Query 042367
Match_columns 428
No_of_seqs 172 out of 777
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 05:33:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042367.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042367hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03676 aRF1/eRF1 peptide ch 100.0 1.1E-89 2.3E-94 695.2 41.0 393 12-408 1-403 (403)
2 TIGR00108 eRF peptide chain re 100.0 2.7E-87 5.8E-92 680.2 41.4 397 10-410 3-409 (409)
3 PRK04011 peptide chain release 100.0 5.6E-86 1.2E-90 670.9 41.4 397 8-408 4-411 (411)
4 COG1503 eRF1 Peptide chain rel 100.0 5.6E-76 1.2E-80 580.4 28.0 396 9-409 5-410 (411)
5 KOG0688 Peptide chain release 100.0 8.9E-75 1.9E-79 545.1 17.8 409 6-417 3-421 (431)
6 TIGR00111 pelota probable tran 100.0 4.6E-59 9.9E-64 466.0 22.5 305 33-408 27-351 (351)
7 COG1537 PelA Predicted RNA-bin 100.0 3.7E-55 8E-60 423.4 20.0 309 33-409 25-352 (352)
8 KOG2869 Meiotic cell division 100.0 6.8E-54 1.5E-58 405.8 12.9 321 33-410 28-372 (379)
9 PF03465 eRF1_3: eRF1 domain 3 100.0 4.6E-29 9.9E-34 210.4 9.1 113 271-408 1-113 (113)
10 PF03464 eRF1_2: eRF1 domain 2 99.9 1.6E-23 3.5E-28 182.2 13.2 129 135-268 2-133 (133)
11 PF03463 eRF1_1: eRF1 domain 1 99.0 4.6E-12 1E-16 110.0 -5.4 115 10-133 7-124 (132)
12 PF10116 Host_attach: Protein 97.4 0.00031 6.6E-09 61.4 5.4 109 136-251 2-128 (138)
13 PRK13600 putative ribosomal pr 95.2 0.11 2.4E-06 41.3 7.6 57 292-392 14-70 (84)
14 PRK13602 putative ribosomal pr 94.9 0.17 3.6E-06 40.1 7.8 59 290-392 10-68 (82)
15 PRK07714 hypothetical protein; 94.6 0.22 4.8E-06 40.9 8.1 75 286-404 13-87 (100)
16 PF08032 SpoU_sub_bind: RNA 2' 94.4 0.09 1.9E-06 40.4 5.2 69 293-407 2-73 (76)
17 PRK07283 hypothetical protein; 94.3 0.3 6.5E-06 40.0 8.2 34 285-318 12-45 (98)
18 PRK06683 hypothetical protein; 93.4 0.51 1.1E-05 37.3 7.8 60 289-392 9-68 (82)
19 PRK01018 50S ribosomal protein 92.7 0.87 1.9E-05 37.4 8.4 60 289-392 14-74 (99)
20 PTZ00106 60S ribosomal protein 92.6 0.77 1.7E-05 38.4 8.1 40 278-318 13-52 (108)
21 COG1358 RPL8A Ribosomal protei 92.5 0.42 9.1E-06 40.4 6.5 61 289-392 25-85 (116)
22 PRK13601 putative L7Ae-like ri 91.7 0.96 2.1E-05 35.8 7.3 60 289-392 6-65 (82)
23 TIGR03677 rpl7ae 50S ribosomal 91.6 1.2 2.5E-05 37.8 8.2 75 288-405 23-98 (117)
24 PRK04175 rpl7ae 50S ribosomal 91.4 1.9 4.1E-05 36.8 9.3 62 288-392 27-88 (122)
25 PRK05583 ribosomal protein L7A 90.9 1.4 3.1E-05 36.5 7.8 33 286-318 12-44 (104)
26 PRK09190 hypothetical protein; 90.7 2.4 5.1E-05 40.0 10.0 34 285-318 105-138 (220)
27 PF01248 Ribosomal_L7Ae: Ribos 90.3 1.6 3.4E-05 35.1 7.6 60 290-392 14-73 (95)
28 PRK06266 transcription initiat 79.9 1.6 3.4E-05 39.8 2.9 43 324-371 118-160 (178)
29 PTZ00222 60S ribosomal protein 79.3 20 0.00044 34.4 10.2 71 291-404 132-202 (263)
30 TIGR00373 conserved hypothetic 79.3 1.5 3.3E-05 39.1 2.6 44 324-372 110-153 (158)
31 COG1592 Rubrerythrin [Energy p 78.5 1.4 3.1E-05 39.6 2.1 25 323-356 134-158 (166)
32 COG1911 RPL30 Ribosomal protei 77.9 33 0.00072 27.9 9.5 72 288-404 16-88 (100)
33 PRK00398 rpoP DNA-directed RNA 75.5 0.83 1.8E-05 31.8 -0.2 38 323-366 3-40 (46)
34 COG2433 Uncharacterized conser 72.6 13 0.00028 39.9 7.6 32 170-201 149-180 (652)
35 PTZ00365 60S ribosomal protein 70.5 24 0.00052 34.0 8.2 73 290-405 131-203 (266)
36 smart00834 CxxC_CXXC_SSSS Puta 62.8 7.6 0.00017 25.8 2.5 33 321-356 3-35 (41)
37 PF09723 Zn-ribbon_8: Zinc rib 62.3 11 0.00024 25.6 3.2 32 321-355 3-34 (42)
38 smart00531 TFIIE Transcription 61.6 4.7 0.0001 35.5 1.6 43 323-366 99-142 (147)
39 PF04423 Rad50_zn_hook: Rad50 52.6 11 0.00025 27.0 2.1 24 349-372 22-45 (54)
40 TIGR02605 CxxC_CxxC_SSSS putat 50.4 21 0.00046 25.1 3.2 32 321-355 3-34 (52)
41 TIGR02098 MJ0042_CXXC MJ0042 f 48.4 11 0.00023 24.8 1.2 33 324-358 3-36 (38)
42 COG1439 Predicted nucleic acid 48.2 44 0.00094 30.4 5.5 27 321-357 137-163 (177)
43 COG0566 SpoU rRNA methylases [ 47.0 81 0.0017 30.5 7.6 74 290-408 21-95 (260)
44 cd00350 rubredoxin_like Rubred 46.4 16 0.00035 23.4 1.8 25 324-356 2-26 (33)
45 smart00659 RPOLCX RNA polymera 46.1 15 0.00033 25.4 1.7 30 323-359 2-31 (44)
46 PRK03824 hypA hydrogenase nick 45.4 41 0.00088 29.2 4.8 9 323-331 70-78 (135)
47 PF13727 CoA_binding_3: CoA-bi 45.4 37 0.0008 29.6 4.7 51 291-384 125-175 (175)
48 PRK05452 anaerobic nitric oxid 44.0 78 0.0017 33.5 7.6 35 212-247 305-345 (479)
49 PF07295 DUF1451: Protein of u 42.1 38 0.00082 29.9 4.1 36 314-356 104-139 (146)
50 cd00729 rubredoxin_SM Rubredox 42.0 23 0.00051 22.9 2.1 26 323-356 2-27 (34)
51 PF03604 DNA_RNApol_7kD: DNA d 40.6 27 0.00058 22.5 2.1 25 325-356 2-26 (32)
52 PRK12496 hypothetical protein; 38.9 22 0.00048 31.9 2.2 28 322-357 126-153 (164)
53 PRK11032 hypothetical protein; 38.1 27 0.00059 31.2 2.6 37 313-356 115-151 (160)
54 PRK11181 23S rRNA (guanosine-2 37.4 1.3E+02 0.0027 28.8 7.3 70 291-406 3-76 (244)
55 COG1852 Uncharacterized conser 35.9 47 0.001 30.6 3.8 34 347-388 111-144 (209)
56 TIGR00186 rRNA_methyl_3 rRNA m 35.6 98 0.0021 29.3 6.2 69 291-407 2-72 (237)
57 PRK10124 putative UDP-glucose 34.7 5.6E+02 0.012 26.9 12.5 68 294-405 189-260 (463)
58 PRK14873 primosome assembly pr 33.9 40 0.00087 37.2 3.6 15 214-228 295-309 (665)
59 TIGR01206 lysW lysine biosynth 33.6 10 0.00022 27.5 -0.7 10 349-358 24-33 (54)
60 COG1675 TFA1 Transcription ini 33.0 34 0.00073 31.2 2.4 29 346-374 131-159 (176)
61 PF13248 zf-ribbon_3: zinc-rib 32.9 22 0.00047 21.5 0.8 22 325-356 4-25 (26)
62 TIGR03025 EPS_sugtrans exopoly 32.1 5.4E+02 0.012 26.6 11.6 67 293-402 173-242 (445)
63 PF09538 FYDLN_acid: Protein o 31.9 27 0.00058 29.2 1.4 27 324-358 10-37 (108)
64 PRK10864 putative methyltransf 31.6 1.1E+02 0.0024 31.0 6.0 71 290-407 108-182 (346)
65 PRK14715 DNA polymerase II lar 30.6 46 0.00099 39.2 3.4 42 297-358 656-697 (1627)
66 COG5622 Protein required for a 28.9 29 0.00063 29.9 1.2 63 188-258 70-132 (139)
67 TIGR00595 priA primosomal prot 28.8 1.1E+02 0.0024 32.6 5.8 41 347-388 253-295 (505)
68 PF13719 zinc_ribbon_5: zinc-r 28.2 39 0.00085 22.2 1.5 31 324-356 3-34 (37)
69 COG1212 KdsB CMP-2-keto-3-deox 28.0 85 0.0019 29.9 4.2 54 348-409 21-74 (247)
70 PRK08270 anaerobic ribonucleos 27.9 60 0.0013 35.8 3.7 38 307-361 616-653 (656)
71 PF01976 DUF116: Protein of un 27.2 64 0.0014 28.8 3.1 36 347-390 64-99 (158)
72 PRK12380 hydrogenase nickel in 26.6 42 0.00091 28.1 1.8 25 324-356 71-95 (113)
73 PF13240 zinc_ribbon_2: zinc-r 26.5 33 0.00073 20.2 0.8 10 347-356 13-22 (23)
74 TIGR02487 NrdD anaerobic ribon 26.0 67 0.0014 34.9 3.6 37 303-356 511-547 (579)
75 TIGR00354 polC DNA polymerase, 25.3 63 0.0014 36.8 3.2 48 321-378 1010-1063(1095)
76 COG1110 Reverse gyrase [DNA re 25.3 65 0.0014 37.1 3.3 58 323-392 694-751 (1187)
77 CHL00181 cbbX CbbX; Provisiona 25.0 3.9E+02 0.0085 26.1 8.5 86 214-305 163-249 (287)
78 PRK03681 hypA hydrogenase nick 24.7 49 0.0011 27.8 1.8 27 323-356 70-96 (114)
79 TIGR00100 hypA hydrogenase nic 24.6 49 0.0011 27.8 1.8 26 323-356 70-95 (115)
