Query 046012
Match_columns 244
No_of_seqs 212 out of 1421
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 07:51:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046012.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046012hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK14903 16S rRNA methyltransf 100.0 1.4E-33 3E-38 260.5 17.5 204 33-244 4-240 (431)
2 PRK10901 16S rRNA methyltransf 100.0 4E-33 8.6E-38 257.5 17.7 205 32-244 2-247 (427)
3 PRK14901 16S rRNA methyltransf 100.0 2.5E-32 5.5E-37 252.7 18.5 204 33-244 2-255 (434)
4 PRK14902 16S rRNA methyltransf 100.0 5.2E-30 1.1E-34 237.9 19.1 206 31-244 2-253 (444)
5 TIGR00563 rsmB ribosomal RNA s 100.0 6.8E-30 1.5E-34 236.0 17.9 202 35-244 1-241 (426)
6 PRK14904 16S rRNA methyltransf 100.0 4.7E-28 1E-32 224.9 18.2 202 32-244 2-253 (445)
7 KOG2360 Proliferation-associat 99.7 2.2E-17 4.8E-22 146.4 9.3 198 37-243 3-215 (413)
8 COG0144 Sun tRNA and rRNA cyto 99.7 3E-16 6.4E-21 141.9 8.6 103 139-244 51-159 (355)
9 PRK11933 yebU rRNA (cytosine-C 99.6 1.3E-15 2.8E-20 141.8 10.8 99 143-244 10-116 (470)
10 cd00620 Methyltransferase_Sun 99.6 8.5E-15 1.8E-19 113.7 10.2 108 32-144 1-120 (126)
11 PF01189 Nol1_Nop2_Fmu: NOL1/N 99.6 1.4E-15 3.1E-20 133.5 5.7 82 162-244 4-88 (283)
12 TIGR01951 nusB transcription a 99.5 7.8E-14 1.7E-18 108.6 11.5 108 33-144 3-124 (129)
13 PRK00202 nusB transcription an 99.5 1.2E-13 2.7E-18 108.6 11.7 111 32-146 4-128 (137)
14 cd00619 Terminator_NusB Transc 99.5 1.9E-13 4.2E-18 106.5 11.8 108 33-144 3-124 (130)
15 PF01029 NusB: NusB family; I 99.5 3.6E-13 7.8E-18 105.4 11.3 109 32-144 1-130 (134)
16 cd00447 NusB_Sun RNA binding d 99.3 3.1E-11 6.7E-16 93.8 10.4 107 34-144 2-123 (129)
17 TIGR00446 nop2p NOL1/NOP2/sun 99.2 1.5E-11 3.2E-16 107.1 7.5 72 172-244 1-74 (264)
18 PRK09634 nusB transcription an 99.0 3.3E-09 7.1E-14 88.6 10.3 75 67-144 110-196 (207)
19 KOG1122 tRNA and rRNA cytosine 98.5 1E-07 2.3E-12 86.3 5.5 82 163-244 160-244 (460)
20 COG0781 NusB Transcription ter 98.5 4.3E-07 9.4E-12 72.4 8.3 104 29-134 8-125 (151)
21 KOG2198 tRNA cytosine-5-methyl 74.5 1.1 2.3E-05 40.8 0.3 27 218-244 132-158 (375)
22 PF07276 PSGP: Apopolysialogly 67.2 3.2 7E-05 18.5 0.8 10 4-13 4-13 (13)
No 1
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=100.00 E-value=1.4e-33 Score=260.50 Aligned_cols=204 Identities=19% Similarity=0.236 Sum_probs=171.7
Q ss_pred HHHHHHHHHHHHHHccchhhhhhhcc-cccccCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccch--hhhhHHHHH
Q 046012 33 FARREAAKVLRLVLRGDARRRAVGSI-KSLVYSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSK--WKRQEELVY 109 (244)
Q Consensus 33 ~~R~~A~~iL~~v~~~~~~~~~l~~l-~~l~~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~--~~~~~~lLr 109 (244)
++|++|+++|.+|..+|.+++. .+ +.+. .++++|++|+++|||||+|++..||++|+++ ++++ ...++.+||
T Consensus 4 ~~R~~A~~~L~~v~~~~~~~~~--~l~~~~~-~l~~~d~~~~~~lv~gvlr~~~~lD~~i~~~--~~~~~l~~~~r~iLr 78 (431)
T PRK14903 4 NVRLLAYRLLRKYEKEKFIFRE--DVDSVLS-FLDDKDRRFFKELVWGVVRKEELLDWYINQL--LKKKDIPPAVRVALR 78 (431)
T ss_pred CHHHHHHHHHHHHHhCCCchHH--HHHHHHH-hCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hcCCCCCHHHHHHHH
Confidence 6799999999999999987743 23 3343 5889999999999999999999999999995 6543 236799999
Q ss_pred HHHHHHHhcCccccch---hHHHHHHHhh--------------------HHHHHHHHHHHH-----HcCCCCHHHHHHhh
Q 046012 110 ILTYDILFGQEISLVG---DAEKFLMLHK--------------------GAIQSALARLLV-----RNKVKSIEDLMALY 161 (244)
Q Consensus 110 v~~yqll~~~~~p~~a---e~v~~v~r~~--------------------~~l~~s~p~w~~-----~~g~~~~~~~~~~~ 161 (244)
+|+|||+|++.+|+++ |+|+++++.. ..+.+++|.|+. .||.++++++++
T Consensus 79 ~~~yel~~~~~~p~~aavneaV~lak~~~~~~fVNaVLr~~~r~~~~~~l~~~~s~P~wl~~~~~~~~g~~~~~~~~~-- 156 (431)
T PRK14903 79 MGAYQLLFMNSVPDYAAVSETVKLVKNENFKKLVNAVLRRLRTVPEPKELHLKYSHPKWLVNYWRSFLPEEAVLRIME-- 156 (431)
T ss_pred HHHHHHHhccCCCcceeHHHHHHHHhccchHHHHHHHHHHHHHhhcchhhhhhhcCcHHHHHHHHHHcCHHHHHHHHH--
Confidence 9999999998669887 8888876421 012467787765 568777888887
Q ss_pred cCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCC-CCCCCCchhhhcceEEeechhhHHhHHhhCC
Q 046012 162 QTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPP-GCDLHDHPLIVNGCVFLQGKASSMVAAALAP 239 (244)
Q Consensus 162 ~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~-~~~l~~~~~f~~G~~~vQD~aSql~a~~L~p 239 (244)
+.+ .+||+++|||++|++++++.+.|++ |+.+++++++|+++++.. ..++..++.|++|+|++||++||+++.+++|
T Consensus 157 ~~~-~~~~~~~RvN~~k~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~Qd~~s~~~~~~l~~ 235 (431)
T PRK14903 157 WNQ-EPLPTMLRVNSLAITREEVIKILAEEGTEAVPGKHSPFSLIVRKLGVNMNDSRVIKDGLATVQGESSQIVPLLMEL 235 (431)
T ss_pred Hhc-CCCCeeEEeeCCcCCHHHHHHHHHHCCCeeEECCCCCceEEEcCCCCCcccChHHHCCeEEEECHHHHHHHHHhCC
Confidence 666 7999999999999999999999988 999999999999999875 4568899999999999999999999999999
Q ss_pred CCCCC
Q 046012 240 KPGWK 244 (244)
Q Consensus 240 ~pG~~ 244 (244)
+||++
T Consensus 236 ~~g~~ 240 (431)
T PRK14903 236 EPGLR 240 (431)
T ss_pred CCCCE
Confidence 99863
No 2
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=100.00 E-value=4e-33 Score=257.55 Aligned_cols=205 Identities=20% Similarity=0.232 Sum_probs=167.7
Q ss_pred hHHHHHHHHHHHHHHccchhhhhhhcccccccCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccchhh----hhHHH
Q 046012 32 YFARREAAKVLRLVLRGDARRRAVGSIKSLVYSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSKWK----RQEEL 107 (244)
Q Consensus 32 ~~~R~~A~~iL~~v~~~~~~~~~l~~l~~l~~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~~~----~~~~l 107 (244)
|++|+.|+++|.++..+|.+++. .+......++.+|++|+++|||||+||+..||++|+++ ++++.. .++.+
T Consensus 2 ~~~R~~a~~~L~~~~~~~~~~~~--~l~~~~~~l~~~d~~~~~~lv~gv~r~~~~lD~~i~~~--~~~~~~~l~~~~r~i 77 (427)
T PRK10901 2 MNLRALAAAAILQVVDQGQSLSA--ALPALQQKVSDKDRALLQELCYGVLRRLPRLEWLIAQL--LAKPLKGKQRIVHAL 77 (427)
T ss_pred chHHHHHHHHHHHHHHcCCcHHH--HHHHHHhhCCHHHHHHHHHHHHHHHHhHHHHHHHHHHH--hCCCccccCHHHHHH
Confidence 48899999999999998887743 23222225778899999999999999999999999995 554322 46899
Q ss_pred HHHHHHHHHhcCccccch---hHHHHHHHhh-------------------H----------HHHHHHHHHHHHcCC----
Q 046012 108 VYILTYDILFGQEISLVG---DAEKFLMLHK-------------------G----------AIQSALARLLVRNKV---- 151 (244)
Q Consensus 108 Lrv~~yqll~~~~~p~~a---e~v~~v~r~~-------------------~----------~l~~s~p~w~~~~g~---- 151 (244)
|||++|||+|++ +|+++ |+|++++++. . .+++|+|+|+.++..
