Query 020038
Match_columns 332
No_of_seqs 252 out of 1800
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 06:31:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020038.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020038hhsearch_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 4.6E-49 9.9E-54 371.4 16.1 227 79-310 21-259 (260)
2 PRK11181 23S rRNA (guanosine-2 100.0 5.5E-48 1.2E-52 360.8 18.1 228 80-309 3-243 (244)
3 TIGR00186 rRNA_methyl_3 rRNA m 100.0 1.1E-46 2.4E-51 350.4 18.1 227 80-308 2-237 (237)
4 PRK10864 putative methyltransf 100.0 1.8E-45 3.8E-50 358.3 16.3 225 79-309 108-345 (346)
5 PRK11081 tRNA guanosine-2'-O-m 100.0 1.7E-42 3.6E-47 321.2 20.6 175 144-320 3-180 (229)
6 TIGR00185 rRNA_methyl_2 rRNA m 100.0 1.2E-38 2.6E-43 278.6 14.6 146 161-310 2-149 (153)
7 PF00588 SpoU_methylase: SpoU 100.0 1.1E-38 2.4E-43 273.4 12.5 141 160-302 1-142 (142)
8 PRK10358 putative rRNA methyla 100.0 1.1E-35 2.4E-40 261.3 16.8 146 161-310 2-150 (157)
9 TIGR00050 rRNA_methyl_1 RNA me 100.0 2.1E-31 4.5E-36 247.7 15.1 144 161-311 4-160 (233)
10 PRK15114 tRNA (cytidine/uridin 100.0 1.5E-29 3.2E-34 237.0 15.0 143 161-308 5-160 (245)
11 KOG0838 RNA Methylase, SpoU fa 100.0 1.6E-29 3.4E-34 234.7 14.0 217 73-308 35-271 (271)
12 KOG2506 SpoU rRNA Methylase fa 100.0 1.5E-29 3.3E-34 240.0 9.2 227 78-307 125-370 (371)
13 PRK10433 putative RNA methyltr 100.0 9.4E-28 2E-32 222.6 16.1 143 161-307 3-158 (228)
14 COG0219 CspR Predicted rRNA me 99.9 1.3E-24 2.9E-29 188.6 14.6 146 161-309 3-150 (155)
15 COG0565 LasT rRNA methylase [T 99.9 5.5E-22 1.2E-26 184.2 13.2 146 161-313 5-165 (242)
16 KOG0839 RNA Methylase, SpoU fa 99.8 1.4E-20 2.9E-25 199.9 9.4 153 156-309 1322-1476(1477)
17 PRK03958 tRNA 2'-O-methylase; 98.3 4E-06 8.6E-11 75.3 10.3 122 176-308 21-151 (176)
18 PF09936 Methyltrn_RNA_4: SAM- 97.9 6.6E-05 1.4E-09 67.7 8.5 128 174-303 30-181 (185)
19 COG4080 SpoU rRNA Methylase fa 97.8 7.8E-05 1.7E-09 64.3 8.1 137 160-306 2-145 (147)
20 COG1303 Uncharacterized protei 96.9 0.0061 1.3E-07 54.1 8.7 122 177-309 23-151 (179)
21 PF08032 SpoU_sub_bind: RNA 2' 96.3 0.00029 6.3E-09 53.6 -2.8 63 81-143 1-75 (76)
22 PRK12703 tRNA 2'-O-methylase; 95.3 0.093 2E-06 52.0 9.1 119 177-309 21-146 (339)
23 PF09895 DUF2122: RecB-family 93.5 0.3 6.5E-06 40.7 6.8 84 215-304 21-106 (106)
24 COG4752 Uncharacterized protei 92.9 0.15 3.2E-06 45.1 4.4 141 164-306 22-185 (190)
25 PF01994 Trm56: tRNA ribose 2' 89.5 0.53 1.1E-05 40.0 4.2 84 217-308 8-96 (120)
26 PF14419 SPOUT_MTase_2: AF2226 85.7 1.5 3.1E-05 39.3 4.8 127 173-305 18-170 (173)
27 PRK02135 hypothetical protein; 79.9 5.3 0.00011 37.0 6.3 80 220-307 114-197 (201)
28 COG1385 Uncharacterized protei 79.3 5.7 0.00012 37.6 6.6 125 161-287 79-225 (246)
29 PF04013 Methyltrn_RNA_2: Puta 76.3 17 0.00037 33.6 8.5 80 220-307 113-197 (199)
30 PF04452 Methyltrans_RNA: RNA 74.0 11 0.00024 34.7 6.9 111 162-276 63-195 (225)
31 KOG0838 RNA Methylase, SpoU fa 73.0 1.5 3.3E-05 42.0 0.9 51 253-304 136-190 (271)
32 PRK11713 16S ribosomal RNA met 68.0 44 0.00095 31.0 9.5 106 163-276 77-198 (234)
33 TIGR00046 RNA methyltransferas 64.0 35 0.00076 31.9 8.0 112 162-276 78-205 (240)
34 PF04407 DUF531: Protein of un 59.8 21 0.00045 32.1 5.2 47 254-302 119-165 (173)
35 COG2242 CobL Precorrin-6B meth 57.9 55 0.0012 30.0 7.8 100 161-263 60-185 (187)
36 PRK00103 rRNA large subunit me 57.6 18 0.0004 32.0 4.6 68 233-307 67-145 (157)
37 TIGR00246 tRNA_RlmH_YbeA rRNA 52.2 29 0.00062 30.6 5.0 73 225-306 59-141 (153)
38 COG4087 Soluble P-type ATPase 51.4 35 0.00076 29.9 5.2 83 172-281 54-137 (152)
39 PF02590 SPOUT_MTase: Predicte 49.1 16 0.00034 32.3 2.8 68 232-306 66-144 (155)
40 COG1901 Uncharacterized conser 42.0 1.5E+02 0.0033 27.4 8.0 81 220-308 112-196 (197)
41 PF13407 Peripla_BP_4: Peripla 40.7 1.3E+02 0.0027 27.0 7.5 71 149-242 19-89 (257)
42 cd01423 MGS_CPS_I_III Methylgl 39.7 73 0.0016 25.9 5.3 66 220-287 13-83 (116)
43 PF13380 CoA_binding_2: CoA bi 38.7 73 0.0016 26.3 5.2 51 160-238 57-107 (116)
44 PRK04171 ribosome biogenesis p 33.8 1.6E+02 0.0034 27.7 7.0 68 234-305 147-216 (222)
45 COG2106 Uncharacterized conser 33.7 44 0.00095 32.4 3.4 26 172-197 26-51 (272)
46 COG3426 Butyrate kinase [Energ 27.7 60 0.0013 32.1 3.2 65 133-207 77-143 (358)
47 COG1772 Uncharacterized protei 25.7 1.4E+02 0.0029 26.8 4.7 45 254-300 119-163 (178)
48 cd06299 PBP1_LacI_like_13 Liga 25.7 4.7E+02 0.01 23.1 10.1 44 149-193 20-63 (265)
49 COG1576 Uncharacterized conser 25.6 1.3E+02 0.0029 26.7 4.8 50 232-282 66-123 (155)
50 TIGR00288 conserved hypothetic 24.4 92 0.002 27.8 3.6 31 252-283 126-156 (160)
51 COG1793 CDC9 ATP-dependent DNA 24.1 7.5E+02 0.016 25.5 10.6 118 138-275 239-366 (444)
52 COG3142 CutC Uncharacterized p 23.6 2.6E+02 0.0056 26.7 6.5 93 178-274 79-186 (241)
53 cd04906 ACT_ThrD-I_1 First of 22.9 3.5E+02 0.0077 20.7 7.5 65 164-240 5-73 (85)
54 PF04015 DUF362: Domain of unk 22.8 1.5E+02 0.0032 26.5 4.7 28 167-194 18-45 (206)
55 cd04819 PA_2 PA_2: Protease-as 21.7 4.7E+02 0.01 21.7 7.5 76 161-236 46-123 (127)
56 KOG2882 p-Nitrophenyl phosphat 21.6 2E+02 0.0044 28.4 5.6 84 167-276 36-125 (306)
57 PF09837 DUF2064: Uncharacteri 21.5 83 0.0018 26.4 2.6 65 169-241 40-107 (122)
58 cd04886 ACT_ThrD-II-like C-ter 20.2 2.2E+02 0.0047 19.8 4.4 65 167-237 5-72 (73)
No 1
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.6e-49 Score=371.37 Aligned_cols=227 Identities=25% Similarity=0.323 Sum_probs=188.8
Q ss_pred hhhhcChHHHHHHHHcCCccc---ccCc----cchHHhhhhhcCCcc--cccccCCC--cccCcHHHHHhhCCCcchhhH
Q 020038 79 EKLLTNPDDVTQFMKMERSCM---VNDG----VGSMESLSNKRWFPY--LDRYKCGD--VYLSSSEVVEALSPYLMEERK 147 (332)
Q Consensus 79 e~ll~g~~~V~~~l~~~~r~~---~~~~----~~~i~~La~~~~i~~--~~~~~l~~--~~~~~qgV~~~v~~~~~~~r~ 147 (332)
+.+++|.|.|.+++.++.++. +.+. ...+...+..+++++ +++..++. ....||||++.+.+..+....
T Consensus 21 ~~~~~G~~~v~~al~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~l~~~~~~~~hqGi~a~~~~~~~~~~~ 100 (260)
T COG0566 21 EFLIEGEHAVLEALASGPKIVRILVTEGRLPRFEELLALAAAKGIPVYVVSEAILDKLSGTENHQGIVAVVKKRRYPLLD 100 (260)
T ss_pred cEEEeeHHHHHHHHhcCCCceEEEEecccchhHHHHHHHHHhcCCeEEEECHHHHHHHhCCCCCCeEEEEEecccccchh
Confidence 478999999999999998654 2221 122333444456664 44444443 457899999999888765433
Q ss_pred HHHHHHHhcCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChH-HHH
Q 020038 148 ERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPR-ECF 226 (332)
Q Consensus 148 ~~l~~v~~~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~-~~l 226 (332)
+.... ...+++|+||+|+||||+|||+|||+|||+++||+.++++++++++++|+|+|+.+++|+.++.|.. .++
T Consensus 101 ~~~~~----~~~~l~lvLd~V~DP~NlGaIiRtA~a~Gv~~Vi~~~~~~~~~~~~v~r~s~Ga~~~vp~~~~~n~~~~~~ 176 (260)
T COG0566 101 DLLDA----EAQPLLLVLDGVTDPHNLGAIIRTADAFGVDGVILPKRRADPLNPKVIRASAGAAFHVPVIRVTNLARTLL 176 (260)
T ss_pred hhhhc----ccCCEEEEEecCcCCcchhhHHhhHHHhCCCEEEECCCccCCccceeEEecCChheeceeEEEeccHHHHH
Confidence 33322 1557999999999999999999999999999999999999999999999999999999999989655 555
Q ss_pred HHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHH
Q 020038 227 NVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVC 306 (332)
Q Consensus 227 ~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~r 306 (332)
+.+++.|||++|++.++ +.++++.++++|++||||||+.|||+++++.||..|+|||.|.++|||||||+||+|||+.|
T Consensus 177 ~~~~~~G~~v~~t~~~~-~~~~~~~~~~~~~aLvlG~Eg~Gls~~~~~~~D~~v~IPm~G~v~SLNVsvAagI~Lye~~r 255 (260)
T COG0566 177 ELLKEAGFWVVATSLDG-EVDLYETDLPKKTALVLGNEGEGLSRLLLEHADQLVRIPMAGKVESLNVSVAAGILLYEARR 255 (260)
T ss_pred HHHHHcCeEEEEECCCC-CcchhhccccCCEEEEECCCCCCcCHHHHhhCCEEEEecCCCCcchhHHHHHHHHHHHHHHH
Confidence 55555999999999986 78899999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhh
Q 020038 307 DRAT 310 (332)
Q Consensus 307 qR~~ 310 (332)
||..
T Consensus 256 q~~~ 259 (260)
T COG0566 256 QRRA 259 (260)
T ss_pred hhcC
Confidence 9864
No 2
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=100.00 E-value=5.5e-48 Score=360.83 Aligned_cols=228 Identities=22% Similarity=0.288 Sum_probs=189.4
Q ss_pred hhhcChHHHHHHHHcC-Cccc---ccCc-----cchHHhhhhhcCCcc--cccccCCC--cccCcHHHHHhhCCCcchhh
Q 020038 80 KLLTNPDDVTQFMKME-RSCM---VNDG-----VGSMESLSNKRWFPY--LDRYKCGD--VYLSSSEVVEALSPYLMEER 146 (332)
Q Consensus 80 ~ll~g~~~V~~~l~~~-~r~~---~~~~-----~~~i~~La~~~~i~~--~~~~~l~~--~~~~~qgV~~~v~~~~~~~r 146 (332)
++++|.|.|.++++.. .++. +... ...+..+++++++++ +++..++. ....||||++.+.+.....
T Consensus 3 ~~i~G~~~v~eal~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~v~~~~l~~ls~~~~~qGv~a~~~~~~~~~- 81 (244)
T PRK11181 3 EIIYGIHAVQALLERAPERFIEVFVLKGREDKRLLPLINELEAQGIVIQLANRQTLDEKAEGAVHQGIIARVKPGRQLQ- 81 (244)
T ss_pred cEEEehHHHHHHHhCCCCceeEEEEECCCcchHHHHHHHHHHHcCCcEEEeCHHHHhhhhcCCCCceEEEEEecccccc-
Confidence 5789999999999864 4332 2211 122344566666664 55555555 4568999999987654321
Q ss_pred HHHHHHHHhcCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHHH
Q 020038 147 KERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRECF 226 (332)
Q Consensus 147 ~~~l~~v~~~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~l 226 (332)
...++++++.+..+++++||+|+||+|+|+|+|||++||+++|++.+++++++++++.|+|||+.+|+|+.++.|+.+++
T Consensus 82 ~~~~~~~~~~~~~~~~lvLd~v~dp~NlGai~Rta~a~G~~~vi~~~~~~~~~~~~~~r~s~Ga~~~l~~~~~~~~~~~l 161 (244)
T PRK11181 82 ENDLPDLLASLEQPFLLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAETVPLIRVTNLARTM 161 (244)
T ss_pred hhhHHHHHhcCCCCEEEEEcCCCCcchHHHHHHHHHHcCCCEEEECCCCCCCCCCceEEecCCHHHcCeEEEcCCHHHHH
Confidence 12355555545567999999999999999999999999999999888777888889999999999999999999999999
Q ss_pred HHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHH
Q 020038 227 NVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVC 306 (332)
Q Consensus 227 ~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~r 306 (332)
+.|+++||++++++.++ +.++++.++++|++||||||+.||++++++.||..|+|||.|.++|||||+|+||+|||+.|
T Consensus 162 ~~l~~~g~~i~~t~~~~-~~~~~~~~~~~~~alv~G~E~~Gls~~~~~~~d~~v~IPm~g~~~SLNvsvAaaI~lye~~r 240 (244)
T PRK11181 162 RMLQEKNIWIVGTAGEA-DHTLYQSKLTGPLALVMGAEGEGMRRLTREHCDELISIPMAGSVSSLNVSVATGICLFEAVR 240 (244)
T ss_pred HHHHHCCCEEEEEeCCC-CcchhhcCCCCCEEEEECCCCCCcCHHHHHhCCEEEEEcCCCCCceeeHHHHHHHHHHHHHH
Confidence 99999999999999764 56788899999999999999999999999999999999999999999999999999999999
Q ss_pred hhh
Q 020038 307 DRA 309 (332)
Q Consensus 307 qR~ 309 (332)
||.
T Consensus 241 qr~ 243 (244)
T PRK11181 241 QRS 243 (244)
T ss_pred hhc
Confidence 975
No 3
>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=1.1e-46 Score=350.42 Aligned_cols=227 Identities=25% Similarity=0.349 Sum_probs=188.3
Q ss_pred hhhcChHHHHHHHHcCCccccc-----CccchHHhhhhhcCCcc--cccccCCC--cccCcHHHHHhhCCCcchhhHHHH
Q 020038 80 KLLTNPDDVTQFMKMERSCMVN-----DGVGSMESLSNKRWFPY--LDRYKCGD--VYLSSSEVVEALSPYLMEERKERF 150 (332)
Q Consensus 80 ~ll~g~~~V~~~l~~~~r~~~~-----~~~~~i~~La~~~~i~~--~~~~~l~~--~~~~~qgV~~~v~~~~~~~r~~~l 150 (332)
+++||+|.|.|+++++.+..+. .....+..+++++++++ +++..++. ....||||++.+.+.......+..
