Query 020502
Match_columns 325
No_of_seqs 127 out of 576
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 02:54:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020502.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020502hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2869 Meiotic cell division 100.0 1E-93 2.2E-98 656.2 27.6 324 1-324 1-324 (379)
2 TIGR00111 pelota probable tran 100.0 2.3E-86 4.9E-91 637.0 40.1 303 1-318 1-304 (351)
3 COG1537 PelA Predicted RNA-bin 100.0 5.1E-81 1.1E-85 583.4 35.6 305 1-324 1-305 (352)
4 TIGR00108 eRF peptide chain re 100.0 2.9E-50 6.3E-55 393.3 15.3 280 11-317 20-318 (409)
5 TIGR03676 aRF1/eRF1 peptide ch 100.0 2E-47 4.3E-52 372.3 22.9 265 24-317 35-314 (403)
6 PRK04011 peptide chain release 100.0 3.8E-45 8.3E-50 357.5 28.3 279 15-319 29-324 (411)
7 PF03463 eRF1_1: eRF1 domain 1 100.0 2.1E-39 4.5E-44 271.2 8.5 130 1-130 1-131 (132)
8 COG1503 eRF1 Peptide chain rel 100.0 5.9E-35 1.3E-39 279.4 12.7 277 15-318 29-322 (411)
9 PF03464 eRF1_2: eRF1 domain 2 100.0 3.9E-29 8.4E-34 209.4 15.7 126 136-268 1-133 (133)
10 KOG0688 Peptide chain release 99.9 5.8E-28 1.3E-32 222.0 7.4 228 73-317 82-322 (431)
11 PF03465 eRF1_3: eRF1 domain 3 99.4 2.1E-13 4.5E-18 111.1 5.7 52 271-322 1-52 (113)
12 PF10116 Host_attach: Protein 95.4 0.054 1.2E-06 45.3 6.9 91 138-228 2-117 (138)
13 PF01248 Ribosomal_L7Ae: Ribos 71.0 9.6 0.00021 29.3 4.9 38 279-317 4-41 (95)
14 PRK07283 hypothetical protein; 66.8 6.5 0.00014 30.9 3.2 32 286-317 13-44 (98)
15 PRK07714 hypothetical protein; 64.7 16 0.00036 28.6 5.1 36 281-317 9-44 (100)
16 PRK05583 ribosomal protein L7A 64.1 7.7 0.00017 30.9 3.1 32 286-317 12-43 (104)
17 TIGR01175 pilM type IV pilus a 63.0 97 0.0021 29.4 11.1 90 137-226 190-307 (348)
18 PTZ00106 60S ribosomal protein 62.4 16 0.00035 29.3 4.7 39 278-317 13-51 (108)
19 PRK13602 putative ribosomal pr 61.1 16 0.00034 27.7 4.2 28 290-317 10-37 (82)
20 PRK04175 rpl7ae 50S ribosomal 60.9 21 0.00045 29.3 5.2 38 279-317 19-56 (122)
21 PF03485 Arg_tRNA_synt_N: Argi 60.2 10 0.00022 28.6 3.0 29 185-213 52-81 (85)
22 PF08032 SpoU_sub_bind: RNA 2' 58.3 13 0.00029 26.9 3.3 24 293-316 2-26 (76)
23 PRK01018 50S ribosomal protein 57.2 25 0.00055 27.6 4.9 29 289-317 14-42 (99)
24 COG1855 ATPase (PilT family) [ 55.4 1E+02 0.0022 31.5 9.7 80 137-227 202-289 (604)
25 PRK13601 putative L7Ae-like ri 54.1 20 0.00044 27.3 3.8 29 289-317 6-34 (82)
26 TIGR03677 rpl7ae 50S ribosomal 53.9 34 0.00074 27.7 5.3 30 288-317 23-52 (117)
27 PRK06683 hypothetical protein; 53.0 27 0.00059 26.5 4.3 30 288-317 8-37 (82)
28 PRK13600 putative ribosomal pr 50.9 26 0.00056 26.9 3.9 26 292-317 14-39 (84)
29 PRK09557 fructokinase; Reviewe 48.8 64 0.0014 30.1 7.1 47 181-227 224-270 (301)
30 PRK05082 N-acetylmannosamine k 48.0 41 0.00088 31.2 5.6 47 181-227 213-259 (291)
31 COG1105 FruK Fructose-1-phosph 45.2 83 0.0018 30.2 7.2 109 117-260 63-178 (310)
32 COG1358 RPL8A Ribosomal protei 44.8 43 0.00094 27.3 4.5 30 288-317 24-53 (116)
33 PRK13310 N-acetyl-D-glucosamin 37.0 1.2E+02 0.0025 28.3 6.9 47 181-227 225-271 (303)
34 PRK09190 hypothetical protein; 36.9 1E+02 0.0022 28.0 6.1 32 286-317 106-137 (220)
35 smart00536 AXH domain in Ataxi 34.3 1.6E+02 0.0034 24.1 6.2 80 13-125 12-93 (116)
36 COG0018 ArgS Arginyl-tRNA synt 32.5 80 0.0017 32.9 5.3 61 187-247 57-126 (577)
37 PF04628 Sedlin_N: Sedlin, N-t 32.0 2.7E+02 0.0058 22.8 7.5 70 121-197 36-106 (132)
38 COG1911 RPL30 Ribosomal protei 29.2 86 0.0019 24.8 3.7 30 288-317 16-45 (100)
39 PF11104 PilM_2: Type IV pilus 28.7 3.3E+02 0.0071 25.9 8.6 89 136-226 181-299 (340)
40 COG4972 PilM Tfp pilus assembl 27.9 1.2E+02 0.0025 29.5 5.1 47 179-225 258-311 (354)
41 PRK15080 ethanolamine utilizat 26.4 1.5E+02 0.0032 27.5 5.5 45 181-225 201-245 (267)
42 PF00158 Sigma54_activat: Sigm 25.6 2E+02 0.0044 24.6 5.9 55 181-248 7-61 (168)
43 PRK10439 enterobactin/ferric e 25.3 1E+02 0.0023 30.5 4.6 49 214-262 262-312 (411)
44 PF01336 tRNA_anti-codon: OB-f 24.7 1.2E+02 0.0026 21.3 3.7 33 10-43 23-55 (75)
45 CHL00200 trpA tryptophan synth 24.1 3.6E+02 0.0078 25.1 7.6 21 199-219 142-162 (263)
46 COG1940 NagC Transcriptional r 23.6 1.8E+02 0.0039 27.1 5.7 46 182-227 228-275 (314)
47 PF07116 DUF1372: Protein of u 23.5 1.2E+02 0.0026 24.2 3.6 36 81-119 56-91 (104)
48 PF09345 DUF1987: Domain of un 22.8 69 0.0015 25.3 2.2 22 71-92 2-23 (99)
49 PTZ00288 glucokinase 1; Provis 22.6 6.3E+02 0.014 25.1 9.4 87 118-210 5-101 (405)
50 KOG0283 WD40 repeat-containing 21.7 7.3E+02 0.016 26.7 10.0 87 68-169 411-497 (712)
51 TIGR00744 ROK_glcA_fam ROK fam 21.5 2.9E+02 0.0063 25.7 6.7 47 181-227 231-278 (318)
52 PRK09698 D-allose kinase; Prov 20.1 3.4E+02 0.0073 25.1 6.8 47 181-227 216-263 (302)
No 1
>KOG2869 consensus Meiotic cell division protein Pelota/DOM34 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1e-93 Score=656.22 Aligned_cols=324 Identities=56% Similarity=0.902 Sum_probs=319.5
Q ss_pred CeeeeeecccCCCceEEEeccCchhHHHHHHhhCCCCeEEEEeEEEEEecccCCCccceEEEEEEEEEEEEEeecCCCCe
Q 020502 1 MKILRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSV 80 (325)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~pE~~dDlw~Lynli~~GD~V~a~T~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~ 80 (325)
||++++++.++|.|.|+++||++|||||+||+|++||.|+|.|.|||+.+.++|+++++|+.++|+|+||+++||+.+..
T Consensus 1 MKli~K~~~rng~G~vtmvpEe~eDmw~~ynli~~gD~v~a~T~rkvq~e~a~G~~~s~rv~~~L~i~VesidfD~~~~~ 80 (379)
T KOG2869|consen 1 MKLIRKDIERNGSGSVTMVPEESEDLWHLYNLIQVGDSVIASTIRKVQKEEATGKTKSSRVLLKLKIKVESIDFDTKACV 80 (379)
T ss_pred CccchhhhhcCCCceEEECcCchhHHHHHHhhccCCceeEEEEEEEeeeccccCcccceEEEEEEEEEEEEeeccccccE
Confidence 99999999999999999999999999999999999999999999999999888988889999999999999999999999
Q ss_pred EEEEEEEeecCcccccccEEEEEEccCcceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEecceEEEE
Q 020502 81 LRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITR 160 (325)
Q Consensus 81 Lri~G~i~~~~e~v~~G~~HTl~i~~~~~i~i~K~~wd~~~le~L~ea~~~~~~~~~~~vvid~g~A~i~ll~~~~~~~~ 160 (325)
||++|+++++|++|++|+|||++|+|+++|++.|++||++.+++|++||++..++++++|+++||.|+||+++.++|..+
T Consensus 81 L~~KGrti~eNe~Vk~GaYHTidlel~r~FtL~K~ewds~al~~l~~A~dp~~~ad~aaVvlqEGla~IcLvt~s~tilr 160 (379)
T KOG2869|consen 81 LRLKGRTIEENEYVKMGAYHTIDLELNRPFTLRKEEWDSMALKLLKEACDPAPSADVAAVVLQEGLAHICLVTKSSTILR 160 (379)
T ss_pred EEEeeeeeeecccccccceeEEEeccCCceEEEhhhchHHHHHHHHHhhCcccccceeeeehhcCceeEEEechhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEecCCCCCCCccchhHHHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHhccccccccccCcE
Q 020502 161 SRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRI 240 (325)
Q Consensus 161 ~~i~~~ip~K~~~~~s~~~~~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~~~~~~~~~~~~k~ 240 (325)
++|+.+||+||+++.|++++.+++||++|.+++.++++|+.++|+|||||||+++.|++|+.+++.+..++.+..|++||
T Consensus 161 ~kIe~siPrKr~~~~s~~e~~l~kfye~V~qA~~k~v~fd~vk~~vvASpgF~~~~~~d~~~q~A~~~~~k~il~nk~kf 240 (379)
T KOG2869|consen 161 AKIEVSIPRKRKGDVSQHEEGLEKFYENVVQAILKHVNFDVVKCVVVASPGFVKDQFMDYLFQQAVKLDLKLILENKSKF 240 (379)
T ss_pred HhhhcccccccCcchhHHHHHHHHHHHHHHHHHHHhcCcceEEEEEEcCCchhHHHHHHHHHHHHHHhchhhhhhcccce
Confidence 99999999998888889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCCCccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCCccc
Q 020502 241 ILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRL 320 (325)
Q Consensus 241 ~v~~~s~g~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l~r~ 320 (325)
..+|+|+|+.++|+|+|.+|.|.+.|+|+|++.|+++||+|+.+++++|++||||++||.+|+|+|||+||||||++||+
T Consensus 241 ~~~h~ssg~~hslnevL~dp~v~~~l~dtK~~~EvkalddF~~~l~~~~drA~yG~khV~~A~e~~AI~tLLitD~lfr~ 320 (379)
T KOG2869|consen 241 PLVHASSGYKHSLNEVLKDPAVASKLQDTKAAKEVKALDDFYVMLSKDPDRACYGPKHVEKANEYGAIETLLITDELFRS 320 (379)
T ss_pred eEEecCCchHHHHHHHhcChHHHHHhhchhhHHHHHHHHHHHHHhccCccccccCHHHHHHHHhhcchhheehhhhhccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCC
Q 020502 321 VCSK 324 (325)
Q Consensus 321 ~d~~ 324 (325)
.|++
T Consensus 321 ~DV~ 324 (379)
T KOG2869|consen 321 QDVA 324 (379)
T ss_pred ccHH
Confidence 9985
No 2
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=100.00 E-value=2.3e-86 Score=637.03 Aligned_cols=303 Identities=28% Similarity=0.495 Sum_probs=287.1
Q ss_pred CeeeeeecccCCCceEEEeccCchhHHHHHHhhCCCCeEEEEeEEEEEecccCCCccceEEEEEEEEEEEEEeecCCCCe
