999999999999999999999999998877 89999999
Q ss_pred EEEECCEEE---EEeccc-----ccccccCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCc
Q 005593 134 RVHIKGSVI---EVSSFE-----TVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANG 205 (689)
Q Consensus 134 ~V~~~g~~I---EVaTFR-----te~~~~~~~~~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGG 205 (689)
|+..+.... |.+++| -+......+..++-+ +....|..+|.||.|||||||||+||+++|+|+||+||
T Consensus 80 h~~~np~~skhletat~~i~~~~iD~v~lr~~~y~e~~----~~~~~dgt~~~nalRRD~TIN~Lffn~~~~~VeDytgG 155 (416)
T KOG2159|consen 80 HVIMGPIKSKHLETATFRITTLRIDFVNLRREAYTETS----IPYVTDGTRDENALRRDFTINSLFFNPFDGTVEDYTGG 155 (416)
T ss_pred eeecCCcceeeecceeeeeeccccceeecCcccccccC----CCCCCcCcchhhhhhhccchhhhhccCCCCceeecccc
Confidence 977654322 222332 211111111111100 11234556677899999999999999999999999999
Q ss_pred HHHHhcCceeeccccccccchhhHhHhHHHHHHHHhCCCC---cHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHH
Q 005593 206 ISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSF---CKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAE 282 (689)
Q Consensus 206 leDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLGF~I---d~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~~ 282 (689)
++||++++||+|++|.++|.|||+||||+||||+|+||+| +++|..+++.++.++.+||+|||+.|+.|||.++.+.
T Consensus 156 ~eDL~~~kvrt~~~A~~tf~eDpLRILR~iRFaaRlgftid~~~~e~~~~~k~~~~~~~kIS~ERI~~Ei~kmL~g~~~~ 235 (416)
T KOG2159|consen 156 LEDLKNKKVRTVLHAKQTFLEDPLRILRGIRFAARLGFTIDEESKETLEAIKENVALLAKISRERIGVEINKMLVGNSAE 235 (416)
T ss_pred HhHHhcCeEEeeccccceeccchHHHHHHHHHHHhhcCccCcccHHHHhhHHHHHHHhccccHHHHHHHHHHHHcCCcHH
Confidence 9999999999999999999999999999999999999999 8888899999999999999999999999999999999
Q ss_pred HHHHHHHH-cCCchhhhhhhhhhhhhccCcCCCchhHHHHHHHHhHHhhhhCCCCCchhhHHHHHHHHHHhcCCchhHHH
Q 005593 283 SSICLLRR-YNLLKILLPFHAAYLDQQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLWVGLLSFHQALVSDPQDAFV 361 (689)
Q Consensus 283 ~~L~lL~e-~GLL~~lfPe~a~~~~~q~~~h~~t~d~~Ll~lL~~Ld~ll~~~rp~~~~lWlalLaf~~aL~~~p~~a~v 361 (689)
.+|++|++ .|+...++|..+.+..-+.......-..+.+.++.++++....+.||+..+|++.+++|..+..+|..+.+
T Consensus 236 ~~L~ll~~~~~~~~i~lp~~~s~~~f~~~~~~~~~s~~~~sl~~~l~~~~~~~~~~~~~l~l~~~~~~~~~~~~~r~~~v 315 (416)
T KOG2159|consen 236 ASLRLLWRLFGFEYIFLPIEASLEEFQGFNRRDGFSNEPLSLLANLDKSLAPDEPCHLRLKLSILELLKKFIDQPRFPTV 315 (416)
T ss_pred HHHHHHHHhcCceEEeccchhhhhhccccccccccchhHHHHHhcccccccccchhhhhHHHHHHhhhhHhhccccccce
Confidence 99999999 77888889977665432222112222347788999999999999999999999999999999999999999
Q ss_pred HHHHHHhhccCchhhhHHHHHHHhCCCCcchhhhcccccccchHH-H-HHHHHHHHHHHHHHHHHhc-------------
Q 005593 362 VWVFASVLYHGKWKEGVKFARDRAKEPVKFVPEISGFSEIESDEQ-L-AVKVTELALSVQDCVNDLT------------- 426 (689)
Q Consensus 362 ~wa~a~ll~~g~~~e~lk~~r~~~k~~~~~~~el~~~~~~~~~~~-L-~e~v~~la~lv~~~~~~~~------------- 426 (689)
.|+.+.+.+.. .+.+...+.+.+.+..+...+..+.+-..+.+ + ...+..+.+++.+++..++
T Consensus 316 ~~~~~~~~~~~--~~~~~i~~~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~g~llr~l 393 (416)
T KOG2159|consen 316 PAVSSSAPLSK--LQDVEIPKKIEKDHDRLRQLLVSQEKNELDNETLLDWSVPDFPISINDLAIEGTSKGSIIGALLRYL 393 (416)
T ss_pred eeeecccchhh--hhhhhcccccccchHHHHHHhcchHhhhhHHHHHhhhccCchHHHHHHHHHhhcccchhHHHHHHhh
Confidence 98877666533 45677777777888887888877665322222 2 2336778888988888887
Q ss_pred -cCCCCcEEeehHHHHH
Q 005593 427 -KASSGYVFVSKKIERN 442 (689)
Q Consensus 427 -~~~s~~vfv~~~~~~~ 442 (689)
.|.++.||.|..++..
T Consensus 394 ~~~w~~~~~~~~~~~~l 410 (416)
T KOG2159|consen 394 QAPWSDSVFTSLKDSLL 410 (416)
T ss_pred hhhHHHHHhHHHHHHHh
Confidence 3588888888887654
No 4
>COG0617 PcnB tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.1e-58 Score=496.99 Aligned_cols=232 Identities=36% Similarity=0.532 Sum_probs=217.1
Q ss_pred cccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccCeEEEEECCEEE
Q 005593 63 ITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFPICRVHIKGSVI 142 (689)
Q Consensus 63 I~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT~A~peei~k~F~~~~ivG~rF~i~~V~~~g~~I 142 (689)
+....+++.+..|+..|+++||++|||||||||+|||++|+|+||+|++.|+++...|+++..+|++|+++++.++|..+
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 55677889999999999999999999999999999999999999999999999999999999999999999999988999
Q ss_pred EEeccccccc-ccCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccc
Q 005593 143 EVSSFETVAK-HGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAY 221 (689)
Q Consensus 143 EVaTFRte~~-~~~~~~~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiIR~Vg~p~ 221 (689)
||+|||++.+ ..+.+..+ ..++++++|+ .||||||||||||+.+|+|+|||||+.||++|+||+||+|+
T Consensus 82 ev~T~R~~~~~~~~~~~~~----~~~~tleeDl------~RRDFTINAla~~~~~~~iiD~~gG~~DL~~~~lR~i~~~~ 151 (412)
T COG0617 82 EVTTFRKEGYGYNGRPLPV----VFPGTLEEDL------KRRDFTINALAYDPEDGEIIDPFGGLKDLENRVLRHIGDAS 151 (412)
T ss_pred EEEEeecCCCCcCCCcCCc----CCCCCHHHHH------HHhcccHHhhccCCCCCeEEeCCCCHHHHhcCceeccCCHH
Confidence 9999999875 33333333 3457888886 79999999999999999999999999999999999999999
Q ss_pred cccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhh
Q 005593 222 LSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFH 301 (689)
Q Consensus 222 ~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lfPe~ 301 (689)
+||.|||+|||||+|||++|||.+++.|..+|+.....+..+|+|||+.|+.|||.++++..++++|.++|+++.+||++
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 005593 302 AAY 304 (689)
Q Consensus 302 a~~ 304 (689)
...