T Consensus 2 ~~i~G~~~v~eal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~l~~l~~~~~~qGv~a~~~~~~~~~~~~~~ 81 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQQRVFILKGLESKRLKKLIQLAKKQGINIQLVDRQKLDQLTKGGNHQGIAAKVKPILYKDLNDLY 81 (237)
T ss_pred cEEEehHHHHHHHhCCCEEEEEecCcchHHHHHHHHHHHcCCcEEEeCHHHHHHHhCCCCCCeEEEEEecCCCCCHHHHH
Confidence 5789999999999998544321 11234455667666764 55555554 456899999998776543333322
Q ss_pred HHHHhcCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHHHHHHH
Q 020038 151 VNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRECFNVLR 230 (332)
Q Consensus 151 ~~v~~~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk 230 (332)
+ ...+...+++++||+|+||+|+|+|+|||++||+++|++.+.++++..+++.|+|||+.+|+|+.++.|+.++++.++
T Consensus 82 ~-~~~~~~~~~~lvLd~v~dp~NlGaI~Rta~afG~~~vil~~~~~~~~~~~~~r~s~Ga~~~l~~~~~~~~~~~l~~l~ 160 (237)
T TIGR00186 82 K-TAKSKKQPFLLILDEITDPHNLGAILRTAEAFGVDGVILPKRRSAPLNSTVVKTSSGAVEYVPLARVTNLSRTITKLK 160 (237)
T ss_pred H-hhhccCCCEEEEEcCCCCCccHHHHHHHHHHcCCCEEEECCCCcCCCCCceeeeeccccceeEEEEeCCHHHHHHHHH
Confidence 2 223334578999999999999999999999999999998888778778899999999999999999999999999999
Q ss_pred hCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHhh
Q 020038 231 SRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDR 308 (332)
Q Consensus 231 ~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rqR 308 (332)
++||++++++.+++ ..+++.++++|++||||||+.||++++++.||.+|+|||.|.++|||||+|+||+|||+.|||
T Consensus 161 ~~g~~i~~~~~~~~-~~~~~~~~~~~~~lv~GnE~~Gls~~~l~~~d~~v~IP~~g~~~SLNVsvAaaI~lye~~rqr 237 (237)
T TIGR00186 161 ESGFWTVGTDLDAQ-DTLYQVKLTKPLALVVGNEGEGVSRLIKENCDFLIKIPMAGKVDSLNVSVAAGILLFEIKRQR 237 (237)
T ss_pred HCCCEEEEEecCCC-ccccccccCCCEEEEECCCCCCcCHHHHHhCCEEEEECCCCCCCcchHHHHHHHHHHHHHhcC
Confidence 99999999998754 446788889999999999999999999999999999999999999999999999999999986
No 4
>PRK10864 putative methyltransferase; Provisional
Probab=100.00 E-value=1.8e-45 Score=358.33 Aligned_cols=225 Identities=19% Similarity=0.210 Sum_probs=183.1
Q ss_pred hhhhcChHHHHHHHHcC-Cccc---ccCc----cchHHhhhhhcCCcc--cccccCCC--cccCcHHHHHhhCCCcchhh
Q 020038 79 EKLLTNPDDVTQFMKME-RSCM---VNDG----VGSMESLSNKRWFPY--LDRYKCGD--VYLSSSEVVEALSPYLMEER 146 (332)
Q Consensus 79 e~ll~g~~~V~~~l~~~-~r~~---~~~~----~~~i~~La~~~~i~~--~~~~~l~~--~~~~~qgV~~~v~~~~~~~r 146 (332)
+.++||.|+|.+++++. +.+. +.+. ...+..++.++.+++ ++...++. ....||||++.+..+.+..
T Consensus 108 ~~~I~G~~aV~ealk~~~~~i~~l~~~~~~~~~~~~il~~~~~~~~~v~~V~~~~l~kls~~~~hqGV~A~v~~~~~~~- 186 (346)
T PRK10864 108 ETRVYGENACQALFQSRPEAIVRAWFIQSVTPRFKEALRWMAANRKAYHVVDEAELTKASGTEHHGGVCFLIKKRNGTD- 186 (346)
T ss_pred CcEEEEHHHHHHHHhCCCCceeEEEEecCccHHHHHHHHHHHHcCCcEEEeCHHHHHHHhCCCCCCeEEEEEeCCCCCC-
Confidence 78899999999999984 3332 2221 122223444445554 44444444 3567999999987665432
Q ss_pred HHHHHHHHhc-CCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHH
Q 020038 147 KERFVNVVKN-RSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPREC 225 (332)
Q Consensus 147 ~~~l~~v~~~-~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~ 225 (332)
++++++. .+.+++|+||+|+||+|+|+|+|||++||+++|++.+. +...+++++|+|+|+.++++++.+.|+.++
T Consensus 187 ---l~~~l~~~~~~~~vlvLd~I~DP~NlGaIiRTA~afGv~~Vil~~~-~~~~~~kvvRaS~Ga~~~v~i~~~~nl~~~ 262 (346)
T PRK10864 187 ---VQQWLAQAGAQDCVLALEDVGNPHNLGGIMRSCAHFGVKGVVVQDA-ALLESGAAIRTAEGGAEHVQPITGDSFVDV 262 (346)
T ss_pred ---HHHHhhccccCCeEEEEeCCCCCCcHHHHHHHHHHhCCCEEEECCC-CCCCchhHHHHhcChhhcceEEEeCCHHHH
Confidence 3333332 23468999999999999999999999999999988764 455567899999999999999999999999
Q ss_pred HHHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHH
Q 020038 226 FNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAV 305 (332)
Q Consensus 226 l~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~ 305 (332)
++.|+++||+|++++..+ ..++++++++++++||||||+.||++++++.||.+|+|||.|.++|||||||+||+|||++
T Consensus 263 L~~lk~~G~~Iv~t~~~~-~~~l~~~~~~~k~aLV~GnE~~GLs~~vl~~~D~~V~IPm~G~veSLNVSvAaaI~LyE~~ 341 (346)
T PRK10864 263 LDDFRQAGYTIVTTSSHK-GTPLFKASLPAKMVLVLGQEYDGLSDAARQQGDLSVSIDGTGNVESLNVSVATGVLLAEWW 341 (346)
T ss_pred HHHHHHCCCEEEEEeCCC-CcchhhcccCCCeEEEECCCCCCCCHHHHHhCCEEEEECCCCCCCCeEHHHHHHHHHHHHH
Confidence 999999999999999864 4789999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhhh
Q 020038 306 CDRA 309 (332)
Q Consensus 306 rqR~ 309 (332)
|||.
T Consensus 342 Rq~~ 345 (346)
T PRK10864 342 RQNK 345 (346)
T ss_pred Hhhc
Confidence 9974
No 5
>PRK11081 tRNA guanosine-2'-O-methyltransferase; Provisional
Probab=100.00 E-value=1.7e-42 Score=321.21 Aligned_cols=175 Identities=32% Similarity=0.477 Sum_probs=158.5
Q ss_pred hhhHHHHHHHHhcCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChH
Q 020038 144 EERKERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPR 223 (332)
Q Consensus 144 ~~r~~~l~~v~~~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~ 223 (332)
++|.+.|++++++++.+++||||+|+||+|+|||+|||+|||++.|+++.+... .+...|+|+|+.+|+++..+.|++
T Consensus 3 ~~r~~ri~~~l~~r~~~l~vvLd~V~~p~NlGAIiRta~AfGv~~V~~v~~~~~--~~~~~~~s~Ga~~wv~i~~~~~~~ 80 (229)
T PRK11081 3 PERYARICEMLARRQPDLTVCMEQVHKPHNVSAIIRTADAVGVHEVHAVWPGSR--MRTMGSTAAGSNSWVQVKTHRTIG 80 (229)
T ss_pred chhHHhHHHHHhcCCCCeEEEEeCCCCcchHHHHHHHHHHhCCCeEEEecCCCc--cchhhhhcCCchheEEEEEeCCHH
Confidence 456778999999998899999999999999999999999999999988764322 345678999999999999999999
Q ss_pred HHHHHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHH
Q 020038 224 ECFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHH 303 (332)
Q Consensus 224 ~~l~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye 303 (332)
++++.|+++||+|++++..+++.++.++++++|+|||||||+.|||+++++.||..|+|||.|.++|||||||+||+|||
T Consensus 81 ~~i~~lk~~g~~i~at~~~~~a~~l~~~d~~~p~alV~GnE~~GlS~e~l~~~D~~v~IPM~G~v~SLNVSvAaaIiLyE 160 (229)
T PRK11081 81 DAVAHLKGQGMQILATHLSDTAVDFREIDYTRPTCILMGQEKTGISQEALALADQDIIIPMIGMVQSLNVSVASALILYE 160 (229)
T ss_pred HHHHHHHhCCCEEEEEeCCCCCccHhHhcccCCeEEEECCCCCCCCHHHHhcCCCEEEEeCCCCCCceeHHHHHHHHHHH
Confidence 99999999999999999877788999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhccCC---CCChhH
Q 020038 304 AVCDRATRLVV---VFPLIL 320 (332)
Q Consensus 304 ~~rqR~~~~~~---~g~l~~ 320 (332)
+.|||....-. ++.|+.
T Consensus 161 ~~Rqr~~~g~y~~~~~~l~~ 180 (229)
T PRK11081 161 AQRQRQNAGMYLRENSMLPE 180 (229)
T ss_pred HHHhhccCCCcCcCCCCCCH
Confidence 99999876443 555643
No 6
>TIGR00185 rRNA_methyl_2 rRNA methylase, putative, group 2. this is part of the trmH (spoU) family of rRNA methylases
Probab=100.00 E-value=1.2e-38 Score=278.62 Aligned_cols=146 Identities=14% Similarity=0.101 Sum_probs=129.7
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCc-cceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYR-ENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATT 239 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~-~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~ 239 (332)
+.||||+++||+|+|+|+|||++||++.+++. +++.+... +..|+++|+++++|++++.|+.++++.||+.| ++++
T Consensus 2 ~~vvL~~v~dP~NlG~iiRta~afGv~~vi~~-~~~~~~~~~~~~ra~~~~~~~~~~~~~~~~~~~l~~l~~~g--v~~~ 78 (153)
T TIGR00185 2 LNIVLYEPEIPPNTGNIARTCAATGTRLHLIE-PLGFFLDDKRLKRAGLDYWEFVQLFYHKSWEEFLEAEKPQK--LFAL 78 (153)
T ss_pred eEEEEcCCCCCChHHHHHHHHHHhCCEEEEEC-CCCCCCccHHHHhhccchHhcCCeEEeCCHHHHHHhCcCCC--EEEE
Confidence 46899999999999999999999999877654 44444444 46799999999999999999999999999998 6666
Q ss_pred ecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhC-CcEEEECCCCCCCcccHHHHHHHHHHHHHHhhhh
Q 020038 240 HVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLS-DLRCSIPMKGMVDSFNVSVAAGILMHHAVCDRAT 310 (332)
Q Consensus 240 ~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~c-D~~V~IPm~G~v~SLNVsvAaaI~Lye~~rqR~~ 310 (332)
+.++ +..+++++++.|.+||||||+.||++++++.| |..|+|||+|.++|||||+|+||+|||+.|||..
T Consensus 79 ~~~~-~~~~~~~~~~~~~alv~GnE~~Gls~~~l~~~~d~~v~IP~~g~~~SLNvavA~aI~lye~~rq~~~ 149 (153)
T TIGR00185 79 TKKG-TPAHSQVTYKLGDYLMFGPETRGLPQSILDNMMEQKIRIPMTNNVRSLNLSNSVAIVVYEAWRQLGY 149 (153)
T ss_pred eCCC-CCcceeeccCCCCEEEECCCCCCCCHHHHhhCCCCEEEEcCCCCCcchHHHHHHHHHHHHHHHccCC
Confidence 6553 66788888999999999999999999999999 9999999999999999999999999999999764
No 7
>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=100.00 E-value=1.1e-38 Score=273.39 Aligned_cols=141 Identities=38% Similarity=0.549 Sum_probs=126.5
Q ss_pred cEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCC-ccCccceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEE
Q 020038 160 SVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSS-KRYRENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIAT 238 (332)
Q Consensus 160 ~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~-~~~~~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a 238 (332)
+++|+||+++||+|+|+|+|||++||+++|+++++++. +..+++.|+|+|+.+|+|+..+.+++++++.++..||++++
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 47899999999999999999999999999999986665 55568999999999999999999999999999999999999
Q ss_pred EecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHH
Q 020038 239 THVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMH 302 (332)
Q Consensus 239 ~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Ly 302 (332)
++. ++.++.+++++++++||||||+.||++++++.||.+|+|||.|.++|||||+|+||+||
T Consensus 81 ~~~--~~~~~~~~~~~~~~~lv~G~E~~Gls~~~~~~~d~~v~IP~~~~~~SLNva~A~~I~ly 142 (142)
T PF00588_consen 81 TSP--GATPLYELDFPKKVALVFGNESRGLSEEVLELCDHRVSIPMYGGVDSLNVAVAAAIALY 142 (142)
T ss_dssp EST--TSCEGGGSHTTSSEEEEEEBTTTBS-HHHHHTSSEEEE---STTSSS--HHHHHHHHHH
T ss_pred eee--ccccccccccccceEEEEcCcCCCCCcccccccceEEEEcCCCCCCeeEHHHHHHHHHC
Confidence 998 36789999999999999999999999999999999999999999999999999999998
No 8
>PRK10358 putative rRNA methylase; Provisional
Probab=100.00 E-value=1.1e-35 Score=261.32 Aligned_cols=146 Identities=12% Similarity=0.079 Sum_probs=123.1
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceecc-CCcceeeeeeEeCChHHHHHHHHhCCcEEEEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVS-MGAEKWLDIELWDAPRECFNVLRSRGYRIATT 239 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS-~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~ 239 (332)
+.||||+++||+|+|+|+|||+|||++.+++ .++++++++++.|++ ++...++++..+.++.++++.+ .+++++++
T Consensus 2 ~~ivL~~~~dPgNlGti~Rta~a~G~~~viv-~~~~d~~~~k~~raag~~~~~~~~~~~~~~l~~~l~~~--~~~~v~~~ 78 (157)
T PRK10358 2 LNIVLFEPEIPPNTGNIIRLCANTGFRLHII-EPMGFAWDDKRLRRAGLDYHEFTAVTRHHDYAAFLEAE--NPQRLFAL 78 (157)
T ss_pred eEEEEeCCCCcChHHHHHHHHHHhCCEEEEE-CCCCCCCChHHHHhcccccccceeeEEcCCHHHHHHhC--CCceEEEE
Confidence 5689999999999999999999999986654 667777777877753 4444555667778988888743 35789999
Q ss_pred ecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHh--CCcEEEECCCCCCCcccHHHHHHHHHHHHHHhhhh
Q 020038 240 HVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSL--SDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDRAT 310 (332)
Q Consensus 240 ~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~--cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rqR~~ 310 (332)
+..+ ...+.+.+++++.+||||||++||++++++. ||..|+|||.|.++|||||+|++|+|||+.|||..