Q 020502 1 MKILRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSV 80 (325)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~pE~~dDlw~Lynli~~GD~V~a~T~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~ 80 (325)
|||++++. ++++|.|+|.||++||||||||||++||.|+|+|+|+|+++..+|+.+ +|++++|+|+||+++|||++++
T Consensus 1 Mki~~~~~-~~~~g~v~l~pe~~dDlw~l~nli~~GD~V~~~T~Rkv~~~~~~g~~~-er~~~~l~i~Ve~ief~~~~~~ 78 (351)
T TIGR00111 1 MSIVEESF-NKGGAVIKLLPETLDDLWHLYQIIEKGDVEFAFTKRRTQDLDKIRSDK-SKDTVKLGIEVESVEFDMKTER 78 (351)
T ss_pred Cceeeeec-CCCcEEEEEEeCChHHHHHHHHhCCCCCEEEEEEEEEEeccccCCCcc-eEEEEEEEEEEEEEEecCCCCE
Confidence 99999997 778899999999999999999999999999999999999887778777 9999999999999999999999
Q ss_pred EEEEEEEeecC-cccccccEEEEEEccCcceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEecceEEE
Q 020502 81 LRIRGKNILEN-EHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTIT 159 (325)
Q Consensus 81 Lri~G~i~~~~-e~v~~G~~HTl~i~~~~~i~i~K~~wd~~~le~L~ea~~~~~~~~~~~vvid~g~A~i~ll~~~~~~~ 159 (325)
|||+|+|+++| ++|++|+|||++|+||++|+|+|++||+|++++|++|++++.++.+++|+||+|+|+||+|+++++++
T Consensus 79 Lri~G~i~~~~e~~v~~G~~HTl~ie~~~~i~i~K~~w~~~~le~L~ea~~~~~~~~~~~vv~d~g~A~i~ll~~~~~~~ 158 (351)
T TIGR00111 79 LRYKGVIVTGPEDDVPVGSYHTLEIKYVYPLSIIKQNWKKWQLKRLREAVEISKRPKTAAVVMEEGIAHVGLVRQYSVEE 158 (351)
T ss_pred EEEEEEEecCCcccccccceEEEEEcCCCcEEEEEecCCHHHHHHHHHHhccccCCcEEEEEEeCCcEEEEEEcCCEEEE
Confidence 99999999998 79999999999999999999999999999999999999999888999999999999999999999999
Q ss_pred EEEEEEecCCCCCCCccchhHHHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHhccccccccccCc
Q 020502 160 RSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSR 239 (325)
Q Consensus 160 ~~~i~~~ip~K~~~~~s~~~~~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~~~~~~~~~~~~k 239 (325)
++++++++|+|+++ +.+++++++||++|++++.+ +.+++|||||||||+|++|++||.+++++.. .+
T Consensus 159 ~~~i~~~iP~K~~~--~~~e~~~~~Ff~~v~~~l~~---~~~v~~iIiaGPGf~k~~f~~~l~~~~~~~~--------~k 225 (351)
T TIGR00111 159 IQKIEYHMPGKKRT--LKFGELRKEFYKEIAKKLLN---FDDLKTIIVAGPGFYKNDFYDFIFERYPEEA--------NK 225 (351)
T ss_pred EEEEEEeCCCCccc--chhHHHHHHHHHHHHHHHhh---hcccCEEEEECCHHHHHHHHHHHHHHhhhhh--------CC
Confidence 99999999999854 55788999999999999854 4689999999999999999999999887532 34
Q ss_pred EEEEEcCCCccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCCc
Q 020502 240 IILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLF 318 (325)
Q Consensus 240 ~~v~~~s~g~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l~ 318 (325)
.++.++|+||.+||+|+|++|.++++|+|+++++|.++||+||++|++|+++||||+++|.+|+++|||+||||||++|
T Consensus 226 ~ii~~~s~g~~~gl~EvL~~~~v~~~l~d~k~~~E~~~l~~f~~~l~kd~~~~~YG~~eV~~Ale~GAVetLLIsD~l~ 304 (351)
T TIGR00111 226 AVLENCSTGGRAGINEVLKRGLVARILQETRYAKEIMVIDEFLEHLAKDGDKAVYGEDEVVKAAEYGAIEYLLVTDKVL 304 (351)
T ss_pred cEEEecCCCchhHHHHHHhChHHHHHHhhhhHHHHHHHHHHHHHHHhcCCCeEEECHHHHHHHHHcCCceEEEEecchh
Confidence 4677999999999999999999999999999999999999999999999999999999999999999999999999996
No 3
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=100.00 E-value=5.1e-81 Score=583.36 Aligned_cols=305 Identities=32% Similarity=0.522 Sum_probs=284.5
Q ss_pred CeeeeeecccCCCceEEEeccCchhHHHHHHhhCCCCeEEEEeEEEEEecccCCCccceEEEEEEEEEEEEEeecCCCCe
Q 020502 1 MKILRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSV 80 (325)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~pE~~dDlw~Lynli~~GD~V~a~T~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~ 80 (325)
||++.++. ++|.++|+||++||||||||+|++||.|+|+|+|+.++....++++++|++|+|+|+|+++|||+|+++
T Consensus 1 M~ile~~~---k~g~I~l~pE~lDDLw~L~~Ii~~GD~v~a~T~Rr~~~~d~~r~~~~eri~m~L~IkVe~ieF~~f~nr 77 (352)
T COG1537 1 MRILEEDK---KRGVIKLVPETLDDLWHLYNIIEKGDKVFAKTTRRDESSDVIRSKKGERIPMTLGIKVEKIEFDKFANR 77 (352)
T ss_pred Ccceeccc---cCceEEEecCChHHHHHHHHhcCCCCEEEEEEEEecccccccccCcceEEEEEEEEEEEEEEeeecccE
Confidence 99999996 599999999999999999999999999999999993333234488889999999999999999999999
Q ss_pred EEEEEEEeecCcccccccEEEEEEccCcceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEecceEEEE
Q 020502 81 LRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITR 160 (325)
Q Consensus 81 Lri~G~i~~~~e~v~~G~~HTl~i~~~~~i~i~K~~wd~~~le~L~ea~~~~~~~~~~~vvid~g~A~i~ll~~~~~~~~ 160 (325)
|||+|+++++|+.+.+|+|||++|++|++|+|+|.+|+++++++|++|++++.++.+++|+||+|+|+||++++|++.++
T Consensus 78 LRi~G~i~~~~e~~~~G~yHTi~v~~g~~i~I~K~~W~~~~lerLkeA~~~~~~~~~~~v~~degea~i~iv~~ygi~~~ 157 (352)
T COG1537 78 LRIKGPIVEGPEEVVKGSYHTINVTIGTEIEIEKEEWNKDQLERLKEAVEASKRPEVAIVVVDEGEAAIAIVRDYGIIIL 157 (352)
T ss_pred EEEEEEEEEcCcccccccceEEEeccCceEEEEEccCCHHHHHHHHHHhhcccCCceEEEEEecCceEEEEEeccceEEE
Confidence 99999999999998899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEecCCCCCCCccchhHHHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHhccccccccccCcE
Q 020502 161 SRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRI 240 (325)
Q Consensus 161 ~~i~~~ip~K~~~~~s~~~~~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~~~~~~~~~~~~k~ 240 (325)
.+++.+.|+|+.... + +..+||..|++++.+.+ +++.||||||||+|++|++|+....++. .++
T Consensus 158 ~~i~~~~~gK~~~~~--~--~~~k~~~~i~~~~~~~~---~~~~iIvaGPGF~k~~~~~~~~~~~p~~---------~~~ 221 (352)
T COG1537 158 GKIRSGIPGKREGDI--R--AERKFFDEIAKALKEYA---NLDIIIVAGPGFAKEDFYDFLRERYPEL---------ANI 221 (352)
T ss_pred EEEeccCCCCcccch--h--hHHHHHHHHHHHHHHhh---CCCeEEEeCCchHHHHHHHHHHHhcccc---------cce
Confidence 999999998865432 2 22899999999999987 6889999999999999999999998753 137
Q ss_pred EEEEcCCCccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCCccc
Q 020502 241 ILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRL 320 (325)
Q Consensus 241 ~v~~~s~g~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l~r~ 320 (325)
++.|||++|.+|++|+|++|.+.++++++++++|.++||+|++.|++++++||||+++|.+|++||||++|||+|++||+
T Consensus 222 ~~~~~s~~g~~gi~EvLkr~~v~ki~~e~ria~e~~~~e~fl~~iak~~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~ 301 (352)
T COG1537 222 VIEDTSTGGRAGINEVLKRGAVDKILSETRIAEEIELVEEFLERLAKDDDKVAYGLEEVEKAAEYGAVETLLVTDELLRS 301 (352)
T ss_pred EEEeccCcchHHHHHHHhhhhHHhHhhhhHHHHHHHHHHHHHHHHhcCCCceeEcHHHHHHHHhcCcceeEEeehhhhcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCC
Q 020502 321 VCSK 324 (325)
Q Consensus 321 ~d~~ 324 (325)
.|++
T Consensus 302 ~~~~ 305 (352)
T COG1537 302 DDVE 305 (352)
T ss_pred cchh
Confidence 7754
No 4
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=100.00 E-value=2.9e-50 Score=393.34 Aligned_cols=280 Identities=18% Similarity=0.258 Sum_probs=238.9
Q ss_pred CCCce--EEEeccCchhH----HHHHHhhCCCCeEEEEeEEEEEecccCCCccceEEEEEEEEEEEEEeecCCCCeEEEE
Q 020502 11 NGPGS--VKMEPVDSDDL----WFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSVLRIR 84 (325)
Q Consensus 11 ~~~g~--v~l~pE~~dDl----w~Lynli~~GD~V~a~T~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~Lri~ 84 (325)
.|+|+ |.|.+.--|.+ -+|.......+.|++.++|+-... ......+ +...+..-|.+|.++++
T Consensus 20 ~g~gt~lisl~ipp~~~i~~~~~~l~~e~~~a~niks~~~r~~v~~--ai~~~~~--------~lk~~~~~p~nglv~~~ 89 (409)
T TIGR00108 20 RGRGTELISLYIPPDRQISDVAKHLREELSQASNIKSKQTRKNVLS--AIEAILQ--------RLKLFNKPPENGLVIFC 89 (409)
T ss_pred cCCCceEEEEEeCCCCcHHHHHHHHHHHHhhhhcccccchhhhHHH--HHHHHHH--------HhhccCCCCCCcEEEEE
Confidence 35553 56555444433 567888888999999988873221 1112223 33355778999999999
Q ss_pred EEEeecCcccccccEEEEEEccCcceEEEEcc-cChhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEecceEEEEEEE
Q 020502 85 GKNILENEHVKIGAFHTLEIELHRAFVLRKDL-WDSLALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRI 163 (325)
Q Consensus 85 G~i~~~~e~v~~G~~HTl~i~~~~~i~i~K~~-wd~~~le~L~ea~~~~~~~~~~~vvid~g~A~i~ll~~~~~~~~~~i 163 (325)
|.+..++.+ |+|||++|+||+||+++||. |++|++++|++|++... .+++|+||+++|+||+++++++++++++
T Consensus 90 G~v~~~~~~---~~~~t~~iep~~pi~~~~y~~d~~f~le~L~e~~~~~~--~~g~VvvD~~~A~i~~l~g~~~~~~~~i 164 (409)
T TIGR00108 90 GMVPREGPT---EKMETYVIEPPEPIKTYIYHCDSKFYLEPLSEMLEEKD--KYGLIVLDRQEATIGLVKGKRITVLKKL 164 (409)
T ss_pred eEeccCCCc---ccEEEEEEeCCCceEEEEEccCChhHHHHHHHHhcCCC--CEEEEEEecCCEEEEEEcCCEEEEEEEE
Confidence 999988743 89999999999999999996 55799999999999765 9999999999999999999999999999
Q ss_pred EEecCCCCCC-Cccc------hhHHHHHHHHHHHHHHHhcc---cccCccEEEEECCcccHHHHHH--HHHHHHHhcccc
Q 020502 164 ETSIPRKHGP-AIAG------YESALNKFFENVLQAFLKHV---DFNVVRCAVIASPGFTKDQFHR--HLLLEAERRQLR 231 (325)
Q Consensus 164 ~~~ip~K~~~-~~s~------~~~~~~~F~~~v~~~l~~~~---~~~~v~~iiIaGPGf~k~~f~~--~l~~~~~~~~~~ 231 (325)
