Query 041553
Match_columns 315
No_of_seqs 222 out of 1674
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 08:19:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041553.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041553hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0566 SpoU rRNA methylases [ 100.0 1E-43 2.2E-48 331.6 19.9 210 82-314 1-234 (260)
2 PRK11181 23S rRNA (guanosine-2 100.0 4E-38 8.7E-43 291.5 18.2 191 109-314 3-219 (244)
3 PRK10864 putative methyltransf 100.0 3E-36 6.6E-41 290.3 21.1 192 107-314 107-321 (346)
4 TIGR00186 rRNA_methyl_3 rRNA m 100.0 8.4E-36 1.8E-40 274.8 18.8 192 109-314 2-214 (237)
5 KOG2506 SpoU rRNA Methylase fa 100.0 1E-33 2.2E-38 264.7 11.4 261 32-314 17-348 (371)
6 PF00588 SpoU_methylase: SpoU 99.9 8.8E-26 1.9E-30 191.7 9.9 107 208-314 1-125 (142)
7 TIGR00185 rRNA_methyl_2 rRNA m 99.9 1.7E-24 3.8E-29 187.3 11.2 103 210-314 3-124 (153)
8 PRK11081 tRNA guanosine-2'-O-m 99.9 1.3E-23 2.8E-28 192.9 11.9 107 206-314 17-142 (229)
9 PRK10358 putative rRNA methyla 99.9 2.9E-23 6.2E-28 180.6 11.0 102 209-314 2-125 (157)
10 KOG0838 RNA Methylase, SpoU fa 99.9 5.7E-21 1.2E-25 175.4 13.5 175 106-313 40-241 (271)
11 TIGR00050 rRNA_methyl_1 RNA me 99.8 3.1E-19 6.6E-24 164.5 9.7 103 209-314 4-134 (233)
12 PRK15114 tRNA (cytidine/uridin 99.8 4.7E-19 1E-23 164.4 10.1 103 209-314 5-137 (245)
13 PRK10433 putative RNA methyltr 99.6 5.6E-15 1.2E-19 135.8 9.6 103 209-314 3-136 (228)
14 COG0219 CspR Predicted rRNA me 99.4 3.6E-12 7.9E-17 109.6 10.0 105 209-314 3-126 (155)
15 PF08032 SpoU_sub_bind: RNA 2' 98.9 2.1E-09 4.5E-14 81.4 5.8 68 110-186 1-74 (76)
16 COG0565 LasT rRNA methylase [T 98.9 5.1E-09 1.1E-13 96.7 9.1 103 209-314 5-137 (242)
17 KOG0839 RNA Methylase, SpoU fa 98.5 2.8E-07 6E-12 98.7 6.9 107 206-314 1324-1452(1477)
18 PF04705 TSNR_N: Thiostrepton- 97.3 0.00062 1.4E-08 55.0 6.0 100 80-188 5-108 (115)
19 PRK03958 tRNA 2'-O-methylase; 90.9 0.65 1.4E-05 41.4 6.1 82 224-311 21-129 (176)
20 COG1303 Uncharacterized protei 89.1 1.4 3.1E-05 38.7 6.7 81 226-312 24-129 (179)
21 PRK12703 tRNA 2'-O-methylase; 62.4 24 0.00053 34.6 6.8 79 225-312 21-124 (339)
22 PF13380 CoA_binding_2: CoA bi 56.3 25 0.00054 28.7 4.9 46 216-285 62-107 (116)
23 COG3426 Butyrate kinase [Energ 55.5 25 0.00054 34.1 5.4 36 216-251 103-140 (358)
24 TIGR00259 thylakoid_BtpA membr 53.7 1.1E+02 0.0024 28.9 9.4 71 219-289 156-231 (257)
25 PRK07283 hypothetical protein; 47.7 83 0.0018 25.0 6.6 68 88-170 4-78 (98)
26 PRK01018 50S ribosomal protein 47.7 59 0.0013 25.9 5.7 64 109-182 16-87 (99)
27 PRK06683 hypothetical protein; 46.9 96 0.0021 24.0 6.6 55 110-172 12-73 (82)
28 PRK13602 putative ribosomal pr 46.6 98 0.0021 23.8 6.6 55 110-172 12-73 (82)
29 PF01248 Ribosomal_L7Ae: Ribos 45.3 67 0.0014 24.8 5.6 62 110-181 16-85 (95)
30 PF03437 BtpA: BtpA family; I 44.5 1.3E+02 0.0028 28.4 8.3 70 219-289 157-231 (254)
31 PF09936 Methyltrn_RNA_4: SAM- 41.9 59 0.0013 29.3 5.3 88 222-310 30-158 (185)
32 PRK07714 hypothetical protein; 38.2 1.4E+02 0.003 23.7 6.5 70 87-171 3-79 (100)
33 PF01936 NYN: NYN domain; Int 36.9 51 0.0011 26.8 4.0 38 269-311 108-145 (146)
34 PRK13600 putative ribosomal pr 36.7 1.3E+02 0.0028 23.6 5.9 58 108-173 12-76 (84)
35 COG0434 SgcQ Predicted TIM-bar 35.9 2.2E+02 0.0047 27.0 8.1 72 219-291 162-238 (263)
36 PRK05583 ribosomal protein L7A 35.1 1.7E+02 0.0036 23.7 6.6 68 89-171 4-78 (104)
37 TIGR00288 conserved hypothetic 34.9 1.2E+02 0.0026 26.7 6.0 41 268-313 117-157 (160)
38 COG4080 SpoU rRNA Methylase fa 34.9 1.6E+02 0.0034 25.5 6.5 69 208-278 2-74 (147)
39 PTZ00106 60S ribosomal protein 32.6 1.4E+02 0.0031 24.3 5.8 54 110-171 26-87 (108)
40 PF06230 DUF1009: Protein of u 32.5 31 0.00068 31.7 2.1 67 222-289 1-75 (214)
41 COG3494 Uncharacterized protei 31.9 75 0.0016 30.3 4.5 71 219-289 54-132 (279)
42 PRK13601 putative L7Ae-like ri 29.7 2.1E+02 0.0046 22.2 6.1 58 109-174 8-72 (82)
43 TIGR03677 rpl7ae 50S ribosomal 28.9 1.6E+02 0.0035 24.2 5.6 64 110-183 27-98 (117)
44 PF04015 DUF362: Domain of unk 28.8 1.4E+02 0.0029 26.4 5.6 83 215-313 18-112 (206)
45 cd06167 LabA_like LabA_like pr 28.1 1.3E+02 0.0028 24.8 5.1 38 268-310 111-148 (149)
46 COG2106 Uncharacterized conser 28.0 52 0.0011 31.4 2.8 28 218-245 24-51 (272)
47 PRK04175 rpl7ae 50S ribosomal 26.7 2E+02 0.0044 23.9 5.9 63 110-182 31-101 (122)
48 COG0269 SgbH 3-hexulose-6-phos 24.4 3.2E+02 0.0068 25.3 7.1 97 209-307 57-163 (217)
49 PTZ00222 60S ribosomal protein 24.1 4.3E+02 0.0094 25.2 8.1 59 105-171 128-194 (263)
50 PLN03033 2-dehydro-3-deoxyphos 21.4 1.3E+02 0.0028 29.0 4.1 35 208-242 189-242 (290)
51 PF14871 GHL6: Hypothetical gl 20.2 1.8E+02 0.0038 24.5 4.4 56 223-285 3-62 (132)
No 1
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1e-43 Score=331.64 Aligned_cols=210 Identities=30% Similarity=0.386 Sum_probs=181.7
Q ss_pred ecCCCCHHHHHHHhhhccccccccCCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC--cccc---ccccCCce
Q 041553 82 ITSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE--VPEG---LDNISTHT 156 (315)
Q Consensus 82 ItS~~N~~vK~~~kL~~~~k~R~~~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~--l~~~---l~~~~~~v 156 (315)
|+|..|+++|.+++| |++++.|++||.|+|+++|+++. .+..+|++++.. +.++ +...++++
T Consensus 1 i~s~~n~~~~~~~~~------r~~~~~~~~~G~~~v~~al~~~~-------~i~~i~~~~~~~~~~~~~~~~~~~~~~~~ 67 (260)
T COG0566 1 ITSPANPRVKALKKL------RGRAGEFLIEGEHAVLEALASGP-------KIVRILVTEGRLPRFEELLALAAAKGIPV 67 (260)
T ss_pred CCCcchhhhHHHHHh------hcccCcEEEeeHHHHHHHHhcCC-------CceEEEEecccchhHHHHHHHHHhcCCeE
Confidence 689999999999998 67788999999999999999875 588999998854 2233 33457899
Q ss_pred EEeCHHHHHhhcCCCCCcceeEEEEEecCCCCCccchhhhhcccccCCCCCcEEEEEecCCCcCcHHHHHHHHhHhcCCe
Q 041553 157 VRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSIDVNQKEADCRSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGG 236 (315)
Q Consensus 157 ~~vs~~~l~kLs~~~~~qGi~avAv~~~p~~~~~l~~~~~~~~~~~~~~~~~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~ 236 (315)
+.++++.+++++++.+|||+ +|++..+... .++++.. . ...+++|+||+|+||||+|||||||+|||+++
T Consensus 68 ~~v~~~~l~~~~~~~~hqGi--~a~~~~~~~~-~~~~~~~-----~--~~~~l~lvLd~V~DP~NlGaIiRtA~a~Gv~~ 137 (260)
T COG0566 68 YVVSEAILDKLSGTENHQGI--VAVVKKRRYP-LLDDLLD-----A--EAQPLLLVLDGVTDPHNLGAIIRTADAFGVDG 137 (260)
T ss_pred EEECHHHHHHHhCCCCCCeE--EEEEeccccc-chhhhhh-----c--ccCCEEEEEecCcCCcchhhHHhhHHHhCCCE
Confidence 99999999999999999998 5666555432 3333221 0 14579999999999999999999999999999
Q ss_pred EEECCCCCCCCChhHHHhhcccceeccEEEcc--HHHHHHHHhhCCcEEEEEecC-----------------CCCCCCCC
Q 041553 237 VFLLPGCCDPFSEKALRASRGACFQLPIVSGS--WYHLEVLKDEFQMKLLAGHAG-----------------GNEEPRQV 297 (315)
Q Consensus 237 Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~~--~~~l~~~~~~~g~~ivat~~~-----------------~G~E~~Gl 297 (315)
||++++++|++|++++|+|+||+|++|+++.+ ..++.+++++.||+++||++. +|||++||
T Consensus 138 Vi~~~~~~~~~~~~v~r~s~Ga~~~vp~~~~~n~~~~~~~~~~~~G~~v~~t~~~~~~~~~~~~~~~~~aLvlG~Eg~Gl 217 (260)
T COG0566 138 VILPKRRADPLNPKVIRASAGAAFHVPVIRVTNLARTLLELLKEAGFWVVATSLDGEVDLYETDLPKKTALVLGNEGEGL 217 (260)
T ss_pred EEECCCccCCccceeEEecCChheeceeEEEeccHHHHHHHHHHcCeEEEEECCCCCcchhhccccCCEEEEECCCCCCc
Confidence 99999999999999999999999999988753 789999999899999999876 99999999
Q ss_pred CHHHHHhcCcEEEccCC
Q 041553 298 LQLSQELADSFAGVPLC 314 (315)
Q Consensus 298 s~~~~~~cD~~v~IPm~ 314 (315)
|+++++.||..|+|||.
T Consensus 218 s~~~~~~~D~~v~IPm~ 234 (260)
T COG0566 218 SRLLLEHADQLVRIPMA 234 (260)
T ss_pred CHHHHhhCCEEEEecCC
Confidence 99999999999999995
No 2
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=100.00 E-value=4e-38 Score=291.46 Aligned_cols=191 Identities=17% Similarity=0.198 Sum_probs=158.2
Q ss_pred EEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC---ccccc---cccCCceEEeCHHHHHhhcCCCCCcceeEEEEE
Q 041553 109 ALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE---VPEGL---DNISTHTVRVSSVVMKKLSGVQSSESIEAIALM 182 (315)
Q Consensus 109 ~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~---l~~~l---~~~~~~v~~vs~~~l~kLs~~~~~qGi~avAv~ 182 (315)
.+|||.|+|+|+|+++. ..+++||++++.. +.+++ ...+++++.++++.|++++++.+|||+ +|++
T Consensus 3 ~~i~G~~~v~eal~~~~------~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~v~~~~l~~ls~~~~~qGv--~a~~ 74 (244)
T PRK11181 3 EIIYGIHAVQALLERAP------ERFIEVFVLKGREDKRLLPLINELEAQGIVIQLANRQTLDEKAEGAVHQGI--IARV 74 (244)
T ss_pred cEEEehHHHHHHHhCCC------CceeEEEEECCCcchHHHHHHHHHHHcCCcEEEeCHHHHhhhhcCCCCceE--EEEE
Confidence 47899999999998643 2688899876531 22222 235789999999999999999999998 5666
Q ss_pred ecCCCC--CccchhhhhcccccCCCCCcEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccce
Q 041553 183 KIPTSV--FSIDVNQKEADCRSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACF 260 (315)
Q Consensus 183 ~~p~~~--~~l~~~~~~~~~~~~~~~~~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~ 260 (315)
+.+... .+++++.. ....+++++||+|+||+|+|||+|||+|||+++||++++++++++++++|+||||.|
T Consensus 75 ~~~~~~~~~~~~~~~~-------~~~~~~~lvLd~v~dp~NlGai~Rta~a~G~~~vi~~~~~~~~~~~~~~r~s~Ga~~ 147 (244)
T PRK11181 75 KPGRQLQENDLPDLLA-------SLEQPFLLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAE 147 (244)
T ss_pred ecccccchhhHHHHHh-------cCCCCEEEEEcCCCCcchHHHHHHHHHHcCCCEEEECCCCCCCCCCceEEecCCHHH
Confidence 544321 23333221 123568999999999999999999999999999999999999999999999999999
Q ss_pred eccEEEc-cHHHHHHHHhhCCcEEEEEecC-----------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 261 QLPIVSG-SWYHLEVLKDEFQMKLLAGHAG-----------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 261 ~lpi~~~-~~~~l~~~~~~~g~~ivat~~~-----------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
++|+++. ++.++++.+++.|++++|++.. ||||+.|||+++++.||..|+|||.