T Consensus 79 ~~~~-~~~~~~~~~~~~~~lvfGnE~~GLs~~~~~~~~~d~~v~IPm~~~~eSLNvAvA~aI~lyE~~rqr~~ 150 (157)
T PRK10358 79 TTKG-TPAHSAVSYQDGDYLMFGPETRGLPASILDALPAEQKIRIPMMPDSRSMNLSNAVSVVVYEAWRQLGY 150 (157)
T ss_pred eCCC-CCCccccccCCCcEEEECCCCCCCCHHHHhcCCCCeEEEEcCCCCCccchHHHHHHHHHHHHHHhhcC
Confidence 9864 4556667788899999999999999999998 89999999999999999999999999999999864
No 9
>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=99.97 E-value=2.1e-31 Score=247.69 Aligned_cols=144 Identities=22% Similarity=0.257 Sum_probs=123.1
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeE-eCChHHHHHHHHhCCcEEEEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIEL-WDAPRECFNVLRSRGYRIATT 239 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~-~~nl~~~l~~Lk~~G~~i~a~ 239 (332)
+.|||++++||+|+|+|+|+|++||+++++++++++. ..+++.++|+||.++++... +++++++++.+ + +++|+
T Consensus 4 i~vvL~~~~~p~NiGaiaR~~~~fG~~~l~lv~p~~~-~~~~a~~~a~ga~~~l~~~~v~~~l~eal~~~---~-~vv~t 78 (233)
T TIGR00050 4 IRIVLVEPSHSGNIGSIARAMKNMGLTELCLVNPKSH-LEEEAYALAAGARDILDNAKVVDDLDEALDDC---D-LVVGT 78 (233)
T ss_pred eEEEEECCCCCCCHHHHHHHHHhCCCCEEEEeCCCcC-CCHHHHHHhCChHHhhccCEEECCHHHHHhcC---C-EEEEE
Confidence 6799999999999999999999999999999998776 56788999999999999754 67888888743 3 57777
Q ss_pred ecCCCccccccc------------CCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHh
Q 020038 240 HVGMDAISVYDM------------DWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCD 307 (332)
Q Consensus 240 ~~~~~~~~l~~~------------~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rq 307 (332)
+.. ...+.+. ++.++++||||||+.||+++.++.||.+|+|||.|.++|||||+|++|+|||+.++
T Consensus 79 t~~--~~~~~~~~~~~~~~~~~~~~~~~~~aLvFG~E~~GL~~~~l~~cd~~v~IP~~~~~~SLNla~Av~I~lye~~~~ 156 (233)
T TIGR00050 79 SAR--SRNLQRPLLTPRELAPKLVAYKGKIAIVFGREDSGLTNEELLKCHVLVSIPTSEEYPSLNLSHAVAVILYELRMA 156 (233)
T ss_pred CCC--cCCCCCCcCCHHHHHHHHHhhcCCEEEEECCCCCCCCHHHHHhCCEEEEecCCCCCCeeeHHHHHHHHHHHHHHh
Confidence 753 2333332 24578999999999999999999999999999999999999999999999999887
Q ss_pred hhhc
Q 020038 308 RATR 311 (332)
Q Consensus 308 R~~~ 311 (332)
+...
T Consensus 157 ~~~~ 160 (233)
T TIGR00050 157 FLVQ 160 (233)
T ss_pred hccc
Confidence 6543
No 10
>PRK15114 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional
Probab=99.96 E-value=1.5e-29 Score=237.00 Aligned_cols=143 Identities=16% Similarity=0.207 Sum_probs=117.4
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeE-eCChHHHHHHHHhCCcEEEEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIEL-WDAPRECFNVLRSRGYRIATT 239 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~-~~nl~~~l~~Lk~~G~~i~a~ 239 (332)
+.|||++++||+|+|+|+|+|++||+++++++.+++++ +..+.++|+||.+.++... +.+++++++.+ .+++||
T Consensus 5 i~vVLv~~~~pgNiGaiaRa~~~fG~~~l~lv~p~~~~-~~~a~~~a~GA~~~l~~a~i~~~l~eal~~~----~~vvat 79 (245)
T PRK15114 5 IRIVLVETSHTGNMGSVARAMKTMGLTNLWLVNPLVKP-DSQAIALAAGASDVIGNATIVDTLDEALAGC----SLVVGT 79 (245)
T ss_pred eEEEEeCCCCCCcHHHHHHHHHhcCCCEEEEeCCCCCC-cCHHHHHcCCchhhcccCeEecCHHHHHhcC----CEEEEE
Confidence 77999999999999999999999999999999887755 4557889999997654333 46776766543 368898
Q ss_pred ecCCCcccc------------cccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHh
Q 020038 240 HVGMDAISV------------YDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCD 307 (332)
Q Consensus 240 ~~~~~~~~l------------~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rq 307 (332)
+........ ......++++||||||++||+++.++.||..|+|||.|.++|||||+|++|+|||+.+.
T Consensus 80 t~r~~~~~~~~~~~~~~~~~~~~~~~~~~~alVFG~E~~GLs~e~l~~cd~~v~IP~~~~~~SLNla~AvaI~lYE~~~~ 159 (245)
T PRK15114 80 SARSRTLPWPMLDPRECGLKSVAEAANAPVALVFGRERVGLTNDELQKCHYHVAIAANPEYSSLNLAMAVQVIAYEVRMA 159 (245)
T ss_pred cCCccCCcccccCHHHHHHHHHhhccCCCEEEEECCCCCCCCHHHHHhCCeEEEecCCCCCCcccHHHHHHHHHHHHHHH
Confidence 865322111 11235678999999999999999999999999999999999999999999999998775
Q ss_pred h
Q 020038 308 R 308 (332)
Q Consensus 308 R 308 (332)
.
T Consensus 160 ~ 160 (245)
T PRK15114 160 W 160 (245)
T ss_pred h
Confidence 3
No 11
>KOG0838 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=99.96 E-value=1.6e-29 Score=234.73 Aligned_cols=217 Identities=30% Similarity=0.351 Sum_probs=168.6
Q ss_pred CCCccc-hhhhcChHHHHHHHHcCCcccccCccchHHhhhhhcCCcccccccCCCcccCcHHHHHhhCCCcchhhHHHHH
Q 020038 73 PSKDNV-EKLLTNPDDVTQFMKMERSCMVNDGVGSMESLSNKRWFPYLDRYKCGDVYLSSSEVVEALSPYLMEERKERFV 151 (332)
Q Consensus 73 ~~~~t~-e~ll~g~~~V~~~l~~~~r~~~~~~~~~i~~La~~~~i~~~~~~~l~~~~~~~qgV~~~v~~~~~~~r~~~l~ 151 (332)
.++|.. +...+|.+.|..++.+++|- .++. ++++...+..++...+-..++..+++.. +.
T Consensus 35 ~~~~~~~~e~~~G~~sv~~al~~~kR~----~~~~--------~~~~~~~~~~~e~~~v~~~~~~~~s~h~-------L~ 95 (271)
T KOG0838|consen 35 LLVPNLGGESVFGTHSVLAALSNGKRD----CRGL--------LLQSATDFRSTEFELVLRRDIEAVSKHD-------LN 95 (271)
T ss_pred ccCCCcccceeechhhhHHHHhccccc----ceee--------eeccccccCcceeeehhhhhhhccChhh-------HH
Confidence 455664 78899999999999999972 2221 2232222222111222222333332211 11
Q ss_pred HHHhcC-------CccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHH
Q 020038 152 NVVKNR-------SYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRE 224 (332)
Q Consensus 152 ~v~~~~-------~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~ 224 (332)
...+.+ ...++++||+++||+|+|+|+|+|++||++.++++..++.+.++.+.++|+|+.+|+|+.++++..+
T Consensus 96 ~~t~~r~h~g~~leasl~vylde~tDp~n~gaI~rsA~~lg~~~v~lv~~n~s~lS~~vskss~gale~l~I~q~~~~~e 175 (271)
T KOG0838|consen 96 SLTDFRPHNGILLEASLCVYLDEVTDPQNIGAIIRSAYFLGADGVLLVKGNSSPLSPVVSKSSAGALEVLPIRQVDNPLE 175 (271)
T ss_pred HHHhhccccceEEeeEEEeeccCccCCcchHHHHHhHHHhcCCceEEEeccCCCCchhHHHhhhchhheeeHHHcCCHHH
Confidence 111111 1237899999999999999999999999999999999998899999999999999999999999999
Q ss_pred HHHHHHhCCcEEEEEecCCC------cccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCC------CCCCccc
Q 020038 225 CFNVLRSRGYRIATTHVGMD------AISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMK------GMVDSFN 292 (332)
Q Consensus 225 ~l~~Lk~~G~~i~a~~~~~~------~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~------G~v~SLN 292 (332)
+++..+.+|+++.++..... ...+..+++..|+++|+|||+.|+++.+++.||..+.||+. +.++|||
T Consensus 176 fl~vsvaaG~~l~~t~~~~~~~~~~~~~~l~~~~~~~Pv~lv~Gneg~Gi~~~vl~~~d~~~si~~n~~~~d~~~v~SlN 255 (271)
T KOG0838|consen 176 FLNVSVAAGIRLHGTCSWAPASKTISAVSLKFIDPEEPVALVLGNEGAGIRPGVLELCDLRVSIPGNGFEKDNGAVDSLN 255 (271)
T ss_pred HHHHHHhCceEEEEeecCcCCcccccchhhhhcCCCCCeEEEecccccccChhhhhccceeEecCCCccccCCcceeecc
Confidence 99999999999999876443 45677888899999999999999999999999999999993 2479999
Q ss_pred HHHHHHHHHHHHHHhh
Q 020038 293 VSVAAGILMHHAVCDR 308 (332)
Q Consensus 293 VsvAaaI~Lye~~rqR 308 (332)
||+|+++++|++..++
T Consensus 256 vSvaa~ll~~~~~~~k 271 (271)
T KOG0838|consen 256 VSVAAGLLLYHFLNEK 271 (271)
T ss_pred chHHHHHHHHHHhhcC
Confidence 9999999999998654
No 12
>KOG2506 consensus SpoU rRNA Methylase family protein [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.5e-29 Score=240.00 Aligned_cols=227 Identities=19% Similarity=0.153 Sum_probs=152.8
Q ss_pred chhhhcChHHHHHHHHcCCccc---ccCcc--chHHhhhhhcCCccccc--ccCCC--cccCcHHHHHhhCCCcc-hhhH
Q 020038 78 VEKLLTNPDDVTQFMKMERSCM---VNDGV--GSMESLSNKRWFPYLDR--YKCGD--VYLSSSEVVEALSPYLM-EERK 147 (332)
Q Consensus 78 ~e~ll~g~~~V~~~l~~~~r~~---~~~~~--~~i~~La~~~~i~~~~~--~~l~~--~~~~~qgV~~~v~~~~~-~~r~ 147 (332)
+..+..|+..+.++|+.+...+ +...+ ..++..+ ++++.+... ..+.. .-...+++++...+... ....
T Consensus 125 v~ii~egRrliqdaLk~g~~~ev~~Fs~~~qla~~p~e~-e~g~~i~kVks~d~K~wSsLvSP~svmaIf~~P~d~hl~k 203 (371)
T KOG2506|consen 125 VRIISEGRRLIQDALKGGVHREVCMFSTNKQLATTPIEC-EAGIRIVKVKSLDMKKWSSLVSPESVMAIFLMPIDLHLDK 203 (371)
T ss_pred ccccccchhhHHHHhhccccceEEEeeccccccccChhh-hcCeeEEeccHHHHHHHhcccCCcchhhhccCcchhchhh
Confidence 4667899999999999986654 33221 1111111 345543221 11111 23456788888764422 2112
Q ss_pred HHHHH-HHhcCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHH--
Q 020038 148 ERFVN-VVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRE-- 224 (332)
Q Consensus 148 ~~l~~-v~~~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~-- 224 (332)
..... .......|+.+|+|+|+||+|+|+|+|||++||++++++...+|+++..|+.|+++||.|.+||+- .|++.
T Consensus 204 ~~a~~q~~~s~~lp~~lvcdnirdpgnlgti~rsaaa~~cs~v~lt~gccdpwe~kalrag~ga~fr~pi~~-~~w~~l~ 282 (371)
T KOG2506|consen 204 DIATDQNKWSPSLPRVLVCDNIRDPGNLGTIVRSAAAFNCSGVFLTPGCCDPWEDKALRAGRGASFRLPIVS-GNWNHLK 282 (371)
T ss_pred hHHHHHhccCCCCCeEEEeccCCCCcchHHHHHHHhhCCCcceeecCCcCCccchhhhhccCCcceecceec-Cchhhhh
Confidence 22222 122345689999999999999999999999999999999999999999999999999999999985 24432
Q ss_pred -HHHHHHhCCcEEEEEecCCCccccc----ccC-CCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHH
Q 020038 225 -CFNVLRSRGYRIATTHVGMDAISVY----DMD-WSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAG 298 (332)
Q Consensus 225 -~l~~Lk~~G~~i~a~~~~~~~~~l~----~~~-~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaa 298 (332)
++.......+..+.......-.+.. ..+ ...+.+||+|.|++|+|++.++.|.. |.|||.|.+||||||+|++
T Consensus 283 l~~pp~~ad~c~~~~a~t~qr~~~~~k~~e~ad~~~ap~~liigge~~gvseea~~~~~l-vgip~a~g~dslnva~a~~ 361 (371)
T KOG2506|consen 283 LLEPPFQADLCAGHPATTTQRLKPVSKLVEFADSLAAPLCLIIGGEGNGVSEEARKVCVL-VGIPMAGGFDSLNVAVAGG 361 (371)
T ss_pred ccCChhHHhhhcCchHhhhhhhccchhhhHHHhhccCceEEEEccCcCCcCHHHHHHHHH-cCCcccCCcchhhhHHHHH
Confidence 2222222222222222111111111 111 24789999999999999999999865 7799999999999999999
Q ss_pred HHHHHHHHh
Q 020038 299 ILMHHAVCD 307 (332)
Q Consensus 299 I~Lye~~rq 307 (332)
|+|||+.|+
T Consensus 362 illfel~r~ 370 (371)
T KOG2506|consen 362 ILLFELQRL 370 (371)
T ss_pred HHHHHHhhc
Confidence 999999764
No 13
>PRK10433 putative RNA methyltransferase; Provisional
Probab=99.95 E-value=9.4e-28 Score=222.57 Aligned_cols=143 Identities=22% Similarity=0.342 Sum_probs=117.1
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeee-EeCChHHHHHHHHhCCcEEEEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIE-LWDAPRECFNVLRSRGYRIATT 239 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~-~~~nl~~~l~~Lk~~G~~i~a~ 239 (332)
+.|||+++++|+|+|+|+|+|++||++.++++++++.+ ...+.+.++||..+++.. .++|++++++++ ++.+.++
T Consensus 3 i~vVLv~p~~p~NiGaiaRam~nfG~~~L~lV~p~~~~-~~~a~~~A~gA~d~L~~a~v~~tL~eAl~d~---~~vigtt 78 (228)
T PRK10433 3 LTIILVAPARAENVGAAARAMKTMGFSELRIVDSQAHL-EPAARWVAHGSGDILDNAKVFDTLAEALHDV---DFTVATT 78 (228)
T ss_pred eEEEEEcCCCCccHHHHHHHHHHCCCCEEEEeCCCCCC-cHHHHHHhccHHHHhcCceEECCHHHHHHhC---CeEEEEc
Confidence 67999999999999999999999999999999887643 445679999999999855 467999998884 5544444
Q ss_pred ecCCCc-cccc----------cc-CCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHh
Q 020038 240 HVGMDA-ISVY----------DM-DWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCD 307 (332)
Q Consensus 240 ~~~~~~-~~l~----------~~-~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rq 307 (332)
...... .++. +. ++.++++||||+|+.||+++.++.||..|+|||.+.++|||||+|++|++||+.+.
T Consensus 79 ar~~~~~~~~~~p~~~~~~l~~~~~~~~~~alvfG~E~~Gl~~~~l~~c~~~~~IP~~~~~~SLNla~A~~i~~ye~~~~ 158 (228)
T PRK10433 79 ARSRAKFHYYATPAELVPLLEEKSSWMSHAALVFGREDSGLTNEELALADVLTGVPMAADYPSLNLGQAVMVYCYQLAGL 158 (228)
T ss_pred cCCCCCCCcccCHHHHHHHHHhhhcccCCEEEEECCCCCCCCHHHHHhCCcEEEecCCCCCcceeHHHHHHHHHHHHHHh
Confidence 433211 1110 11 23478999999999999999999999999999999999999999999999998764
No 14
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=1.3e-24 Score=188.62 Aligned_cols=146 Identities=17% Similarity=0.201 Sum_probs=131.0
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCc-cceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYR-ENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATT 239 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~-~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~ 239 (332)
+.|||.+++-|+|.|+|+|+|+++|+. ++++++-..++.. ...|+.+-.++.+.+.++++++++++..+. |-++++.
T Consensus 3 ~~IvL~~PeIP~NTGNI~R~ca~tga~-LhlI~PlGF~l~dk~lkRAGlDY~~~~~l~~h~s~e~fl~~~~~-~~rl~~~ 80 (155)
T COG0219 3 LNIVLYQPEIPPNTGNIIRTCAATGAE-LHLIEPLGFDLDDKRLKRAGLDYHEKASLTEHDSLEAFLEAEPI-GGRLFAL 80 (155)
T ss_pred cEEEEECCCCCCchhHHHHHHHhcCCe-EEEEccCCCccchhhhhhcccchHhhcceEEeCCHHHHHhhccC-CceEEEE
Confidence 568999999999999999999999998 4577777777766 478999999999999999999999999988 7789988
Q ss_pred ecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcE-EEECCCCCCCcccHHHHHHHHHHHHHHhhh
Q 020038 240 HVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLR-CSIPMKGMVDSFNVSVAAGILMHHAVCDRA 309 (332)
Q Consensus 240 ~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~-V~IPm~G~v~SLNVsvAaaI~Lye~~rqR~ 309 (332)
+..+ +..+.+..++..-.|+||.|..||++++++..+.. ++|||.....|||+|++++|++||++||..