T Consensus 78 Lrla~yell~~~-iP~~a~vneaVelak~~~~~~~~~fVNaVLr~i~~~~~~~~~~~~~~~~~~~s~P~wl~~~~~~~~~ 156 (427)
T PRK10901 78 LLVGLYQLLYTR-IPAHAAVDETVEAAKALKRPWAKGLVNAVLRRFQREQEELLAELQADPVARYNHPSWLIKRLKKAYP 156 (427)
T ss_pred HHHHHHHHhccC-CCcchHHHHHHHHHHhcCCccchhhHHHHHHHhhhhhhhhhhhhhhchHhHhcCCHHHHHHHHHHhH
Confidence 999999999997 89997 8888886530 1 123577888764322
Q ss_pred CCHHHHHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCCCCCCCCchhhhcceEEeechhh
Q 046012 152 KSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPPGCDLHDHPLIVNGCVFLQGKAS 230 (244)
Q Consensus 152 ~~~~~~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~~~~l~~~~~f~~G~~~vQD~aS 230 (244)
++++++++ +.+ .+||+|+|||++|++++++.+.|++ |+.++++++.|+++.+..+..+..+++|++|+++|||.+|
T Consensus 157 ~~~~~~~~--~~~-~~~~~~~Rvn~~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~iQd~~s 233 (427)
T PRK10901 157 EQWQAILA--ANN-QRPPMWLRVNRRHHSRDAYLALLAEAGIEAFPHAVGPDAIRLETPVPVHQLPGFAEGWVSVQDAAA 233 (427)
T ss_pred HHHHHHHH--HcC-CCCCeEEEEcCCCCCHHHHHHHHHhCCCceeecCCCCCeEEECCCCCcccCchhhCceEEEECHHH
Confidence 23444555 555 7999999999999999999999988 9999999999999999876678999999999999999999
Q ss_pred HHhHHhhCCCCCCC
Q 046012 231 SMVAAALAPKPGWK 244 (244)
Q Consensus 231 ql~a~~L~p~pG~~ 244 (244)
|+++.+|+|+||++
T Consensus 234 ~~~~~~l~~~~g~~ 247 (427)
T PRK10901 234 QLAATLLAPQNGER 247 (427)
T ss_pred HHHHHHcCCCCCCE
Confidence 99999999999863
No 3
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=100.00 E-value=2.5e-32 Score=252.66 Aligned_cols=204 Identities=19% Similarity=0.211 Sum_probs=169.7
Q ss_pred HHHHHHHHHHHHHHccchhhhhhhcc-cccc-cCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccchh----hhhHH
Q 046012 33 FARREAAKVLRLVLRGDARRRAVGSI-KSLV-YSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSKW----KRQEE 106 (244)
Q Consensus 33 ~~R~~A~~iL~~v~~~~~~~~~l~~l-~~l~-~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~~----~~~~~ 106 (244)
++|+.|+++|.+|.. +.+++. .+ +.+. ..++.+|++++++|||||+|++..||++|+++ ++.+. ..++.
T Consensus 2 ~~R~~A~~~L~~i~~-~~~~~~--~l~~~~~~~~l~~~dr~~~~~lv~gvlr~~~~lD~~i~~~--~~~~~~~l~~~~r~ 76 (434)
T PRK14901 2 NARQLAWEILQAVAR-GAYADV--ALERVLRKYPLSGADRALVTELVYGCIRRRRTLDAWIDQL--GKKPAHKQPPDLRW 76 (434)
T ss_pred CHHHHHHHHHHHHHc-CCchHH--HHHHHHHhcCCChhHHHHHHHHHHHHHHhHHHHHHHHHHh--cCCChhhcCHHHHH
Confidence 579999999999988 566643 23 3444 45788999999999999999999999999995 54332 25699
Q ss_pred HHHHHHHHHHhcCccccch---hHHHHHHHhh-------------------H---------------HHHHHHHHHHH--
Q 046012 107 LVYILTYDILFGQEISLVG---DAEKFLMLHK-------------------G---------------AIQSALARLLV-- 147 (244)
Q Consensus 107 lLrv~~yqll~~~~~p~~a---e~v~~v~r~~-------------------~---------------~l~~s~p~w~~-- 147 (244)
+||+|+|||+|++.+|+++ |+|++++++. . .+++|+|+|+.
T Consensus 77 iLrla~yel~~~~~~p~~aavneaVelak~~~~~~~~~fVNgVLr~~~r~~~~~~~~~~~~~~~~~l~~~~s~P~wl~~~ 156 (434)
T PRK14901 77 LLHLGLYQLRYMDRIPASAAVNTTVELAKQNGLGGLAGVVNGILRQYLRAREAGDPLPLPEDPIERLAILHSFPDWLVKL 156 (434)
T ss_pred HHHHHHHHHHhCccCCcHHHHHHHHHHHHHcCchhhhhhcCHHHHHHHHhhhccccccCCcChHHHHHHHhCCcHHHHHH
Confidence 9999999999998889986 8888876531 0 01356788765
Q ss_pred ---HcCCCCHHHHHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCCC-CCCCCchhhhcce
Q 046012 148 ---RNKVKSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPPG-CDLHDHPLIVNGC 222 (244)
Q Consensus 148 ---~~g~~~~~~~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~~-~~l~~~~~f~~G~ 222 (244)
.||.++++++++ +.+ .+||+++||||+|++++++.+.|++ |+.+++++++|+++++... .++..+++|++|+
T Consensus 157 ~~~~~g~~~~~~~~~--~~~-~~~~~~~Rvn~~k~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~g~ 233 (434)
T PRK14901 157 WLEWLGLEEAEQLCK--WFN-QPPSLDLRINPLRTSLEEVQAALAEAGITATPIPGLPQGLRLTGNPGSIRQLPGYEEGW 233 (434)
T ss_pred HHHHhCHHHHHHHHH--HhC-CCCCeEEEECCCCCCHHHHHHHHHHCCCceEECCCCCCeEEecCCCCccccChHHhCCe
Confidence 568777788887 666 7999999999999999999999988 9999999999999999753 4588999999999
Q ss_pred EEeechhhHHhHHhhCCCCCCC
Q 046012 223 VFLQGKASSMVAAALAPKPGWK 244 (244)
Q Consensus 223 ~~vQD~aSql~a~~L~p~pG~~ 244 (244)
|++||++||+++.+|+|++|++
T Consensus 234 ~~~qd~~s~l~~~~l~~~~g~~ 255 (434)
T PRK14901 234 WTVQDRSAQLVAPLLDPQPGEV 255 (434)
T ss_pred EEEECHHHHHHHHHhCCCCcCE
Confidence 9999999999999999999863
No 4
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=99.97 E-value=5.2e-30 Score=237.92 Aligned_cols=206 Identities=23% Similarity=0.273 Sum_probs=172.1
Q ss_pred hhHHHHHHHHHHHHHHccchhhhhhhcc-cccc-cCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccch---hhhhH
Q 046012 31 AYFARREAAKVLRLVLRGDARRRAVGSI-KSLV-YSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSK---WKRQE 105 (244)
Q Consensus 31 ~~~~R~~A~~iL~~v~~~~~~~~~l~~l-~~l~-~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~---~~~~~ 105 (244)
.|++|+.|+++|.++..++.+++. .+ +.+. ..++++|++++++|||||+|++..||++|+++ +++. ...++
T Consensus 2 ~~~~R~~A~~~L~~~~~~~~~~~~--~l~~~~~~~~l~~~d~~~~~~lv~g~lr~~~~ld~~i~~~--~~~~~~l~~~~r 77 (444)
T PRK14902 2 KMNARELALEVLIKVENNGAYSNI--ALNKVLKKSELSDKDKALLTELVYGTIQRKLTLDYYLAPF--IKKRKKLDPWVR 77 (444)
T ss_pred CccHHHHHHHHHHHHHhcCCCHHH--HHHHHHHhcCCChHHHHHHHHHHHHHHHhHHHHHHHHHHH--hhhhhhCCHHHH
Confidence 468899999999999988877643 23 3343 45888999999999999999999999999995 5431 12569
Q ss_pred HHHHHHHHHHHhcCccccch---hHHHHHHHhh--------------------------------HHHHHHHHHHHH---
Q 046012 106 ELVYILTYDILFGQEISLVG---DAEKFLMLHK--------------------------------GAIQSALARLLV--- 147 (244)
Q Consensus 106 ~lLrv~~yqll~~~~~p~~a---e~v~~v~r~~--------------------------------~~l~~s~p~w~~--- 147 (244)
.+||+|+|||+|++.+|.++ |+|++++++. ..+++++|.|+.