T Consensus 148 ~l~~~~~~~~~~~l~~l~~~g~~i~~t~~~~~~~~~~~~~~~~~alv~G~E~~Gls~~~~~~~d~~v~IPm~ 219 (244)
T PRK11181 148 TVPLIRVTNLARTMRMLQEKNIWIVGTAGEADHTLYQSKLTGPLALVMGAEGEGMRRLTREHCDELISIPMA 219 (244)
T ss_pred cCeEEEcCCHHHHHHHHHHCCCEEEEEeCCCCcchhhcCCCCCEEEEECCCCCCcCHHHHHhCCEEEEEcCC
Confidence 9999987 6888888889999999998774 9999999999999999999999995
No 3
>PRK10864 putative methyltransferase; Provisional
Probab=100.00 E-value=3e-36 Score=290.33 Aligned_cols=192 Identities=15% Similarity=0.177 Sum_probs=158.1
Q ss_pred CcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCc--Ccccc---ccccCCceEEeCHHHHHhhcCCCCCcceeEEEE
Q 041553 107 GSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKV--EVPEG---LDNISTHTVRVSSVVMKKLSGVQSSESIEAIAL 181 (315)
Q Consensus 107 g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~--~l~~~---l~~~~~~v~~vs~~~l~kLs~~~~~qGi~avAv 181 (315)
..++|||.|+|.|+|+++.. .+.+||+.++. .+.++ +...++.++.|+++.|++|+++.+|||| +|+
T Consensus 107 ~~~~I~G~~aV~ealk~~~~------~i~~l~~~~~~~~~~~~il~~~~~~~~~v~~V~~~~l~kls~~~~hqGV--~A~ 178 (346)
T PRK10864 107 EETRVYGENACQALFQSRPE------AIVRAWFIQSVTPRFKEALRWMAANRKAYHVVDEAELTKASGTEHHGGV--CFL 178 (346)
T ss_pred CCcEEEEHHHHHHHHhCCCC------ceeEEEEecCccHHHHHHHHHHHHcCCcEEEeCHHHHHHHhCCCCCCeE--EEE
Confidence 46899999999999987542 58888888763 22222 2334678999999999999999999998 566
Q ss_pred EecCCCCCccchhhhhcccccCCCCCcEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhccccee
Q 041553 182 MKIPTSVFSIDVNQKEADCRSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQ 261 (315)
Q Consensus 182 ~~~p~~~~~l~~~~~~~~~~~~~~~~~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~ 261 (315)
+..+.. .++++++.. ....+++|+||+|+||+|+|+|+|||+|||+++||+++. +++++++++|+|+|+.|+
T Consensus 179 v~~~~~-~~l~~~l~~------~~~~~~vlvLd~I~DP~NlGaIiRTA~afGv~~Vil~~~-~~~~~~kvvRaS~Ga~~~ 250 (346)
T PRK10864 179 IKKRNG-TDVQQWLAQ------AGAQDCVLALEDVGNPHNLGGIMRSCAHFGVKGVVVQDA-ALLESGAAIRTAEGGAEH 250 (346)
T ss_pred EeCCCC-CCHHHHhhc------cccCCeEEEEeCCCCCCcHHHHHHHHHHhCCCEEEECCC-CCCCchhHHHHhcChhhc
Confidence 655432 244443211 123468999999999999999999999999999999875 578999999999999999
Q ss_pred ccEEEc-cHHHHHHHHhhCCcEEEEEecC-----------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 262 LPIVSG-SWYHLEVLKDEFQMKLLAGHAG-----------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 262 lpi~~~-~~~~l~~~~~~~g~~ivat~~~-----------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
+|+++. ++.++++.+++.||+|++++.. ||||+.||++++++.||..|+|||.
T Consensus 251 v~i~~~~nl~~~L~~lk~~G~~Iv~t~~~~~~~l~~~~~~~k~aLV~GnE~~GLs~~vl~~~D~~V~IPm~ 321 (346)
T PRK10864 251 VQPITGDSFVDVLDDFRQAGYTIVTTSSHKGTPLFKASLPAKMVLVLGQEYDGLSDAARQQGDLSVSIDGT 321 (346)
T ss_pred ceEEEeCCHHHHHHHHHHCCCEEEEEeCCCCcchhhcccCCCeEEEECCCCCCCCHHHHHhCCEEEEECCC
Confidence 999986 5888888889999999998763 9999999999999999999999994
No 4
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=100.00 E-value=8.4e-36 Score=274.78 Aligned_cols=192 Identities=21% Similarity=0.208 Sum_probs=153.2
Q ss_pred EEEEehHHHHHHHhcCCcccccceeeeEEEeccCc---CccccccccCCceEEeCHHHHHhhcCCCCCcceeEEEEEecC
Q 041553 109 ALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKV---EVPEGLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMKIP 185 (315)
Q Consensus 109 ~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~---~l~~~l~~~~~~v~~vs~~~l~kLs~~~~~qGi~avAv~~~p 185 (315)
.+|||.|+|+||++++.+ +......... .+.+.++..+++++.++++.|++|+++.+|||+ +|++..+
T Consensus 2 ~~i~G~~~v~eal~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~l~~l~~~~~~qGv--~a~~~~~ 72 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQQR-------VFILKGLESKRLKKLIQLAKKQGINIQLVDRQKLDQLTKGGNHQGI--AAKVKPI 72 (237)
T ss_pred cEEEehHHHHHHHhCCCE-------EEEEecCcchHHHHHHHHHHHcCCcEEEeCHHHHHHHhCCCCCCeE--EEEEecC
Confidence 578999999999997631 1111111111 122333345789999999999999999999998 5666554
Q ss_pred CCCCccchhhhhcccccCCCCCcEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEE
Q 041553 186 TSVFSIDVNQKEADCRSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIV 265 (315)
Q Consensus 186 ~~~~~l~~~~~~~~~~~~~~~~~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~ 265 (315)
.. .+++++.... . ....+++++||+|+||+|+|+|+|||+|||+++|+++++++++++++++|+|||+.|++|+.
T Consensus 73 ~~-~~~~~~~~~~--~--~~~~~~~lvLd~v~dp~NlGaI~Rta~afG~~~vil~~~~~~~~~~~~~r~s~Ga~~~l~~~ 147 (237)
T TIGR00186 73 LY-KDLNDLYKTA--K--SKKQPFLLILDEITDPHNLGAILRTAEAFGVDGVILPKRRSAPLNSTVVKTSSGAVEYVPLA 147 (237)
T ss_pred CC-CCHHHHHHhh--h--ccCCCEEEEEcCCCCCccHHHHHHHHHHcCCCEEEECCCCcCCCCCceeeeeccccceeEEE
Confidence 32 2344432110 0 12346899999999999999999999999999999999999999999999999999999999
Q ss_pred Ec-cHHHHHHHHhhCCcEEEEEecC-----------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 266 SG-SWYHLEVLKDEFQMKLLAGHAG-----------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 266 ~~-~~~~l~~~~~~~g~~ivat~~~-----------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
+. ++.++++.+++.|++++|++.. +|||+.||++++++.||..|+|||.
T Consensus 148 ~~~~~~~~l~~l~~~g~~i~~~~~~~~~~~~~~~~~~~~~lv~GnE~~Gls~~~l~~~d~~v~IP~~ 214 (237)
T TIGR00186 148 RVTNLSRTITKLKESGFWTVGTDLDAQDTLYQVKLTKPLALVVGNEGEGVSRLIKENCDFLIKIPMA 214 (237)
T ss_pred EeCCHHHHHHHHHHCCCEEEEEecCCCccccccccCCCEEEEECCCCCCcCHHHHHhCCEEEEECCC
Confidence 86 6888888889999999998864 9999999999999999999999994
No 5
>KOG2506 consensus SpoU rRNA Methylase family protein [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1e-33 Score=264.68 Aligned_cols=261 Identities=33% Similarity=0.510 Sum_probs=197.7
Q ss_pred EEeecCCCCCccccccccccceeeccCCCCCCCC-C-CCCCCCccCCcceeeecCCCCHHHHHHHhhhccc---------
Q 041553 32 VTVKSKPSSAKTQTPIRYSAHEYINYNDNININD-D-ADDGRKFALPYHVKNITSTSNPFVKHCLKLRQSS--------- 100 (315)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~ItS~~N~~vK~~~kL~~~~--------- 100 (315)
-..++|.|+|++++. .++++.++...+-. | +++.-|++.+.+ +++.+++..++++.++...
T Consensus 17 ~l~vLrassa~~pr~-----~iq~r~s~v~~ifgS~e~~r~nR~~G~qp---~~aaSeasa~~~~~~~p~~r~~~shapv 88 (371)
T KOG2506|consen 17 LLQVLRASSADLPRT-----VIQLRRSPVKVIFGSGEVSRANRAPGKQP---RKAASEASAKELRELQPLERVSPSHAPV 88 (371)
T ss_pred hHHHHHhhhhcCcch-----hhhhccChhhhhccCcccchhhcCCCCCC---ccccchhhHHHhhhcCccccccCCCCCe
Confidence 456899999999988 69999999876644 3 788888888877 8888999999888876432
Q ss_pred ------------------------------cccccCCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCcCc---cc
Q 041553 101 ------------------------------SYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVEV---PE 147 (315)
Q Consensus 101 ------------------------------k~R~~~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~l---~~ 147 (315)
+||.+++..+.+|++++.++|+.+. ..+.+++..+... ..
T Consensus 89 ~~enes~lryvsv~lgd~~fs~~lt~v~srsf~~kqv~ii~egRrliqdaLk~g~-------~~ev~~Fs~~~qla~~p~ 161 (371)
T KOG2506|consen 89 TWENESGLRYVSVYLGDRRFSIVLTIVKSRSFREKQVRIISEGRRLIQDALKGGV-------HREVCMFSTNKQLATTPI 161 (371)
T ss_pred eeecccceeEEeeecCccchhhhheeeecccchhhcccccccchhhHHHHhhccc-------cceEEEeeccccccccCh
Confidence 4566778889999999999999764 3444555544321 11
Q ss_pred cccccCCceEEeCHHHHHhhcCCCCCcceeEEEEEecCCCCCccc-hhhhhcccccCCCCCcEEEEEecCCCcCcHHHHH
Q 041553 148 GLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSID-VNQKEADCRSWFPSIHRILVLDGIQDPGNLGTLL 226 (315)
Q Consensus 148 ~l~~~~~~v~~vs~~~l~kLs~~~~~qGi~avAv~~~p~~~~~l~-~~~~~~~~~~~~~~~~~~lvLD~I~DP~NlGaIi 226 (315)
.. ..+++++.|+...|+++++.++++|+.++ ..+|... .++ ++.. +...+.+.-+++||+|+|+||||+|||+
T Consensus 162 e~-e~g~~i~kVks~d~K~wSsLvSP~svmaI--f~~P~d~-hl~k~~a~--~q~~~s~~lp~~lvcdnirdpgnlgti~ 235 (371)
T KOG2506|consen 162 EC-EAGIRIVKVKSLDMKKWSSLVSPESVMAI--FLMPIDL-HLDKDIAT--DQNKWSPSLPRVLVCDNIRDPGNLGTIV 235 (371)
T ss_pred hh-hcCeeEEeccHHHHHHHhcccCCcchhhh--ccCcchh-chhhhHHH--HHhccCCCCCeEEEeccCCCCcchHHHH
Confidence 11 46789999999999999999999999644 4455211 111 1111 1122345568899999999999999999
Q ss_pred HHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEccHHHHHHHHhhCCcEEEEEecC-----------------
Q 041553 227 RTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSGSWYHLEVLKDEFQMKLLAGHAG----------------- 289 (315)
Q Consensus 227 RsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~~~~~l~~~~~~~g~~ivat~~~----------------- 289 (315)
|||+|||+++|+++++|||||++|++|+++||+|++||+..+|+++.-+.-.+....++.+..