++++|+||++ |||+ ++++.++||++|++.+.++| +..++++||||||||+|++|.+ ||.+++.++
T Consensus 165 ~~~vp~K~~~GGqS~~Rf~r~~e~~~~~f~~~Vae~~~~~f~~~~~~~v~~IIlaGpg~~K~~f~~~~~l~~~l~~k--- 241 (409)
T TIGR00108 165 TSGVPGKHKAGGQSARRFERLRELAAHEFLKKVGEVANEAFLPNDDVKLKGIILGGPGHTKEEFAEGEYLHHELKKK--- 241 (409)
T ss_pred eeeCCCcccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccceEEEEeccHHHHHHhhhhhhHHHHhhhh---
Confidence 9999999876 7776 58899999999999999886 2337999999999999999998 999888642
Q ss_pred ccccccCcEEEEEcCCCccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEE
Q 020502 232 PIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTL 311 (325)
Q Consensus 232 ~~~~~~~k~~v~~~s~g~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetL 311 (325)
-+.++++|+||.+|++|++++. +++|++.++++|.++|++|++++++|+|+||||+++|.+|+++|||+||
T Consensus 242 -------vi~~vdvs~gg~~gl~E~l~~~--~~~L~~~k~~~E~~lle~F~~ei~~d~G~avyG~~eV~~ALe~GAVetL 312 (409)
T TIGR00108 242 -------VISTVDVSYTGEFGIRELIEKS--ADVLAEVDYMREKKLVQRFLKELIQEDGLACYGEDEVLKALDLGAVETL 312 (409)
T ss_pred -------EEEEEEcCCCcccCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEeCHHHHHHHHHhCCCcEE
Confidence 1347899999999999999976 9999999999999999999999999999999999999999999999999
Q ss_pred EEecCC
Q 020502 312 LITDDL 317 (325)
Q Consensus 312 LIsD~l 317 (325)
||+|+|
T Consensus 313 LV~d~l 318 (409)
T TIGR00108 313 IVSEDL 318 (409)
T ss_pred EEeccc
Confidence 999999
No 5
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=100.00 E-value=2e-47 Score=372.27 Aligned_cols=265 Identities=22% Similarity=0.265 Sum_probs=234.7
Q ss_pred hhHHHHHHhhCCCCeEEEEeEEE-EEecccCCCccceEEEEEEEEEEEEEeecCCCCeEEEEEEEeecCcccccccEEEE
Q 020502 24 DDLWFAYNLIAPGDSVMAVTVRK-VLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSVLRIRGKNILENEHVKIGAFHTL 102 (325)
Q Consensus 24 dDlw~Lynli~~GD~V~a~T~Rk-v~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~Lri~G~i~~~~e~v~~G~~HTl 102 (325)
|-.-+|.+....-+.|+++++|+ |+... ....+ +++-..-.|++|.+-++|.+..+. ...+|||+
T Consensus 35 ~v~~~l~~e~~~a~niks~~~r~~v~~ai---~~~~~--------rlk~~~~~p~nGlv~f~g~~~~~~---~~~~~~t~ 100 (403)
T TIGR03676 35 DVVNQLRDEYSQAANIKSKQTRKNVQSAI---ESIMQ--------RLKLYKKPPENGLVLFAGMVPTGG---GTEKMETY 100 (403)
T ss_pred HHHHHHHHHHhhhhhhhhhhhHHHHHHHH---HHHHH--------HHhccCCCCCCeEEEEEeeecCCC---CceeEEEE
Confidence 67788999999999999999998 43221 22233 233456689999999999998754 33689999
Q ss_pred EEccCcceEEEEcccC-hhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEecceEEEEEEEEEecCCCCCC-Cccc---
Q 020502 103 EIELHRAFVLRKDLWD-SLALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGP-AIAG--- 177 (325)
Q Consensus 103 ~i~~~~~i~i~K~~wd-~~~le~L~ea~~~~~~~~~~~vvid~g~A~i~ll~~~~~~~~~~i~~~ip~K~~~-~~s~--- 177 (325)
+|+||+||+++||.|| +|++++|++|++... .+++|+||+++|.||+++++++++++++++++|+||++ |||+
T Consensus 101 ~iep~~pi~~~~y~cd~~f~lepL~e~l~~~~--~~g~VvvD~~~A~i~~l~g~~~e~~~~i~~~vp~K~~~GGqS~~Rf 178 (403)
T TIGR03676 101 VIEPPEPINTYLYRCDSKFYLEPLEEMLEEKD--VYGLIVLDRREATIGLLKGKRIEVLKELTSGVPGKHRAGGQSARRF 178 (403)
T ss_pred EEeCCCceEEEEecCCChHHHHHHHHHhcCCC--CEEEEEEecCceEEEEEcCCEEEEEEEEEeeCCCCccCCCcchhhH
Confidence 9999999999999755 799999999999754 99999999999999999999999999999999999875 7886
Q ss_pred ---hhHHHHHHHHHHHHHHHhcccc---cCccEEEEECCcccHHHHHH--HHHHHHHhccccccccccCcE-EEEEcCCC
Q 020502 178 ---YESALNKFFENVLQAFLKHVDF---NVVRCAVIASPGFTKDQFHR--HLLLEAERRQLRPIIENKSRI-ILVHTSSG 248 (325)
Q Consensus 178 ---~~~~~~~F~~~v~~~l~~~~~~---~~v~~iiIaGPGf~k~~f~~--~l~~~~~~~~~~~~~~~~~k~-~v~~~s~g 248 (325)
++++.++||++|++++.++|.. .++++||||||||+|++|.+ ||++++.+ ++ .++++|++
T Consensus 179 ~R~~e~~~~~f~~~Vae~~~~~f~~~~~~~v~~lILaGpg~~K~~f~~~~~L~~~l~~-----------kvi~~vd~s~~ 247 (403)
T TIGR03676 179 ERLIEIAAHEFYKRVGEAANEAFLPLKDKKLKGILIGGPGPTKEEFAEGDYLHHELKK-----------KILGLFDVSYT 247 (403)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccccccEEEEeCCHHHHHHHhhhhhhhHHHHh-----------hEEEEEecCCC
Confidence 7889999999999999887632 26999999999999999999 99998764 33 68899999
Q ss_pred ccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 249 YKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 249 ~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
+.+|++|++++. +++|++.++++|.++|++||+++++|++++|||+++|.+|+++|||+||||+|+|
T Consensus 248 ~~~Gl~Evl~~~--~~~L~~~k~~~E~~lle~f~~el~~d~g~avyG~~eV~~ALe~GAVetLLV~d~l 314 (403)
T TIGR03676 248 GESGLRELVEKA--EDLLKDLELMKEKKLMERFFKELVKDGGLAAYGEEEVRKALEMGAVDTLLISEDL 314 (403)
T ss_pred CccCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHHHHHhCCCcEEEEEccc
Confidence 999999999995 9999999999999999999999999999999999999999999999999999999
No 6
>PRK04011 peptide chain release factor 1; Provisional
Probab=100.00 E-value=3.8e-45 Score=357.54 Aligned_cols=279 Identities=20% Similarity=0.226 Sum_probs=237.2
Q ss_pred eEEEeccCch----hHHHHHHhhCCCCeEEEEeEEEEEecccCCCccceEEEEEEEEEEEEEeecCCCCeEEEEEEEeec
Q 020502 15 SVKMEPVDSD----DLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSVLRIRGKNILE 90 (325)
Q Consensus 15 ~v~l~pE~~d----Dlw~Lynli~~GD~V~a~T~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~Lri~G~i~~~ 90 (325)
.|+|...... -.-.|.+-...-..|++.++|+=..+. -..... +...+.-.|.+|+.-++|.+..+
T Consensus 29 ~iSlyip~~~~i~~~~~~l~~e~~~a~nik~~~~r~~v~~a--i~~~~~--------rl~~~~~~p~nGl~~f~g~~~~~ 98 (411)
T PRK04011 29 LISLYIPPGRPISDVVNQLRQEYSQASNIKSKTTRKNVQSA--LESIIQ--------RLKLYKKPPENGLVIFCGAVPIG 98 (411)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH--------hhccCCCCCCCeEEEEEeecccC
Confidence 5777765544 344666667777888888888732210 111122 12234557899999999999875
Q ss_pred CcccccccEEEEEEccCcceEEEEcccCh-hhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEecceEEEEEEEEEecCC
Q 020502 91 NEHVKIGAFHTLEIELHRAFVLRKDLWDS-LALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPR 169 (325)
Q Consensus 91 ~e~v~~G~~HTl~i~~~~~i~i~K~~wd~-~~le~L~ea~~~~~~~~~~~vvid~g~A~i~ll~~~~~~~~~~i~~~ip~ 169 (325)
.+ ..|.|||++|+||+||+++||.||+ |++++|++|++.. +.+++|+||+++|.||+++++++++++++++++|+
T Consensus 99 ~~--~~~~~~t~~i~p~~~i~~~~y~~d~~f~le~L~e~~~~~--~~~~~VvvD~~~A~i~~l~g~~~~~~~~i~~~vp~ 174 (411)
T PRK04011 99 GP--GTEDMETYVIEPPEPVPTFFYRCDSEFHTEPLEDMLEDK--EVYGLIVVDRREATIGLLKGKRIEVLKELTSFVPG 174 (411)
T ss_pred CC--CCceEEEEEEcCCCccEEEEecCCcHHHHHHHHHHhcCC--CCEEEEEEecCceEEEEEeCCEEEEEEEEEeeCCC
Confidence 41 3489999999999999999997766 9999999999974 49999999999999999999999999999999999
Q ss_pred CCCC-Cccc------hhHHHHHHHHHHHHHHHhccc---ccCccEEEEECCcccHHHHHH--HHHHHHHhcccccccccc
Q 020502 170 KHGP-AIAG------YESALNKFFENVLQAFLKHVD---FNVVRCAVIASPGFTKDQFHR--HLLLEAERRQLRPIIENK 237 (325)
Q Consensus 170 K~~~-~~s~------~~~~~~~F~~~v~~~l~~~~~---~~~v~~iiIaGPGf~k~~f~~--~l~~~~~~~~~~~~~~~~ 237 (325)
||++ |||+ ++++.++||++|++++.++|. +.++++||||||||+|++|.+ ||.++++++
T Consensus 175 K~~~GG~S~~Rf~r~~e~~~~~f~k~Vae~~~~~f~~~~~~~v~~IvlaGpg~~K~~f~~~~~L~~~l~~~--------- 245 (411)
T PRK04011 175 KHRKGGQSARRFERLIEQAAHEFYKRVGEKANEAFLPLLEGKLKGILIGGPGPTKEEFLEGDYLHYELKKK--------- 245 (411)
T ss_pred CccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEECChhHHHHHhhhhhhhHHHHhh---------
Confidence 9885 6776 588999999999999998875 478999999999999999999 999998642
Q ss_pred CcEEEEEcCCCccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 238 SRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 238 ~k~~v~~~s~g~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
.+.++++|+++.+|++|++++. +++|++.++++|.++|++|+++++++++++|||+++|.+|+++|||+||||+|++
T Consensus 246 -vv~~~~~s~~~~~Gl~E~l~~~--~~~L~~~k~~~e~~lle~f~~~l~~d~g~avyG~~~V~~Ale~GAVetLLV~d~l 322 (411)
T PRK04011 246 -ILGLFDVSYTGESGLRELVDKA--SDLLKEQELVKEKKLMEEFFKELAKDGGLAVYGEEEVRKALEMGAVDTLLISEDL 322 (411)
T ss_pred -eEEEEecCCCCccCHHHHHHHH--HHHHHHhHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHHHHHcCCceEEEEeccc
Confidence 2257899999999999999984 9999999999999999999999999999999999999999999999999999999
Q ss_pred cc
Q 020502 318 FR 319 (325)
Q Consensus 318 ~r 319 (325)
++
T Consensus 323 ~~ 324 (411)
T PRK04011 323 RK 324 (411)
T ss_pred cc
Confidence 87
No 7
>PF03463 eRF1_1: eRF1 domain 1; InterPro: IPR005140 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins for which the precise molecular function is unknown. Many of them are from Archaebacteria. These proteins may also be involved in translation termination but this awaits experimental verification.; PDB: 2VGN_A 2VGM_A 3J16_A 3IZQ 3AGK_A 3AGJ_B 3OBW_A 3E1Y_D 1DT9_A 2LLX_A ....
