Query 024840
Match_columns 262
No_of_seqs 104 out of 578
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 07:48:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024840.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024840hhsearch_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 2.9E-69 6.3E-74 477.2 20.9 261 1-261 64-324 (379)
2 TIGR00111 pelota probable tran 100.0 4.5E-66 9.7E-71 476.8 31.3 242 1-255 62-304 (351)
3 COG1537 PelA Predicted RNA-bin 100.0 4.3E-64 9.3E-69 452.0 28.7 244 2-261 62-305 (352)
4 TIGR00108 eRF peptide chain re 100.0 4E-48 8.7E-53 363.3 27.8 226 12-255 80-319 (409)
5 TIGR03676 aRF1/eRF1 peptide ch 100.0 2.3E-46 5E-51 350.4 27.6 224 13-254 77-314 (403)
6 PRK04011 peptide chain release 100.0 4.5E-46 9.7E-51 349.7 27.5 228 13-256 84-324 (411)
7 COG1503 eRF1 Peptide chain rel 100.0 3.7E-35 8E-40 270.2 16.9 226 13-255 84-322 (411)
8 PF03464 eRF1_2: eRF1 domain 2 100.0 1E-29 2.2E-34 204.8 15.6 126 73-205 1-133 (133)
9 KOG0688 Peptide chain release 99.9 4.9E-27 1.1E-31 208.2 6.9 226 13-255 85-323 (431)
10 PF03463 eRF1_1: eRF1 domain 1 99.8 4.5E-19 9.7E-24 142.6 8.8 66 2-67 66-131 (132)
11 PF03465 eRF1_3: eRF1 domain 3 99.5 4.2E-14 9.2E-19 110.8 5.6 52 208-259 1-52 (113)
12 PF10116 Host_attach: Protein 96.0 0.032 6.9E-07 44.9 7.5 92 75-166 2-118 (138)
13 PRK07283 hypothetical protein; 78.1 2.7 5.8E-05 31.8 3.3 32 223-254 13-44 (98)
14 TIGR03677 rpl7ae 50S ribosomal 77.6 5.5 0.00012 31.2 5.0 39 216-254 12-52 (117)
15 PRK07714 hypothetical protein; 77.4 2.8 6.1E-05 31.7 3.2 33 223-255 13-45 (100)
16 PRK05583 ribosomal protein L7A 77.1 2.9 6.3E-05 32.0 3.2 33 223-255 12-44 (104)
17 PF01248 Ribosomal_L7Ae: Ribos 74.8 7.7 0.00017 28.6 5.0 29 227-255 14-42 (95)
18 PTZ00106 60S ribosomal protein 73.8 8 0.00017 29.9 4.9 40 215-255 13-52 (108)
19 PRK13602 putative ribosomal pr 73.3 7.1 0.00015 28.5 4.3 28 227-254 10-37 (82)
20 PRK09190 hypothetical protein; 71.0 19 0.00042 31.4 7.2 32 223-254 106-137 (220)
21 PRK04175 rpl7ae 50S ribosomal 70.5 12 0.00027 29.4 5.4 38 217-255 20-57 (122)
22 PRK01018 50S ribosomal protein 70.3 11 0.00025 28.4 5.0 29 226-254 14-42 (99)
23 PF08032 SpoU_sub_bind: RNA 2' 70.3 6.2 0.00013 27.6 3.4 24 230-253 2-26 (76)
24 PRK06683 hypothetical protein; 67.6 12 0.00025 27.4 4.4 31 225-255 8-38 (82)
25 PRK13601 putative L7Ae-like ri 67.1 9.3 0.0002 28.0 3.8 30 226-255 6-35 (82)
26 PF03485 Arg_tRNA_synt_N: Argi 62.9 9 0.00019 27.7 3.1 27 124-150 54-81 (85)
27 TIGR01175 pilM type IV pilus a 62.2 1.2E+02 0.0027 27.5 11.8 89 74-162 190-306 (348)
28 PRK13600 putative ribosomal pr 62.1 14 0.0003 27.3 3.9 27 228-254 13-39 (84)
29 PF04628 Sedlin_N: Sedlin, N-t 53.3 1.1E+02 0.0024 24.1 8.1 71 57-134 35-106 (132)
30 COG1358 RPL8A Ribosomal protei 51.9 32 0.00069 27.0 4.6 30 225-254 24-53 (116)
31 PRK05082 N-acetylmannosamine k 49.8 41 0.00089 29.9 5.7 46 119-164 214-259 (291)
32 COG1105 FruK Fructose-1-phosph 48.9 2.2E+02 0.0047 26.2 11.2 112 54-197 63-178 (310)
33 COG4972 PilM Tfp pilus assembl 47.7 33 0.00072 31.9 4.7 48 115-162 257-311 (354)
34 PRK09557 fructokinase; Reviewe 47.3 79 0.0017 28.2 7.2 47 118-164 224-270 (301)
35 COG1911 RPL30 Ribosomal protei 44.7 38 0.00081 25.7 3.8 33 223-255 14-46 (100)
36 PF14213 DUF4325: Domain of un 42.0 34 0.00074 24.1 3.2 68 120-194 4-72 (74)
37 COG1855 ATPase (PilT family) [ 41.8 3.2E+02 0.0069 27.0 10.4 78 73-163 201-288 (604)
38 PRK13310 N-acetyl-D-glucosamin 34.5 1.7E+02 0.0036 26.1 7.2 47 118-164 225-271 (303)
39 PF11104 PilM_2: Type IV pilus 32.7 3.3E+02 0.0072 24.8 9.0 89 72-162 180-298 (340)
40 PF11215 DUF3010: Protein of u 32.6 2.7E+02 0.0058 22.5 7.7 61 74-144 3-67 (138)
41 COG0018 ArgS Arginyl-tRNA synt 30.6 99 0.0021 31.0 5.4 27 125-151 58-85 (577)
42 PF07116 DUF1372: Protein of u 29.1 82 0.0018 24.1 3.5 36 18-56 56-91 (104)
43 PRK15080 ethanolamine utilizat 27.8 1.5E+02 0.0032 26.3 5.6 87 74-162 137-245 (267)
44 PF08967 DUF1884: Domain of un 26.6 43 0.00093 24.6 1.5 17 141-162 29-45 (85)
45 PF09345 DUF1987: Domain of un 25.3 57 0.0012 24.7 2.1 22 8-29 2-23 (99)
46 TIGR03630 arch_S17P archaeal r 25.1 57 0.0012 25.0 2.0 16 13-28 18-33 (102)
47 COG5015 Uncharacterized conser 25.1 3.5E+02 0.0077 21.5 8.1 63 9-91 62-125 (132)
48 COG1940 NagC Transcriptional r 24.2 1.9E+02 0.0042 25.8 5.8 46 119-164 228-275 (314)
49 smart00675 DM11 Domains in hyp 24.2 1.3E+02 0.0029 25.0 4.2 33 7-50 33-65 (164)
50 PF09290 AcetDehyd-dimer: Prok 23.4 1.3E+02 0.0029 24.2 3.9 49 94-148 22-70 (137)
51 COG1915 Uncharacterized conser 23.1 1.1E+02 0.0023 28.4 3.7 34 115-149 178-211 (415)
52 PF12984 DUF3868: Domain of un 22.8 1.8E+02 0.0039 22.5 4.6 39 3-43 29-67 (115)
53 PF07318 DUF1464: Protein of u 22.1 3E+02 0.0064 25.8 6.5 91 118-208 239-330 (343)
54 PF10664 NdhM: Cyanobacterial 22.0 3E+02 0.0065 21.1 5.3 50 16-70 6-59 (108)
55 KOG3069 Peroxisomal NUDIX hydr 21.5 3E+02 0.0066 24.4 6.1 60 68-127 40-103 (246)
56 PTZ00288 glucokinase 1; Provis 21.5 7.1E+02 0.015 23.7 10.5 87 55-147 5-101 (405)
57 PF06100 Strep_67kDa_ant: Stre 21.4 2.7E+02 0.0059 27.4 6.3 43 4-51 228-270 (500)
58 smart00732 YqgFc Likely ribonu 21.3 77 0.0017 22.8 2.1 26 121-150 38-63 (99)
59 KOG0283 WD40 repeat-containing 21.1 7.8E+02 0.017 25.4 9.7 86 6-106 412-497 (712)
60 TIGR00744 ROK_glcA_fam ROK fam 21.1 3.2E+02 0.0069 24.3 6.6 47 118-164 231-278 (318)
61 COG0420 SbcD DNA repair exonuc 20.7 1.8E+02 0.004 27.0 5.1 28 115-146 21-48 (390)
62 PTZ00222 60S ribosomal protein 20.7 1.3E+02 0.0027 27.0 3.6 31 224-254 128-158 (263)
63 cd00298 ACD_sHsps_p23-like Thi 20.6 2.4E+02 0.0053 18.4 4.6 39 9-49 24-62 (80)
64 PRK03011 butyrate kinase; Prov 20.2 4.3E+02 0.0094 24.7 7.3 63 117-189 272-337 (358)
65 PRK09245 enoyl-CoA hydratase; 20.2 1.7E+02 0.0037 25.6 4.5 43 98-148 14-58 (266)
66 COG3172 NadR Predicted ATPase/ 20.2 1.7E+02 0.0036 24.7 4.0 29 116-148 138-166 (187)
67 PRK07511 enoyl-CoA hydratase; 20.2 1.7E+02 0.0036 25.6 4.4 44 98-148 14-57 (260)
No 1
>KOG2869 consensus Meiotic cell division protein Pelota/DOM34 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-69 Score=477.17 Aligned_cols=261 Identities=56% Similarity=0.876 Sum_probs=256.3
Q ss_pred CeeEEEEEEeecCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEe
Q 024840 1 MTFFVSQVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQ 80 (262)
Q Consensus 1 ~~~i~Ve~vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~~~le~L~~a~~~~~~~~~~~v~id 80 (262)
+.+|+||+++||+.++.||++|+++++|+||++|+|||++++++++|++.|.+||++.+++|++|+++...+++++|+++
T Consensus 64 ~L~i~VesidfD~~~~~L~~KGrti~eNe~Vk~GaYHTidlel~r~FtL~K~ewds~al~~l~~A~dp~~~ad~aaVvlq 143 (379)
T KOG2869|consen 64 KLKIKVESIDFDTKACVLRLKGRTIEENEYVKMGAYHTIDLELNRPFTLRKEEWDSMALKLLKEACDPAPSADVAAVVLQ 143 (379)
T ss_pred EEEEEEEEeeccccccEEEEeeeeeeecccccccceeEEEeccCCceEEEhhhchHHHHHHHHHhhCcccccceeeeehh
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEEEEecceEEEEEEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHH
Q 024840 81 EGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLL 160 (262)
Q Consensus 81 ~g~a~i~~l~~~~~~~~~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~k~~f~~~l~~ 160 (262)
||.|+||+++.+++...++++.++|+||+++.|++++.+++||+.|.+++.++++|+.++|+|||||||+++.|++|+.+
T Consensus 144 EGla~IcLvt~s~tilr~kIe~siPrKr~~~~s~~e~~l~kfye~V~qA~~k~v~fd~vk~~vvASpgF~~~~~~d~~~q 223 (379)
T KOG2869|consen 144 EGLAHICLVTKSSTILRAKIEVSIPRKRKGDVSQHEEGLEKFYENVVQAILKHVNFDVVKCVVVASPGFVKDQFMDYLFQ 223 (379)
T ss_pred cCceeEEEechhHHHHHHhhhcccccccCcchhHHHHHHHHHHHHHHHHHHHhcCcceEEEEEEcCCchhHHHHHHHHHH
Confidence 99999999999999999999999999988888899999999999999999999999999999999999999999999999
Q ss_pred HHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHHHHH
Q 024840 161 EAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAH 240 (262)
Q Consensus 161 ~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~Al 240 (262)
.+.+..++.+..+++||..+|+|+|+.++|+|+|.+|.+.+.|+|++++.|.++||+|+.+|+++|++||||+++|.+|.
