Query 017050
Match_columns 378
No_of_seqs 129 out of 271
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:10:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017050.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017050hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02598 Methyltrn_RNA_3: Puta 100.0 2E-101 4E-106 751.1 18.8 285 62-357 1-291 (291)
2 KOG3925 Uncharacterized conser 100.0 1.1E-93 2.4E-98 700.4 18.8 304 57-365 64-370 (371)
3 COG2106 Uncharacterized conser 100.0 1.3E-68 2.9E-73 510.9 23.8 263 59-361 2-267 (272)
4 PRK03958 tRNA 2'-O-methylase; 91.4 0.25 5.5E-06 45.9 4.2 90 248-357 52-148 (176)
5 PF14419 SPOUT_MTase_2: AF2226 78.6 1.3 2.8E-05 40.9 1.9 89 251-357 71-167 (173)
6 COG1576 Uncharacterized conser 75.4 1.3 2.9E-05 40.5 1.0 78 273-358 67-150 (155)
7 COG0565 LasT rRNA methylase [T 71.4 9.2 0.0002 37.4 5.8 50 254-309 60-120 (242)
8 COG1385 Uncharacterized protei 70.3 4.3 9.2E-05 39.5 3.3 100 247-360 142-244 (246)
9 TIGR00246 tRNA_RlmH_YbeA rRNA 68.7 3.8 8.3E-05 37.1 2.4 85 262-358 58-148 (153)
10 PRK00103 rRNA large subunit me 68.2 4.5 9.7E-05 36.8 2.8 78 273-358 67-151 (157)
11 PRK10433 putative RNA methyltr 59.0 49 0.0011 31.9 8.1 90 249-357 53-156 (228)
12 KOG2422 Uncharacterized conser 58.7 6.4 0.00014 43.0 2.2 50 2-51 48-100 (665)
13 COG4752 Uncharacterized protei 51.9 4.6 0.0001 37.1 -0.1 74 254-339 85-165 (190)
14 PF04452 Methyltrans_RNA: RNA 50.9 10 0.00023 35.7 2.1 97 246-357 125-224 (225)
15 PF02590 SPOUT_MTase: Predicte 49.0 5.5 0.00012 36.1 -0.1 73 273-357 67-150 (155)
16 PRK15114 tRNA (cytidine/uridin 44.5 1.1E+02 0.0024 29.6 8.1 83 254-356 60-156 (245)
17 PF00588 SpoU_methylase: SpoU 41.8 84 0.0018 27.0 6.2 53 254-312 58-111 (142)
18 TIGR00050 rRNA_methyl_1 RNA me 41.5 1.3E+02 0.0028 28.8 8.0 56 249-310 54-118 (233)
19 PF09936 Methyltrn_RNA_4: SAM- 40.9 18 0.00039 34.1 2.0 61 254-314 84-150 (185)
20 PF00588 SpoU_methylase: SpoU 38.4 28 0.0006 30.0 2.7 24 83-106 13-36 (142)
21 TIGR02266 gmx_TIGR02266 Myxoco 33.2 49 0.0011 26.2 3.2 62 196-258 19-82 (96)
22 TIGR00050 rRNA_methyl_1 RNA me 32.1 36 0.00078 32.6 2.6 23 85-107 17-39 (233)
23 PF10646 Germane: Sporulation 30.4 1.2E+02 0.0026 24.9 5.1 45 62-107 65-111 (117)
24 TIGR00046 RNA methyltransferas 28.5 72 0.0016 30.5 3.9 23 338-360 215-237 (240)
25 KOG2201 Pantothenate kinase Pa 27.5 63 0.0014 33.3 3.4 27 77-103 284-311 (371)
26 PF09895 DUF2122: RecB-family 25.5 1.9E+02 0.0042 24.9 5.6 51 251-306 19-69 (106)
27 PRK15114 tRNA (cytidine/uridin 25.5 62 0.0013 31.4 2.9 22 85-106 18-39 (245)
28 TIGR00186 rRNA_methyl_3 rRNA m 21.5 74 0.0016 30.4 2.6 20 84-103 103-122 (237)
29 COG5459 Predicted rRNA methyla 20.8 64 0.0014 33.9 2.1 95 253-347 166-274 (484)
30 PF10246 MRP-S35: Mitochondria 20.7 3.3E+02 0.0072 23.6 6.0 45 178-225 23-73 (104)
31 KOG2367 Alpha-isopropylmalate 20.6 61 0.0013 35.0 1.9 20 137-156 150-169 (560)
32 PRK11181 23S rRNA (guanosine-2 20.1 82 0.0018 30.3 2.6 20 84-103 108-127 (244)
No 1
>PF02598 Methyltrn_RNA_3: Putative RNA methyltransferase; InterPro: IPR003750 This entry describes proteins of unknown function.; PDB: 1K3R_B.
Probab=100.00 E-value=1.8e-101 Score=751.14 Aligned_cols=285 Identities=52% Similarity=0.929 Sum_probs=183.6
Q ss_pred eEEEEecCccccCCCCHHHHHHHHHHHHHHHhhhcccEEEEEcCCCCCCccccccccccCCCCCCCcchHHHHHHHHhhh
Q 017050 62 TVSVAVPGSIIDNTQSLELATRLAGQIARAVTIFRIDEVVVFDNKSSSDNYSRSSAANRSNRSDENESGAAFLVRLLQYL 141 (378)
Q Consensus 62 tvSIAIP~SIlsnaqslelkT~~agqIARAaaIF~VdEIVVydd~~~~~~~~~~~~~~~~~~~~~~~~~~~fLa~lLqYl 141 (378)
|||||||+|||+||||+|+|||+|||||||||||||||||||||+........ ..........+++.||++|||||
T Consensus 1 tvSIaIP~Sil~n~~s~e~~T~~~gqIARaaaiF~VdEIvVydd~~~~~~~~~----~~~~~~~~~~~~~~~l~~lLqYl 76 (291)
T PF02598_consen 1 TVSIAIPGSILSNAQSLELKTYKAGQIARAAAIFRVDEIVVYDDSPKVQNNQD----GENEKGKSNRDDAEFLARLLQYL 76 (291)
T ss_dssp -EEEEEETTTTTT---HHHHHHHHHHHHHHHHHTT--EEEEEE---------------------SSS--HHHHHHHHHHH
T ss_pred CEEEEechHHhccCCCHHHHHHHHHHHHHHHHeecCcEEEEEccccccccccc----cccccccCCCCHHHHHHHHHHHh
Confidence 79999999999999999999999999999999999999999999532222110 11112334567899999999999
Q ss_pred cCChhhhhhhcCCCCCccccccCCCCCCCCcC-CCCCcCCceeEEEeeccCCCCCceEEEeCCCceeeecc-cCCCCcEE
Q 017050 142 ETPQYLRKALFSMHSSLRFVGMLPPLDAPHHL-RKHEWAPFREGVTLKENAPNSVGTLVDVGLNKHVVVDQ-VLDPGVRV 219 (378)
Q Consensus 142 eTPpYLRK~LFP~h~~Lk~aGlLPPL~~PhH~-r~~e~~~yREGvvv~~~~~~~~gs~VdiGl~k~v~i~~-~l~~g~RV 219 (378)
||||||||+|||+|++|||||+||||++|||+ +.++|++||||||+++..+.++++|||||+.+++.++. .+++|+||
T Consensus 77 eTPpYLRK~lFp~~~~Lk~aGlLppL~~phH~~~~~~~~~yREGvv~~~~~~~~~~~~VdiGl~~~v~i~~~~l~~g~RV 156 (291)
T PF02598_consen 77 ETPPYLRKRLFPIHPDLKYAGLLPPLDAPHHMSRSDEWGPYREGVVVRKPSKGGKGSYVDIGLDKPVEIDKQELPPGTRV 156 (291)
T ss_dssp HS-HHHHHHHS---GGGCCGGGS-----TTS--SS--TT-EEEEEEEEE-SSS---EEEESSSSEEEESSS----SS-EE