T Consensus 236 rsaaa~~cs~v~lt~gccdpwe~kalrag~ga~fr~pi~~~~w~~l~l~~pp~~ad~c~~~~a~t~qr~~~~~k~~e~ad 315 (371)
T KOG2506|consen 236 RSAAAFNCSGVFLTPGCCDPWEDKALRAGRGASFRLPIVSGNWNHLKLLEPPFQADLCAGHPATTTQRLKPVSKLVEFAD 315 (371)
T ss_pred HHHhhCCCcceeecCCcCCccchhhhhccCCcceecceecCchhhhhccCChhHHhhhcCchHhhhhhhccchhhhHHHh
Confidence 999999999999999999999999999999999999999888877654432221122221110
Q ss_pred ---------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 290 ---------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 290 ---------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
+|.|+.|+|++.++.|. ++.|||+
T Consensus 316 ~~~ap~~liigge~~gvseea~~~~~-lvgip~a 348 (371)
T KOG2506|consen 316 SLAAPLCLIIGGEGNGVSEEARKVCV-LVGIPMA 348 (371)
T ss_pred hccCceEEEEccCcCCcCHHHHHHHH-HcCCccc
Confidence 89999999999999998 6779996
No 6
>PF00588 SpoU_methylase: SpoU rRNA Methylase family; InterPro: IPR001537 The spoU gene of Escherichia coli codes for a protein that shows strong similarities to previously characterised 2'-O-methyltransferases [, ]. The Pet56 protein of Saccharomyces cerevisiae has been shown to be required for ribose methylation at a universally conserved nucleotide in the peptidyl transferase centre of the mitochondrial large ribosomal RNA (21S rRNA). Cells reduced in this activity were deficient in formation of functional large subunits of the mitochondrial ribosome. The Pet56 protein catalyzes the site-specific formation of 2'-O-methylguanosine on in vitro transcripts of both mitochondrial 21S rRNA and E. coli 23S rRNA providing evidence for an essential modified nucleotide in rRNA [].; GO: 0003723 RNA binding, 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 3N4J_A 3N4K_A 1IPA_A 3ONP_A 3NK6_A 3NK7_A 3IC6_A 1GZ0_D 1MXI_A 1J85_A ....
Probab=99.93 E-value=8.8e-26 Score=191.75 Aligned_cols=107 Identities=38% Similarity=0.533 Sum_probs=94.6
Q ss_pred cEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECC-CCCCCCChhHHHhhcccceeccEEEc-cHHHHHHHHhhCCcEEEE
Q 041553 208 HRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLP-GCCDPFSEKALRASRGACFQLPIVSG-SWYHLEVLKDEFQMKLLA 285 (315)
Q Consensus 208 ~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~-~~~d~~~~kv~RaS~Ga~~~lpi~~~-~~~~l~~~~~~~g~~iva 285 (315)
+++++||+++||+|+|+|+|||++||+++|++.+ ++.|++++++.|+|+|+.+++|+... +++++++.+++.|+++++
T Consensus 1 ~l~vvl~~~~~p~NlG~i~Rta~afG~~~v~l~~~~~~~~~~~~~~r~s~g~~~~~~~~~~~~~~~~l~~~~~~g~~i~~ 80 (142)
T PF00588_consen 1 MLIVVLDNVQDPGNLGAIIRTAAAFGVDGVILVGPRCADPYNPKVLRASAGAHEHLPIRRVDDLEEALKDLKENGYTIVA 80 (142)
T ss_dssp SEEEEEES-SSHHHHHHHHHHHHHTTESEEEEESSSSSTTTSHHHHHHTTTGHHCSHEEEESSHHHHHHHHHHTTEEEEE
T ss_pred CEEEEEeCCCCcCcHHHHHHHHHHhCCchhheeccccccccccccccccCChhhhhheeeeehhhhhcccccccccccce
Confidence 4689999999999999999999999999999976 77889999999999999999998776 688888888999999999
Q ss_pred EecC----------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 286 GHAG----------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 286 t~~~----------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
++.. +|+|+.||++++++.||..|+|||.
T Consensus 81 ~~~~~~~~~~~~~~~~~~lv~G~E~~Gls~~~~~~~d~~v~IP~~ 125 (142)
T PF00588_consen 81 TSPGATPLYELDFPKKVALVFGNESRGLSEEVLELCDHRVSIPMY 125 (142)
T ss_dssp ESTTSCEGGGSHTTSSEEEEEEBTTTBS-HHHHHTSSEEEE---S
T ss_pred eeeccccccccccccceEEEEcCcCCCCCcccccccceEEEEcCC
Confidence 9765 9999999999999999999999994
No 7
>TIGR00185 rRNA_methyl_2 rRNA methylase, putative, group 2. this is part of the trmH (spoU) family of rRNA methylases
Probab=99.91 E-value=1.7e-24 Score=187.26 Aligned_cols=103 Identities=18% Similarity=0.073 Sum_probs=91.1
Q ss_pred EEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEc-cHHHHHHHHhhCCcEEEEEec
Q 041553 210 ILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSG-SWYHLEVLKDEFQMKLLAGHA 288 (315)
Q Consensus 210 ~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~-~~~~l~~~~~~~g~~ivat~~ 288 (315)
-++||++|||+|+|+|+|||+|||++++|+.+++.++.++++.|+|+|++|++|+++. ++.++++.+++.| +++++.
T Consensus 3 ~vvL~~v~dP~NlG~iiRta~afGv~~vi~~~~~~~~~~~~~~ra~~~~~~~~~~~~~~~~~~~l~~l~~~g--v~~~~~ 80 (153)
T TIGR00185 3 NIVLYEPEIPPNTGNIARTCAATGTRLHLIEPLGFFLDDKRLKRAGLDYWEFVQLFYHKSWEEFLEAEKPQK--LFALTK 80 (153)
T ss_pred EEEEcCCCCCChHHHHHHHHHHhCCEEEEECCCCCCCccHHHHhhccchHhcCCeEEeCCHHHHHHhCcCCC--EEEEeC
Confidence 5899999999999999999999999999998777777888888999999999999985 6888888878778 444432
Q ss_pred C-----------------CCCCCCCCCHHHHHhc-CcEEEccCC
Q 041553 289 G-----------------GNEEPRQVLQLSQELA-DSFAGVPLC 314 (315)
Q Consensus 289 ~-----------------~G~E~~Gls~~~~~~c-D~~v~IPm~ 314 (315)
. ||||++||++++++.| |..++|||.
T Consensus 81 ~~~~~~~~~~~~~~~alv~GnE~~Gls~~~l~~~~d~~v~IP~~ 124 (153)
T TIGR00185 81 KGTPAHSQVTYKLGDYLMFGPETRGLPQSILDNMMEQKIRIPMT 124 (153)
T ss_pred CCCCcceeeccCCCCEEEECCCCCCCCHHHHhhCCCCEEEEcCC
Confidence 2 9999999999999999 999999994
No 8
>PRK11081 tRNA guanosine-2'-O-methyltransferase; Provisional
Probab=99.90 E-value=1.3e-23 Score=192.91 Aligned_cols=107 Identities=17% Similarity=0.119 Sum_probs=94.4
Q ss_pred CCcEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEc-cHHHHHHHHhhCCcEEE
Q 041553 206 SIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSG-SWYHLEVLKDEFQMKLL 284 (315)
Q Consensus 206 ~~~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~-~~~~l~~~~~~~g~~iv 284 (315)
.+.++|+||+|+||+|+|||+|||+|||+++|++..... ..+.+.|+|+|+.+|+++... ++.++++.+++.|++++
T Consensus 17 ~~~l~vvLd~V~~p~NlGAIiRta~AfGv~~V~~v~~~~--~~~~~~~~s~Ga~~wv~i~~~~~~~~~i~~lk~~g~~i~ 94 (229)
T PRK11081 17 QPDLTVCMEQVHKPHNVSAIIRTADAVGVHEVHAVWPGS--RMRTMGSTAAGSNSWVQVKTHRTIGDAVAHLKGQGMQIL 94 (229)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHhCCCeEEEecCCC--ccchhhhhcCCchheEEEEEeCCHHHHHHHHHhCCCEEE
Confidence 356899999999999999999999999999998764332 225678999999999999986 58888888899999999
Q ss_pred EEecC------------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 285 AGHAG------------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 285 at~~~------------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
|++.. ||||+.|||+++++.||..|+|||.
T Consensus 95 at~~~~~a~~l~~~d~~~p~alV~GnE~~GlS~e~l~~~D~~v~IPM~ 142 (229)
T PRK11081 95 ATHLSDTAVDFREIDYTRPTCILMGQEKTGISQEALALADQDIIIPMI 142 (229)
T ss_pred EEeCCCCCccHhHhcccCCeEEEECCCCCCCCHHHHhcCCCEEEEeCC
Confidence 99853 9999999999999999999999994
No 9
>PRK10358 putative rRNA methylase; Provisional
Probab=99.89 E-value=2.9e-23 Score=180.58 Aligned_cols=102 Identities=18% Similarity=0.175 Sum_probs=82.8
Q ss_pred EEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceec--cEEEc-cHHHHHHHHhhCCcEEEE
Q 041553 209 RILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQL--PIVSG-SWYHLEVLKDEFQMKLLA 285 (315)
Q Consensus 209 ~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~l--pi~~~-~~~~l~~~~~~~g~~iva 285 (315)
+.+|||++|||||+|||+|||+|||++.||+.+ ++|+|++|++|++ |+.|++ ++.+. ++.++++. ..++++++
T Consensus 2 ~~ivL~~~~dPgNlGti~Rta~a~G~~~viv~~-~~d~~~~k~~raa-g~~~~~~~~~~~~~~l~~~l~~--~~~~~v~~ 77 (157)
T PRK10358 2 LNIVLFEPEIPPNTGNIIRLCANTGFRLHIIEP-MGFAWDDKRLRRA-GLDYHEFTAVTRHHDYAAFLEA--ENPQRLFA 77 (157)
T ss_pred eEEEEeCCCCcChHHHHHHHHHHhCCEEEEECC-CCCCCChHHHHhc-ccccccceeeEEcCCHHHHHHh--CCCceEEE
Confidence 468999999999999999999999999888865 5799999999984 666555 45543 45544442 23578888
Q ss_pred EecC-----------------CCCCCCCCCHHHHHh--cCcEEEccCC
Q 041553 286 GHAG-----------------GNEEPRQVLQLSQEL--ADSFAGVPLC 314 (315)
Q Consensus 286 t~~~-----------------~G~E~~Gls~~~~~~--cD~~v~IPm~ 314 (315)
++.. ||||++||++++++. ||..|+|||.
T Consensus 78 ~~~~~~~~~~~~~~~~~~~lvfGnE~~GLs~~~~~~~~~d~~v~IPm~ 125 (157)
T PRK10358 78 LTTKGTPAHSAVSYQDGDYLMFGPETRGLPASILDALPAEQKIRIPMM 125 (157)
T ss_pred EeCCCCCCccccccCCCcEEEECCCCCCCCHHHHhcCCCCeEEEEcCC
Confidence 7663 999999999999998 8999999994
No 10
>KOG0838 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=99.85 E-value=5.7e-21 Score=175.43 Aligned_cols=175 Identities=22% Similarity=0.225 Sum_probs=144.8
Q ss_pred CCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCcCcc--ccccccCCceEEeCHHHHHhhcCCCCCcceeEEEEEe
Q 041553 106 HGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVEVP--EGLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMK 183 (315)
Q Consensus 106 ~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~l~--~~l~~~~~~v~~vs~~~l~kLs~~~~~qGi~avAv~~ 183 (315)
.+...++|.+.|.++|..+.+ ....+|+.....+. +...-....+..++++.|+.+.++..|||+. +.
T Consensus 40 ~~~e~~~G~~sv~~al~~~kR------~~~~~~~~~~~~~~~~e~~~v~~~~~~~~s~h~L~~~t~~r~h~g~~---le- 109 (271)
T KOG0838|consen 40 LGGESVFGTHSVLAALSNGKR------DCRGLLLQSATDFRSTEFELVLRRDIEAVSKHDLNSLTDFRPHNGIL---LE- 109 (271)
T ss_pred cccceeechhhhHHHHhcccc------cceeeeeccccccCcceeeehhhhhhhccChhhHHHHHhhccccceE---Ee-
Confidence 366789999999999998865 67778877643221 1111112256788999999999999999972 10
Q ss_pred cCCCCCccchhhhhcccccCCCCCcEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceecc
Q 041553 184 IPTSVFSIDVNQKEADCRSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLP 263 (315)
Q Consensus 184 ~p~~~~~l~~~~~~~~~~~~~~~~~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lp 263 (315)
..+.++||++.||+|+|+|+|+|++||++++.+......+.++.+.++|+|+.+++|
T Consensus 110 -----------------------asl~vylde~tDp~n~gaI~rsA~~lg~~~v~lv~~n~s~lS~~vskss~gale~l~ 166 (271)
T KOG0838|consen 110 -----------------------ASLCVYLDEVTDPQNIGAIIRSAYFLGADGVLLVKGNSSPLSPVVSKSSAGALEVLP 166 (271)
T ss_pred -----------------------eEEEeeccCccCCcchHHHHHhHHHhcCCceEEEeccCCCCchhHHHhhhchhheee
Confidence 125899999999999999999999999999999998889999999999999999999
Q ss_pred EEEcc-HHHHHHHHhhCCcEEEEEecC------------------------CCCCCCCCCHHHHHhcCcEEEccC
Q 041553 264 IVSGS-WYHLEVLKDEFQMKLLAGHAG------------------------GNEEPRQVLQLSQELADSFAGVPL 313 (315)
Q Consensus 264 i~~~~-~~~l~~~~~~~g~~ivat~~~------------------------~G~E~~Gls~~~~~~cD~~v~IPm 313 (315)
+.+.+ ..++.+-.++.|+++++|... .|||+.|+++.+++.||..++||+
T Consensus 167 I~q~~~~~efl~vsvaaG~~l~~t~~~~~~~~~~~~~~l~~~~~~~Pv~lv~Gneg~Gi~~~vl~~~d~~~si~~ 241 (271)
T KOG0838|consen 167 IRQVDNPLEFLNVSVAAGIRLHGTCSWAPASKTISAVSLKFIDPEEPVALVLGNEGAGIRPGVLELCDLRVSIPG 241 (271)
T ss_pred HHHcCCHHHHHHHHHhCceEEEEeecCcCCcccccchhhhhcCCCCCeEEEecccccccChhhhhccceeEecCC
Confidence 99874 666666678899999986542 899999999999999999999998
No 11
>TIGR00050 rRNA_methyl_1 RNA methyltransferase, TrmH family, group 1. This is part of the trmH (spoU) family of S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases, and is now characterized, in E. coli, as a tRNA:Cm32/Um32 methyltransferase. It may be named TrMet(Xm32), or TrmJ, according to the nomenclature style chosen
Probab=99.79 E-value=3.1e-19 Score=164.47 Aligned_cols=103 Identities=17% Similarity=0.129 Sum_probs=87.1
Q ss_pred EEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEccHHHHHHHHhhCCcEEEEEec
Q 041553 209 RILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSGSWYHLEVLKDEFQMKLLAGHA 288 (315)
Q Consensus 209 ~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~~~~~l~~~~~~~g~~ivat~~ 288 (315)
+.+||++++||+|+|+|+|+|++||++.+++.+.+++ +++++.|+|+||.++++..+. .+++.+.++..+ .++||+.