T Consensus 78 ~iLrla~~el~~~~~~p~~~~ineav~lak~~~~~~~~~fVNaVL~~i~~~~~~~~~~~~~~~~~~~~~~~~P~w~~~~~ 157 (444)
T PRK14902 78 NLLRMSLYQLLYLDKVPDHAAVNEAVEIAKKRGHKGIAKFVNGVLRNILREGLPDIDEIKDPVKRLSIKYSHPVWLVKRW 157 (444)
T ss_pred HHHHHHHHHHHhccCCCCceeHHHHHHHHHHhCCCchhHHHHHHHHHHhhccccccccccCHHHHHHHHhCChHHHHHHH
Confidence 99999999999998789986 8888876541 012457788876
Q ss_pred --HcCCCCHHHHHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCCCCCCCCchhhhcceEE
Q 046012 148 --RNKVKSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPPGCDLHDHPLIVNGCVF 224 (244)
Q Consensus 148 --~~g~~~~~~~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~~~~l~~~~~f~~G~~~ 224 (244)
.||.+.++++++ +.+ .++|+|+|||++|++++++.+.|++ |+.++++++.|+++.+++ .++..++.|++|.++
T Consensus 158 ~~~~g~~~~~~~l~--~~~-~~~~~~~Rvn~~k~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~~-~~~~~~~~~~~G~~~ 233 (444)
T PRK14902 158 IDQYGEEKAEKILE--SLN-EPPKASIRVNTLKISVEELIEKLEEEGYEVEESLLSPEALVIEK-GNIAGTDLFKDGLIT 233 (444)
T ss_pred HHHhCHHHHHHHHH--HcC-CCCCeEEEEcCCCCCHHHHHHHHHHcCceeEEcCCCCCeEEEeC-CCcccChHHhCceEE
Confidence 467777788888 666 7999999999999999999999988 999999999999999986 579999999999999
Q ss_pred eechhhHHhHHhhCCCCCCC
Q 046012 225 LQGKASSMVAAALAPKPGWK 244 (244)
Q Consensus 225 vQD~aSql~a~~L~p~pG~~ 244 (244)
+||++||+++.+++++||++
T Consensus 234 ~qd~~s~lv~~~l~~~~g~~ 253 (444)
T PRK14902 234 IQDESSMLVAPALDPKGGDT 253 (444)
T ss_pred EEChHHHHHHHHhCCCCCCE
Confidence 99999999999999998863
No 5
>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles.
Probab=99.97 E-value=6.8e-30 Score=236.00 Aligned_cols=202 Identities=19% Similarity=0.182 Sum_probs=159.4
Q ss_pred HHHHHHHHHHHHccchhhhhhhcccccccCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccchhh---hhHHHHHHH
Q 046012 35 RREAAKVLRLVLRGDARRRAVGSIKSLVYSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSKWK---RQEELVYIL 111 (244)
Q Consensus 35 R~~A~~iL~~v~~~~~~~~~l~~l~~l~~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~~~---~~~~lLrv~ 111 (244)
|+.|+++|.++..++.+++.+. .. ...++.+|++|+++|||||+|++..||++|+++ ++.++. ....+|+++
T Consensus 1 R~~A~~~L~~~~~~~~~~~~~~--~~-~~~l~~~d~~~~~~lv~gv~r~~~~lD~~i~~~--~~~~~~~l~~~~~~L~~~ 75 (426)
T TIGR00563 1 RSIAAQALEQLEQGQSLSNLLP--PL-QQKVSDQDRALLQELCFGVLRTLSQLDWLIKKL--MDRPMKGKPRTVHYLILV 75 (426)
T ss_pred CHHHHHHHHHHHcCCchHHHHH--hh-hcCCCHHHHHHHHHHHHHHHHhHHHHHHHHHHH--hCCCccccCHHHHHHHHH
Confidence 6789999999998887775522 22 334778899999999999999999999999995 554322 223377777
Q ss_pred HHHHHhcCccccch---hHHHHHHHhh-------------------H---------HHHHHHHHHHHHcC-C---CCHHH
Q 046012 112 TYDILFGQEISLVG---DAEKFLMLHK-------------------G---------AIQSALARLLVRNK-V---KSIED 156 (244)
Q Consensus 112 ~yqll~~~~~p~~a---e~v~~v~r~~-------------------~---------~l~~s~p~w~~~~g-~---~~~~~ 156 (244)
+|+++|...+|+++ |+|++++++. . .+++|+|.|+.+.. . +..++
T Consensus 76 ~~e~l~~~~~p~~aainEaVelaK~~~~~~~~~fVNgVLr~i~r~~~~~~~~~~~l~~~~s~P~wl~~~~~~~~~~~~~~ 155 (426)
T TIGR00563 76 GLYQLLYTRIPAHAAVAETVEGAKAIKRKGLKGLVNGVLRRFQREQEELLAEFNALDARYLHPEWLVKRLQKAYPGQWQS 155 (426)
T ss_pred HHHHHhcCCCCCEehHHHHHHHHHhcCCccchhhHHHHHHHHhhcchhhcchhHhHHHHcCCCHHHHHHHHHHhHHHHHH
Confidence 77776655589987 8888887641 0 01357788877531 1 12344
Q ss_pred HHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCCCCCCCCchhhhcceEEeechhhHHhHH
Q 046012 157 LMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPPGCDLHDHPLIVNGCVFLQGKASSMVAA 235 (244)
Q Consensus 157 ~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~~~~l~~~~~f~~G~~~vQD~aSql~a~ 235 (244)
+++ +.+ .+||+|+|||++|++++++.+.|++ |+.++++++.|+++++..+..+..++.|++|+|+|||+|||+++.
T Consensus 156 ~l~--~~~-~~~~~~~Rvn~~k~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~Qd~~s~~~~~ 232 (426)
T TIGR00563 156 ICE--ANN-QRPPMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDAVRLETPAAVHALPGFEEGWVTVQDASAQWVAT 232 (426)
T ss_pred HHH--HhC-CCCCeEEEEcCCcCCHHHHHHHHHhcCCceeeCCCCCCeEEECCCCCcccCchhhCCeEEEECHHHHHHHH
Confidence 555 444 7999999999999999999999988 999999999999999976667999999999999999999999999
Q ss_pred hhCCCCCCC
Q 046012 236 ALAPKPGWK 244 (244)
Q Consensus 236 ~L~p~pG~~ 244 (244)
+|+|+||+.