T ss_pred cCCHHHHHhhcccCcccccccccCCCCCCccccCCccccceeEEEEEeCCCCCCceEEEEeCCCcEEeecccccCCCCEE
Confidence 99999999999999999999999999999999 88999999999999998766677999999999999999 99999999
Q ss_pred EEEecCCCCCCCCCCceecCCCCCCCCCcccceEEEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCCCC--CCC
Q 017050 220 TVAMGTNRNLDADSPRQVVPPSKPKESGMYWGYKVRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLTLP--TFR 297 (378)
Q Consensus 220 TV~l~~~~~~~~~~~~~vVsp~~p~~~G~YWGY~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~lp--~~~ 297 (378)
||+|+. ..|++|+|.+|...|+||||+||+|+||++||++|||++|||++||||++|.++++.....+ +++
T Consensus 157 TV~~~~-------~~~~vVsp~~p~~~g~YwGY~VR~a~sl~~v~~~~~~~~GYd~~IgtS~~G~~~~~~~~~~~~~~~~ 229 (291)
T PF02598_consen 157 TVRIKS-------LKGKVVSPSEPREAGYYWGYSVRIASSLSEVFTECPYPEGYDLIIGTSERGEPISSSELEIKSSSFK 229 (291)
T ss_dssp EEEEEE-------SSS-EEEE---SS--S----EEEEECEHHHHHHHC------SEEEEE-TTS-BTTTSHHHHHHHT-S
T ss_pred EEEecC-------CcCCEeCcccCCcCCccCCeEEEEeCCHHHHHhcCCcccccceEEEECCCCeeCchhhcccccCCCC
Confidence 999984 36899999999339999999999999999999999999999999999999999987655544 899
Q ss_pred cEEEEEcCccchhhhhhcccc--cccccccccCceEEecCCCCCccccchhHHHHHHHhhcc
Q 017050 298 HLLIAFGGLAGLEESIEEDDG--LKRKNAREVFHSYFNTCPHQGSRTIRTEEAIFISLQYFQ 357 (378)
Q Consensus 298 h~LIVFGg~~GLe~~~~~d~~--l~~~~~~~~FD~~lNt~P~QGsrTIRTEEAvlItLa~L~ 357 (378)
|+|||||||.+++.+++.++. ..+.++.++||+||||||+||||||||||||+||||.||
T Consensus 230 ~~LiVFGg~~~~~~~~~~~~~~~~~~~~~~~~fD~~lN~~p~QgsrtIRtEEAv~itLa~Ln 291 (291)
T PF02598_consen 230 HLLIVFGGWSPLEGADEIDEKLFEGGEDAEELFDHWLNTCPGQGSRTIRTEEAVLITLAILN 291 (291)
T ss_dssp EEEEE-----SSS---S----------------SEEEBSSTT-SSS---HHHHHHHHHHHHH
T ss_pred cEEEEEecCHHHhhccccccccccccccccccCCceEecCCCCCCCccCHHHHHHHHHHhcC
Confidence 999999999999999998874 356789999999999999999999999999999999986
No 2
>KOG3925 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.1e-93 Score=700.45 Aligned_cols=304 Identities=45% Similarity=0.789 Sum_probs=281.1
Q ss_pred CCCcceEEEEecCccccCCCCHHHHHHHHHHHHHHHhhhcccEEEEEcCCCCCCccccccccccCCCCCCCcchHHHHHH
Q 017050 57 PIEVPTVSVAVPGSIIDNTQSLELATRLAGQIARAVTIFRIDEVVVFDNKSSSDNYSRSSAANRSNRSDENESGAAFLVR 136 (378)
Q Consensus 57 ~~r~~tvSIAIP~SIlsnaqslelkT~~agqIARAaaIF~VdEIVVydd~~~~~~~~~~~~~~~~~~~~~~~~~~~fLa~ 136 (378)
.++.+|+|||||+|||+||||+||+||+||||||||++|+|||||||||.....+.++. .....+..++|.||++
T Consensus 64 ~~~~~t~SIaiPgsil~n~~nlel~T~~a~QIAR~aslf~V~Eiivldd~~~~~~~~~~-----~~~~~~~~s~~~~L~~ 138 (371)
T KOG3925|consen 64 ESRPYTYSIAIPGSILNNAQNLELATYFAGQIARAASLFRVDEIIVLDDSEYVTNEQVN-----TSSDKENISGCKLLAR 138 (371)
T ss_pred CCCceEEEEEechHHHhhhhhhHHHHHHhhhhhhhheeecceeEEEecccchhhhhhhc-----ccccccccccHHHHHH
Confidence 67999999999999999999999999999999999999999999999997765554321 1123567889999999
Q ss_pred HHhhhcCChhhhhhhcCCCCCccccccCCCCCCCCcCCCCCcCCceeEEEeeccCCCCCceEEEeCCCceeeec-ccCC-
Q 017050 137 LLQYLETPQYLRKALFSMHSSLRFVGMLPPLDAPHHLRKHEWAPFREGVTLKENAPNSVGTLVDVGLNKHVVVD-QVLD- 214 (378)
Q Consensus 137 lLqYleTPpYLRK~LFP~h~~Lk~aGlLPPL~~PhH~r~~e~~~yREGvvv~~~~~~~~gs~VdiGl~k~v~i~-~~l~- 214 (378)
|||||||||||||+|||+|++|||||+|||||+|||++.+++++||||||+++.+++|.+++||||+.+.+.|+ ..+.
T Consensus 139 lLqYfetPqyLRk~~Fp~~~~Lk~ag~lppLd~~hh~~q~e~~~YREGvvi~~~~~~g~~~~in~gL~k~v~I~~~~v~~ 218 (371)
T KOG3925|consen 139 LLQYFETPQYLRKTLFPKHPDLKYAGLLPPLDTPHHLRQDEKFRYREGVVIKRKSPAGHGYIINAGLKKEVYIDSKAVEA 218 (371)
T ss_pred HHhhccCcHHHHHhhccCCccccccccCCCCCchHHhhhhhhhccccceeeccCCCCCCcceecccceeeEEecchhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998 5566
Q ss_pred CCcEEEEEecCCCCCCCCCCceecCCCCC-CCCCcccceEEEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCCC
Q 017050 215 PGVRVTVAMGTNRNLDADSPRQVVPPSKP-KESGMYWGYKVRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLTL 293 (378)
Q Consensus 215 ~g~RVTV~l~~~~~~~~~~~~~vVsp~~p-~~~G~YWGY~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~l 293 (378)
||+||||+|+...+.+..+.|+||||++| +++|+||||+||+|++|++||++|||++|||++||||.+|..|.+.++..
T Consensus 219 p~~RvtV~l~aq~~~~~t~~g~IVSp~~pr~~tGlywGY~VR~assls~vf~~~P~~~GYD~~vg~s~rg~~I~s~~~~~ 298 (371)
T KOG3925|consen 219 PGTRVTVRLNAQTVTCDTLRGKIVSPQDPREETGLYWGYKVRLASSLSEVFSESPFKGGYDFVVGTSTRGSAIASLSLEA 298 (371)
T ss_pred CcceEEEecCCcCchhhhhcccccCCCCcccccCcccceeeehhhhHHHHhhcCCccCCcceEEEeccCCcccccccccc
Confidence 99999999985545566778999999999 99999999999999999999999999999999999999999999877777
Q ss_pred CCCCcEEEEEcCccchhhhhhcccccccccccccCceEEecCCCCCccccchhHHHHHHHhhcchhHHHhhh
Q 017050 294 PTFRHLLIAFGGLAGLEESIEEDDGLKRKNAREVFHSYFNTCPHQGSRTIRTEEAIFISLQYFQEPISRALR 365 (378)
Q Consensus 294 p~~~h~LIVFGg~~GLe~~~~~d~~l~~~~~~~~FD~~lNt~P~QGsrTIRTEEAvlItLa~L~~~~~~~~~ 365 (378)
+.+.|+|+|||||+||+.+++.|+.....++..+||.++|++|.||+||||+||+|+++|+.++.+|.+...