T Consensus 4 i~vvL~~~~~p~NiGaiaR~~~~fG~~~l~lv~p~~~-~~~~a~~~a~ga~~~l~~~~v-~~~l~eal~~~~-~vv~tt~ 80 (233)
T TIGR00050 4 IRIVLVEPSHSGNIGSIARAMKNMGLTELCLVNPKSH-LEEEAYALAAGARDILDNAKV-VDDLDEALDDCD-LVVGTSA 80 (233)
T ss_pred eEEEEECCCCCCCHHHHHHHHHhCCCCEEEEeCCCcC-CCHHHHHHhCChHHhhccCEE-ECCHHHHHhcCC-EEEEECC
Confidence 5799999999999999999999999999999998887 899999999999999997663 123334444444 4666643
Q ss_pred C----------------------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 289 G----------------------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 289 ~----------------------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
. ||+|+.||+.+.++.||..++|||.
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~aLvFG~E~~GL~~~~l~~cd~~v~IP~~ 134 (233)
T TIGR00050 81 RSRNLQRPLLTPRELAPKLVAYKGKIAIVFGREDSGLTNEELLKCHVLVSIPTS 134 (233)
T ss_pred CcCCCCCCcCCHHHHHHHHHhhcCCEEEEECCCCCCCCHHHHHhCCEEEEecCC
Confidence 1 9999999999999999999999995
No 12
>PRK15114 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional
Probab=99.78 E-value=4.7e-19 Score=164.41 Aligned_cols=103 Identities=15% Similarity=0.101 Sum_probs=84.5
Q ss_pred EEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEccHHHHHHHHhhCCcEEEEEec
Q 041553 209 RILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSGSWYHLEVLKDEFQMKLLAGHA 288 (315)
Q Consensus 209 ~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~~~~~l~~~~~~~g~~ivat~~ 288 (315)
+.+||+++|||||+|+|+|+|++||++++++.+++++++++ ++|+|+||.+.++.... .+++.+.++..+ .+|||+.
T Consensus 5 i~vVLv~~~~pgNiGaiaRa~~~fG~~~l~lv~p~~~~~~~-a~~~a~GA~~~l~~a~i-~~~l~eal~~~~-~vvatt~ 81 (245)
T PRK15114 5 IRIVLVETSHTGNMGSVARAMKTMGLTNLWLVNPLVKPDSQ-AIALAAGASDVIGNATI-VDTLDEALAGCS-LVVGTSA 81 (245)
T ss_pred eEEEEeCCCCCCcHHHHHHHHHhcCCCEEEEeCCCCCCcCH-HHHHcCCchhhcccCeE-ecCHHHHHhcCC-EEEEEcC
Confidence 57999999999999999999999999999999999998877 89999999976654442 123444444333 4666652
Q ss_pred C------------------------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 289 G------------------------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 289 ~------------------------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
. ||+|+.||+.+.+++||..++|||.
T Consensus 82 r~~~~~~~~~~~~~~~~~~~~~~~~~~~alVFG~E~~GLs~e~l~~cd~~v~IP~~ 137 (245)
T PRK15114 82 RSRTLPWPMLDPRECGLKSVAEAANAPVALVFGRERVGLTNDELQKCHYHVAIAAN 137 (245)
T ss_pred CccCCcccccCHHHHHHHHHhhccCCCEEEEECCCCCCCCHHHHHhCCeEEEecCC
Confidence 1 8999999999999999999999994
No 13
>PRK10433 putative RNA methyltransferase; Provisional
Probab=99.58 E-value=5.6e-15 Score=135.79 Aligned_cols=103 Identities=17% Similarity=0.183 Sum_probs=82.6
Q ss_pred EEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEccHHHHHHHHhhCCcEEEEEec
Q 041553 209 RILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSGSWYHLEVLKDEFQMKLLAGHA 288 (315)
Q Consensus 209 ~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~~~~~l~~~~~~~g~~ivat~~ 288 (315)
+.+||++++||+|+|++.|++.+||++.+++.+.++. .++.+.+.++||...++-.++ ..++.+.++..++.+ ||+.
T Consensus 3 i~vVLv~p~~p~NiGaiaRam~nfG~~~L~lV~p~~~-~~~~a~~~A~gA~d~L~~a~v-~~tL~eAl~d~~~vi-gtta 79 (228)
T PRK10433 3 LTIILVAPARAENVGAAARAMKTMGFSELRIVDSQAH-LEPAARWVAHGSGDILDNAKV-FDTLAEALHDVDFTV-ATTA 79 (228)
T ss_pred eEEEEEcCCCCccHHHHHHHHHHCCCCEEEEeCCCCC-CcHHHHHHhccHHHHhcCceE-ECCHHHHHHhCCeEE-EEcc
Confidence 5799999999999999999999999999999987654 477888999999999986653 123334444445433 3322
Q ss_pred C-------------------------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 289 G-------------------------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 289 ~-------------------------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
. ||+|+.||+.+.+++||..++|||.
T Consensus 80 r~~~~~~~~~~p~~~~~~l~~~~~~~~~~alvfG~E~~Gl~~~~l~~c~~~~~IP~~ 136 (228)
T PRK10433 80 RSRAKFHYYATPAELVPLLEEKSSWMSHAALVFGREDSGLTNEELALADVLTGVPMA 136 (228)
T ss_pred CCCCCCCcccCHHHHHHHHHhhhcccCCEEEEECCCCCCCCHHHHHhCCcEEEecCC
Confidence 1 9999999999999999999999994
No 14
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=99.36 E-value=3.6e-12 Score=109.62 Aligned_cols=105 Identities=18% Similarity=0.052 Sum_probs=88.9
Q ss_pred EEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEc-cHHHHHHHHhhCCcEEEEEe
Q 041553 209 RILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSG-SWYHLEVLKDEFQMKLLAGH 287 (315)
Q Consensus 209 ~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~-~~~~l~~~~~~~g~~ivat~ 287 (315)
+-+||.+.+-|.|.|+|+|+|+++|+.-.++-+-..+.-.....||.+-.+..+.+... +|+++++..+. |-++++.+
T Consensus 3 ~~IvL~~PeIP~NTGNI~R~ca~tga~LhlI~PlGF~l~dk~lkRAGlDY~~~~~l~~h~s~e~fl~~~~~-~~rl~~~t 81 (155)
T COG0219 3 LNIVLYQPEIPPNTGNIIRTCAATGAELHLIEPLGFDLDDKRLKRAGLDYHEKASLTEHDSLEAFLEAEPI-GGRLFALT 81 (155)
T ss_pred cEEEEECCCCCCchhHHHHHHHhcCCeEEEEccCCCccchhhhhhcccchHhhcceEEeCCHHHHHhhccC-CceEEEEE
Confidence 46899999999999999999999999988887777777777888999999999999987 58888877554 66666544
Q ss_pred cC-----------------CCCCCCCCCHHHHHhcCcE-EEccCC
Q 041553 288 AG-----------------GNEEPRQVLQLSQELADSF-AGVPLC 314 (315)
Q Consensus 288 ~~-----------------~G~E~~Gls~~~~~~cD~~-v~IPm~ 314 (315)
.. ||.|.+||.+++++..+.. ++|||.
T Consensus 82 t~~~~~~~~~~f~~~d~llFG~Es~GLP~~i~~~~~~~~irIPm~ 126 (155)
T COG0219 82 TKGTTTYTDVSFQKGDYLLFGPESRGLPEEILDAAPDRCIRIPMR 126 (155)
T ss_pred eccccccccccCCCCCEEEECCCCCCCCHHHHHhCccceEEeccC
Confidence 32 9999999999998887766 999995
No 15
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=98.92 E-value=2.1e-09 Score=81.45 Aligned_cols=68 Identities=21% Similarity=0.334 Sum_probs=50.4
Q ss_pred EEEehHHHHHHHhcCCcccccceeeeEEEeccCc---Cc---cccccccCCceEEeCHHHHHhhcCCCCCcceeEEEEEe
Q 041553 110 LVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKV---EV---PEGLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMK 183 (315)
Q Consensus 110 lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~---~l---~~~l~~~~~~v~~vs~~~l~kLs~~~~~qGi~avAv~~ 183 (315)
+|||.|+|.|||+++. .+..||++++. ++ .+.+...+++++.++++.|++|+++.+|||| +|++.
T Consensus 1 lieG~~~V~eaL~~~~-------~i~~l~~~~~~~~~~~~~i~~~~~~~~i~v~~v~~~~l~~ls~~~~hQGv--~a~v~ 71 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGP-------RIKKLFVTEEKADKRIKEILKLAKKKGIPVYEVSKKVLDKLSDTENHQGV--VAVVK 71 (76)
T ss_dssp EEESHHHHHHHHHCTG-------GEEEEEEETT---CCTHHHHHHHHHCT-EEEEE-HHHHHHCTTTSS-TTE--EEEEE
T ss_pred CEEEHHHHHHHHcCCC-------CccEEEEEcCccchhHHHHHHHHHHcCCeEEEeCHHHHHHHcCCCCCCeE--EEEEe
Confidence 6999999999999875 48999999882 22 2334446899999999999999999999998 56665
Q ss_pred cCC
Q 041553 184 IPT 186 (315)
Q Consensus 184 ~p~ 186 (315)
.+.
T Consensus 72 ~~~ 74 (76)
T PF08032_consen 72 PPQ 74 (76)
T ss_dssp ---
T ss_pred CCC
Confidence 543
No 16
>COG0565 LasT rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=98.91 E-value=5.1e-09 Score=96.67 Aligned_cols=103 Identities=21% Similarity=0.188 Sum_probs=83.0
Q ss_pred EEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEccHHHHHHHHhhCCcEEEEEec
Q 041553 209 RILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSGSWYHLEVLKDEFQMKLLAGHA 288 (315)
Q Consensus 209 ~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~~~~~l~~~~~~~g~~ivat~~ 288 (315)
..+||-+.+.|+|+|++-|.+.-||++.++|.+.++. .++.+...|+||..-+.=.++ .++|.+.+....+ ++||+.
T Consensus 5 i~iVLVep~~~gNIG~vARaMKNfGl~eL~LV~Pr~~-~~eeA~a~A~gA~dile~A~i-~~tL~eAl~d~~~-v~aTta 81 (242)
T COG0565 5 IRIVLVEPSHPGNIGSVARAMKNFGLSELRLVNPRAG-LDEEARALAAGARDILENAKI-VDTLEEALADCDL-VVATTA 81 (242)
T ss_pred cEEEEEcCCCCccHHHHHHHHHhCCcceEEEECCCCC-CCHHHHHHhccchhhhccCee-ecCHHHHhcCCCE-EEEecc
Confidence 4689999999999999999999999999999988765 788999999999876654443 2345555554433 345543
Q ss_pred C------------------------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 289 G------------------------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 289 ~------------------------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
. ||.|..||+.+-+++||.+++||+.
T Consensus 82 r~r~~~~~~~~P~e~~~~l~~~~~~~~vAlvFGRE~~GLtNeEl~~c~~~v~IP~~ 137 (242)
T COG0565 82 RSRDLLRPLRTPREAAPELLEKAKGGKVALVFGRERVGLTNEELALCDVLVTIPAN 137 (242)
T ss_pred ccCcccccccCHHHHHHHHHHHhcCCCeEEEECCccCCCCHHHHHhhhEEEecCCC
Confidence 2 9999999999999999999999973
No 17
>KOG0839 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=98.45 E-value=2.8e-07 Score=98.73 Aligned_cols=107 Identities=17% Similarity=0.057 Sum_probs=86.4
Q ss_pred CCcEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChh-HHHhhcccceeccEEEccHH---HHHHHHhhCCc
Q 041553 206 SIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEK-ALRASRGACFQLPIVSGSWY---HLEVLKDEFQM 281 (315)
Q Consensus 206 ~~~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~k-v~RaS~Ga~~~lpi~~~~~~---~l~~~~~~~g~ 281 (315)
...+++|.-=|..|.|+|.|.|||+-||++-+++.+-.+ .+.+ .---|+-|--|+|+..+... .+.+-+|..||
T Consensus 1324 rssLIVVASLVDKppNLgGicRTcEVFgvs~LvVad~~v--i~DkQFk~lSVtAE~W~pieeVk~~~L~~fLq~kK~EGy 1401 (1477)
T KOG0839|consen 1324 RSSLIVVASLVDKPPNLGGICRTCEVFGVSLLVVADIKV--INDKQFKNLSVTAERWMPIEEVKLDELASFLQEKKKEGY 1401 (1477)
T ss_pred ceeEEEEeecccCCCccchhhhhhhhhCcceEEEeeeee--ecchhhhheeeeHHhccchhccChHHHHHHHHHhhhcCc
Confidence 456888889999999999999999999999888765322 2333 33358999999999987544 44444566899
Q ss_pred EEEEEecC------------------CCCCCCCCCHHHHHhcCcEEEccCC
Q 041553 282 KLLAGHAG------------------GNEEPRQVLQLSQELADSFAGVPLC 314 (315)
Q Consensus 282 ~ivat~~~------------------~G~E~~Gls~~~~~~cD~~v~IPm~ 314 (315)
.|+|.+-. +|+|..||+-+++..-|..|.||+.