T Consensus 232 ~~~ 234 (412)
T COG0617 232 DKL 234 (412)
T ss_pred HHh
Confidence 753
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=2.9e-55 Score=480.61 Aligned_cols=254 Identities=25% Similarity=0.316 Sum_probs=228.3
Q ss_pred CCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhcc----CcccccccCeEEEEECCEEE
Q 005593 67 MIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHR----SEIIGRRFPICRVHIKGSVI 142 (689)
Q Consensus 67 ~ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT~A~peei~k~F~~----~~ivG~rF~i~~V~~~g~~I 142 (689)
..++.+..|++.|+++||++|+|||||||+|||++|+|+||+|+++|+++.+.|+. ...+|..|++++|..+|..+
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 34678889999999999999999999999999999999999999999999999873 45679999999999999999
Q ss_pred EEecccccccccCCC-ceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCC---eEeeCcCcHHHHhcCceeecc
Q 005593 143 EVSSFETVAKHGEGK-ETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLN---KIYDYANGISDLRCLKLRTLI 218 (689)
Q Consensus 143 EVaTFRte~~~~~~~-~~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g---~LiD~fGGleDLk~kiIR~Vg 218 (689)
||++||++.|..++. +.|.+. +++++|| .||||||||||||+.++ .|+|||||++||++|+||+|+
T Consensus 91 ei~~~r~e~~~~~~~~~~v~~~----~~i~~Dl------~rRDFTiNA~a~~~~~~~~g~l~D~~~G~~Dl~~~~ir~v~ 160 (466)
T TIGR02692 91 EITTFRSDSYDGTSRKPEVTFG----DTLEGDL------IRRDFTVNAMAVRIPADGSLEFHDPVGGLDDLLAKVLDTPA 160 (466)
T ss_pred EEEecccccCcCCCCCCcccCC----CCHHHHH------HhccccHHHhhccccCCCCceeecCCCcHHHHhCCceEecC
Confidence 999999988765443 334332 3678886 79999999999998654 899999999999999999999
Q ss_pred ccccccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhh
Q 005593 219 PAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILL 298 (689)
Q Consensus 219 ~p~~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lf 298 (689)
+|..+|.|||+|||||+|||+++||.|+++|..+|+..+..+..++.||++.|+.+||.++++..+++.|.++|+|..+|
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-hccCcCCCchhHHHHHHHHhHHhh
Q 005593 299 PFHAAYLD-QQAGKITAENPMMLMRLFFNLDKL 330 (689)
Q Consensus 299 Pe~a~~~~-~q~~~h~~t~d~~Ll~lL~~Ld~l 330 (689)
|++..... +...+|.+++..|++.++..+..+
T Consensus 241 Pe~~~~~~~~~~~~h~~~v~~Htl~vl~~~~~l 273 (466)
T TIGR02692 241 PEIPALRLEIDEHHQHKDVYEHSLTVLRQAIDL 273 (466)
T ss_pred chHHHHhcccccCCCCCcHHHHHHHHHHHHHhc
Confidence 99886543 445678889999999988877654
No 6
>PRK13299 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=7e-55 Score=469.86 Aligned_cols=223 Identities=30% Similarity=0.411 Sum_probs=205.0
Q ss_pred CChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCcccccccCeEEEEECCEEEEEecc
Q 005593 68 IPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSEIIGRRFPICRVHIKGSVIEVSSF 147 (689)
Q Consensus 68 ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT~A~peei~k~F~~~~ivG~rF~i~~V~~~g~~IEVaTF 147 (689)
....+..|++.|+++|+++|+|||||||+|||++|+|+||+|++.|+++.+.|+++..+|.+|++++|..+|..|||+||
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 34678899999999999999999999999999999999999999999999999987778999999999999999999999
Q ss_pred cccccc--cCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccccccc
Q 005593 148 ETVAKH--GEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFT 225 (689)
Q Consensus 148 Rte~~~--~~~~~~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiIR~Vg~p~~rF~ 225 (689)
|++... .+.+..+.+. +++++|| +||||||||||||+. |.|+|||||++||++|+||+||+|..+|.
T Consensus 85 R~e~~~~d~~~p~~~~~~----~~i~eDl------~RRDFTINAma~~~~-g~liDpf~G~~DL~~~~iR~v~~~~~~f~ 153 (394)
T PRK13299 85 RTESEYVDYRRPSEVTFV----RSLEEDL------KRRDFTINAIAMDEN-GEIIDLFDGLEDLKNRLIRAVGNAEERFQ 153 (394)
T ss_pred ccccCccCCCCCccccCC----CCHHHHH------HhccccHHHhhcCCC-CCEeeCCCCHHHHhCCceeecCCHHHhhc
Confidence 997332 2223344443 4678886 799999999999984 78999999999999999999999999999
Q ss_pred hhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhh
Q 005593 226 EDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHA 302 (689)
Q Consensus 226 EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lfPe~a 302 (689)
|||+|||||+|||++|||+|+++|..+|++++..+..+|+|||+.|+.+||.++++..++++|.++|++.. +|++.
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 99999999999999999999999999999999999999999999999999999999999999999999999 89865
No 7
>PRK10885 cca multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed
Probab=100.00 E-value=7e-50 Score=432.89 Aligned_cols=233 Identities=29% Similarity=0.353 Sum_probs=200.1
Q ss_pred CcEEEEchhHHHHHhCCCCCCeEEE-eCCCHHHHHHHhccCcccccccCeEEEEECCEEEEEecccccccccCCCceeee
Q 005593 84 FQAYLVGGCVRDLLLRRVPKDFDVI-TTANLKQIRRQFHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKETVLL 162 (689)
Q Consensus 84 ~eaYLVGG~VRDLLLGr~PkD~DIv-T~A~peei~k~F~~~~ivG~rF~i~~V~~~g~~IEVaTFRte~~~~~~~~~V~f 162 (689)
+++|+|||||||+|||++|+|+||+ +.++|+++.+. ....+|+.|+++.+ .+..+|++++|++.+.+++.....+
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 5799999999999999999999986 45788888764 33458999998754 3556799999999877666544444
Q ss_pred cCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccccccchhhHhHhHHHHHHHHh-
Q 005593 163 SQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL- 241 (689)
Q Consensus 163 s~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRL- 241 (689)
...+..++++|| .||||||||||||+ +|.|||||||++||++|+||+|++ +|.|||+|||||+|||++|
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 334456889997 79999999999995 588999999999999999999996 5999999999999999999
Q ss_pred --CCCCcHHHHHHHHHhhh--hccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhhh--hccCcCC-C
Q 005593 242 --GLSFCKDIDTAMHSLSS--SIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYLD--QQAGKIT-A 314 (689)
Q Consensus 242 --GF~Id~~T~~aIr~~a~--lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lfPe~a~~~~--~q~~~h~-~ 314 (689)
||+|+++|..+|++.+. .|..+++|||+.|+.++|.++++..+++.|.++|+|..+||++....+ +...+|. +
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 99999999999999887 899999999999999999999999999999999999999999987665 3344554 5
Q ss_pred chhHHHHHHHHhHHhh
Q 005593 315 ENPMMLMRLFFNLDKL 330 (689)
Q Consensus 315 t~d~~Ll~lL~~Ld~l 330 (689)
++..|++.++..+..+
T Consensus 227 dv~~Htl~~l~~~~~l 242 (409)
T PRK10885 227 DTGIHTLMVLDQAAKL 242 (409)
T ss_pred cHHHHHHHHHHHHHhc
Confidence 7888998888776653
No 8
>PRK13298 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=7.2e-49 Score=424.94 Aligned_cols=230 Identities=27% Similarity=0.277 Sum_probs=191.6
Q ss_pred CcEEEEchhHHHHHhCCCCCCeEEEeCC-CHHHHHHH-hccCcccccccCeEEEEECCEEEEEecccccccccCCCceee
Q 005593 84 FQAYLVGGCVRDLLLRRVPKDFDVITTA-NLKQIRRQ-FHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKETVL 161 (689)
Q Consensus 84 ~eaYLVGG~VRDLLLGr~PkD~DIvT~A-~peei~k~-F~~~~ivG~rF~i~~V~~~g~~IEVaTFRte~~~~~~~~~V~ 161 (689)
+++|+|||||||+|||++|+|+|++|.+ +|+++.+. |. .+|+.|+++.+ .+...|++++|++.+.+.+.....