T Consensus 299 ~t~~~iLlvfg~l~~l~~a~e~~~~~~~~~~~~~f~~~~~~lp~pgs~~~~~ee~~~~slp~~~~~L~~~~r 370 (371)
T KOG3925|consen 299 ETPPHILLVFGGLAGLVRAFELDEQTTWRDSEDPFDVFFNQLPIPGSRTIRSEEAVLDSLPRLQTMLSTHVR 370 (371)
T ss_pred CCCCcEEEEeechhhHHHHHHhccchhccccCCchhhhhccCCCcccccccchhhhhhhhhhhhhhhhhhhc
Confidence 889999999999999999999998878888999999999999999999999999999999999999987654
No 3
>COG2106 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.3e-68 Score=510.88 Aligned_cols=263 Identities=34% Similarity=0.604 Sum_probs=225.4
Q ss_pred CcceEEEEecCccccCCCCHHHHHHHHHHHHHHHhhhcccEEEEEcCCCCCCccccccccccCCCCCCCcchHHHHHHHH
Q 017050 59 EVPTVSVAVPGSIIDNTQSLELATRLAGQIARAVTIFRIDEVVVFDNKSSSDNYSRSSAANRSNRSDENESGAAFLVRLL 138 (378)
Q Consensus 59 r~~tvSIAIP~SIlsnaqslelkT~~agqIARAaaIF~VdEIVVydd~~~~~~~~~~~~~~~~~~~~~~~~~~~fLa~lL 138 (378)
|..++|||||+|++++|.|++++||++||||||||||||||||||+|+.... .++.||..||
T Consensus 2 ~~~~~Sv~iP~Sll~~~~dl~~kT~Kvg~IARaaaiF~V~eIii~~D~~~~~------------------~~~~~i~~lL 63 (272)
T COG2106 2 RRVMLSVAIPTSLLSEENDLKLKTYKVGQIARAAAIFRVDEIIIYEDGDDVR------------------RDAKFITTLL 63 (272)
T ss_pred ceeEEEEEcchHHhhccCCHHHhHHHHHHHHHHHHhhcccEEEEEeCCCCcc------------------chhHHHHHHH
Confidence 6789999999999999999999999999999999999999999999985432 2579999999
Q ss_pred hhhcCChhhhhhhcCCCCCccccccCCCCCCCCcCCC--CCcCCceeEEEeeccCCCCCceEEEeCCCceeeecccCCCC
Q 017050 139 QYLETPQYLRKALFSMHSSLRFVGMLPPLDAPHHLRK--HEWAPFREGVTLKENAPNSVGTLVDVGLNKHVVVDQVLDPG 216 (378)
Q Consensus 139 qYleTPpYLRK~LFP~h~~Lk~aGlLPPL~~PhH~r~--~e~~~yREGvvv~~~~~~~~gs~VdiGl~k~v~i~~~l~~g 216 (378)
|||+|||||||++||++++|||||+||||.+|||+.. +..++||||+|+++. +++.+||||+++.+.+...+++|
T Consensus 64 ~Y~~TPpyLRK~vFp~~~~LkyAg~lPPL~ip~h~~~~~~~~Ge~ReG~v~~~~---~~~~~v~iG~~~~~~l~~~~~~~ 140 (272)
T COG2106 64 EYFETPPYLRKRVFPIKRELKYAGLLPPLRIPSHTVSTSPKEGEYREGLVIRRG---KKGNLVDIGKDKLAKLSSPAPPG 140 (272)
T ss_pred HHhcCCHHHHhhhcCCCcccccccccCCCCCCCccCcCCccceeecceEEEEec---CCceEEEecCCcceeccCCCCCC
Confidence 9999999999999999999999999999999999976 679999999999985 67799999999999999999999
Q ss_pred cEEEEEecCCCCCCCCCCceecCCCCCCCCCcccceEEEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCCCCCC
Q 017050 217 VRVTVAMGTNRNLDADSPRQVVPPSKPKESGMYWGYKVRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLTLPTF 296 (378)
Q Consensus 217 ~RVTV~l~~~~~~~~~~~~~vVsp~~p~~~G~YWGY~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~lp~~ 296 (378)
.||||++.+.. ....|.|.+|. + ||||+||.+++|.++++.. +.++.+|+||++| +.+..+...+..
T Consensus 141 ~RvTvri~~~~------~p~~~~~~~~~--~-YwGY~V~~~~~L~e~~~~~---~~~~vvi~tsr~g-~~~~~e~~~~~~ 207 (272)
T COG2106 141 ARVTVRIISRS------SPLRVEPAEPP--D-YWGYKVRIAKSLNELLKGF---DLDVVVIATSRYG-PLDVRETEAPLK 207 (272)
T ss_pred ceEEEEEEecc------CceeeecCCCC--C-cCcEEEEehhhHHHHhhcc---CCCceEEEecccC-cceeeecccccC
Confidence 99999998441 12334444442 2 9999999999999998854 3445789999999 555555555556
Q ss_pred CcEEEEEcCc-cchhhhhhcccccccccccccCceEEecCCCCCccccchhHHHHHHHhhcchhHH
Q 017050 297 RHLLIAFGGL-AGLEESIEEDDGLKRKNAREVFHSYFNTCPHQGSRTIRTEEAIFISLQYFQEPIS 361 (378)
Q Consensus 297 ~h~LIVFGg~-~GLe~~~~~d~~l~~~~~~~~FD~~lNt~P~QGsrTIRTEEAvlItLa~L~~~~~ 361 (378)
..+.+|||+| .||-++... .+....||.|+|++|+||+.||||||||+++|+.|+-.+.
T Consensus 208 ~~~~~~fg~P~~gv~~~~~~------~~~~~~~d~~~N~~p~Qg~~~vrtEEavlatl~~ln~~~~ 267 (272)
T COG2106 208 SKVTLVFGGPEKGVLEILKV------GGVKLEFDIVVNFIPGQGTETVRTEEAVLATLSILNILLT 267 (272)
T ss_pred CcceEEecCcccChheeccc------ccCccccceeEEecCCcccccccchhhHHHHHHHHHHHHH
Confidence 6899999999 777766552 1334679999999999999999999999999999986553
No 4
>PRK03958 tRNA 2'-O-methylase; Reviewed
Probab=91.39 E-value=0.25 Score=45.93 Aligned_cols=90 Identities=18% Similarity=0.195 Sum_probs=52.3
Q ss_pred cccc--eEEEEeCChHHHHhcCCCCCC-CcEEEEeCCCCCccCCCCCCC----CCCCcEEEEEcCccchhhhhhcccccc
Q 017050 248 MYWG--YKVRYAPNISSVFKNCSYKGG-YDHLIGTSEHGDIVNSSDLTL----PTFRHLLIAFGGLAGLEESIEEDDGLK 320 (378)
Q Consensus 248 ~YWG--Y~VR~a~sLs~vf~e~p~~~g-YD~~IgTS~~G~~i~~~~~~l----p~~~h~LIVFGg~~GLe~~~~~d~~l~ 320 (378)
-||| |.|++..|+.+++.+.. .+| -=.++.|+.+-.+ ...++ ...+.+||||||| |+..-
T Consensus 52 ~~WGg~fnv~~~~s~~~~i~~~k-~~G~vvhLtmyga~~~~---~~~~ir~~~~~~~p~LIvvGg~-gvp~e-------- 118 (176)
T PRK03958 52 ERWGGPFEVEVTKSWKKEIREWK-DGGIVVHLTMYGENIQD---VEPEIREAHRKGEPLLIVVGAE-KVPRE-------- 118 (176)
T ss_pred HhcCCceEEEEcCCHHHHHHHHH-hCCcEEEEEEecCCccc---hHHHHHHhhccCCcEEEEEcCC-CCCHH--------
Confidence 5897 77999999999999876 333 3355667655333 21122 1256799999987 33222
Q ss_pred cccccccCceEEecCCCCCccccchhHHHHHHHhhcc
Q 017050 321 RKNAREVFHSYFNTCPHQGSRTIRTEEAIFISLQYFQ 357 (378)
Q Consensus 321 ~~~~~~~FD~~lNt~P~QGsrTIRTEEAvlItLa~L~ 357 (378)
..+++|+.| -+-+|-- ++| =|+.|.|-.|.