T Consensus 1402 TiIglEQTakSV~Ld~fqFPkKslilLG~EkEGIPvnLl~~LD~cvEIpQ~ 1452 (1477)
T KOG0839|consen 1402 TIIGLEQTAKSVKLDNFQFPKKSLILLGTEKEGIPVNLLSELDLCVEIPQF 1452 (1477)
T ss_pred EEEeehhcccccccccccCCcceeEEecccccCCcHHHHHHHhHheecccc
Confidence 99997654 8999999999999999999999984
No 18
>PF04705 TSNR_N: Thiostrepton-resistance methylase, N terminus; InterPro: IPR006795 This region is found in some members of the SpoU-type rRNA methylase family (IPR001537 from INTERPRO).; GO: 0008649 rRNA methyltransferase activity, 0046677 response to antibiotic; PDB: 3GYQ_B 3NK6_A 3NK7_A.
Probab=97.30 E-value=0.00062 Score=54.99 Aligned_cols=100 Identities=16% Similarity=0.147 Sum_probs=72.4
Q ss_pred eeecCCCCHHHHHHHhhhccccccccCCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC----ccccccccCCc
Q 041553 80 KNITSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE----VPEGLDNISTH 155 (315)
Q Consensus 80 ~~ItS~~N~~vK~~~kL~~~~k~R~~~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~----l~~~l~~~~~~ 155 (315)
..|+++++|.|+++..+.+ ..|..-...+||...++.+.+.+|- ++..+|-.+... +.+...+.+++
T Consensus 5 dvI~~~SDPaVqRIiDvtk--~sRs~ikT~LIED~EPL~~~i~AGv-------efieVYg~~~~p~~~~ll~~c~~r~Ip 75 (115)
T PF04705_consen 5 DVITNRSDPAVQRIIDVTK--HSRSNIKTTLIEDPEPLTHSIRAGV-------EFIEVYGSDGSPVPPELLAACRQRGIP 75 (115)
T ss_dssp TTCEESSSSCCHHHHHHHC--TSTTTTTEEEEESHHHHHHHHCTT--------EEEEEEEETTS---CCCCHHHHCTT--
T ss_pred ccccCCCchhhHHHHhhcc--cchhhheeeeecCchHHHHHHhcCc-------EEEEEeeecCCCCChHHHHHHHhcCCc
Confidence 3599999999999999975 5677788999999999999998874 788889888753 44555667899
Q ss_pred eEEeCHHHHHhhcCCCCCcceeEEEEEecCCCC
Q 041553 156 TVRVSSVVMKKLSGVQSSESIEAIALMKIPTSV 188 (315)
Q Consensus 156 v~~vs~~~l~kLs~~~~~qGi~avAv~~~p~~~ 188 (315)
+..++..++++|...+...-+.++|-++.|..+
T Consensus 76 vrlv~~~v~N~lFk~erK~k~fGiArvPrp~~f 108 (115)
T PF04705_consen 76 VRLVDSAVVNQLFKGERKPKVFGIARVPRPARF 108 (115)
T ss_dssp EEEE-HHHHCCCS-SSS--SEEEEEE------H
T ss_pred eEEecHHHHHHHHhcccccceeeeecCCCCcch
Confidence 999999999999988877777677777666543
No 19
>PRK03958 tRNA 2'-O-methylase; Reviewed
Probab=90.86 E-value=0.65 Score=41.41 Aligned_cols=82 Identities=18% Similarity=0.172 Sum_probs=51.0
Q ss_pred HHHHHHhHhcCCeEEECCCCCCCCChhHH---HhhcccceeccEEEccHHH-HHHHHhhCCcEE--EEEecC--------
Q 041553 224 TLLRTAMAFKWGGVFLLPGCCDPFSEKAL---RASRGACFQLPIVSGSWYH-LEVLKDEFQMKL--LAGHAG-------- 289 (315)
Q Consensus 224 aIiRsA~A~Gv~~Vil~~~~~d~~~~kv~---RaS~Ga~~~lpi~~~~~~~-l~~~~~~~g~~i--vat~~~-------- 289 (315)
-+.|||-|||++++++... ++-....+ -.-=|+.|.+.+. .+|.+ +.++ ++.|..+ +.+...
T Consensus 21 hvartARafGa~~~yiv~~--~~~q~~~v~~I~~~WGg~fnv~~~-~s~~~~i~~~-k~~G~vvhLtmyga~~~~~~~~i 96 (176)
T PRK03958 21 HVGLTARALGADKIILASN--DEHVKESVEDIVERWGGPFEVEVT-KSWKKEIREW-KDGGIVVHLTMYGENIQDVEPEI 96 (176)
T ss_pred HHHHHHHHcCCceEEEecC--cHHHHHHHHHHHHhcCCceEEEEc-CCHHHHHHHH-HhCCcEEEEEEecCCccchHHHH
Confidence 3689999999999999854 22111111 1123777774433 24665 4555 4556322 233221
Q ss_pred -------------CCCCCCCCCHHHHHhcCcEEEc
Q 041553 290 -------------GNEEPRQVLQLSQELADSFAGV 311 (315)
Q Consensus 290 -------------~G~E~~Gls~~~~~~cD~~v~I 311 (315)
+| +.|+.+++.+.||..+.+
T Consensus 97 r~~~~~~~p~LIvvG--g~gvp~evye~aDynlgv 129 (176)
T PRK03958 97 REAHRKGEPLLIVVG--AEKVPREVYELADWNVAV 129 (176)
T ss_pred HHhhccCCcEEEEEc--CCCCCHHHHhhCCEEecc
Confidence 78 779999999999998743
No 20
>COG1303 Uncharacterized protein conserved in archaea [Function unknown]
Probab=89.11 E-value=1.4 Score=38.69 Aligned_cols=81 Identities=23% Similarity=0.170 Sum_probs=49.8
Q ss_pred HHHHhHhcCCeEEECCCCCCCCC----hhHHHhhcccceeccEEEccHHH-HHHHHhhCCcE----EEEEecC-------
Q 041553 226 LRTAMAFKWGGVFLLPGCCDPFS----EKALRASRGACFQLPIVSGSWYH-LEVLKDEFQMK----LLAGHAG------- 289 (315)
Q Consensus 226 iRsA~A~Gv~~Vil~~~~~d~~~----~kv~RaS~Ga~~~lpi~~~~~~~-l~~~~~~~g~~----ivat~~~------- 289 (315)
.-||-|||+++|++...+ |.-- .+|++ .-|.-|.+... .+|.. +.+| ++.|.. .||....
T Consensus 24 ~LtARAfGA~gil~~~e~-De~v~esv~dVv~-rwGG~F~v~~~-~nw~~~i~~w-k~gG~vvHLTMYG~~i~dv~~ei~ 99 (179)
T COG1303 24 ALTARAFGADGILLDGEE-DEKVVESVEDVVE-RWGGPFFVKFG-VNWRKVIREW-KEGGIVVHLTMYGLNIDDVIDEIR 99 (179)
T ss_pred hhhhHhhCCceEEEcCcc-cHHHHHHHHHHHH-hcCCCEEEEEc-ccHHHHHHHh-hcCCEEEEEEecCCcchhhhHHHH
Confidence 458999999999998664 2111 12222 34555555443 35655 4455 554432 2333222
Q ss_pred ---------CCCCCCCCCHHHHHhcCcEEEcc
Q 041553 290 ---------GNEEPRQVLQLSQELADSFAGVP 312 (315)
Q Consensus 290 ---------~G~E~~Gls~~~~~~cD~~v~IP 312 (315)
.|+| -+..++-++||..|.|-
T Consensus 100 ~~~k~~lvvVGae--KVp~evYelADyNV~Vg 129 (179)
T COG1303 100 ESKKDVLVVVGAE--KVPGEVYELADYNVSVG 129 (179)
T ss_pred hcCCcEEEEEccc--cCCHHHhhhcccceecC
Confidence 6888 58999999999999874
No 21
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=62.45 E-value=24 Score=34.65 Aligned_cols=79 Identities=19% Similarity=0.164 Sum_probs=44.4
Q ss_pred HHHHHhHhcCCeEEECCCCCCCCChhHH-H--hhcccceeccEEEccHHH-HHHHHhhCCcEEEEEecC-----------
Q 041553 225 LLRTAMAFKWGGVFLLPGCCDPFSEKAL-R--ASRGACFQLPIVSGSWYH-LEVLKDEFQMKLLAGHAG----------- 289 (315)
Q Consensus 225 IiRsA~A~Gv~~Vil~~~~~d~~~~kv~-R--aS~Ga~~~lpi~~~~~~~-l~~~~~~~g~~ivat~~~----------- 289 (315)
+.-||-|||++++++... |.---..+ + ..-|..|.+.+. .+|.. +.+| .| .++-.+..
T Consensus 21 v~l~ara~ga~~~~~~~~--d~~~~~~~~~v~~~~gg~f~~~~~-~~~~~~~~~~---~g-~vvhltmyg~~~~~~~~~i 93 (339)
T PRK12703 21 VALTARAFGASSILVDER--DETLENTIKKVVDNFGGSFEIKTG-IEWKSEFKKF---HG-IRVHLTMYGRPIEDVIDEI 93 (339)
T ss_pred HHHHHHHhcCCeeEecCC--cHhHHHHHHHHHHhcCCCeEEEec-cCHHHHHHhc---CC-EEEEEecCCCchHHHHHHH
Confidence 445788888888888743 22111111 1 134555665553 23443 3333 23 44333222
Q ss_pred ----------CCCCCCCCCHHHHHhcCcEEEcc
Q 041553 290 ----------GNEEPRQVLQLSQELADSFAGVP 312 (315)
Q Consensus 290 ----------~G~E~~Gls~~~~~~cD~~v~IP 312 (315)
.|.| -++.++-++||..|.|-
T Consensus 94 ~~~~~~~~~vvg~~--kvp~~~y~~ad~nv~v~ 124 (339)
T PRK12703 94 RESGKDVMVLVGSE--KVPIEAYEIADYNVSVT 124 (339)
T ss_pred hccCCCEEEEECCC--cCCHHHHhhcccceeeC
Confidence 5777 58999999999999874
No 22
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=56.32 E-value=25 Score=28.74 Aligned_cols=46 Identities=20% Similarity=0.278 Sum_probs=33.9
Q ss_pred CCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEEEccHHHHHHHHhhCCcEEEE
Q 041553 216 IQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIVSGSWYHLEVLKDEFQMKLLA 285 (315)
Q Consensus 216 I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~~~~~~~l~~~~~~~g~~iva 285 (315)
...|..+..+++-|.+.|+.+|++..+ ...+++.+.++++|+.++|
T Consensus 62 ~~~~~~~~~~v~~~~~~g~~~v~~~~g------------------------~~~~~~~~~a~~~gi~vig 107 (116)
T PF13380_consen 62 CVPPDKVPEIVDEAAALGVKAVWLQPG------------------------AESEELIEAAREAGIRVIG 107 (116)
T ss_dssp -S-HHHHHHHHHHHHHHT-SEEEE-TT------------------------S--HHHHHHHHHTT-EEEE
T ss_pred EcCHHHHHHHHHHHHHcCCCEEEEEcc------------------------hHHHHHHHHHHHcCCEEEe
Confidence 357899999999999999999999866 1235788888889999886
No 23
>COG3426 Butyrate kinase [Energy production and conversion]
Probab=55.53 E-value=25 Score=34.07 Aligned_cols=36 Identities=25% Similarity=0.326 Sum_probs=30.4
Q ss_pred CCCcCcHHHHH--HHHhHhcCCeEEECCCCCCCCChhH
Q 041553 216 IQDPGNLGTLL--RTAMAFKWGGVFLLPGCCDPFSEKA 251 (315)
Q Consensus 216 I~DP~NlGaIi--RsA~A~Gv~~Vil~~~~~d~~~~kv 251 (315)
-+.+.|+|+|| |.|.++|+-+-|+.+-.+|-..+.+
T Consensus 103 G~haSnLGaiiA~~ia~~~gvPayIVDPvvVDEm~~~A 140 (358)
T COG3426 103 GEHASNLGAIIANRIAKALGVPAYIVDPVVVDEMEDVA 140 (358)
T ss_pred CcchhhhhHHHHHHHhhhcCCCeeeeCceehhhcchhh
Confidence 35789999998 8899999999999988888776653
No 24
>TIGR00259 thylakoid_BtpA membrane complex biogenesis protein, BtpA family. Members of this family are found in C. elegans, Synechocystis sp., E. coli, and several of the Archaea. Members in Cyanobacteria have been shown to play a role in protein complex biogenesis, and designated BtpA (biogenesis of thylakoid protein). Homologs in non-photosynthetic species, where thylakoid intracytoplasmic membranes are lacking, are likely to act elsewhere in membrane protein biogenesis.