T Consensus 1 m~~YlVGGaVRD~LLg~~~~D~D~vv~g~~~~~~~~~~~~---~vG~~f~v~l~--~~~~~e~a~aRter~~g~g~~g~~ 75 (417)
T PRK13298 1 MKIYLVGGAVRDSLLNLPVKDKDWVVVGGTPKILLSINFQ---QVGKDFPVFLH--PETHEEYALARTERKSGVGYTGFI 75 (417)
T ss_pred CcEEEEccHHHHHHcCCCCCCeeEEecCCCHHHHHHHHHH---HhCCeeEEEEe--CceeEEEEeecccccccCCCCCcc
Confidence 5799999999999999999999987765 58887553 32 36999998775 345679999999987666554433
Q ss_pred ecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccccccchhhHhHhHHHHHHHHh
Q 005593 162 LSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL 241 (689)
Q Consensus 162 fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRL 241 (689)
+...+..++++|| .||||||||||||+. |.|||||||++||++|+||+|++ +|.|||+|||||+|||++|
T Consensus 76 ~~~~~~~tleeDL------~RRDFTINAmA~~~~-g~liDp~~G~~DL~~r~lR~v~~---~F~EDPLRiLRa~RFaar~ 145 (417)
T PRK13298 76 TDTSSDVTLEEDL------IRRDLTINAIAQDEN-GNYIDPFQGKKDIQLRLLRHVSE---SFIEDPLRVLRVARFAALL 145 (417)
T ss_pred cccCCCCCHHHHH------HhcccceeeeEECCC-CCEEeCCCcHHHHHCCcEecCCc---ccccCHHHHHHHHHHHHHh
Confidence 3333446888987 799999999999985 78999999999999999999985 7999999999999999995
Q ss_pred ---CCCCcHHHHHHHHHhh--hhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhhh-hcc---CcC
Q 005593 242 ---GLSFCKDIDTAMHSLS--SSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYLD-QQA---GKI 312 (689)
Q Consensus 242 ---GF~Id~~T~~aIr~~a--~lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lfPe~a~~~~-~q~---~~h 312 (689)
||+|+++|..+|++.+ ..|..+|+|||+.|+.|+|.+++|..+++.|.++|+|..+||++..... ++. ..|
T Consensus 146 ~~lgF~i~~~T~~~i~~~~~~~~l~~~s~ERI~~El~k~L~~~~p~~~~~~L~~~g~L~~~~PEl~~~~g~~q~~~~~~~ 225 (417)
T PRK13298 146 VHLGFKIAKETMILMCIMVKKHELLYLTPERIWNETEKALKTDNPHVYFQVLYECNALKFLFPEIDFLYEKPYFLNSFFK 225 (417)
T ss_pred ccCCCccCHHHHHHHHHHhhhhhhhcCCHHHHHHHHHHHHcCCCHHHHHHHHHHcCCHHHhCcchHHHcCCCCCccccCC
Confidence 9999999999999998 7899999999999999999999999999999999999999999987654 222 234
Q ss_pred CCchhHHHHHHHHhHH
Q 005593 313 TAENPMMLMRLFFNLD 328 (689)
Q Consensus 313 ~~t~d~~Ll~lL~~Ld 328 (689)
......|++..+....
T Consensus 226 ~~d~~~htl~~l~~~~ 241 (417)
T PRK13298 226 KFNLGNYILMGLSKIS 241 (417)
T ss_pred chhHHHHHHHHHHHHH
Confidence 3445556666555443
No 9
>PRK13297 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=2e-49 Score=422.50 Aligned_cols=212 Identities=28% Similarity=0.324 Sum_probs=187.0
Q ss_pred HHCCCcEEEEchhHHHHHhCCCCCCeEEEe-CCCHHHHHHHhccCcccccccCeEEEEECCEEEEEecccccccccCCCc
Q 005593 80 KSQGFQAYLVGGCVRDLLLRRVPKDFDVIT-TANLKQIRRQFHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKE 158 (689)
Q Consensus 80 ~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT-~A~peei~k~F~~~~ivG~rF~i~~V~~~g~~IEVaTFRte~~~~~~~~ 158 (689)
..+|+++|+|||||||+|||++|+|+|+++ .++|+++.+. ....+|..|+++.. .+..+|++++|++.+.+++..
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 5779999875 34557888886532 356689999999988887776
Q ss_pred eeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccccccchhhHhHhHHHHHH
Q 005593 159 TVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIA 238 (689)
Q Consensus 159 ~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFA 238 (689)
.+.+...+..++++|| .||||||||||||+. |.|||||||++||++|+||+|++ +|.|||+|||||+|||
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 88999999999999999999985 7999999999999999
Q ss_pred HHhC-CCCcHHHHHHHHHhhh--hccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhh
Q 005593 239 ARLG-LSFCKDIDTAMHSLSS--SIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYL 305 (689)
Q Consensus 239 aRLG-F~Id~~T~~aIr~~a~--lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lfPe~a~~~ 305 (689)
++|| |+|+++|..+|++.+. .|..+++|||+.|+.|+|.++++..+|++|.++|+|..+||++....
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 9996 9999999999999875 68999999999999999999999999999999999999999987543
No 10
>PRK13296 tRNA CCA-pyrophosphorylase; Provisional
Probab=100.00 E-value=3.5e-46 Score=395.74 Aligned_cols=203 Identities=31% Similarity=0.422 Sum_probs=172.7
Q ss_pred CcEEEEchhHHHHHhCCCCCCeEEEeCCC-HHHHHH-HhccCcccccccCeEEEEECCEEEEEecccccccccCCCc--e
Q 005593 84 FQAYLVGGCVRDLLLRRVPKDFDVITTAN-LKQIRR-QFHRSEIIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKE--T 159 (689)
Q Consensus 84 ~eaYLVGG~VRDLLLGr~PkD~DIvT~A~-peei~k-~F~~~~ivG~rF~i~~V~~~g~~IEVaTFRte~~~~~~~~--~ 159 (689)
+++|+|||||||+|||++|+|+||++++. ++++.. .|. .+|..|+++. ..+..+||+++|++.+..++.. .
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 57999999999999999999999987665 444443 343 3577777653 3567899999999988766643 5
Q ss_pred eeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCceeeccccccccchhhHhHhHHHHHHH
Q 005593 160 VLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAA 239 (689)
Q Consensus 160 V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAa 239 (689)
|+++. .+++++|| .||||||||||||+. |.|+|||||++||++|+||+++ .+|.|||+|||||+|||+
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 66553 34788886 799999999999985 8899999999999999999985 389999999999999999
Q ss_pred Hh---CCCCcHHHHHHHHHhh--hhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhhhh
Q 005593 240 RL---GLSFCKDIDTAMHSLS--SSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAAYL 305 (689)
Q Consensus 240 RL---GF~Id~~T~~aIr~~a--~lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lfPe~a~~~ 305 (689)
+| ||.|+++|..+|++.+ ..|..+++|||+.|+.|+|.+ +..+++.|.++|+|..+||++....