T Consensus 119 ---vye~aDynl-gvg~qpH-Svr--AAlAI~LDRL~ 148 (176)
T PRK03958 119 ---VYELADWNV-AVGNQPH-SEV--AALAVFLDRLF 148 (176)
T ss_pred ---HHhhCCEEe-ccCCCCh-HHH--HHHHHHHHHhc
Confidence 225567665 2233432 333 35555555554
No 5
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=78.64 E-value=1.3 Score=40.91 Aligned_cols=89 Identities=22% Similarity=0.285 Sum_probs=61.9
Q ss_pred ceEEEEeC----ChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCCC----CCCCcEEEEEcCccchhhhhhcccccccc
Q 017050 251 GYKVRYAP----NISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLTL----PTFRHLLIAFGGLAGLEESIEEDDGLKRK 322 (378)
Q Consensus 251 GY~VR~a~----sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~l----p~~~h~LIVFGg~~GLe~~~~~d~~l~~~ 322 (378)
|..|+... +|.++..+ ..-+.+|.|...|++++....++ ...+.+.|+.|+-.||-.-+=
T Consensus 71 ~r~v~kvpV~V~DlYQ~vRd----R~~~~lIvtdPkG~~is~vk~~L~~~~r~~~eV~v~iGSReGiP~Glf-------- 138 (173)
T PF14419_consen 71 GREVRKVPVYVQDLYQVVRD----RKGEPLIVTDPKGDPISEVKDKLAEDLRYAKEVVVFIGSREGIPRGLF-------- 138 (173)
T ss_pred CCeeeEeeeeHHHHHHHHHh----cCCCeEEEECCCCCcHHHHHHHHHHHHhhCcEEEEEEEcccCCChhHH--------
Confidence 55555544 35566654 34578999999999987654333 245688888898765543222
Q ss_pred cccccCceEEecCCCCCccccchhHHHHHHHhhcc
Q 017050 323 NAREVFHSYFNTCPHQGSRTIRTEEAIFISLQYFQ 357 (378)
Q Consensus 323 ~~~~~FD~~lNt~P~QGsrTIRTEEAvlItLa~L~ 357 (378)
.+=|+.+..+|+ -|+-||-|+..+|-.|-
T Consensus 139 ---RfAd~VvDlaP~---~t~aTe~~ipsaliAl~ 167 (173)
T PF14419_consen 139 ---RFADYVVDLAPG---VTFATEHAIPSALIALW 167 (173)
T ss_pred ---HHhhhhhhcCCc---eEEeehhhhHHHHHHHH
Confidence 344678999996 69999999988887654
No 6
>COG1576 Uncharacterized conserved protein [Function unknown]
Probab=75.41 E-value=1.3 Score=40.46 Aligned_cols=78 Identities=21% Similarity=0.275 Sum_probs=53.3
Q ss_pred CcEEEEeCCCCCccCCCCCC--C----CCCCcEEEEEcCccchhhhhhcccccccccccccCceEEecCCCCCccccchh
Q 017050 273 YDHLIGTSEHGDIVNSSDLT--L----PTFRHLLIAFGGLAGLEESIEEDDGLKRKNAREVFHSYFNTCPHQGSRTIRTE 346 (378)
Q Consensus 273 YD~~IgTS~~G~~i~~~~~~--l----p~~~h~LIVFGg~~GLe~~~~~d~~l~~~~~~~~FD~~lNt~P~QGsrTIRTE 346 (378)
-+++|.-..+|...++.++. + ..++++.++.||+.||.+.+.+..++. +.+=-=|.|||=.|.+=.
T Consensus 67 ~~~vi~Ld~~Gk~~sSe~fA~~l~~~~~~G~~i~f~IGG~~Gl~~~~~~~a~~~-------~sls~lT~PHql~rlvL~- 138 (155)
T COG1576 67 GSYVVLLDIRGKALSSEEFADFLERLRDDGRDISFLIGGADGLSEAVKARADQV-------LSLSKLTLPHQLVRLVLA- 138 (155)
T ss_pred CCeEEEEecCCCcCChHHHHHHHHHHHhcCCeEEEEEeCcccCCHHHHHHHhhh-------eecccccchhHHHHHHHH-
Confidence 45889999999998875432 1 124789999999999999988532211 111112889998877743
Q ss_pred HHHHHHHhhcch
Q 017050 347 EAIFISLQYFQE 358 (378)
Q Consensus 347 EAvlItLa~L~~ 358 (378)
|.|.=|.++++.
T Consensus 139 EQiYRA~sI~~g 150 (155)
T COG1576 139 EQIYRAFSILNG 150 (155)
T ss_pred HHHHHHHHHHcC
Confidence 567777777764
No 7
>COG0565 LasT rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=71.41 E-value=9.2 Score=37.40 Aligned_cols=50 Identities=16% Similarity=0.286 Sum_probs=32.2
Q ss_pred EEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCC-------CCC-C--CCcEEEEEcCc-cch
Q 017050 254 VRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDL-------TLP-T--FRHLLIAFGGL-AGL 309 (378)
Q Consensus 254 VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~-------~lp-~--~~h~LIVFGg~-~GL 309 (378)
.++.++|.+.+.+| |++||||-+-........ .+. . ..++.||||.= .||
T Consensus 60 A~i~~tL~eAl~d~------~~v~aTtar~r~~~~~~~~P~e~~~~l~~~~~~~~vAlvFGRE~~GL 120 (242)
T COG0565 60 AKIVDTLEEALADC------DLVVATTARSRDLLRPLRTPREAAPELLEKAKGGKVALVFGRERVGL 120 (242)
T ss_pred CeeecCHHHHhcCC------CEEEEeccccCcccccccCHHHHHHHHHHHhcCCCeEEEECCccCCC
Confidence 56778899999866 899999954332221100 011 1 36999999986 454
No 8
>COG1385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=70.27 E-value=4.3 Score=39.50 Aligned_cols=100 Identities=20% Similarity=0.231 Sum_probs=56.0
Q ss_pred CcccceEEEEeCChHHHHhcCCCCCCCc--EEEEeCCCCCccCCCCC-CCCCCCcEEEEEcCccchhhhhhccccccccc
Q 017050 247 GMYWGYKVRYAPNISSVFKNCSYKGGYD--HLIGTSEHGDIVNSSDL-TLPTFRHLLIAFGGLAGLEESIEEDDGLKRKN 323 (378)
Q Consensus 247 G~YWGY~VR~a~sLs~vf~e~p~~~gYD--~~IgTS~~G~~i~~~~~-~lp~~~h~LIVFGg~~GLe~~~~~d~~l~~~~ 323 (378)
|-.+=-.|+...+|.+.+.+.+ .|| .++.-.+.......... +....+.++|++|-=-|+.+ +|-
T Consensus 142 ~R~~vP~I~~~~~~~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iiIGPEGGfs~----~Ei----- 209 (246)
T COG1385 142 GRNVVPEIKPPESLKELLKEID---DEDALKLIYEEKAKEGLLALPLLEALPEGKVLLIIGPEGGFSE----DEI----- 209 (246)
T ss_pred CCCcCCeeechhhHHHHHHhcc---cchhhhheeccccccccccchhhhcccCCcEEEEECCCCCCCH----HHH-----
Confidence 3344456777778988888763 345 34444333222221111 11235689999986444431 211
Q ss_pred ccccCceEEecCCCCCccccchhHHHHHHHhhcchhH
Q 017050 324 AREVFHSYFNTCPHQGSRTIRTEEAIFISLQYFQEPI 360 (378)
Q Consensus 324 ~~~~FD~~lNt~P~QGsrTIRTEEAvlItLa~L~~~~ 360 (378)
..+-+.=...+ .-|.|..|||=|.+.+||.++-.+
T Consensus 210 -~~l~~~g~~~v-~LGprILRtETAal~ala~i~~~~ 244 (246)
T COG1385 210 -ELLREAGFTPV-SLGPRILRTETAALAALAALQALL 244 (246)
T ss_pred -HHHHHCCCeEe-ccCCceehhhHHHHHHHHHHHHHh
Confidence 01111111222 368899999999999999998654
No 9
>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=68.73 E-value=3.8 Score=37.15 Aligned_cols=85 Identities=18% Similarity=0.242 Sum_probs=54.3
Q ss_pred HHHhcCCCCCCCcEEEEeCCCCCccCCCCCC--C----CCCCcEEEEEcCccchhhhhhcccccccccccccCceEEecC
Q 017050 262 SVFKNCSYKGGYDHLIGTSEHGDIVNSSDLT--L----PTFRHLLIAFGGLAGLEESIEEDDGLKRKNAREVFHSYFNTC 335 (378)
Q Consensus 262 ~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~--l----p~~~h~LIVFGg~~GLe~~~~~d~~l~~~~~~~~FD~~lNt~ 335 (378)
.++...+ + |++|.-.++|..++|.++. + ...+++.+|.||+.|+.+.+.+.-+. .+.+===|.