Probab=53.75 E-value=1.1e+02 Score=28.88 Aligned_cols=71 Identities=13% Similarity=0.107 Sum_probs=51.0
Q ss_pred cCcHHHHHHHHhHhc-CCeEEECC-CCCCCCChhHHHhhcccceeccEEEc---cHHHHHHHHhhCCcEEEEEecC
Q 041553 219 PGNLGTLLRTAMAFK-WGGVFLLP-GCCDPFSEKALRASRGACFQLPIVSG---SWYHLEVLKDEFQMKLLAGHAG 289 (315)
Q Consensus 219 P~NlGaIiRsA~A~G-v~~Vil~~-~~~d~~~~kv~RaS~Ga~~~lpi~~~---~~~~l~~~~~~~g~~ivat~~~ 289 (315)
+.++..+++.+..+| +|+||+++ .+-.+++...++.-..+.-.+|++-. +.+.+.++++...-.++++...
T Consensus 156 ~~~~~e~a~~~~~~~~aDavivtG~~TG~~~d~~~l~~vr~~~~~~PvllggGvt~eNv~e~l~~adGviVgS~~K 231 (257)
T TIGR00259 156 NRDLESIALDTVERGLADAVILSGKTTGTEVDLELLKLAKETVKDTPVLAGSGVNLENVEELLSIADGVIVATTIK 231 (257)
T ss_pred CCCHHHHHHHHHHhcCCCEEEECcCCCCCCCCHHHHHHHHhccCCCeEEEECCCCHHHHHHHHhhCCEEEECCCcc
Confidence 578999999999999 99999998 44567888777665444446798874 4777888776443444455443
No 25
>PRK07283 hypothetical protein; Provisional
Probab=47.69 E-value=83 Score=24.99 Aligned_cols=68 Identities=12% Similarity=0.157 Sum_probs=44.1
Q ss_pred HHHHHHHhhhccccccccCCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC------ccccccccCCceE-EeC
Q 041553 88 PFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE------VPEGLDNISTHTV-RVS 160 (315)
Q Consensus 88 ~~vK~~~kL~~~~k~R~~~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~------l~~~l~~~~~~v~-~vs 160 (315)
.++-.+..|.. |.++ ++.|...|+++++.+. +..|++.+... +.......+++++ ..+
T Consensus 4 ~~~l~~LglA~--raGk-----lv~G~~~v~~aik~gk--------~~lVi~A~Das~~~~kk~~~~~~~~~Vp~~~~~t 68 (98)
T PRK07283 4 QKISNLLGLAQ--RAGR-----IISGEELVVKAIQSGQ--------AKLVFLANDAGPNLTKKVTDKSNYYQVEVSTVFS 68 (98)
T ss_pred HHHHHHHHHHH--HhCC-----eeEcHHHHHHHHHcCC--------ccEEEEeCCCCHHHHHHHHHHHHHcCCCEEEeCC
Confidence 45556666654 3333 8999999999999863 56677776531 2222223467764 457
Q ss_pred HHHHHhhcCC
Q 041553 161 SVVMKKLSGV 170 (315)
Q Consensus 161 ~~~l~kLs~~ 170 (315)
.+.|....+.
T Consensus 69 ~~eLG~a~Gk 78 (98)
T PRK07283 69 TLELSAAVGK 78 (98)
T ss_pred HHHHHHHhCC
Confidence 8888888876
No 26
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=47.69 E-value=59 Score=25.95 Aligned_cols=64 Identities=13% Similarity=0.158 Sum_probs=43.0
Q ss_pred EEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC------ccccccccCCceEE--eCHHHHHhhcCCCCCcceeEEE
Q 041553 109 ALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE------VPEGLDNISTHTVR--VSSVVMKKLSGVQSSESIEAIA 180 (315)
Q Consensus 109 ~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~------l~~~l~~~~~~v~~--vs~~~l~kLs~~~~~qGi~avA 180 (315)
-++.|.+.+..+++.+ ..+.+++.+... +.......+++++. -+.+.|.+.++....-++ +|
T Consensus 16 kl~~G~~~v~kai~~g--------kaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~~--va 85 (99)
T PRK01018 16 KVILGSKRTIKAIKLG--------KAKLVIVASNCPKDIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVSA--LA 85 (99)
T ss_pred CEEEcHHHHHHHHHcC--------CceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEEE--EE
Confidence 3889999999999876 356777776531 22333446788755 389999999886533233 55
Q ss_pred EE
Q 041553 181 LM 182 (315)
Q Consensus 181 v~ 182 (315)
+.
T Consensus 86 I~ 87 (99)
T PRK01018 86 IV 87 (99)
T ss_pred Ee
Confidence 53
No 27
>PRK06683 hypothetical protein; Provisional
Probab=46.89 E-value=96 Score=23.97 Aligned_cols=55 Identities=16% Similarity=0.207 Sum_probs=38.2
Q ss_pred EEEehHHHHHHHhcCCcccccceeeeEEEeccCcC------ccccccccCCceEEe-CHHHHHhhcCCCC
Q 041553 110 LVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE------VPEGLDNISTHTVRV-SSVVMKKLSGVQS 172 (315)
Q Consensus 110 lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~------l~~~l~~~~~~v~~v-s~~~l~kLs~~~~ 172 (315)
++-|.+.+..+++.+ ..+.+|+.++.. +.......+++++.+ +...|.+.++...
T Consensus 12 ~v~G~~~v~kaik~g--------kaklViiA~Da~~~~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~ 73 (82)
T PRK06683 12 VVVGHKRTLEAIKNG--------IVKEVVIAEDADMRLTHVIIRTALQHNIPITKVESVRKLGKVAGIQV 73 (82)
T ss_pred EEEcHHHHHHHHHcC--------CeeEEEEECCCCHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcc
Confidence 788999999999876 467788876642 223334457787544 6777888877643
No 28
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=46.61 E-value=98 Score=23.83 Aligned_cols=55 Identities=15% Similarity=0.229 Sum_probs=37.8
Q ss_pred EEEehHHHHHHHhcCCcccccceeeeEEEeccCcC------ccccccccCCceEEe-CHHHHHhhcCCCC
Q 041553 110 LVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE------VPEGLDNISTHTVRV-SSVVMKKLSGVQS 172 (315)
Q Consensus 110 lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~------l~~~l~~~~~~v~~v-s~~~l~kLs~~~~ 172 (315)
++.|.+.+..+++.+. .+.+++.++.. +.......+++++.+ +...|.+.++...
T Consensus 12 l~~G~~~v~kai~~gk--------aklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~ 73 (82)
T PRK13602 12 IVIGTKQTVKALKRGS--------VKEVVVAEDADPRLTEKVEALANEKGVPVSKVDSMKKLGKACGIEV 73 (82)
T ss_pred EEEcHHHHHHHHHcCC--------eeEEEEECCCCHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCc
Confidence 7889999999998763 56777776542 223334467787655 5677888877643
No 29
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=45.30 E-value=67 Score=24.78 Aligned_cols=62 Identities=19% Similarity=0.258 Sum_probs=43.4
Q ss_pred EEEehHHHHHHHhcCCcccccceeeeEEEeccCcC-------ccccccccCCceEEeCH-HHHHhhcCCCCCcceeEEEE
Q 041553 110 LVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE-------VPEGLDNISTHTVRVSS-VVMKKLSGVQSSESIEAIAL 181 (315)
Q Consensus 110 lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~-------l~~~l~~~~~~v~~vs~-~~l~kLs~~~~~qGi~avAv 181 (315)
++.|.+-+.++++.+ ....++++++.. +.......+++++.+.. ..|.++.+...... ++++
T Consensus 16 lv~G~~~v~k~l~~~--------~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~~--~~~i 85 (95)
T PF01248_consen 16 LVKGIKEVLKALKKG--------KAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPVS--ALAI 85 (95)
T ss_dssp EEESHHHHHHHHHTT--------CESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTSS--EEEE
T ss_pred EEEchHHHHHHHHcC--------CCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHHHHHHCCCCcEE--EEEE
Confidence 999999999999977 356677776532 22223446788888875 78999988865533 3454
No 30
>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA [], Ycf3 [, ], and Ycf4 (IPR003359 from INTERPRO) []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions.
Probab=44.52 E-value=1.3e+02 Score=28.38 Aligned_cols=70 Identities=13% Similarity=0.083 Sum_probs=49.5
Q ss_pred cCcHHHHHHHH-hHhcCCeEEECCCC-CCCCChhHHHhhcccceeccEEEc---cHHHHHHHHhhCCcEEEEEecC
Q 041553 219 PGNLGTLLRTA-MAFKWGGVFLLPGC-CDPFSEKALRASRGACFQLPIVSG---SWYHLEVLKDEFQMKLLAGHAG 289 (315)
Q Consensus 219 P~NlGaIiRsA-~A~Gv~~Vil~~~~-~d~~~~kv~RaS~Ga~~~lpi~~~---~~~~l~~~~~~~g~~ivat~~~ 289 (315)
+..+-...+.| ..+++|+|++++.. -.+-++.-++.-..+.- +|++-+ +.+.+.++++-..-.|+|+...
T Consensus 157 ~~~~~~~~~~a~~~~~aDaviVtG~~TG~~~~~~~l~~vr~~~~-~PVlvGSGvt~~Ni~~~l~~ADG~IVGS~~K 231 (254)
T PF03437_consen 157 TRDLEEAAKDAVERGGADAVIVTGKATGEPPDPEKLKRVREAVP-VPVLVGSGVTPENIAEYLSYADGAIVGSYFK 231 (254)
T ss_pred CCCHHHHHHHHHHhcCCCEEEECCcccCCCCCHHHHHHHHhcCC-CCEEEecCCCHHHHHHHHHhCCEEEEeeeee
Confidence 44577788887 78899999999854 34455543333222222 999975 4788999888777889999887
No 31
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=41.94 E-value=59 Score=29.30 Aligned_cols=88 Identities=19% Similarity=0.157 Sum_probs=41.5
Q ss_pred HHHHHHHHhHhcCCeEEECCCCCC--CCChhHH---Hhhcccce------eccEEE--ccHHHHHHHH-hh--CCcEEEE
Q 041553 222 LGTLLRTAMAFKWGGVFLLPGCCD--PFSEKAL---RASRGACF------QLPIVS--GSWYHLEVLK-DE--FQMKLLA 285 (315)
Q Consensus 222 lGaIiRsA~A~Gv~~Vil~~~~~d--~~~~kv~---RaS~Ga~~------~lpi~~--~~~~~l~~~~-~~--~g~~iva 285 (315)
+=-|-|+|.-+|+.+.++...-.+ ..-.+++ +...|+.+ -+.+++ .++++.++.. ++ ..-.+++
T Consensus 30 lHDIAR~~rTYgv~~yyiVtPl~~Q~~l~~ril~hW~~G~G~~yNp~R~eAl~~v~~~~sle~a~~~I~~~~G~~P~~v~ 109 (185)
T PF09936_consen 30 LHDIARSARTYGVKGYYIVTPLEAQRELAERILGHWQEGYGAEYNPDRKEALSLVRVVDSLEEAIEDIEEEEGKRPLLVA 109 (185)
T ss_dssp HHHHHHHHHHTT-SEEEEE---HHHHHHHHHHHHHHHTSGGGGT-SSSHHHHTTEEEESSHHHHHHHHHHHHSS--EEEE
T ss_pred HHhhhhhhhccCCcCEEEecchHHHHHHHHHHHHhcccCCCcCcCcCHHHHHhHhccHhhHHHHHHHHHHHhCCCCEEEE
Confidence 445899999999999988632110 0011111 33445432 223333 2455433333 23 3456778
Q ss_pred EecC-------------------------CCCCCCCCCHHHHHhcCcEEE
Q 041553 286 GHAG-------------------------GNEEPRQVLQLSQELADSFAG 310 (315)
Q Consensus 286 t~~~-------------------------~G~E~~Gls~~~~~~cD~~v~ 310 (315)
|+.. ||- |-||.+++++.||.++.
T Consensus 110 TsAr~~~~~is~~~lr~~l~~~~~P~LllFGT-GwGL~~ev~~~~D~iLe 158 (185)
T PF09936_consen 110 TSARKYPNTISYAELRRMLEEEDRPVLLLFGT-GWGLAPEVMEQCDYILE 158 (185)
T ss_dssp --SS--SS-B-HHHHHHHHHH--S-EEEEE---TT---HHHHTT-SEEB-
T ss_pred ecCcCCCCCcCHHHHHHHHhccCCeEEEEecC-CCCCCHHHHHhcCeeEc
Confidence 7765 565 56999999999997653
No 32
>PRK07714 hypothetical protein; Provisional
Probab=38.23 E-value=1.4e+02 Score=23.73 Aligned_cols=70 Identities=11% Similarity=0.088 Sum_probs=45.2
Q ss_pred CHHHHHHHhhhccccccccCCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCc------CccccccccCCceE-Ee
Q 041553 87 NPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKV------EVPEGLDNISTHTV-RV 159 (315)
Q Consensus 87 N~~vK~~~kL~~~~k~R~~~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~------~l~~~l~~~~~~v~-~v 159 (315)
+.++-.+..|.. |..+ ++.|...|.++++.+. +.-+++.... ++.......+++++ ..