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 9999999999999985 589999999999999999984 5689999999999999999987643
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=7.4e-33 Score=260.53 Aligned_cols=132 Identities=36% Similarity=0.536 Sum_probs=110.7
Q ss_pred hhHHHHHHHHHHC-CCcEEEEchhHHHHHhCCCCCCeEEEeCC-CHHHHHHHhcc--Cccc--ccccCeEEEEECCEEEE
Q 005593 70 QPSWVVLKILKSQ-GFQAYLVGGCVRDLLLRRVPKDFDVITTA-NLKQIRRQFHR--SEII--GRRFPICRVHIKGSVIE 143 (689)
Q Consensus 70 ~~a~~VL~~L~~~-G~eaYLVGG~VRDLLLGr~PkD~DIvT~A-~peei~k~F~~--~~iv--G~rF~i~~V~~~g~~IE 143 (689)
+.+..|++.|.++ |+++|+|||||||+|||++|+|+||+|++ .++.+.+.++. ...+ |.+|+++++.+++..+|
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 66777777652 3344 56999999999999999
Q ss_pred EecccccccccCCCceeeecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhc
Q 005593 144 VSSFETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRC 211 (689)
Q Consensus 144 VaTFRte~~~~~~~~~V~fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~ 211 (689)
|++||++.+..++.... ....++++|| .|||||||||||++.++.|+|||||++||++
T Consensus 82 i~~~R~e~~~~~~~~p~----~~~~~~~~Dl------~RRDFTINAmA~~~~~~~liDp~~G~~DL~~ 139 (139)
T cd05398 82 VATLRTETYTDPGRRPP----VVGFTIEEDL------LRRDFTINAMAYDLDDGELIDPFGGLKDLEN 139 (139)
T ss_pred EcccccccccCCCCCCc----ccCCCCHHHH------hhcCcchhheEecCCCCEEEeCCCCHHHHhC
Confidence 99999998876543211 1223556775 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=100.00 E-value=7.6e-33 Score=255.95 Aligned_cols=122 Identities=39% Similarity=0.598 Sum_probs=97.3
Q ss_pred EEEEchhHHHHHhCCCCCCeEEEeCCCHHHHHHHhccCc----ccccccCeEEEEECCEEEEEecccccccccCCCceee
Q 005593 86 AYLVGGCVRDLLLRRVPKDFDVITTANLKQIRRQFHRSE----IIGRRFPICRVHIKGSVIEVSSFETVAKHGEGKETVL 161 (689)
Q Consensus 86 aYLVGG~VRDLLLGr~PkD~DIvT~A~peei~k~F~~~~----ivG~rF~i~~V~~~g~~IEVaTFRte~~~~~~~~~V~ 161 (689)
+|+|||||||+|||++|+|+||+|+++|+++++.|.... .+|++|+++++.+++..+||++||++.+..++.....
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 3489999999999998999999999987665432211
Q ss_pred ecCCCCCCchhhhhhhhhhcccccccccccccCCCCeEeeCcCcHHHHhcCcee
Q 005593 162 LSQIPYGCDEIDLVRWRNSIHRDFTINSLFFDPFLNKIYDYANGISDLRCLKLR 215 (689)
Q Consensus 162 fs~~~~gtieeDL~~w~Da~RRDFTINALAyd~~~g~LiD~fGGleDLk~kiIR 215 (689)
.. ...++++|| .|||||||||||++.+|+|+|||||++||++|+||
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 112567775 89999999999999999999999999999999998
No 13
>PHA01806 hypothetical protein
Probab=99.87 E-value=3.5e-22 Score=196.80 Aligned_cols=113 Identities=18% Similarity=0.099 Sum_probs=86.2
Q ss_pred cccCcccCCCChhHHHHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEe-CCCHHHHHHHhccC----cccccccCeE
Q 005593 59 RNLGITRAMIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVIT-TANLKQIRRQFHRS----EIIGRRFPIC 133 (689)
Q Consensus 59 ~~~gI~~~~ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT-~A~peei~k~F~~~----~ivG~rF~i~ 133 (689)
....|++.+|+++++.|++.|++.|+++|+|||||||+|||++|+|+||+| .+.|+++.++.... .....+.+++
T Consensus 11 ~~~~I~~~~is~~al~v~~~l~~~g~~aYlVGG~VRD~Llgr~~kDiDivt~~~~pe~v~~L~~klG~k~V~~~~~~ggw 90 (200)
T PHA01806 11 GTKEIPEGLIAKALLLRLYSDARHSEGVALAGGAARDLMHGAEPKDIDIALYGMDDRQAELLIGCILPKLVSRFLRDGGW 90 (200)
T ss_pred CccccChhHcCHHHHHHHHHHHHCCcEEEEECchHHHHHcCCCCCceEEEccCCCHHHHHHHHHHhCCccccccccccee
Confidence 345688999999999999999999999999999999999999999999999 57898888774421 1122233444
Q ss_pred E---------------------EEECCEEEEEecccccccccCCCceeeecCCCCCCchhhhhhhhhhcccccccc--cc
Q 005593 134 R---------------------VHIKGSVIEVSSFETVAKHGEGKETVLLSQIPYGCDEIDLVRWRNSIHRDFTIN--SL 190 (689)
Q Consensus 134 ~---------------------V~~~g~~IEVaTFRte~~~~~~~~~V~fs~~~~gtieeDL~~w~Da~RRDFTIN--AL 190 (689)
+ +.++|..+|++. ....++++|| .||||||| ||
T Consensus 91 r~~~~~~gd~~~~~~~~~l~g~~vl~g~tvD~A~------------------~~g~sleeDL------~rRDFTINq~AI 146 (200)
T PHA01806 91 SQEYHDGGDGGIFKGVVSLKGCRGLEGMDVDFNY------------------YDTDSVGEVM------ESFDYTINQVGI 146 (200)
T ss_pred eeeccccccccccccceeeeeeEEeCCeEEEeee------------------ccCCCHHHHH------HHcCCccchhhh
Confidence 4 333444444444 4445678997 69999999 88
Q ss_pred cccCC
Q 005593 191 FFDPF 195 (689)
Q Consensus 191 Ayd~~ 195 (689)
||++.
T Consensus 147 A~~~~ 151 (200)
T PHA01806 147 AYNWP 151 (200)
T ss_pred cccCC
Confidence 88754
No 14
>PRK03381 PII uridylyl-transferase; Provisional
Probab=99.58 E-value=8.6e-15 Score=170.78 Aligned_cols=142 Identities=18% Similarity=0.063 Sum_probs=115.7
Q ss_pred HhcCceeeccccccccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCH-HHHHHH
Q 005593 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAA-ESSICL 287 (689)
Q Consensus 209 Lk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~-~~~L~l 287 (689)
+.++.|-+..+ .+|.+||+||||++|||+++||.|+++|..+|+.++..+..++.||++.|+.++|..+++ ..+++.
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 34566666554 478999999999999999999999999999999999999999999999999999988755 569999
Q ss_pred HHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhhCCCCCchhhHHHHHHHHHHhcC
Q 005593 288 LRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLWVGLLSFHQALVS 354 (689)
Q Consensus 288 L~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~~~rp~~~~lWlalLaf~~aL~~ 354 (689)
|+++|+|..++|+++...+ +...+|.|+++.|++.++.++..+...-.+.....|.+ | ||+.-..
T Consensus 391 m~~~GvL~~~iPE~~~i~~~~Q~~~~H~ytVd~Htl~~l~~~~~~~~~~~~~~lL~lAa-L-lHDiGKg 457 (774)
T PRK03381 391 LDRTGLWGRLLPEWEAVRDLPPRDPVHRWTVDRHLVETAVRAAALTRRVARPDLLLLGA-L-LHDIGKG 457 (774)
T ss_pred HHHhCCHHHhchhHHHhhCCCCCCCCccChHHHHHHHHHHHHHHHHhccCCHHHHHHHH-H-HHhhcCC
Confidence 9999999999999998765 55678999999999999988876654332222223433 3 7876543
No 15
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=99.56 E-value=1.4e-14 Score=166.89 Aligned_cols=140 Identities=14% Similarity=0.025 Sum_probs=115.7
Q ss_pred HhcCceeeccccccccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCC-CHHHHHHH
Q 005593 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYG-AAESSICL 287 (689)
Q Consensus 209 Lk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~-~~~~~L~l 287 (689)
+.++.|+++++|. + |||+||||++|||+++||.|+++|..+|+++ ..+.....+|+..|+.++|..+ ++..+++.