T Consensus 233 ~L~~~~g~~ 241 (426)
T TIGR00563 233 WLAPQNEET 241 (426)
T ss_pred HhCCCCCCe
Confidence 999999863
No 6
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=99.96 E-value=4.7e-28 Score=224.88 Aligned_cols=202 Identities=17% Similarity=0.223 Sum_probs=160.8
Q ss_pred hHHHHHHHHHHHHHHccchhhhhhhcc-cccc-cCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccchh----hhhH
Q 046012 32 YFARREAAKVLRLVLRGDARRRAVGSI-KSLV-YSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSKW----KRQE 105 (244)
Q Consensus 32 ~~~R~~A~~iL~~v~~~~~~~~~l~~l-~~l~-~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~~----~~~~ 105 (244)
|++|+.|+++|.++..++.+++. .+ +.+. ..++.+|++|+++|||||+|++..||++|+++ ++.++ ..++
T Consensus 2 ~~~R~~A~~~L~~~~~~~~~~~~--~l~~~~~~~~l~~~dr~~~~~lv~gvlr~~~~lD~~i~~~--~~~~~~rl~~~~r 77 (445)
T PRK14904 2 MTARELALQVLQELETGERKSDT--LLHRMLERSSLERNDRALATELVNGVLRYRLQLDFIISRF--YHHDLEKAAPVLK 77 (445)
T ss_pred chHHHHHHHHHHHHHhcCCCHHH--HHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH--cCCChhhCCHHHH
Confidence 47899999999999988877743 22 3333 45788999999999999999999999999995 54332 2569
Q ss_pred HHHHHHHHHHHhcCccccch---hHHHHHHHhh-----------------H-----------------HHHHHHHHHHH-
Q 046012 106 ELVYILTYDILFGQEISLVG---DAEKFLMLHK-----------------G-----------------AIQSALARLLV- 147 (244)
Q Consensus 106 ~lLrv~~yqll~~~~~p~~a---e~v~~v~r~~-----------------~-----------------~l~~s~p~w~~- 147 (244)
++||+++|||+|++.+|+++ |+|++++++. . .+++++|.|+.
T Consensus 78 ~iLrla~~ell~~~~~p~~a~vneaVelak~~~~~~~~~fVNgVLr~i~~~~~~~~~~~~~~~~~~~l~~~~s~P~wl~~ 157 (445)
T PRK14904 78 NILRLGVYQLLFLDRVPRWAAVNECVKLARKYKGEHMAKLVNGVLRNISPETISLDEWLKGMPEAERLSLLYSHPEWLLE 157 (445)
T ss_pred HHHHHHHHHHHhCCCCCCeeeHHHHHHHHHHhCCCccccchHHHHHHHHHhhccccccccccchHHHHHHHhCCCHHHHH
Confidence 99999999999998889987 8887776530 0 11356788766
Q ss_pred ----HcCCCCHHHHHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCCCCCCCCc-hhhhcc
Q 046012 148 ----RNKVKSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPPGCDLHDH-PLIVNG 221 (244)
Q Consensus 148 ----~~g~~~~~~~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~~~~l~~~-~~f~~G 221 (244)
.||.+.++++++ ..+ .+||+++|||++|++++++.+.|.. |+++.++.+ + ++.+... +..+ +.|++|
T Consensus 158 ~~~~~~g~~~~~~~~~--~~~-~~~~~~~Rvn~~~~~~~~~~~~l~~~~~~~~~~~~-~-~~~~~~~--~~~~~~~~~~G 230 (445)
T PRK14904 158 RWIARYGEERTEAMLS--YNN-QAPLFGFRINRLKTTPEKFLAAPADASVTFEKSGL-P-NFFLSKD--FSLFEPFLKLG 230 (445)
T ss_pred HHHHHhChHHHHHHHH--HhC-CCCCceeEeCCCCCCHHHHHHHHHhCCCceEEcCc-c-eEEEecc--ccccChHHhCc
Confidence 567777777877 655 7999999999999999999999988 998877664 3 4555432 3344 899999
Q ss_pred eEEeechhhHHhHHhhCCCCCCC
Q 046012 222 CVFLQGKASSMVAAALAPKPGWK 244 (244)
Q Consensus 222 ~~~vQD~aSql~a~~L~p~pG~~ 244 (244)
.+++||++|++++.+|+++||++
T Consensus 231 ~~~vqd~~s~l~~~~l~~~~g~~ 253 (445)
T PRK14904 231 LVSVQNPTQALACLLLNPQPGST 253 (445)
T ss_pred EEEEeCHHHHHHHHhcCCCCCCE
Confidence 99999999999999999999863
No 7
>KOG2360 consensus Proliferation-associated nucleolar protein (NOL1) [Cell cycle control, cell division, chromosome partitioning]
Probab=99.72 E-value=2.2e-17 Score=146.44 Aligned_cols=198 Identities=34% Similarity=0.462 Sum_probs=138.6
Q ss_pred HHHHHHHHHHccchhhhhhhcccccccCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccchhhhhHHHHHHHHHHHH
Q 046012 37 EAAKVLRLVLRGDARRRAVGSIKSLVYSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSKWKRQEELVYILTYDIL 116 (244)
Q Consensus 37 ~A~~iL~~v~~~~~~~~~l~~l~~l~~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~~~~~~~lLrv~~yqll 116 (244)
.|..+|..|.... ++++.+.+..+.++...++++|..+++++.+||.+++...+...........+.+..|+++
T Consensus 3 ~~~~~l~~~~~~~------~s~k~l~~~s~~q~~k~~l~~v~~~~k~r~~l~~i~~d~~~~~~~~~~~~~~~~~l~~~ll 76 (413)
T KOG2360|consen 3 EAAEILRDVEKKE------GSIKMLVYESSKQNPKRTLALVCETLKYRPVLDEILEDSELKDAKMLARLVHMVVLVHDLL 76 (413)
T ss_pred cchhhhhhHHhhh------hhHHHHHHhhhccchHHHHHHHHHHHhhhHHHHHHHhcchhhhhhhhcccccceeehhhhh
Confidence 4678888887763 2445565556678889999999999999999999988852221111111223346788888
Q ss_pred hcCccccch-----hHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-
Q 046012 117 FGQEISLVG-----DAEKFLMLHKGAIQSALARLLVRNKVKSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK- 190 (244)
Q Consensus 117 ~~~~~p~~a-----e~v~~v~r~~~~l~~s~p~w~~~~g~~~~~~~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~- 190 (244)
+....+... +.+....+....++-..-+.....+.+..+++.. ..+ .+.|+|+|+||+|.+.++.+..|..
T Consensus 77 ~~~~~~~~~~~~~~el~~~~~~~~~e~~~~~v~~~~k~~~~~~~~l~~--t~~-~~~pr~vRINtlk~~~~e~~~~L~~e 153 (413)
T KOG2360|consen 77 LSKIKRSGLMIDKRELKVIRLRLILRLKIETVMLKKKRKVKSLRELKL--TMK-IPLPRYVRINTLKGTTDEALDYLDYE 153 (413)
T ss_pred hcccccccceeccchhhhhhHHHHhhhHHHHHHHHhhhhHHHHHHhhc--cCC-CCCceeEEeecccCchhhhhhhhhhh
Confidence 876544222 5555555543333221122222334444444443 344 6899999999999999998888765
Q ss_pred cC---------ceeecCCCCCeEEeCCCCCCCCchhhhcceEEeechhhHHhHHhhCCCCCC
Q 046012 191 QF---------VVQKDDLVPDLLILPPGCDLHDHPLIVNGCVFLQGKASSMVAAALAPKPGW 243 (244)
Q Consensus 191 g~---------~~~~~~~~p~~l~l~~~~~l~~~~~f~~G~~~vQD~aSql~a~~L~p~pG~ 243 (244)
++ .+..+++++..+.++.+..+..+++|+.|.+++||.+||++|++|+|.||.
T Consensus 154 ~~~~~~~l~p~~~~~D~~~~~ll~~~~~n~i~~~~ly~~g~~ilqd~asclpA~ll~p~~g~ 215 (413)
T KOG2360|consen 154 KWKMITELKPDEFYVDPHVENLIIFPPSNFIVEHELYKNGKFILQDKASCLPAHLLDPRPGS 215 (413)
T ss_pred hhhhhhhcCCcceeccccchhhcccCCCcceeeccccccCceEEechhhcchhhhcCCCCCC
Confidence 32 355788899999998777899999999999999999999999999999984
No 8
>COG0144 Sun tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=3e-16 Score=141.86 Aligned_cols=103 Identities=28% Similarity=0.391 Sum_probs=86.9
Q ss_pred HHHHHHHHH-----HcCCCCHHHHHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCCCCCC
Q 046012 139 QSALARLLV-----RNKVKSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPPGCDL 212 (244)
Q Consensus 139 ~~s~p~w~~-----~~g~~~~~~~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~~~~l 212 (244)
.+++|+|+. .||.++.+.+++ +.+ .++|+++|||++|++++++.+.|+. |+...+....+.++++....++
T Consensus 51 ~~~~p~w~~~~~~~~~~~~~~~~~~~--a~~-~~~~~~~Rvn~lk~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~~~ 127 (355)
T COG0144 51 RYSHPEWLVEKLPDALGEDEAEAIAA--ALL-RPPPRSLRVNTLKADVEELLEALEEAGVLDEKPWVLDEVLRIEASGPI 127 (355)
T ss_pred cccCcHHHHHHHHHHcChHHHHHHHH--HcC-CCCCeeEEEcCccCCHHHHHHHHhhcccccccCCccccEEEecCCCCc
Confidence 355666665 467666777777 655 6889999999999999999999998 7766666556678888888889
Q ss_pred CCchhhhcceEEeechhhHHhHHhhCCCCCCC
Q 046012 213 HDHPLIVNGCVFLQGKASSMVAAALAPKPGWK 244 (244)
Q Consensus 213 ~~~~~f~~G~~~vQD~aSql~a~~L~p~pG~~ 244 (244)
..+++|++|+|+|||+|||++|++|+|+||+.