Probab=100.00 E-value=2.1e-39 Score=271.17 Aligned_cols=130 Identities=49% Similarity=0.808 Sum_probs=122.7
Q ss_pred CeeeeeecccCCCceEEEeccCchhHHHHHHhhCCCCeEEEEeEEEEEec-ccCCCccceEEEEEEEEEEEEEeecCCCC
Q 020502 1 MKILRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQ-MASGSRDAERVKLKLEIKVEVVDYDKEGS 79 (325)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~pE~~dDlw~Lynli~~GD~V~a~T~Rkv~~~-~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~ 79 (325)
|||+++++.++++|.|+++||+.||||||||||.+||.|+|.|+|+|+.+ +.+++.++++++++|+|+|++++|+|+++
T Consensus 1 Mki~~~~~~~~~~~~i~ll~e~~dDlw~L~~li~~gD~v~~~t~Rkv~~~~~~~~~~~~~~v~~~L~i~ve~v~~~~~~~ 80 (132)
T PF03463_consen 1 MKIISKDIEKNGKGLIKLLPEEKDDLWHLYNLIIPGDEVISKTTRKVQEASNIKGSKTRERVQIALTIKVEKVEFDPENG 80 (132)
T ss_dssp -EEEEECHCHHHHHEEEEETTSHHHHHHHHHHEETTTEEEECCHCHHHHCTCESSHHHHHCEEEEEEEEEEEEEEETTTT
T ss_pred CccchhhhccccCceEEEcccccCCcEEEEEEEECCCEEEEEEEEeeeecccccCCcceEEEEEEEEEEEEEeEecCCCC
Confidence 99999998777899999999999999999999999999999999999543 45668888999999999999999999999
Q ss_pred eEEEEEEEeecCcccccccEEEEEEccCcceEEEEcccChhhHHHHHHhcC
Q 020502 80 VLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAAD 130 (325)
Q Consensus 80 ~Lri~G~i~~~~e~v~~G~~HTl~i~~~~~i~i~K~~wd~~~le~L~ea~~ 130 (325)
.|||+|+|+.+|+++++|+|||++|+||+||+++|+.||++++++|++|++
T Consensus 81 ~Lri~G~i~~~~~~~~~G~~hT~~i~~~~~~ti~K~~wd~~~~~~l~ea~~ 131 (132)
T PF03463_consen 81 LLRISGKIVEENEDVKLGKYHTLDIEPGRPFTIIKYRWDSYFLDRLKEAMD 131 (132)
T ss_dssp EEEEEEEEEEGSCGGGTTSEEEEEEETSSEEEEEEEEEEHHHHHHHHHHTS
T ss_pred EEEEEeEEccCCCCCCcceEEEEEEeCCCceEEEEecCCHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999999986
No 8
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.9e-35 Score=279.39 Aligned_cols=277 Identities=21% Similarity=0.228 Sum_probs=239.7
Q ss_pred eEEEec----cCchhHHHHHHhhCCCCeEEEEeEEEEEecccCCCccceEEEEEEEEEEEEEeecCCCCeEEEEEEEeec
Q 020502 15 SVKMEP----VDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSVLRIRGKNILE 90 (325)
Q Consensus 15 ~v~l~p----E~~dDlw~Lynli~~GD~V~a~T~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~Lri~G~i~~~ 90 (325)
.+++.| --+|.+-+|....++-..+++.++|+-... ....... ++....-.|.+|...++|.+..+
T Consensus 29 lislyIPp~~qisdv~~~lr~e~s~asniksk~tR~~V~~--ai~~~~~--------rLk~~~~~P~nGlv~f~g~v~~~ 98 (411)
T COG1503 29 LISLYIPPDRQISDVVNRLRDEYSTASNIKSKVTRKNVLS--AIESAMQ--------RLKDYCKTPENGLVLFVGDVLGG 98 (411)
T ss_pred EEEEecCCCCchHHHHHHHHhhccchhhhhhcCchHHHHh--HHHHHHH--------HHHhcccCCCCCeEEEEeeeccC
Confidence 455554 235778899999999999999999983332 1212223 23355668899999999999765
Q ss_pred CcccccccEEEEEEccCcceEEEEcccCh-hhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEecceEEEEEEEEEecCC
Q 020502 91 NEHVKIGAFHTLEIELHRAFVLRKDLWDS-LALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPR 169 (325)
Q Consensus 91 ~e~v~~G~~HTl~i~~~~~i~i~K~~wd~-~~le~L~ea~~~~~~~~~~~vvid~g~A~i~ll~~~~~~~~~~i~~~ip~ 169 (325)
-.. ...-|..++|+.|++.+.|.||+ |++++|++++.+.. .+++++||.++|+++++.+..+.++.++++.+||
T Consensus 99 ~~~---t~~~~~~~~PP~Pi~~~ly~cDs~F~~e~L~~~l~~~~--~ygliv~dr~ea~ig~l~g~r~evl~~~~s~vpg 173 (411)
T COG1503 99 GGK---TKKVTVVIEPPEPINTFLYRCDSKFYLEPLEEMLEDKD--LYGLIVLDRIEATIGLLKGKRIEVLKELTSDVPG 173 (411)
T ss_pred CCc---cceeeecccCCCCcceeeeccccHHHHHHHHHHhhhcc--cccEEEEecccceeeeeccceeeHhhhhcccCcc
Confidence 321 23467778999999999999999 99999999998887 8999999999999999999999999999999999
Q ss_pred CCCC-Cccc------hhHHHHHHHHHHHHHHHhccc---ccCccEEEEECCcccHHHHHH--HHHHHHHhcccccccccc
Q 020502 170 KHGP-AIAG------YESALNKFFENVLQAFLKHVD---FNVVRCAVIASPGFTKDQFHR--HLLLEAERRQLRPIIENK 237 (325)
Q Consensus 170 K~~~-~~s~------~~~~~~~F~~~v~~~l~~~~~---~~~v~~iiIaGPGf~k~~f~~--~l~~~~~~~~~~~~~~~~ 237 (325)
||++ |||+ ++.+.+.||+.|.+++.+.|. ..++++|+|+|||.+|++|.+ ||.++++.+..
T Consensus 174 Kh~~Ggqsa~rferl~ee~~h~f~k~vge~A~e~f~~~~~~~~kgIilgGp~~tk~ef~e~~yL~~~lk~kv~------- 246 (411)
T COG1503 174 KHRAGGQSARRFERLIEEAAHEFYKKVGEAASEAFLPIAKKELKGIILGGPGPTKEEFVEGDYLHHELKKKVL------- 246 (411)
T ss_pred hhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhhcceEeeCCcccchhhhcccccchHHHHHHH-------
Confidence 9988 6886 778999999999999999985 226899999999999999997 99999876422
Q ss_pred CcEEEEEcCCCccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 238 SRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 238 ~k~~v~~~s~g~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
-++++++++.+|++|++... .+.|++.++.+|.++|++|++.+.+++|+++||.++|++|+++|||++|||+.++
T Consensus 247 ---~lvDv~y~~esg~~eli~~A--~d~L~~~~~~~eK~l~e~f~~e~~~~~Gla~yG~~~vr~aL~~gaVd~llv~Edl 321 (411)
T COG1503 247 ---GLVDVSYTGESGLRELIEKA--EDALKDVDYVREKKLMEEFFKELAKDSGLAVYGEEEVREALEMGAVDTLLVSEDL 321 (411)
T ss_pred ---hhccccccccccHHHHHHHh--HHHHHhhhhhcchhHHHHHHHHhccCcceeecchHHHHHHHHhcccceEEeeccc
Confidence 47999999999999999999 9999999999999999999999999999999999999999999999999999987
Q ss_pred c
Q 020502 318 F 318 (325)
Q Consensus 318 ~ 318 (325)
-
T Consensus 322 ~ 322 (411)
T COG1503 322 E 322 (411)
T ss_pred c
Confidence 5
No 9
>PF03464 eRF1_2: eRF1 domain 2; InterPro: IPR005141 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination ; PDB: 3AGK_A 2VGN_A 2VGM_A 3J16_A 3IZQ 3IR9_A 3OBW_A 3MCA_B 2QI2_A 3E1Y_D ....
Probab=99.96 E-value=3.9e-29 Score=209.43 Aligned_cols=126 Identities=42% Similarity=0.664 Sum_probs=114.7
Q ss_pred cEEEEEEeCCeEEEEEEecceEEEEEEEEEecCCCCCC-Cccch----hHHHHHHHHHHHHHHHhc--ccccCccEEEEE
Q 020502 136 DLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGP-AIAGY----ESALNKFFENVLQAFLKH--VDFNVVRCAVIA 208 (325)
Q Consensus 136 ~~~~vvid~g~A~i~ll~~~~~~~~~~i~~~ip~K~~~-~~s~~----~~~~~~F~~~v~~~l~~~--~~~~~v~~iiIa 208 (325)
++++|+||+|+|+||+++++++++++++++++|+|+++ |+|+. ++++++||++|++++.++ .++.++++||||
T Consensus 1 ~v~~v~id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~Gg~s~~rf~r~~~~~~f~~~i~~~l~~~f~~~~~~~~~iIia 80 (133)
T PF03464_consen 1 KVGIVVIDEGEANICLLRGYGTEILQRIESNIPGKHKKGGQSQRRFEREKALEKFFKEIAEALKKYFLVNFDDVKCIIIA 80 (133)
T ss_dssp EEEEEEEETTEEEEEEEETTEEEEEEEEE-GHCCCSSTTCSHHHHHHHHHHHHHHHHHHHHHHHHHCCCHTTTCSEEEEE
T ss_pred CEEEEEEeCCCEEEEEEcCCEEEEEEEEEecCCCccCCCCcchhhHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEE
Confidence 48999999999999999999999999999999999986 57764 899999999999999999 779999999999
Q ss_pred CCcccHHHHHHHHHHHHHhccccccccccCcEEEEEcCCCccchHHHHhcChhHHHhhhh
Q 020502 209 SPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKD 268 (325)
Q Consensus 209 GPGf~k~~f~~~l~~~~~~~~~~~~~~~~~k~~v~~~s~g~~~gl~Evl~~~~v~~~l~d 268 (325)
||||+|++|++|+...++.+. +.++.++++|+++++||+|+|++|+++++|+|
T Consensus 81 GPGf~k~~f~~~l~~~~~~~~-------~~~i~~~~~s~~~~~gl~Evl~~~~v~~~l~d 133 (133)
T PF03464_consen 81 GPGFTKEEFYKYLKAEARRKD-------KKKIVVVDTSSGGESGLNEVLKRPEVQKILKD 133 (133)
T ss_dssp ESTTHHHHHHHHHHHHHHHHT-------CCEEEEEE-SSSCHHHHHHHHHSHHHHHHHCT
T ss_pred CCHHHHHHHHHHHHHhhHhhc-------CCEEEEEECCCCCHHHHHHHHHhhhHHHHhcC
Confidence 999999999999999987642 25789999999999999999999999999986
No 10
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=5.8e-28 Score=221.99 Aligned_cols=228 Identities=14% Similarity=0.228 Sum_probs=202.3
Q ss_pred eecCCCCeEEEEEEEeecCcccccccEEEEEEccCcceEEEEcccCh-hhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEE
Q 020502 73 DYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS-LALDTLHQAADPTASADLAVVLMQEGLAHILL 151 (325)
Q Consensus 73 ef~~~~~~Lri~G~i~~~~e~v~~G~~HTl~i~~~~~i~i~K~~wd~-~~le~L~ea~~~~~~~~~~~vvid~g~A~i~l 151 (325)
.--|.++..-.+|.++.+. ..-+..+++++|.+||....|-||. ||++.|.+++.... .+|+++||...+.++.