T Consensus 81 tt~~-~~~~~~~~f~~~d~llFG~Es~GLP~~i~~~~~~~~irIPm~~~~RSLNLsnsvavv~yEa~RQ~~ 150 (155)
T COG0219 81 TTKG-TTTYTDVSFQKGDYLLFGPESRGLPEEILDAAPDRCIRIPMRPGVRSLNLSNTVAVVLYEALRQLG 150 (155)
T ss_pred Eecc-ccccccccCCCCCEEEECCCCCCCCHHHHHhCccceEEeccCCCCccchHHHHHHHHHHHHHHHhC
Confidence 8765 67788888888889999999999999999887665 999999999999999999999999999864
No 15
>COG0565 LasT rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=5.5e-22 Score=184.22 Aligned_cols=146 Identities=20% Similarity=0.265 Sum_probs=119.0
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeee-eeEeCChHHHHHHHHhCCcEEEEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLD-IELWDAPRECFNVLRSRGYRIATT 239 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~-v~~~~nl~~~l~~Lk~~G~~i~a~ 239 (332)
+.|||.+++.|+|+|++.|.+..||++.++++.+++. +...+...|+||..-+. ...++++++++.++. .++||
T Consensus 5 i~iVLVep~~~gNIG~vARaMKNfGl~eL~LV~Pr~~-~~eeA~a~A~gA~dile~A~i~~tL~eAl~d~~----~v~aT 79 (242)
T COG0565 5 IRIVLVEPSHPGNIGSVARAMKNFGLSELRLVNPRAG-LDEEARALAAGARDILENAKIVDTLEEALADCD----LVVAT 79 (242)
T ss_pred cEEEEEcCCCCccHHHHHHHHHhCCcceEEEECCCCC-CCHHHHHHhccchhhhccCeeecCHHHHhcCCC----EEEEe
Confidence 6789999999999999999999999999999998876 45677888999988765 456688888887654 45666
Q ss_pred ecCCCccccccc---C----------C-CCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHH
Q 020038 240 HVGMDAISVYDM---D----------W-SCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAV 305 (332)
Q Consensus 240 ~~~~~~~~l~~~---~----------~-~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~ 305 (332)
+... ..+... | . .++++||||.|..||+++.++.||..|+||+++...|||+|+|++|++||++
T Consensus 80 tar~--r~~~~~~~~P~e~~~~l~~~~~~~~vAlvFGRE~~GLtNeEl~~c~~~v~IP~~p~Y~sLNLa~AV~ii~YEl~ 157 (242)
T COG0565 80 TARS--RDLLRPLRTPREAAPELLEKAKGGKVALVFGRERVGLTNEELALCDVLVTIPANPDYPSLNLAQAVQVILYELR 157 (242)
T ss_pred cccc--CcccccccCHHHHHHHHHHHhcCCCeEEEECCccCCCCHHHHHhhhEEEecCCCCccccccHHHHHHHHHHHHH
Confidence 6432 111111 1 1 3799999999999999999999999999999999999999999999999998
Q ss_pred HhhhhccC
Q 020038 306 CDRATRLV 313 (332)
Q Consensus 306 rqR~~~~~ 313 (332)
+.-....+
T Consensus 158 ~~~l~~~~ 165 (242)
T COG0565 158 KAELAQEG 165 (242)
T ss_pred Hhhccccc
Confidence 74333333
No 16
>KOG0839 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=99.82 E-value=1.4e-20 Score=199.93 Aligned_cols=153 Identities=21% Similarity=0.331 Sum_probs=137.1
Q ss_pred cCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEe--CChHHHHHHHHhCC
Q 020038 156 NRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELW--DAPRECFNVLRSRG 233 (332)
Q Consensus 156 ~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~--~nl~~~l~~Lk~~G 233 (332)
.....++||-.=|..|.|+|.|.|||+.||++-+++.+ -...-.+.....|+.|..|+|+..+ +++..++++.|+.|
T Consensus 1322 ~grssLIVVASLVDKppNLgGicRTcEVFgvs~LvVad-~~vi~DkQFk~lSVtAE~W~pieeVk~~~L~~fLq~kK~EG 1400 (1477)
T KOG0839|consen 1322 VGRSSLIVVASLVDKPPNLGGICRTCEVFGVSLLVVAD-IKVINDKQFKNLSVTAERWMPIEEVKLDELASFLQEKKKEG 1400 (1477)
T ss_pred cCceeEEEEeecccCCCccchhhhhhhhhCcceEEEee-eeeecchhhhheeeeHHhccchhccChHHHHHHHHHhhhcC
Confidence 34456899999999999999999999999999886543 2222233467889999999999865 68899999999999
Q ss_pred cEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHhhh
Q 020038 234 YRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDRA 309 (332)
Q Consensus 234 ~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rqR~ 309 (332)
|+|+|++.+..+..++++.+|+|.+||+|+|..|++-.++..-|.+|.||+.|-+.||||-|++|+++||+.||.+
T Consensus 1401 yTiIglEQTakSV~Ld~fqFPkKslilLG~EkEGIPvnLl~~LD~cvEIpQ~GviRSLNVHVsgAl~iweYTrQqr 1476 (1477)
T KOG0839|consen 1401 YTIIGLEQTAKSVKLDNFQFPKKSLILLGTEKEGIPVNLLSELDLCVEIPQFGVIRSLNVHVSGALIIWEYTRQQR 1476 (1477)
T ss_pred cEEEeehhcccccccccccCCcceeEEecccccCCcHHHHHHHhHheeccccceeeeeeeehhHHHHHHHHHHHhc
Confidence 9999999998899999999999999999999999999999999999999999999999999999999999999864
No 17
>PRK03958 tRNA 2'-O-methylase; Reviewed
Probab=98.33 E-value=4e-06 Score=75.26 Aligned_cols=122 Identities=16% Similarity=0.147 Sum_probs=81.8
Q ss_pred HHHHHHHHHCCCeEEEecCCCCccC--cc-ceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEEecCCC--cccccc
Q 020038 176 ATFRSADALGVQSVHVVSCDSSKRY--RE-NRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMD--AISVYD 250 (332)
Q Consensus 176 aIiRTA~afGv~~Vii~~~~~~~~~--~~-~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~~~~~~--~~~l~~ 250 (332)
-+.|||-+||++++++..+...... .+ ..+- |+.+. +....++.+++++++..|-.+. +.+.+. ...+.+
T Consensus 21 hvartARafGa~~~yiv~~~~~q~~~v~~I~~~W--Gg~fn--v~~~~s~~~~i~~~k~~G~vvh-Ltmyga~~~~~~~~ 95 (176)
T PRK03958 21 HVGLTARALGADKIILASNDEHVKESVEDIVERW--GGPFE--VEVTKSWKKEIREWKDGGIVVH-LTMYGENIQDVEPE 95 (176)
T ss_pred HHHHHHHHcCCceEEEecCcHHHHHHHHHHHHhc--CCceE--EEEcCCHHHHHHHHHhCCcEEE-EEEecCCccchHHH
Confidence 3789999999999999876322111 11 1222 77766 5566899999999996664332 222221 113333
Q ss_pred cC----CCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHhh
Q 020038 251 MD----WSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDR 308 (332)
Q Consensus 251 ~~----~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rqR 308 (332)
+. -.+|..|||| ++|+++++.+.||+.| ..|..+= .+-.|+||+|--++.-+
T Consensus 96 ir~~~~~~~p~LIvvG--g~gvp~evye~aDynl---gvg~qpH-SvrAAlAI~LDRL~~g~ 151 (176)
T PRK03958 96 IREAHRKGEPLLIVVG--AEKVPREVYELADWNV---AVGNQPH-SEVAALAVFLDRLFEGK 151 (176)
T ss_pred HHHhhccCCcEEEEEc--CCCCCHHHHhhCCEEe---ccCCCCh-HHHHHHHHHHHHhcCCc
Confidence 32 1578999999 8899999999999999 3344444 67778888887666433
No 18
>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=97.86 E-value=6.6e-05 Score=67.69 Aligned_cols=128 Identities=20% Similarity=0.310 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHCCCeEEEecCCCCccC--cc---ceeccCCcce------eee-eeEeCChHHHHHHHHh---CCcEEEE
Q 020038 174 VSATFRSADALGVQSVHVVSCDSSKRY--RE---NRHVSMGAEK------WLD-IELWDAPRECFNVLRS---RGYRIAT 238 (332)
Q Consensus 174 lGaIiRTA~afGv~~Vii~~~~~~~~~--~~---~~raS~Ga~~------~v~-v~~~~nl~~~l~~Lk~---~G~~i~a 238 (332)
+=.|.|+|.-||+.+.+|+.+-.+... .+ -++...|+.. -+. +..++++++++++..+ +.-.+++
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 457999999999999999865322110 11 1233344431 122 3446899999999876 3456788
Q ss_pred EecC--CCccccccc-----CCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCC--CCCCcccHHHHHHHHHHH
Q 020038 239 THVG--MDAISVYDM-----DWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMK--GMVDSFNVSVAAGILMHH 303 (332)
Q Consensus 239 ~~~~--~~~~~l~~~-----~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~--G~v~SLNVsvAaaI~Lye 303 (332)
|+.. .+..++.++ .-.+|+.|+||. |+||.+++++.||..+ =|.. |..+-|.|=.|+||+|=-
T Consensus 110 TsAr~~~~~is~~~lr~~l~~~~~P~LllFGT-GwGL~~ev~~~~D~iL-ePI~g~~~YNHLSVRsAvAIiLDR 181 (185)
T PF09936_consen 110 TSARKYPNTISYAELRRMLEEEDRPVLLLFGT-GWGLAPEVMEQCDYIL-EPIRGAGDYNHLSVRSAVAIILDR 181 (185)
T ss_dssp --SS--SS-B-HHHHHHHHHH--S-EEEEE---TT---HHHHTT-SEEB---TTTTSS-----HHHHHHHHHHH
T ss_pred ecCcCCCCCcCHHHHHHHHhccCCeEEEEecC-CCCCCHHHHHhcCeeE-cccccCCCCccchHHHHHHHHHHH
Confidence 8764 223333332 236899999999 9999999999999866 3554 567889999999999853
No 19
>COG4080 SpoU rRNA Methylase family enzyme [General function prediction only]
Probab=97.84 E-value=7.8e-05 Score=64.33 Aligned_cols=137 Identities=16% Similarity=0.146 Sum_probs=96.4
Q ss_pred cEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccC---ccceeccCCcceeeeeeEeCChHHHHHHHHhCCcEE
Q 020038 160 SVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRY---RENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRI 236 (332)
Q Consensus 160 ~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~---~~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i 236 (332)
.+++++.|+..++-+=-+.|.+..||++.+++.+.....-. +.+.|-+-- .-.|+..++++.++++-|+..-.-.
T Consensus 2 ev~vvlHN~~S~~rv~e~ariaygfg~k~lV~tka~g~AAQsGIp~~~kla~k--~G~~vlvf~dL~DAlevL~P~v~ll 79 (147)
T COG4080 2 EVIVVLHNVSSVQRVLEFARIAYGFGAKRLVLTKAKGSAAQSGIPEVLKLAFK--LGKPVLVFPDLDDALEVLRPDVTLL 79 (147)
T ss_pred cEEEEEecCCchHHHHHHHHHHcccCccEEEEEecccHhhhhccHHHHHHHHH--hCCcEEEehhHHHHHHhcCCceEEE
Confidence 47899999999999999999999999999988764321111 112221110 1267888999999999999764333
Q ss_pred EEEecCCCcccccccCC----CCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHH
Q 020038 237 ATTHVGMDAISVYDMDW----SCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVC 306 (332)
Q Consensus 237 ~a~~~~~~~~~l~~~~~----~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~r 306 (332)
+++. + ....++++ .+++++||+.=..|+++..++.-+...+| ..+.+.++ -++||+|||+.+
T Consensus 80 ~~~~-~---~~ek~~dp~e~ie~~vliVf~ga~~gl~k~El~lg~~~~y~-ve~~VG~~---g~lAi~Lyell~ 145 (147)
T COG4080 80 VGSA-S---EGEKKLDPNEKIEGRVLIVFSGAEPGLTKRELELGADLRYI-VEADVGEL---GALAIFLYELLK 145 (147)
T ss_pred ecCc-c---cccccCCccccccceEEEEEecCCCCcChhhcccCCcEEEE-EeccchHH---HHHHHHHHHHHc
Confidence 3222 1 22223333 35889999988899999999988888888 55555554 467999999864
No 20
>COG1303 Uncharacterized protein conserved in archaea [Function unknown]
Probab=96.88 E-value=0.0061 Score=54.05 Aligned_cols=122 Identities=15% Similarity=0.139 Sum_probs=79.2
Q ss_pred HHHHHHHHCCCeEEEecCCCCccCccce--eccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEEecCCCcccccccC--
Q 020038 177 TFRSADALGVQSVHVVSCDSSKRYRENR--HVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAISVYDMD-- 252 (332)
Q Consensus 177 IiRTA~afGv~~Vii~~~~~~~~~~~~~--raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~~~~-- 252 (332)
+.-||.|||++++++.+.+.......+. -..-|+-|.+. ...|+...++.+++ |-.++-+++=+ .++.++.
T Consensus 23 V~LtARAfGA~gil~~~e~De~v~esv~dVv~rwGG~F~v~--~~~nw~~~i~~wk~-gG~vvHLTMYG--~~i~dv~~e 97 (179)
T COG1303 23 VALTARAFGADGILLDGEEDEKVVESVEDVVERWGGPFFVK--FGVNWRKVIREWKE-GGIVVHLTMYG--LNIDDVIDE 97 (179)
T ss_pred hhhhhHhhCCceEEEcCcccHHHHHHHHHHHHhcCCCEEEE--EcccHHHHHHHhhc-CCEEEEEEecC--CcchhhhHH
Confidence 4568999999999877543222222221 12356665543 34689999999999 55555555533 3444443
Q ss_pred --C-CCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHhhh
Q 020038 253 --W-SCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDRA 309 (332)
Q Consensus 253 --~-~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rqR~ 309 (332)
- .+...+|+|.|. ++.++-+.||..|.|--.+.- =-.|.||+|--++.-+.
T Consensus 98 i~~~~k~~lvvVGaeK--Vp~evYelADyNV~VgnQPHS----EVaaLAvFLDRl~~G~~ 151 (179)
T COG1303 98 IRESKKDVLVVVGAEK--VPGEVYELADYNVSVGNQPHS----EVAALAVFLDRLFEGKE 151 (179)
T ss_pred HHhcCCcEEEEEcccc--CCHHHhhhcccceecCCCccH----HHHHHHHHHHHHhCCce
Confidence 2 334789999997 999999999999998554322 13466777776665443
No 21
>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=96.34 E-value=0.00029 Score=53.62 Aligned_cols=63 Identities=16% Similarity=0.196 Sum_probs=39.7
Q ss_pred hhcChHHHHHHHHcCCccc---ccCc-----cchHHhhhhhcCCcc--cccccCCC--cccCcHHHHHhhCCCcc
Q 020038 81 LLTNPDDVTQFMKMERSCM---VNDG-----VGSMESLSNKRWFPY--LDRYKCGD--VYLSSSEVVEALSPYLM 143 (332)
Q Consensus 81 ll~g~~~V~~~l~~~~r~~---~~~~-----~~~i~~La~~~~i~~--~~~~~l~~--~~~~~qgV~~~v~~~~~ 143 (332)
|++|.|.|.++++++.++. +.+. ...+..+++++++++ +++..++. ....||||++.+.++.+
T Consensus 1 lieG~~~V~eaL~~~~~i~~l~~~~~~~~~~~~~i~~~~~~~~i~v~~v~~~~l~~ls~~~~hQGv~a~v~~~~~ 75 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPRIKKLFVTEEKADKRIKEILKLAKKKGIPVYEVSKKVLDKLSDTENHQGVVAVVKPPQY 75 (76)
T ss_dssp EEESHHHHHHHHHCTGGEEEEEEETT---CCTHHHHHHHHHCT-EEEEE-HHHHHHCTTTSS-TTEEEEEE----
T ss_pred CEEEHHHHHHHHcCCCCccEEEEEcCccchhHHHHHHHHHHcCCeEEEeCHHHHHHHcCCCCCCeEEEEEeCCCC
Confidence 5899999999999997754 2222 234567777777774 45444443 46789999998876654
No 22
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=95.31 E-value=0.093 Score=51.98 Aligned_cols=119 Identities=16% Similarity=0.124 Sum_probs=78.6
Q ss_pred HHHHHHHHCCCeEEEecCCCCccCccc--eeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEEecCCCccccc----c
Q 020038 177 TFRSADALGVQSVHVVSCDSSKRYREN--RHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAISVY----D 250 (332)
Q Consensus 177 IiRTA~afGv~~Vii~~~~~~~~~~~~--~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~----~ 250 (332)
+.-||-|||++++++.+.+ ......+ +-..-|+.|++.. ..++...++.+ .| .++-+++=+ .++. +
T Consensus 21 v~l~ara~ga~~~~~~~~d-~~~~~~~~~v~~~~gg~f~~~~--~~~~~~~~~~~--~g-~vvhltmyg--~~~~~~~~~ 92 (339)
T PRK12703 21 VALTARAFGASSILVDERD-ETLENTIKKVVDNFGGSFEIKT--GIEWKSEFKKF--HG-IRVHLTMYG--RPIEDVIDE 92 (339)
T ss_pred HHHHHHHhcCCeeEecCCc-HhHHHHHHHHHHhcCCCeEEEe--ccCHHHHHHhc--CC-EEEEEecCC--CchHHHHHH
Confidence 5568889999999776432 1111112 2234677777554 46777777777 35 666666643 2333 3
Q ss_pred cC-CCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHHHhhh
Q 020038 251 MD-WSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDRA 309 (332)
Q Consensus 251 ~~-~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~rqR~ 309 (332)
+. ...+..+|+|.|. ++.++-+.||+.|.|=-.+.-+ ..|.||+|-.++.-+.