80 TIGR00354 polC DNA polymerase, 24.1 74 0.0016 36.3 3.5 39 297-356 607-646 (1095)
81 PRK00564 hypA hydrogenase nick 23.9 53 0.0012 27.7 1.9 26 324-356 72-97 (117)
82 cd00338 Ser_Recombinase Serine 23.1 1.7E+02 0.0037 24.3 5.0 52 294-385 52-103 (137)
83 COG5257 GCD11 Translation init 22.7 27 0.00059 34.9 -0.1 34 324-366 58-91 (415)
84 PF13717 zinc_ribbon_4: zinc-r 22.0 64 0.0014 21.1 1.6 31 324-356 3-34 (36)
85 COG2401 ABC-type ATPase fused 21.6 32 0.00069 35.8 0.1 28 323-360 130-157 (593)
86 PRK13130 H/ACA RNA-protein com 21.5 46 0.001 24.3 0.9 24 325-360 7-30 (56)
87 PRK09263 anaerobic ribonucleos 21.5 1.4E+02 0.0031 33.3 5.1 59 284-356 599-668 (711)
88 PRK14892 putative transcriptio 21.3 1.3E+02 0.0029 24.6 3.6 61 324-387 22-87 (99)
89 PRK04023 DNA polymerase II lar 21.3 86 0.0019 36.0 3.3 49 321-379 1035-1089(1121)
90 PRK14714 DNA polymerase II lar 21.2 83 0.0018 37.0 3.2 49 321-379 1251-1305(1337)
91 TIGR02300 FYDLN_acid conserved 20.8 62 0.0013 27.8 1.6 26 324-357 10-36 (129)
92 TIGR00300 conserved hypothetic 20.6 1.8E+02 0.004 29.8 5.2 38 180-223 176-213 (407)
93 PRK00420 hypothetical protein; 20.6 58 0.0013 27.4 1.4 29 325-360 25-53 (112)
94 COG2260 Predicted Zn-ribbon RN 20.4 45 0.00098 24.5 0.6 24 325-360 7-30 (59)
95 PRK11823 DNA repair protein Ra 20.3 55 0.0012 34.2 1.6 23 323-355 7-29 (446)
96 TIGR00416 sms DNA repair prote 20.2 60 0.0013 34.1 1.8 23 323-355 7-29 (454)
No 1
>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=1.1e-89 Score=695.15 Aligned_cols=393 Identities=36% Similarity=0.580 Sum_probs=373.8
Q ss_pred HHHHHHHHHHHHhcccCCCceeEEEEeCCCCcccccchhhhhhhcccccccccccchhhhhhHHHHHHhhcccCCCCCCe
Q 042367 12 EMWKMKKLIKTLSAVKGDGTSLISLVVNPRDKIPRVTKMLGEEYQNASKIKKRMNRQSVQAAITYAQSRLKLYKNVPSNG 91 (428)
Q Consensus 12 ~~~~~~~~l~~L~~~~g~~~~lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~~~~r~~v~~~i~v~~~~~~~~~~l~~~G 91 (428)
|+|++|++|++|++++|+||+|||+|||||++|+.++.++.+||++|+|||||.+|++|+.||+.+..+|+.|+++|+||
T Consensus 1 ~~~~~k~~~~~l~~~~g~gt~lisl~ipp~~~i~~v~~~l~~e~~~a~niks~~~r~~v~~ai~~~~~rlk~~~~~p~nG 80 (403)
T TIGR03676 1 EKYEFKKLLEELKKKKGRGTELISLYIPPDKQISDVVNQLRDEYSQAANIKSKQTRKNVQSAIESIMQRLKLYKKPPENG 80 (403)
T ss_pred CcchHHHHHHHHHhCcCCCceEEEEEeCCCCcHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHhccCCCCCCe
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEecccccCCCceeEEEEeecCCCceeeeeeccCCcccccE----------EEEEEEECCcEEEEEEeCCeEEEEEEE
Q 042367 92 LVLFTGTGVTEDGEEKKFAHDLVPFKPINSSLYVCDSSFHTEA----------YGYIIIDGNGTLIGTLCGSSREVVLKF 161 (428)
Q Consensus 92 ~v~~a~~~~~~~G~~~~htl~i~p~~~v~~~k~~~w~~~~le~----------~~vVvvd~g~A~i~~v~~~~~~~~~~i 161 (428)
+++||+.+...+|+++|||++++||.||++++|.||+.||++| |++|+||+++|.||++++++++.+.++
T Consensus 81 lv~f~g~~~~~~~~~~~~t~~iep~~pi~~~~y~cd~~f~lepL~e~l~~~~~~g~VvvD~~~A~i~~l~g~~~e~~~~i 160 (403)
T TIGR03676 81 LVLFAGMVPTGGGTEKMETYVIEPPEPINTYLYRCDSKFYLEPLEEMLEEKDVYGLIVLDRREATIGLLKGKRIEVLKEL 160 (403)
T ss_pred EEEEEeeecCCCCceeEEEEEEeCCCceEEEEecCCChHHHHHHHHHhcCCCCEEEEEEecCceEEEEEcCCEEEEEEEE
Confidence 9999999887678999999999999999999999999999999 999999999999999999999999999
Q ss_pred EecCCccCCCCCcchhhHhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCChhhhcce
Q 042367 162 TVDLPKKHGRGGQSALRFSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDPCLMAKI 241 (428)
Q Consensus 162 ~~~vp~K~~~gG~s~~Rf~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~~l~~~v 241 (428)
++++|+||++||||+.||+|++++.+++||++||+.+.++|++ .+..++++||||||+++|++|.+.++|++++++++
T Consensus 161 ~~~vp~K~~~GGqS~~Rf~R~~e~~~~~f~~~Vae~~~~~f~~--~~~~~v~~lILaGpg~~K~~f~~~~~L~~~l~~kv 238 (403)
T TIGR03676 161 TSGVPGKHRAGGQSARRFERLIEIAAHEFYKRVGEAANEAFLP--LKDKKLKGILIGGPGPTKEEFAEGDYLHHELKKKI 238 (403)
T ss_pred EeeCCCCccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhh--cccccccEEEEeCCHHHHHHHhhhhhhhHHHHhhE
Confidence 9999999999999999999999999999999999999999864 33347999999999999999997668999999998
Q ss_pred eEEEECCCCCCccHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCcccc
Q 042367 242 LKVLDISYGGVSGFNQAIELSSDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINR 321 (428)
Q Consensus 242 i~~v~~~~~~~~gl~Evl~~~~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~ 321 (428)
+.++++++++.+|++|+++++.++|++.++++|.++|++|++++++++|++|||+++|++|+++|||+||||+|++...|
T Consensus 239 i~~vd~s~~~~~Gl~Evl~~~~~~L~~~k~~~E~~lle~f~~el~~d~g~avyG~~eV~~ALe~GAVetLLV~d~l~~~r 318 (403)
T TIGR03676 239 LGLFDVSYTGESGLRELVEKAEDLLKDLELMKEKKLMERFFKELVKDGGLAAYGEEEVRKALEMGAVDTLLISEDLRKIR 318 (403)
T ss_pred EEEEecCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHHHHHhCCCcEEEEEcccccee
Confidence 89999999999999999999999999999999999999999999999899999999999999999999999999999999
Q ss_pred ceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcccccEE
Q 042367 322 YELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIG 401 (428)
Q Consensus 322 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIa 401 (428)
+.|+|++|+...+.++.|.+.... ..||.||+++.+.++++.+++|++.|+++||+|+|||++|++|.||+++|||||
T Consensus 319 ~~~rc~~c~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ve~L~e~a~~~Ga~V~~iS~~~eeG~ql~~~fGGIa 396 (403)
T TIGR03676 319 VTFKCPNCGYEEEKTVKPEEGDKS--EACPKCGSELEIVEEEDIIEELSELAEESGAKVEIISTDTEEGEQLLKAFGGIA 396 (403)
T ss_pred EEEEcCCCCcceeeeccccccccc--ccCcccCcccccchhhhHHHHHHHHHHHcCCEEEEECCCChhHHHHHHcCCcEE
Confidence 999999999888888877764322 579999999999889999999999999999999999999999999778999999
Q ss_pred EEecccC
Q 042367 402 GILRYQP 408 (428)
Q Consensus 402 AiLRf~i 408 (428)
||||||+
T Consensus 397 AiLRy~i 403 (403)
T TIGR03676 397 AILRYRV 403 (403)
T ss_pred EEEecCC
Confidence 9999996
No 2
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=100.00 E-value=2.7e-87 Score=680.21 Aligned_cols=397 Identities=36% Similarity=0.597 Sum_probs=370.8
Q ss_pred hHHHHHHHHHHHHHhcccCCCceeEEEEeCCCCcccccchhhhhhhcccccccccccchhhhhhHHHHHHhhcccCCCCC
Q 042367 10 NIEMWKMKKLIKTLSAVKGDGTSLISLVVNPRDKIPRVTKMLGEEYQNASKIKKRMNRQSVQAAITYAQSRLKLYKNVPS 89 (428)
Q Consensus 10 ~~~~~~~~~~l~~L~~~~g~~~~lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~~~~r~~v~~~i~v~~~~~~~~~~l~~ 89 (428)
+.++|++|+.|++|++++|+||+|||+||||||+|+.++..+.+|+++|+|||++.+|++|++||+++.++|+.|+++|+
T Consensus 3 ~~~~~~~k~~~~~l~~~~g~gt~lisl~ipp~~~i~~~~~~l~~e~~~a~niks~~~r~~v~~ai~~~~~~lk~~~~~p~ 82 (409)
T TIGR00108 3 SKNLYEFKRKLQELEKKRGRGTELISLYIPPDRQISDVAKHLREELSQASNIKSKQTRKNVLSAIEAILQRLKLFNKPPE 82 (409)
T ss_pred hHHHHHHHHHHHHHHhCcCCCceEEEEEeCCCCcHHHHHHHHHHHHhhhhcccccchhhhHHHHHHHHHHHhhccCCCCC
Confidence 46788889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CeEEEEecccccCCCceeEEEEeecCCCceeeeeeccCCcccccE----------EEEEEEECCcEEEEEEeCCeEEEEE
Q 042367 90 NGLVLFTGTGVTEDGEEKKFAHDLVPFKPINSSLYVCDSSFHTEA----------YGYIIIDGNGTLIGTLCGSSREVVL 159 (428)
Q Consensus 90 ~G~v~~a~~~~~~~G~~~~htl~i~p~~~v~~~k~~~w~~~~le~----------~~vVvvd~g~A~i~~v~~~~~~~~~ 159 (428)
+|+++||+......|++++||++++||.||++++|.||+.||++| |++|+||+++|.||++++++++++.