T Consensus 58 ~il~~~~--~--~~~i~LDe~Gk~~sS~~fA~~l~~~~~~g~~i~FvIGGa~G~~~~v~~~a~~-------~lSLS~mTf 126 (153)
T TIGR00246 58 RILAAIG--K--AHVVTLDIPGKPWTTPQLADTLEKWKTDGRDVTLLIGGPEGLSPTCKAAAEQ-------SWSLSKLTL 126 (153)
T ss_pred HHHHhCC--C--CeEEEEcCCCCcCCHHHHHHHHHHHhccCCeEEEEEcCCCcCCHHHHHhcCc-------eEEeecCCC
Confidence 3455443 2 8899999999998875432 1 12357999999999999888642111 111111178
Q ss_pred CCCCccccchhHHHHHHHhhcch
Q 017050 336 PHQGSRTIRTEEAIFISLQYFQE 358 (378)
Q Consensus 336 P~QGsrTIRTEEAvlItLa~L~~ 358 (378)
|+|=.|-|=. |.|+-++++++.
T Consensus 127 pH~larlvL~-EQiYRA~tIl~g 148 (153)
T TIGR00246 127 PHPLVRVIVA-ESLYRAWSITTN 148 (153)
T ss_pred cHHHHHHHHH-HHHHHHHHHHcC
Confidence 9988776643 456666666653
No 10
>PRK00103 rRNA large subunit methyltransferase; Provisional
Probab=68.16 E-value=4.5 Score=36.84 Aligned_cols=78 Identities=19% Similarity=0.293 Sum_probs=50.5
Q ss_pred CcEEEEeCCCCCccCCCCCC--C-----CCCCcEEEEEcCccchhhhhhcccccccccccccCceEEecCCCCCccccch
Q 017050 273 YDHLIGTSEHGDIVNSSDLT--L-----PTFRHLLIAFGGLAGLEESIEEDDGLKRKNAREVFHSYFNTCPHQGSRTIRT 345 (378)
Q Consensus 273 YD~~IgTS~~G~~i~~~~~~--l-----p~~~h~LIVFGg~~GLe~~~~~d~~l~~~~~~~~FD~~lNt~P~QGsrTIRT 345 (378)
.|++|.-.++|..++|.++. + .....+.+|.||+.|+.+.+...-++ .+.+===|.|+|=.|.|=.
T Consensus 67 ~~~~i~LDe~Gk~~sS~~fA~~l~~~~~~g~~~i~F~IGGa~G~~~~v~~~a~~-------~lSLS~mTfpH~larlvL~ 139 (157)
T PRK00103 67 GARVIALDERGKQLSSEEFAQELERWRDDGRSDVAFVIGGADGLSPAVKKRADQ-------SLSLSKLTLPHQLVRVLLA 139 (157)
T ss_pred CCEEEEEcCCCCcCCHHHHHHHHHHHHhcCCccEEEEEcCccccCHHHHHhcCc-------eEEeccCCCcHHHHHHHHH
Confidence 57899999999998875432 1 12247999999999999888642111 0111011789988777643
Q ss_pred hHHHHHHHhhcch
Q 017050 346 EEAIFISLQYFQE 358 (378)
Q Consensus 346 EEAvlItLa~L~~ 358 (378)
|.|+=++++++.
T Consensus 140 -EQlYRa~tIl~g 151 (157)
T PRK00103 140 -EQLYRAWSILAG 151 (157)
T ss_pred -HHHHHHHHHHCC
Confidence 456666666653
No 11
>PRK10433 putative RNA methyltransferase; Provisional
Probab=59.05 E-value=49 Score=31.92 Aligned_cols=90 Identities=10% Similarity=0.111 Sum_probs=50.4
Q ss_pred ccceEEEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCC----------CCC-CCcEEEEEcCc-cchhhhhhcc
Q 017050 249 YWGYKVRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLT----------LPT-FRHLLIAFGGL-AGLEESIEED 316 (378)
Q Consensus 249 YWGY~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~----------lp~-~~h~LIVFGg~-~GLe~~~~~d 316 (378)
-|==.+++.++|.+.+.+| +++|||+.+.......... ... ...+.||||.= .||..-.
T Consensus 53 d~L~~a~v~~tL~eAl~d~------~~vigttar~~~~~~~~~~p~~~~~~l~~~~~~~~~~alvfG~E~~Gl~~~~--- 123 (228)
T PRK10433 53 DILDNAKVFDTLAEALHDV------DFTVATTARSRAKFHYYATPAELVPLLEEKSSWMSHAALVFGREDSGLTNEE--- 123 (228)
T ss_pred HHhcCceEECCHHHHHHhC------CeEEEEccCCCCCCCcccCHHHHHHHHHhhhcccCCEEEEECCCCCCCCHHH---
Confidence 3444678888999999876 7899998764422111000 111 25799999995 4553211
Q ss_pred cccccccccccCceEEe--cCCCCCccccchhHHHHHHHhhcc
Q 017050 317 DGLKRKNAREVFHSYFN--TCPHQGSRTIRTEEAIFISLQYFQ 357 (378)
Q Consensus 317 ~~l~~~~~~~~FD~~lN--t~P~QGsrTIRTEEAvlItLa~L~ 357 (378)
.++-|..+. +.|.. .+.=.=-|+.|.|--|.
T Consensus 124 --------l~~c~~~~~IP~~~~~--~SLNla~A~~i~~ye~~ 156 (228)
T PRK10433 124 --------LALADVLTGVPMAADY--PSLNLGQAVMVYCYQLA 156 (228)
T ss_pred --------HHhCCcEEEecCCCCC--cceeHHHHHHHHHHHHH
Confidence 123344442 33333 33333667777665553
No 12
>KOG2422 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.74 E-value=6.4 Score=42.97 Aligned_cols=50 Identities=38% Similarity=0.391 Sum_probs=23.4
Q ss_pred CCcccCCCCchhhhhh--hcCC-CcccccccccccCCCCcchhHHHHhhhhhc
Q 017050 2 GNKKKRGGLEPELKEA--ATGE-NHESQNELSLANGDSSSCDNKKKKKRKRDQ 51 (378)
Q Consensus 2 ~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 (378)
++-.|-||--+|--|. +.++ |+.+.+-...+...++..|||||||+++.+
T Consensus 48 ~~l~kd~~~~nee~e~~~~~ee~de~~~~~es~~~~~~~~sk~k~KKK~krkk 100 (665)
T KOG2422|consen 48 NNLRKDGGQMNEEDEEAAIAEERDEPSVGQESRITLASKSSKNKKKKKKKRKK 100 (665)
T ss_pred ccccccccccchhhHHhhhhhcccCcccCCcccccccchhhccccchhhhhcc
Confidence 4444555554444332 3333 333333333355556666655555555444
No 13
>COG4752 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.95 E-value=4.6 Score=37.15 Aligned_cols=74 Identities=20% Similarity=0.223 Sum_probs=46.7
Q ss_pred EEEeCChHHHHhcCCCC-CCCcEEEEeCCCCCccCCCCC-----C-CCCCCcEEEEEcCccchhhhhhcccccccccccc
Q 017050 254 VRYAPNISSVFKNCSYK-GGYDHLIGTSEHGDIVNSSDL-----T-LPTFRHLLIAFGGLAGLEESIEEDDGLKRKNARE 326 (378)
Q Consensus 254 VR~a~sLs~vf~e~p~~-~gYD~~IgTS~~G~~i~~~~~-----~-lp~~~h~LIVFGg~~GLe~~~~~d~~l~~~~~~~ 326 (378)
||++.+|.+|+++..-. |.--++|+||.+--+ ++... + ....+..||+||---||-.-+. .