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 5679999999864 4 8999999999999999999999999999988 6677778899999999999996 77899999
Q ss_pred HHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhhCCCCCchhhHHHHHHHHHHhcC
Q 005593 288 LRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSCDRPADYTLWVGLLSFHQALVS 354 (689)
Q Consensus 288 L~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~~~rp~~~~lWlalLaf~~aL~~ 354 (689)
|+++|+|..+||++....+ |+..+|.|+++.|++.++.++..+.....+.....|.+ | ||+.-..
T Consensus 351 M~~~GvL~~llPE~~~i~g~~Q~d~yH~ytVDeHTL~~l~~~~~~~~~~~~~~lL~LAA-L-lHDIGKg 417 (693)
T PRK00227 351 MDRHGLWERIVPEWDRIRGLMPREPSHIHTIDEHSLNTVANCALETVTVARPDLLLLGA-L-YHDIGKG 417 (693)
T ss_pred HHHcCCHHHHhHHHHHHhCCCCCCCCCCCcHHHHHHHHHHHHHHhhhccCccHHHHHHH-H-HHhhcCC
Confidence 9999999999999998775 55678999999999999998766654433323223333 3 7876543
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=99.56 E-value=1.4e-14 Score=170.24 Aligned_cols=122 Identities=16% Similarity=0.075 Sum_probs=110.5
Q ss_pred HhcCceeeccccccccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccCCCH--HHHHHHHHHHHhCC-CHHHHH
Q 005593 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIERLDK--SRIMMELNYMLSYG-AAESSI 285 (689)
Q Consensus 209 Lk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~Is~--eRI~~EL~KIL~~~-~~~~~L 285 (689)
+.+|.|++.++ .+|.+||+||||++||++++||.|+++|..+|++.+..|..++. +|++.||.+||..+ ++..++
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 67899999876 58999999999999999999999999999999999999999988 99999999999976 568899
Q ss_pred HHHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhh
Q 005593 286 CLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVS 332 (689)
Q Consensus 286 ~lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~ 332 (689)
+.|+++|+|..++|++....+ +...+|.++++.|++.++.++..+..
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 999999999999999987665 45568999999999999999887643
No 17
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=99.55 E-value=1.5e-14 Score=171.03 Aligned_cols=133 Identities=16% Similarity=0.069 Sum_probs=119.1
Q ss_pred EeeCcCcHHHHhcCceeeccccccccchhhHhHhHHHHHHHHhC--CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHH
Q 005593 199 IYDYANGISDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARLG--LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNY 274 (689)
Q Consensus 199 LiD~fGGleDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLG--F~Id~~T~~aIr~~a~lL~~I--s~eRI~~EL~K 274 (689)
.+||++|..||++|.||+++++ .|.+||+||||+|||+++.+ ..|++.|..+|+.++..+..+ +.+|++.||.+
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 6799999999999999999985 69999999999999999964 467799999999999999887 66789999999
Q ss_pred HHhCCC-HHHHHHHHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhhC
Q 005593 275 MLSYGA-AESSICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSC 333 (689)
Q Consensus 275 IL~~~~-~~~~L~lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~~ 333 (689)
||..++ ...+|+.|+++|+|..++|++....+ |+..+|.|++++|++.++.+++.+...
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 46789999999999999999998776 555799999999999999999877544
No 18
>PRK03059 PII uridylyl-transferase; Provisional
Probab=99.47 E-value=1.4e-13 Score=162.19 Aligned_cols=124 Identities=11% Similarity=0.042 Sum_probs=111.1
Q ss_pred HHHhcCceeeccccccccchhhHhHhHHHHHHHHh-C-CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHHHHhCCCH-
Q 005593 207 SDLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL-G-LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNYMLSYGAA- 281 (689)
Q Consensus 207 eDLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRL-G-F~Id~~T~~aIr~~a~lL~~I--s~eRI~~EL~KIL~~~~~- 281 (689)
=.+.+|.||+++++ .|.+||+||||+|||++++ | +.|++.|..+|+..+..+..+ +.+|++.||.+||..+++
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 34789999999874 6999999999999999999 5 699999999999999999888 679999999999999875
Q ss_pred HHHHHHHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhh
Q 005593 282 ESSICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVS 332 (689)
Q Consensus 282 ~~~L~lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~ 332 (689)
..+++.|+++|+|..++|++....+ |...+|.|++++|++.++.++..+..
T Consensus 405 ~~~l~~m~~~GlL~~~lPe~~~i~~~~Q~~~~H~ytVd~Htl~~v~~l~~~~~ 457 (856)
T PRK03059 405 THALRLMNQTSVLGRYLPNFRRIVGQMQHDLFHVYTVDQHILMVLRNLRRFAM 457 (856)
T ss_pred HHHHHHHHHhCCHHHhCchHhheeeeecccccccCcHhHHHHHHHHHHHHhhc
Confidence 6899999999999999999998765 55568999999999999999877544
No 19
>PRK05092 PII uridylyl-transferase; Provisional
Probab=99.47 E-value=1.3e-13 Score=163.85 Aligned_cols=120 Identities=15% Similarity=0.149 Sum_probs=105.3
Q ss_pred HhcCceeeccccccccchhhHhHhHHHHHHHHhCCCCcHHHHHHHHHhhhhccC-----CCHHHHHHHHHHHHhCCCHHH
Q 005593 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSFCKDIDTAMHSLSSSIER-----LDKSRIMMELNYMLSYGAAES 283 (689)
Q Consensus 209 Lk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLGF~Id~~T~~aIr~~a~lL~~-----Is~eRI~~EL~KIL~~~~~~~ 283 (689)
+.++.|+++++ .+|.+||+||||+||||+++||.|+++|..+|++++..+.. .+.+|+|.|+ ++..+.+..
T Consensus 384 ~~~~~i~~~~~--~~f~edPlriLR~fr~aa~~~~~i~~~T~~~i~~~~~~i~~~~~~~~~~~r~f~ei--l~~~~~~~~ 459 (931)
T PRK05092 384 VDNGRINLADP--DVFERDPVNLIRLFHLADRHGLDIHPDAMRLVTRSLRLIDAALREDPEANRLFLDI--LTSRRNPER 459 (931)
T ss_pred EECCEEEecCh--hhhhhCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcChhhccCHHHHHHHHHH--HcCCCchHH
Confidence 57799999987 47999999999999999999999999999999999988776 4679999886 455557788
Q ss_pred HHHHHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhh
Q 005593 284 SICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVS 332 (689)
Q Consensus 284 ~L~lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~ 332 (689)
++++|+++|+|..++|++....+ ++..+|.|+++.|++.++.++..+..
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 99999999999999999998665 55679999999999999999887754
No 20
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=99.33 E-value=6.3e-12 Score=148.46 Aligned_cols=122 Identities=12% Similarity=0.096 Sum_probs=104.3
Q ss_pred HHhcCceeeccccccccchhhHhHhHHHHHHHHh-CCCCcHHHHHHHHHh----hhhccCCCHHHHHHHHHHHHhCCCH-
Q 005593 208 DLRCLKLRTLIPAYLSFTEDCARILRGLRIAARL-GLSFCKDIDTAMHSL----SSSIERLDKSRIMMELNYMLSYGAA- 281 (689)
Q Consensus 208 DLk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRL-GF~Id~~T~~aIr~~----a~lL~~Is~eRI~~EL~KIL~~~~~- 281 (689)
.+.++.|.+..+ ..|.+||+||||+|||++++ ||.|+++|..+|+.. ...+..++.+| .||.+||..+.+
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 356778877665 48999999999999999999 699999999988765 44566788888 899999999775
Q ss_pred HHHHHHHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhhC
Q 005593 282 ESSICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSC 333 (689)
Q Consensus 282 ~~~L~lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~~ 333 (689)
..+++.|+++|+|..++|+++...+ ++..+|.|+++.|++.++.+++.+...