T Consensus 83 nglv~~~G~v~~~~~~~~~~t~~iep~~pi~~~~y~~d~~f~le~L~e~~~~~~~~g~VvvD~~~A~i~~l~g~~~~~~~ 162 (409)
T TIGR00108 83 NGLVIFCGMVPREGPTEKMETYVIEPPEPIKTYIYHCDSKFYLEPLSEMLEEKDKYGLIVLDRQEATIGLVKGKRITVLK 162 (409)
T ss_pred CcEEEEEeEeccCCCcccEEEEEEeCCCceEEEEEccCChhHHHHHHHHhcCCCCEEEEEEecCCEEEEEEcCCEEEEEE
Confidence 999999998765556679999999999999999999999999999 9999999999999999999999999
Q ss_pred EEEecCCccCCCCCcchhhHhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCChhhhc
Q 042367 160 KFTVDLPKKHGRGGQSALRFSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDPCLMA 239 (428)
Q Consensus 160 ~i~~~vp~K~~~gG~s~~Rf~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~~l~~ 239 (428)
.+++++|+||++||||+.||+|++++++++||++||+.+.++|++ .+..++++||||||+++|++|.++++|++++++
T Consensus 163 ~i~~~vp~K~~~GGqS~~Rf~r~~e~~~~~f~~~Vae~~~~~f~~--~~~~~v~~IIlaGpg~~K~~f~~~~~l~~~l~~ 240 (409)
T TIGR00108 163 KLTSGVPGKHKAGGQSARRFERLRELAAHEFLKKVGEVANEAFLP--NDDVKLKGIILGGPGHTKEEFAEGEYLHHELKK 240 (409)
T ss_pred EEeeeCCCcccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHhhh--cccccceEEEEeccHHHHHHhhhhhhHHHHhhh
Confidence 999999999999999999999999999999999999999999864 344589999999999999999977789999999
Q ss_pred ceeEEEECCCCCCccHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCcc
Q 042367 240 KILKVLDISYGGVSGFNQAIELSSDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLDI 319 (428)
Q Consensus 240 ~vi~~v~~~~~~~~gl~Evl~~~~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~ 319 (428)
+++.++++++++.+|++|+++++.++|++.++++|.++|++|++++++++|++|||+++|++||++|||+||||+|++..
T Consensus 241 kvi~~vdvs~gg~~gl~E~l~~~~~~L~~~k~~~E~~lle~F~~ei~~d~G~avyG~~eV~~ALe~GAVetLLV~d~l~~ 320 (409)
T TIGR00108 241 KVISTVDVSYTGEFGIRELIEKSADVLAEVDYMREKKLVQRFLKELIQEDGLACYGEDEVLKALDLGAVETLIVSEDLEY 320 (409)
T ss_pred hEEEEEEcCCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEeCHHHHHHHHHhCCCcEEEEeccccc
Confidence 98888999999999999999999999999999999999999999999988999999999999999999999999999998
Q ss_pred ccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhccccc
Q 042367 320 NRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGG 399 (428)
Q Consensus 320 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgG 399 (428)
.|+.|+|++|+.. .++.+.+.+......||.||+++.+.++++++++|++.|+++||+|+|||++|++|.||+++|||
T Consensus 321 ~r~~~r~~~~~~~--~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~L~e~a~~~Ga~V~iiS~~~eeG~ql~~~fGG 398 (409)
T TIGR00108 321 IRVTYKCAECGEV--IEKTVRELKDKKFAICPACGQEMDVVEERDLIEWLSELAENFGAKLEFISTESEEGAQLLTAFGG 398 (409)
T ss_pred eeEEEEcCCCCce--eecccccccccccccCcccCccccchhhhhHHHHHHHHHHHcCCEEEEECCCChhHHHHHHhCCC
Confidence 8889999999972 44444443333456899999999988999999999999999999999999999999997799999
Q ss_pred EEEEecccCCC
Q 042367 400 IGGILRYQPDM 410 (428)
Q Consensus 400 IaAiLRf~i~~ 410 (428)
||||||||+++
T Consensus 399 IaAiLRy~i~~ 409 (409)
T TIGR00108 399 IGAILRYKPNF 409 (409)
T ss_pred EEEEEecccCC
Confidence 99999999863
No 3
>PRK04011 peptide chain release factor 1; Provisional
Probab=100.00 E-value=5.6e-86 Score=670.93 Aligned_cols=397 Identities=35% Similarity=0.575 Sum_probs=376.2
Q ss_pred hhhHHHHHHHHHHHHHhcccCCCceeEEEEeCCCCcccccchhhhhhhcccccccccccchhhhhhHHHHHHhhcccCCC
Q 042367 8 DSNIEMWKMKKLIKTLSAVKGDGTSLISLVVNPRDKIPRVTKMLGEEYQNASKIKKRMNRQSVQAAITYAQSRLKLYKNV 87 (428)
Q Consensus 8 ~~~~~~~~~~~~l~~L~~~~g~~~~lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~~~~r~~v~~~i~v~~~~~~~~~~l 87 (428)
+.++++|+||++|++|++++|+||+|+|+||||++.+++++.++..||++|+|||+|.+|++|+.||+.+..+++.|..+
T Consensus 4 ~~~~~~~~~k~~~~~l~~~~g~~t~~iSlyip~~~~i~~~~~~l~~e~~~a~nik~~~~r~~v~~ai~~~~~rl~~~~~~ 83 (411)
T PRK04011 4 QSSKEKYEFKKLLEELKKKKGRGTELISLYIPPGRPISDVVNQLRQEYSQASNIKSKTTRKNVQSALESIIQRLKLYKKP 83 (411)
T ss_pred hhHHHHHHHHHHHHHHHhCcCCCceEEEEEECCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCC
Confidence 45899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEecccccCC-CceeEEEEeecCCCceeeeeeccCCcccccE----------EEEEEEECCcEEEEEEeCCeEE
Q 042367 88 PSNGLVLFTGTGVTED-GEEKKFAHDLVPFKPINSSLYVCDSSFHTEA----------YGYIIIDGNGTLIGTLCGSSRE 156 (428)
Q Consensus 88 ~~~G~v~~a~~~~~~~-G~~~~htl~i~p~~~v~~~k~~~w~~~~le~----------~~vVvvd~g~A~i~~v~~~~~~ 156 (428)
|.||+++||+.+...+ |++.+||++++||.||++++|.||+.||++| |++|+||+++|.|+++++++++
T Consensus 84 p~nGl~~f~g~~~~~~~~~~~~~t~~i~p~~~i~~~~y~~d~~f~le~L~e~~~~~~~~~~VvvD~~~A~i~~l~g~~~~ 163 (411)
T PRK04011 84 PENGLVIFCGAVPIGGPGTEDMETYVIEPPEPVPTFFYRCDSEFHTEPLEDMLEDKEVYGLIVVDRREATIGLLKGKRIE 163 (411)
T ss_pred CCCeEEEEEeecccCCCCCceEEEEEEcCCCccEEEEecCCcHHHHHHHHHHhcCCCCEEEEEEecCceEEEEEeCCEEE
Confidence 9999999999876544 6679999999999999999998899999998 9999999999999999999999
Q ss_pred EEEEEEecCCccCCCCCcchhhHhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCChh
Q 042367 157 VVLKFTVDLPKKHGRGGQSALRFSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDPC 236 (428)
Q Consensus 157 ~~~~i~~~vp~K~~~gG~s~~Rf~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~~ 236 (428)
++.++++++|+||++||||+.||+|++++.+++||++|++.+.++|.+ .++.++++||||||+++|++|.+.++|+++