T Consensus 85 v~l~~~le~ViEdIEk~eG~rPLi~~TsAr~~~-N~isy~~lr~~I~e~dkp~LilfGTGwGlpde~m-----------~ 152 (190)
T COG4752 85 VRLAYTLEEVIEDIEKEEGRRPLIVGTSARTYP-NTISYSWLRNEIQERDKPWLILFGTGWGLPDELM-----------N 152 (190)
T ss_pred HhHHHHHHHHHHHHHhhcCCCceEEeccccccC-CcccHHHHHHHHhhcCCcEEEEecCCCCCCHHHH-----------H
Confidence 77788899999876443 456789999986332 11111 1 1245789999998777765444 3
Q ss_pred cCceEEecCCCCC
Q 017050 327 VFHSYFNTCPHQG 339 (378)
Q Consensus 327 ~FD~~lNt~P~QG 339 (378)
.||+.|..+-.|+
T Consensus 153 ~sDYiLEPIra~s 165 (190)
T COG4752 153 TSDYILEPIRAAS 165 (190)
T ss_pred HhhHhhhhhhccC
Confidence 4566665544443
No 14
>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=50.92 E-value=10 Score=35.71 Aligned_cols=97 Identities=22% Similarity=0.236 Sum_probs=44.7
Q ss_pred CCcccceEEEEeCChHHHHhcCCCCCCCcEEEEeCCCCCcc-CCCCCCCCCC-C-cEEEEEcCccchhhhhhcccccccc
Q 017050 246 SGMYWGYKVRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIV-NSSDLTLPTF-R-HLLIAFGGLAGLEESIEEDDGLKRK 322 (378)
Q Consensus 246 ~G~YWGY~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i-~~~~~~lp~~-~-h~LIVFGg~~GLe~~~~~d~~l~~~ 322 (378)
.|-.|=-.|....+|.+++... ..+++.|.- +.+... .......... + .++|+.|-=-|+.+ +|
T Consensus 125 s~r~~~P~i~~~~~l~~~l~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~i~IGPEGGfs~----~E----- 191 (225)
T PF04452_consen 125 SGRTRLPEIEPPISLKELLEDI---PDEDLLILD-EDEEPSLSSLSEILNSEKSFSIAIIIGPEGGFSE----EE----- 191 (225)
T ss_dssp HT-SS--EEEEEEEHHHHHHHS---SECSEEEE--TTTTCBGGGCSHTTSCHHC-EEEEEE--TT---H----HH-----
T ss_pred cCCCccceeeccccHHHHhhcc---ccCCEEEEc-ccccccccchhhhhhcccCCcEEEEECCCCCCCH----HH-----
Confidence 3456677788877899999876 345554443 433322 1111111111 1 67777764344321 11
Q ss_pred cccccCceEEecCCCCCccccchhHHHHHHHhhcc
Q 017050 323 NAREVFHSYFNTCPHQGSRTIRTEEAIFISLQYFQ 357 (378)
Q Consensus 323 ~~~~~FD~~lNt~P~QGsrTIRTEEAvlItLa~L~ 357 (378)
...+-+.-+..+ +-|.+..|||=|.+.+||+++
T Consensus 192 -~~~~~~~g~~~v-sLG~~ILR~ETAai~als~l~ 224 (225)
T PF04452_consen 192 -IEFLKEAGFQPV-SLGPRILRTETAAIAALSILQ 224 (225)
T ss_dssp -HHHHHHCTEEEE-B-SSS---HHHHHHHHHHHHH
T ss_pred -HHHHHHCCCEEE-EcCCCEEehHHHHHHHHHHhh
Confidence 000001112222 357899999999999999886
No 15
>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=48.98 E-value=5.5 Score=36.14 Aligned_cols=73 Identities=23% Similarity=0.378 Sum_probs=39.4
Q ss_pred CcEEEEeCCCCCccCCCCCC-------CCCCCcEEEEEcCccchhhhhhcccccccccccccCceEEe----cCCCCCcc
Q 017050 273 YDHLIGTSEHGDIVNSSDLT-------LPTFRHLLIAFGGLAGLEESIEEDDGLKRKNAREVFHSYFN----TCPHQGSR 341 (378)
Q Consensus 273 YD~~IgTS~~G~~i~~~~~~-------lp~~~h~LIVFGg~~GLe~~~~~d~~l~~~~~~~~FD~~lN----t~P~QGsr 341 (378)
-+++|.-.++|+.++|.++. ..+..++.++.||+.|+.+.+.+. .|..|. |.|+|=.|
T Consensus 67 ~~~~i~Ld~~Gk~~sS~~fA~~l~~~~~~g~~~i~F~IGG~~G~~~~~~~~-----------a~~~lSLS~mTfpH~lar 135 (155)
T PF02590_consen 67 NDYVILLDERGKQLSSEEFAKKLERWMNQGKSDIVFIIGGADGLSEEVRKR-----------ADEKLSLSKMTFPHQLAR 135 (155)
T ss_dssp TSEEEEE-TTSEE--HHHHHHHHHHHHHTTS-EEEEEE-BTTB--HHHHHH------------SEEEES-SS---HHHHH
T ss_pred CCEEEEEcCCCccCChHHHHHHHHHHHhcCCceEEEEEecCCCCCHHHHhh-----------cCceEEEecCCCcHHHHH
Confidence 46789999999998875432 123459999999999998877642 122233 66887666
Q ss_pred ccchhHHHHHHHhhcc
Q 017050 342 TIRTEEAIFISLQYFQ 357 (378)
Q Consensus 342 TIRTEEAvlItLa~L~ 357 (378)
-|=. |-|.=|.++++
T Consensus 136 lvL~-EQiYRA~tI~~ 150 (155)
T PF02590_consen 136 LVLL-EQIYRAFTILN 150 (155)
T ss_dssp HHHH-HHHHHHHHHHT
T ss_pred HHHH-HHHHHHHHHHc
Confidence 5533 34555555554
No 16
>PRK15114 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional
Probab=44.50 E-value=1.1e+02 Score=29.60 Aligned_cols=83 Identities=14% Similarity=0.170 Sum_probs=46.0
Q ss_pred EEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCC----------CCCCCCcEEEEEcCc-cchhhhhhcccccccc
Q 017050 254 VRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDL----------TLPTFRHLLIAFGGL-AGLEESIEEDDGLKRK 322 (378)
Q Consensus 254 VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~----------~lp~~~h~LIVFGg~-~GLe~~~~~d~~l~~~ 322 (378)
+++.++|.+++..| +++|||+.++..+..... .......+.||||.= .||....-
T Consensus 60 a~i~~~l~eal~~~------~~vvatt~r~~~~~~~~~~~~~~~~~~~~~~~~~~~alVFG~E~~GLs~e~l-------- 125 (245)
T PRK15114 60 ATIVDTLDEALAGC------SLVVGTSARSRTLPWPMLDPRECGLKSVAEAANAPVALVFGRERVGLTNDEL-------- 125 (245)
T ss_pred CeEecCHHHHHhcC------CEEEEEcCCccCCcccccCHHHHHHHHHhhccCCCEEEEECCCCCCCCHHHH--------
Confidence 44566899998866 469999977643221100 001234699999995 66653222
Q ss_pred cccccCceEEecCCC---CCccccchhHHHHHHHhhc
Q 017050 323 NAREVFHSYFNTCPH---QGSRTIRTEEAIFISLQYF 356 (378)
Q Consensus 323 ~~~~~FD~~lNt~P~---QGsrTIRTEEAvlItLa~L 356 (378)
++-|..+. +|. ..|-.+ =-|+.|.|--|
T Consensus 126 ---~~cd~~v~-IP~~~~~~SLNl--a~AvaI~lYE~ 156 (245)
T PRK15114 126 ---QKCHYHVA-IAANPEYSSLNL--AMAVQVIAYEV 156 (245)
T ss_pred ---HhCCeEEE-ecCCCCCCcccH--HHHHHHHHHHH
Confidence 23344443 443 334444 45666665433
No 17
>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=41.84 E-value=84 Score=27.02 Aligned_cols=53 Identities=25% Similarity=0.521 Sum_probs=36.7
Q ss_pred EEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCCCCCCCcEEEEEcCc-cchhhh
Q 017050 254 VRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLTLPTFRHLLIAFGGL-AGLEES 312 (378)
Q Consensus 254 VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~lp~~~h~LIVFGg~-~GLe~~ 312 (378)
++...++.+.+.++... ||. +++++..++.+.+ ...+ +++++|||+= .||-+.
T Consensus 58 ~~~~~~~~~~l~~~~~~-g~~-i~~~~~~~~~~~~--~~~~--~~~~lv~G~E~~Gls~~ 111 (142)
T PF00588_consen 58 IRRVDDLEEALKDLKEN-GYT-IVATSPGATPLYE--LDFP--KKVALVFGNESRGLSEE 111 (142)
T ss_dssp EEEESSHHHHHHHHHHT-TEE-EEEESTTSCEGGG--SHTT--SSEEEEEEBTTTBS-HH
T ss_pred eeeeehhhhhccccccc-ccc-cceeeeccccccc--cccc--cceEEEEcCcCCCCCcc
Confidence 66777899988887654 565 5788877776653 2333 5899999996 566543
No 18
>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=41.48 E-value=1.3e+02 Score=28.79 Aligned_cols=56 Identities=21% Similarity=0.345 Sum_probs=35.2
Q ss_pred ccceEEEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCC--------CCCCCcEEEEEcCc-cchh
Q 017050 249 YWGYKVRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLT--------LPTFRHLLIAFGGL-AGLE 310 (378)
Q Consensus 249 YWGY~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~--------lp~~~h~LIVFGg~-~GLe 310 (378)
.|--.+++.++|.+.+..| +++|||+.++..+...... .....++.||||.= .||.