T Consensus 128 ~~~~~~~~G~~~vQd~sS~l~a~~L~p~pge~ 159 (355)
T COG0144 128 GRLPEFAEGLIYVQDEASQLPALVLDPKPGER 159 (355)
T ss_pred ccChhhhceEEEEcCHHHHHHHHHcCCCCcCE
Confidence 99999999999999999999999999999973
No 9
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Probab=99.63 E-value=1.3e-15 Score=141.79 Aligned_cols=99 Identities=19% Similarity=0.238 Sum_probs=86.6
Q ss_pred HHHHHHcCC-CCHHHHHHhhcCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCCC----CCCCCch
Q 046012 143 ARLLVRNKV-KSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPPG----CDLHDHP 216 (244)
Q Consensus 143 p~w~~~~g~-~~~~~~~~~~~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~~----~~l~~~~ 216 (244)
.+|...||. ++++++++ +.+ .++|++||||++|++.+++.+.|++ |+.+++.+++|+++.+... ..+..++
T Consensus 10 ~~~~~~lg~~ee~~~~l~--a~~-~~~~~~lRvN~lK~~~~~~~~~L~~~g~~~~~~p~~~~g~~~~~~~~~~~~~~~~~ 86 (470)
T PRK11933 10 TQMREAMPSHLSMDDFIA--ACQ-RPLRRSIRVNTLKISVADFLQLMAPYGWTLTPIPWCEEGFWIERDDEDALPLGNTA 86 (470)
T ss_pred HHHHHHhCCcHHHHHHHH--HcC-CCCCeEEEEcCCcCCHHHHHHHHHhCCCceeECCCCCceEEEecCccccCCcccCh
Confidence 345556787 57888888 766 7999999999999999999999988 9999999999999998642 2588999
Q ss_pred hhhcceEEeechhhHHhHHhh--CCCCCCC
Q 046012 217 LIVNGCVFLQGKASSMVAAAL--APKPGWK 244 (244)
Q Consensus 217 ~f~~G~~~vQD~aSql~a~~L--~p~pG~~ 244 (244)
.|..|.|+|||+|||+++.+| +|+||++
T Consensus 87 ~~~~G~~yvQd~sS~l~~~~L~~~~~pg~~ 116 (470)
T PRK11933 87 EHLSGLFYIQEASSMLPVAALFADDNAPQR 116 (470)
T ss_pred HHHCCcEEEECHHHHHHHHHhccCCCCCCE
Confidence 999999999999999999999 9999973
No 10
>cd00620 Methyltransferase_Sun N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological role of this domain in Sun is unknown, although it is likely to be involved in sequence-specific RNA binding. The C-terminal methyltransferase domain of Sun has been shown to catalyze formation of m5C at position 967 of 16S rRNA in Escherichia coli.
Probab=99.59 E-value=8.5e-15 Score=113.67 Aligned_cols=108 Identities=22% Similarity=0.280 Sum_probs=83.9
Q ss_pred hHHHHHHHHHHHHHHccchhhhhhhccc-ccccCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccchh----hhhHH
Q 046012 32 YFARREAAKVLRLVLRGDARRRAVGSIK-SLVYSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSKW----KRQEE 106 (244)
Q Consensus 32 ~~~R~~A~~iL~~v~~~~~~~~~l~~l~-~l~~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~~----~~~~~ 106 (244)
|++|+.|+++|.++..+|.+.+. .+. .+....+++|++++++|||||+||+..||++|+++ +++++ ..++.
T Consensus 1 ~~~R~~A~~~L~~v~~~~~~~~~--~l~~~~~~~~~~~d~~~~~~lv~g~~r~~~~ld~~i~~~--l~~~~~~~~~~~~~ 76 (126)
T cd00620 1 MNARSTAAEVLRDVLQRGASLNA--VLSALQKKDKSDRDRGLATELVYGTLRWLALLDWIINPL--LKKPDVGKDPDVRN 76 (126)
T ss_pred CCHHHHHHHHHHHHHHcCCcHHH--HHHHHHHhcCCHHHHHHHHHHHHHHHHhHHHHHHHHHHH--hCCCccccCHHHHH
Confidence 56799999999999888876533 222 23211256899999999999999999999999995 66542 25799
Q ss_pred HHHHHHHHHHhcCccccch---hHHHHHHHhh----HHHHHHHHH
Q 046012 107 LVYILTYDILFGQEISLVG---DAEKFLMLHK----GAIQSALAR 144 (244)
Q Consensus 107 lLrv~~yqll~~~~~p~~a---e~v~~v~r~~----~~l~~s~p~ 144 (244)
+|++|+|||+|++ +|+++ |+|++++++. .++.+++.+
T Consensus 77 iLr~a~~el~~~~-~p~~avvneaVelak~~~~~~~~~fVNaVLr 120 (126)
T cd00620 77 LLRLGLYQLLYLD-VPPHAAVDETVEIAKIRKDLGRAGLVNAVLR 120 (126)
T ss_pred HHHHHHHHHHhcC-CCchHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence 9999999999998 89997 9999998762 334555544
No 11
>PF01189 Nol1_Nop2_Fmu: NOL1/NOP2/sun family; InterPro: IPR001678 This domain is found in archaeal, bacterial and eukaryotic proteins. In the archaea and bacteria, they are annotated as putative nucleolar protein, Sun (Fmu) family protein or tRNA/rRNA cytosine-C5-methylase. The majority have the S-adenosyl methionine (SAM) binding domain and are related to Escherichia coli Fmu (Sun) protein (16S rRNA m5C 967 methyltransferase) whose structure has been determined []. In the eukaryota, the majority are annotated as being 'hypothetical protein', nucleolar protein or the Nop2/Sun (Fmu) family. Unlike their bacterial homologues, few of the eukaryotic members in this family have a the SAM binding signature. Despite this, Saccharomyces cerevisiae (Baker's yeast) Nop2p is a probable RNA m5C methyltransferase []. It is essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis []; localized to the nucleolus and is essential for viability []. Reduced Nop2p expression limits yeast growth and decreases levels of mature 60S ribosomal subunits while altering rRNA processing []. There is substantial identity between Nop2p and Homo sapiens (Human) p120 (NOL1), which is also called the proliferation-associated nucleolar antigen [, ].; PDB: 3M4X_A 2FRX_B 2YXL_A 1IXK_A 1SQG_A 1SQF_A 3M6U_B 3M6V_B 3M6W_A 3M6X_A ....
Probab=99.58 E-value=1.4e-15 Score=133.52 Aligned_cols=82 Identities=30% Similarity=0.455 Sum_probs=71.5
Q ss_pred cCCCCCCCceEEEcCCCCCHHHHHHHHcc-cCceeecCCCCCe--EEeCCCCCCCCchhhhcceEEeechhhHHhHHhhC
Q 046012 162 QTPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDL--LILPPGCDLHDHPLIVNGCVFLQGKASSMVAAALA 238 (244)
Q Consensus 162 ~~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~--l~l~~~~~l~~~~~f~~G~~~vQD~aSql~a~~L~ 238 (244)
+.| .+||.++|||++|++++++.+.|++ |+.+++.++.+++ +......++..++.|++|+|+|||+|||+++++|+
T Consensus 4 ~~n-~~~~~~iRvN~~k~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~G~~~vQd~sS~l~~~~L~ 82 (283)
T PF01189_consen 4 ANN-CPPPVTIRVNTLKISREELLEELEEEGIQLEPIPRSPDALRVIGKSPYSICSLPEFKNGLFYVQDESSQLVALALD 82 (283)
T ss_dssp HCT-S--GEEEEE-TTTSSHHHHHHHHHHTTHEEEEETSTTCEEEEEEECSSCGGGSHHHHTTSEEEHHHHHHHHHHHHT
T ss_pred ccC-CCCCeEEEECcCcCCHHHHHHHHhhcccceEEcccccchhccccccccchhhchhhhCCcEEeccccccccccccc
Confidence 444 7999999999999999999999999 9999999999998 45555678999999999999999999999999999
Q ss_pred CCCCCC
Q 046012 239 PKPGWK 244 (244)
Q Consensus 239 p~pG~~ 244 (244)
|+||+.