T Consensus 164 ~~~~i~~~vp~K~~~GG~S~~Rf~r~~e~~~~~f~k~Vae~~~~~f~~--~~~~~v~~IvlaGpg~~K~~f~~~~~L~~~ 241 (411)
T PRK04011 164 VLKELTSFVPGKHRKGGQSARRFERLIEQAAHEFYKRVGEKANEAFLP--LLEGKLKGILIGGPGPTKEEFLEGDYLHYE 241 (411)
T ss_pred EEEEEEeeCCCCccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhh--hccccccEEEEECChhHHHHHhhhhhhhHH
Confidence 999999999999999999999999999999999999999999999864 335789999999999999999975689999
Q ss_pred hhcceeEEEECCCCCCccHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeecc
Q 042367 237 LMAKILKVLDISYGGVSGFNQAIELSSDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWED 316 (428)
Q Consensus 237 l~~~vi~~v~~~~~~~~gl~Evl~~~~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~ 316 (428)
++++++.++++++++.+|++|++++++++|++.++++|.++|++|++++++++|++|||+++|.+|+++|||+||||+|+
T Consensus 242 l~~~vv~~~~~s~~~~~Gl~E~l~~~~~~L~~~k~~~e~~lle~f~~~l~~d~g~avyG~~~V~~Ale~GAVetLLV~d~ 321 (411)
T PRK04011 242 LKKKILGLFDVSYTGESGLRELVDKASDLLKEQELVKEKKLMEEFFKELAKDGGLAVYGEEEVRKALEMGAVDTLLISED 321 (411)
T ss_pred HHhheEEEEecCCCCccCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHHHHHcCCceEEEEecc
Confidence 99998899999999999999999999999999999999999999999999988999999999999999999999999999
Q ss_pred CccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcc
Q 042367 317 LDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRG 396 (428)
Q Consensus 317 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~ 396 (428)
+...|+.|+|++|+...+.++.+.+. .....||.||++++..+.++.+++|++.|+++|++|+|||++|++|.||+++
T Consensus 322 l~~~r~~~~c~~c~~~~~~~~~~~~~--~~~~~c~~~~~~~~~~~~~~~v~~l~e~a~~~g~~v~iis~~~e~G~qL~~~ 399 (411)
T PRK04011 322 LRKDRVTYKCPNCGYEEEKTVKRREE--LPEKTCPKCGSELEIVEEEDIIEELSELAEQSGTKVEVISTDTEEGEQLLKA 399 (411)
T ss_pred ccceeEEEEcCCCCcceeeecccccc--cccccCcccCcccccchhhhHHHHHHHHHHHcCCEEEEECCCChhHHHHHHc
Confidence 99999999999999888888888763 3346899999999988889999999999999999999999999999997799
Q ss_pred cccEEEEecccC
Q 042367 397 FGGIGGILRYQP 408 (428)
Q Consensus 397 lgGIaAiLRf~i 408 (428)
|||||||||||+
T Consensus 400 fGGIaAiLRy~i 411 (411)
T PRK04011 400 FGGIAAILRYKT 411 (411)
T ss_pred CCCEEEEEecCC
Confidence 999999999996
No 4
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.6e-76 Score=580.43 Aligned_cols=396 Identities=37% Similarity=0.608 Sum_probs=372.2
Q ss_pred hhHHHHHHHHHHHHHhcccCCCceeEEEEeCCCCcccccchhhhhhhcccccccccccchhhhhhHHHHHHhhcccCCCC
Q 042367 9 SNIEMWKMKKLIKTLSAVKGDGTSLISLVVNPRDKIPRVTKMLGEEYQNASKIKKRMNRQSVQAAITYAQSRLKLYKNVP 88 (428)
Q Consensus 9 ~~~~~~~~~~~l~~L~~~~g~~~~lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~~~~r~~v~~~i~v~~~~~~~~~~l~ 88 (428)
...++|+||++|++|.+++|+||+++|+||||+.+++++.+++.++|++++||++|.+|++|+.+|+.+..+++.+.+.|
T Consensus 5 ~~~~~~e~Kk~l~~L~~~rg~gt~lislyIPp~~qisdv~~~lr~e~s~asniksk~tR~~V~~ai~~~~~rLk~~~~~P 84 (411)
T COG1503 5 SMHEMYELKKLLEELKKFRGRGTELISLYIPPDRQISDVVNRLRDEYSTASNIKSKVTRKNVLSAIESAMQRLKDYCKTP 84 (411)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCceEEEEecCCCCchHHHHHHHHhhccchhhhhhcCchHHHHhHHHHHHHHHHhcccCC
Confidence 37899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEEecccccCCCceeEEEEeecCCCceeeeeeccCCcccccE----------EEEEEEECCcEEEEEEeCCeEEEE
Q 042367 89 SNGLVLFTGTGVTEDGEEKKFAHDLVPFKPINSSLYVCDSSFHTEA----------YGYIIIDGNGTLIGTLCGSSREVV 158 (428)
Q Consensus 89 ~~G~v~~a~~~~~~~G~~~~htl~i~p~~~v~~~k~~~w~~~~le~----------~~vVvvd~g~A~i~~v~~~~~~~~ 158 (428)
.||+++|++.+....|++...+..++||.|++.+.|.|+++||++| |+++++|++++.++++.|..++++
T Consensus 85 ~nGlv~f~g~v~~~~~~t~~~~~~~~PP~Pi~~~ly~cDs~F~~e~L~~~l~~~~~ygliv~dr~ea~ig~l~g~r~evl 164 (411)
T COG1503 85 ENGLVLFVGDVLGGGGKTKKVTVVIEPPEPINTFLYRCDSKFYLEPLEEMLEDKDLYGLIVLDRIEATIGLLKGKRIEVL 164 (411)
T ss_pred CCCeEEEEeeeccCCCccceeeecccCCCCcceeeeccccHHHHHHHHHHhhhcccccEEEEecccceeeeeccceeeHh
Confidence 9999999999986556778899999999999999999999999999 999999999999999999999999
Q ss_pred EEEEecCCccCCCCCcchhhHhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCChhhh
Q 042367 159 LKFTVDLPKKHGRGGQSALRFSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDPCLM 238 (428)
Q Consensus 159 ~~i~~~vp~K~~~gG~s~~Rf~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~~l~ 238 (428)
..+++.+|+||++||||+.||+|.+++..+.||++|++.+.++|++ ....++++|+|+||+.+|++|.+.++|+++|+
T Consensus 165 ~~~~s~vpgKh~~Ggqsa~rferl~ee~~h~f~k~vge~A~e~f~~--~~~~~~kgIilgGp~~tk~ef~e~~yL~~~lk 242 (411)
T COG1503 165 KELTSDVPGKHRAGGQSARRFERLIEEAAHEFYKKVGEAASEAFLP--IAKKELKGIILGGPGPTKEEFVEGDYLHHELK 242 (411)
T ss_pred hhhcccCcchhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--hhhhhhcceEeeCCcccchhhhcccccchHHH
Confidence 9999999999999999999999999999999999999999999975 22236889999999999999999899999999
Q ss_pred cceeEEEECCCCCCccHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCc
Q 042367 239 AKILKVLDISYGGVSGFNQAIELSSDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLD 318 (428)
Q Consensus 239 ~~vi~~v~~~~~~~~gl~Evl~~~~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~ 318 (428)
++++++++++|+++.|++|++.++.++|++.++.+|+++|++|++.+.+++|+++||.++|.+||++|||++|||++++.