T Consensus 224 ~A~~~~~k~il~nk~kf~~~h~ssg~~hslnevL~dp~v~~~l~dtK~~~EvkalddF~~~l~~~~drA~yG~khV~~A~ 303 (379)
T KOG2869|consen 224 QAVKLDLKLILENKSKFPLVHASSGYKHSLNEVLKDPAVASKLQDTKAAKEVKALDDFYVMLSKDPDRACYGPKHVEKAN 303 (379)
T ss_pred HHHHhchhhhhhcccceeEEecCCchHHHHHHHhcChHHHHHhhchhhHHHHHHHHHHHHHhccCccccccCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCccEEEEecCCcccCCCC
Q 024840 241 ERMAVQTLLITDDLFRLVCSK 261 (262)
Q Consensus 241 e~GAVe~LLVsd~l~r~~d~~ 261 (262)
|+|||++|||||++||+.|++
T Consensus 304 e~~AI~tLLitD~lfr~~DV~ 324 (379)
T KOG2869|consen 304 EYGAIETLLITDELFRSQDVA 324 (379)
T ss_pred hhcchhheehhhhhcccccHH
Confidence 999999999999999999975
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=4.5e-66 Score=476.83 Aligned_cols=242 Identities=26% Similarity=0.464 Sum_probs=227.8
Q ss_pred CeeEEEEEEeecCCCCeEEEEEEEEecC-ccccCCcEEEEEEccCCceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEE
Q 024840 1 MTFFVSQVVDYDKEGSVLRIRGKNILEN-EHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLM 79 (262)
Q Consensus 1 ~~~i~Ve~vef~~~~~~Lri~G~i~~~~-e~v~~G~~HT~~i~~~~~i~i~K~~wd~~~le~L~~a~~~~~~~~~~~v~i 79 (262)
+.+|+||+++|||++++|||+|+|+++| +++++|+|||++|+||++|+|+|++|++|++++|++|++++.++.+++|+|
T Consensus 62 ~l~i~Ve~ief~~~~~~Lri~G~i~~~~e~~v~~G~~HTl~ie~~~~i~i~K~~w~~~~le~L~ea~~~~~~~~~~~vv~ 141 (351)
T TIGR00111 62 KLGIEVESVEFDMKTERLRYKGVIVTGPEDDVPVGSYHTLEIKYVYPLSIIKQNWKKWQLKRLREAVEISKRPKTAAVVM 141 (351)
T ss_pred EEEEEEEEEEecCCCCEEEEEEEEecCCcccccccceEEEEEcCCCcEEEEEecCCHHHHHHHHHHhccccCCcEEEEEE
Confidence 3689999999999999999999999998 799999999999999999999999999999999999999998889999999
Q ss_pred eCCeEEEEEEecceEEEEEEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHH
Q 024840 80 QEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLL 159 (262)
Q Consensus 80 d~g~a~i~~l~~~~~~~~~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~k~~f~~~l~ 159 (262)
|+|+|+||+|+++++++++++++++||||+. +.++++.++||++|++++.+ +.++++||||||||+|++|++||+
T Consensus 142 d~g~A~i~ll~~~~~~~~~~i~~~iP~K~~~--~~~e~~~~~Ff~~v~~~l~~---~~~v~~iIiaGPGf~k~~f~~~l~ 216 (351)
T TIGR00111 142 EEGIAHVGLVRQYSVEEIQKIEYHMPGKKRT--LKFGELRKEFYKEIAKKLLN---FDDLKTIIVAGPGFYKNDFYDFIF 216 (351)
T ss_pred eCCcEEEEEEcCCEEEEEEEEEEeCCCCccc--chhHHHHHHHHHHHHHHHhh---hcccCEEEEECCHHHHHHHHHHHH
Confidence 9999999999999999999999999999853 55788999999999999854 357999999999999999999999
Q ss_pred HHHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHHHH
Q 024840 160 LEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVA 239 (262)
Q Consensus 160 ~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~A 239 (262)
+++++.. .+.++.++|+||++|++|+|++|.++++|+++++++|.++||+||++|++|++++|||+++|.+|
T Consensus 217 ~~~~~~~--------~k~ii~~~s~g~~~gl~EvL~~~~v~~~l~d~k~~~E~~~l~~f~~~l~kd~~~~~YG~~eV~~A 288 (351)
T TIGR00111 217 ERYPEEA--------NKAVLENCSTGGRAGINEVLKRGLVARILQETRYAKEIMVIDEFLEHLAKDGDKAVYGEDEVVKA 288 (351)
T ss_pred HHhhhhh--------CCcEEEecCCCchhHHHHHHhChHHHHHHhhhhHHHHHHHHHHHHHHHhcCCCeEEECHHHHHHH
Confidence 9886532 34456799999999999999999999999999999999999999999999999999999999999
Q ss_pred HhccCccEEEEecCCc
Q 024840 240 HERMAVQTLLITDDLF 255 (262)
Q Consensus 240 le~GAVe~LLVsd~l~ 255 (262)
+++|||++|||||++|
T Consensus 289 le~GAVetLLIsD~l~ 304 (351)
T TIGR00111 289 AEYGAIEYLLVTDKVL 304 (351)
T ss_pred HHcCCceEEEEecchh
Confidence 9999999999999996
No 3
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=100.00 E-value=4.3e-64 Score=452.01 Aligned_cols=244 Identities=29% Similarity=0.470 Sum_probs=229.8
Q ss_pred eeEEEEEEeecCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEeC
Q 024840 2 TFFVSQVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQE 81 (262)
Q Consensus 2 ~~i~Ve~vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~~~le~L~~a~~~~~~~~~~~v~id~ 81 (262)
++|+||++|||+|+|+|||+|+++++|+.+++|+|||++|++|++|+|.|++|+++++++|++|++++.++.+++|++|+
T Consensus 62 L~IkVe~ieF~~f~nrLRi~G~i~~~~e~~~~G~yHTi~v~~g~~i~I~K~~W~~~~lerLkeA~~~~~~~~~~~v~~de 141 (352)
T COG1537 62 LGIKVEKIEFDKFANRLRIKGPIVEGPEEVVKGSYHTINVTIGTEIEIEKEEWNKDQLERLKEAVEASKRPEVAIVVVDE 141 (352)
T ss_pred EEEEEEEEEeeecccEEEEEEEEEEcCcccccccceEEEeccCceEEEEEccCCHHHHHHHHHHhhcccCCceEEEEEec
Confidence 57999999999999999999999999999989999999999999999999999999999999999999999999999999
Q ss_pred CeEEEEEEecceEEEEEEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHH
Q 024840 82 GLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLE 161 (262)
Q Consensus 82 g~a~i~~l~~~~~~~~~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~k~~f~~~l~~~ 161 (262)
|+|+||+++++|+.++.+++.+.|||+.... + +..+||..|++++.++. +++.||||||||+|++|++|+.++
T Consensus 142 gea~i~iv~~ygi~~~~~i~~~~~gK~~~~~--~--~~~k~~~~i~~~~~~~~---~~~~iIvaGPGF~k~~~~~~~~~~ 214 (352)
T COG1537 142 GEAAIAIVRDYGIIILGKIRSGIPGKREGDI--R--AERKFFDEIAKALKEYA---NLDIIIVAGPGFAKEDFYDFLRER 214 (352)
T ss_pred CceEEEEEeccceEEEEEEeccCCCCcccch--h--hHHHHHHHHHHHHHHhh---CCCeEEEeCCchHHHHHHHHHHHh
Confidence 9999999999999999999999999875432 1 12899999999999987 688999999999999999999999
Q ss_pred HHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHHHHHh
Q 024840 162 AERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHE 241 (262)
Q Consensus 162 ~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~Ale 241 (262)
.++. ..+++.++|++|.+|++|+|++|.+.++++++++++|.++||+|+++|++++++||||+++|++|++
T Consensus 215 ~p~~---------~~~~~~~~s~~g~~gi~EvLkr~~v~ki~~e~ria~e~~~~e~fl~~iak~~~~v~YG~~eV~~A~e 285 (352)
T COG1537 215 YPEL---------ANIVIEDTSTGGRAGINEVLKRGAVDKILSETRIAEEIELVEEFLERLAKDDDKVAYGLEEVEKAAE 285 (352)
T ss_pred cccc---------cceEEEeccCcchHHHHHHHhhhhHHhHhhhhHHHHHHHHHHHHHHHHhcCCCceeEcHHHHHHHHh
Confidence 8763 2378899999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCccEEEEecCCcccCCCC
Q 024840 242 RMAVQTLLITDDLFRLVCSK 261 (262)
Q Consensus 242 ~GAVe~LLVsd~l~r~~d~~ 261 (262)
||||++|||+|++||+++++
T Consensus 286 ~GAve~LLv~De~lr~~~~~ 305 (352)
T COG1537 286 YGAVETLLVTDELLRSDDVE 305 (352)
T ss_pred cCcceeEEeehhhhcccchh
Confidence 99999999999999997653
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=4e-48 Score=363.31 Aligned_cols=226 Identities=20% Similarity=0.292 Sum_probs=207.7
Q ss_pred cCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEccc-ChhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEe
Q 024840 12 DKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLW-DSLALDTLHQAADPTASADLAVVLMQEGLAHILLVG 90 (262)
Q Consensus 12 ~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~w-d~~~le~L~~a~~~~~~~~~~~v~id~g~a~i~~l~ 90 (262)
-|.++.++++|.|..++.. |+|||++|+||+||+++||.| ++|++++|++|++++. .+++|+||+++|.||+++
T Consensus 80 ~p~nglv~~~G~v~~~~~~---~~~~t~~iep~~pi~~~~y~~d~~f~le~L~e~~~~~~--~~g~VvvD~~~A~i~~l~ 154 (409)
T TIGR00108 80 PPENGLVIFCGMVPREGPT---EKMETYVIEPPEPIKTYIYHCDSKFYLEPLSEMLEEKD--KYGLIVLDRQEATIGLVK 154 (409)
T ss_pred CCCCcEEEEEeEeccCCCc---ccEEEEEEeCCCceEEEEEccCChhHHHHHHHHhcCCC--CEEEEEEecCCEEEEEEc
Confidence 4678999999999988743 899999999999999999975 5799999999999865 999999999999999999
Q ss_pred cceEEEEEEEEeeCCCCCCC-Ccch------hhHHHHHHHHHHHHHHHhcc---cccCccEEEEECCcccHHHHHH--HH
Q 024840 91 RSMTITRSRIETSIPRKHGP-AIAG------YESALNKFFENVLQAFLKHV---DFNVVRCAVIASPGFTKDQFHR--HL 158 (262)
Q Consensus 91 ~~~~~~~~~i~~~ip~K~~~-g~s~------~~~~~~~f~~~v~~~l~~~~---~~~~v~~iIIaGPgf~k~~f~~--~l 158 (262)
+++++++.+++.++|+||+. |||+ ++.+.++||++|++.+.+++ +..++++||||||||+|++|.+ ||
T Consensus 155 g~~~~~~~~i~~~vp~K~~~GGqS~~Rf~r~~e~~~~~f~~~Vae~~~~~f~~~~~~~v~~IIlaGpg~~K~~f~~~~~l 234 (409)
T TIGR00108 155 GKRITVLKKLTSGVPGKHKAGGQSARRFERLRELAAHEFLKKVGEVANEAFLPNDDVKLKGIILGGPGHTKEEFAEGEYL 234 (409)
T ss_pred CCEEEEEEEEeeeCCCcccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccceEEEEeccHHHHHHhhhhhhH
Confidence 99999999999999999977 7876 68889999999999998886 2337999999999999999998 99
Q ss_pred HHHHHhcccchhhhccCcE-EEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHH
Q 024840 159 LLEAERRQLRPIIENKSRI-ILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVE 237 (262)
Q Consensus 159 ~~~~~~~~~~~~~~~~~ki-~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~ 237 (262)
.+++.+ ++ .++++|++|.+|++|+|++. +++|++.++++|.++|++|++++++|+|++|||+++|.
T Consensus 235 ~~~l~~-----------kvi~~vdvs~gg~~gl~E~l~~~--~~~L~~~k~~~E~~lle~F~~ei~~d~G~avyG~~eV~ 301 (409)
T TIGR00108 235 HHELKK-----------KVISTVDVSYTGEFGIRELIEKS--ADVLAEVDYMREKKLVQRFLKELIQEDGLACYGEDEVL 301 (409)
T ss_pred HHHhhh-----------hEEEEEEcCCCcccCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEeCHHHHH
Confidence 988754 33 46899999999999999976 99999999999999999999999999999999999999
Q ss_pred HHHhccCccEEEEecCCc
Q 024840 238 VAHERMAVQTLLITDDLF 255 (262)
Q Consensus 238 ~Ale~GAVe~LLVsd~l~ 255 (262)
+|+++|||+||||+|++.