T Consensus 83 ~~~~~~ 88 (283)
T PF01189_consen 83 PQPGER 88 (283)
T ss_dssp TTTTSE
T ss_pred cccccc
Confidence 999973
No 12
>TIGR01951 nusB transcription antitermination factor NusB. A transcription antitermination complex active in many bacteria was designated N-utilization substance (Nus) in E. coli because of its interaction with phage lambda protein N. This model represents NusB. Other components are NusA and NusG. NusE is, in fact, ribosomal protein S10.
Probab=99.54 E-value=7.8e-14 Score=108.57 Aligned_cols=108 Identities=13% Similarity=0.147 Sum_probs=84.2
Q ss_pred HHHHHHHHHHHHHHccchhhhhhhcccc-cc-cCCCccCHHHHHHHHHHHHhcHHHHHHHHhhccccc-chhh----hhH
Q 046012 33 FARREAAKVLRLVLRGDARRRAVGSIKS-LV-YSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILN-SKWK----RQE 105 (244)
Q Consensus 33 ~~R~~A~~iL~~v~~~~~~~~~l~~l~~-l~-~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~-~~~~----~~~ 105 (244)
.+|..|+++|.++..++.+.+. .+.. +. ..++++|+++++++||||+|++..||++|+++ ++ .++. .++
T Consensus 3 ~~R~~a~~~l~~~~~~~~~~~~--~l~~~~~~~~l~~~d~~~~~~lv~~~lr~~~~ld~~i~~~--~~~~~~~~l~~~~~ 78 (129)
T TIGR01951 3 KARELALQALYQWELSGNDVEE--IIEEFLEERELDEEDREYFLELVRGVLENQEEIDELISPH--LKDWSLERLDPVDR 78 (129)
T ss_pred HHHHHHHHHHHHHHcCCCCHHH--HHHHHHHhcccchhHHHHHHHHHHHHHHhHHHHHHHHHHH--hcCCCHHHhhHHHH
Confidence 4799999999999887776643 2222 23 35788999999999999999999999999995 63 3322 468
Q ss_pred HHHHHHHHHHHhcCccccch---hHHHHHHHhh----HHHHHHHHH
Q 046012 106 ELVYILTYDILFGQEISLVG---DAEKFLMLHK----GAIQSALAR 144 (244)
Q Consensus 106 ~lLrv~~yqll~~~~~p~~a---e~v~~v~r~~----~~l~~s~p~ 144 (244)
.+|++|+||++|++.+|+++ |+|++++++. .++.+++.+
T Consensus 79 ~iLr~a~~el~~~~~~p~~avineaV~lak~~~~~~~~~fVNaVLr 124 (129)
T TIGR01951 79 AILRLAAYELLYRPDVPYKVVINEAVELAKKFGDEDSHKFVNGVLD 124 (129)
T ss_pred HHHHHHHHHHHhCCCCCCcchHHHHHHHHHHHCCCCchhhHHHHHH
Confidence 99999999999996689997 9999998752 344555544
No 13
>PRK00202 nusB transcription antitermination protein NusB; Reviewed
Probab=99.53 E-value=1.2e-13 Score=108.65 Aligned_cols=111 Identities=11% Similarity=0.104 Sum_probs=85.9
Q ss_pred hHHHHHHHHHHHHHHccchhhhh-hhcccccc-cCCCccCHHHHHHHHHHHHhcHHHHHHHHhhccccc-chh----hhh
Q 046012 32 YFARREAAKVLRLVLRGDARRRA-VGSIKSLV-YSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILN-SKW----KRQ 104 (244)
Q Consensus 32 ~~~R~~A~~iL~~v~~~~~~~~~-l~~l~~l~-~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~-~~~----~~~ 104 (244)
.++|+.|+++|.++..+|.+.+. +. +.+. ..++.+|++|+++|||||+|++..||++|+++ ++ .++ ..+
T Consensus 4 ~~~R~~a~~~L~~~~~~~~~~~~~l~--~~~~~~~~~~~d~~~~~~lv~gvlr~~~~lD~ii~~~--l~~~~~~~l~~~~ 79 (137)
T PRK00202 4 RKAREAAVQALYQWELSGNDIAEIIE--AQLLEEQYDKADPAYFRSLVRGVVENQAELDELISPY--LKDWTLERLDPVE 79 (137)
T ss_pred HHHHHHHHHHHHHHHccCCCHHHHHH--HHHHhcccchhhHHHHHHHHHHHHHhHHHHHHHHHHH--hcCCCHHHhhHHH
Confidence 46799999999999988876633 22 3233 34778899999999999999999999999995 63 222 246
Q ss_pred HHHHHHHHHHHHhcCccccch---hHHHHHHHhh----HHHHHHHHHHH
Q 046012 105 EELVYILTYDILFGQEISLVG---DAEKFLMLHK----GAIQSALARLL 146 (244)
Q Consensus 105 ~~lLrv~~yqll~~~~~p~~a---e~v~~v~r~~----~~l~~s~p~w~ 146 (244)
+.+||+|+||++|++.+|+++ |+|++++++. .++.+++.+-+
T Consensus 80 ~~iLr~a~~Ell~~~~~p~~~vinEaV~lak~~~~~~~~~fVNaVLr~i 128 (137)
T PRK00202 80 RAILRLALYELLFRDDVPYKVVINEAIELAKKFGDEDSHKFVNGVLDKI 128 (137)
T ss_pred HHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence 899999999999996689997 9999998752 34556655433
No 14
>cd00619 Terminator_NusB Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation.
Probab=99.52 E-value=1.9e-13 Score=106.52 Aligned_cols=108 Identities=14% Similarity=0.102 Sum_probs=83.8
Q ss_pred HHHHHHHHHHHHHHccchhhhhhhccc-ccc-cCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccch-h----hhhH
Q 046012 33 FARREAAKVLRLVLRGDARRRAVGSIK-SLV-YSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSK-W----KRQE 105 (244)
Q Consensus 33 ~~R~~A~~iL~~v~~~~~~~~~l~~l~-~l~-~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~-~----~~~~ 105 (244)
.+|+.|+++|.++..+|.+.+. .+. .+. ..+++.|++++++|||||+|++..||++|+++ ++++ . ..++
T Consensus 3 ~~R~~a~~~L~~~~~~~~~~~~--~l~~~~~~~~~~~~d~~~~~~lv~gvlr~~~~ld~ii~~~--l~~~~~~~l~~~~~ 78 (130)
T cd00619 3 RARELAVQALYAWELAPEILAE--VVSLLELLQYKSKKVLPFALKLVRGVLENIEEIDELIEKH--LRNWSLDRLAIVER 78 (130)
T ss_pred HHHHHHHHHHHHHHhcCCCHHH--HHHHHHHhcccchhHHHHHHHHHHHHHHhHHHHHHHHHHH--ccCCCHHHhhHHHH
Confidence 4699999999999998876533 222 222 23568899999999999999999999999995 6543 1 2468
Q ss_pred HHHHHHHHHHHhcCccccch---hHHHHHHHhh----HHHHHHHHH
Q 046012 106 ELVYILTYDILFGQEISLVG---DAEKFLMLHK----GAIQSALAR 144 (244)
Q Consensus 106 ~lLrv~~yqll~~~~~p~~a---e~v~~v~r~~----~~l~~s~p~ 144 (244)
.+|++|+||++|++.+|+++ |+|++++++. .++.+++.+
T Consensus 79 ~iLria~~el~~~~~~p~~~vinEaV~lak~~~~~~~~~fVNaVLr 124 (130)
T cd00619 79 AILRLAVYELLFLPDVPHPVVINEAIELAKRFGGDDSHKFVNGVLD 124 (130)
T ss_pred HHHHHHHHHHHhCCCCCCcchHHHHHHHHHHHCCCcchhHHHHHHH
Confidence 99999999999998789997 9999998762 334555543
No 15
>PF01029 NusB: NusB family; InterPro: IPR006027 This domain is found in a number of functionally different proteins: NusB a prokaryotic transcription factor involved in antitermination TIM44, the mitochondrial inner membrane translocase subunit RsmB, the 16S rRNA m5C967 methyltransferase NusB is a prokaryotic transcription factor involved in antitermination processes, during which it interacts with the boxA portion of the mRNA nut site. Previous studies have shown that NusB exhibits an all-helical fold, and that the protein from Escherichia coli forms monomers, while Mycobacterium tuberculosis NusB is a dimer. The functional significance of NusB dimerization is unknown. An N-terminal arginine-rich sequence is the probable RNA binding site, exhibiting aromatic residues as potential stacking partners for the RNA bases. The RNA binding region is hidden in the subunit interface of dimeric NusB proteins, such as NusB from M. tuberculosis, suggesting that such dimers have to undergo a considerable conformational change or dissociate for engagement with RNA. In certain organisms, dimerization may be employed to package NusB in an inactive form until recruitment into antitermination complexes [, ]. The antitermination proteins of E. coli are recruited in the replication cycle of Bacteriophage lambda, where they play an important role in switching from the lysogenic to the lytic cycle.; GO: 0003723 RNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1SQG_A 1SQF_A 3IMQ_A 3D3C_C 3D3B_A 1EY1_A 1EYV_A 1TZV_A 1TZT_B 1TZX_B ....