T Consensus 243 ~kv~~lvDv~y~~esg~~eli~~A~d~L~~~~~~~eK~l~e~f~~e~~~~~Gla~yG~~~vr~aL~~gaVd~llv~Edl~ 322 (411)
T COG1503 243 KKVLGLVDVSYTGESGLRELIEKAEDALKDVDYVREKKLMEEFFKELAKDSGLAVYGEEEVREALEMGAVDTLLVSEDLE 322 (411)
T ss_pred HHHHhhccccccccccHHHHHHHhHHHHHhhhhhcchhHHHHHHHHhccCcceeecchHHHHHHHHhcccceEEeecccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcccc
Q 042367 319 INRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFG 398 (428)
Q Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lg 398 (428)
..|+.+.|+.|+..-.+...+. +...+.||.||.+|.++.+.++++++.+.|++.|++|+|||+++++|.||++.||
T Consensus 323 ~~r~~~~c~~~~~e~~~t~~~~---~~~~~~~~~~~~e~~~v~~~d~vd~l~e~a~~~Ga~ve~is~~~~eg~q~~~afg 399 (411)
T COG1503 323 KERVTYKCPTCGYENLKSKREF---EQKRFRCPECGSEMEEVEVSDLVDELAELAEESGAKVEIISDDTDEGAQLLKAFG 399 (411)
T ss_pred ccceeecCCCcchhhhhccccc---ccccccCccccccccchhhhhHHHHHHHHHHhcCCeEEEecCchHHHHHHHHccc
Confidence 9999999999996321111111 1124589999999999999999999999999999999999999999999999999
Q ss_pred cEEEEecccCC
Q 042367 399 GIGGILRYQPD 409 (428)
Q Consensus 399 GIaAiLRf~i~ 409 (428)
||||||||+++
T Consensus 400 Gi~AiLR~~~~ 410 (411)
T COG1503 400 GLAAILRYRTD 410 (411)
T ss_pred chheeeecccC
Confidence 99999999986
No 5
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.9e-75 Score=545.13 Aligned_cols=409 Identities=63% Similarity=1.036 Sum_probs=393.2
Q ss_pred cchhhHHHHHHHHHHHHHhcccCCCceeEEEEeCCCCcccccchhhhhhhcccccccccccchhhhhhHHHHHHhhcccC
Q 042367 6 ETDSNIEMWKMKKLIKTLSAVKGDGTSLISLVVNPRDKIPRVTKMLGEEYQNASKIKKRMNRQSVQAAITYAQSRLKLYK 85 (428)
Q Consensus 6 ~~~~~~~~~~~~~~l~~L~~~~g~~~~lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~~~~r~~v~~~i~v~~~~~~~~~ 85 (428)
++++.+|+|++|++|+.|..+||+||++||++|||.|.|+.++.++.+||.+++|||++.+|.+|..+|..+..+++.|+
T Consensus 3 ~~~~nveiwkikklik~le~argngtsmisliippkdqisr~skmLadeygtasnikSrVnRlsvl~AitSaq~rLklyn 82 (431)
T KOG0688|consen 3 EADKNVEIWKIKKLIKSLEDARGNGTSMISLIIPPKDQISRVSKMLADEYGTASNIKSRVNRLSVLGAITSAQSRLKLYN 82 (431)
T ss_pred chhhhhHHHHHHHHHHHHHHhcCCCceeEEEEeCchHHHHHHHHHHHHhhhhhhhhhhhhcchhhhhhhhhhhhhhHHhc
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEecccccCCCceeEEEEeecCCCceeeeeeccCCcccccE----------EEEEEEECCcEEEEEEeCCeE
Q 042367 86 NVPSNGLVLFTGTGVTEDGEEKKFAHDLVPFKPINSSLYVCDSSFHTEA----------YGYIIIDGNGTLIGTLCGSSR 155 (428)
Q Consensus 86 ~l~~~G~v~~a~~~~~~~G~~~~htl~i~p~~~v~~~k~~~w~~~~le~----------~~vVvvd~g~A~i~~v~~~~~ 155 (428)
++|++|++++|++++..+|+++..+++++|..||....|.|++.||+++ +|++++|..++.|+++.|+..
T Consensus 83 kvPpnglvly~gti~tedgkekkv~idfepfkpintslyLcdNkfhte~l~~Ll~sd~kfgfivmDg~~tlfgtl~gntr 162 (431)
T KOG0688|consen 83 KVPPNGLVLYTGTIVTEDGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALKELLESDNKFGFIVMDGNGTLFGTLQGNTR 162 (431)
T ss_pred cCCCCceEEEeeeeEccCCceeeeecccccccccccceEecCCccchHHHHHHHhhcccccEEEEcCCceeEEEeccchH
Confidence 9999999999999998899999999999999999999999999999998 999999999999999999999
Q ss_pred EEEEEEEecCCccCCCCCcchhhHhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCCh
Q 042367 156 EVVLKFTVDLPKKHGRGGQSALRFSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDP 235 (428)
Q Consensus 156 ~~~~~i~~~vp~K~~~gG~s~~Rf~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~ 235 (428)
+++.+++.++|+||+.||||+.||.|+|.+..+.|.+.+|+.+.+.|++ .+..++.+||+||...+|.++.+++.+++
T Consensus 163 evLhkftVdlPkkhgrggqSalrfarlR~ekRhnYVrkvae~a~q~fi~--~~~~Nv~gLilaGsadfKtelsqSd~fd~ 240 (431)
T KOG0688|consen 163 EVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAELAVQRFIT--NDKPNVAGLILAGSADFKTELSQSDMFDP 240 (431)
T ss_pred hhhheeeecCccccCccchhHHhhhhhhhhhhccceeeecccceeEEec--CCCcceeEEEEecccccccccchhhhcch
Confidence 9999999999999999999999999999999999999999999999997 67889999999999999999999999999
Q ss_pred hhhcceeEEEECCCCCCccHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeec
Q 042367 236 CLMAKILKVLDISYGGVSGFNQAIELSSDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWE 315 (428)
Q Consensus 236 ~l~~~vi~~v~~~~~~~~gl~Evl~~~~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d 315 (428)
+|+.+++.+++++|||+.|++++++.+.++|++.++.+|++++.+|++++..+.|+.|||+++++.||++|||+||+|++
T Consensus 241 rlqskvi~~vdvsyGGengfnQaIeL~aevlsnvk~vqekkli~~yfdEisqdtgky~Fgv~dTl~aLe~gavetli~~e 320 (431)
T KOG0688|consen 241 RLQSKVLKTVDVSYGGENGFNQAIELSAEVLSNVKFVQEKKLIGKYFDEISQDTGKYCFGVEDTLLALEMGAVETLIVWE 320 (431)
T ss_pred HHhhhHHhhhcccccchhhHHHHHHHHHhhhhcceeeehhhHHHHHhhhhhcccCcccccHHHHHHHHHcCCeeehhHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhc
Q 042367 316 DLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCR 395 (428)
Q Consensus 316 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~ 395 (428)
.+...|+.+.|.+ +...+.++.|++...++.+....-|-+|+++++..+++|+.++.+.+||-++||++.+.+|.||++
T Consensus 321 nLd~~ry~~kn~~-~~~~i~~l~~~~e~d~s~~~Dketg~e~elie~~pLlEw~AnnYK~FGa~LE~VTdKSqEgsQFv~ 399 (431)
T KOG0688|consen 321 NLDIIRYELKNSD-GESVIGFLVPDEEKDKSHFTDKETGWEMELIERMPLLEWFANNYKKFGATLEIVTDKSQEGSQFVK 399 (431)
T ss_pred hhhhhhhhhcccC-CccceeeecchhhcccccccccccchhhhHHhhhhHHHHHHHHHhhcCeEEEEecccchhHHHHHh
Confidence 9999999988887 556788898888766666677788999999999999999999999999999999999999999999
Q ss_pred ccccEEEEecccCCCCCccCCC
Q 042367 396 GFGGIGGILRYQPDMGSFDEGS 417 (428)
Q Consensus 396 ~lgGIaAiLRf~i~~~~~~~~~ 417 (428)
+|||||+||||+++++.++.++
T Consensus 400 GfGgiGgiLrY~vd~~~~~~~~ 421 (431)
T KOG0688|consen 400 GFGGIGGILRYRVDFQGIEYQE 421 (431)
T ss_pred hcCCcceeEEEEeeeecccccc
Confidence 9999999999999998888877
No 6
>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=4.6e-59 Score=466.04 Aligned_cols=305 Identities=21% Similarity=0.315 Sum_probs=269.4
Q ss_pred eEEEEeCCCCcccccchhhhhhhcccccccc-cccchhhhhhHHHHHHhhccc-CCCCCCeEEEEec-ccccCCCceeEE
Q 042367 33 LISLVVNPRDKIPRVTKMLGEEYQNASKIKK-RMNRQSVQAAITYAQSRLKLY-KNVPSNGLVLFTG-TGVTEDGEEKKF 109 (428)
Q Consensus 33 lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~-~~~r~~v~~~i~v~~~~~~~~-~~l~~~G~v~~a~-~~~~~~G~~~~h 109 (428)
.+|++|.+||.|.+.|.|+++.. +.+.+ + +|+++.++|+|+..+|+++ +++|++|+++.++ .++ +.| +||
T Consensus 27 ~l~nli~~GD~V~~~T~Rkv~~~---~~~g~~~-er~~~~l~i~Ve~ief~~~~~~Lri~G~i~~~~e~~v-~~G--~~H 99 (351)
T TIGR00111 27 HLYQIIEKGDVEFAFTKRRTQDL---DKIRSDK-SKDTVKLGIEVESVEFDMKTERLRYKGVIVTGPEDDV-PVG--SYH 99 (351)
T ss_pred HHHHhCCCCCEEEEEEEEEEecc---ccCCCcc-eEEEEEEEEEEEEEEecCCCCEEEEEEEEecCCcccc-ccc--ceE
Confidence 46788999999999999986432 22233 5 9999999999999999998 9999999999987 444 568 999
Q ss_pred EEeecCCCceeeeeeccCCcccccE------------EEEEEEECCcEEEEEEeCCeEEEEEEEEecCCccCCCCCcchh
Q 042367 110 AHDLVPFKPINSSLYVCDSSFHTEA------------YGYIIIDGNGTLIGTLCGSSREVVLKFTVDLPKKHGRGGQSAL 177 (428)
Q Consensus 110 tl~i~p~~~v~~~k~~~w~~~~le~------------~~vVvvd~g~A~i~~v~~~~~~~~~~i~~~vp~K~~~gG~s~~ 177 (428)
|++|+||+||+++|+ +|++|++++ +++|++|+|+|.||++++++++++.++++++|+||+ +
T Consensus 100 Tl~ie~~~~i~i~K~-~w~~~~le~L~ea~~~~~~~~~~~vv~d~g~A~i~ll~~~~~~~~~~i~~~iP~K~~-~----- 172 (351)
T TIGR00111 100 TLEIKYVYPLSIIKQ-NWKKWQLKRLREAVEISKRPKTAAVVMEEGIAHVGLVRQYSVEEIQKIEYHMPGKKR-T----- 172 (351)
T ss_pred EEEEcCCCcEEEEEe-cCCHHHHHHHHHHhccccCCcEEEEEEeCCcEEEEEEcCCEEEEEEEEEEeCCCCcc-c-----
Confidence 999999999999998 899999988 999999999999999999999999999999999974 1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCChhh---hcceeEEEECCCCCCcc
Q 042367 178 RFSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDPCL---MAKILKVLDISYGGVSG 254 (428)
Q Consensus 178 Rf~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~~l---~~~vi~~v~~~~~~~~g 254 (428)
+.++++.++||++|++++.+ +.++++||||||||+|++|+++ +..++ ..+. .+.++|+++.+|
T Consensus 173 ---~~~e~~~~~Ff~~v~~~l~~--------~~~v~~iIiaGPGf~k~~f~~~--l~~~~~~~~~k~-ii~~~s~g~~~g 238 (351)
T TIGR00111 173 ---LKFGELRKEFYKEIAKKLLN--------FDDLKTIIVAGPGFYKNDFYDF--IFERYPEEANKA-VLENCSTGGRAG 238 (351)
T ss_pred ---chhHHHHHHHHHHHHHHHhh--------hcccCEEEEECCHHHHHHHHHH--HHHHhhhhhCCc-EEEecCCCchhH
Confidence 33677889999999999854 3579999999999999999966 33332 2232 346899999999
Q ss_pred HHHHHHhH--HHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCce
Q 042367 255 FNQAIELS--SDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGI 332 (428)
Q Consensus 255 l~Evl~~~--~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~ 332 (428)
++|+++++ +++|+++++++|.++|++|+++++++++++|||+++|.+|+++|||+||||+|+++..