T Consensus 3 ~~~~~~~Lgla~--raGk-----~v~G~~~v~~al~~g~--------~~lViiA~D~s~~~~~ki~~~~~~~~vp~~~~~ 67 (100)
T PRK07714 3 MSDWKSFLGLAN--RARK-----VISGEELVLKEVRSGK--------AKLVLLSEDASVNTTKKITDKCTYYNVPMRKVE 67 (100)
T ss_pred HHHHHHHHHHHH--HhCC-----eeecHHHHHHHHHhCC--------ceEEEEeCCCCHHHHHHHHHHHHhcCCCEEEeC
Confidence 345666777754 3333 8999999999999763 4566776543 12222233466755 56
Q ss_pred CHHHHHhhcCCC
Q 041553 160 SSVVMKKLSGVQ 171 (315)
Q Consensus 160 s~~~l~kLs~~~ 171 (315)
+.+.|.+..+..
T Consensus 68 sk~eLG~a~Gk~ 79 (100)
T PRK07714 68 NRQQLGHAIGKD 79 (100)
T ss_pred CHHHHHHHhCCC
Confidence 888898888864
No 33
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=36.94 E-value=51 Score=26.84 Aligned_cols=38 Identities=16% Similarity=0.110 Sum_probs=25.3
Q ss_pred HHHHHHHHhhCCcEEEEEecCCCCCCCCCCHHHHHhcCcEEEc
Q 041553 269 WYHLEVLKDEFQMKLLAGHAGGNEEPRQVLQLSQELADSFAGV 311 (315)
Q Consensus 269 ~~~l~~~~~~~g~~ivat~~~~G~E~~Gls~~~~~~cD~~v~I 311 (315)
+..+.+.+++.|+.+..... ....++.+++.||.++.|
T Consensus 108 f~~~v~~l~~~g~~V~v~~~-----~~~~s~~L~~~ad~f~~~ 145 (146)
T PF01936_consen 108 FAPLVRKLRERGKRVIVVGA-----EDSASEALRSAADEFISI 145 (146)
T ss_dssp GHHHHHHHHHH--EEEEEE------GGGS-HHHHHHSSEEEE-
T ss_pred HHHHHHHHHHcCCEEEEEEe-----CCCCCHHHHHhcCEEEeC
Confidence 45556666788987766542 558999999999999887
No 34
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=36.72 E-value=1.3e+02 Score=23.60 Aligned_cols=58 Identities=17% Similarity=0.254 Sum_probs=41.9
Q ss_pred cEEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC------ccccccccCCceEEe-CHHHHHhhcCCCCC
Q 041553 108 SALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE------VPEGLDNISTHTVRV-SSVVMKKLSGVQSS 173 (315)
Q Consensus 108 ~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~------l~~~l~~~~~~v~~v-s~~~l~kLs~~~~~ 173 (315)
..++.|.+-+..+++.+. ...+|+....+ +..+....++++.++ |...|.+.++...+
T Consensus 12 ~~~vvG~kqt~Kai~kg~--------~~~v~iA~Da~~~vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~ 76 (84)
T PRK13600 12 QHFVVGLKETLKALKKDQ--------VTSLIIAEDVEVYLMTRVLSQINQKNIPVSFFKSKHALGKHVGINVN 76 (84)
T ss_pred cCceeeHHHHHHHHhcCC--------ceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcC
Confidence 357889999999998763 56788876642 334445578888777 57789999887543
No 35
>COG0434 SgcQ Predicted TIM-barrel enzyme [General function prediction only]
Probab=35.86 E-value=2.2e+02 Score=27.02 Aligned_cols=72 Identities=13% Similarity=0.063 Sum_probs=51.4
Q ss_pred cCcHHHHHHH-HhHhcCCeEEECCC-CCCCCChhHHHhhcccceeccEEEc---cHHHHHHHHhhCCcEEEEEecCCC
Q 041553 219 PGNLGTLLRT-AMAFKWGGVFLLPG-CCDPFSEKALRASRGACFQLPIVSG---SWYHLEVLKDEFQMKLLAGHAGGN 291 (315)
Q Consensus 219 P~NlGaIiRs-A~A~Gv~~Vil~~~-~~d~~~~kv~RaS~Ga~~~lpi~~~---~~~~l~~~~~~~g~~ivat~~~~G 291 (315)
+.|+-..++. .+-+++|+||+++. +-.+-+..-++...-+.- +|++.+ +++.+..+++-..-.|+|+...-|
T Consensus 162 ~~~~~~~v~dtver~~aDaVI~tG~~TG~~~d~~el~~a~~~~~-~pvlvGSGv~~eN~~~~l~~adG~IvgT~lK~~ 238 (263)
T COG0434 162 NRSLEEAVKDTVERGLADAVIVTGSRTGSPPDLEELKLAKEAVD-TPVLVGSGVNPENIEELLKIADGVIVGTSLKKG 238 (263)
T ss_pred CcCHHHHHHHHHHccCCCEEEEecccCCCCCCHHHHHHHHhccC-CCEEEecCCCHHHHHHHHHHcCceEEEEEEccC
Confidence 4488888888 77788999999884 334455544444433333 999975 477888888877788999998733
No 36
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=35.15 E-value=1.7e+02 Score=23.68 Aligned_cols=68 Identities=10% Similarity=0.107 Sum_probs=42.7
Q ss_pred HHHHHHhhhccccccccCCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCc------CccccccccCCceE-EeCH
Q 041553 89 FVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKV------EVPEGLDNISTHTV-RVSS 161 (315)
Q Consensus 89 ~vK~~~kL~~~~k~R~~~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~------~l~~~l~~~~~~v~-~vs~ 161 (315)
++-.+..|.. |.++ ++.|...|+++++.+. +.-|++.+.. ++.......+++++ ..+.
T Consensus 4 k~l~lLglA~--rAGk-----lv~G~~~v~~aik~gk--------~~lVI~A~D~s~~~kkki~~~~~~~~vp~~~~~t~ 68 (104)
T PRK05583 4 KFLNFLGLTK--KAGK-----LLEGYNKCEEAIKKKK--------VYLIIISNDISENSKNKFKNYCNKYNIPYIEGYSK 68 (104)
T ss_pred HHHHHHHHHH--HhCC-----eeecHHHHHHHHHcCC--------ceEEEEeCCCCHhHHHHHHHHHHHcCCCEEEecCH
Confidence 4455566653 3333 8999999999999763 5566666543 12222223456654 5688
Q ss_pred HHHHhhcCCC
Q 041553 162 VVMKKLSGVQ 171 (315)
Q Consensus 162 ~~l~kLs~~~ 171 (315)
+.|....+..
T Consensus 69 ~eLg~a~Gk~ 78 (104)
T PRK05583 69 EELGNAIGRD 78 (104)
T ss_pred HHHHHHhCCC
Confidence 8888888763
No 37
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=34.95 E-value=1.2e+02 Score=26.69 Aligned_cols=41 Identities=12% Similarity=-0.097 Sum_probs=32.2
Q ss_pred cHHHHHHHHhhCCcEEEEEecCCCCCCCCCCHHHHHhcCcEEEccC
Q 041553 268 SWYHLEVLKDEFQMKLLAGHAGGNEEPRQVLQLSQELADSFAGVPL 313 (315)
Q Consensus 268 ~~~~l~~~~~~~g~~ivat~~~~G~E~~Gls~~~~~~cD~~v~IPm 313 (315)
|+..+...+++.|..|++. |.| .+.+..+.+.||.++.|.-
T Consensus 117 DF~~Lv~~lre~G~~V~v~----g~~-~~ts~~L~~acd~FI~L~~ 157 (160)
T TIGR00288 117 DFLPVINKAKENGKETIVI----GAE-PGFSTALQNSADIAIILGE 157 (160)
T ss_pred hHHHHHHHHHHCCCEEEEE----eCC-CCChHHHHHhcCeEEeCCC
Confidence 3666777778889999885 433 4889999999999998863
No 38
>COG4080 SpoU rRNA Methylase family enzyme [General function prediction only]
Probab=34.94 E-value=1.6e+02 Score=25.54 Aligned_cols=69 Identities=13% Similarity=0.057 Sum_probs=47.1
Q ss_pred cEEEEEecCCCcCcHHHHHHHHhHhcCCeEEECCCC--CCCC-ChhHHHhhcccceeccEEEc-cHHHHHHHHhh
Q 041553 208 HRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGC--CDPF-SEKALRASRGACFQLPIVSG-SWYHLEVLKDE 278 (315)
Q Consensus 208 ~~~lvLD~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~--~d~~-~~kv~RaS~Ga~~~lpi~~~-~~~~l~~~~~~ 278 (315)
++++++.++..+.-+=-+-|+|+.||++.+++++-. +..- =|++.|-+--. ..|+... ++++.++.++-
T Consensus 2 ev~vvlHN~~S~~rv~e~ariaygfg~k~lV~tka~g~AAQsGIp~~~kla~k~--G~~vlvf~dL~DAlevL~P 74 (147)
T COG4080 2 EVIVVLHNVSSVQRVLEFARIAYGFGAKRLVLTKAKGSAAQSGIPEVLKLAFKL--GKPVLVFPDLDDALEVLRP 74 (147)
T ss_pred cEEEEEecCCchHHHHHHHHHHcccCccEEEEEecccHhhhhccHHHHHHHHHh--CCcEEEehhHHHHHHhcCC
Confidence 368999999999999999999999999999998732 2221 24444443111 1455544 46666666654
No 39
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=32.55 E-value=1.4e+02 Score=24.28 Aligned_cols=54 Identities=7% Similarity=0.007 Sum_probs=38.9
Q ss_pred EEEehHHHHHHHhcCCcccccceeeeEEEeccCcC------ccccccccCCceE--EeCHHHHHhhcCCC
Q 041553 110 LVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE------VPEGLDNISTHTV--RVSSVVMKKLSGVQ 171 (315)
Q Consensus 110 lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~------l~~~l~~~~~~v~--~vs~~~l~kLs~~~ 171 (315)
++.|.+.+..+++.+ ....|+++.+.. +.......+++++ .-+.+.|...++..
T Consensus 26 lv~G~~~vlkalk~g--------kaklViiA~D~~~~~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~ 87 (108)
T PTZ00106 26 YTLGTKSTLKALRNG--------KAKLVIISNNCPPIRRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRH 87 (108)
T ss_pred eeecHHHHHHHHHcC--------CeeEEEEeCCCCHHHHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCc
Confidence 889999999999876 367778876641 2223334578876 37899999988863
No 40
>PF06230 DUF1009: Protein of unknown function (DUF1009); InterPro: IPR010415 This is a family of uncharacterised bacterial proteins.
Probab=32.47 E-value=31 Score=31.73 Aligned_cols=67 Identities=16% Similarity=0.081 Sum_probs=44.7
Q ss_pred HHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceecc-----EEEcc---HHHHHHHHhhCCcEEEEEecC
Q 041553 222 LGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLP-----IVSGS---WYHLEVLKDEFQMKLLAGHAG 289 (315)
Q Consensus 222 lGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lp-----i~~~~---~~~l~~~~~~~g~~ivat~~~ 289 (315)
+|.+++.....|+..|++.+.- ....-.-+|--..+...+| +.+.| +..+.+++++.|+.+++++..
T Consensus 1 lG~~i~~lk~~gv~~vvmaG~v-~rp~~~~~~~D~~~~~~l~~~~~~l~~gDd~lL~av~~~le~~G~~vv~~~~~ 75 (214)
T PF06230_consen 1 LGKIIKFLKREGVTRVVMAGKV-KRPIFSDLRPDWRALKLLPRLLKALDRGDDALLRAVIDELEKEGFKVVGAHEY 75 (214)
T ss_pred ChHHHHHHHHcCCCEEEEeecc-cCccccccCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCEEEcHHHh
Confidence 5899999999999999987642 1111111233334444445 33443 577888899999999997764
No 41
>COG3494 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.95 E-value=75 Score=30.26 Aligned_cols=71 Identities=18% Similarity=0.186 Sum_probs=51.2
Q ss_pred cCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhhcccceeccEE-----Ecc---HHHHHHHHhhCCcEEEEEecC
Q 041553 219 PGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIV-----SGS---WYHLEVLKDEFQMKLLAGHAG 289 (315)
Q Consensus 219 P~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS~Ga~~~lpi~-----~~~---~~~l~~~~~~~g~~ivat~~~ 289 (315)
-|-+|.++|+-..-|++.|++...-.-..+-+-+|-.......+|.+ +.| +..++++++..|+++++++.-
T Consensus 54 iG~vg~lik~l~~~~v~~vVl~G~v~~Rp~~~~L~~d~~~l~~lp~Iv~~~~~gDDaLLk~vi~~~E~~GfKvigahei 132 (279)
T COG3494 54 IGEVGKLIKLLKTEGVDRVVLAGGVERRPNFRDLRPDKIGLAVLPKIVEALIRGDDALLKAVIDFIESRGFKVIGAHEI 132 (279)
T ss_pred HHHHHHHHHHHHHcCCcEEEEecccccCcchhhcccccchhhHHHHHHHHhccCcHHHHHHHHHHHHhcCcEEecHhhh
Confidence 36789999999999999999987644344445555555555444543 232 567888899999999998763
No 42
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=29.66 E-value=2.1e+02 Score=22.16 Aligned_cols=58 Identities=14% Similarity=0.107 Sum_probs=40.1
Q ss_pred EEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC------ccccccccCCceE-EeCHHHHHhhcCCCCCc
Q 041553 109 ALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE------VPEGLDNISTHTV-RVSSVVMKKLSGVQSSE 174 (315)
Q Consensus 109 ~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~------l~~~l~~~~~~v~-~vs~~~l~kLs~~~~~q 174 (315)
-++.|.+.+..+++.+ ..+-+++..+.. +.......+++++ .-+...|.+..+...+-
T Consensus 8 Klv~G~~~vlkaIk~g--------kakLViiA~Da~~~~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~a 72 (82)
T PRK13601 8 KRVVGAKQTLKAITNC--------NVLQVYIAKDAEEHVTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGA 72 (82)
T ss_pred cEEEchHHHHHHHHcC--------CeeEEEEeCCCCHHHHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCe
Confidence 4788999999999876 366788876642 2233334567774 45788888888876553
No 43
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=28.94 E-value=1.6e+02 Score=24.18 Aligned_cols=64 Identities=14% Similarity=0.219 Sum_probs=41.9
Q ss_pred EEEehHHHHHHHhcCCcccccceeeeEEEeccCcC-------ccccccccCCceEEe-CHHHHHhhcCCCCCcceeEEEE
Q 041553 110 LVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE-------VPEGLDNISTHTVRV-SSVVMKKLSGVQSSESIEAIAL 181 (315)
Q Consensus 110 lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~-------l~~~l~~~~~~v~~v-s~~~l~kLs~~~~~qGi~avAv 181 (315)
++.|.+.+.++++.+. ..-++++.+.. +.......+++++.+ +.+.|.+..+...+-. ++|+
T Consensus 27 l~~G~~~v~kaikkgk--------a~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~eLG~a~Gk~~~~s--vvaI 96 (117)
T TIGR03677 27 IKKGTNEVTKAVERGI--------AKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKKEDLGAAAGLEVGAA--SAAI 96 (117)
T ss_pred EeEcHHHHHHHHHcCC--------ccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeE--EEEE
Confidence 9999999999999763 55667765531 122233456776544 7888998888754433 3565
Q ss_pred Ee
Q 041553 182 MK 183 (315)
Q Consensus 182 ~~ 183 (315)
..