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 6889999999999999999998765 556689999999999999999876543
No 21
>PRK05007 PII uridylyl-transferase; Provisional
Probab=99.26 E-value=1.9e-11 Score=144.95 Aligned_cols=123 Identities=14% Similarity=0.097 Sum_probs=105.2
Q ss_pred HhcCceeeccccccccchhhHhHhHHHHHHHHhC--CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHHHHhCCCHHH-
Q 005593 209 LRCLKLRTLIPAYLSFTEDCARILRGLRIAARLG--LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNYMLSYGAAES- 283 (689)
Q Consensus 209 Lk~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLG--F~Id~~T~~aIr~~a~lL~~I--s~eRI~~EL~KIL~~~~~~~- 283 (689)
+.+++|++++++ .|.+||+||||+|||+++.+ ..|++.|..+|+.++..+..- ..++++.||.+||..+++..
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 577889999985 59999999999999999965 356799999999998877632 23569999999999988764
Q ss_pred HHHHHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhhC
Q 005593 284 SICLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSC 333 (689)
Q Consensus 284 ~L~lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~~ 333 (689)
+++.|+++|+|..++|++..+.+ +...+|.|+++.|++.++.++..+...
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 99999999999999999998765 555689999999999999999876543
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=99.25 E-value=1.3e-11 Score=101.02 Aligned_cols=62 Identities=24% Similarity=0.360 Sum_probs=57.3
Q ss_pred CCCCcHHHHHHHHHhhhhccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHcCCchhhhhhhhh
Q 005593 242 GLSFCKDIDTAMHSLSSSIERLDKSRIMMELNYMLSYGAAESSICLLRRYNLLKILLPFHAA 303 (689)
Q Consensus 242 GF~Id~~T~~aIr~~a~lL~~Is~eRI~~EL~KIL~~~~~~~~L~lL~e~GLL~~lfPe~a~ 303 (689)
||+|+++|..+|++++..|..+|+|||+.|+.|||.++++..+++.|+++|+++.+||+++.
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=98.95 E-value=4.2e-09 Score=125.03 Aligned_cols=120 Identities=10% Similarity=-0.042 Sum_probs=103.7
Q ss_pred cCceeeccccccccchhhHhHhHHHHHHHHhC--CCCcHHHHHHHHHhhhhccCC--CHHHHHHHHHHHHhCCCHHHHHH
Q 005593 211 CLKLRTLIPAYLSFTEDCARILRGLRIAARLG--LSFCKDIDTAMHSLSSSIERL--DKSRIMMELNYMLSYGAAESSIC 286 (689)
Q Consensus 211 ~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLG--F~Id~~T~~aIr~~a~lL~~I--s~eRI~~EL~KIL~~~~~~~~L~ 286 (689)
++.|-+..+ ..|..||.+|||+|.++++.+ ..|++.|...|++....+..- ...|++.||.+||..+++..+++
T Consensus 341 ~~~i~~~~~--~~f~~~P~~il~lf~~~~~~~~~~~i~~~t~r~l~~~~~~l~~~~~~~~ri~~ef~kiL~~~~~~~~l~ 418 (869)
T PRK04374 341 RGYLAADAD--SWPDGDVLQVFALFAQWAAHREVRGLHSLTARALAEVLRDLPAYDVADATARERFMALLRGPRAVETLN 418 (869)
T ss_pred CCEEeecCc--ccchhCHHHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHhcCccccCCHHHHHHHHHHHcCCChhHHHH
Confidence 334444332 579999999999999999999 999999999999988777543 56799999999999999989999
Q ss_pred HHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhh
Q 005593 287 LLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVS 332 (689)
Q Consensus 287 lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~ 332 (689)
.|+++|+|..++|++....+ |...+|.|+++.|++.++.++..+..
T Consensus 419 ~m~~~GvL~~~lPE~~~i~~~~Q~d~yH~ytVd~Htl~~l~~l~~~~~ 466 (869)
T PRK04374 419 RMARLGVLGQWIPAFASVSGRMQFDLFHVYTVDQHTLMVLRNIALFAA 466 (869)
T ss_pred HHHHhCCHHHHhhhHHHHhccccccCccCCcHHHHHHHHHHHHHHHhc
Confidence 99999999999999998775 66679999999999999999886543
No 24
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=1.4e-06 Score=101.72 Aligned_cols=147 Identities=20% Similarity=0.186 Sum_probs=110.0
Q ss_pred hcCceeeccccccccchhhHhHhHHHHHHHHhCCCC-cHHHHHHHHHhhhhccCCCH--HHHHHHHHHHHhCC-CHHHHH
Q 005593 210 RCLKLRTLIPAYLSFTEDCARILRGLRIAARLGLSF-CKDIDTAMHSLSSSIERLDK--SRIMMELNYMLSYG-AAESSI 285 (689)
Q Consensus 210 k~kiIR~Vg~p~~rF~EDPlRILRAiRFAaRLGF~I-d~~T~~aIr~~a~lL~~Is~--eRI~~EL~KIL~~~-~~~~~L 285 (689)
.++.|-+-++ .-|..||..|||.|-++++.|... .|+|+..+....+.|..-=. +.-..-+..||..+ +...+|
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 3455655554 369999999999999999999998 79999999988776654322 34445566677777 567799
Q ss_pred HHHHHcCCchhhhhhhhhhhh--hccCcCCCchhHHHHHHHHhHHhhhhCC-C---CCch----------hhHHHHHHHH
Q 005593 286 CLLRRYNLLKILLPFHAAYLD--QQAGKITAENPMMLMRLFFNLDKLVSCD-R---PADY----------TLWVGLLSFH 349 (689)
Q Consensus 286 ~lL~e~GLL~~lfPe~a~~~~--~q~~~h~~t~d~~Ll~lL~~Ld~ll~~~-r---p~~~----------~lWlalLaf~ 349 (689)
+.|+++|+|..++|++..+.. |+..+|.||+|+|+++++.++..+.... + |... .++++.| ||
T Consensus 415 ~~Mn~~GVLgrylPew~~Ivg~MQfdlfH~YTVDeH~lr~v~~l~~~a~~~~~~~hPl~~~l~~~~~~~elLylAaL-fH 493 (867)
T COG2844 415 RPMNRYGVLGRYLPEWGKIVGLMQFDLFHIYTVDEHTLRVVLKLARFARGEARHEHPLASQLMPRLEKRELLYLAAL-FH 493 (867)
T ss_pred HHHHHhhhHHHhcccHHhhhcccccCcceecchhHHHHHHHHHHHHhhcccccccCccHHhhccCCCChhHHHHHHH-HH
Confidence 999999999999999998876 5566999999999999998888665442 2 2111 1334433 88
Q ss_pred HHhcCCchhH
Q 005593 350 QALVSDPQDA 359 (689)
Q Consensus 350 ~aL~~~p~~a 359 (689)
+.-...+.|-
T Consensus 494 DIaKGRggDH 503 (867)
T COG2844 494 DIAKGRGGDH 503 (867)
T ss_pred HhhcCCCCch
Confidence 8776665443
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=91.51 E-value=0.97 Score=44.82 Aligned_cols=71 Identities=24% Similarity=0.304 Sum_probs=50.5
Q ss_pred HHHHHHHHHHCCCcEEEEchhHHHHHhCCC--CCCeEEEeC-CCHHHHHHHhccCcc----------cccccCeEEEEEC
Q 005593 72 SWVVLKILKSQGFQAYLVGGCVRDLLLRRV--PKDFDVITT-ANLKQIRRQFHRSEI----------IGRRFPICRVHIK 138 (689)
Q Consensus 72 a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~--PkD~DIvT~-A~peei~k~F~~~~i----------vG~rF~i~~V~~~ 138 (689)
...+.+.|+..+ =.|.|||.+.=.+-|.+ |+|+||-|+ .+.+++.++|..... +-+.|+ ...++
T Consensus 6 L~~i~~~ln~~~-i~W~lgGS~~L~l~Gl~~~p~DIDI~~D~~d~e~i~~il~~~~~~~~~~~~~~~~ts~F~--e~~I~ 82 (156)
T cd07749 6 LRKFYERLKNIN-VNWALTGSLSFALQGVPVEPHDIDIQTDNEGAYEIERIFHEFVNTEVRFSESEGIRSHFG--ELQID 82 (156)
T ss_pred HHHHHHHhccCC-ceEEehhhHHHHHcCCCCCCCcceEEEchhhHHHHHHHHHHhccCCCccCCCCceeeeee--EEEEC
Confidence 345777787777 56999999999998876 999999987 457788888764321 112333 33457
Q ss_pred CEEEEEe
Q 005593 139 GSVIEVS 145 (689)
Q Consensus 139 g~~IEVa 145 (689)
|..|||.