Probab=99.49 E-value=3.6e-13 Score=105.43 Aligned_cols=109 Identities=17% Similarity=0.166 Sum_probs=84.2
Q ss_pred hHHHHHHHHHHHHH-------Hccchhhhhhhccc-ccc-cCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccc-cchh
Q 046012 32 YFARREAAKVLRLV-------LRGDARRRAVGSIK-SLV-YSPSVKNKKATFALVCQTLKHLSIIKQVLDSASIL-NSKW 101 (244)
Q Consensus 32 ~~~R~~A~~iL~~v-------~~~~~~~~~l~~l~-~l~-~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~-~~~~ 101 (244)
+++|+.|+++|..+ ...+.+.+. .+. ... ..++..|++|+++|||||++++..||++|+++ + +.+.
T Consensus 1 ~~aR~~A~q~L~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~d~~~~~~lv~gv~~~~~~ld~~i~~~--~~~~~~ 76 (134)
T PF01029_consen 1 RKARELALQALYQVEFNDEEDEEEGQFLDE--ALEEELEESELSEEDRAFARELVYGVLRNKEELDALISKL--LKNWPL 76 (134)
T ss_dssp HHHHHHHHHHHHHHHHHTSSHHHHHHHHHH--HHHHHHHHTTSTHHHHHHHHHHHHHHHHTHHHHHHHHHHT--STSSTG
T ss_pred ChHHHHHHHHHHHHHccCCchhhhhhhHHH--HHhhcccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hccCCc
Confidence 47899999999999 555555532 122 122 45788999999999999999999999999994 5 3332
Q ss_pred h----hhHHHHHHHHHHHHhcCccccch---hHHHHHHHhh----HHHHHHHHH
Q 046012 102 K----RQEELVYILTYDILFGQEISLVG---DAEKFLMLHK----GAIQSALAR 144 (244)
Q Consensus 102 ~----~~~~lLrv~~yqll~~~~~p~~a---e~v~~v~r~~----~~l~~s~p~ 144 (244)
. ..+.+||+|+|||+|++++|.++ |+|++++++. .++.+++.+
T Consensus 77 ~rl~~~~~~iLrla~~El~~~~~~p~~v~InEaVelak~~~~~~~~~fVNaVL~ 130 (134)
T PF01029_consen 77 ERLPPVDRAILRLAIYELLFLDDIPPHVAINEAVELAKKYGDEKSAGFVNAVLR 130 (134)
T ss_dssp GGSGHHHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHS-TTHHHHHHHHHH
T ss_pred cccCHHHHHHHHHHHHHHHhcCCCCccchHHHHHHHHHHhCCCCcchhHHHHHH
Confidence 2 56999999999999997799987 9999999872 344555543
No 16
>cd00447 NusB_Sun RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-specific 5-methylcytidine transferase (m5C-methyltransferase) Sun. The NusB protein plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation. The m5C-methyltransferase Sun shares the
Probab=99.29 E-value=3.1e-11 Score=93.77 Aligned_cols=107 Identities=17% Similarity=0.193 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHHHcc-chhhhhhhccccc-ccCCCccCHHHHHHHHHHHHhcHHHHHHHHhhcccccchh-----hhhHH
Q 046012 34 ARREAAKVLRLVLRG-DARRRAVGSIKSL-VYSPSVKNKKATFALVCQTLKHLSIIKQVLDSASILNSKW-----KRQEE 106 (244)
Q Consensus 34 ~R~~A~~iL~~v~~~-~~~~~~l~~l~~l-~~~l~~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~~~-----~~~~~ 106 (244)
+|+.|+++|.++..+ |.+.+. .+... ...++++|++++++|||||+|++..||++|+++ ++++. ...++
T Consensus 2 ~R~~a~~~L~~~~~~~~~~~~~--~~~~~~~~~~~~~d~~~~~~lv~gv~r~~~~ld~~i~~~--~~~~~~~r~~~~~~~ 77 (129)
T cd00447 2 AREIAFQALYQVEIRNGISLEA--VLSALEKLQLAKKDRPFALELVYGVLRNLPELDDIISPL--LKKWLLDRLDKVDRA 77 (129)
T ss_pred HHHHHHHHHHHHHhcCCCCHHH--HHHHHHHcccchhHHHHHHHHHHHHHHhHHHHHHHHHHH--ccCCChhhhhHHHHH
Confidence 699999999999887 555433 12222 234566899999999999999999999999995 65542 23466
Q ss_pred HHHHHHHHHHhcC-ccccch---hHHHHHHHhh----HHHHHHHHH
Q 046012 107 LVYILTYDILFGQ-EISLVG---DAEKFLMLHK----GAIQSALAR 144 (244)
Q Consensus 107 lLrv~~yqll~~~-~~p~~a---e~v~~v~r~~----~~l~~s~p~ 144 (244)
+++++.+++.++. ++|+++ |+|++++++. .++.+++.+
T Consensus 78 il~l~~~el~~~~~~~p~~~vineaVelak~~~~~~~~~fVNaVLr 123 (129)
T cd00447 78 ILRLLLYELYQLLYDVPPPVAINEAVELAKRFGDDDSAKFVNGVLR 123 (129)
T ss_pred HHHHHHHHHHhCcCCCCchhHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence 7777666666654 479987 9999998762 234455543
No 17
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=99.25 E-value=1.5e-11 Score=107.12 Aligned_cols=72 Identities=22% Similarity=0.292 Sum_probs=63.3
Q ss_pred EEEcCCCCCHHHHHHHHcc-cCceeecCCCCCeEEeCC-CCCCCCchhhhcceEEeechhhHHhHHhhCCCCCCC
Q 046012 172 VRVNTLKMDVDSAVLELGK-QFVVQKDDLVPDLLILPP-GCDLHDHPLIVNGCVFLQGKASSMVAAALAPKPGWK 244 (244)
Q Consensus 172 lRVNtlk~s~e~~~~~L~~-g~~~~~~~~~p~~l~l~~-~~~l~~~~~f~~G~~~vQD~aSql~a~~L~p~pG~~ 244 (244)
+|||++|++++++++.|++ |+.+++.. .|+++.+.+ ...+..++.|++|+|++||++||+++.+|+|+||++
T Consensus 1 ~RvN~lk~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~G~~~~qd~~s~~~~~~l~~~~g~~ 74 (264)
T TIGR00446 1 IRVNTLKISVADLLQRLENRGVTLIPWC-EEGFFEVNESPLPIGSTPEYLSGLYYIQEASSMIPPLALEPDPPER 74 (264)
T ss_pred CeecCCCCCHHHHHHHHHhCCCceeecC-CCceEEEeCCCCCcccChhHhCCeEEEECHHHHHHHHHhCCCCcCE
Confidence 6999999999999999998 99887765 677777764 346999999999999999999999999999999863
No 18
>PRK09634 nusB transcription antitermination protein NusB; Provisional
Probab=99.00 E-value=3.3e-09 Score=88.57 Aligned_cols=75 Identities=12% Similarity=0.159 Sum_probs=61.3
Q ss_pred ccCHHHHHHHHHHHHhcHHHHHHHHhhccccc-----chhhhhHHHHHHHHHHHHhcCccccch---hHHHHHHHhh---
Q 046012 67 VKNKKATFALVCQTLKHLSIIKQVLDSASILN-----SKWKRQEELVYILTYDILFGQEISLVG---DAEKFLMLHK--- 135 (244)
Q Consensus 67 ~~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~-----~~~~~~~~lLrv~~yqll~~~~~p~~a---e~v~~v~r~~--- 135 (244)
..+++|++++||||+|++..||++|+++ ++ +.+...+.+||+|+||++|++ +|+++ |+|++++++.