T Consensus 302 ~ALe~GAVetLLV~d~l~ 319 (409)
T TIGR00108 302 KALDLGAVETLIVSEDLE 319 (409)
T ss_pred HHHHhCCCcEEEEecccc
Confidence 999999999999999994
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=2.3e-46 Score=350.37 Aligned_cols=224 Identities=24% Similarity=0.298 Sum_probs=203.3
Q ss_pred CCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccC-hhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEec
Q 024840 13 KEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWD-SLALDTLHQAADPTASADLAVVLMQEGLAHILLVGR 91 (262)
Q Consensus 13 ~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd-~~~le~L~~a~~~~~~~~~~~v~id~g~a~i~~l~~ 91 (262)
|.++-.-..|.+..+. ...+|||++|+||+||+++||.|| +|++++|++|+++.. .+++|+||+++|.||++++
T Consensus 77 p~nGlv~f~g~~~~~~---~~~~~~t~~iep~~pi~~~~y~cd~~f~lepL~e~l~~~~--~~g~VvvD~~~A~i~~l~g 151 (403)
T TIGR03676 77 PENGLVLFAGMVPTGG---GTEKMETYVIEPPEPINTYLYRCDSKFYLEPLEEMLEEKD--VYGLIVLDRREATIGLLKG 151 (403)
T ss_pred CCCeEEEEEeeecCCC---CceeEEEEEEeCCCceEEEEecCCChHHHHHHHHHhcCCC--CEEEEEEecCceEEEEEcC
Confidence 5666666778887643 236899999999999999999765 799999999999854 9999999999999999999
Q ss_pred ceEEEEEEEEeeCCCCCCC-Ccch------hhHHHHHHHHHHHHHHHhccc---ccCccEEEEECCcccHHHHHH--HHH
Q 024840 92 SMTITRSRIETSIPRKHGP-AIAG------YESALNKFFENVLQAFLKHVD---FNVVRCAVIASPGFTKDQFHR--HLL 159 (262)
Q Consensus 92 ~~~~~~~~i~~~ip~K~~~-g~s~------~~~~~~~f~~~v~~~l~~~~~---~~~v~~iIIaGPgf~k~~f~~--~l~ 159 (262)
++++++.++++++|+||+. |||+ ++.+.++||++|++.+.+++. ..++++||||||||+|++|.+ ||+
T Consensus 152 ~~~e~~~~i~~~vp~K~~~GGqS~~Rf~R~~e~~~~~f~~~Vae~~~~~f~~~~~~~v~~lILaGpg~~K~~f~~~~~L~ 231 (403)
T TIGR03676 152 KRIEVLKELTSGVPGKHRAGGQSARRFERLIEIAAHEFYKRVGEAANEAFLPLKDKKLKGILIGGPGPTKEEFAEGDYLH 231 (403)
T ss_pred CEEEEEEEEEeeCCCCccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccEEEEeCCHHHHHHHhhhhhhh
Confidence 9999999999999999886 7887 788999999999999988753 226999999999999999999 999
Q ss_pred HHHHhcccchhhhccCcE-EEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHHH
Q 024840 160 LEAERRQLRPIIENKSRI-ILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEV 238 (262)
Q Consensus 160 ~~~~~~~~~~~~~~~~ki-~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~ 238 (262)
+++.+ ++ .++++|+++.+|++|++++. +++|++.++++|.++|++|+++++++++++|||+++|.+
T Consensus 232 ~~l~~-----------kvi~~vd~s~~~~~Gl~Evl~~~--~~~L~~~k~~~E~~lle~f~~el~~d~g~avyG~~eV~~ 298 (403)
T TIGR03676 232 HELKK-----------KILGLFDVSYTGESGLRELVEKA--EDLLKDLELMKEKKLMERFFKELVKDGGLAAYGEEEVRK 298 (403)
T ss_pred HHHHh-----------hEEEEEecCCCCccCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHH
Confidence 98754 34 67899999999999999985 999999999999999999999999999999999999999
Q ss_pred HHhccCccEEEEecCC
Q 024840 239 AHERMAVQTLLITDDL 254 (262)
Q Consensus 239 Ale~GAVe~LLVsd~l 254 (262)
|+++|||+||||+|++
T Consensus 299 ALe~GAVetLLV~d~l 314 (403)
T TIGR03676 299 ALEMGAVDTLLISEDL 314 (403)
T ss_pred HHHhCCCcEEEEEccc
Confidence 9999999999999999
No 6
>PRK04011 peptide chain release factor 1; Provisional
Probab=100.00 E-value=4.5e-46 Score=349.65 Aligned_cols=228 Identities=23% Similarity=0.284 Sum_probs=206.6
Q ss_pred CCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccCh-hhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEec
Q 024840 13 KEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS-LALDTLHQAADPTASADLAVVLMQEGLAHILLVGR 91 (262)
Q Consensus 13 ~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~-~~le~L~~a~~~~~~~~~~~v~id~g~a~i~~l~~ 91 (262)
|.++..-+.|.+..+.+ ..|.|||++|+||+||+++||.||+ |++++|++|+++ ++.+++|+||+++|.||++++
T Consensus 84 p~nGl~~f~g~~~~~~~--~~~~~~t~~i~p~~~i~~~~y~~d~~f~le~L~e~~~~--~~~~~~VvvD~~~A~i~~l~g 159 (411)
T PRK04011 84 PENGLVIFCGAVPIGGP--GTEDMETYVIEPPEPVPTFFYRCDSEFHTEPLEDMLED--KEVYGLIVVDRREATIGLLKG 159 (411)
T ss_pred CCCeEEEEEeecccCCC--CCceEEEEEEcCCCccEEEEecCCcHHHHHHHHHHhcC--CCCEEEEEEecCceEEEEEeC
Confidence 55677777777776532 2389999999999999999998766 999999999998 459999999999999999999
Q ss_pred ceEEEEEEEEeeCCCCCCC-Ccch------hhHHHHHHHHHHHHHHHhccc---ccCccEEEEECCcccHHHHHH--HHH
Q 024840 92 SMTITRSRIETSIPRKHGP-AIAG------YESALNKFFENVLQAFLKHVD---FNVVRCAVIASPGFTKDQFHR--HLL 159 (262)
Q Consensus 92 ~~~~~~~~i~~~ip~K~~~-g~s~------~~~~~~~f~~~v~~~l~~~~~---~~~v~~iIIaGPgf~k~~f~~--~l~ 159 (262)
++++++.++++++|+||+. |||+ ++++.++||++|++.+.+++. +.++++||||||||+|++|.+ ||+
T Consensus 160 ~~~~~~~~i~~~vp~K~~~GG~S~~Rf~r~~e~~~~~f~k~Vae~~~~~f~~~~~~~v~~IvlaGpg~~K~~f~~~~~L~ 239 (411)
T PRK04011 160 KRIEVLKELTSFVPGKHRKGGQSARRFERLIEQAAHEFYKRVGEKANEAFLPLLEGKLKGILIGGPGPTKEEFLEGDYLH 239 (411)
T ss_pred CEEEEEEEEEeeCCCCccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEECChhHHHHHhhhhhhh
Confidence 9999999999999999886 7876 688999999999999988864 478999999999999999999 999
Q ss_pred HHHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHHHH
Q 024840 160 LEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVA 239 (262)
Q Consensus 160 ~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~A 239 (262)
+++.++ -+.++++|+++.+|++|++++. +++|++.++++|.++|++|+++++++++++|||+++|.+|
T Consensus 240 ~~l~~~----------vv~~~~~s~~~~~Gl~E~l~~~--~~~L~~~k~~~e~~lle~f~~~l~~d~g~avyG~~~V~~A 307 (411)
T PRK04011 240 YELKKK----------ILGLFDVSYTGESGLRELVDKA--SDLLKEQELVKEKKLMEEFFKELAKDGGLAVYGEEEVRKA 307 (411)
T ss_pred HHHHhh----------eEEEEecCCCCccCHHHHHHHH--HHHHHHhHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHHH
Confidence 997542 1257899999999999999984 9999999999999999999999999999999999999999
Q ss_pred HhccCccEEEEecCCcc
Q 024840 240 HERMAVQTLLITDDLFR 256 (262)
Q Consensus 240 le~GAVe~LLVsd~l~r 256 (262)
+++|||++|||+|++++
T Consensus 308 le~GAVetLLV~d~l~~ 324 (411)
T PRK04011 308 LEMGAVDTLLISEDLRK 324 (411)
T ss_pred HHcCCceEEEEeccccc
Confidence 99999999999999987
No 7
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.7e-35 Score=270.17 Aligned_cols=226 Identities=24% Similarity=0.292 Sum_probs=204.8
Q ss_pred CCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccCh-hhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEec
Q 024840 13 KEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS-LALDTLHQAADPTASADLAVVLMQEGLAHILLVGR 91 (262)
Q Consensus 13 ~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~-~~le~L~~a~~~~~~~~~~~v~id~g~a~i~~l~~ 91 (262)
|..+.-..+|.+..+... ...-|..++||+|++.+.|+||+ |++++|+++..+.. .++++++|.++|++++|.+
T Consensus 84 P~nGlv~f~g~v~~~~~~---t~~~~~~~~PP~Pi~~~ly~cDs~F~~e~L~~~l~~~~--~ygliv~dr~ea~ig~l~g 158 (411)
T COG1503 84 PENGLVLFVGDVLGGGGK---TKKVTVVIEPPEPINTFLYRCDSKFYLEPLEEMLEDKD--LYGLIVLDRIEATIGLLKG 158 (411)
T ss_pred CCCCeEEEEeeeccCCCc---cceeeecccCCCCcceeeeccccHHHHHHHHHHhhhcc--cccEEEEecccceeeeecc
Confidence 566777788888765322 23457778999999999999988 99999999999977 9999999999999999999
Q ss_pred ceEEEEEEEEeeCCCCCCC-Ccch------hhHHHHHHHHHHHHHHHhccc---ccCccEEEEECCcccHHHHHH--HHH
Q 024840 92 SMTITRSRIETSIPRKHGP-AIAG------YESALNKFFENVLQAFLKHVD---FNVVRCAVIASPGFTKDQFHR--HLL 159 (262)
Q Consensus 92 ~~~~~~~~i~~~ip~K~~~-g~s~------~~~~~~~f~~~v~~~l~~~~~---~~~v~~iIIaGPgf~k~~f~~--~l~ 159 (262)
..+.++.++++.+||||++ |||+ ++.+.+.||++|.+.+.+.+. ..++++|+|+|||.+|++|.+ ||.
T Consensus 159 ~r~evl~~~~s~vpgKh~~Ggqsa~rferl~ee~~h~f~k~vge~A~e~f~~~~~~~~kgIilgGp~~tk~ef~e~~yL~ 238 (411)
T COG1503 159 KRIEVLKELTSDVPGKHRAGGQSARRFERLIEEAAHEFYKKVGEAASEAFLPIAKKELKGIILGGPGPTKEEFVEGDYLH 238 (411)
T ss_pred ceeeHhhhhcccCcchhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhhcceEeeCCcccchhhhcccccc
Confidence 9999999999999999998 7887 788899999999999999885 226899999999999999997 999
Q ss_pred HHHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHHHH
Q 024840 160 LEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVA 239 (262)
Q Consensus 160 ~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~A 239 (262)
++++++.. .++++++++++|++|++..+ ++.|++.++.+|.++|++|++.+.++++++|||.++|++|
T Consensus 239 ~~lk~kv~----------~lvDv~y~~esg~~eli~~A--~d~L~~~~~~~eK~l~e~f~~e~~~~~Gla~yG~~~vr~a 306 (411)
T COG1503 239 HELKKKVL----------GLVDVSYTGESGLRELIEKA--EDALKDVDYVREKKLMEEFFKELAKDSGLAVYGEEEVREA 306 (411)
T ss_pred hHHHHHHH----------hhccccccccccHHHHHHHh--HHHHHhhhhhcchhHHHHHHHHhccCcceeecchHHHHHH
Confidence 99865432 47899999999999999999 9999999999999999999999999999999999999999
Q ss_pred HhccCccEEEEecCCc
Q 024840 240 HERMAVQTLLITDDLF 255 (262)
Q Consensus 240 le~GAVe~LLVsd~l~ 255 (262)
+++|||++|||+.++-
T Consensus 307 L~~gaVd~llv~Edl~ 322 (411)
T COG1503 307 LEMGAVDTLLVSEDLE 322 (411)
T ss_pred HHhcccceEEeecccc
Confidence 9999999999999886
No 8
>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=99.97 E-value=1e-29 Score=204.79 Aligned_cols=126 Identities=42% Similarity=0.664 Sum_probs=114.3
Q ss_pred cEEEEEEeCCeEEEEEEecceEEEEEEEEeeCCCCCCC-Ccchh----hHHHHHHHHHHHHHHHhc--ccccCccEEEEE
Q 024840 73 DLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGP-AIAGY----ESALNKFFENVLQAFLKH--VDFNVVRCAVIA 145 (262)
Q Consensus 73 ~~~~v~id~g~a~i~~l~~~~~~~~~~i~~~ip~K~~~-g~s~~----~~~~~~f~~~v~~~l~~~--~~~~~v~~iIIa 145 (262)
++++|+||+|+|+||++++++++++++++.++|+||.+ |+|+. ++++++||++|++++.++ .++.++++||||
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 48999999999999999999999999999999999987 67764 899999999999999999 779999999999
Q ss_pred CCcccHHHHHHHHHHHHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCchhHHhhhh
Q 024840 146 SPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKD 205 (262)
Q Consensus 146 GPgf~k~~f~~~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~ 205 (262)
||||+|++|++|+..+.+.+. +.++.++++|+++++||+|+|++|+++++|+|
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 999999999999999887642 25678999999999999999999999999875
No 9
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=4.9e-27 Score=208.22 Aligned_cols=226 Identities=14% Similarity=0.228 Sum_probs=196.6
Q ss_pred CCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccCh-hhHHHHHHhcCCCCCCcEEEEEEeCCeEEEEEEec
Q 024840 13 KEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS-LALDTLHQAADPTASADLAVVLMQEGLAHILLVGR 91 (262)
Q Consensus 13 ~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~-~~le~L~~a~~~~~~~~~~~v~id~g~a~i~~l~~ 91 (262)
|..+..-..|.|+.+.- --+--+++++|-.||..--|-||. ||.++|.+.+...+ .+++++||...+.++.+.+
T Consensus 85 Ppnglvly~gti~tedg---kekkv~idfepfkpintslyLcdNkfhte~l~~Ll~sd~--kfgfivmDg~~tlfgtl~g 159 (431)