T Consensus 93 i~~~~~~~~~vvg~~k--vp~~~y~~ad~nv~v~~qphse----vaala~fld~~~~g~~ 146 (339)
T PRK12703 93 IRESGKDVMVLVGSEK--VPIEAYEIADYNVSVTNQPISE----VSALAIFLDRYFDGKE 146 (339)
T ss_pred HhccCCCEEEEECCCc--CCHHHHhhcccceeeCCCChHH----HHHHHHHHHHhccchh
Confidence 33 3468999999997 9999999999999996554433 3577888887765443
No 23
>PF09895 DUF2122: RecB-family nuclease (DUF2122); InterPro: IPR018665 This family of archaeal proteins include RecB nuclease-like proteins as well as proteins of no known function.
Probab=93.47 E-value=0.3 Score=40.70 Aligned_cols=84 Identities=12% Similarity=0.131 Sum_probs=59.3
Q ss_pred eeeEeCChHHHHHHHHhCCcEEEEEecCCC-cccccccCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEEC-CCCCCCccc
Q 020038 215 DIELWDAPRECFNVLRSRGYRIATTHVGMD-AISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIP-MKGMVDSFN 292 (332)
Q Consensus 215 ~v~~~~nl~~~l~~Lk~~G~~i~a~~~~~~-~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IP-m~G~v~SLN 292 (332)
++..++++.++++-|+.. .|+..+..+. ...+......++++|||+....|+++..++.-+ .|+|. +...+ -
T Consensus 21 ~livlpdl~DAiEvl~p~--~V~~i~~~~~~~~~~~~~~~~~rvllVf~G~d~gfsk~El~~g~-~v~~~~v~~~i---G 94 (106)
T PF09895_consen 21 SLIVLPDLKDAIEVLKPD--VVYLISRSGEEEEKLEFLKIEGRVLLVFSGSDPGFSKIELELGE-AVYIRGVERDI---G 94 (106)
T ss_pred cEEEeCCHHHHHHhcCCc--EEEEEcCcccccccccccCcCCcEEEEEeCCCCCCChhHhcCCc-eEEeeccCcCc---C
Confidence 567789999999999865 5666665432 223345566789999999999999999999844 45553 23333 3
Q ss_pred HHHHHHHHHHHH
Q 020038 293 VSVAAGILMHHA 304 (332)
Q Consensus 293 VsvAaaI~Lye~ 304 (332)
.-..+||+||++
T Consensus 95 ~~g~~ai~Ly~L 106 (106)
T PF09895_consen 95 PIGEAAIILYEL 106 (106)
T ss_pred hHHHHHHHHhcC
Confidence 345678888863
No 24
>COG4752 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=92.94 E-value=0.15 Score=45.10 Aligned_cols=141 Identities=17% Similarity=0.203 Sum_probs=87.4
Q ss_pred EEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCcc--Cc---cceeccCCcce------eeeeeEe-CChHHHHHHHHh
Q 020038 164 VVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKR--YR---ENRHVSMGAEK------WLDIELW-DAPRECFNVLRS 231 (332)
Q Consensus 164 VLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~--~~---~~~raS~Ga~~------~v~v~~~-~nl~~~l~~Lk~ 231 (332)
+.-.+++ ..+-.|.|+|..+.+++-.++.+-.+.. .. ...+.-.|... -+.+.++ ..+++.+++..+
T Consensus 22 i~TsvTn-~D~HDIaR~artYeikgYyiV~pidAQ~~~~~r~i~yW~~g~G~~yNp~R~e~~~lv~l~~~le~ViEdIEk 100 (190)
T COG4752 22 IVTSVTN-MDLHDIARPARTYEIKGYYIVQPIDAQRIVIQRQINYWLSGEGRKYNPTRYEIVQLVRLAYTLEEVIEDIEK 100 (190)
T ss_pred EEEeecc-ccHhhhcccccceeeccEEEEeecHHHHHHHHHHHHHHhcccCCcCCcCHHHHHHHHhHHHHHHHHHHHHHh
Confidence 3334433 3467899999999999988875432110 01 12334444432 1222222 345666666654
Q ss_pred -CCc--EEEEEecC--CCccccccc-----CCCCCeEEEEcCCCCCCCHHHHHhCCcEE-EECCCCCCCcccHHHHHHHH
Q 020038 232 -RGY--RIATTHVG--MDAISVYDM-----DWSCPTAIVVGNENRGVSDEALSLSDLRC-SIPMKGMVDSFNVSVAAGIL 300 (332)
Q Consensus 232 -~G~--~i~a~~~~--~~~~~l~~~-----~~~~~~aLV~GnE~~GLs~~~le~cD~~V-~IPm~G~v~SLNVsvAaaI~ 300 (332)
+|- -+++|+.. ++..++... .-.+|..++||. |+||++++++..|+++ -|-..+..+-|.|-.|+||+
T Consensus 101 ~eG~rPLi~~TsAr~~~N~isy~~lr~~I~e~dkp~LilfGT-GwGlpde~m~~sDYiLEPIra~sd~NHLSVRaAvAII 179 (190)
T COG4752 101 EEGRRPLIVGTSARTYPNTISYSWLRNEIQERDKPWLILFGT-GWGLPDELMNTSDYILEPIRAASDWNHLSVRAAVAII 179 (190)
T ss_pred hcCCCceEEeccccccCCcccHHHHHHHHhhcCCcEEEEecC-CCCCCHHHHHHhhHhhhhhhccCCcchhhHHHHHHHH
Confidence 454 36666643 122333222 235789999998 9999999999999976 34445678889999999999
Q ss_pred HHHHHH
Q 020038 301 MHHAVC 306 (332)
Q Consensus 301 Lye~~r 306 (332)
|--++-
T Consensus 180 lDRLfg 185 (190)
T COG4752 180 LDRLFG 185 (190)
T ss_pred HHHHhc
Confidence 876653
No 25
>PF01994 Trm56: tRNA ribose 2'-O-methyltransferase, aTrm56; InterPro: IPR002845 This entry represents tRNA ribose 2'-O-methyltransferase aTrm56, which specifically catalyzes the AdoMet-dependent 2'-O-ribose methylation of cytidine at position 56 in tRNAs. The crystal structure of Pyrococcus horikoshii aTrm56 complexed with S-adenosyl-L-methionine has been determined to 2.48 A resolution. aTrm56 consists of the SPOUT domain, which contains the characteristic deep trefoil knot, and a unique C-terminal beta-hairpin []. A conserved cytidine at position 56 of tRNA contributes to the maintenance of the L-shaped tertiary structure. aTrm56 catalyzes the 2'-O-methylation of the cytidine residue in archaeal tRNA, using S-adenosyl-L-methionine. Biochemical assays showed that aTrm56 forms a dimer and prefers the L-shaped tRNA to the lambda form as its substrate [, ].; GO: 0008175 tRNA methyltransferase activity, 0002128 tRNA nucleoside ribose methylation, 0005737 cytoplasm; PDB: 2YY8_A 2O3A_B.
Probab=89.49 E-value=0.53 Score=39.97 Aligned_cols=84 Identities=14% Similarity=0.177 Sum_probs=52.7
Q ss_pred eEeCChHHHHHHHHhCCcEEEEEecCCCcccccc----cC-CCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcc
Q 020038 217 ELWDAPRECFNVLRSRGYRIATTHVGMDAISVYD----MD-WSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSF 291 (332)
Q Consensus 217 ~~~~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~~----~~-~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SL 291 (332)
....++..+++.+|+.|..++-+++=+ .++.+ +. -.++..+|+|.|. ++.++-+.||..|.|=-.+.-+
T Consensus 8 e~~~~w~~~i~~wK~~~G~VVHLTMYG--~~i~dvi~~Ir~~~~~~lvVVGaeK--VP~evYe~ADyNVaVgnQPHSE-- 81 (120)
T PF01994_consen 8 EYGVSWKSYIREWKEKGGKVVHLTMYG--ENIDDVIDEIRESCKDLLVVVGAEK--VPGEVYELADYNVAVGNQPHSE-- 81 (120)
T ss_dssp EEES-HHHHHHC----SSEEEEE-TTS--EEHHHCHHHHHHCTSEEEEEE-SS-----CCHHHHSSEEEESSSS---H--
T ss_pred EECCCHHHHHHHhcccCCeEEEEEecC--CchHHHHHHHhccCCCEEEEECCCc--CCHHHHhhCCcceeeCCCChHH--
Confidence 345788999999999998998888754 34443 33 4577999999997 9999999999999996544332
Q ss_pred cHHHHHHHHHHHHHHhh
Q 020038 292 NVSVAAGILMHHAVCDR 308 (332)
Q Consensus 292 NVsvAaaI~Lye~~rqR 308 (332)
..|.||+|-.++.-+
T Consensus 82 --VAALAvFLDrl~~G~ 96 (120)
T PF01994_consen 82 --VAALAVFLDRLFEGK 96 (120)
T ss_dssp --HHHHHHHHHHHCTTG
T ss_pred --HHHHHHHHHHhcCCc
Confidence 356778877666433
No 26
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=85.67 E-value=1.5 Score=39.27 Aligned_cols=127 Identities=13% Similarity=0.203 Sum_probs=82.5
Q ss_pred cHH-HHHHHHHHHCCCeEEEecCCCCccCc--c--------------ceeccCCcc-eeeeeeEeCChHHHHHHHHhCCc
Q 020038 173 NVS-ATFRSADALGVQSVHVVSCDSSKRYR--E--------------NRHVSMGAE-KWLDIELWDAPRECFNVLRSRGY 234 (332)
Q Consensus 173 NlG-aIiRTA~afGv~~Vii~~~~~~~~~~--~--------------~~raS~Ga~-~~v~v~~~~nl~~~l~~Lk~~G~ 234 (332)
|+| .|=|.+.+|.+..+++......+-+. . ..+-|-|-. ..+|+.. -|+-+.+.. .+|-
T Consensus 18 ~mGerIGRaaQ~FEV~eLiiap~~~vda~eL~~Fl~gV~~G~eSRy~iQ~ksY~r~v~kvpV~V-~DlYQ~vRd--R~~~ 94 (173)
T PF14419_consen 18 KMGERIGRAAQAFEVKELIIAPKEKVDAYELMEFLRGVREGQESRYQIQRKSYGREVRKVPVYV-QDLYQVVRD--RKGE 94 (173)
T ss_pred HHHHHHhHHHhhcchheEEEeccCccCHHHHHHHHHHHHHhHHHHHHHHHHhcCCeeeEeeeeH-HHHHHHHHh--cCCC
Confidence 444 36689999999999877655443321 1 112333333 5678775 466677766 3566
Q ss_pred EEEEEecCCCcccccc--------cCCCCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHH
Q 020038 235 RIATTHVGMDAISVYD--------MDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAV 305 (332)
Q Consensus 235 ~i~a~~~~~~~~~l~~--------~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~ 305 (332)
.++.+++.++ ++.+ +...+.+.+++|+ ..|++.-+...||.+|-+--+=.+..=-+.-|+.|+|+..+
T Consensus 95 ~lIvtdPkG~--~is~vk~~L~~~~r~~~eV~v~iGS-ReGiP~GlfRfAd~VvDlaP~~t~aTe~~ipsaliAl~~v~ 170 (173)
T PF14419_consen 95 PLIVTDPKGD--PISEVKDKLAEDLRYAKEVVVFIGS-REGIPRGLFRFADYVVDLAPGVTFATEHAIPSALIALWTVY 170 (173)
T ss_pred eEEEECCCCC--cHHHHHHHHHHHHhhCcEEEEEEEc-ccCCChhHHHHhhhhhhcCCceEEeehhhhHHHHHHHHHHH
Confidence 7888998764 3333 2345678889998 78999999999999987654333334444555666666654
No 27
>PRK02135 hypothetical protein; Provisional
Probab=79.88 E-value=5.3 Score=36.95 Aligned_cols=80 Identities=13% Similarity=0.191 Sum_probs=63.9
Q ss_pred CChHHHHHHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHH----hCCcEEEECCCCCCCcccHHH
Q 020038 220 DAPRECFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALS----LSDLRCSIPMKGMVDSFNVSV 295 (332)
Q Consensus 220 ~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le----~cD~~V~IPm~G~v~SLNVsv 295 (332)
.++++.++++ .+|+++|-++.++ .++.+..++...++|+| ...|++++..+ ..+..|+|- -.+|=.++
T Consensus 114 ~~fe~ll~~~-~e~~~l~~L~e~G--~~i~~~~~~~~~~FvLg-DH~~~~~ee~~~L~~~ga~~iSlG----P~~l~Ash 185 (201)
T PRK02135 114 RGFEDLLEEL-AEGKTLYYLHEDG--EDIRDVEFPENPVFVLG-DHIGFTEEEENLLKRLGAEKISLG----PKMLHADH 185 (201)
T ss_pred CCHHHHHHHH-hcCCcEEEEeCCC--CchhhccCCCCCEEEEe-CCCCCCHHHHHHHHHhCCeEEEeC----cHHHHHHH
Confidence 6788999999 7889999999875 67888888877789999 48999987654 335677773 35899999
Q ss_pred HHHHHHHHHHHh
Q 020038 296 AAGILMHHAVCD 307 (332)
Q Consensus 296 AaaI~Lye~~rq 307 (332)
+..++-+|+=+.
T Consensus 186 cI~~vhn~LD~~ 197 (201)
T PRK02135 186 CITLIHNELDRR 197 (201)
T ss_pred HHHHHHHHHhhc
Confidence 999998887543
No 28
>COG1385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.26 E-value=5.7 Score=37.65 Aligned_cols=125 Identities=11% Similarity=0.116 Sum_probs=72.2
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCC-CC-ccCc-------cceeccCCcc-----eeee-eeEeCChHHH
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCD-SS-KRYR-------ENRHVSMGAE-----KWLD-IELWDAPREC 225 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~-~~-~~~~-------~~~raS~Ga~-----~~v~-v~~~~nl~~~ 225 (332)
.+-+.-.+-.+-++=.|++-|--+|++.++..... |. .+.. +..+.+..|. .++| |....++.++
T Consensus 79 ~i~l~~~i~kg~k~d~iiqkatELGv~~i~p~~ter~~~k~~~~~~~kler~~ki~ieAaEQs~R~~vP~I~~~~~~~~~ 158 (246)
T COG1385 79 KITLAQAIPKGDKLELIIQKATELGVSKIIPLITERSVVKLDGKKAAKLERWQKIAIEAAEQSGRNVVPEIKPPESLKEL 158 (246)
T ss_pred eEEEEEEcCccHHHHHHHHHHHHhCcceEEEEeeeeeEEeccccchhHHHHHHHHHHHHHHhcCCCcCCeeechhhHHHH
Confidence 34566788899999999999999999999765322 21 1111 1112222222 2344 4445677777
Q ss_pred HHHHHhCCcEEEEEecCCCccccccc-----CCCCCeEEEEcCCCCCCCHHHHHhCCc--EEEECCCCC
Q 020038 226 FNVLRSRGYRIATTHVGMDAISVYDM-----DWSCPTAIVVGNENRGVSDEALSLSDL--RCSIPMKGM 287 (332)
Q Consensus 226 l~~Lk~~G~~i~a~~~~~~~~~l~~~-----~~~~~~aLV~GnE~~GLs~~~le~cD~--~V~IPm~G~ 287 (332)
++.........+...... ....... ...+++++++|.|| |+|++.++.... ...|.....