T Consensus 82 nkvPpnglvly~gti~ted---gkekkv~idfepfkpintslyLcdNkfhte~l~~Ll~sd~--kfgfivmDg~~tlfgt 156 (431)
T KOG0688|consen 82 NKVPPNGLVLYTGTIVTED---GKEKKVNIDFEPFKPINTSLYLCDNKFHTEALKELLESDN--KFGFIVMDGNGTLFGT 156 (431)
T ss_pred ccCCCCceEEEeeeeEccC---CceeeeecccccccccccceEecCCccchHHHHHHHhhcc--cccEEEEcCCceeEEE
Confidence 4458899999999999765 2345679999999999888898877 99999999999888 7999999999999999
Q ss_pred EecceEEEEEEEEEecCCCCCC-Cccc------hhHHHHHHHHHHHHHHHhccc---ccCccEEEEECCcccHHHHHH--
Q 020502 152 VGRSMTITRSRIETSIPRKHGP-AIAG------YESALNKFFENVLQAFLKHVD---FNVVRCAVIASPGFTKDQFHR-- 219 (325)
Q Consensus 152 l~~~~~~~~~~i~~~ip~K~~~-~~s~------~~~~~~~F~~~v~~~l~~~~~---~~~v~~iiIaGPGf~k~~f~~-- 219 (325)
+.++...+++++.+.+|+||++ |||+ |.+.++.|.+.+++...+++. ..++.++|+||..-.|.++.+
T Consensus 157 l~gntrevLhkftVdlPkkhgrggqSalrfarlR~ekRhnYVrkvae~a~q~fi~~~~~Nv~gLilaGsadfKtelsqSd 236 (431)
T KOG0688|consen 157 LQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAELAVQRFITNDKPNVAGLILAGSADFKTELSQSD 236 (431)
T ss_pred eccchHhhhheeeecCccccCccchhHHhhhhhhhhhhccceeeecccceeEEecCCCcceeEEEEecccccccccchhh
Confidence 9999999999999999999998 5775 777888999999999998884 568999999999977777764
Q ss_pred HHHHHHHhccccccccccCcEEEEEcCCCccchHHHHhcChhHHHhhhhhhHHHHHHHHHHHHHHhhcCCCeEEEcHHHH
Q 020502 220 HLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHV 299 (325)
Q Consensus 220 ~l~~~~~~~~~~~~~~~~~k~~v~~~s~g~~~gl~Evl~~~~v~~~l~d~k~~~e~~~le~f~~~l~~~~~~a~YG~~eV 299 (325)
.+.++++.+. +.++++|+||..|+++++.-. .++|++.++++|.+++.+||++++.|.|+.|||++++
T Consensus 237 ~fd~rlqskv----------i~~vdvsyGGengfnQaIeL~--aevlsnvk~vqekkli~~yfdEisqdtgky~Fgv~dT 304 (431)
T KOG0688|consen 237 MFDPRLQSKV----------LKTVDVSYGGENGFNQAIELS--AEVLSNVKFVQEKKLIGKYFDEISQDTGKYCFGVEDT 304 (431)
T ss_pred hcchHHhhhH----------HhhhcccccchhhHHHHHHHH--HhhhhcceeeehhhHHHHHhhhhhcccCcccccHHHH
Confidence 4666665432 257999999999999999998 8999999999999999999999999999999999999
Q ss_pred HHHHhccCccEEEEecCC
Q 020502 300 EVAHERMAVQTLLITDDL 317 (325)
Q Consensus 300 ~~A~e~gAVetLLIsD~l 317 (325)
..|+++|||+||++...|
T Consensus 305 l~aLe~gavetli~~enL 322 (431)
T KOG0688|consen 305 LLALEMGAVETLIVWENL 322 (431)
T ss_pred HHHHHcCCeeehhHhhhh
Confidence 999999999999998765
No 11
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=99.42 E-value=2.1e-13 Score=111.08 Aligned_cols=52 Identities=44% Similarity=0.603 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCCcccCC
Q 020502 271 AAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVC 322 (325)
Q Consensus 271 ~~~e~~~le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l~r~~d 322 (325)
+++|.++|++||+++.++++++|||+++|.+|+++|||+||||+|+++|+.+
T Consensus 1 ~~~E~~~ve~f~~~l~k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~ 52 (113)
T PF03465_consen 1 IIKEKKLVEEFFEELAKDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRD 52 (113)
T ss_dssp HHHHHHHHHHHHHHHHTTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESC
T ss_pred CHHHHHHHHHHHHHHhhCCCcEEECHHHHHHHHHhCCCcEEEEecccccccc
Confidence 5789999999999999999999999999999999999999999999999865
No 12
>PF10116 Host_attach: Protein required for attachment to host cells; InterPro: IPR019291 Members of this family of bacterial proteins are required for the attachment of the bacterium to host cells [, ].
Probab=95.43 E-value=0.054 Score=45.31 Aligned_cols=91 Identities=15% Similarity=0.142 Sum_probs=61.7
Q ss_pred EEEEEeCCeEEEEEEecceE---EE------------EEEEEEecCCCCCCCc----c------chhHHHHHHHHHHHHH
Q 020502 138 AVVLMQEGLAHILLVGRSMT---IT------------RSRIETSIPRKHGPAI----A------GYESALNKFFENVLQA 192 (325)
Q Consensus 138 ~~vvid~g~A~i~ll~~~~~---~~------------~~~i~~~ip~K~~~~~----s------~~~~~~~~F~~~v~~~ 192 (325)
.+||.|.+.|.|+...+... .. .+.+...-||....+. + ..+...++|.++|++.
T Consensus 2 wVvVaD~~~Ar~f~~~~~~~~~~~~~~~~~~~~~~~~~~dl~~d~~Gr~~~~~g~~~~~~~~~~~~~~~~~~Fa~~vA~~ 81 (138)
T PF10116_consen 2 WVVVADGSRARIFENEGDESEPLLELEELDHPESRLKDRDLVSDRPGRFHDSAGQRGSMEERTDPKEEEEERFAREVADR 81 (138)
T ss_pred EEEEEecceeEEEEecCCCCCcchhhhhhcccccccchhhhccCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Confidence 47888999999998887643 11 1334455565422211 1 1567889999999999
Q ss_pred HHhcccccCccEEEEECCcccHHHHHHHHHHHHHhc
Q 020502 193 FLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERR 228 (325)
Q Consensus 193 l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~~ 228 (325)
|.+.......+.+||++|--+--.+.+.|.....+.
T Consensus 82 L~~~~~~~~~~~LvlvA~p~~LG~LR~~L~~~~~~~ 117 (138)
T PF10116_consen 82 LEKARRAGKFDRLVLVAPPRFLGLLREHLSKAVRKR 117 (138)
T ss_pred HHHHHHhCCCCeEEEEECHHHHHHHHHHhCHHHHHH
Confidence 999988777777777777644456666666665543
No 13
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=71.02 E-value=9.6 Score=29.27 Aligned_cols=38 Identities=16% Similarity=0.235 Sum_probs=30.1
Q ss_pred HHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 279 KDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 279 e~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
.+.+....+. ++.++|.++|.+|++.|-+.-++++.+.
T Consensus 4 ~~~l~~a~~~-~~lv~G~~~v~k~l~~~~~~lvilA~d~ 41 (95)
T PF01248_consen 4 YKLLKLARKA-GRLVKGIKEVLKALKKGKAKLVILAEDC 41 (95)
T ss_dssp HHHHHHHHHH-SEEEESHHHHHHHHHTTCESEEEEETTS
T ss_pred HHHHHHHHhc-CCEEEchHHHHHHHHcCCCcEEEEcCCC
Confidence 3344444443 7899999999999999999999998765
No 14
>PRK07283 hypothetical protein; Provisional
Probab=66.83 E-value=6.5 Score=30.89 Aligned_cols=32 Identities=16% Similarity=0.184 Sum_probs=27.8
Q ss_pred hcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 286 TNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 286 ~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
+...++++.|.+.|.+|+..|.+.-++++.+.
T Consensus 13 A~raGklv~G~~~v~~aik~gk~~lVi~A~Da 44 (98)
T PRK07283 13 AQRAGRIISGEELVVKAIQSGQAKLVFLANDA 44 (98)
T ss_pred HHHhCCeeEcHHHHHHHHHcCCccEEEEeCCC
Confidence 34458999999999999999999999998763
No 15
>PRK07714 hypothetical protein; Provisional
Probab=64.68 E-value=16 Score=28.62 Aligned_cols=36 Identities=14% Similarity=0.245 Sum_probs=29.0
Q ss_pred HHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 281 FFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 281 f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
++.... ..+++++|.+.|.+|+..|-+.-+++..+.
T Consensus 9 ~Lgla~-raGk~v~G~~~v~~al~~g~~~lViiA~D~ 44 (100)
T PRK07714 9 FLGLAN-RARKVISGEELVLKEVRSGKAKLVLLSEDA 44 (100)
T ss_pred HHHHHH-HhCCeeecHHHHHHHHHhCCceEEEEeCCC
Confidence 333334 448999999999999999999999998764
No 16
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=64.07 E-value=7.7 Score=30.93 Aligned_cols=32 Identities=22% Similarity=0.318 Sum_probs=28.0
Q ss_pred hcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 286 TNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 286 ~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
+...+++++|.+.|.+|+..|.+.-|++.++.
T Consensus 12 A~rAGklv~G~~~v~~aik~gk~~lVI~A~D~ 43 (104)
T PRK05583 12 TKKAGKLLEGYNKCEEAIKKKKVYLIIISNDI 43 (104)
T ss_pred HHHhCCeeecHHHHHHHHHcCCceEEEEeCCC
Confidence 34558999999999999999999999998764
No 17
>TIGR01175 pilM type IV pilus assembly protein PilM. This protein is required for the assembly of the type IV fimbria in Pseudomonas aeruginosa responsible for twitching motility, and for a similar pilus-like structure in Synechocystis. It is also found in species such as Deinococcus described as having natural transformation (for which a type IV pilus-like structure is proposed) but not fimbria.
Probab=62.97 E-value=97 Score=29.40 Aligned_cols=90 Identities=13% Similarity=0.162 Sum_probs=57.4
Q ss_pred EEEEEEeCCeEEEEEEecceEEEEEEEEEe-------------cCC------CCCCCcc--chhHHHHHHHHHHHHHHHh
Q 020502 137 LAVVLMQEGLAHILLVGRSMTITRSRIETS-------------IPR------KHGPAIA--GYESALNKFFENVLQAFLK 195 (325)
Q Consensus 137 ~~~vvid~g~A~i~ll~~~~~~~~~~i~~~-------------ip~------K~~~~~s--~~~~~~~~F~~~v~~~l~~ 195 (325)
+++|-+..+...++++.+........+... +|- |...+.. .....++.++++++..+.+
T Consensus 190 ~~lvdiG~~~t~l~i~~~g~~~~~r~i~~G~~~i~~~i~~~~~~~~~~Ae~~k~~~~~~~~~~~~~~~~~~~~l~~eI~~ 269 (348)
T TIGR01175 190 AALVDIGATSSTLNLLHPGRMLFTREVPFGTRQLTSELSRAYGLNPEEAGEAKQQGGLPLLYDPEVLRRFKGELVDEIRR 269 (348)
T ss_pred EEEEEECCCcEEEEEEECCeEEEEEEeechHHHHHHHHHHHcCCCHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHHHHH
Confidence 778888899999999988887777766642 110 0001100 0122344555555555554
Q ss_pred cccc-------cCccEEEEECCcccHHHHHHHHHHHHH
Q 020502 196 HVDF-------NVVRCAVIASPGFTKDQFHRHLLLEAE 226 (325)
Q Consensus 196 ~~~~-------~~v~~iiIaGPGf~k~~f~~~l~~~~~ 226 (325)
.+++ ..+..|+|+|-|..-..|.+++.+.+.
T Consensus 270 ~l~~~~~~~~~~~i~~I~LtGgga~~~gl~~~l~~~l~ 307 (348)
T TIGR01175 270 SLQFFTAQSGTNSLDGLVLAGGGATLSGLDAAIYQRLG 307 (348)
T ss_pred HHHhhcCCCCCcccceEEEECccccchhHHHHHHHHHC
Confidence 4432 258999999998888889998888763
No 18
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=62.43 E-value=16 Score=29.31 Aligned_cols=39 Identities=10% Similarity=0.170 Sum_probs=31.1
Q ss_pred HHHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 278 LKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 278 le~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
++.++.. +...|+..+|.++|.+|+..|-+.-++|+.+.
T Consensus 13 i~~~Lgl-a~raGKlv~G~~~vlkalk~gkaklViiA~D~ 51 (108)
T PTZ00106 13 INSKLQL-VMKSGKYTLGTKSTLKALRNGKAKLVIISNNC 51 (108)
T ss_pred HHHHHHH-HHHhCCeeecHHHHHHHHHcCCeeEEEEeCCC
Confidence 3444443 34458999999999999999999999999764
No 19
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=61.15 E-value=16 Score=27.75 Aligned_cols=28 Identities=21% Similarity=0.337 Sum_probs=25.8
Q ss_pred CeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 290 TRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 290 ~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
++...|.++|.+|++.|-+..++|..+.
T Consensus 10 gkl~~G~~~v~kai~~gkaklViiA~D~ 37 (82)
T PRK13602 10 KSIVIGTKQTVKALKRGSVKEVVVAEDA 37 (82)
T ss_pred CCEEEcHHHHHHHHHcCCeeEEEEECCC
Confidence 7899999999999999999999998764
No 20
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=60.88 E-value=21 Score=29.27 Aligned_cols=38 Identities=16% Similarity=0.202 Sum_probs=31.0
Q ss_pred HHHHHHhhcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 279 KDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 279 e~f~~~l~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
-.++....+. +....|.++|.+|++.|-+.-++|.++.