T Consensus 97 ~d 98 (117)
T TIGR03677 97 VD 98 (117)
T ss_pred Ec
Confidence 43
No 44
>PF04015 DUF362: Domain of unknown function (DUF362) ; InterPro: IPR007160 This domain is found in some iron-sulphur proteins.
Probab=28.78 E-value=1.4e+02 Score=26.44 Aligned_cols=83 Identities=13% Similarity=0.127 Sum_probs=52.3
Q ss_pred cCCCcCcHHHHHHHHhHhcCCeEEECCCCCCC--CChhHHHhhcccceeccEEEccHHHHHHHHhhCCcEEEEEecC---
Q 041553 215 GIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDP--FSEKALRASRGACFQLPIVSGSWYHLEVLKDEFQMKLLAGHAG--- 289 (315)
Q Consensus 215 ~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~--~~~kv~RaS~Ga~~~lpi~~~~~~~l~~~~~~~g~~ivat~~~--- 289 (315)
-.++|.=+.++++.....|+..|++.+.+... ....+.+. .-+.++.++.|..++..+..
T Consensus 18 ~~T~P~vv~avv~~l~~~g~~~i~i~e~~~~~~~~~~~~~~~---------------~G~~~~~~~~g~~~v~~~~~~~~ 82 (206)
T PF04015_consen 18 ATTHPEVVRAVVEMLKEAGAKEIIIAESPGSGAADTREVFKR---------------SGYEEIAEEYGAELVDLDDEPWV 82 (206)
T ss_pred ccCCHHHHHHHHHHHHHcCCCceEEEeCCCcchHhHHHHHHH---------------cchhhHHHhcCCcEEEccCCccc
Confidence 36789999999999999999888887765433 11111111 12333444567777766544
Q ss_pred ---C--CCC--CCCCCHHHHHhcCcEEEccC
Q 041553 290 ---G--NEE--PRQVLQLSQELADSFAGVPL 313 (315)
Q Consensus 290 ---~--G~E--~~Gls~~~~~~cD~~v~IPm 313 (315)
. |.. .--+++.+.+ ||.+|.+|.
T Consensus 83 ~~~~~~~~~~~~~~v~~~~~e-aD~iInvp~ 112 (206)
T PF04015_consen 83 EVPLPGGEHLKEFKVPRILLE-ADVIINVPK 112 (206)
T ss_pred ceeccCCeeeeeEEhhHHHHh-CCEEEEecC
Confidence 1 222 2235566666 999999985
No 45
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=28.08 E-value=1.3e+02 Score=24.79 Aligned_cols=38 Identities=13% Similarity=0.093 Sum_probs=29.0
Q ss_pred cHHHHHHHHhhCCcEEEEEecCCCCCCCCCCHHHHHhcCcEEE
Q 041553 268 SWYHLEVLKDEFQMKLLAGHAGGNEEPRQVLQLSQELADSFAG 310 (315)
Q Consensus 268 ~~~~l~~~~~~~g~~ivat~~~~G~E~~Gls~~~~~~cD~~v~ 310 (315)
+...+.+.+++.|.+++..... .+.|+.+.+.||.++.
T Consensus 111 Df~~~i~~lr~~G~~V~v~~~~-----~~~s~~L~~~~d~f~~ 148 (149)
T cd06167 111 DFVPLVERLRELGKRVIVVGFE-----AKTSRELRKAADRFID 148 (149)
T ss_pred cHHHHHHHHHHcCCEEEEEccC-----ccChHHHHHhCCcccc
Confidence 3455666668889998877654 7899999999997664
No 46
>COG2106 Uncharacterized conserved protein [Function unknown]
Probab=27.96 E-value=52 Score=31.40 Aligned_cols=28 Identities=18% Similarity=0.311 Sum_probs=23.4
Q ss_pred CcCcHHHHHHHHhHhcCCeEEECCCCCC
Q 041553 218 DPGNLGTLLRTAMAFKWGGVFLLPGCCD 245 (315)
Q Consensus 218 DP~NlGaIiRsA~A~Gv~~Vil~~~~~d 245 (315)
.-.=+|.|.|.|+-|||+.||+-.+..+
T Consensus 24 kT~Kvg~IARaaaiF~V~eIii~~D~~~ 51 (272)
T COG2106 24 KTYKVGQIARAAAIFRVDEIIIYEDGDD 51 (272)
T ss_pred hHHHHHHHHHHHHhhcccEEEEEeCCCC
Confidence 3456899999999999999999876543
No 47
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=26.69 E-value=2e+02 Score=23.86 Aligned_cols=63 Identities=16% Similarity=0.200 Sum_probs=41.4
Q ss_pred EEEehHHHHHHHhcCCcccccceeeeEEEeccCcC-------ccccccccCCceEEe-CHHHHHhhcCCCCCcceeEEEE
Q 041553 110 LVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE-------VPEGLDNISTHTVRV-SSVVMKKLSGVQSSESIEAIAL 181 (315)
Q Consensus 110 lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~-------l~~~l~~~~~~v~~v-s~~~l~kLs~~~~~qGi~avAv 181 (315)
++.|.+.+..+++.+. ..-+++.+... +..+....++++..+ +.+.|.+.++...+-.+ +|+
T Consensus 31 lv~G~~~v~kaikkgk--------akLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~eLG~a~Gk~~~~sv--vaI 100 (122)
T PRK04175 31 IKKGTNETTKAVERGI--------AKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLEVGAAA--AAI 100 (122)
T ss_pred EeEcHHHHHHHHHcCC--------ccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCeEE--EEE
Confidence 9999999999999763 55667765531 122233457776655 67788888887544443 555
Q ss_pred E
Q 041553 182 M 182 (315)
Q Consensus 182 ~ 182 (315)
.
T Consensus 101 ~ 101 (122)
T PRK04175 101 V 101 (122)
T ss_pred e
Confidence 4
No 48
>COG0269 SgbH 3-hexulose-6-phosphate synthase and related proteins [Carbohydrate transport and metabolism]
Probab=24.41 E-value=3.2e+02 Score=25.33 Aligned_cols=97 Identities=20% Similarity=0.180 Sum_probs=64.3
Q ss_pred EEEEEe-cCCCcCcHHHHHHHHhHhcCCeEEECCCCCCCCChhHHHhh--cccceeccEEEc-cHHHHHHHHhhCCcEEE
Q 041553 209 RILVLD-GIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRAS--RGACFQLPIVSG-SWYHLEVLKDEFQMKLL 284 (315)
Q Consensus 209 ~~lvLD-~I~DP~NlGaIiRsA~A~Gv~~Vil~~~~~d~~~~kv~RaS--~Ga~~~lpi~~~-~~~~l~~~~~~~g~~iv 284 (315)
.+++.| -+-|-|++ -.|.|.-+|+|.+.+..-.-+.-=.++++.+ .|-.-.+.++.+ ++....+++++.|...+
T Consensus 57 ~~IvAD~Kt~D~G~~--e~~ma~~aGAd~~tV~g~A~~~TI~~~i~~A~~~~~~v~iDl~~~~~~~~~~~~l~~~gvd~~ 134 (217)
T COG0269 57 KIIVADLKTADAGAI--EARMAFEAGADWVTVLGAADDATIKKAIKVAKEYGKEVQIDLIGVWDPEQRAKWLKELGVDQV 134 (217)
T ss_pred CeEEeeeeecchhHH--HHHHHHHcCCCEEEEEecCCHHHHHHHHHHHHHcCCeEEEEeecCCCHHHHHHHHHHhCCCEE
Confidence 355666 56677654 5688999999998887432221123455554 455556666655 57888888888899888
Q ss_pred EEecCCCCCCCCCCH------HHHHhcCc
Q 041553 285 AGHAGGNEEPRQVLQ------LSQELADS 307 (315)
Q Consensus 285 at~~~~G~E~~Gls~------~~~~~cD~ 307 (315)
..|...-.|..|.+. .+++.++.
T Consensus 135 ~~H~g~D~q~~G~~~~~~~l~~ik~~~~~ 163 (217)
T COG0269 135 ILHRGRDAQAAGKSWGEDDLEKIKKLSDL 163 (217)
T ss_pred EEEecccHhhcCCCccHHHHHHHHHhhcc
Confidence 888775555455555 66778873
No 49
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=24.11 E-value=4.3e+02 Score=25.16 Aligned_cols=59 Identities=12% Similarity=0.132 Sum_probs=39.1
Q ss_pred cCCcEEEEehHHHHHHHhcCCcccccceeeeEEEeccCcC-------ccccccccCCceEEe-CHHHHHhhcCCC
Q 041553 105 SHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVE-------VPEGLDNISTHTVRV-SSVVMKKLSGVQ 171 (315)
Q Consensus 105 ~~g~~lVeG~~~V~EaL~~~~~~~~~~~~i~~l~v~e~~~-------l~~~l~~~~~~v~~v-s~~~l~kLs~~~ 171 (315)
+...+++.|.+.|..+++.+. ..-+++.+... +..+....++++..+ +++.|..+.+..
T Consensus 128 kkp~~LvsG~n~VtkaIekkK--------AkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVktKaeLG~AIGkK 194 (263)
T PTZ00222 128 KAPLAVVTGLQEVTRAIEKKQ--------ARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRK 194 (263)
T ss_pred CCCCeeccCHHHHHHHHHcCC--------ceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHHCCC
Confidence 344689999999999999764 44555655431 333444567887555 677777777654
No 50
>PLN03033 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=21.36 E-value=1.3e+02 Score=29.02 Aligned_cols=35 Identities=29% Similarity=0.442 Sum_probs=27.6
Q ss_pred cEEEEEe---cCCCcCc----------------HHHHHHHHhHhcCCeEEECCC
Q 041553 208 HRILVLD---GIQDPGN----------------LGTLLRTAMAFKWGGVFLLPG 242 (315)
Q Consensus 208 ~~~lvLD---~I~DP~N----------------lGaIiRsA~A~Gv~~Vil~~~ 242 (315)
.+-+|+| .||-||- +-.+.|.|.|+|+||+++--+
T Consensus 189 ~lPVI~DpSHsvQ~pg~~~~~~~g~~s~G~Re~V~~larAAvA~GaDGlfiEvH 242 (290)
T PLN03033 189 NCPVVADITHSLQQPAGKKLDGGGVASGGLRELIPCIARTAVAVGVDGIFMEVH 242 (290)
T ss_pred CCCEEEeCCccccCCCcccccccCCCCCCCHHHHHHHHHHHHHhCCCEEEEEec
Confidence 4457777 5777775 558999999999999999644
No 51
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=20.24 E-value=1.8e+02 Score=24.51 Aligned_cols=56 Identities=11% Similarity=0.046 Sum_probs=37.2
Q ss_pred HHHHHHHhHhcCCeEEECCC---CCCCCChhHHHhhcccceeccEEEcc-HHHHHHHHhhCCcEEEE
Q 041553 223 GTLLRTAMAFKWGGVFLLPG---CCDPFSEKALRASRGACFQLPIVSGS-WYHLEVLKDEFQMKLLA 285 (315)
Q Consensus 223 GaIiRsA~A~Gv~~Vil~~~---~~d~~~~kv~RaS~Ga~~~lpi~~~~-~~~l~~~~~~~g~~iva 285 (315)
...+++...+|++.|.+--+ ..+-|-.++ |.. -|-...| +.++++.+++.|+++++
T Consensus 3 ~~~~~~lk~~~v~si~i~a~~h~g~ayYPt~~-----~~~--hp~L~~Dllge~v~a~h~~Girv~a 62 (132)
T PF14871_consen 3 EQFVDTLKEAHVNSITIFAKCHGGYAYYPTKV-----GPR--HPGLKRDLLGEQVEACHERGIRVPA 62 (132)
T ss_pred HHHHHHHHHhCCCEEEEEcccccEEEEccCCC-----CcC--CCCCCcCHHHHHHHHHHHCCCEEEE
Confidence 35678888899999998443 233333332 222 2323346 68899999999999987
Done!