T KOG0688|consen 85 PPNGLVLYTGTIVTEDG---KEKKVNIDFEPFKPINTSLYLCDNKFHTEALKELLESDN--KFGFIVMDGNGTLFGTLQG 159 (431)
T ss_pred CCCceEEEeeeeEccCC---ceeeeecccccccccccceEecCCccchHHHHHHHhhcc--cccEEEEcCCceeEEEecc
Confidence 44566677888887541 234568999999999888888866 99999999999977 9999999999999999999
Q ss_pred ceEEEEEEEEeeCCCCCCC-Ccch------hhHHHHHHHHHHHHHHHhccc---ccCccEEEEECCcccHHHHHH--HHH
Q 024840 92 SMTITRSRIETSIPRKHGP-AIAG------YESALNKFFENVLQAFLKHVD---FNVVRCAVIASPGFTKDQFHR--HLL 159 (262)
Q Consensus 92 ~~~~~~~~i~~~ip~K~~~-g~s~------~~~~~~~f~~~v~~~l~~~~~---~~~v~~iIIaGPgf~k~~f~~--~l~ 159 (262)
+.-.++.+++..+|+||.. |||+ |.+..+.|.+.+++...+.+. ..++.++|+||..-+|.++.+ .++
T Consensus 160 ntrevLhkftVdlPkkhgrggqSalrfarlR~ekRhnYVrkvae~a~q~fi~~~~~Nv~gLilaGsadfKtelsqSd~fd 239 (431)
T KOG0688|consen 160 NTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAELAVQRFITNDKPNVAGLILAGSADFKTELSQSDMFD 239 (431)
T ss_pred chHhhhheeeecCccccCccchhHHhhhhhhhhhhccceeeecccceeEEecCCCcceeEEEEecccccccccchhhhcc
Confidence 9999999999999999988 6776 777778899999999888773 668999999999988888764 566
Q ss_pred HHHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCchhHHhhhhhhHHHHHHHHHHHHHHhhcCCCcEEECHHHHHHH
Q 024840 160 LEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVA 239 (262)
Q Consensus 160 ~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~A 239 (262)
+++..+. +.++++||||++|++++|.-. .+.|++.++++|.+++.+||++++.|.|+.|||++++..|
T Consensus 240 ~rlqskv----------i~~vdvsyGGengfnQaIeL~--aevlsnvk~vqekkli~~yfdEisqdtgky~Fgv~dTl~a 307 (431)
T KOG0688|consen 240 PRLQSKV----------LKTVDVSYGGENGFNQAIELS--AEVLSNVKFVQEKKLIGKYFDEISQDTGKYCFGVEDTLLA 307 (431)
T ss_pred hHHhhhH----------HhhhcccccchhhHHHHHHHH--HhhhhcceeeehhhHHHHHhhhhhcccCcccccHHHHHHH
Confidence 6654321 247899999999999999988 8999999999999999999999999999999999999999
Q ss_pred HhccCccEEEEecCCc
Q 024840 240 HERMAVQTLLITDDLF 255 (262)
Q Consensus 240 le~GAVe~LLVsd~l~ 255 (262)
+++|||+||++-+.|=
T Consensus 308 Le~gavetli~~enLd 323 (431)
T KOG0688|consen 308 LEMGAVETLIVWENLD 323 (431)
T ss_pred HHcCCeeehhHhhhhh
Confidence 9999999999987653
No 10
>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=99.78 E-value=4.5e-19 Score=142.65 Aligned_cols=66 Identities=45% Similarity=0.697 Sum_probs=64.1
Q ss_pred eeEEEEEEeecCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccChhhHHHHHHhcC
Q 024840 2 TFFVSQVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAAD 67 (262)
Q Consensus 2 ~~i~Ve~vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~~~le~L~~a~~ 67 (262)
.+|+|++++|||+++.||++|+|+.+|+++++|+|||++|+||++|+++|++||++++++|++|++
T Consensus 66 L~i~ve~v~~~~~~~~Lri~G~i~~~~~~~~~G~~hT~~i~~~~~~ti~K~~wd~~~~~~l~ea~~ 131 (132)
T PF03463_consen 66 LTIKVEKVEFDPENGLLRISGKIVEENEDVKLGKYHTLDIEPGRPFTIIKYRWDSYFLDRLKEAMD 131 (132)
T ss_dssp EEEEEEEEEEETTTTEEEEEEEEEEGSCGGGTTSEEEEEEETSSEEEEEEEEEEHHHHHHHHHHTS
T ss_pred EEEEEEEeEecCCCCEEEEEeEEccCCCCCCcceEEEEEEeCCCceEEEEecCCHHHHHHHHHHhc
Confidence 579999999999999999999999999999999999999999999999999999999999999986
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=99.48 E-value=4.2e-14 Score=110.76 Aligned_cols=52 Identities=44% Similarity=0.603 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHhhcCCCcEEECHHHHHHHHhccCccEEEEecCCcccCC
Q 024840 208 AAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVC 259 (262)
Q Consensus 208 ~~~e~~~l~~f~~~l~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~r~~d 259 (262)
+++|.++|++|++++.++|+++|||+++|.+|+++|||++|||+|+++|+.+
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 5789999999999999999999999999999999999999999999999864
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=96.03 E-value=0.032 Score=44.86 Aligned_cols=92 Identities=15% Similarity=0.103 Sum_probs=61.1
Q ss_pred EEEEEeCCeEEEEEEecceEEEE---------------EEEEeeCCCCCCC--Cc--c------hhhHHHHHHHHHHHHH
Q 024840 75 AVVLMQEGLAHILLVGRSMTITR---------------SRIETSIPRKHGP--AI--A------GYESALNKFFENVLQA 129 (262)
Q Consensus 75 ~~v~id~g~a~i~~l~~~~~~~~---------------~~i~~~ip~K~~~--g~--s------~~~~~~~~f~~~v~~~ 129 (262)
-+||.|.+.|.|+...+.....+ ..+..+-||.... |+ + ..+...++|.++|++.
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 47889999999999888754111 2333445554222 11 1 1677788999999999
Q ss_pred HHhcccccCccEEEEECCcccHHHHHHHHHHHHHhcc
Q 024840 130 FLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQ 166 (262)
Q Consensus 130 l~~~~~~~~v~~iIIaGPgf~k~~f~~~l~~~~~~~~ 166 (262)
|.+.......+.+||++|--+--.+.+.|.....+.+
T Consensus 82 L~~~~~~~~~~~LvlvA~p~~LG~LR~~L~~~~~~~V 118 (138)
T PF10116_consen 82 LEKARRAGKFDRLVLVAPPRFLGLLREHLSKAVRKRV 118 (138)
T ss_pred HHHHHHhCCCCeEEEEECHHHHHHHHHHhCHHHHHHH
Confidence 9999887778887777776444455555555555443
No 13
>PRK07283 hypothetical protein; Provisional
Probab=78.14 E-value=2.7 Score=31.78 Aligned_cols=32 Identities=16% Similarity=0.184 Sum_probs=28.4
Q ss_pred hcCCCcEEECHHHHHHHHhccCccEEEEecCC
Q 024840 223 TNDPTRACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 223 ~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
+...+++..|.+.|.+|+..|.+.-++++.|.
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 44559999999999999999999999998874
No 14
>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=77.63 E-value=5.5 Score=31.15 Aligned_cols=39 Identities=18% Similarity=0.294 Sum_probs=31.4
Q ss_pred HHHHHHh--hcCCCcEEECHHHHHHHHhccCccEEEEecCC
Q 024840 216 KDFFNML--TNDPTRACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 216 ~~f~~~l--~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
++++..| +...+..+.|.++|.+|++.|-+.-++|+.+.
T Consensus 12 ~ki~~lL~la~ragkl~~G~~~v~kaikkgka~LVilA~D~ 52 (117)
T TIGR03677 12 NKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDV 52 (117)
T ss_pred HHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCC
Confidence 4444433 33448999999999999999999999999886
No 15
>PRK07714 hypothetical protein; Provisional
Probab=77.35 E-value=2.8 Score=31.74 Aligned_cols=33 Identities=15% Similarity=0.168 Sum_probs=28.3
Q ss_pred hcCCCcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 223 TNDPTRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 223 ~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
+...+++++|.++|.+|+..|-+.-++++.|.-
T Consensus 13 a~raGk~v~G~~~v~~al~~g~~~lViiA~D~s 45 (100)
T PRK07714 13 ANRARKVISGEELVLKEVRSGKAKLVLLSEDAS 45 (100)
T ss_pred HHHhCCeeecHHHHHHHHHhCCceEEEEeCCCC
Confidence 334499999999999999999999999987753
No 16
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=77.06 E-value=2.9 Score=32.05 Aligned_cols=33 Identities=21% Similarity=0.280 Sum_probs=28.9
Q ss_pred hcCCCcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 223 TNDPTRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 223 ~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
+...+++.+|.+.|.+|+..|.+.-|++++|.-
T Consensus 12 A~rAGklv~G~~~v~~aik~gk~~lVI~A~D~s 44 (104)
T PRK05583 12 TKKAGKLLEGYNKCEEAIKKKKVYLIIISNDIS 44 (104)
T ss_pred HHHhCCeeecHHHHHHHHHcCCceEEEEeCCCC
Confidence 445599999999999999999999999988753
No 17
>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=74.82 E-value=7.7 Score=28.58 Aligned_cols=29 Identities=21% Similarity=0.217 Sum_probs=26.6
Q ss_pred CcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 227 TRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 227 ~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
+++++|.++|.++++.|-+.-++++.+.-
T Consensus 14 ~~lv~G~~~v~k~l~~~~~~lvilA~d~~ 42 (95)
T PF01248_consen 14 GRLVKGIKEVLKALKKGKAKLVILAEDCS 42 (95)
T ss_dssp SEEEESHHHHHHHHHTTCESEEEEETTSS
T ss_pred CCEEEchHHHHHHHHcCCCcEEEEcCCCC
Confidence 78999999999999999999999998754
No 18
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=73.81 E-value=8 Score=29.85 Aligned_cols=40 Identities=10% Similarity=0.163 Sum_probs=31.9
Q ss_pred HHHHHHHhhcCCCcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 215 LKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 215 l~~f~~~l~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
++.++.... ..+++..|.++|.+|++.|-+.-++|+.+.-
T Consensus 13 i~~~Lgla~-raGKlv~G~~~vlkalk~gkaklViiA~D~~ 52 (108)
T PTZ00106 13 INSKLQLVM-KSGKYTLGTKSTLKALRNGKAKLVIISNNCP 52 (108)
T ss_pred HHHHHHHHH-HhCCeeecHHHHHHHHHcCCeeEEEEeCCCC
Confidence 344444434 4499999999999999999999999998763
No 19
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=73.35 E-value=7.1 Score=28.50 Aligned_cols=28 Identities=21% Similarity=0.337 Sum_probs=26.3
Q ss_pred CcEEECHHHHHHHHhccCccEEEEecCC
Q 024840 227 TRACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 227 ~~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
++...|.++|.+|++.|-+.-++|..+.
T Consensus 10 gkl~~G~~~v~kai~~gkaklViiA~D~ 37 (82)
T PRK13602 10 KSIVIGTKQTVKALKRGSVKEVVVAEDA 37 (82)
T ss_pred CCEEEcHHHHHHHHHcCCeeEEEEECCC
Confidence 8999999999999999999999998775
No 20
>PRK09190 hypothetical protein; Provisional
Probab=70.96 E-value=19 Score=31.40 Aligned_cols=32 Identities=16% Similarity=0.156 Sum_probs=28.1
Q ss_pred hcCCCcEEECHHHHHHHHhccCccEEEEecCC
Q 024840 223 TNDPTRACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 223 ~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
++..++++.|.+.|..|+..|-+.-||++.+.
T Consensus 106 ArRAGklVsG~~~V~~alk~gk~~Lvi~A~Da 137 (220)
T PRK09190 106 ARKAGQVVSGFEKVDAALRSGEAAALIHASDG 137 (220)
T ss_pred HhhhCCEeecHHHHHHHHHcCCceEEEEeccC
Confidence 45559999999999999999999999998764
No 21
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=70.47 E-value=12 Score=29.38 Aligned_cols=38 Identities=16% Similarity=0.182 Sum_probs=31.0
Q ss_pred HHHHHhhcCCCcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 217 DFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 217 ~f~~~l~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
.++....+ .+.+..|.++|.+|++.|-+.-++|+++.-
T Consensus 20 ~lL~la~r-agklv~G~~~v~kaikkgkakLVilA~D~s 57 (122)
T PRK04175 20 EAVEKARD-TGKIKKGTNETTKAVERGIAKLVVIAEDVD 57 (122)
T ss_pred HHHHHHHH-cCCEeEcHHHHHHHHHcCCccEEEEeCCCC
Confidence 34444344 489999999999999999999999998873
No 22
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=70.29 E-value=11 Score=28.38 Aligned_cols=29 Identities=10% Similarity=0.142 Sum_probs=27.2
Q ss_pred CCcEEECHHHHHHHHhccCccEEEEecCC
Q 024840 226 PTRACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 226 ~~~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
.++...|.++|.+|++.|-+.-++|+++.