T Consensus 159 l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~i~iiIGPEG-Gfs~~Ei~~l~~~g~~~v~LGpr 225 (246)
T COG1385 159 LKEIDDEDALKLIYEEKA-KEGLLALPLLEALPEGKVLLIIGPEG-GFSEDEIELLREAGFTPVSLGPR 225 (246)
T ss_pred HHhcccchhhhheecccc-ccccccchhhhcccCCcEEEEECCCC-CCCHHHHHHHHHCCCeEeccCCc
Confidence 777764332222333222 1122222 34689999999998 999976654321 345555443
No 29
>PF04013 Methyltrn_RNA_2: Putative SAM-dependent RNA methyltransferase; InterPro: IPR007158 The proteins in this family are around 200 amino acids long with the exception of O29206 from SWISSPROT that has an additional 100 amino acids at its N terminus. The function of these bacterial protein is unknown, however, they do contain several conserved histidines and aspartates that might form a metal-binding site.; PDB: 2QMM_A 3AIA_A 3AI9_X 2QWV_B.
Probab=76.29 E-value=17 Score=33.61 Aligned_cols=80 Identities=14% Similarity=0.185 Sum_probs=56.3
Q ss_pred CChHHHHHHHHhCCcEEEEEecCCCcccccccCCCC-CeEEEEcCCCCCCCHHHHH---h-CCcEEEECCCCCCCcccHH
Q 020038 220 DAPRECFNVLRSRGYRIATTHVGMDAISVYDMDWSC-PTAIVVGNENRGVSDEALS---L-SDLRCSIPMKGMVDSFNVS 294 (332)
Q Consensus 220 ~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~-~~aLV~GnE~~GLs~~~le---~-cD~~V~IPm~G~v~SLNVs 294 (332)
.++++.++++++. +++|-++.++ .++.++.++. ..++|+|- ..|++++..+ . .+..|+|-- .||=.+
T Consensus 113 ~~fe~ll~~~~~~-~~l~~L~e~G--~di~~~~~~~~d~~FVLgD-H~g~~~eee~~L~~~~a~kiSlGP----~~lhAd 184 (199)
T PF04013_consen 113 GGFEDLLEELAEE-YPLYYLHEDG--EDIRDVEFPGNDPVFVLGD-HIGFTEEEEELLERLGAEKISLGP----KSLHAD 184 (199)
T ss_dssp --HHHHHHHHHCT-SEEEEESTTS--EEGGGS---S-SEEEEEE--TT-SHHHHHHHHHCTTSEEEES-S----S---HH
T ss_pred CCHHHHHHHHhcC-CcEEEEcCCC--CcHhhcccCCCCCeEEEeC-CCCCCHHHHHHHHHccCceEEeCC----HHHHHH
Confidence 6788999999988 8999998764 7899999987 89999998 7899976443 3 367777743 489999
Q ss_pred HHHHHHHHHHHHh
Q 020038 295 VAAGILMHHAVCD 307 (332)
Q Consensus 295 vAaaI~Lye~~rq 307 (332)
++..|+-+|+=+.
T Consensus 185 hcI~ivhn~LD~~ 197 (199)
T PF04013_consen 185 HCITIVHNELDRR 197 (199)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhc
Confidence 9999999998654
No 30
>PF04452 Methyltrans_RNA: RNA methyltransferase; InterPro: IPR006700 Methyltransferases (Mtases) are responsible for the transfer of methyl groups between two molecules. The transfer of the methyl group from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms. The reaction is catalyzed by Mtases and modifies DNA, RNA, proteins or small molecules, such as catechol, for regulatory purposes. Proteins in this entry belong to the RsmE family of Mtases, this is supported by crystal structural studying, which show a close structural homology to other known methyltransferases []. This entry contains RsmE of Escherichia coli, which specifically methylates the uridine in position 1498 of 16S rRNA in the fully assembled 30S ribosomal subunit [, ].; GO: 0008168 methyltransferase activity, 0006364 rRNA processing; PDB: 1NXZ_B 1VHY_B 2EGW_A 2EGV_A 2Z0Y_A 2CX8_A 3KW2_A 1VHK_D 1Z85_B 1V6Z_A ....
Probab=74.03 E-value=11 Score=34.73 Aligned_cols=111 Identities=18% Similarity=0.211 Sum_probs=58.6
Q ss_pred EEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecC-CCC-ccCc--------cceeccC-----Ccceeee-eeEeCChHHH
Q 020038 162 CLVVEGLSDFGNVSATFRSADALGVQSVHVVSC-DSS-KRYR--------ENRHVSM-----GAEKWLD-IELWDAPREC 225 (332)
Q Consensus 162 ~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~-~~~-~~~~--------~~~raS~-----Ga~~~v~-v~~~~nl~~~ 225 (332)
+.++-.+-.+..+=-+++-|--+|++.++.... ++. ..+. +..|... ..-.++| +....++.++
T Consensus 63 i~L~~al~K~~~~d~il~katELGv~~i~p~~s~rsv~k~~~~~~~~k~~R~~~i~~eA~kQs~r~~~P~i~~~~~l~~~ 142 (225)
T PF04452_consen 63 ITLAQALPKGDRMDWILQKATELGVSRIIPVISERSVVKSDGKKSDKKLERWQRIAIEAAKQSGRTRLPEIEPPISLKEL 142 (225)
T ss_dssp EEEEEE--STTHHHHHHHHHHHTT-SEEEEEE-TTSSS---HHHHHHHHHHHHHHHHHHHHHHT-SS--EEEEEEEHHHH
T ss_pred EEEEEEEEcCccHHHHHHHHHhcCCCEEEEEEeeeeeeeccchhhHHHHHHHHHHHHHHHHhcCCCccceeeccccHHHH
Confidence 556677888899999999999999999987643 231 1110 0111111 1123455 4445688888
Q ss_pred HHHHHhCCcEEEEEecCCCcccccccC--CCC----CeEEEEcCCCCCCCHHHHHhC
Q 020038 226 FNVLRSRGYRIATTHVGMDAISVYDMD--WSC----PTAIVVGNENRGVSDEALSLS 276 (332)
Q Consensus 226 l~~Lk~~G~~i~a~~~~~~~~~l~~~~--~~~----~~aLV~GnE~~GLs~~~le~c 276 (332)
++.+..... +.++.++ ...+..+. ... ++++++|.|| |.+++.++..
T Consensus 143 l~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~i~i~IGPEG-Gfs~~E~~~~ 195 (225)
T PF04452_consen 143 LEDIPDEDL--LILDEDE-EPSLSSLSEILNSEKSFSIAIIIGPEG-GFSEEEIEFL 195 (225)
T ss_dssp HHHSSECSE--EEE-TTT-TCBGGGCSHTTSCHHC-EEEEEE--TT----HHHHHHH
T ss_pred hhccccCCE--EEEcccc-cccccchhhhhhcccCCcEEEEECCCC-CCCHHHHHHH
Confidence 888877654 3444432 22222222 111 8899999998 9999877644
No 31
>KOG0838 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=73.03 E-value=1.5 Score=41.97 Aligned_cols=51 Identities=27% Similarity=0.190 Sum_probs=42.9
Q ss_pred CCCCeEEEEcCCCCCCCHHHHHh---CCcEEEECCCC-CCCcccHHHHHHHHHHHH
Q 020038 253 WSCPTAIVVGNENRGVSDEALSL---SDLRCSIPMKG-MVDSFNVSVAAGILMHHA 304 (332)
Q Consensus 253 ~~~~~aLV~GnE~~GLs~~~le~---cD~~V~IPm~G-~v~SLNVsvAaaI~Lye~ 304 (332)
...++.++-||+ .++++.+.+. |++.+.|++.+ ..+||||++|+||.++..
T Consensus 136 g~~~v~lv~~n~-s~lS~~vskss~gale~l~I~q~~~~~efl~vsvaaG~~l~~t 190 (271)
T KOG0838|consen 136 GADGVLLVKGNS-SPLSPVVSKSSAGALEVLPIRQVDNPLEFLNVSVAAGIRLHGT 190 (271)
T ss_pred cCCceEEEeccC-CCCchhHHHhhhchhheeeHHHcCCHHHHHHHHHhCceEEEEe
Confidence 357899999999 8999988764 58889999964 689999999999988763
No 32
>PRK11713 16S ribosomal RNA methyltransferase RsmE; Provisional
Probab=68.05 E-value=44 Score=31.02 Aligned_cols=106 Identities=13% Similarity=0.124 Sum_probs=58.0
Q ss_pred EEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCC-CCccC---------cc---ceecc-C-Ccceeeeee-EeCChHHHH
Q 020038 163 LVVEGLSDFGNVSATFRSADALGVQSVHVVSCD-SSKRY---------RE---NRHVS-M-GAEKWLDIE-LWDAPRECF 226 (332)
Q Consensus 163 vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~-~~~~~---------~~---~~raS-~-Ga~~~v~v~-~~~nl~~~l 226 (332)
.++-.+-.+..+--+++.|.-+||+.++..... +...+ .+ ....+ . ..-.|+|-+ ...++.+++
T Consensus 77 ~l~~al~k~~~~e~il~k~tELGV~~i~p~~sers~~~~~~~~~~~k~~r~~~i~~~A~~Qs~r~~~P~i~~~~~~~~~l 156 (234)
T PRK11713 77 TLAQALPKGDRLELILQKATELGVSAIIPLISERSVVKLDGERADKKLERWQKIAIEAAEQSGRTRIPEVRPPISLKEFL 156 (234)
T ss_pred EEEEeecCCccHHHHHHHHHHhCcCeEEEEEeccceecccchhhHHHHHHHHHHHHHHHHhcCCCCCCEEcCcCCHHHHH
Confidence 344456678999999999999999999876432 21111 00 01111 1 112355543 335666665
Q ss_pred HHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhC
Q 020038 227 NVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLS 276 (332)
Q Consensus 227 ~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~c 276 (332)
+...... + .+ +....+.. ...+++++++|.|| |.+++.++..
T Consensus 157 ~~~~~~~--~--~~--~~~~~l~~-~~~~~i~viIGPEG-Gfs~~Ei~~l 198 (234)
T PRK11713 157 EELLPAD--L--KA--GLKLVLHP-EAGGKVLLLIGPEG-GFSPEEIELL 198 (234)
T ss_pred hhccccc--c--ch--hhhhhcCc-CCCCeEEEEECCCC-CCCHHHHHHH
Confidence 5443221 1 00 00111111 11246899999998 9999866544
No 33
>TIGR00046 RNA methyltransferase, RsmE family. Members of this protein family, previously called conserved hypothetical protein TIGR00046, include the YggJ protein of E. coli, which has now been shown to methylate U1498 in 16S rRNA.
Probab=64.02 E-value=35 Score=31.85 Aligned_cols=112 Identities=13% Similarity=0.125 Sum_probs=63.1
Q ss_pred EEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCC-CCccC-----cc---ceeccC-----Ccceeeeee-EeCChHHHH
Q 020038 162 CLVVEGLSDFGNVSATFRSADALGVQSVHVVSCD-SSKRY-----RE---NRHVSM-----GAEKWLDIE-LWDAPRECF 226 (332)
Q Consensus 162 ~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~-~~~~~-----~~---~~raS~-----Ga~~~v~v~-~~~nl~~~l 226 (332)
+.++-.+-.+..+=-+++-|--+|++.|+.+... +...+ .+ ..|... ..-.++|.+ ...++.+++
T Consensus 78 i~l~~al~K~~~~d~il~katELGv~~i~p~~s~rs~~~~~~~~~~k~~rw~~i~~eA~~Q~~r~~lP~i~~~~~l~~~l 157 (240)
T TIGR00046 78 IHLAIVLIKGKKMEFIIRKLTELGVSKIIPFNAERSVVKLDIEAIKKLERWQKIAIEAAEQSGRNIVPEIKPPKNLKEKC 157 (240)
T ss_pred EEEEEeecCCccHHHHHHHHHHcCCCEEEEEEeccceeccCchHHHHHHHHHHHHHHHHHhcCCCCCCEECCcCCHHHHH
Confidence 3444566678999999999999999999876322 21111 01 111111 112356644 345677776
Q ss_pred HHHHhCCcEEEEEecCCCcccccccC-CCCCeEEEEcCCCCCCCHHHHHhC
Q 020038 227 NVLRSRGYRIATTHVGMDAISVYDMD-WSCPTAIVVGNENRGVSDEALSLS 276 (332)
Q Consensus 227 ~~Lk~~G~~i~a~~~~~~~~~l~~~~-~~~~~aLV~GnE~~GLs~~~le~c 276 (332)
+........++. +.+. ......+. ..+++++++|.|| |.+++.++.+
T Consensus 158 ~~~~~~~~~~~~-~~~~-~~~~~~l~~~~~~v~~~IGPEG-Gfs~~Ei~~~ 205 (240)
T TIGR00046 158 AEAYEEALKLNF-HPEA-SPLSANLPIPAGNIVIIIGPEG-GFSEKEIQLL 205 (240)
T ss_pred hhCcCCCeEEEE-CCcc-cchhhhhccCCCcEEEEECCCC-CCCHHHHHHH
Confidence 655433333333 2221 11111121 1246899999998 9999887765
No 34
>PF04407 DUF531: Protein of unknown function (DUF531); InterPro: IPR007501 This is a family of hypothetical archaeal proteins.
Probab=59.81 E-value=21 Score=32.10 Aligned_cols=47 Identities=17% Similarity=0.275 Sum_probs=40.4
Q ss_pred CCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHH
Q 020038 254 SCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMH 302 (332)
Q Consensus 254 ~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Ly 302 (332)
.++..|++|--.+||+.++.+.+.+.+-|- |.-=||--..|.|++-.
T Consensus 119 ~~s~~~liGLGR~GLPkei~k~a~yHLDIT--gkgiSLETCTAiG~Ipa 165 (173)
T PF04407_consen 119 GKSFLLLIGLGRHGLPKEIFKMAKYHLDIT--GKGISLETCTAIGAIPA 165 (173)
T ss_pred CCceEEEEecCCCCCcHHHHHhchhceeec--CCceeeehhhHHhhHHH
Confidence 457899999999999999999999998887 66679999888887643
No 35
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=57.90 E-value=55 Score=30.00 Aligned_cols=100 Identities=16% Similarity=0.150 Sum_probs=64.8
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCcc-------ceec---------------cCCcceeeeeeE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRE-------NRHV---------------SMGAEKWLDIEL 218 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~-------~~ra---------------S~Ga~~~v~v~~ 218 (332)
-++.+| .|+.=+..+=|.|+.||++++.++...+...... ++-- -.|+---++...
T Consensus 60 ~v~AIe--~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~daiFIGGg~~i~~ile~~~~~l~~ggrlV~nait 137 (187)
T COG2242 60 RVIAIE--RDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPDAIFIGGGGNIEEILEAAWERLKPGGRLVANAIT 137 (187)
T ss_pred eEEEEe--cCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCCEEEECCCCCHHHHHHHHHHHcCcCCeEEEEeec
Confidence 456677 5777888999999999999999887665332211 1111 123334456677
Q ss_pred eCChHHHHHHHHhCCc-EEEEEecCCCccccccc---CCCCCeEEEEcC
Q 020038 219 WDAPRECFNVLRSRGY-RIATTHVGMDAISVYDM---DWSCPTAIVVGN 263 (332)
Q Consensus 219 ~~nl~~~l~~Lk~~G~-~i~a~~~~~~~~~l~~~---~~~~~~aLV~Gn 263 (332)
.++...+++.+++.|+ .++-..... ...+... ....|+.++.|-
T Consensus 138 lE~~~~a~~~~~~~g~~ei~~v~is~-~~~lg~~~~~~~~nPv~i~~g~ 185 (187)
T COG2242 138 LETLAKALEALEQLGGREIVQVQISR-GKPLGGGTMFRPVNPVFIISGV 185 (187)
T ss_pred HHHHHHHHHHHHHcCCceEEEEEeec-ceeccCeeEeecCCCEEEEEEe
Confidence 7888999999999999 665555432 3344332 334677666653
No 36
>PRK00103 rRNA large subunit methyltransferase; Provisional
Probab=57.62 E-value=18 Score=31.98 Aligned_cols=68 Identities=15% Similarity=0.170 Sum_probs=45.2
Q ss_pred CcEEEEEecCCCcccccccC---------CC--CCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHH
Q 020038 233 GYRIATTHVGMDAISVYDMD---------WS--CPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILM 301 (332)
Q Consensus 233 G~~i~a~~~~~~~~~l~~~~---------~~--~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~L 301 (332)
+-.++.+|..+. .+.... .. ..+++|+|. ..|+++++++.||..+++-- . .++=-.|--|++
T Consensus 67 ~~~~i~LDe~Gk--~~sS~~fA~~l~~~~~~g~~~i~F~IGG-a~G~~~~v~~~a~~~lSLS~--m--TfpH~larlvL~ 139 (157)
T PRK00103 67 GARVIALDERGK--QLSSEEFAQELERWRDDGRSDVAFVIGG-ADGLSPAVKKRADQSLSLSK--L--TLPHQLVRVLLA 139 (157)
T ss_pred CCEEEEEcCCCC--cCCHHHHHHHHHHHHhcCCccEEEEEcC-ccccCHHHHHhcCceEEecc--C--CCcHHHHHHHHH
Confidence 335778887653 333222 12 369999998 78999999999999988632 1 344455666666
Q ss_pred HHHHHh
Q 020038 302 HHAVCD 307 (332)
Q Consensus 302 ye~~rq 307 (332)
=+++|-
T Consensus 140 EQlYRa 145 (157)
T PRK00103 140 EQLYRA 145 (157)
T ss_pred HHHHHH
Confidence 666653
No 37
>TIGR00246 tRNA_RlmH_YbeA rRNA large subunit m3Psi methyltransferase RlmH. This protein, in the SPOUT methyltransferase family, previously designated YbeA in E. coli, was shown to be responsible for a further modification, a methylation, to a pseudouridine base in ribosomal large subunit RNA.