T Consensus 19 ~~lL~la~ra-gklv~G~~~v~kaikkgkakLVilA~D~ 56 (122)
T PRK04175 19 LEAVEKARDT-GKIKKGTNETTKAVERGIAKLVVIAEDV 56 (122)
T ss_pred HHHHHHHHHc-CCEeEcHHHHHHHHHcCCccEEEEeCCC
Confidence 3444444444 8999999999999999999999999876
No 21
>PF03485 Arg_tRNA_synt_N: Arginyl tRNA synthetase N terminal domain; InterPro: IPR005148 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found at the N terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition [].; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1F7V_A 1F7U_A 1BS2_A 2ZUE_A 2ZUF_A 1IQ0_A 3GDZ_B.
Probab=60.17 E-value=10 Score=28.64 Aligned_cols=29 Identities=14% Similarity=0.348 Sum_probs=21.4
Q ss_pred HHHHHHHHHHhccccc-CccEEEEECCccc
Q 020502 185 FFENVLQAFLKHVDFN-VVRCAVIASPGFT 213 (325)
Q Consensus 185 F~~~v~~~l~~~~~~~-~v~~iiIaGPGf~ 213 (325)
==.+|++.+.+.+... .++.+=++||||+
T Consensus 52 ~P~~iA~~i~~~l~~~~~i~~vev~gpGFi 81 (85)
T PF03485_consen 52 NPREIAEEIAEKLEKSPIIEKVEVAGPGFI 81 (85)
T ss_dssp -HHHHHHHHHHCHCTTTTEEEEEEETTTEE
T ss_pred CHHHHHHHHHHhcCCCCCEEEEEEcCCcEE
Confidence 3456777787777533 3889999999996
No 22
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=58.31 E-value=13 Score=26.94 Aligned_cols=24 Identities=25% Similarity=0.374 Sum_probs=22.8
Q ss_pred EEcHHHHHHHHhccC-ccEEEEecC
Q 020502 293 CYGPKHVEVAHERMA-VQTLLITDD 316 (325)
Q Consensus 293 ~YG~~eV~~A~e~gA-VetLLIsD~ 316 (325)
.||...|.+|++.|. +..|+++++
T Consensus 2 ieG~~~V~eaL~~~~~i~~l~~~~~ 26 (76)
T PF08032_consen 2 IEGRHAVEEALKSGPRIKKLFVTEE 26 (76)
T ss_dssp EESHHHHHHHHHCTGGEEEEEEETT
T ss_pred EEEHHHHHHHHcCCCCccEEEEEcC
Confidence 699999999999988 999999998
No 23
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=57.18 E-value=25 Score=27.61 Aligned_cols=29 Identities=10% Similarity=0.142 Sum_probs=26.8
Q ss_pred CCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 289 PTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 289 ~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
.++...|.++|.+|++.|-+.-++|+++.
T Consensus 14 agkl~~G~~~v~kai~~gkaklViiA~D~ 42 (99)
T PRK01018 14 TGKVILGSKRTIKAIKLGKAKLVIVASNC 42 (99)
T ss_pred cCCEEEcHHHHHHHHHcCCceEEEEeCCC
Confidence 48999999999999999999999999874
No 24
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=55.39 E-value=1e+02 Score=31.46 Aligned_cols=80 Identities=15% Similarity=0.082 Sum_probs=49.1
Q ss_pred EEEEEEeCCeEEEEEEecceEEE-------EEEEEEecCCCCCCCccchhHHHHHHHHHHHHHHHhcccccCccEEEEEC
Q 020502 137 LAVVLMQEGLAHILLVGRSMTIT-------RSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIAS 209 (325)
Q Consensus 137 ~~~vvid~g~A~i~ll~~~~~~~-------~~~i~~~ip~K~~~~~s~~~~~~~~F~~~v~~~l~~~~~~~~v~~iiIaG 209 (325)
=.++=|+...|++.-++.+.+.+ ..+++..-|=-+..- ..-..-++ +.+.|.+ .-++|+|||
T Consensus 202 ~sfIEi~r~GatVvQlrn~RIvIarPPfSd~~EITavRPvvk~~l--edY~L~dk----l~eRL~e-----raeGILIAG 270 (604)
T COG1855 202 DSFIEIDRPGATVVQLRNYRIVIARPPFSDRWEITAVRPVVKLSL--EDYGLSDK----LKERLEE-----RAEGILIAG 270 (604)
T ss_pred CceEEEccCCceEEEeccEEEEEecCCCCCceEEEEEeeeEEech--hhcCCCHH----HHHHHHh-----hhcceEEec
Confidence 47899999999999999888776 344555444321100 00001112 2223333 356899988
Q ss_pred -CcccHHHHHHHHHHHHHh
Q 020502 210 -PGFTKDQFHRHLLLEAER 227 (325)
Q Consensus 210 -PGf~k~~f~~~l~~~~~~ 227 (325)
||.=|..|.+-|.+-+.+
T Consensus 271 ~PGaGKsTFaqAlAefy~~ 289 (604)
T COG1855 271 APGAGKSTFAQALAEFYAS 289 (604)
T ss_pred CCCCChhHHHHHHHHHHHh
Confidence 688899998876666554
No 25
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=54.07 E-value=20 Score=27.28 Aligned_cols=29 Identities=24% Similarity=0.327 Sum_probs=26.3
Q ss_pred CCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 289 PTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 289 ~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
+|+...|.++|.+|++.|-+..++|..+.
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da 34 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDA 34 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCC
Confidence 47899999999999999999999998764
No 26
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=53.91 E-value=34 Score=27.74 Aligned_cols=30 Identities=23% Similarity=0.338 Sum_probs=27.4
Q ss_pred CCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 288 DPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 288 ~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
..+..++|.++|.+|++.|-+.-++|+.+.
T Consensus 23 ragkl~~G~~~v~kaikkgka~LVilA~D~ 52 (117)
T TIGR03677 23 ETGKIKKGTNEVTKAVERGIAKLVVIAEDV 52 (117)
T ss_pred HcCCEeEcHHHHHHHHHcCCccEEEEeCCC
Confidence 447899999999999999999999999876
No 27
>PRK06683 hypothetical protein; Provisional
Probab=53.00 E-value=27 Score=26.52 Aligned_cols=30 Identities=20% Similarity=0.256 Sum_probs=26.8
Q ss_pred CCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 288 DPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 288 ~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
+.++.+.|.++|.+|++.|-++.++|..+.
T Consensus 8 ~agk~v~G~~~v~kaik~gkaklViiA~Da 37 (82)
T PRK06683 8 NAENVVVGHKRTLEAIKNGIVKEVVIAEDA 37 (82)
T ss_pred hCCCEEEcHHHHHHHHHcCCeeEEEEECCC
Confidence 447899999999999999999999998764
No 28
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=50.85 E-value=26 Score=26.92 Aligned_cols=26 Identities=27% Similarity=0.344 Sum_probs=23.5
Q ss_pred EEEcHHHHHHHHhccCccEEEEecCC
Q 020502 292 ACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 292 a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
..+|.+++.+|++.|-+..++|..+.
T Consensus 14 ~vvG~kqt~Kai~kg~~~~v~iA~Da 39 (84)
T PRK13600 14 FVVGLKETLKALKKDQVTSLIIAEDV 39 (84)
T ss_pred ceeeHHHHHHHHhcCCceEEEEeCCC
Confidence 48999999999999999999998664
No 29
>PRK09557 fructokinase; Reviewed
Probab=48.85 E-value=64 Score=30.09 Aligned_cols=47 Identities=9% Similarity=0.099 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHh
Q 020502 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAER 227 (325)
Q Consensus 181 ~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~ 227 (325)
.+++|.+.++.++....+..++..|||+|.-...+.|.+.+.+...+
T Consensus 224 ~l~~~~~~La~~l~~l~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~~ 270 (301)
T PRK09557 224 AFRRYEDRLAKSLAHVINILDPDVIVLGGGMSNVDRLYPTLPALLKQ 270 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEEcCcccchHHHHHHHHHHHHH
Confidence 45566667777777777778899999999866556676666655544
No 30
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=47.97 E-value=41 Score=31.21 Aligned_cols=47 Identities=6% Similarity=0.040 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHh
Q 020502 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAER 227 (325)
Q Consensus 181 ~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~ 227 (325)
.+++|...++..+....+..++..|||+|+....+.|.+.+.+.+.+
T Consensus 213 ~~~~~~~~la~~l~~l~~~~dpe~IvlgG~~~~~~~~~~~i~~~l~~ 259 (291)
T PRK05082 213 LINRSAQAIARLIADLKATLDCQCVVLGGSVGLAEGYLELVQAYLAQ 259 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEEcCccccHHHHHHHHHHHHHh
Confidence 34456666666666666677899999999987777777766665543
No 31
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=45.24 E-value=83 Score=30.15 Aligned_cols=109 Identities=17% Similarity=0.210 Sum_probs=58.3
Q ss_pred cChhhHHHHHHhcCCCCCCcEEEEEE-eCCeEEEEEEecc---eEEEEEEEEEecCCCCCCCccchhHHHHHHHHHHHHH
Q 020502 117 WDSLALDTLHQAADPTASADLAVVLM-QEGLAHILLVGRS---MTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQA 192 (325)
Q Consensus 117 wd~~~le~L~ea~~~~~~~~~~~vvi-d~g~A~i~ll~~~---~~~~~~~i~~~ip~K~~~~~s~~~~~~~~F~~~v~~~ 192 (325)
+-.+..+.|++.- -...++-+ .+-..++-++.+. .|+ -+-|+= .-.+...+.|.+.+...
T Consensus 63 tg~~~~~~l~~~g-----i~~~fv~v~g~TRinvki~~~~~~~~Te------in~~Gp-----~is~~~~~~~l~~~~~~ 126 (310)
T COG1105 63 TGEFFVALLKDEG-----IPDAFVEVKGDTRINVKILDEEDGEETE------INFPGP-----EISEAELEQFLEQLKAL 126 (310)
T ss_pred cHHHHHHHHHhcC-----CCceEEEccCCCeeeEEEEecCCCcEEE------ecCCCC-----CCCHHHHHHHHHHHHHh
Confidence 4446677777632 23345544 3445555555542 222 222321 11345667777665444
Q ss_pred HHhcccccCccEEEEEC---CcccHHHHHHHHHHHHHhccccccccccCcEEEEEcCCCccchHHHHhcCh
Q 020502 193 FLKHVDFNVVRCAVIAS---PGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAP 260 (325)
Q Consensus 193 l~~~~~~~~v~~iiIaG---PGf~k~~f~~~l~~~~~~~~~~~~~~~~~k~~v~~~s~g~~~gl~Evl~~~ 260 (325)
+.. .+.|+++| ||.-. ++|.-|-+.+++ .+..+++|+|. ..|.++|+-+
T Consensus 127 l~~------~d~VvlsGSlP~g~~~-d~y~~li~~~~~---------~g~~vilD~Sg---~~L~~~L~~~ 178 (310)
T COG1105 127 LES------DDIVVLSGSLPPGVPP-DAYAELIRILRQ---------QGAKVILDTSG---EALLAALEAK 178 (310)
T ss_pred ccc------CCEEEEeCCCCCCCCH-HHHHHHHHHHHh---------cCCeEEEECCh---HHHHHHHccC
Confidence 443 44699999 55555 555445455543 24567889886 3466666654
No 32
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=44.81 E-value=43 Score=27.28 Aligned_cols=30 Identities=23% Similarity=0.305 Sum_probs=26.6
Q ss_pred CCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 288 DPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 288 ~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
..+.+.+|.++|.+|++.|-..-++|+.+.