T Consensus 239 l~EvL~~~~v~~~l~d~k~~~E~~~l~~f~~~l~kd~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~------------ 306 (351)
T TIGR00111 239 INEVLKRGLVARILQETRYAKEIMVIDEFLEHLAKDGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQ------------ 306 (351)
T ss_pred HHHHHhChHHHHHHhhhhHHHHHHHHHHHHHHHhcCCCeEEECHHHHHHHHHcCCceEEEEecchhhh------------
Confidence 99999997 9999999999999999999999999999999999999999999999999999999511
Q ss_pred EEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcccccEEEEecccC
Q 042367 333 VIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGILRYQP 408 (428)
Q Consensus 333 ~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiLRf~i 408 (428)
+++ +++|++.|+++|++|.|||++|++|+| |++||||||||||||
T Consensus 307 -----------------------------r~~-~~~l~~~v~~~gg~V~i~Ss~~e~G~q-L~~lgGiaAiLRy~i 351 (351)
T TIGR00111 307 -----------------------------REE-IEKLLDSVESMGGKVVILSTEHELGKQ-LDSLGGIAGILRFPI 351 (351)
T ss_pred -----------------------------HHH-HHHHHHHHHHcCCEEEEEcCCCccHHH-HhhCCCEEEEEeccC
Confidence 233 667999999999999999999999999 899999999999996
No 7
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=100.00 E-value=3.7e-55 Score=423.43 Aligned_cols=309 Identities=20% Similarity=0.324 Sum_probs=272.5
Q ss_pred eEEEEeCCCCcccccchhhhhhhcccccccc-cccchhhhhhHHHHHHhhccc-CCCCCCeEEEEecccccCCCceeEEE
Q 042367 33 LISLVVNPRDKIPRVTKMLGEEYQNASKIKK-RMNRQSVQAAITYAQSRLKLY-KNVPSNGLVLFTGTGVTEDGEEKKFA 110 (428)
Q Consensus 33 lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~-~~~r~~v~~~i~v~~~~~~~~-~~l~~~G~v~~a~~~~~~~G~~~~ht 110 (428)
+||++|.+||.|.+.|.|+ .+ .++.+++ +.+|.+|+++|+++..+|+.| ++||++|.++.++..+. .| +|||
T Consensus 25 ~L~~Ii~~GD~v~a~T~Rr-~~--~~d~~r~~~~eri~m~L~IkVe~ieF~~f~nrLRi~G~i~~~~e~~~-~G--~yHT 98 (352)
T COG1537 25 HLYNIIEKGDKVFAKTTRR-DE--SSDVIRSKKGERIPMTLGIKVEKIEFDKFANRLRIKGPIVEGPEEVV-KG--SYHT 98 (352)
T ss_pred HHHHhcCCCCEEEEEEEEe-cc--cccccccCcceEEEEEEEEEEEEEEeeecccEEEEEEEEEEcCcccc-cc--cceE
Confidence 5789999999999999997 22 3444555 569999999999999999999 99999999999998764 57 9999
Q ss_pred EeecCCCceeeeeeccCCcccccE------------EEEEEEECCcEEEEEEeCCeEEEEEEEEecCCccCCCCCcchhh
Q 042367 111 HDLVPFKPINSSLYVCDSSFHTEA------------YGYIIIDGNGTLIGTLCGSSREVVLKFTVDLPKKHGRGGQSALR 178 (428)
Q Consensus 111 l~i~p~~~v~~~k~~~w~~~~le~------------~~vVvvd~g~A~i~~v~~~~~~~~~~i~~~vp~K~~~gG~s~~R 178 (428)
++|+++.++++.|. .|+++++++ +++|++|.+.|.||+++++++..+.+++...|+|.. +. +
T Consensus 99 i~v~~g~~i~I~K~-~W~~~~lerLkeA~~~~~~~~~~~v~~degea~i~iv~~ygi~~~~~i~~~~~gK~~-~~-~--- 172 (352)
T COG1537 99 INVTIGTEIEIEKE-EWNKDQLERLKEAVEASKRPEVAIVVVDEGEAAIAIVRDYGIIILGKIRSGIPGKRE-GD-I--- 172 (352)
T ss_pred EEeccCceEEEEEc-cCCHHHHHHHHHHhhcccCCceEEEEEecCceEEEEEeccceEEEEEEeccCCCCcc-cc-h---
Confidence 99999999999996 699999887 999999999999999999999999999999998843 21 1
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCC---hhhhcceeEEEECCCCCCccH
Q 042367 179 FSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFD---PCLMAKILKVLDISYGGVSGF 255 (428)
Q Consensus 179 f~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~---~~l~~~vi~~v~~~~~~~~gl 255 (428)
+.+ .+||..+++.+.+.+ +++.||||||||+|+.|+++ +. +.+.. +.+.++|+++.+|+
T Consensus 173 ----~~~--~k~~~~i~~~~~~~~--------~~~~iIvaGPGF~k~~~~~~--~~~~~p~~~~--~~~~~~s~~g~~gi 234 (352)
T COG1537 173 ----RAE--RKFFDEIAKALKEYA--------NLDIIIVAGPGFAKEDFYDF--LRERYPELAN--IVIEDTSTGGRAGI 234 (352)
T ss_pred ----hhH--HHHHHHHHHHHHHhh--------CCCeEEEeCCchHHHHHHHH--HHHhcccccc--eEEEeccCcchHHH
Confidence 122 799999999999873 68999999999999999966 32 23343 47889999999999
Q ss_pred HHHHHhH--HHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceE
Q 042367 256 NQAIELS--SDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIV 333 (428)
Q Consensus 256 ~Evl~~~--~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~ 333 (428)
+|+|+++ ..++++.+.++|.++|++|++.++++++++|||+++|.+|+++|||++|||+|++. +.++..