T Consensus 110 ~~~r~~a~~Lv~gvlr~~~~LD~iI~~~--l~~W~l~rL~~idr~ILRlavyELl~l~-~P~~vaINEAVeLAK~~~~~~ 186 (207)
T PRK09634 110 EEVREYALERIGAVIRNRKEIDQLLDTV--MVGWQLKRLPRIDRDILRLAVVEILFLN-TPAAVAINEAVELAKRYSDEQ 186 (207)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHH--hccccccCCCHHHHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHHhCCCc
Confidence 7899999999999999999999999995 54 222356999999999999995 89986 9999998872
Q ss_pred -HHHHHHHHH
Q 046012 136 -GAIQSALAR 144 (244)
Q Consensus 136 -~~l~~s~p~ 144 (244)
.++.+++.+
T Consensus 187 ~~~FVNaVLr 196 (207)
T PRK09634 187 GRRFINGVLR 196 (207)
T ss_pred ccchHHHHHH
Confidence 234555544
No 19
>KOG1122 consensus tRNA and rRNA cytosine-C5-methylase (nucleolar protein NOL1/NOP2) [RNA processing and modification]
Probab=98.54 E-value=1e-07 Score=86.26 Aligned_cols=82 Identities=24% Similarity=0.324 Sum_probs=69.0
Q ss_pred CCCCCCCceEEEcCCCCCHHHHHHHHcc-cCcee-ecCCCCCeEEeCC-CCCCCCchhhhcceEEeechhhHHhHHhhCC
Q 046012 163 TPDVPKPRYVRVNTLKMDVDSAVLELGK-QFVVQ-KDDLVPDLLILPP-GCDLHDHPLIVNGCVFLQGKASSMVAAALAP 239 (244)
Q Consensus 163 ~~~~~~p~~lRVNtlk~s~e~~~~~L~~-g~~~~-~~~~~p~~l~l~~-~~~l~~~~~f~~G~~~vQD~aSql~a~~L~p 239 (244)
.++.+.|+++|.||+|+-+-++...|.. |+-.. .+.|..-++++-. -..+..++.|..|.+.+|+.+|.|++++|+|
T Consensus 160 ~~~~~rp~tir~ntlk~~rrd~~~~L~nrgv~~~pl~~ws~vgl~v~~s~vpigat~e~lag~~~LQ~~sS~Lpv~aL~P 239 (460)
T KOG1122|consen 160 ANEKPRPVTIRTNTLKTRRRDLAVELSNRGVNLDPLGKWSKVGLVVFDSVVPIGATPEYLAGHYMLQNASSFLPVMALDP 239 (460)
T ss_pred hhcCCCCeeEEecccchhhhhHHHHHHhcccCcccccccccceEEEecCccccCCchhhcccceeeccCcccceeeecCC
Confidence 3446889999999999988888888877 76553 3557778887754 4578899999999999999999999999999
Q ss_pred CCCCC
Q 046012 240 KPGWK 244 (244)
Q Consensus 240 ~pG~~ 244 (244)
|||+.
T Consensus 240 q~gER 244 (460)
T KOG1122|consen 240 QPGER 244 (460)
T ss_pred CCCCe
Confidence 99984
No 20
>COG0781 NusB Transcription termination factor [Transcription]
Probab=98.53 E-value=4.3e-07 Score=72.42 Aligned_cols=104 Identities=13% Similarity=0.171 Sum_probs=76.7
Q ss_pred hhhhHHHHHHHHHHHHHHccchhh--hhhhcc-ccccc-CCCc--cCHHHHHHHHHHHHhcHHHHHHHHhhcccccc-hh
Q 046012 29 RSAYFARREAAKVLRLVLRGDARR--RAVGSI-KSLVY-SPSV--KNKKATFALVCQTLKHLSIIKQVLDSASILNS-KW 101 (244)
Q Consensus 29 ~~~~~~R~~A~~iL~~v~~~~~~~--~~l~~l-~~l~~-~l~~--~dr~~~~~LvygvlR~~~~Ld~il~~~~~~~~-~~ 101 (244)
.....+|..|+++|.+++-.+... ..+..+ ..... .++. .+..++..||.||++++..||.+|.++ +++ ..
T Consensus 8 ~~R~~aR~~avq~Ly~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~lv~gv~~~~~~iD~~I~~~--L~~w~~ 85 (151)
T COG0781 8 LTRRQARELAVQALYQWELSGSVSAEDILEDIEEEFVENELDIELADSEYFRSLVKGVLENQEELDELISPH--LKKWSL 85 (151)
T ss_pred chHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHhhcccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHH--HccCCH
Confidence 344568999999999998866522 221101 11111 2111 788999999999999999999999996 653 22
Q ss_pred h----hhHHHHHHHHHHHHhcCccccch---hHHHHHHHh
Q 046012 102 K----RQEELVYILTYDILFGQEISLVG---DAEKFLMLH 134 (244)
Q Consensus 102 ~----~~~~lLrv~~yqll~~~~~p~~a---e~v~~v~r~ 134 (244)
. ..+.+||+++|||+|.+.+|..- |++++++++
T Consensus 86 ~rL~~verAILRla~yEl~~~~dvP~~VvInEaielaK~f 125 (151)
T COG0781 86 ERLDLVERAILRLALYELLFRDDVPYKVVINEAIELAKKF 125 (151)
T ss_pred HHhhHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHh
Confidence 2 34899999999999998788763 999999887
No 21
>KOG2198 consensus tRNA cytosine-5-methylases and related enzymes of the NOL1/NOP2/sun superfamily [Translation, ribosomal structure and biogenesis]
Probab=74.52 E-value=1.1 Score=40.81 Aligned_cols=27 Identities=33% Similarity=0.341 Sum_probs=24.3
Q ss_pred hhcceEEeechhhHHhHHhhCCCCCCC
Q 046012 218 IVNGCVFLQGKASSMVAAALAPKPGWK 244 (244)
Q Consensus 218 f~~G~~~vQD~aSql~a~~L~p~pG~~ 244 (244)
..-|.++-||.+|++++.+|+.+||++
T Consensus 132 ~~vg~i~rqeavSmlPvL~L~v~p~~~ 158 (375)
T KOG2198|consen 132 TGVGNIYRQEAVSMLPVLALGVKPGDK 158 (375)
T ss_pred cccccchhhhhhhccchhhcccCCCCe
Confidence 346899999999999999999999985
No 22
>PF07276 PSGP: Apopolysialoglycoprotein (PSGP); InterPro: IPR009900 This entry represents a series of 13 residue repeats found in the apopolysialoglycoprotein of Oncorhynchus mykiss (Rainbow trout) and Oncorhynchus masou (Cherry salmon). Polysialoglycoprotein (PSGP) of unfertilised eggs of rainbow trout consists of tandem repeats of a glycotridecapeptide, Asp-Asp-Ala-Thr*-Ser*-Glu-Ala-Ala-Thr*-Gly-Pro-Ser- Gly (* denotes the attachment site of a polysialoglycan chain). In response to egg activation, PSGP is discharged by exocytosis into the space between the vitelline envelope and the plasma membrane, i.e. the perivitelline space, where the 200 kDa PSGP molecules undergo rapid and dramatic depolymerisation by proteolysis into glycotridecapeptides [].
Probab=67.24 E-value=3.2 Score=18.53 Aligned_cols=10 Identities=70% Similarity=0.890 Sum_probs=7.8
Q ss_pred CCCCCCCCCC
Q 046012 4 TKTAATAPSG 13 (244)
Q Consensus 4 ~~~~~~~~~~ 13 (244)
|..|||.|||
T Consensus 4 tseaatgpsg 13 (13)
T PF07276_consen 4 TSEAATGPSG 13 (13)
T ss_pred ccccccCCCC
Confidence 5678888886
Done!