T Consensus 14 agkl~~G~~~v~kai~~gkaklViiA~D~ 42 (99)
T PRK01018 14 TGKVILGSKRTIKAIKLGKAKLVIVASNC 42 (99)
T ss_pred cCCEEEcHHHHHHHHHcCCceEEEEeCCC
Confidence 48999999999999999999999999885
No 23
>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=70.28 E-value=6.2 Score=27.59 Aligned_cols=24 Identities=25% Similarity=0.374 Sum_probs=22.8
Q ss_pred EECHHHHHHHHhccC-ccEEEEecC
Q 024840 230 CYGPKHVEVAHERMA-VQTLLITDD 253 (262)
Q Consensus 230 ~YG~~eV~~Ale~GA-Ve~LLVsd~ 253 (262)
.||...|.+|++.|. +..|+++++
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 24
>PRK06683 hypothetical protein; Provisional
Probab=67.56 E-value=12 Score=27.40 Aligned_cols=31 Identities=19% Similarity=0.200 Sum_probs=27.8
Q ss_pred CCCcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 225 DPTRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 225 ~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
+.+++..|.++|.+|++.|-+.-++|..+.-
T Consensus 8 ~agk~v~G~~~v~kaik~gkaklViiA~Da~ 38 (82)
T PRK06683 8 NAENVVVGHKRTLEAIKNGIVKEVVIAEDAD 38 (82)
T ss_pred hCCCEEEcHHHHHHHHHcCCeeEEEEECCCC
Confidence 4489999999999999999999999997753
No 25
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=67.15 E-value=9.3 Score=28.01 Aligned_cols=30 Identities=23% Similarity=0.273 Sum_probs=27.2
Q ss_pred CCcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 226 PTRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 226 ~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
+++...|.++|.+|++.|-++-++|..+.-
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da~ 35 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDAE 35 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCCC
Confidence 479999999999999999999999998753
No 26
>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=62.89 E-value=9 Score=27.75 Aligned_cols=27 Identities=15% Similarity=0.459 Sum_probs=20.0
Q ss_pred HHHHHHHHhccccc-CccEEEEECCccc
Q 024840 124 ENVLQAFLKHVDFN-VVRCAVIASPGFT 150 (262)
Q Consensus 124 ~~v~~~l~~~~~~~-~v~~iIIaGPgf~ 150 (262)
.+|++.+.+.+... .++.+=++||||+
T Consensus 54 ~~iA~~i~~~l~~~~~i~~vev~gpGFi 81 (85)
T PF03485_consen 54 REIAEEIAEKLEKSPIIEKVEVAGPGFI 81 (85)
T ss_dssp HHHHHHHHHCHCTTTTEEEEEEETTTEE
T ss_pred HHHHHHHHHhcCCCCCEEEEEEcCCcEE
Confidence 36777777766533 3889999999986
No 27
>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=62.21 E-value=1.2e+02 Score=27.45 Aligned_cols=89 Identities=12% Similarity=0.133 Sum_probs=58.3
Q ss_pred EEEEEEeCCeEEEEEEecceEEEEEEEEee-------------CCC------CCCCCcc--hhhHHHHHHHHHHHHHHHh
Q 024840 74 LAVVLMQEGLAHILLVGRSMTITRSRIETS-------------IPR------KHGPAIA--GYESALNKFFENVLQAFLK 132 (262)
Q Consensus 74 ~~~v~id~g~a~i~~l~~~~~~~~~~i~~~-------------ip~------K~~~g~s--~~~~~~~~f~~~v~~~l~~ 132 (262)
+++|-+..+...++++....+.....+... +|- |...|.. .....++.++++++..+.+
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 889999999999999999888887777642 110 0000100 0122344555666655555
Q ss_pred ccc-------ccCccEEEEECCcccHHHHHHHHHHHH
Q 024840 133 HVD-------FNVVRCAVIASPGFTKDQFHRHLLLEA 162 (262)
Q Consensus 133 ~~~-------~~~v~~iIIaGPgf~k~~f~~~l~~~~ 162 (262)
.++ ...+..|+++|-|.--..|.+++.++.
T Consensus 270 ~l~~~~~~~~~~~i~~I~LtGgga~~~gl~~~l~~~l 306 (348)
T TIGR01175 270 SLQFFTAQSGTNSLDGLVLAGGGATLSGLDAAIYQRL 306 (348)
T ss_pred HHHhhcCCCCCcccceEEEECccccchhHHHHHHHHH
Confidence 443 225889999998877778888888876
No 28
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=62.12 E-value=14 Score=27.27 Aligned_cols=27 Identities=26% Similarity=0.338 Sum_probs=24.4
Q ss_pred cEEECHHHHHHHHhccCccEEEEecCC
Q 024840 228 RACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 228 ~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
-..+|.+++.+|++.|-+..++|..|.
T Consensus 13 ~~vvG~kqt~Kai~kg~~~~v~iA~Da 39 (84)
T PRK13600 13 HFVVGLKETLKALKKDQVTSLIIAEDV 39 (84)
T ss_pred CceeeHHHHHHHHhcCCceEEEEeCCC
Confidence 358999999999999999999998775
No 29
>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=53.33 E-value=1.1e+02 Score=24.09 Aligned_cols=71 Identities=14% Similarity=0.090 Sum_probs=53.9
Q ss_pred hhHHHHHHhcCC-CCCCcEEEEEEeCCeEEEEEEecceEEEEEEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHHhcc
Q 024840 57 LALDTLHQAADP-TASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHV 134 (262)
Q Consensus 57 ~~le~L~~a~~~-~~~~~~~~v~id~g~a~i~~l~~~~~~~~~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~~~~ 134 (262)
-.|+.+++.+.. ....-++.|---++-..-+.++..+++.+--.+..-. ...+..++.||++|-+.-.+.+
T Consensus 35 ~sLD~iee~~~~~~~~~yLg~l~~~~~~~vygyvT~t~~Kfvl~~~~~~~-------~~~d~~ik~fF~~vh~~Y~~~~ 106 (132)
T PF04628_consen 35 SSLDVIEEKLWKSSSDMYLGLLDPFEDYKVYGYVTNTGIKFVLVHDMSDN-------SIRDEDIKQFFKEVHELYVKAL 106 (132)
T ss_dssp HHHHHHHHCCHCSSSCSEEEEEEEETTEEEEEEETTT--EEEEEECGGG--------S--HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhcccccccCceehhhhHHHHhhhccCceeEEEEEecccC-------CcchHHHHHHHHHHHHHHHHHc
Confidence 568888888777 6666788888899999999999999999887763111 1257899999999998887765
No 30
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=51.91 E-value=32 Score=26.95 Aligned_cols=30 Identities=23% Similarity=0.305 Sum_probs=27.0
Q ss_pred CCCcEEECHHHHHHHHhccCccEEEEecCC
Q 024840 225 DPTRACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 225 ~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
..+++.+|.+++.+|++.|-..-++|+.|.
T Consensus 24 ~~~ki~~G~~e~~Kai~~g~a~LVviA~Dv 53 (116)
T COG1358 24 RAGKLKKGTNEVTKAIERGKAKLVVIAEDV 53 (116)
T ss_pred hcCCchhhHHHHHHHHHcCCCcEEEEecCC
Confidence 347999999999999999999999999875
No 31
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=49.82 E-value=41 Score=29.88 Aligned_cols=46 Identities=7% Similarity=0.049 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHh
Q 024840 119 LNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAER 164 (262)
Q Consensus 119 ~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~k~~f~~~l~~~~~~ 164 (262)
+++|...++..+.......+++.|||+|+....+.|.+.+.+..++
T Consensus 214 ~~~~~~~la~~l~~l~~~~dpe~IvlgG~~~~~~~~~~~i~~~l~~ 259 (291)
T PRK05082 214 INRSAQAIARLIADLKATLDCQCVVLGGSVGLAEGYLELVQAYLAQ 259 (291)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCEEEEcCccccHHHHHHHHHHHHHh
Confidence 3345555555566655667899999999987777777766666543
No 32
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=48.95 E-value=2.2e+02 Score=26.24 Aligned_cols=112 Identities=15% Similarity=0.167 Sum_probs=58.2
Q ss_pred cChhhHHHHHHhcCCCCCCcEEEEEEe-CCeEEEEEEecc-eEEEEEEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHH
Q 024840 54 WDSLALDTLHQAADPTASADLAVVLMQ-EGLAHILLVGRS-MTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFL 131 (262)
Q Consensus 54 wd~~~le~L~~a~~~~~~~~~~~v~id-~g~a~i~~l~~~-~~~~~~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~ 131 (262)
+.++..+.|++.- ....++-+. +-..++-++.+. +.+ -+.+-||=. -.+...+.|.+.+...+.
T Consensus 63 tg~~~~~~l~~~g-----i~~~fv~v~g~TRinvki~~~~~~~~----Tein~~Gp~-----is~~~~~~~l~~~~~~l~ 128 (310)
T COG1105 63 TGEFFVALLKDEG-----IPDAFVEVKGDTRINVKILDEEDGEE----TEINFPGPE-----ISEAELEQFLEQLKALLE 128 (310)
T ss_pred cHHHHHHHHHhcC-----CCceEEEccCCCeeeEEEEecCCCcE----EEecCCCCC-----CCHHHHHHHHHHHHHhcc
Confidence 4556666666631 244455443 334444444442 111 122333311 134566777766543333
Q ss_pred hcccccCccEEEEEC--CcccHHHHHHHHHHHHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcCc
Q 024840 132 KHVDFNVVRCAVIAS--PGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAP 197 (262)
Q Consensus 132 ~~~~~~~v~~iIIaG--Pgf~k~~f~~~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~ 197 (262)
+ -+.+|++| |.-+..++|.-|-+.++.. ...+++|+|- ..|.++|+.+
T Consensus 129 ~------~d~VvlsGSlP~g~~~d~y~~li~~~~~~---------g~~vilD~Sg---~~L~~~L~~~ 178 (310)
T COG1105 129 S------DDIVVLSGSLPPGVPPDAYAELIRILRQQ---------GAKVILDTSG---EALLAALEAK 178 (310)
T ss_pred c------CCEEEEeCCCCCCCCHHHHHHHHHHHHhc---------CCeEEEECCh---HHHHHHHccC
Confidence 3 34699999 4445556665555555432 3345678776 5677777765
No 33
>COG4972 PilM Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=47.74 E-value=33 Score=31.86 Aligned_cols=48 Identities=10% Similarity=0.158 Sum_probs=39.6
Q ss_pred hhHHHHHHHHHHHHHHHhccc-------ccCccEEEEECCcccHHHHHHHHHHHH
Q 024840 115 YESALNKFFENVLQAFLKHVD-------FNVVRCAVIASPGFTKDQFHRHLLLEA 162 (262)
Q Consensus 115 ~~~~~~~f~~~v~~~l~~~~~-------~~~v~~iIIaGPgf~k~~f~~~l~~~~ 162 (262)
.....+.|..++.+.+.+.+. ..++++|+++|||-.-..+.+++.+++
T Consensus 257 ~~~vl~~f~~~l~~ei~Rslqfy~~~s~~~~id~i~LaGggA~l~gL~~~i~qrl 311 (354)
T COG4972 257 GSEVLRPFLGELTQEIRRSLQFYLSQSEMVDIDQILLAGGGASLEGLAAAIQQRL 311 (354)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhccccceeeEEEEecCCcchhhHHHHHHHHh
Confidence 345568899999999987764 458999999999998888888888875
No 34
>PRK09557 fructokinase; Reviewed
Probab=47.26 E-value=79 Score=28.22 Aligned_cols=47 Identities=9% Similarity=0.099 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHh
Q 024840 118 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAER 164 (262)
Q Consensus 118 ~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~k~~f~~~l~~~~~~ 164 (262)
.++++.+.++..+.......+++.|||+|.-...+.|.+.+.+....
T Consensus 224 ~l~~~~~~La~~l~~l~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~~ 270 (301)
T PRK09557 224 AFRRYEDRLAKSLAHVINILDPDVIVLGGGMSNVDRLYPTLPALLKQ 270 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEEcCcccchHHHHHHHHHHHHH
Confidence 34556666666666666777899999999765555666656555543
No 35
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=44.70 E-value=38 Score=25.74 Aligned_cols=33 Identities=9% Similarity=0.085 Sum_probs=28.8
Q ss_pred hcCCCcEEECHHHHHHHHhccCccEEEEecCCc
Q 024840 223 TNDPTRACYGPKHVEVAHERMAVQTLLITDDLF 255 (262)
Q Consensus 223 ~~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l~ 255 (262)
+.++|++..|.+++.+++.+|..+-++|..+..