T Consensus 54 ~~l~~~~v~~~l~eal~~~------~~vv~tt~~~~~~~~~~~~~~~~~~~~~~~~~~~aLvFG~E~~GL~ 118 (233)
T TIGR00050 54 DILDNAKVVDDLDEALDDC------DLVVGTSARSRNLQRPLLTPRELAPKLVAYKGKIAIVFGREDSGLT 118 (233)
T ss_pred HhhccCEEECCHHHHHhcC------CEEEEECCCcCCCCCCcCCHHHHHHHHHhhcCCEEEEECCCCCCCC
Confidence 4444557778899999865 5799999765443221110 01124799999994 6664
No 19
>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=40.91 E-value=18 Score=34.07 Aligned_cols=61 Identities=23% Similarity=0.314 Sum_probs=28.6
Q ss_pred EEEeCChHHHHhcCCCC-CCCcEEEEeCCCC-Cc-cCCCCC--CC-CCCCcEEEEEcCccchhhhhh
Q 017050 254 VRYAPNISSVFKNCSYK-GGYDHLIGTSEHG-DI-VNSSDL--TL-PTFRHLLIAFGGLAGLEESIE 314 (378)
Q Consensus 254 VR~a~sLs~vf~e~p~~-~gYD~~IgTS~~G-~~-i~~~~~--~l-p~~~h~LIVFGg~~GLe~~~~ 314 (378)
|++++||.+++.+..-. |..=++|+||-+- .. ++-.++ .+ ...+-+||+||---||.+-+.
T Consensus 84 v~~~~sle~a~~~I~~~~G~~P~~v~TsAr~~~~~is~~~lr~~l~~~~~P~LllFGTGwGL~~ev~ 150 (185)
T PF09936_consen 84 VRVVDSLEEAIEDIEEEEGKRPLLVATSARKYPNTISYAELRRMLEEEDRPVLLLFGTGWGLAPEVM 150 (185)
T ss_dssp EEEESSHHHHHHHHHHHHSS--EEEE--SS--SS-B-HHHHHHHHHH--S-EEEEE--TT---HHHH
T ss_pred hccHhhHHHHHHHHHHHhCCCCEEEEecCcCCCCCcCHHHHHHHHhccCCeEEEEecCCCCCCHHHH
Confidence 77788899988864332 3456789999772 21 111001 01 134579999998778865554
No 20
>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=38.39 E-value=28 Score=30.04 Aligned_cols=24 Identities=25% Similarity=0.458 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhhhcccEEEEEcCC
Q 017050 83 RLAGQIARAVTIFRIDEVVVFDNK 106 (378)
Q Consensus 83 ~~agqIARAaaIF~VdEIVVydd~ 106 (378)
.=+|-|+|+|.-|+++.|++-+..
T Consensus 13 ~NlG~i~Rta~afG~~~v~l~~~~ 36 (142)
T PF00588_consen 13 GNLGAIIRTAAAFGVDGVILVGPR 36 (142)
T ss_dssp HHHHHHHHHHHHTTESEEEEESSS
T ss_pred CcHHHHHHHHHHhCCchhheeccc
Confidence 358999999999999999997643
No 21
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=33.24 E-value=49 Score=26.21 Aligned_cols=62 Identities=15% Similarity=0.142 Sum_probs=39.2
Q ss_pred ceEEEeCCCce-eeecccCCCCcEEEEEecCCCC-CCCCCCceecCCCCCCCCCcccceEEEEeC
Q 017050 196 GTLVDVGLNKH-VVVDQVLDPGVRVTVAMGTNRN-LDADSPRQVVPPSKPKESGMYWGYKVRYAP 258 (378)
Q Consensus 196 gs~VdiGl~k~-v~i~~~l~~g~RVTV~l~~~~~-~~~~~~~~vVsp~~p~~~G~YWGY~VR~a~ 258 (378)
+...|+...-. +..+..+++|.+|.|++.-... ..-...++||.-......+ +.||.|+..+
T Consensus 19 ~~~~diS~gG~~~~~~~~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~~~~~-~~~~Gv~F~~ 82 (96)
T TIGR02266 19 DYSINLSKGGLFIRTRKPLAVGTRVELKLTLPGGERPVELKGVVAWVRPAADGG-PPGMGVRFED 82 (96)
T ss_pred HHhhhcCCceEEEecCCCcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCCCCCC-CCeeEEEecc
Confidence 44567766654 3457789999999999853221 1113468888765444333 4588998775
No 22
>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=32.09 E-value=36 Score=32.59 Aligned_cols=23 Identities=35% Similarity=0.520 Sum_probs=20.7
Q ss_pred HHHHHHHHhhhcccEEEEEcCCC
Q 017050 85 AGQIARAVTIFRIDEVVVFDNKS 107 (378)
Q Consensus 85 agqIARAaaIF~VdEIVVydd~~ 107 (378)
+|-|||+|.-|+++.+++-+...
T Consensus 17 iGaiaR~~~~fG~~~l~lv~p~~ 39 (233)
T TIGR00050 17 IGSIARAMKNMGLTELCLVNPKS 39 (233)
T ss_pred HHHHHHHHHhCCCCEEEEeCCCc
Confidence 79999999999999999997653
No 23
>PF10646 Germane: Sporulation and spore germination; InterPro: IPR019606 The GerMN domain is a region of approximately 100 residues that is found, duplicated, in the Bacillus GerM protein and is implicated in both sporulation and spore germination. It is also found in lipoprotein LpqB. The domain is present in a number of different bacterial species both alone and in association with other domains such as Gmad1 and Gmad2. It is predicted to have a novel alpha-beta fold.
Probab=30.42 E-value=1.2e+02 Score=24.93 Aligned_cols=45 Identities=18% Similarity=0.270 Sum_probs=36.4
Q ss_pred eEEEEecCccccCCCCHHHHHHHHHHHHHHHh-hhc-ccEEEEEcCCC
Q 017050 62 TVSVAVPGSIIDNTQSLELATRLAGQIARAVT-IFR-IDEVVVFDNKS 107 (378)
Q Consensus 62 tvSIAIP~SIlsnaqslelkT~~agqIARAaa-IF~-VdEIVVydd~~ 107 (378)
++.|=+..+++.. .+......+++||..+++ -|. |++|.|+=|+.