T Consensus 24 ~~~ki~~G~~e~~Kai~~g~a~LVviA~Dv 53 (116)
T COG1358 24 RAGKLKKGTNEVTKAIERGKAKLVVIAEDV 53 (116)
T ss_pred hcCCchhhHHHHHHHHHcCCCcEEEEecCC
Confidence 336899999999999999999999998764
No 33
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=37.03 E-value=1.2e+02 Score=28.32 Aligned_cols=47 Identities=9% Similarity=0.040 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHh
Q 020502 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAER 227 (325)
Q Consensus 181 ~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~ 227 (325)
.+++|.+.++..+....+..++..|||+|+-...+.|.+.+.+...+
T Consensus 225 ~~~~~~~~la~~l~n~~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~~ 271 (303)
T PRK13310 225 HVERYLDLLAICLGNILTIVDPHLVVLGGGLSNFDAIYEQLPKRLPR 271 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEECCcccChHHHHHHHHHHHHH
Confidence 45566666666666776777899999999754445566666665543
No 34
>PRK09190 hypothetical protein; Provisional
Probab=36.93 E-value=1e+02 Score=28.04 Aligned_cols=32 Identities=16% Similarity=0.156 Sum_probs=27.7
Q ss_pred hcCCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 286 TNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 286 ~~~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
++..+.+++|.+.|..|+..|-+.-||+..+.
T Consensus 106 ArRAGklVsG~~~V~~alk~gk~~Lvi~A~Da 137 (220)
T PRK09190 106 ARKAGQVVSGFEKVDAALRSGEAAALIHASDG 137 (220)
T ss_pred HhhhCCEeecHHHHHHHHHcCCceEEEEeccC
Confidence 44558999999999999999999999988764
No 35
>smart00536 AXH domain in Ataxins and HMG containing proteins. unknown function
Probab=34.32 E-value=1.6e+02 Score=24.07 Aligned_cols=80 Identities=20% Similarity=0.263 Sum_probs=51.4
Q ss_pred CceEEEeccCc--hhHHHHHHhhCCCCeEEEEeEEEEEecccCCCccceEEEEEEEEEEEEEeecCCCCeEEEEEEEeec
Q 020502 13 PGSVKMEPVDS--DDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERVKLKLEIKVEVVDYDKEGSVLRIRGKNILE 90 (325)
Q Consensus 13 ~g~v~l~pE~~--dDlw~Lynli~~GD~V~a~T~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~~ef~~~~~~Lri~G~i~~~ 90 (325)
+|..+ ..||. ||+-.- -..+++-.+.+.|+.++... ++. .+-.+.|++....
T Consensus 12 ~G~~k-rvEDl~teDfi~s-a~~s~~~~l~~stv~~i~~~---~~~-----------~~v~itF~~g~~~---------- 65 (116)
T smart00536 12 NGSNK-KVEDLKTEDFIRS-AECSNDEEIQMSTVKRIGSS---GLP-----------SVVTLTFDPGVED---------- 65 (116)
T ss_pred CCCee-eeeccchhhhHhh-hccCCcccccceeEEEeCCC---CCc-----------ceEEEEEEecCcc----------
Confidence 44554 67787 887665 66677777888888888642 211 1124556542221
Q ss_pred CcccccccEEEEEEccCcceEEEEcccChhhHHHH
Q 020502 91 NEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTL 125 (325)
Q Consensus 91 ~e~v~~G~~HTl~i~~~~~i~i~K~~wd~~~le~L 125 (325)
+--|+++.+..||=++-..|.++.=++=
T Consensus 66 -------~~v~~ev~~eHPfFV~gqGWsSc~P~lT 93 (116)
T smart00536 66 -------ALLTVECQVEHPFFVKGKGWSSCYPSLT 93 (116)
T ss_pred -------ceEEEEEecCCCeEEcCccccccChhhh
Confidence 3357788888999888889998654443
No 36
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=32.53 E-value=80 Score=32.94 Aligned_cols=61 Identities=18% Similarity=0.331 Sum_probs=33.8
Q ss_pred HHHHHHHHhccccc-CccEEEEECCcccH----H-HHHHHHHHHHHhcccc---ccccccCcEEEEEcCC
Q 020502 187 ENVLQAFLKHVDFN-VVRCAVIASPGFTK----D-QFHRHLLLEAERRQLR---PIIENKSRIILVHTSS 247 (325)
Q Consensus 187 ~~v~~~l~~~~~~~-~v~~iiIaGPGf~k----~-~f~~~l~~~~~~~~~~---~~~~~~~k~~v~~~s~ 247 (325)
++||+.+.+.+..+ .+..|-+|||||+. . .+.+.+...+.+.... .......++++.++|.
T Consensus 57 ~eiA~~i~~~l~~~~~~~~veiaGpgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSa 126 (577)
T COG0018 57 REIAEEIAEKLDTDEIIEKVEIAGPGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSA 126 (577)
T ss_pred HHHHHHHHHhccccCcEeEEEEcCCCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCC
Confidence 45777777776644 58889999999763 2 2233444433321111 1111123777888773
No 37
>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport. Several missense mutations and deletion mutations in the SEDL gene, which result in protein truncation by frame shift, are responsible for spondyloepiphyseal dysplasia tarda, a progressive skeletal disorder (OMIM:313400). [].; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005622 intracellular; PDB: 3PR6_A 2J3W_A 1H3Q_A.
Probab=32.03 E-value=2.7e+02 Score=22.76 Aligned_cols=70 Identities=14% Similarity=0.109 Sum_probs=51.7
Q ss_pred hHHHHHHhcCC-CCCCcEEEEEEeCCeEEEEEEecceEEEEEEEEEecCCCCCCCccchhHHHHHHHHHHHHHHHhcc
Q 020502 121 ALDTLHQAADP-TASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHV 197 (325)
Q Consensus 121 ~le~L~ea~~~-~~~~~~~~vvid~g~A~i~ll~~~~~~~~~~i~~~ip~K~~~~~s~~~~~~~~F~~~v~~~l~~~~ 197 (325)
.|+.+++.+.. ....-++.|---++-..-+.++..+++.+--.... .....+..+..||++|.+.-.+.+
T Consensus 36 sLD~iee~~~~~~~~~yLg~l~~~~~~~vygyvT~t~~Kfvl~~~~~-------~~~~~d~~ik~fF~~vh~~Y~~~~ 106 (132)
T PF04628_consen 36 SLDVIEEKLWKSSSDMYLGLLDPFEDYKVYGYVTNTGIKFVLVHDMS-------DNSIRDEDIKQFFKEVHELYVKAL 106 (132)
T ss_dssp HHHHHHHCCHCSSSCSEEEEEEEETTEEEEEEETTT--EEEEEECGG-------G-S--HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhcccccccCceehhhhHHHHhhhccCceeEEEEEecc-------cCCcchHHHHHHHHHHHHHHHHHc
Confidence 68888888777 66677898888899999999999998887655421 011257899999999998887765
No 38
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=29.19 E-value=86 Score=24.77 Aligned_cols=30 Identities=10% Similarity=0.153 Sum_probs=27.0
Q ss_pred CCCeEEEcHHHHHHHHhccCccEEEEecCC
Q 020502 288 DPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (325)
Q Consensus 288 ~~~~a~YG~~eV~~A~e~gAVetLLIsD~l 317 (325)
+.|++..|.+.+.+++.+|..+.++|..+.
T Consensus 16 kTGkvilG~k~tiK~lk~gkaKliiiAsN~ 45 (100)
T COG1911 16 KTGKVILGSKRTIKSLKLGKAKLIIIASNC 45 (100)
T ss_pred hcCCEEEehHHHHHHHHcCCCcEEEEecCC
Confidence 458999999999999999999999998754
No 39
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=28.69 E-value=3.3e+02 Score=25.89 Aligned_cols=89 Identities=15% Similarity=0.148 Sum_probs=57.6
Q ss_pred cEEEEEEeCCeEEEEEEecceEEEEEEEEEecCCC---------------------CCCC--ccchhHHHHHHHHHHHHH
Q 020502 136 DLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRK---------------------HGPA--IAGYESALNKFFENVLQA 192 (325)
Q Consensus 136 ~~~~vvid~g~A~i~ll~~~~~~~~~~i~~~ip~K---------------------~~~~--~s~~~~~~~~F~~~v~~~ 192 (325)
.+++|-+.....+++++.+........+. +++. ...+ .......+..|++++++.
T Consensus 181 ~~~lvdiG~~~t~~~i~~~g~~~f~R~i~--~G~~~l~~~i~~~~~i~~~~Ae~~k~~~~l~~~~~~~~l~~~~~~l~~E 258 (340)
T PF11104_consen 181 TVALVDIGASSTTVIIFQNGKPIFSRSIP--IGGNDLTEAIARELGIDFEEAEELKRSGGLPEEYDQDALRPFLEELARE 258 (340)
T ss_dssp EEEEEEE-SS-EEEEEEETTEEEEEEEES---SHHHHHHHHHHHTT--HHHHHHHHHHT------HHHHHHHHHHHHHHH
T ss_pred eEEEEEecCCeEEEEEEECCEEEEEEEEe--eCHHHHHHHHHHhcCCCHHHHHHHHhcCCCCcchHHHHHHHHHHHHHHH
Confidence 57888899999999999988877666553 2221 0000 000133566788888888
Q ss_pred HHhccc-------ccCccEEEEECCcccHHHHHHHHHHHHH
Q 020502 193 FLKHVD-------FNVVRCAVIASPGFTKDQFHRHLLLEAE 226 (325)
Q Consensus 193 l~~~~~-------~~~v~~iiIaGPGf~k~~f~~~l~~~~~ 226 (325)
+.+.++ ...++.|+++|.|-.-..+.+||.+++.
T Consensus 259 I~rsl~~y~~~~~~~~i~~I~L~Ggga~l~gL~~~l~~~l~ 299 (340)
T PF11104_consen 259 IRRSLDFYQSQSGGESIERIYLSGGGARLPGLAEYLSEELG 299 (340)
T ss_dssp HHHHHHHHHHH------SEEEEESGGGGSTTHHHHHHHHHT
T ss_pred HHHHHHHHHhcCCCCCCCEEEEECCccchhhHHHHHHHHHC
Confidence 877665 2468999999999888889999988863
No 40
>COG4972 PilM Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=27.92 E-value=1.2e+02 Score=29.52 Aligned_cols=47 Identities=11% Similarity=0.189 Sum_probs=38.9
Q ss_pred hHHHHHHHHHHHHHHHhccc-------ccCccEEEEECCcccHHHHHHHHHHHH
Q 020502 179 ESALNKFFENVLQAFLKHVD-------FNVVRCAVIASPGFTKDQFHRHLLLEA 225 (325)
Q Consensus 179 ~~~~~~F~~~v~~~l~~~~~-------~~~v~~iiIaGPGf~k~~f~~~l~~~~ 225 (325)
.+.+..|..++.+.+.+.+. ...+++|+++|||-.-..+.+++.+++
T Consensus 258 ~~vl~~f~~~l~~ei~Rslqfy~~~s~~~~id~i~LaGggA~l~gL~~~i~qrl 311 (354)
T COG4972 258 SEVLRPFLGELTQEIRRSLQFYLSQSEMVDIDQILLAGGGASLEGLAAAIQQRL 311 (354)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccceeeEEEEecCCcchhhHHHHHHHHh
Confidence 45678999999998877665 357999999999999999888888776
No 41
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=26.36 E-value=1.5e+02 Score=27.46 Aligned_cols=45 Identities=9% Similarity=0.090 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHH
Q 020502 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEA 225 (325)
Q Consensus 181 ~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~ 225 (325)
.++.+++++++.+.+.+....+..|+++|-|---..+.+++.+.+
T Consensus 201 ii~~~~~~i~~~i~~~l~~~~~~~IvLtGG~s~lpgl~e~l~~~l 245 (267)
T PRK15080 201 VVKPVVEKMASIVARHIEGQDVEDIYLVGGTCCLPGFEEVFEKQT 245 (267)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCEEEEECCcccchhHHHHHHHHh
Confidence 345677777777777776667888888888866666777777765
No 42
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=25.56 E-value=2e+02 Score=24.56 Aligned_cols=55 Identities=15% Similarity=0.217 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHhccccccccccCcEEEEEcCCC
Q 020502 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSG 248 (325)
Q Consensus 181 ~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~~f~~~l~~~~~~~~~~~~~~~~~k~~v~~~s~g 248 (325)
++.+..+. +.+... .+...+|.+-||-=|+.|.+.+.+...+. ...|+.++|+.-
T Consensus 7 ~m~~~~~~----~~~~a~-~~~pVlI~GE~GtGK~~lA~~IH~~s~r~--------~~pfi~vnc~~~ 61 (168)
T PF00158_consen 7 AMKRLREQ----AKRAAS-SDLPVLITGETGTGKELLARAIHNNSPRK--------NGPFISVNCAAL 61 (168)
T ss_dssp HHHHHHHH----HHHHTT-STS-EEEECSTTSSHHHHHHHHHHCSTTT--------TS-EEEEETTTS
T ss_pred HHHHHHHH----HHHHhC-CCCCEEEEcCCCCcHHHHHHHHHHhhhcc--------cCCeEEEehhhh
Confidence 45544444 444333 23545666778888999998888865432 347899999864
No 43
>PRK10439 enterobactin/ferric enterobactin esterase; Provisional
Probab=25.34 E-value=1e+02 Score=30.51 Aligned_cols=49 Identities=16% Similarity=0.103 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHhccccc--cccccCcEEEEEcCCCccchHHHHhcChhH
Q 020502 214 KDQFHRHLLLEAERRQLRP--IIENKSRIILVHTSSGYKHSLREVLDAPNV 262 (325)
Q Consensus 214 k~~f~~~l~~~~~~~~~~~--~~~~~~k~~v~~~s~g~~~gl~Evl~~~~v 262 (325)
..+|.+||.+++.....+. ......+.++...|+||..+++=.|+.|+.