T Consensus 83 gv~Vdvm 89 (156)
T cd07749 83 GIKVEIM 89 (156)
T ss_pred CEEEEEe
Confidence 8888875
No 26
>PF09970 DUF2204: Nucleotidyl transferase of unknown function (DUF2204); InterPro: IPR018700 This family of hypothetical prokaryotic proteins has no known function.
Probab=90.19 E-value=0.73 Score=46.12 Aligned_cols=41 Identities=27% Similarity=0.399 Sum_probs=35.6
Q ss_pred HHHHHHHHHHCCCcEEEEchhHHHHHhCCC--CCCeEEEeCCC
Q 005593 72 SWVVLKILKSQGFQAYLVGGCVRDLLLRRV--PKDFDVITTAN 112 (689)
Q Consensus 72 a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~--PkD~DIvT~A~ 112 (689)
...+++.|++.|.+.++|||++=.+.+|.+ ++|+|+.+..+
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 456899999999999999999999888865 89999987654
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=79.65 E-value=4.5 Score=40.79 Aligned_cols=51 Identities=22% Similarity=0.370 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHCCCcEEEEchhHHHHHhCCC---CCCeEEEeCCC-HHHHHHHhc
Q 005593 71 PSWVVLKILKSQGFQAYLVGGCVRDLLLRRV---PKDFDVITTAN-LKQIRRQFH 121 (689)
Q Consensus 71 ~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~---PkD~DIvT~A~-peei~k~F~ 121 (689)
.+..|+..+.+.|.+.||-|||-=|+++|+. -.|+||.+.++ -.++.+...
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 3557889999999999999999999999985 57999988765 456666544
No 28
>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=74.40 E-value=3.9 Score=40.82 Aligned_cols=35 Identities=40% Similarity=0.644 Sum_probs=23.1
Q ss_pred HHHHHHCCC-cEEEEchhHHHHH----hCCCC----CCeEEEeC
Q 005593 76 LKILKSQGF-QAYLVGGCVRDLL----LRRVP----KDFDVITT 110 (689)
Q Consensus 76 L~~L~~~G~-eaYLVGG~VRDLL----LGr~P----kD~DIvT~ 110 (689)
|+.+.+.|. ++||++||||..+ -|+++ +|+||+--
T Consensus 1 L~~~~~L~Lpd~~l~AG~vrn~VWn~L~g~~~~~~i~DiDviYf 44 (163)
T PF06042_consen 1 LEIVRSLGLPDWWLAAGFVRNTVWNHLHGRPPSTPINDIDVIYF 44 (163)
T ss_dssp HHHHHHT--SS-EEETHHHHHHHHGGGTTS-TT---SEEEEEE-
T ss_pred CchHhhCCCCceEeehhhHHHHHHHHhcCCCCCCCCCceeEEEe
Confidence 445566664 6899999999765 46665 99999853
No 29
>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=73.80 E-value=4 Score=32.54 Aligned_cols=35 Identities=29% Similarity=0.524 Sum_probs=26.7
Q ss_pred HHHHHHHHC--CCcEEEEchhHHHHHhCCCCCCeEEEeC
Q 005593 74 VVLKILKSQ--GFQAYLVGGCVRDLLLRRVPKDFDVITT 110 (689)
Q Consensus 74 ~VL~~L~~~--G~eaYLVGG~VRDLLLGr~PkD~DIvT~ 110 (689)
.+.+.+++. +..+|+.|..+|... .+..|+||++.
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 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=64.78 E-value=27 Score=31.37 Aligned_cols=63 Identities=27% Similarity=0.381 Sum_probs=41.6
Q ss_pred CCCcEEEEchhHHHHHhCCCCCCeEEEeCCCH-----HH----HHHHhccCc-------ccccccCeEEEEEC--CEEEE
Q 005593 82 QGFQAYLVGGCVRDLLLRRVPKDFDVITTANL-----KQ----IRRQFHRSE-------IIGRRFPICRVHIK--GSVIE 143 (689)
Q Consensus 82 ~G~eaYLVGG~VRDLLLGr~PkD~DIvT~A~p-----ee----i~k~F~~~~-------ivG~rF~i~~V~~~--g~~IE 143 (689)
-+.++|+.|.++..+.+ +..|+|+++..+. .+ +.+.+++.. +.+.+.|+.++... |..+|
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 4679998765442 22 333343322 34667788888776 77777
Q ss_pred Eec
Q 005593 144 VSS 146 (689)
Q Consensus 144 VaT 146 (689)
|+-
T Consensus 96 is~ 98 (114)
T cd05402 96 ISF 98 (114)
T ss_pred EEc
Confidence 654
No 31
>COG3575 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.31 E-value=9.5 Score=38.83 Aligned_cols=41 Identities=27% Similarity=0.421 Sum_probs=31.7
Q ss_pred ChhHHHHHHHHHHCCCc-EEEEchhHHHHH----hCCC----CCCeEEEe
Q 005593 69 PQPSWVVLKILKSQGFQ-AYLVGGCVRDLL----LRRV----PKDFDVIT 109 (689)
Q Consensus 69 p~~a~~VL~~L~~~G~e-aYLVGG~VRDLL----LGr~----PkD~DIvT 109 (689)
++....+|.++.+.|.+ .||++|+||-.. -|.. .+||||+-
T Consensus 14 ~p~~~~~L~~v~~L~LP~~~laaGsV~n~VWn~l~gn~~~~~ikDiDv~y 63 (184)
T COG3575 14 SPLLMAILDTVRQLGLPDWWLAAGSVRNTVWNHLFGNNPMTGIKDIDVIY 63 (184)
T ss_pred ChHHHHHHHHHHHcCCchhhhhhhHHHHHHHHHhcCCCCCCCcccceEEE
Confidence 35556788888888874 799999999765 4554 58999985
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=57.31 E-value=12 Score=36.69 Aligned_cols=38 Identities=29% Similarity=0.397 Sum_probs=30.1
Q ss_pred HHHHH--HHCCCcEEEEchhHHHHHhC---CCCCCeEEEeCCC
Q 005593 75 VLKIL--KSQGFQAYLVGGCVRDLLLR---RVPKDFDVITTAN 112 (689)
Q Consensus 75 VL~~L--~~~G~eaYLVGG~VRDLLLG---r~PkD~DIvT~A~ 112 (689)
+|..| ...+.+.+|.||..-.+..+ |...|+|+++...
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 34455 56788999999999999843 6789999998654
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=55.08 E-value=6.7 Score=34.50 Aligned_cols=15 Identities=53% Similarity=0.875 Sum_probs=13.0
Q ss_pred EchhHHHHHhCCCCC
Q 005593 89 VGGCVRDLLLRRVPK 103 (689)
Q Consensus 89 VGG~VRDLLLGr~Pk 103 (689)
-||-+||.|+|+.|.