T Consensus 14 avkTGkvilG~k~tiK~lk~gkaKliiiAsN~P 46 (100)
T COG1911 14 AVKTGKVILGSKRTIKSLKLGKAKLIIIASNCP 46 (100)
T ss_pred HHhcCCEEEehHHHHHHHHcCCCcEEEEecCCC
Confidence 334589999999999999999999999987764
No 36
>PF14213 DUF4325: Domain of unknown function (DUF4325)
Probab=41.99 E-value=34 Score=24.10 Aligned_cols=68 Identities=12% Similarity=0.161 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHhccc-ccCccEEEEECCcccHHHHHHHHHHHHHhcccchhhhccCcEEEEEcCCCcchhHHHHh
Q 024840 120 NKFFENVLQAFLKHVD-FNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVL 194 (262)
Q Consensus 120 ~~f~~~v~~~l~~~~~-~~~v~~iIIaGPgf~k~~f~~~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl 194 (262)
+++|+.+...+...-. --+..+|-..||+|+-+.|-..+.....+. ...++.+.+.+.....-|+.++
T Consensus 4 ~~~~~~i~~~l~~~~~V~lDF~gv~~~~ssFl~eafg~l~~~~~~~~-------~~~~l~~~~~~~~~~~~I~~vi 72 (74)
T PF14213_consen 4 ERLRDEIEPALKEGEKVVLDFEGVESITSSFLNEAFGQLVREFGEEE-------IKKRLKFKNANESIKEMIKRVI 72 (74)
T ss_pred HHHHHHHHHHHhcCCeEEEECCCcccccHHHHHHHHHHHHHHcCHHH-------HhheeEEecCCHHHHHHHHHHH
Confidence 4677777777763210 113455677899999999988666544221 1235556666555444444443
No 37
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=41.79 E-value=3.2e+02 Score=27.01 Aligned_cols=78 Identities=14% Similarity=0.154 Sum_probs=47.1
Q ss_pred cEEEEEEeCCeEEEEEEecceEEEEE-------EEEeeCCCCCCCCcchhhHHHHHH--HHHHHHHHHhcccccCccEEE
Q 024840 73 DLAVVLMQEGLAHILLVGRSMTITRS-------RIETSIPRKHGPAIAGYESALNKF--FENVLQAFLKHVDFNVVRCAV 143 (262)
Q Consensus 73 ~~~~v~id~g~a~i~~l~~~~~~~~~-------~i~~~ip~K~~~g~s~~~~~~~~f--~~~v~~~l~~~~~~~~v~~iI 143 (262)
.=.++=||...|++.-++.+.+.+-. .++..-|=-+ ..++.| =+.+.+.|.+ +-.+|+
T Consensus 201 ~~sfIEi~r~GatVvQlrn~RIvIarPPfSd~~EITavRPvvk--------~~ledY~L~dkl~eRL~e-----raeGIL 267 (604)
T COG1855 201 PDSFIEIDRPGATVVQLRNYRIVIARPPFSDRWEITAVRPVVK--------LSLEDYGLSDKLKERLEE-----RAEGIL 267 (604)
T ss_pred cCceEEEccCCceEEEeccEEEEEecCCCCCceEEEEEeeeEE--------echhhcCCCHHHHHHHHh-----hhcceE
Confidence 35789999999999999998887632 3333333210 011111 0122233333 356899
Q ss_pred EEC-CcccHHHHHHHHHHHHH
Q 024840 144 IAS-PGFTKDQFHRHLLLEAE 163 (262)
Q Consensus 144 IaG-Pgf~k~~f~~~l~~~~~ 163 (262)
||| ||.=|..|.+-|.+-..
T Consensus 268 IAG~PGaGKsTFaqAlAefy~ 288 (604)
T COG1855 268 IAGAPGAGKSTFAQALAEFYA 288 (604)
T ss_pred EecCCCCChhHHHHHHHHHHH
Confidence 998 67888899876665543
No 38
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=34.53 E-value=1.7e+02 Score=26.10 Aligned_cols=47 Identities=9% Similarity=0.040 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCcccHHHHHHHHHHHHHh
Q 024840 118 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAER 164 (262)
Q Consensus 118 ~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~k~~f~~~l~~~~~~ 164 (262)
.+++|.+.++..+....+..+++.|||+|+-...+.|.+.+.+...+
T Consensus 225 ~~~~~~~~la~~l~n~~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~~ 271 (303)
T PRK13310 225 HVERYLDLLAICLGNILTIVDPHLVVLGGGLSNFDAIYEQLPKRLPR 271 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEECCcccChHHHHHHHHHHHHH
Confidence 34455555566666666667899999999754345566655555543
No 39
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=32.67 E-value=3.3e+02 Score=24.79 Aligned_cols=89 Identities=13% Similarity=0.115 Sum_probs=57.4
Q ss_pred CcEEEEEEeCCeEEEEEEecceEEEEEEEEeeCCCCCC---------------------CC--cchhhHHHHHHHHHHHH
Q 024840 72 ADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHG---------------------PA--IAGYESALNKFFENVLQ 128 (262)
Q Consensus 72 ~~~~~v~id~g~a~i~~l~~~~~~~~~~i~~~ip~K~~---------------------~g--~s~~~~~~~~f~~~v~~ 128 (262)
..+++|-+......++++.+........+.. ++.+- .+ .......++.|++++++
T Consensus 180 ~~~~lvdiG~~~t~~~i~~~g~~~f~R~i~~--G~~~l~~~i~~~~~i~~~~Ae~~k~~~~l~~~~~~~~l~~~~~~l~~ 257 (340)
T PF11104_consen 180 ETVALVDIGASSTTVIIFQNGKPIFSRSIPI--GGNDLTEAIARELGIDFEEAEELKRSGGLPEEYDQDALRPFLEELAR 257 (340)
T ss_dssp -EEEEEEE-SS-EEEEEEETTEEEEEEEES---SHHHHHHHHHHHTT--HHHHHHHHHHT------HHHHHHHHHHHHHH
T ss_pred ceEEEEEecCCeEEEEEEECCEEEEEEEEee--CHHHHHHHHHHhcCCCHHHHHHHHhcCCCCcchHHHHHHHHHHHHHH
Confidence 3689999999999999999988776666532 22100 00 00023346678888888
Q ss_pred HHHhccc-------ccCccEEEEECCcccHHHHHHHHHHHH
Q 024840 129 AFLKHVD-------FNVVRCAVIASPGFTKDQFHRHLLLEA 162 (262)
Q Consensus 129 ~l~~~~~-------~~~v~~iIIaGPgf~k~~f~~~l~~~~ 162 (262)
.+.+.++ ...++.|+++|.|---.-+.+||.+++
T Consensus 258 EI~rsl~~y~~~~~~~~i~~I~L~Ggga~l~gL~~~l~~~l 298 (340)
T PF11104_consen 258 EIRRSLDFYQSQSGGESIERIYLSGGGARLPGLAEYLSEEL 298 (340)
T ss_dssp HHHHHHHHHHHH------SEEEEESGGGGSTTHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCCCCEEEEECCccchhhHHHHHHHHH
Confidence 8876654 336889999999987778888998886
No 40
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=32.60 E-value=2.7e+02 Score=22.54 Aligned_cols=61 Identities=16% Similarity=0.050 Sum_probs=38.1
Q ss_pred EEEEEEeCCeEEEEEEecceEEE----EEEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHHhcccccCccEEEE
Q 024840 74 LAVVLMQEGLAHILLVGRSMTIT----RSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVI 144 (262)
Q Consensus 74 ~~~v~id~g~a~i~~l~~~~~~~----~~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~~~~~~~~v~~iII 144 (262)
++=|=+...+|.||+|+..+-.. .......+++ +.....+++|...+++-+.++ +++.|+|
T Consensus 3 vCGVELkgneaii~ll~~~~~~~~~pdcr~~k~~l~~------~~~~~~vr~Fq~~f~kl~~dy----~Vd~VvI 67 (138)
T PF11215_consen 3 VCGVELKGNEAIICLLSLDDGLFQLPDCRVRKFSLSD------DNSTEEVRKFQFTFAKLMEDY----KVDKVVI 67 (138)
T ss_pred EEEEEEecCeEEEEEEecCCCceECCccceeEEEcCC------CccHHHHHHHHHHHHHHHHHc----CCCEEEE
Confidence 44566778889999987644221 1112222222 123467889999888888776 6788887
No 41
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=30.59 E-value=99 Score=31.00 Aligned_cols=27 Identities=22% Similarity=0.529 Sum_probs=19.3
Q ss_pred HHHHHHHhccccc-CccEEEEECCcccH
Q 024840 125 NVLQAFLKHVDFN-VVRCAVIASPGFTK 151 (262)
Q Consensus 125 ~v~~~l~~~~~~~-~v~~iIIaGPgf~k 151 (262)
+||+.+...+... .+..+-++||||+.
T Consensus 58 eiA~~i~~~l~~~~~~~~veiaGpgfIN 85 (577)
T COG0018 58 EIAEEIAEKLDTDEIIEKVEIAGPGFIN 85 (577)
T ss_pred HHHHHHHHhccccCcEeEEEEcCCCEEE
Confidence 4666666666533 47789999999763
No 42
>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=29.12 E-value=82 Score=24.07 Aligned_cols=36 Identities=28% Similarity=0.385 Sum_probs=29.3
Q ss_pred EEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccCh
Q 024840 18 LRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS 56 (262)
Q Consensus 18 Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~ 56 (262)
--+.|++++-. .+|.++|+.+..--.|-+.|+..++
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 66889998765 5799999999998888888876654
No 43
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=27.82 E-value=1.5e+02 Score=26.30 Aligned_cols=87 Identities=13% Similarity=0.100 Sum_probs=51.5
Q ss_pred EEEEEEeCCeEEEEEEecceEEEEEEEEeeCCCCCCC-------Ccc---------------hhhHHHHHHHHHHHHHHH
Q 024840 74 LAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGP-------AIA---------------GYESALNKFFENVLQAFL 131 (262)
Q Consensus 74 ~~~v~id~g~a~i~~l~~~~~~~~~~i~~~ip~K~~~-------g~s---------------~~~~~~~~f~~~v~~~l~ 131 (262)
.+++-|..|...+.++....+... ....+.+.+-. +-+ .....++.+++++++.+.
T Consensus 137 ~~vvDIGggtt~i~v~~~g~~~~~--~~~~~GG~~it~~Ia~~l~i~~~eAE~lK~~~~~~~~~~~ii~~~~~~i~~~i~ 214 (267)
T PRK15080 137 GAVVDIGGGTTGISILKDGKVVYS--ADEPTGGTHMSLVLAGAYGISFEEAEQYKRDPKHHKEIFPVVKPVVEKMASIVA 214 (267)
T ss_pred cEEEEeCCCcEEEEEEECCeEEEE--ecccCchHHHHHHHHHHhCCCHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHH
Confidence 567777788888888777655433 22233322100 000 011233456777777777
Q ss_pred hcccccCccEEEEECCcccHHHHHHHHHHHH
Q 024840 132 KHVDFNVVRCAVIASPGFTKDQFHRHLLLEA 162 (262)
Q Consensus 132 ~~~~~~~v~~iIIaGPgf~k~~f~~~l~~~~ 162 (262)
+.+....+++|+++|-|---.-+.+++.+..
T Consensus 215 ~~l~~~~~~~IvLtGG~s~lpgl~e~l~~~l 245 (267)
T PRK15080 215 RHIEGQDVEDIYLVGGTCCLPGFEEVFEKQT 245 (267)
T ss_pred HHHhcCCCCEEEEECCcccchhHHHHHHHHh
Confidence 7766667888888887765556666666665
No 44
>PF08967 DUF1884: Domain of unknown function (DUF1884); InterPro: IPR014418 This group represents an uncharacterised conserved protein.; PDB: 2PK8_A.
Probab=26.64 E-value=43 Score=24.63 Aligned_cols=17 Identities=29% Similarity=0.342 Sum_probs=10.5
Q ss_pred EEEEECCcccHHHHHHHHHHHH
Q 024840 141 CAVIASPGFTKDQFHRHLLLEA 162 (262)
Q Consensus 141 ~iIIaGPgf~k~~f~~~l~~~~ 162 (262)
-|+++||. |++|+....
T Consensus 29 DivL~G~e-----f~e~~~~~~ 45 (85)
T PF08967_consen 29 DIVLVGPE-----FYEFLSEEV 45 (85)
T ss_dssp -EEEE-HH-----HHHHHHH--
T ss_pred CEEEEcHH-----HHHHHHHHH
Confidence 38999996 777877753
No 45
>PF09345 DUF1987: Domain of unknown function (DUF1987); InterPro: IPR018530 This family of proteins are functionally uncharacterised.
Probab=25.29 E-value=57 Score=24.75 Aligned_cols=22 Identities=36% Similarity=0.516 Sum_probs=19.0
Q ss_pred EEeecCCCCeEEEEEEEEecCc
Q 024840 8 VVDYDKEGSVLRIRGKNILENE 29 (262)
Q Consensus 8 ~vef~~~~~~Lri~G~i~~~~e 29 (262)
.|.||+.+++|+|+|.-.-++.
T Consensus 2 ~V~Fd~~~g~l~i~GeSypEn~ 23 (99)
T PF09345_consen 2 EVDFDFDTGRLEISGESYPENA 23 (99)
T ss_pred eEEEEccCCEEEEecccCccCH
Confidence 4789999999999999877764
No 46
>TIGR03630 arch_S17P archaeal ribosomal protein S17P. This model describes exclusively the archaeal ribosomal protein S17P. It excludes homologous ribosomal proteins S11 from eukaryotes and S17 from bacteria.