T Consensus 262 ~~~f~~~l~~eLlP~I~~~y~~~~d~~~~~IaG~S~GGl~AL~~al~~Pd~ 312 (411)
T PRK10439 262 NADFWLAVQQELLPQVRAIAPFSDDADRTVVAGQSFGGLAALYAGLHWPER 312 (411)
T ss_pred hHHHHHHHHHHHHHHHHHhCCCCCCccceEEEEEChHHHHHHHHHHhCccc
Confidence 3467788777764422211 223345678999999999999999999864
No 44
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=24.70 E-value=1.2e+02 Score=21.26 Aligned_cols=33 Identities=21% Similarity=0.272 Sum_probs=26.4
Q ss_pred cCCCceEEEeccCchhHHHHHHhhCCCCeEEEEe
Q 020502 10 ENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVT 43 (325)
Q Consensus 10 ~~~~g~v~l~pE~~dDlw~Lynli~~GD~V~a~T 43 (325)
.|++|.+.+..-+ +++-..++.+.+||.|...-
T Consensus 23 ~D~tg~i~~~~~~-~~~~~~~~~l~~g~~v~v~G 55 (75)
T PF01336_consen 23 EDGTGSIQVVFFN-EEYERFREKLKEGDIVRVRG 55 (75)
T ss_dssp EETTEEEEEEEET-HHHHHHHHTS-TTSEEEEEE
T ss_pred EECCccEEEEEcc-HHhhHHhhcCCCCeEEEEEE
Confidence 4578888888877 77788888999999999874
No 45
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=24.10 E-value=3.6e+02 Score=25.07 Aligned_cols=21 Identities=10% Similarity=0.316 Sum_probs=15.5
Q ss_pred ccCccEEEEECCcccHHHHHH
Q 020502 199 FNVVRCAVIASPGFTKDQFHR 219 (325)
Q Consensus 199 ~~~v~~iiIaGPGf~k~~f~~ 219 (325)
...+..|.++.|....+.+..
T Consensus 142 ~~gi~~I~lv~PtT~~eri~~ 162 (263)
T CHL00200 142 LYNIELILLIAPTSSKSRIQK 162 (263)
T ss_pred HcCCCEEEEECCCCCHHHHHH
Confidence 357889999999976665543
No 46
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=23.62 E-value=1.8e+02 Score=27.12 Aligned_cols=46 Identities=9% Similarity=0.061 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhcccccCccEEEEEC--CcccHHHHHHHHHHHHHh
Q 020502 182 LNKFFENVLQAFLKHVDFNVVRCAVIAS--PGFTKDQFHRHLLLEAER 227 (325)
Q Consensus 182 ~~~F~~~v~~~l~~~~~~~~v~~iiIaG--PGf~k~~f~~~l~~~~~~ 227 (325)
++++.+.++..+....+..++..|||+| +....+.|.+.+......
T Consensus 228 ~~~~~~~la~~ianl~~~~~P~~IvigG~g~~~~~~~~~~~l~~~~~~ 275 (314)
T COG1940 228 IERAADYLARGLANLINLLDPEVIVIGGGGVSALGDLLLPRLRKLLAK 275 (314)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCeEEEECcccccchhHHHHHHHHHHHH
Confidence 5566666666666776777899999987 555667777777766554
No 47
>PF07116 DUF1372: Protein of unknown function (DUF1372); InterPro: IPR010779 This entry is represented by Streptococcus phage Sfi11, Gp93. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Streptococcus bacteriophage sequences and related proteins from Streptococcus species. Members of this family are typically around 100 residues in length and their function is unknown.
Probab=23.52 E-value=1.2e+02 Score=24.17 Aligned_cols=36 Identities=28% Similarity=0.385 Sum_probs=29.6
Q ss_pred EEEEEEEeecCcccccccEEEEEEccCcceEEEEcccCh
Q 020502 81 LRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS 119 (325)
Q Consensus 81 Lri~G~i~~~~e~v~~G~~HTl~i~~~~~i~i~K~~wd~ 119 (325)
--+.|++++-. .+|.++|+++..--.|-+.|+.+++
T Consensus 56 ~ei~GkVt~K~---~ig~~yTvti~~YGkFlVtkeqY~~ 91 (104)
T PF07116_consen 56 AEIFGKVTEKE---IIGGLYTVTIGAYGKFLVTKEQYES 91 (104)
T ss_pred cEEEEEEeece---eECCEEEEEecCceEEEEehhhcce
Confidence 45789998743 6799999999998899999877765
No 48
>PF09345 DUF1987: Domain of unknown function (DUF1987); InterPro: IPR018530 This family of proteins are functionally uncharacterised.
Probab=22.84 E-value=69 Score=25.30 Aligned_cols=22 Identities=36% Similarity=0.516 Sum_probs=19.2
Q ss_pred EEeecCCCCeEEEEEEEeecCc
Q 020502 71 VVDYDKEGSVLRIRGKNILENE 92 (325)
Q Consensus 71 ~~ef~~~~~~Lri~G~i~~~~e 92 (325)
.|.||+.+|+|+|+|.-..++.
T Consensus 2 ~V~Fd~~~g~l~i~GeSypEn~ 23 (99)
T PF09345_consen 2 EVDFDFDTGRLEISGESYPENA 23 (99)
T ss_pred eEEEEccCCEEEEecccCccCH
Confidence 4789999999999999887774
No 49
>PTZ00288 glucokinase 1; Provisional
Probab=22.58 E-value=6.3e+02 Score=25.08 Aligned_cols=87 Identities=22% Similarity=0.224 Sum_probs=44.3
Q ss_pred ChhhHHHHHHhcCCCCC--CcEEEEEEeCCe--EEEEEEec--ceEEEEEEEEEecC-CCCCCCccchhHHHHHHHHHHH
Q 020502 118 DSLALDTLHQAADPTAS--ADLAVVLMQEGL--AHILLVGR--SMTITRSRIETSIP-RKHGPAIAGYESALNKFFENVL 190 (325)
Q Consensus 118 d~~~le~L~ea~~~~~~--~~~~~vvid~g~--A~i~ll~~--~~~~~~~~i~~~ip-~K~~~~~s~~~~~~~~F~~~v~ 190 (325)
+..+++.|.+.+....+ ....+|.+|-|. +.+++..- +............| ++. .-...-+||.++.
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~DiGgt~~R~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~ 78 (405)
T PTZ00288 5 DEIFLEQLAEELKTDASWSSGPIFVGCDVGGTNARVGFAREVQHDDSGVHIIYVRFNVTKT------DIRELLEFFDEVL 78 (405)
T ss_pred hHHHHHHHHHHhccCcccccCCeEEEEEecCCceEEEEEeccCCCCCceeEEEEecccccc------cHHHHHHHHHHHH
Confidence 34567888877665442 222355566655 44555443 11111222333444 221 1234678888888
Q ss_pred HHHHhccc-ccCcc--EEEEECC
Q 020502 191 QAFLKHVD-FNVVR--CAVIASP 210 (325)
Q Consensus 191 ~~l~~~~~-~~~v~--~iiIaGP 210 (325)
+.|.+... ...+. ||-||||
T Consensus 79 ~~l~~~~~~~~~~~~a~iAvAGP 101 (405)
T PTZ00288 79 QKLKKNLSFIQRVAAGAISVPGP 101 (405)
T ss_pred HHHHhcCccccCcCeEEEEEeCc
Confidence 88887542 12333 5555555
No 50
>KOG0283 consensus WD40 repeat-containing protein [Function unknown]
Probab=21.67 E-value=7.3e+02 Score=26.66 Aligned_cols=87 Identities=16% Similarity=0.184 Sum_probs=58.1
Q ss_pred EEEEEeecCCCCeEEEEEEEeecCcccccccEEEEEEccCcceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEeCCeE
Q 020502 68 KVEVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQEGLA 147 (325)
Q Consensus 68 ~Ve~~ef~~~~~~Lri~G~i~~~~e~v~~G~~HTl~i~~~~~i~i~K~~wd~~~le~L~ea~~~~~~~~~~~vvid~g~A 147 (325)
-|+.|.|+|-+++..|+|-+ + |+-.-++| +.+.+. .|...+ +.+-.+| -.+.+..++|=.-.|.|
T Consensus 411 fVTcVaFnPvDDryFiSGSL-----D---~KvRiWsI-~d~~Vv----~W~Dl~-~lITAvc-y~PdGk~avIGt~~G~C 475 (712)
T KOG0283|consen 411 FVTCVAFNPVDDRYFISGSL-----D---GKVRLWSI-SDKKVV----DWNDLR-DLITAVC-YSPDGKGAVIGTFNGYC 475 (712)
T ss_pred eeEEEEecccCCCcEeeccc-----c---cceEEeec-CcCeeE----eehhhh-hhheeEE-eccCCceEEEEEeccEE
Confidence 47899999999999999954 1 44444444 333333 354332 3333444 33446889999999999
Q ss_pred EEEEEecceEEEEEEEEEecCC
Q 020502 148 HILLVGRSMTITRSRIETSIPR 169 (325)
Q Consensus 148 ~i~ll~~~~~~~~~~i~~~ip~ 169 (325)
.+|...+.....-..|...-.+
T Consensus 476 ~fY~t~~lk~~~~~~I~~~~~K 497 (712)
T KOG0283|consen 476 RFYDTEGLKLVSDFHIRLHNKK 497 (712)
T ss_pred EEEEccCCeEEEeeeEeeccCc
Confidence 9999888877777766655333
No 51
>TIGR00744 ROK_glcA_fam ROK family protein (putative glucokinase). This alignment models one branch of the ROK superfamily of proteins. The three members of the seed alignment for this model all have experimental evidence for activity as glucokinase, but the set of related proteins is crowded with paralogs of different or unknown function. Proteins scoring above the trusted_cutoff will show strong similarity to at least one known glucokinase and may be designated as putative glucokinases. However, definitive identification of glucokinases should be done only with extreme caution.
Probab=21.47 E-value=2.9e+02 Score=25.67 Aligned_cols=47 Identities=6% Similarity=-0.075 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCccc-HHHHHHHHHHHHHh
Q 020502 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFT-KDQFHRHLLLEAER 227 (325)
Q Consensus 181 ~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~-k~~f~~~l~~~~~~ 227 (325)
.++++-+.++..+....+..++..|||+|+-+. .+.|.+.+.+...+
T Consensus 231 i~~~~~~~L~~~i~~~~~~~dP~~IvlgG~~~~~~~~~~~~i~~~~~~ 278 (318)
T TIGR00744 231 SYREVARWAGAGLADLASLFNPSAIVLGGGLSDAGDLLLDPIRKSYKR 278 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEECChhhhCcHHHHHHHHHHHHH
Confidence 445555556666666666668999999997543 24566666555543
No 52
>PRK09698 D-allose kinase; Provisional
Probab=20.05 E-value=3.4e+02 Score=25.07 Aligned_cols=47 Identities=9% Similarity=0.135 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHH-HHHHHHHHHHHh
Q 020502 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKD-QFHRHLLLEAER 227 (325)
Q Consensus 181 ~~~~F~~~v~~~l~~~~~~~~v~~iiIaGPGf~k~-~f~~~l~~~~~~ 227 (325)
..++|.+.++..+....+..++..|||+|...-.. .|.++|.+...+
T Consensus 216 ~~~~~~~~la~~l~~li~~ldP~~IvlgG~~~~~~~~~~~~l~~~~~~ 263 (302)
T PRK09698 216 FIQSLLENLARAIATSINLFDPDAIILGGGVMDMPAFPRETLIAMIQK 263 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEEcCccccCchhHHHHHHHHHHH
Confidence 45666777777777777777899999999754333 345566655544
Done!