T Consensus 235 ~EvLkr~~v~ki~~e~ria~e~~~~e~fl~~iak~~~~v~YG~~eV~~A~e~GAve~LLv~De~l------r~~~~~--- 305 (352)
T COG1537 235 NEVLKRGAVDKILSETRIAEEIELVEEFLERLAKDDDKVAYGLEEVEKAAEYGAVETLLVTDELL------RSDDVE--- 305 (352)
T ss_pred HHHHhhhhHHhHhhhhHHHHHHHHHHHHHHHHhcCCCceeEcHHHHHHHHhcCcceeEEeehhhh------cccchh---
Confidence 9999997 89999999999999999999999998899999999999999999999999999997 544321
Q ss_pred EEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcccccEEEEecccCC
Q 042367 334 IKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGILRYQPD 409 (428)
Q Consensus 334 ~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiLRf~i~ 409 (428)
.+++ ++.|++.++++||+|.|||+.|++|+| |++|||||||||||++
T Consensus 306 ---------------------------~re~-~~~ll~~ve~~ggkV~Ivs~~he~Ge~-Lk~lGGiaaILRf~v~ 352 (352)
T COG1537 306 ---------------------------ERED-VEELLEEVESMGGKVVIVSTEHEPGER-LKALGGIAAILRFPVP 352 (352)
T ss_pred ---------------------------hHHH-HHHHHHHHHHcCCeEEEEecCCcchHH-HHhccCeEEEEEecCC
Confidence 1334 667999999999999999999999999 9999999999999985
No 8
>KOG2869 consensus Meiotic cell division protein Pelota/DOM34 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.8e-54 Score=405.77 Aligned_cols=321 Identities=18% Similarity=0.185 Sum_probs=284.5
Q ss_pred eEEEEeCCCCcccccchhhhhhhcccccccccccchhhhhhHHHHHHhhccc-CCCCCCeEEEEecccccCCCceeEEEE
Q 042367 33 LISLVVNPRDKIPRVTKMLGEEYQNASKIKKRMNRQSVQAAITYAQSRLKLY-KNVPSNGLVLFTGTGVTEDGEEKKFAH 111 (428)
Q Consensus 33 lls~~i~~gd~v~~~t~r~~~e~~~~~~ik~~~~r~~v~~~i~v~~~~~~~~-~~l~~~G~v~~a~~~~~~~G~~~~htl 111 (428)
.+|++|.+||.+.+.|.|+++.. ++ ..+.++.|..+.+.|.++..+|+.- ..++..|+++..|+++ +.| .|||+
T Consensus 28 ~~ynli~~gD~v~a~T~rkvq~e-~a-~G~~~s~rv~~~L~i~VesidfD~~~~~L~~KGrti~eNe~V-k~G--aYHTi 102 (379)
T KOG2869|consen 28 HLYNLIQVGDSVIASTIRKVQKE-EA-TGKTKSSRVLLKLKIKVESIDFDTKACVLRLKGRTIEENEYV-KMG--AYHTI 102 (379)
T ss_pred HHHhhccCCceeEEEEEEEeeec-cc-cCcccceEEEEEEEEEEEEeeccccccEEEEeeeeeeecccc-ccc--ceeEE
Confidence 46899999999999999996432 11 1234578999999999999999987 8899999999999998 479 99999
Q ss_pred eecCCCceeeeeeccCCcccccE------------EEEEEEECCcEEEEEEeCCeEEEEEEEEecCCccCCCCCcchhhH
Q 042367 112 DLVPFKPINSSLYVCDSSFHTEA------------YGYIIIDGNGTLIGTLCGSSREVVLKFTVDLPKKHGRGGQSALRF 179 (428)
Q Consensus 112 ~i~p~~~v~~~k~~~w~~~~le~------------~~vVvvd~g~A~i~~v~~~~~~~~~~i~~~vp~K~~~gG~s~~Rf 179 (428)
+++|++||++.|. .|+.+.+++ +++|++++|-|.||+++.+.+...++|+..+|+|+ +|+.|+
T Consensus 103 dlel~r~FtL~K~-ewds~al~~l~~A~dp~~~ad~aaVvlqEGla~IcLvt~s~tilr~kIe~siPrKr-~~~~s~--- 177 (379)
T KOG2869|consen 103 DLELNRPFTLRKE-EWDSMALKLLKEACDPAPSADVAAVVLQEGLAHICLVTKSSTILRAKIEVSIPRKR-KGDVSQ--- 177 (379)
T ss_pred EeccCCceEEEhh-hchHHHHHHHHHhhCcccccceeeeehhcCceeEEEechhHHHHHHhhhccccccc-CcchhH---
Confidence 9999999999998 999998776 99999999999999999999988899999999994 455666
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCC-----CC----hhhhcceeEEEECCCC
Q 042367 180 SRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGM-----FD----PCLMAKILKVLDISYG 250 (428)
Q Consensus 180 ~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~-----l~----~~l~~~vi~~v~~~~~ 250 (428)
.++..++||+.|..++.++ +++..++++|||+|||.++.|+.+.. ++ -..+.|+ ..++.|+|
T Consensus 178 ---~e~~l~kfye~V~qA~~k~-----v~fd~vk~~vvASpgF~~~~~~d~~~q~A~~~~~k~il~nk~kf-~~~h~ssg 248 (379)
T KOG2869|consen 178 ---HEEGLEKFYENVVQAILKH-----VNFDVVKCVVVASPGFVKDQFMDYLFQQAVKLDLKLILENKSKF-PLVHASSG 248 (379)
T ss_pred ---HHHHHHHHHHHHHHHHHHh-----cCcceEEEEEEcCCchhHHHHHHHHHHHHHHhchhhhhhcccce-eEEecCCc
Confidence 7999999999999999999 57999999999999999999996521 11 1224455 67899999
Q ss_pred CCccHHHHHHhH--HHHHHHHHHHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCC
Q 042367 251 GVSGFNQAIELS--SDVIANVNVLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSV 328 (428)
Q Consensus 251 ~~~gl~Evl~~~--~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~ 328 (428)
..++++|+|..+ ...|++++++.|.++|++|+..+.++|.+||||+++|.+|.+.|||+||||+|+++ |+.|
T Consensus 249 ~~hslnevL~dp~v~~~l~dtK~~~EvkalddF~~~l~~~~drA~yG~khV~~A~e~~AI~tLLitD~lf------r~~D 322 (379)
T KOG2869|consen 249 YKHSLNEVLKDPAVASKLQDTKAAKEVKALDDFYVMLSKDPDRACYGPKHVEKANEYGAIETLLITDELF------RSQD 322 (379)
T ss_pred hHHHHHHHhcChHHHHHhhchhhHHHHHHHHHHHHHhccCccccccCHHHHHHHHhhcchhheehhhhhc------cccc
Confidence 999999999998 89999999999999999999999999999999999999999999999999999998 7775
Q ss_pred CCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcccccEEEEecccC
Q 042367 329 TNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGILRYQP 408 (428)
Q Consensus 329 ~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiLRf~i 408 (428)
.. .|+.++. |++.++..|++|.|||+.|.+|+| |.+++|||||||||+
T Consensus 323 V~------------------------------tRkkyv~-lvesVk~~~gkv~Ifss~H~SGEq-L~qltGiaAiLrfp~ 370 (379)
T KOG2869|consen 323 VA------------------------------TRKKYVR-LVESVKENNGKVFIFSSLHVSGEQ-LAQLTGIAAILRFPL 370 (379)
T ss_pred HH------------------------------HHHHHHH-HHHHHHhcCCcEEEEehhhccHHH-HHhhcCeeEEEecCC
Confidence 33 2556565 999999999999999999999999 999999999999999
Q ss_pred CC
Q 042367 409 DM 410 (428)
Q Consensus 409 ~~ 410 (428)
|.
T Consensus 371 pe 372 (379)
T KOG2869|consen 371 PE 372 (379)
T ss_pred Cc
Confidence 95
No 9
>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=99.96 E-value=4.6e-29 Score=210.41 Aligned_cols=113 Identities=39% Similarity=0.661 Sum_probs=97.1
Q ss_pred HHHHHHHHHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCC
Q 042367 271 VLKEKRVIGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKD 350 (428)
Q Consensus 271 ~~~e~~ll~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c 350 (428)
+++|+++|++|++++.+++++++||+++|.+|+++|||+||||+|++...+...+|+ |
T Consensus 1 ~~~E~~~ve~f~~~l~k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~----------------------~ 58 (113)
T PF03465_consen 1 IIKEKKLVEEFFEELAKDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCK----------------------C 58 (113)
T ss_dssp HHHHHHHHHHHHHHHHTTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHH----------------------S
T ss_pred CHHHHHHHHHHHHHHhhCCCcEEECHHHHHHHHHhCCCcEEEEecccccccceeccc----------------------c
Confidence 368999999999999999999999999999999999999999999998655332332 4
Q ss_pred ccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcccccEEEEecccC
Q 042367 351 SAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGILRYQP 408 (428)
Q Consensus 351 ~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiLRf~i 408 (428)
|.||+++..++ ++++|++.|+++|++|+|||++|++|+||+++||||||||||||
T Consensus 59 ~~~~~~~~~~~---~i~~l~~~a~~~g~~v~iis~~~e~G~~L~~~~gGIaaiLRy~i 113 (113)
T PF03465_consen 59 PECGGELEVVE---LIEELIELAEQSGAKVEIISSEHEEGEQLLKGFGGIAAILRYPI 113 (113)
T ss_dssp TTTHSEEEEEE---HHHHHHHHHHHTTSEEEEE-TTSHHHHHHHHCTTTEEEEESS--
T ss_pred ccccchhhhHH---HHHHHHHHHHHcCCEEEEEcCCCccHHHHHhcCCcEEEEEeccC
Confidence 67888876555 89999999999999999999999999995599999999999996
No 10
>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=99.90 E-value=1.6e-23 Score=182.16 Aligned_cols=129 Identities=29% Similarity=0.451 Sum_probs=113.9
Q ss_pred EEEEEEECCcEEEEEEeCCeEEEEEEEEecCCccCCCCCcchhhHhHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcce
Q 042367 135 YGYIIIDGNGTLIGTLCGSSREVVLKFTVDLPKKHGRGGQSALRFSRLRVEKRHNYLREAAELATKCFIDPATSQPNVTG 214 (428)
Q Consensus 135 ~~vVvvd~g~A~i~~v~~~~~~~~~~i~~~vp~K~~~gG~s~~Rf~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~ 214 (428)
|++|+||.|+|.||++++++++++.+++.++|+||..||||+.||+ |++..++||++|++.+.++|+ .++.++++
T Consensus 2 v~~v~id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~Gg~s~~rf~--r~~~~~~f~~~i~~~l~~~f~---~~~~~~~~ 76 (133)
T PF03464_consen 2 VGIVVIDEGEANICLLRGYGTEILQRIESNIPGKHKKGGQSQRRFE--REKALEKFFKEIAEALKKYFL---VNFDDVKC 76 (133)
T ss_dssp EEEEEEETTEEEEEEEETTEEEEEEEEE-GHCCCSSTTCSHHHHHH--HHHHHHHHHHHHHHHHHHHCC---CHTTTCSE
T ss_pred EEEEEEeCCCEEEEEEcCCEEEEEEEEEecCCCccCCCCcchhhHH--HHHHHHHHHHHHHHHHHHHhh---hccccccE
Confidence 6899999999999999999999999999999999999999999999 899999999999999999975 35789999
Q ss_pred EEEecChhhHHHHhhcCCCChhhhc-ceeEEEECCCCCCccHHHHHHhH--HHHHHH
Q 042367 215 LILAGSAEFKTELSQSGMFDPCLMA-KILKVLDISYGGVSGFNQAIELS--SDVIAN 268 (428)
Q Consensus 215 iVlaGpg~~k~~f~~~~~l~~~l~~-~vi~~v~~~~~~~~gl~Evl~~~--~~~l~~ 268 (428)
||||||||+|++|+++.......++ +.+.++++|+++.+|++|+|+++ +++|+|
T Consensus 77 iIiaGPGf~k~~f~~~l~~~~~~~~~~~i~~~~~s~~~~~gl~Evl~~~~v~~~l~d 133 (133)
T PF03464_consen 77 IIIAGPGFTKEEFYKYLKAEARRKDKKKIVVVDTSSGGESGLNEVLKRPEVQKILKD 133 (133)
T ss_dssp EEEEESTTHHHHHHHHHHHHHHHHTCCEEEEEE-SSSCHHHHHHHHHSHHHHHHHCT
T ss_pred EEEECCHHHHHHHHHHHHHhhHhhcCCEEEEEECCCCCHHHHHHHHHhhhHHHHhcC
Confidence 9999999999999987555555555 55689999999999999999994 676653
No 11
>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=99.04 E-value=4.6e-12 Score=109.99 Aligned_cols=115 Identities=26% Similarity=0.249 Sum_probs=92.0
Q ss_pred hHHHHHHHHHHHHHhcccCCCceeEEEEeCCCCcccccchhhhhhhccccccc--ccccchhhhhhHHHHHHhhccc-CC
Q 042367 10 NIEMWKMKKLIKTLSAVKGDGTSLISLVVNPRDKIPRVTKMLGEEYQNASKIK--KRMNRQSVQAAITYAQSRLKLY-KN 86 (428)
Q Consensus 10 ~~~~~~~~~~l~~L~~~~g~~~~lls~~i~~gd~v~~~t~r~~~e~~~~~~ik--~~~~r~~v~~~i~v~~~~~~~~-~~ 86 (428)
.++ |+.+..|+-|....++.|.| |++|.|||.|.+.|.|+.++ +++++ .+.++..+.++|.+...+|++. +.