Probab=25.13 E-value=57 Score=25.01 Aligned_cols=16 Identities=19% Similarity=0.196 Sum_probs=14.2
Q ss_pred CCCCeEEEEEEEEecC
Q 024840 13 KEGSVLRIRGKNILEN 28 (262)
Q Consensus 13 ~~~~~Lri~G~i~~~~ 28 (262)
||++.|+|+|++..|-
T Consensus 18 pf~g~l~irgk~l~G~ 33 (102)
T TIGR03630 18 PFHGHLKVRGQILEGV 33 (102)
T ss_pred CccceeeeeeEEEEEE
Confidence 7899999999998764
No 47
>COG5015 Uncharacterized conserved protein [Function unknown]
Probab=25.07 E-value=3.5e+02 Score=21.49 Aligned_cols=63 Identities=16% Similarity=0.263 Sum_probs=41.5
Q ss_pred EeecCCCCeEEEEEEEEecCc-cccCCcEEEEEEccCCceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEeCCeEEEE
Q 024840 9 VDYDKEGSVLRIRGKNILENE-HVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQEGLAHIL 87 (262)
Q Consensus 9 vef~~~~~~Lri~G~i~~~~e-~v~~G~~HT~~i~~~~~i~i~K~~wd~~~le~L~~a~~~~~~~~~~~v~id~g~a~i~ 87 (262)
..-+..+..+|++|+++..+. .++- --... --.|+++...+.++...+.-+|.|++.+|
T Consensus 62 cg~~kdg~~vrlrg~a~f~~nielkk------------------~ale~--yP~Lkeiy~tddnpifevfyld~~e~~m~ 121 (132)
T COG5015 62 CGMDKDGVMVRLRGRAEFVENIELKK------------------LALEI--YPVLKEIYPTDDNPIFEVFYLDSGEGEMY 121 (132)
T ss_pred EEecCCceEEEEeeeEEeccchHHHH------------------HHhhh--chhhHhhccCCCCCEEEEEEEeeccEEEE
Confidence 334556678999999987663 2211 00000 11366777777777899999999999999
Q ss_pred EEec
Q 024840 88 LVGR 91 (262)
Q Consensus 88 ~l~~ 91 (262)
-+.+
T Consensus 122 df~g 125 (132)
T COG5015 122 DFSG 125 (132)
T ss_pred EecC
Confidence 7654
No 48
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=24.16 E-value=1.9e+02 Score=25.78 Aligned_cols=46 Identities=9% Similarity=0.061 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHhcccccCccEEEEEC--CcccHHHHHHHHHHHHHh
Q 024840 119 LNKFFENVLQAFLKHVDFNVVRCAVIAS--PGFTKDQFHRHLLLEAER 164 (262)
Q Consensus 119 ~~~f~~~v~~~l~~~~~~~~v~~iIIaG--Pgf~k~~f~~~l~~~~~~ 164 (262)
++++.+.++..+....+..++..|||+| +....+.|.+.+......
T Consensus 228 ~~~~~~~la~~ianl~~~~~P~~IvigG~g~~~~~~~~~~~l~~~~~~ 275 (314)
T COG1940 228 IERAADYLARGLANLINLLDPEVIVIGGGGVSALGDLLLPRLRKLLAK 275 (314)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCeEEEECcccccchhHHHHHHHHHHHH
Confidence 4455555555566666666788999987 665667777777766544
No 49
>smart00675 DM11 Domains in hypothetical proteins in Drosophila including 2 in CG15241 and CG9329.
Probab=24.15 E-value=1.3e+02 Score=24.96 Aligned_cols=33 Identities=15% Similarity=0.182 Sum_probs=23.9
Q ss_pred EEEeecCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEE
Q 024840 7 QVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLR 50 (262)
Q Consensus 7 e~vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~ 50 (262)
..++|....+.++|+|-+.. +++|+|+++|++.
T Consensus 33 S~l~~~~d~~~i~vsGn~t~-----------~wdi~P~DrI~~~ 65 (164)
T smart00675 33 SNLVVDMDPDGLHISGNITV-----------IWDVQPTDRISAR 65 (164)
T ss_pred hheEEEEcCCeEEEeeeEEE-----------EEecCCCCeEEEE
Confidence 34556666778888887743 6788888888775
No 50
>PF09290 AcetDehyd-dimer: Prokaryotic acetaldehyde dehydrogenase, dimerisation; InterPro: IPR015426 This C-terminal domain is found in prokaryotic acetaldehyde dehydrogenases, it adopts a structure consisting of an alpha-beta-alpha-beta(3) core, which mediates dimerisation of the protein []. The acetaldehyde dehydrogenase family of bacterial enzymes catalyses the formation of acetyl-CoA from acetaldehyde in the 3-hydroxyphenylpropinoate degradation pathway. It occurs as a late step in the meta-cleavage pathways of a variety of compounds, including catechol, biphenyl, toluene, salicylate [].; GO: 0008774 acetaldehyde dehydrogenase (acetylating) activity, 0019439 aromatic compound catabolic process, 0055114 oxidation-reduction process; PDB: 1NVM_F.
Probab=23.42 E-value=1.3e+02 Score=24.23 Aligned_cols=49 Identities=14% Similarity=0.188 Sum_probs=33.4
Q ss_pred EEEEEEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHHhcccccCccEEEEECCc
Q 024840 94 TITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPG 148 (262)
Q Consensus 94 ~~~~~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPg 148 (262)
.+++.++.+..-|- +.-.++.+|......++.+.---.+.|.||+..|.
T Consensus 22 aEIVatiaS~SaGP------gTR~NIDEft~TT~~ai~~vgGa~~~KaIiilNPA 70 (137)
T PF09290_consen 22 AEIVATIASKSAGP------GTRANIDEFTETTARAIEQVGGAKRGKAIIILNPA 70 (137)
T ss_dssp EEEEEEEEGGGS-H------HHHTTHHHHHHHHHHHHHHTT--SSEEEEEEEE--
T ss_pred eEEEeeeccccCCc------hhhhhHHHHHHHHHHHHHHhcCcccceeEEEecCC
Confidence 35566666554432 13357999999999999998777789999999998
No 51
>COG1915 Uncharacterized conserved protein [Function unknown]
Probab=23.13 E-value=1.1e+02 Score=28.36 Aligned_cols=34 Identities=18% Similarity=0.207 Sum_probs=25.7
Q ss_pred hhHHHHHHHHHHHHHHHhcccccCccEEEEECCcc
Q 024840 115 YESALNKFFENVLQAFLKHVDFNVVRCAVIASPGF 149 (262)
Q Consensus 115 ~~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf 149 (262)
.++..+...++||..+.+..+. .=|-+++|||..
T Consensus 178 sErp~e~~i~~IA~E~~ei~~k-gGkIvvv~GPav 211 (415)
T COG1915 178 SERPVETLIEQIAWEIREIRDK-GGKIVVVAGPAV 211 (415)
T ss_pred cCCcHHHHHHHHHHHHHHHHhc-CCcEEEEecCeE
Confidence 4566788899999999776543 346799999983
No 52
>PF12984 DUF3868: Domain of unknown function, B. Theta Gene description (DUF3868); InterPro: IPR024480 This domain of unknown function is found in a number of bacterial proteins. The function of the proteins is not known, but the Bacteroides thetaiotaomicron gene appears to be upregulated in the presence of host or other bacterial species compared to pure culture [, ].
Probab=22.77 E-value=1.8e+02 Score=22.48 Aligned_cols=39 Identities=18% Similarity=0.183 Sum_probs=26.6
Q ss_pred eEEEEEEeecCCCCeEEEEEEEEecCccccCCcEEEEEEcc
Q 024840 3 FFVSQVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIEL 43 (262)
Q Consensus 3 ~i~Ve~vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~ 43 (262)
.|+|++.++...++.|.|.=.+--.+ .++++-|++.+.|
T Consensus 29 ~i~v~~~~~~~~gd~L~V~m~idl~~--l~v~s~~~l~ltP 67 (115)
T PF12984_consen 29 QIKVTNVSVEKQGDSLHVDMDIDLSG--LKVKSNRSLILTP 67 (115)
T ss_pred cEEEEeeEEEEECCEEEEEEEEEecc--cccCCCCEEEEEe
Confidence 46777888887788888887776644 3456666666554
No 53
>PF07318 DUF1464: Protein of unknown function (DUF1464); InterPro: IPR009927 This family consists of several hypothetical archaeal proteins of around 350 residues in length. The function of this family is unknown.
Probab=22.15 E-value=3e+02 Score=25.79 Aligned_cols=91 Identities=8% Similarity=0.004 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHhccc-ccCccEEEEECCcccHHHHHHHHHHHHHhcccchhhhccCcEEEEEcCCCcchhHHHHhcC
Q 024840 118 ALNKFFENVLQAFLKHVD-FNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDA 196 (262)
Q Consensus 118 ~~~~f~~~v~~~l~~~~~-~~~v~~iIIaGPgf~k~~f~~~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~ 196 (262)
+.+.+.+-|++.+..... ..+.+.|++.|--.--.+|.+.+..++.+.......+...-......+.-|-+=|-.-|..
T Consensus 239 a~ea~~E~i~k~V~~l~~~~~~~~~IilSGr~~~~~~~~~~l~~~l~~~~~~~v~~l~~~~~~aKeaA~GaAiIA~glaG 318 (343)
T PF07318_consen 239 AWEAMIESIVKAVASLLASVPDPDEIILSGRFSRIPEFRKKLEDRLEDYFPVKVRKLEGLARKAKEAAQGAAIIANGLAG 318 (343)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCCEEEEeccccccHHHHHHHHHHHHhhcccceeecccccccchhhhhhHHHHhhhhhc
Confidence 344555555555544433 3477899999999888899988888876532111111111001123333344555566666
Q ss_pred chhHHhhhhhhH
Q 024840 197 PNVMNMIKDTKA 208 (262)
Q Consensus 197 ~~v~~~l~~~~~ 208 (262)
+..+++++-+++
T Consensus 319 G~~~~lv~~l~i 330 (343)
T PF07318_consen 319 GRYKELVDHLEI 330 (343)
T ss_pred ccHHHHHHHhcc
Confidence 655555554443
No 54
>PF10664 NdhM: Cyanobacterial and plastid NDH-1 subunit M; InterPro: IPR018922 The NADH dehydrogenase I complex shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in plants is believed to be plastoquinone. The NADH dehydrogenase I complex couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. This entry represents subunit M of the NADH dehydrogenase I complex in cyanobacteria and plant chloroplasts []. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process
Probab=22.01 E-value=3e+02 Score=21.09 Aligned_cols=50 Identities=24% Similarity=0.345 Sum_probs=37.1
Q ss_pred CeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccChhhHHHH----HHhcCCCC
Q 024840 16 SVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTL----HQAADPTA 70 (262)
Q Consensus 16 ~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~~~le~L----~~a~~~~~ 70 (262)
--+||----++.++.++--..-|++++|..+| .|+...++.. .+.++...
T Consensus 6 RHvrIftA~v~~~~lv~~~~~LTLdlDPdNEF-----~W~~~~l~kVy~~F~eLVe~~~ 59 (108)
T PF10664_consen 6 RHVRIFTAEVENNELVPSDDKLTLDLDPDNEF-----NWNEEALQKVYRKFDELVESYA 59 (108)
T ss_pred eeEEEEEEEEecCceecCCCeeEEecCCCccc-----ccCHHHHHHHHHHHHHHHHhhc
Confidence 34677666677888888788899999999987 6988776654 45555544
No 55
>KOG3069 consensus Peroxisomal NUDIX hydrolase [Replication, recombination and repair]
Probab=21.55 E-value=3e+02 Score=24.36 Aligned_cols=60 Identities=27% Similarity=0.325 Sum_probs=38.7
Q ss_pred CCCCCcEEEEEEeC--CeEEEEEEecceEEEEEEEEeeCCCC-CCCCc-chhhHHHHHHHHHHH
Q 024840 68 PTASADLAVVLMQE--GLAHILLVGRSMTITRSRIETSIPRK-HGPAI-AGYESALNKFFENVL 127 (262)
Q Consensus 68 ~~~~~~~~~v~id~--g~a~i~~l~~~~~~~~~~i~~~ip~K-~~~g~-s~~~~~~~~f~~~v~ 127 (262)
+.+++.+.+.+++. |++.+-+-+++..---..-+...||. +.... +....++++=+++|.
T Consensus 40 ~~~~~aVlI~L~~~~~~~l~vLltkRSr~LrshsGev~fPGG~~d~~D~s~~~tAlREt~EEIG 103 (246)
T KOG3069|consen 40 PNRKAAVLIPLVQVGSGELSVLLTKRSRTLRSHSGEVCFPGGRRDPHDKSDIQTALRETEEEIG 103 (246)
T ss_pred CCCCccEEEEEEEcCCCceEEEEEeccccccccCCceeCCCCcCCccccchHHHHHHHHHHHhC
Confidence 34566788888877 77777776666666566677788984 44433 334466666666653
No 56
>PTZ00288 glucokinase 1; Provisional
Probab=21.52 E-value=7.1e+02 Score=23.72 Aligned_cols=87 Identities=20% Similarity=0.166 Sum_probs=43.2
Q ss_pred ChhhHHHHHHhcCCCC--CCcEEEEEEeC--CeEEEEEEec--ceEEEEEEEEeeCC-CCCCCCcchhhHHHHHHHHHHH
Q 024840 55 DSLALDTLHQAADPTA--SADLAVVLMQE--GLAHILLVGR--SMTITRSRIETSIP-RKHGPAIAGYESALNKFFENVL 127 (262)
Q Consensus 55 d~~~le~L~~a~~~~~--~~~~~~v~id~--g~a~i~~l~~--~~~~~~~~i~~~ip-~K~~~g~s~~~~~~~~f~~~v~ 127 (262)
+..+++.|++..+.+. +..-.+|.+|= -.+.|++-+. ++-..........| ++. .-...-+||.++.