Probab=52.24 E-value=29 Score=30.61 Aligned_cols=73 Identities=8% Similarity=0.098 Sum_probs=46.0
Q ss_pred HHHHHHhCCcEEEEEecCCCcccccccC---------C-CCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHH
Q 020038 225 CFNVLRSRGYRIATTHVGMDAISVYDMD---------W-SCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVS 294 (332)
Q Consensus 225 ~l~~Lk~~G~~i~a~~~~~~~~~l~~~~---------~-~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVs 294 (332)
.+..+. . -.++++|..+. .+.... . ...+++|+|. ..|+++++++.||..+++--- .++=-
T Consensus 59 il~~~~-~-~~~i~LDe~Gk--~~sS~~fA~~l~~~~~~g~~i~FvIGG-a~G~~~~v~~~a~~~lSLS~m----TfpH~ 129 (153)
T TIGR00246 59 ILAAIG-K-AHVVTLDIPGK--PWTTPQLADTLEKWKTDGRDVTLLIGG-PEGLSPTCKAAAEQSWSLSKL----TLPHP 129 (153)
T ss_pred HHHhCC-C-CeEEEEcCCCC--cCCHHHHHHHHHHHhccCCeEEEEEcC-CCcCCHHHHHhcCceEEeecC----CCcHH
Confidence 344444 2 35778887653 232221 1 2359999998 789999999999999876321 24444
Q ss_pred HHHHHHHHHHHH
Q 020038 295 VAAGILMHHAVC 306 (332)
Q Consensus 295 vAaaI~Lye~~r 306 (332)
.|--|++=+++|
T Consensus 130 larlvL~EQiYR 141 (153)
T TIGR00246 130 LVRVIVAESLYR 141 (153)
T ss_pred HHHHHHHHHHHH
Confidence 555566555665
No 38
>COG4087 Soluble P-type ATPase [General function prediction only]
Probab=51.44 E-value=35 Score=29.95 Aligned_cols=83 Identities=17% Similarity=0.258 Sum_probs=57.3
Q ss_pred CcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEEecCCCc-ccccc
Q 020038 172 GNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDA-ISVYD 250 (332)
Q Consensus 172 ~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~~~~~~~-~~l~~ 250 (332)
---|++.+-|+..|++ +.|...|+...+ -...+.+||+.+++++....+.+. -.+.+
T Consensus 54 Dr~gsl~~lae~~gi~---------------~~rv~a~a~~e~-------K~~ii~eLkk~~~k~vmVGnGaND~laLr~ 111 (152)
T COG4087 54 DRKGSLVQLAEFVGIP---------------VERVFAGADPEM-------KAKIIRELKKRYEKVVMVGNGANDILALRE 111 (152)
T ss_pred CcchHHHHHHHHcCCc---------------eeeeecccCHHH-------HHHHHHHhcCCCcEEEEecCCcchHHHhhh
Confidence 3469999999999954 235666666432 246789999999888887754221 12223
Q ss_pred cCCCCCeEEEEcCCCCCCCHHHHHhCCcEEE
Q 020038 251 MDWSCPTAIVVGNENRGVSDEALSLSDLRCS 281 (332)
Q Consensus 251 ~~~~~~~aLV~GnE~~GLs~~~le~cD~~V~ 281 (332)
.++ -+.++|+| |.++.+++.+|.+++
T Consensus 112 ADl---GI~tiq~e--~v~~r~l~~ADvvik 137 (152)
T COG4087 112 ADL---GICTIQQE--GVPERLLLTADVVLK 137 (152)
T ss_pred ccc---ceEEeccC--CcchHHHhhchhhhh
Confidence 222 36789995 799999999998764
No 39
>PF02590 SPOUT_MTase: Predicted SPOUT methyltransferase; InterPro: IPR003742 This family of proteins are predicted to be SPOUT methyltransferases []. ; GO: 0008168 methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1VH0_E 4FAK_A 1TO0_G 1O6D_A 1NS5_B.
Probab=49.07 E-value=16 Score=32.32 Aligned_cols=68 Identities=13% Similarity=0.155 Sum_probs=36.4
Q ss_pred CCcEEEEEecCCCcccccccC---------C--CCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHH
Q 020038 232 RGYRIATTHVGMDAISVYDMD---------W--SCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGIL 300 (332)
Q Consensus 232 ~G~~i~a~~~~~~~~~l~~~~---------~--~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~ 300 (332)
.+-.++++|..+. .+.... . ...+++++|. ..|+++++++.||..+++--- .+.=-.|--|+
T Consensus 66 ~~~~~i~Ld~~Gk--~~sS~~fA~~l~~~~~~g~~~i~F~IGG-~~G~~~~~~~~a~~~lSLS~m----TfpH~larlvL 138 (155)
T PF02590_consen 66 PNDYVILLDERGK--QLSSEEFAKKLERWMNQGKSDIVFIIGG-ADGLSEEVRKRADEKLSLSKM----TFPHQLARLVL 138 (155)
T ss_dssp TTSEEEEE-TTSE--E--HHHHHHHHHHHHHTTS-EEEEEE-B-TTB--HHHHHH-SEEEES-SS-------HHHHHHHH
T ss_pred CCCEEEEEcCCCc--cCChHHHHHHHHHHHhcCCceEEEEEec-CCCCCHHHHhhcCceEEEecC----CCcHHHHHHHH
Confidence 4566778887653 333222 1 3468999998 679999999999998876321 23333444555
Q ss_pred HHHHHH
Q 020038 301 MHHAVC 306 (332)
Q Consensus 301 Lye~~r 306 (332)
+=+++|
T Consensus 139 ~EQiYR 144 (155)
T PF02590_consen 139 LEQIYR 144 (155)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 555555
No 40
>COG1901 Uncharacterized conserved protein [Function unknown]
Probab=42.00 E-value=1.5e+02 Score=27.38 Aligned_cols=81 Identities=12% Similarity=0.114 Sum_probs=58.5
Q ss_pred CChHHHHHHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHH----hCCcEEEECCCCCCCcccHHH
Q 020038 220 DAPRECFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALS----LSDLRCSIPMKGMVDSFNVSV 295 (332)
Q Consensus 220 ~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le----~cD~~V~IPm~G~v~SLNVsv 295 (332)
..+++.+..+. +|+.+|-++.++ .++.++++...-++|+|. ..|++++..+ ..+..|++=- -||=..+
T Consensus 112 ~~~e~ll~~l~-~~~~ly~L~E~G--~DI~~v~~~~np~FIlGD-H~g~t~e~~k~L~r~~~~~ISlGP----~~lha~h 183 (197)
T COG1901 112 GGFEALLAELA-EGRSLYYLHEDG--RDISEVDLIPNPVFILGD-HIGLTEEDEKLLERHAAKKISLGP----LSLHADH 183 (197)
T ss_pred CCHHHHHHHHh-ccCcEEEEccCC--ccHhhcccCCCceEEeeC-CCCCCHHHHHHHHHhhCceeEeCc----hHHHHHH
Confidence 45555565554 467899898775 578888887777899998 7899987554 4566666632 3788888
Q ss_pred HHHHHHHHHHHhh
Q 020038 296 AAGILMHHAVCDR 308 (332)
Q Consensus 296 AaaI~Lye~~rqR 308 (332)
+..++=+++-+|+
T Consensus 184 cit~~h~~LD~~~ 196 (197)
T COG1901 184 CITLLHNLLDRQG 196 (197)
T ss_pred HHHHHHHHHhhcc
Confidence 8888888876654
No 41
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=40.70 E-value=1.3e+02 Score=26.98 Aligned_cols=71 Identities=18% Similarity=0.222 Sum_probs=48.0
Q ss_pred HHHHHHhcCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHHHHH
Q 020038 149 RFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRECFNV 228 (332)
Q Consensus 149 ~l~~v~~~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~l~~ 228 (332)
.+.+.++.....+.++.+.-.|+...-+.++.+..-|+++|++..... ......++.
T Consensus 19 g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~-----------------------~~~~~~l~~ 75 (257)
T PF13407_consen 19 GAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDP-----------------------DSLAPFLEK 75 (257)
T ss_dssp HHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSST-----------------------TTTHHHHHH
T ss_pred HHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCH-----------------------HHHHHHHHH
Confidence 444555443333333369999999999999999999999998664322 233456666
Q ss_pred HHhCCcEEEEEecC
Q 020038 229 LRSRGYRIATTHVG 242 (332)
Q Consensus 229 Lk~~G~~i~a~~~~ 242 (332)
++++|+.++..+..
T Consensus 76 ~~~~gIpvv~~d~~ 89 (257)
T PF13407_consen 76 AKAAGIPVVTVDSD 89 (257)
T ss_dssp HHHTTSEEEEESST
T ss_pred HhhcCceEEEEecc
Confidence 77777766666544
No 42
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=39.71 E-value=73 Score=25.95 Aligned_cols=66 Identities=14% Similarity=0.044 Sum_probs=37.5
Q ss_pred CChHHHHHHHHhCCcEEEEEecCCCcccccccCCCCCeEEEEcCCCCCCCHHHHH-----hCCcEEEECCCCC
Q 020038 220 DAPRECFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALS-----LSDLRCSIPMKGM 287 (332)
Q Consensus 220 ~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le-----~cD~~V~IPm~G~ 287 (332)
..+.+..+.|.+.||.++++..+ +.-|.+.-.+...+.-+...+.+-.+.+++ ..|.++.||..+.
T Consensus 13 ~~~~~~a~~l~~~G~~i~aT~gT--a~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~~~~ 83 (116)
T cd01423 13 PELLPTAQKLSKLGYKLYATEGT--ADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPSNRG 83 (116)
T ss_pred hhHHHHHHHHHHCCCEEEEccHH--HHHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCCCCC
Confidence 35668888899999999998754 344543333222222122112222244443 5578888887654
No 43
>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=38.70 E-value=73 Score=26.29 Aligned_cols=51 Identities=24% Similarity=0.319 Sum_probs=36.1
Q ss_pred cEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEE
Q 020038 160 SVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIAT 238 (332)
Q Consensus 160 ~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a 238 (332)
+++++. ..|..+..+++-|.+.|++++++... ..-+++++.+++.|.++++
T Consensus 57 Dlavv~---~~~~~~~~~v~~~~~~g~~~v~~~~g-------------------------~~~~~~~~~a~~~gi~vig 107 (116)
T PF13380_consen 57 DLAVVC---VPPDKVPEIVDEAAALGVKAVWLQPG-------------------------AESEELIEAAREAGIRVIG 107 (116)
T ss_dssp SEEEE----S-HHHHHHHHHHHHHHT-SEEEE-TT-------------------------S--HHHHHHHHHTT-EEEE
T ss_pred CEEEEE---cCHHHHHHHHHHHHHcCCCEEEEEcc-------------------------hHHHHHHHHHHHcCCEEEe
Confidence 355554 78899999999999999999987643 3446888888999998875
No 44
>PRK04171 ribosome biogenesis protein; Provisional
Probab=33.82 E-value=1.6e+02 Score=27.74 Aligned_cols=68 Identities=15% Similarity=0.108 Sum_probs=51.7
Q ss_pred cEEEEEecCCCcccccccC-CCCCeEEEEcCCCCC-CCHHHHHhCCcEEEECCCCCCCcccHHHHHHHHHHHHH
Q 020038 234 YRIATTHVGMDAISVYDMD-WSCPTAIVVGNENRG-VSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAV 305 (332)
Q Consensus 234 ~~i~a~~~~~~~~~l~~~~-~~~~~aLV~GnE~~G-Ls~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~Lye~~ 305 (332)
..+++++..+....+.++- ...+.++|+|.=.+| .+.++++..|..++|-- .+|-.+.+++-+++++-
T Consensus 147 ~~~i~lS~~g~~~~~~~~~~~~~~~~~vIGaf~hG~f~~~~~~~~~~~iSIs~----~pLsa~~v~~ri~~a~E 216 (222)
T PRK04171 147 DRIILLSEKGELVKPKELGKENENIAVGIGGFPHGDFSEKVLELAKKKYSIYG----EPLTAWTVVCRVIAAYE 216 (222)
T ss_pred CcEEEECCCCcccCHHHHhhccCCcEEEEccccCCCcchhhHhhcCeEEEEeC----CChHHHHHHHHHHHHHH
Confidence 5678888776555554443 367899999998888 46677888999999974 47888888888887764
No 45
>COG2106 Uncharacterized conserved protein [Function unknown]
Probab=33.70 E-value=44 Score=32.36 Aligned_cols=26 Identities=15% Similarity=0.144 Sum_probs=22.2
Q ss_pred CcHHHHHHHHHHHCCCeEEEecCCCC
Q 020038 172 GNVSATFRSADALGVQSVHVVSCDSS 197 (332)
Q Consensus 172 ~NlGaIiRTA~afGv~~Vii~~~~~~ 197 (332)
.=+|.|.|.|+-|||+.|+|.+....
T Consensus 26 ~Kvg~IARaaaiF~V~eIii~~D~~~ 51 (272)
T COG2106 26 YKVGQIARAAAIFRVDEIIIYEDGDD 51 (272)
T ss_pred HHHHHHHHHHHhhcccEEEEEeCCCC
Confidence 45899999999999999999876543
No 46
>COG3426 Butyrate kinase [Energy production and conversion]
Probab=27.66 E-value=60 Score=32.06 Aligned_cols=65 Identities=15% Similarity=0.107 Sum_probs=42.2
Q ss_pred HHHHhhCCCcchhhHHHHHHHHhcCCccEEEEEeCCCCcCcHHHHH--HHHHHHCCCeEEEecCCCCccCccceecc
Q 020038 133 EVVEALSPYLMEERKERFVNVVKNRSYSVCLVVEGLSDFGNVSATF--RSADALGVQSVHVVSCDSSKRYRENRHVS 207 (332)
Q Consensus 133 gV~~~v~~~~~~~r~~~l~~v~~~~~~~l~vVLd~i~dP~NlGaIi--RTA~afGv~~Vii~~~~~~~~~~~~~raS 207 (332)
|++.-+.+-.|.-.+..++.+..+ ..-+.+.|+|+|+ |.|.++|+.+.| +++-.++....+.|.|
T Consensus 77 GLL~pi~gGTY~Vn~~M~~~lk~~---------~~G~haSnLGaiiA~~ia~~~gvPayI-VDPvvVDEm~~~Ar~S 143 (358)
T COG3426 77 GLLRPIPGGTYVVNEKMLKDLKNG---------VQGEHASNLGAIIANRIAKALGVPAYI-VDPVVVDEMEDVARFS 143 (358)
T ss_pred ccccccCCceeEeCHHHHHHHHcC---------CCCcchhhhhHHHHHHHhhhcCCCeee-eCceehhhcchhhhhc
Confidence 455555544454444556555433 2447899999997 889999999985 5566665555555544
No 47
>COG1772 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.71 E-value=1.4e+02 Score=26.76 Aligned_cols=45 Identities=16% Similarity=0.211 Sum_probs=36.8
Q ss_pred CCCeEEEEcCCCCCCCHHHHHhCCcEEEECCCCCCCcccHHHHHHHH
Q 020038 254 SCPTAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGIL 300 (332)
Q Consensus 254 ~~~~aLV~GnE~~GLs~~~le~cD~~V~IPm~G~v~SLNVsvAaaI~ 300 (332)
.+...+++|--.+||+.++++.|.+.+-|-- .-=||--..|.|++
T Consensus 119 ~ks~~~~iGLGr~GLPke~~~~~~YHLDiT~--kgvSLETcTAIGaI 163 (178)
T COG1772 119 GKSFTFLIGLGRHGLPKEMFKSAKYHLDITD--KGVSLETCTAIGAI 163 (178)
T ss_pred CCceEEEEecCCCCCcHHHHhhceeeeeecc--Ccceeeehhhhcch
Confidence 3567899999999999999999988877765 44588888877765
No 48
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=25.69 E-value=4.7e+02 Score=23.14 Aligned_cols=44 Identities=11% Similarity=0.107 Sum_probs=28.6
Q ss_pred HHHHHHhcCCccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEec
Q 020038 149 RFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVS 193 (332)
Q Consensus 149 ~l~~v~~~~~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~ 193 (332)
.+.+.+++.... +++++.-.|+...-.+++....-|+++||+..