T Consensus 40 GGG~lRDvll~~~P~ 54 (80)
T PF03458_consen 40 GGGILRDVLLGRTPV 54 (80)
T ss_pred hcHHHHHHHcCCCCh
Confidence 399999999999773
No 34
>COG2860 Predicted membrane protein [Function unknown]
Probab=49.29 E-value=8.7 Score=39.93 Aligned_cols=15 Identities=53% Similarity=0.950 Sum_probs=12.9
Q ss_pred EEchhHHHHHhCCCC
Q 005593 88 LVGGCVRDLLLRRVP 102 (689)
Q Consensus 88 LVGG~VRDLLLGr~P 102 (689)
+=||.+||+|||+.|
T Consensus 44 iGGGtiRDlLLG~~P 58 (209)
T COG2860 44 IGGGTIRDLLLGHYP 58 (209)
T ss_pred hcchHHHHHHccCCC
Confidence 349999999999776
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=45.14 E-value=24 Score=30.07 Aligned_cols=34 Identities=26% Similarity=0.307 Sum_probs=23.3
Q ss_pred HHHHHHHHCCCcEEEEchhHHHHHhCCCCCCeEEEeC
Q 005593 74 VVLKILKSQGFQAYLVGGCVRDLLLRRVPKDFDVITT 110 (689)
Q Consensus 74 ~VL~~L~~~G~eaYLVGG~VRDLLLGr~PkD~DIvT~ 110 (689)
..++.... ...+|+.|..+|.... +..|+||++-
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 34444434 7789999999996533 3489998754
No 36
>PF14907 NTP_transf_5: Uncharacterised nucleotidyltransferase
Probab=42.68 E-value=2e+02 Score=29.01 Aligned_cols=55 Identities=18% Similarity=0.265 Sum_probs=39.5
Q ss_pred CCChhHHHHHHHHHHCCCcEEEEchhHHHHHhC----CCCCCeEEEeC-CCHHHHHHHhc
Q 005593 67 MIPQPSWVVLKILKSQGFQAYLVGGCVRDLLLR----RVPKDFDVITT-ANLKQIRRQFH 121 (689)
Q Consensus 67 ~ip~~a~~VL~~L~~~G~eaYLVGG~VRDLLLG----r~PkD~DIvT~-A~peei~k~F~ 121 (689)
.+......|++.|+++|.++.+.+|..=-.+-+ |...|+||.+. .+...+.+.+.
T Consensus 55 ~~~~~~~~i~~~l~~~gI~~~~lKG~~l~~~Y~~~~~R~~~DiDlLV~~~d~~~a~~~L~ 114 (249)
T PF14907_consen 55 RLLAELQEILAALNANGIPVILLKGAALAQLYPDPGLRPMGDIDLLVPPEDLERAVELLE 114 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEchHHHHHhCCCCCCCCCCCeEEEEeCCcHHHHHHHHH
Confidence 334566778999999999999997765333443 45799999875 45666666654
No 37
>COG4914 Predicted nucleotidyltransferase [General function prediction only]
Probab=41.55 E-value=15 Score=37.07 Aligned_cols=39 Identities=28% Similarity=0.467 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHCCCcEEEEchhHHHHHhCCC--CCCeEEEe
Q 005593 71 PSWVVLKILKSQGFQAYLVGGCVRDLLLRRV--PKDFDVIT 109 (689)
Q Consensus 71 ~a~~VL~~L~~~G~eaYLVGG~VRDLLLGr~--PkD~DIvT 109 (689)
.+..+|+.|+..|++.-+.||.|=|..||+. |.|+|+-.
T Consensus 9 ~v~~vl~~L~d~g~~FviIG~tvv~~~l~~~~~~~DVDLF~ 49 (190)
T COG4914 9 AVRKVLKSLNDKGVEFVIIGSTVVPFVLNIDYDPRDVDLFI 49 (190)
T ss_pred HHHHHHHHHHhcCeEEEEECCeEEEEEeccCCCccccceee
Confidence 3567999999999999999999999999986 89999743
No 38
>PRK10578 hypothetical protein; Provisional
Probab=29.73 E-value=28 Score=36.12 Aligned_cols=13 Identities=46% Similarity=0.900 Sum_probs=12.3
Q ss_pred chhHHHHHhCCCC
Q 005593 90 GGCVRDLLLRRVP 102 (689)
Q Consensus 90 GG~VRDLLLGr~P 102 (689)
||.+||+|+|+.|
T Consensus 43 GG~iRDill~~~P 55 (207)
T PRK10578 43 GGTIRDMALDNGP 55 (207)
T ss_pred cHHHHHHHcCCCC
Confidence 9999999999977
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=28.68 E-value=1.6e+02 Score=27.82 Aligned_cols=24 Identities=17% Similarity=0.307 Sum_probs=15.6
Q ss_pred cccccCCCCeEeeCcCcHHHHhcCc
Q 005593 189 SLFFDPFLNKIYDYANGISDLRCLK 213 (689)
Q Consensus 189 ALAyd~~~g~LiD~fGGleDLk~ki 213 (689)
|+.+|. +|+|+|+..+....-+..
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
>PRK13973 thymidylate kinase; Provisional
Probab=23.23 E-value=1e+02 Score=31.13 Aligned_cols=44 Identities=16% Similarity=0.286 Sum_probs=34.4
Q ss_pred CcccCCCChhHHHHHHHHHHCCCcEEEE--------chhHHHHHhCCCCCCe
Q 005593 62 GITRAMIPQPSWVVLKILKSQGFQAYLV--------GGCVRDLLLRRVPKDF 105 (689)
Q Consensus 62 gI~~~~ip~~a~~VL~~L~~~G~eaYLV--------GG~VRDLLLGr~PkD~ 105 (689)
||+.+--+-.+..+-+.|.+.|+.++.. |..+|++|++..+..+
T Consensus 10 G~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~~~g~~ir~~l~~~~~~~~ 61 (213)
T PRK13973 10 GGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSPGAEAIRHVLLSGAAELY 61 (213)
T ss_pred cCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCCchHHHHHHHHcCCCccCC
Confidence 5555555666777888899999999888 9999999998654444
No 41
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=21.36 E-value=1.6e+02 Score=33.62 Aligned_cols=74 Identities=20% Similarity=0.253 Sum_probs=43.3
Q ss_pred HHHHHHHHHH----CC--CcEEEEchhHHHHHhCCCCCCeEEEeCC----CHHHHHHHh----c-------cCccccccc
Q 005593 72 SWVVLKILKS----QG--FQAYLVGGCVRDLLLRRVPKDFDVITTA----NLKQIRRQF----H-------RSEIIGRRF 130 (689)
Q Consensus 72 a~~VL~~L~~----~G--~eaYLVGG~VRDLLLGr~PkD~DIvT~A----~peei~k~F----~-------~~~ivG~rF 130 (689)
+..++..|++ .+ .++|++|.+.|+-.|.- ..|+||.+-- +-+++.+.. . .....-..+
T Consensus 23 ~~~l~~~l~~~~~e~~~~~~v~~~GS~ArgT~L~G-~sDIDIfi~f~~~~~~e~l~~~gl~i~~~~~~~~~~~~~~yaeH 101 (408)
T TIGR03671 23 ADELIARLEEIIEELGVDAEVVLVGSYARGTWLKG-DRDIDIFILFPKDTSREELEEYGLEIGHEVLKRGGNYEERYAEH 101 (408)
T ss_pred HHHHHHHHHHHHHhcCCcceEEEEeeEecCCccCC-CCceeEEEEeCCCCCHHHHHHHHHHHHHHHHhhCCCHhheeccC
Confidence 3445555553 22 58999999999988762 2499986532 234444331 1 011112244
Q ss_pred CeEEEEECCEEEEEec
Q 005593 131 PICRVHIKGSVIEVSS 146 (689)
Q Consensus 131 ~i~~V~~~g~~IEVaT 146 (689)
|-+++.+.|..+||-.
T Consensus 102 pYv~~~~~G~~VDiVP 117 (408)
T TIGR03671 102 PYVSGEIEGFEVDVVP 117 (408)
T ss_pred ceEEEEEccEEEEEEe
Confidence 6677778887777653
Done!