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~DiGgt~~R~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~ 78 (405)
T PTZ00288 5 DEIFLEQLAEELKTDASWSSGPIFVGCDVGGTNARVGFAREVQHDDSGVHIIYVRFNVTKT------DIRELLEFFDEVL 78 (405)
T ss_pred hHHHHHHHHHHhccCcccccCCeEEEEEecCCceEEEEEeccCCCCCceeEEEEecccccc------cHHHHHHHHHHHH
Confidence 3466778877766543 12222344444 4455665543 21111222223334 211 1335678999999
Q ss_pred HHHHhccc---ccCccEEEEECC
Q 024840 128 QAFLKHVD---FNVVRCAVIASP 147 (262)
Q Consensus 128 ~~l~~~~~---~~~v~~iIIaGP 147 (262)
+.|.+... ....-+|-||||
T Consensus 79 ~~l~~~~~~~~~~~~a~iAvAGP 101 (405)
T PTZ00288 79 QKLKKNLSFIQRVAAGAISVPGP 101 (405)
T ss_pred HHHHhcCccccCcCeEEEEEeCc
Confidence 99887542 222235555565
No 57
>PF06100 Strep_67kDa_ant: Streptococcal 67 kDa myosin-cross-reactive antigen like family ; InterPro: IPR010354 Members of this family are thought to have structural features in common with the beta chain of the class II antigens, as well as myosin, and may play an important role in the pathogenesis [].
Probab=21.37 E-value=2.7e+02 Score=27.43 Aligned_cols=43 Identities=14% Similarity=0.194 Sum_probs=35.7
Q ss_pred EEEEEEeecCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEE
Q 024840 4 FVSQVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRK 51 (262)
Q Consensus 4 i~Ve~vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K 51 (262)
-+|++++|++..+.-++++..+..+ |...++.+.|++=+-+.-
T Consensus 228 t~V~di~~~~~~~~~~~~~i~~~~~-----g~~~~i~l~~~DlV~vT~ 270 (500)
T PF06100_consen 228 TKVTDIDFDITGDKKTATRIHIEQD-----GKEETIDLGPDDLVFVTN 270 (500)
T ss_pred CEEEEEEEEccCCCeeEEEEEEEcC-----CCeeEEEeCCCCEEEEEC
Confidence 4799999999989888888887744 778899999988877664
No 58
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=21.28 E-value=77 Score=22.85 Aligned_cols=26 Identities=15% Similarity=-0.095 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHhcccccCccEEEEECCccc
Q 024840 121 KFFENVLQAFLKHVDFNVVRCAVIASPGFT 150 (262)
Q Consensus 121 ~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~ 150 (262)
.+++.+.+.+.++ .+.+|.|+.||.+
T Consensus 38 ~~~~~l~~~i~~~----~~~~i~Ig~pg~v 63 (99)
T smart00732 38 ADAARLKKLIKKY----QPDLIVIGLPLNM 63 (99)
T ss_pred hHHHHHHHHHHHh----CCCEEEEeCCcCC
Confidence 3455555555443 5789999999976
No 59
>KOG0283 consensus WD40 repeat-containing protein [Function unknown]
Probab=21.14 E-value=7.8e+02 Score=25.45 Aligned_cols=86 Identities=16% Similarity=0.169 Sum_probs=59.4
Q ss_pred EEEEeecCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEEEEcccChhhHHHHHHhcCCCCCCcEEEEEEeCCeEE
Q 024840 6 SQVVDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADPTASADLAVVLMQEGLAH 85 (262)
Q Consensus 6 Ve~vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i~K~~wd~~~le~L~~a~~~~~~~~~~~v~id~g~a~ 85 (262)
|++|.|+|-.++-.|+|-+ + |+-.-|+|- ...|. .|. +++.|--|+--.+.+.+++|=.-.|.|.
T Consensus 412 VTcVaFnPvDDryFiSGSL-----D---~KvRiWsI~-d~~Vv----~W~--Dl~~lITAvcy~PdGk~avIGt~~G~C~ 476 (712)
T KOG0283|consen 412 VTCVAFNPVDDRYFISGSL-----D---GKVRLWSIS-DKKVV----DWN--DLRDLITAVCYSPDGKGAVIGTFNGYCR 476 (712)
T ss_pred eEEEEecccCCCcEeeccc-----c---cceEEeecC-cCeeE----eeh--hhhhhheeEEeccCCceEEEEEeccEEE
Confidence 8999999999999999965 1 444445443 22222 243 3444444444455678999999999999
Q ss_pred EEEEecceEEEEEEEEeeCCC
Q 024840 86 ILLVGRSMTITRSRIETSIPR 106 (262)
Q Consensus 86 i~~l~~~~~~~~~~i~~~ip~ 106 (262)
||...+.....-..|...-.+
T Consensus 477 fY~t~~lk~~~~~~I~~~~~K 497 (712)
T KOG0283|consen 477 FYDTEGLKLVSDFHIRLHNKK 497 (712)
T ss_pred EEEccCCeEEEeeeEeeccCc
Confidence 999888888877777655333
No 60
>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=21.07 E-value=3.2e+02 Score=24.31 Aligned_cols=47 Identities=6% Similarity=-0.075 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCccc-HHHHHHHHHHHHHh
Q 024840 118 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFT-KDQFHRHLLLEAER 164 (262)
Q Consensus 118 ~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPgf~-k~~f~~~l~~~~~~ 164 (262)
.++++-+.++..+....+..+++.|||+|+-+. .+.|.+.+.+...+
T Consensus 231 i~~~~~~~L~~~i~~~~~~~dP~~IvlgG~~~~~~~~~~~~i~~~~~~ 278 (318)
T TIGR00744 231 SYREVARWAGAGLADLASLFNPSAIVLGGGLSDAGDLLLDPIRKSYKR 278 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEECChhhhCcHHHHHHHHHHHHH
Confidence 344455555555555555568899999997542 24566666555443
No 61
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=20.71 E-value=1.8e+02 Score=27.00 Aligned_cols=28 Identities=21% Similarity=0.230 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHHHHHHhcccccCccEEEEEC
Q 024840 115 YESALNKFFENVLQAFLKHVDFNVVRCAVIAS 146 (262)
Q Consensus 115 ~~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaG 146 (262)
+.....++|.++.+.+.+. +++.|||||
T Consensus 21 r~~d~~~~f~~~l~~a~~~----~vD~vliAG 48 (390)
T COG0420 21 RLEDQKKAFDELLEIAKEE----KVDFVLIAG 48 (390)
T ss_pred chHHHHHHHHHHHHHHHHc----cCCEEEEcc
Confidence 5566777888888888775 689999998
No 62
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=20.69 E-value=1.3e+02 Score=27.03 Aligned_cols=31 Identities=19% Similarity=0.348 Sum_probs=27.1
Q ss_pred cCCCcEEECHHHHHHHHhccCccEEEEecCC
Q 024840 224 NDPTRACYGPKHVEVAHERMAVQTLLITDDL 254 (262)
Q Consensus 224 ~~~~~v~YG~~eV~~Ale~GAVe~LLVsd~l 254 (262)
+.|-.+.+|.++|.++++.|-+.-++|..|.
T Consensus 128 kkp~~LvsG~n~VtkaIekkKAkLVIIA~DV 158 (263)
T PTZ00222 128 KAPLAVVTGLQEVTRAIEKKQARMVVIANNV 158 (263)
T ss_pred CCCCeeccCHHHHHHHHHcCCceEEEEeCCC
Confidence 3445689999999999999999999999875
No 63
>cd00298 ACD_sHsps_p23-like This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is this ACD. sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps. p23 is a cochaperone of the Hsp90 chaperoning pathway. It binds Hsp90 and participates in the folding of a number of Hsp90 clients including the progesterone receptor. p23 also has a passive chaperoning activity. p23 in addition may act as the cytosolic prostaglandin E2 synthase. Included in this family is the p23-like C-terminal CHORD-SGT1 (CS) domain of suppressor of G2 allele of Skp1 (Sgt1) and the p23-like domains of human butyrate-induced transcript 1 (hB-ind
Probab=20.64 E-value=2.4e+02 Score=18.37 Aligned_cols=39 Identities=26% Similarity=0.215 Sum_probs=23.7
Q ss_pred EeecCCCCeEEEEEEEEecCccccCCcEEEEEEccCCceEE
Q 024840 9 VDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVL 49 (262)
Q Consensus 9 vef~~~~~~Lri~G~i~~~~e~v~~G~~HT~~i~~~~~i~i 49 (262)
++|+ .+.|.|+|..-...+....+..+...+.++.++..
T Consensus 24 v~~~--~~~l~v~~~~~~~~~~~~~~~~~~~~~~L~~~i~~ 62 (80)
T cd00298 24 VEVE--DNVLTISGKREEEEERERSYGEFERSFELPEDVDP 62 (80)
T ss_pred EEEE--CCEEEEEEEEcCCCcceEeeeeEEEEEECCCCcCH
Confidence 4555 48999999876544322234555667777766654
No 64
>PRK03011 butyrate kinase; Provisional
Probab=20.19 E-value=4.3e+02 Score=24.66 Aligned_cols=63 Identities=5% Similarity=0.016 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHhccccc--CccEEEEE-CCcccHHHHHHHHHHHHHhcccchhhhccCcEEEEEcCCCcchh
Q 024840 117 SALNKFFENVLQAFLKHVDFN--VVRCAVIA-SPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHS 189 (262)
Q Consensus 117 ~~~~~f~~~v~~~l~~~~~~~--~v~~iIIa-GPgf~k~~f~~~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~g 189 (262)
..++.|..+++..+-.+.... +++.||++ |-+. .+.|.+.+.++.... .++.+.....+.+++
T Consensus 272 ~ald~~~~~lak~I~~l~~~L~gdpD~IVlgGGI~~-~~~l~~~I~~~l~~~---------~pv~i~p~~~e~~A~ 337 (358)
T PRK03011 272 LVYEAMAYQIAKEIGAMAAVLKGKVDAIVLTGGLAY-SKRLVERIKERVSFI---------APVIVYPGEDEMEAL 337 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCEEEEeCcccc-CHHHHHHHHHHHHhh---------CCeEEEeCCCHHHHH
Confidence 456677778888877776644 79999997 4444 556666666665431 245555555554443
No 65
>PRK09245 enoyl-CoA hydratase; Provisional
Probab=20.17 E-value=1.7e+02 Score=25.64 Aligned_cols=43 Identities=19% Similarity=0.276 Sum_probs=27.5
Q ss_pred EEEEeeCCCCCCCCcchhhHHH--HHHHHHHHHHHHhcccccCccEEEEECCc
Q 024840 98 SRIETSIPRKHGPAIAGYESAL--NKFFENVLQAFLKHVDFNVVRCAVIASPG 148 (262)
Q Consensus 98 ~~i~~~ip~K~~~g~s~~~~~~--~~f~~~v~~~l~~~~~~~~v~~iIIaGPg 148 (262)
..++.+=|.|++ ++ ..+++++.+.+.+.-...++++|||.|.|
T Consensus 14 ~~itlnrp~~~N--------al~~~~~~~~l~~~l~~~~~d~~vr~vVl~g~g 58 (266)
T PRK09245 14 VTLTMNRPETRN--------ALSDNDAVDALVAACAAINADRSVRAVILTGAG 58 (266)
T ss_pred EEEEECCccccc--------CCChHHHHHHHHHHHHHHhcCCCceEEEEECCC
Confidence 445566676543 22 24666666666665445679999999987
No 66
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=20.16 E-value=1.7e+02 Score=24.74 Aligned_cols=29 Identities=14% Similarity=0.121 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHHHhcccccCccEEEEECCc
Q 024840 116 ESALNKFFENVLQAFLKHVDFNVVRCAVIASPG 148 (262)
Q Consensus 116 ~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPg 148 (262)
+.+.+.|+...-+.|.++ +++-++|.|||
T Consensus 138 ~~~R~~F~~~l~~~L~~~----~~~~v~i~~~~ 166 (187)
T COG3172 138 SVQRQEFQNLLEQMLEEN----NIPFVVIEGED 166 (187)
T ss_pred HhHHHHHHHHHHHHHHHh----CCcEEEEcCCC
Confidence 457888998877777775 67889999997
No 67
>PRK07511 enoyl-CoA hydratase; Provisional
Probab=20.16 E-value=1.7e+02 Score=25.64 Aligned_cols=44 Identities=14% Similarity=0.175 Sum_probs=29.1
Q ss_pred EEEEeeCCCCCCCCcchhhHHHHHHHHHHHHHHHhcccccCccEEEEECCc
Q 024840 98 SRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPG 148 (262)
Q Consensus 98 ~~i~~~ip~K~~~g~s~~~~~~~~f~~~v~~~l~~~~~~~~v~~iIIaGPg 148 (262)
..++.+-|.|++. .-..+++++.+.+.+.-...++++|||.|.|
T Consensus 14 ~~itlnrp~~~Na-------l~~~~~~~l~~~l~~~~~d~~vr~vVl~g~g 57 (260)
T PRK07511 14 LVLTLSNPGARNA-------LHPDMYAAGIEALNTAERDPSIRAVVLTGAG 57 (260)
T ss_pred EEEEECCcccccC-------CCHHHHHHHHHHHHHhccCCCeEEEEEECCC
Confidence 3445566766432 2245666677777766555789999999977
Done!