T Consensus 20 gi~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~ 63 (265)
T cd06299 20 AIQDAASAAGYS-TIIGNSDENPETENRYLDNLLSQRVDGIIVVP 63 (265)
T ss_pred HHHHHHHHcCCE-EEEEeCCCCHHHHHHHHHHHHhcCCCEEEEcC
Confidence 444544444333 33444445777777888898889999998764
No 49
>COG1576 Uncharacterized conserved protein [Function unknown]
Probab=25.59 E-value=1.3e+02 Score=26.73 Aligned_cols=50 Identities=16% Similarity=0.240 Sum_probs=34.6
Q ss_pred CCcEEEEEecCCCcccccc-------cCCC-CCeEEEEcCCCCCCCHHHHHhCCcEEEE
Q 020038 232 RGYRIATTHVGMDAISVYD-------MDWS-CPTAIVVGNENRGVSDEALSLSDLRCSI 282 (332)
Q Consensus 232 ~G~~i~a~~~~~~~~~l~~-------~~~~-~~~aLV~GnE~~GLs~~~le~cD~~V~I 282 (332)
.|-.+++++..+...+-.+ .... +.+++++|. ..|+++++++.+|...+.
T Consensus 66 ~~~~vi~Ld~~Gk~~sSe~fA~~l~~~~~~G~~i~f~IGG-~~Gl~~~~~~~a~~~~sl 123 (155)
T COG1576 66 KGSYVVLLDIRGKALSSEEFADFLERLRDDGRDISFLIGG-ADGLSEAVKARADQVLSL 123 (155)
T ss_pred CCCeEEEEecCCCcCChHHHHHHHHHHHhcCCeEEEEEeC-cccCCHHHHHHHhhheec
Confidence 3557888887654322211 1112 468999998 789999999999987654
No 50
>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=24.36 E-value=92 Score=27.81 Aligned_cols=31 Identities=23% Similarity=0.278 Sum_probs=25.6
Q ss_pred CCCCCeEEEEcCCCCCCCHHHHHhCCcEEEEC
Q 020038 252 DWSCPTAIVVGNENRGVSDEALSLSDLRCSIP 283 (332)
Q Consensus 252 ~~~~~~aLV~GnE~~GLs~~~le~cD~~V~IP 283 (332)
.-.++.++++|.| .+.++++.+.||..+.|.
T Consensus 126 re~G~~V~v~g~~-~~ts~~L~~acd~FI~L~ 156 (160)
T TIGR00288 126 KENGKETIVIGAE-PGFSTALQNSADIAIILG 156 (160)
T ss_pred HHCCCEEEEEeCC-CCChHHHHHhcCeEEeCC
Confidence 3458899999965 488999999999988775
No 51
>COG1793 CDC9 ATP-dependent DNA ligase [DNA replication, recombination, and repair]
Probab=24.13 E-value=7.5e+02 Score=25.50 Aligned_cols=118 Identities=20% Similarity=0.204 Sum_probs=74.8
Q ss_pred hCCCcchhhHHHHHHHHhcC----CccEEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCccee
Q 020038 138 LSPYLMEERKERFVNVVKNR----SYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKW 213 (332)
Q Consensus 138 v~~~~~~~r~~~l~~v~~~~----~~~l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~ 213 (332)
+....+.+|...+++++... ..+.+.+ .++.+.=++++.+...|..+|+ .+.. +. ..+.+..+..|
T Consensus 239 L~~~pl~eRr~~Le~lv~~~~~~~~~~~i~~----~~~~~~~~~~~~a~~~g~EGvv-~K~~-ds----~Y~~g~R~~~W 308 (444)
T COG1793 239 LRGLPLEERRALLEELVKSSDKIEIAERIPF----SDAEEGEAFLEAAIELGLEGVV-AKRP-DS----PYRAGGRSNKW 308 (444)
T ss_pred cccCchHHHHHHHHHHhccccccccccceec----cChhhHHHHHHHHHhcCceEEE-EeCC-CC----CcCCCCCCCcc
Confidence 34556778888888888751 1122222 8889999999999999999995 4422 22 23566667788
Q ss_pred eeeeEeCChHHHHHHHHhCCcEEEEEecCCCccc-ccccC---CC--CCeEEEEcCCCCCCCHHHHHh
Q 020038 214 LDIELWDAPRECFNVLRSRGYRIATTHVGMDAIS-VYDMD---WS--CPTAIVVGNENRGVSDEALSL 275 (332)
Q Consensus 214 v~v~~~~nl~~~l~~Lk~~G~~i~a~~~~~~~~~-l~~~~---~~--~~~aLV~GnE~~GLs~~~le~ 275 (332)
+.+-.. ....+.|++...+.+... +..+- +. ....+=+|.=++|++++.++.
T Consensus 309 ~K~K~~----------~~~d~vv~G~~~g~Gkr~~~~slll~~~~~~~~~~~~v~kVgtGf~~~~l~~ 366 (444)
T COG1793 309 LKVKRD----------ETLDLVVVGAEYGKGKRSLYGSLLLGVYDGDGGGLLYVGKVGTGFSDAELEE 366 (444)
T ss_pred eEeccC----------CcccEEEEEEEecCCcccccceEEEEEEcCCCceEEEEecccCCCCHHHHHH
Confidence 876654 334567778777643211 11111 12 233566778889999877764
No 52
>COG3142 CutC Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]
Probab=23.57 E-value=2.6e+02 Score=26.67 Aligned_cols=93 Identities=23% Similarity=0.235 Sum_probs=58.9
Q ss_pred HHHHHHHCCCeEEEecCCCC---cc--Cccc--eeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEEecCCCcccccc
Q 020038 178 FRSADALGVQSVHVVSCDSS---KR--YREN--RHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAISVYD 250 (332)
Q Consensus 178 iRTA~afGv~~Vii~~~~~~---~~--~~~~--~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~~~~~~~~~l~~ 250 (332)
++.+.-+|+++|++---..+ +. .++. ....++..||.-+-.+.|..++|++|-+.|+.-+-|+... ...+..
T Consensus 79 I~~~~~lG~~GVV~G~lt~dg~iD~~~le~Li~aA~gL~vTFHrAFD~~~d~~~ale~li~~Gv~RILTsGg~-~sa~eg 157 (241)
T COG3142 79 IRLARELGVQGVVLGALTADGNIDMPRLEKLIEAAGGLGVTFHRAFDECPDPLEALEQLIELGVERILTSGGK-ASALEG 157 (241)
T ss_pred HHHHHHcCCCcEEEeeecCCCccCHHHHHHHHHHccCCceeeehhhhhcCCHHHHHHHHHHCCCcEEecCCCc-Cchhhh
Confidence 56788889999976322111 11 1222 2345666788888888999999999999999888888643 222222
Q ss_pred cC-------C-CCCeEEEEcCCCCCCCHHHHH
Q 020038 251 MD-------W-SCPTAIVVGNENRGVSDEALS 274 (332)
Q Consensus 251 ~~-------~-~~~~aLV~GnE~~GLs~~~le 274 (332)
++ . .++..++.|. |++.+-++
T Consensus 158 ~~~l~~li~~a~gri~Im~Ga---GV~~~N~~ 186 (241)
T COG3142 158 LDLLKRLIEQAKGRIIIMAGA---GVRAENIA 186 (241)
T ss_pred HHHHHHHHHHhcCCEEEEeCC---CCCHHHHH
Confidence 22 1 2556666655 67766544
No 53
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.93 E-value=3.5e+02 Score=20.71 Aligned_cols=65 Identities=12% Similarity=0.019 Sum_probs=36.5
Q ss_pred EEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCC----hHHHHHHHHhCCcEEEEE
Q 020038 164 VVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDA----PRECFNVLRSRGYRIATT 239 (332)
Q Consensus 164 VLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~n----l~~~l~~Lk~~G~~i~a~ 239 (332)
.+.=+..||++..++.... |+ +|.-... . +.+.+.....=.+.+.+ .++.++.|++.||.+.-.
T Consensus 5 ~v~ipD~PG~L~~ll~~l~--~a-nI~~~~y------~---~~~~~~~~v~i~ie~~~~~~~~~~i~~~L~~~G~~~~~~ 72 (85)
T cd04906 5 AVTIPERPGSFKKFCELIG--PR-NITEFNY------R---YADEKDAHIFVGVSVANGAEELAELLEDLKSAGYEVVDL 72 (85)
T ss_pred EEecCCCCcHHHHHHHHhC--CC-ceeEEEE------E---ccCCCeeEEEEEEEeCCcHHHHHHHHHHHHHCCCCeEEC
Confidence 3334466999999888665 33 2321111 1 11112222222234455 889999999999988654
Q ss_pred e
Q 020038 240 H 240 (332)
Q Consensus 240 ~ 240 (332)
+
T Consensus 73 ~ 73 (85)
T cd04906 73 S 73 (85)
T ss_pred C
Confidence 4
No 54
>PF04015 DUF362: Domain of unknown function (DUF362) ; InterPro: IPR007160 This domain is found in some iron-sulphur proteins.
Probab=22.77 E-value=1.5e+02 Score=26.52 Aligned_cols=28 Identities=11% Similarity=0.120 Sum_probs=23.5
Q ss_pred CCCCcCcHHHHHHHHHHHCCCeEEEecC
Q 020038 167 GLSDFGNVSATFRSADALGVQSVHVVSC 194 (332)
Q Consensus 167 ~i~dP~NlGaIiRTA~afGv~~Vii~~~ 194 (332)
-.++|.=+.++++.....|+..|++.+.
T Consensus 18 ~~T~P~vv~avv~~l~~~g~~~i~i~e~ 45 (206)
T PF04015_consen 18 ATTHPEVVRAVVEMLKEAGAKEIIIAES 45 (206)
T ss_pred ccCCHHHHHHHHHHHHHcCCCceEEEeC
Confidence 3578888999999999999988877654
No 55
>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola
Probab=21.70 E-value=4.7e+02 Score=21.69 Aligned_cols=76 Identities=12% Similarity=-0.011 Sum_probs=40.0
Q ss_pred EEEEEeCCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCcc-ceeccCCcceeeeeeEeCCh-HHHHHHHHhCCcEE
Q 020038 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRE-NRHVSMGAEKWLDIELWDAP-RECFNVLRSRGYRI 236 (332)
Q Consensus 161 l~vVLd~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~-~~raS~Ga~~~v~v~~~~nl-~~~l~~Lk~~G~~i 236 (332)
-+++++.-..+-....-++.|+..|+.+||+........... ....-.+....+|.+.+... .+.|..+-++|-.+
T Consensus 46 kIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~~~~~~~~~~~~~~~~~IP~v~Is~edg~~L~~~l~~g~~~ 123 (127)
T cd04819 46 KIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGVLPATGDEGTEDGPPSPIPAASVSGEDGLRLARVAERNDTL 123 (127)
T ss_pred eEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCcCcccccccccCCCCCCCCEEEEeHHHHHHHHHHHhcCCce
Confidence 455556544433567789999999999999985432211100 01111133346777665322 23444444445443
No 56
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=21.60 E-value=2e+02 Score=28.37 Aligned_cols=84 Identities=14% Similarity=0.208 Sum_probs=45.8
Q ss_pred CCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEE------e
Q 020038 167 GLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATT------H 240 (332)
Q Consensus 167 ~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~------~ 240 (332)
+-+.-.+....+-...+.| +.++++..++. .+.++.++..++.|+.-+.- .
T Consensus 36 g~~~ipGs~e~l~~L~~~g-K~i~fvTNNSt----------------------ksr~~y~kK~~~lG~~~v~e~~i~ssa 92 (306)
T KOG2882|consen 36 GEKPIPGSPEALNLLKSLG-KQIIFVTNNST----------------------KSREQYMKKFAKLGFNSVKEENIFSSA 92 (306)
T ss_pred cCCCCCChHHHHHHHHHcC-CcEEEEeCCCc----------------------chHHHHHHHHHHhCccccCcccccChH
Confidence 4455556666666677777 66655544332 23345556666666652111 1
Q ss_pred cCCCcccccccCCCCCeEEEEcCCCCCCCHHHHHhC
Q 020038 241 VGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLS 276 (332)
Q Consensus 241 ~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~~~le~c 276 (332)
..- +.-+.+..+.++.++|+|.| ||.+++.+.-
T Consensus 93 ~~~-a~ylk~~~~~~k~Vyvig~~--gi~~eL~~aG 125 (306)
T KOG2882|consen 93 YAI-ADYLKKRKPFGKKVYVIGEE--GIREELDEAG 125 (306)
T ss_pred HHH-HHHHHHhCcCCCeEEEecch--hhhHHHHHcC
Confidence 110 11233333456778889988 5777776654
No 57
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=21.53 E-value=83 Score=26.40 Aligned_cols=65 Identities=17% Similarity=0.195 Sum_probs=39.4
Q ss_pred CCcCcHHHHHHHHH---HHCCCeEEEecCCCCccCccceeccCCcceeeeeeEeCChHHHHHHHHhCCcEEEEEec
Q 020038 169 SDFGNVSATFRSAD---ALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHV 241 (332)
Q Consensus 169 ~dP~NlGaIiRTA~---afGv~~Vii~~~~~~~~~~~~~raS~Ga~~~v~v~~~~nl~~~l~~Lk~~G~~i~a~~~ 241 (332)
|.-+|+|.=++.|. ..|...|++++.++..+....++.+.-.+..-+++.-+ ..+-||+++|+..
T Consensus 40 Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~l~~~~l~~A~~~L~~~d~VlgP--------a~DGGy~LiG~~~ 107 (122)
T PF09837_consen 40 QQGGDLGERMANAFQQAARGYEPVVLIGSDCPDLTPDDLEQAFEALQRHDVVLGP--------AEDGGYYLIGLRR 107 (122)
T ss_dssp --SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT--HHHHHHHHHHTTT-SEEEEE--------BTTSSEEEEEEEG
T ss_pred cCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCCCCHHHHHHHHHHhccCCEEEee--------ccCCCEEEEecCC
Confidence 67889997666554 45699999999988877766555555555554555444 2456899998884
No 58
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.19 E-value=2.2e+02 Score=19.80 Aligned_cols=65 Identities=18% Similarity=0.236 Sum_probs=36.8
Q ss_pred CCCCcCcHHHHHHHHHHHCCCeEEEecCCCCccCccceeccCC-cceeeeeeE--eCChHHHHHHHHhCCcEEE
Q 020038 167 GLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMG-AEKWLDIEL--WDAPRECFNVLRSRGYRIA 237 (332)
Q Consensus 167 ~i~dP~NlGaIiRTA~afGv~~Vii~~~~~~~~~~~~~raS~G-a~~~v~v~~--~~nl~~~l~~Lk~~G~~i~ 237 (332)
-...|+-+..|++.....|+.=.-+...... . ....| +...+.+.. ..++.+.++.|++.||++.
T Consensus 5 ~~d~~G~L~~i~~~i~~~~~nI~~i~~~~~~-----~-~~~~~~~~~~i~v~~~~~~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 5 LPDRPGQLAKLLAVIAEAGANIIEVSHDRAF-----K-TLPLGEVEVELTLETRGAEHIEEIIAALREAGYDVR 72 (73)
T ss_pred eCCCCChHHHHHHHHHHcCCCEEEEEEEecc-----C-CCCCceEEEEEEEEeCCHHHHHHHHHHHHHcCCEEe
Confidence 3578999999999999999874322111000 0 00011 112222221 1344589999999999864
Done!