T Consensus 65 ~~~Vd~s~~~~~~-~~~~~~~~~~~~i~~Tl~~~~~~v~~V~i~vdG~ 111 (117)
T PF10646_consen 65 TLTVDFSSEFLNF-LGSSQEALLLAQIVNTLTEQFPGVKKVQILVDGK 111 (117)
T ss_pred EEEEECCHHHhhc-CChHHHHHHHHHHHHHHHHhcCCccEEEEEECCE
Confidence 5666667767665 666677899999999999 999 99999997763
No 24
>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=28.48 E-value=72 Score=30.49 Aligned_cols=23 Identities=35% Similarity=0.492 Sum_probs=19.8
Q ss_pred CCccccchhHHHHHHHhhcchhH
Q 017050 338 QGSRTIRTEEAIFISLQYFQEPI 360 (378)
Q Consensus 338 QGsrTIRTEEAvlItLa~L~~~~ 360 (378)
-|.|..|||=|.+.+||.++..+
T Consensus 215 LG~rILR~ETA~i~als~~~~~~ 237 (240)
T TIGR00046 215 LGPRILRTETAPLYALSILQALL 237 (240)
T ss_pred cCCcchhhccHHHHHHHHHHHHh
Confidence 48899999999999999987543
No 25
>KOG2201 consensus Pantothenate kinase PanK and related proteins [Coenzyme transport and metabolism]
Probab=27.47 E-value=63 Score=33.35 Aligned_cols=27 Identities=26% Similarity=0.141 Sum_probs=22.3
Q ss_pred CHHHHHHHHHHHHHHHh-hhcccEEEEE
Q 017050 77 SLELATRLAGQIARAVT-IFRIDEVVVF 103 (378)
Q Consensus 77 slelkT~~agqIARAaa-IF~VdEIVVy 103 (378)
.|...|+=+|||||-+| +++|++|++=
T Consensus 284 lL~mIsnNIGqiAyl~A~~~ni~rV~Fg 311 (371)
T KOG2201|consen 284 LLRMISNNIGQIAYLCALNENIKRVYFG 311 (371)
T ss_pred HHHHHHhhHHHHHHHHHHHhCccEEEEe
Confidence 45678889999999866 7999999764
No 26
>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=25.47 E-value=1.9e+02 Score=24.92 Aligned_cols=51 Identities=18% Similarity=0.186 Sum_probs=31.6
Q ss_pred ceEEEEeCChHHHHhcCCCCCCCcEEEEeCCCCCccCCCCCCCCCCCcEEEEEcCc
Q 017050 251 GYKVRYAPNISSVFKNCSYKGGYDHLIGTSEHGDIVNSSDLTLPTFRHLLIAFGGL 306 (378)
Q Consensus 251 GY~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~G~~i~~~~~~lp~~~h~LIVFGg~ 306 (378)
|=++-+..+|.++.+=. +-|.++..++.+...... ..+...+++||||+|-
T Consensus 19 gk~livlpdl~DAiEvl----~p~~V~~i~~~~~~~~~~-~~~~~~~rvllVf~G~ 69 (106)
T PF09895_consen 19 GKSLIVLPDLKDAIEVL----KPDVVYLISRSGEEEEKL-EFLKIEGRVLLVFSGS 69 (106)
T ss_pred CCcEEEeCCHHHHHHhc----CCcEEEEEcCcccccccc-cccCcCCcEEEEEeCC
Confidence 34566666677666533 457787777666544321 1233456899999997
No 27
>PRK15114 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional
Probab=25.47 E-value=62 Score=31.37 Aligned_cols=22 Identities=18% Similarity=0.371 Sum_probs=20.2
Q ss_pred HHHHHHHHhhhcccEEEEEcCC
Q 017050 85 AGQIARAVTIFRIDEVVVFDNK 106 (378)
Q Consensus 85 agqIARAaaIF~VdEIVVydd~ 106 (378)
+|-|||+|.-|+++++++-...
T Consensus 18 iGaiaRa~~~fG~~~l~lv~p~ 39 (245)
T PRK15114 18 MGSVARAMKTMGLTNLWLVNPL 39 (245)
T ss_pred HHHHHHHHHhcCCCEEEEeCCC
Confidence 7999999999999999998764
No 28
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=21.50 E-value=74 Score=30.38 Aligned_cols=20 Identities=30% Similarity=0.451 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhhcccEEEEE
Q 017050 84 LAGQIARAVTIFRIDEVVVF 103 (378)
Q Consensus 84 ~agqIARAaaIF~VdEIVVy 103 (378)
=+|-|.|+|.-|+++.||+=
T Consensus 103 NlGaI~Rta~afG~~~vil~ 122 (237)
T TIGR00186 103 NLGAILRTAEAFGVDGVILP 122 (237)
T ss_pred cHHHHHHHHHHcCCCEEEEC
Confidence 37999999999999998764
No 29
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=20.85 E-value=64 Score=33.86 Aligned_cols=95 Identities=20% Similarity=0.190 Sum_probs=57.5
Q ss_pred EEEEeCChHHHHhcCCCCCCCcEEEEeCCC---CCcc--CCC---CCC-CCCCCcEEEEEcC-ccchhhhhhccccc--c
Q 017050 253 KVRYAPNISSVFKNCSYKGGYDHLIGTSEH---GDIV--NSS---DLT-LPTFRHLLIAFGG-LAGLEESIEEDDGL--K 320 (378)
Q Consensus 253 ~VR~a~sLs~vf~e~p~~~gYD~~IgTS~~---G~~i--~~~---~~~-lp~~~h~LIVFGg-~~GLe~~~~~d~~l--~ 320 (378)
+.+.++.+..=-.+.|+++-|+++|.+.+- |... ... ... +....|++||=-| |+|.+.+..+..-| .
T Consensus 166 td~r~s~vt~dRl~lp~ad~ytl~i~~~eLl~d~~ek~i~~~ie~lw~l~~~gg~lVivErGtp~Gf~~I~rAR~~ll~~ 245 (484)
T COG5459 166 TDWRASDVTEDRLSLPAADLYTLAIVLDELLPDGNEKPIQVNIERLWNLLAPGGHLVIVERGTPAGFERILRARQILLAP 245 (484)
T ss_pred CCCCCCccchhccCCCccceeehhhhhhhhccccCcchHHHHHHHHHHhccCCCeEEEEeCCCchhHHHHHHHHHHHhcC
Confidence 455555544444556888899999998642 2211 000 000 1125788888655 59999888764322 1
Q ss_pred ccc--ccccCceEEecCCCCCccccchhH
Q 017050 321 RKN--AREVFHSYFNTCPHQGSRTIRTEE 347 (378)
Q Consensus 321 ~~~--~~~~FD~~lNt~P~QGsrTIRTEE 347 (378)
+.. --.+|-+.+-.||+||-=.+-.+-
T Consensus 246 ~~~~~e~~~~ahiiAPCPH~~~CPl~v~n 274 (484)
T COG5459 246 GNFPDEFNYFAHIIAPCPHQRKCPLQVPN 274 (484)
T ss_pred CCCccccccceeeeccCCCCCCCCccCCC
Confidence 111 226677888999999987777773
No 30
>PF10246 MRP-S35: Mitochondrial ribosomal protein MRP-S35; InterPro: IPR019375 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of short mitochondrial ribosomal proteins, less than 200 amino acids long. MRP-S35 was proposed as a more appropriate name to this group of proteins [].
Probab=20.69 E-value=3.3e+02 Score=23.56 Aligned_cols=45 Identities=18% Similarity=0.159 Sum_probs=32.9
Q ss_pred cCCceeEEEeeccCCCCCceEEEeCCCceeeec------ccCCCCcEEEEEecC
Q 017050 178 WAPFREGVTLKENAPNSVGTLVDVGLNKHVVVD------QVLDPGVRVTVAMGT 225 (378)
Q Consensus 178 ~~~yREGvvv~~~~~~~~gs~VdiGl~k~v~i~------~~l~~g~RVTV~l~~ 225 (378)
.+.-=.|-|...- ..--|||.|..=+..+. +.+..|+||.|+++.
T Consensus 23 ~gk~V~G~I~hvv---~ddLYIDfG~KFhcVc~rp~~~~~~y~~G~rV~lrLkd 73 (104)
T PF10246_consen 23 EGKIVIGKIFHVV---DDDLYIDFGGKFHCVCKRPAVNGEKYVRGSRVRLRLKD 73 (104)
T ss_pred cCCEEEEEEEEEe---cCceEEEeCCceeEEEecccccccccccCCEEEEEECC
Confidence 4455566665553 55789999998776664 348999999999983
No 31
>KOG2367 consensus Alpha-isopropylmalate synthase/homocitrate synthase [Amino acid transport and metabolism]
Probab=20.61 E-value=61 Score=34.99 Aligned_cols=20 Identities=10% Similarity=0.164 Sum_probs=17.3
Q ss_pred HHhhhcCChhhhhhhcCCCC
Q 017050 137 LLQYLETPQYLRKALFSMHS 156 (378)
Q Consensus 137 lLqYleTPpYLRK~LFP~h~ 156 (378)
+.-|+-|-+++||..|.+..
T Consensus 150 Vh~~~aTSd~~rey~~~ksk 169 (560)
T KOG2367|consen 150 VHVFIATSDIHREYKLKKSK 169 (560)
T ss_pred EEEEecccHHHHHHHhcccH
Confidence 66688999999999999874
No 32
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=20.09 E-value=82 Score=30.29 Aligned_cols=20 Identities=20% Similarity=0.190 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhhcccEEEEE
Q 017050 84 LAGQIARAVTIFRIDEVVVF 103 (378)
Q Consensus 84 ~agqIARAaaIF~VdEIVVy 103 (378)
=+|-|.|+|.-|+|+.||+-
T Consensus 108 NlGai~Rta~a~G~~~vi~~ 127 (244)
T PRK11181 108 NLGACLRSADAAGVHAVIVP 127 (244)
T ss_pred hHHHHHHHHHHcCCCEEEEC
Confidence 37999999999999999874
Done!