T Consensus 7 ~~~-~~~~~~i~ll~e~~dDlw~L-~~li~~gD~v~~~t~Rkv~~---~~~~~~~~~~~~v~~~L~i~ve~v~~~~~~~~ 81 (132)
T PF03463_consen 7 DIE-KNGKGLIKLLPEEKDDLWHL-YNLIIPGDEVISKTTRKVQE---ASNIKGSKTRERVQIALTIKVEKVEFDPENGL 81 (132)
T ss_dssp CHC-HHHHHEEEEETTSHHHHHHH-HHHEETTTEEEECCHCHHHH---CTCESSHHHHHCEEEEEEEEEEEEEEETTTTE
T ss_pred hhc-cccCceEEEcccccCCcEEE-EEEEECCCEEEEEEEEeeee---cccccCCcceEEEEEEEEEEEEEeEecCCCCE
Confidence 455 88888888888888887765 55666788999999988744 32333 3556778888889999999988 88
Q ss_pred CCCCeEEEEecccccCCCceeEEEEeecCCCceeeeeeccCCccccc
Q 042367 87 VPSNGLVLFTGTGVTEDGEEKKFAHDLVPFKPINSSLYVCDSSFHTE 133 (428)
Q Consensus 87 l~~~G~v~~a~~~~~~~G~~~~htl~i~p~~~v~~~k~~~w~~~~le 133 (428)
++++|.++.+++++ ..| +|||++|+||+||+++|| .|++++++
T Consensus 82 Lri~G~i~~~~~~~-~~G--~~hT~~i~~~~~~ti~K~-~wd~~~~~ 124 (132)
T PF03463_consen 82 LRISGKIVEENEDV-KLG--KYHTLDIEPGRPFTIIKY-RWDSYFLD 124 (132)
T ss_dssp EEEEEEEEEGSCGG-GTT--SEEEEEEETSSEEEEEEE-EEEHHHHH
T ss_pred EEEEeEEccCCCCC-Ccc--eEEEEEEeCCCceEEEEe-cCCHHHHH
Confidence 99999999998875 468 999999999999999998 78877543
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=97.36 E-value=0.00031 Score=61.38 Aligned_cols=109 Identities=17% Similarity=0.202 Sum_probs=76.6
Q ss_pred EEEEEECCcEEEEEEeCCeE---EEEEE------------EEecCCccCCC-CCc--chhhHhHHHHHHHHHHHHHHHHH
Q 042367 136 GYIIIDGNGTLIGTLCGSSR---EVVLK------------FTVDLPKKHGR-GGQ--SALRFSRLRVEKRHNYLREAAEL 197 (428)
Q Consensus 136 ~vVvvd~g~A~i~~v~~~~~---~~~~~------------i~~~vp~K~~~-gG~--s~~Rf~r~~ee~~~~f~~~Vae~ 197 (428)
+|||+|.+.|.|+...+... ..+.. +..+-|+.... +|. +........++..++|+++||+.
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 68999999999999976543 22222 22233443211 111 22234566788889999999999
Q ss_pred HHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCChhhhcceeEEEECCCCC
Q 042367 198 ATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDPCLMAKILKVLDISYGG 251 (428)
Q Consensus 198 l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~~l~~~vi~~v~~~~~~ 251 (428)
|.+.. ....++.|||++|..+...++ ..|++.++++|++.++-+...
T Consensus 82 L~~~~-----~~~~~~~LvlvA~p~~LG~LR--~~L~~~~~~~V~~ei~kDlt~ 128 (138)
T PF10116_consen 82 LEKAR-----RAGKFDRLVLVAPPRFLGLLR--EHLSKAVRKRVVGEIDKDLTK 128 (138)
T ss_pred HHHHH-----HhCCCCeEEEEECHHHHHHHH--HHhCHHHHHHHHHHHhhhhhc
Confidence 99985 357899999999999999999 578999988876655555443
No 13
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=95.23 E-value=0.11 Score=41.30 Aligned_cols=57 Identities=26% Similarity=0.477 Sum_probs=49.9
Q ss_pred eEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHH
Q 042367 292 FVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVD 371 (428)
Q Consensus 292 a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~ 371 (428)
.++|.++|.+|++.|.+..++|..|.. ..++..|..
T Consensus 14 ~vvG~kqt~Kai~kg~~~~v~iA~Da~--------------------------------------------~~vv~~l~~ 49 (84)
T PRK13600 14 FVVGLKETLKALKKDQVTSLIIAEDVE--------------------------------------------VYLMTRVLS 49 (84)
T ss_pred ceeeHHHHHHHHhcCCceEEEEeCCCC--------------------------------------------HHHHHHHHH
Confidence 499999999999999999999988865 113667999
Q ss_pred HHHhcCCEEEEECCCCchhhh
Q 042367 372 HYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 372 ~a~~~ga~V~ivs~~~~~G~q 392 (428)
.+++.|..+.+|++..+.|.-
T Consensus 50 lceek~Ip~v~V~s~~~LGkA 70 (84)
T PRK13600 50 QINQKNIPVSFFKSKHALGKH 70 (84)
T ss_pred HHHHcCCCEEEECCHHHHHHH
Confidence 999999999999999888875
No 14
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=94.89 E-value=0.17 Score=40.13 Aligned_cols=59 Identities=27% Similarity=0.369 Sum_probs=50.1
Q ss_pred CceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHH
Q 042367 290 GKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWL 369 (428)
Q Consensus 290 g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L 369 (428)
|+.+.|.++|++|++.|.+..++|..|.. ++....+
T Consensus 10 gkl~~G~~~v~kai~~gkaklViiA~D~~--------------------------------------------~~~~~~i 45 (82)
T PRK13602 10 KSIVIGTKQTVKALKRGSVKEVVVAEDAD--------------------------------------------PRLTEKV 45 (82)
T ss_pred CCEEEcHHHHHHHHHcCCeeEEEEECCCC--------------------------------------------HHHHHHH
Confidence 88999999999999999999999987754 1235568
Q ss_pred HHHHHhcCCEEEEECCCCchhhh
Q 042367 370 VDHYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 370 ~~~a~~~ga~V~ivs~~~~~G~q 392 (428)
...+...+..+..+++..+.|.-
T Consensus 46 ~~~c~~~~Vp~~~~~s~~eLG~a 68 (82)
T PRK13602 46 EALANEKGVPVSKVDSMKKLGKA 68 (82)
T ss_pred HHHHHHcCCCEEEECCHHHHHHH
Confidence 88899999999999988877765
No 15
>PRK07714 hypothetical protein; Provisional
Probab=94.58 E-value=0.22 Score=40.92 Aligned_cols=75 Identities=15% Similarity=0.253 Sum_probs=52.6
Q ss_pred cCCCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcH
Q 042367 286 GQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGL 365 (428)
Q Consensus 286 ~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~ 365 (428)
++..|+.++|.+.|.+|++.|.+.-+|++.|... +.
T Consensus 13 a~raGk~v~G~~~v~~al~~g~~~lViiA~D~s~--------------------------------------------~~ 48 (100)
T PRK07714 13 ANRARKVISGEELVLKEVRSGKAKLVLLSEDASV--------------------------------------------NT 48 (100)
T ss_pred HHHhCCeeecHHHHHHHHHhCCceEEEEeCCCCH--------------------------------------------HH
Confidence 3344899999999999999999999998877641 12
Q ss_pred HHHHHHHHHhcCCEEEEECCCCchhhhhhcccccEEEEe
Q 042367 366 LEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGIL 404 (428)
Q Consensus 366 v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiL 404 (428)
...+...|...+..+..+.+..+-|.-+=+....++||+
T Consensus 49 ~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~~~~~vai~ 87 (100)
T PRK07714 49 TKKITDKCTYYNVPMRKVENRQQLGHAIGKDERVVVAVL 87 (100)
T ss_pred HHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCcceEEEEe
Confidence 445667778888888877776666654322233355553
No 16
>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=94.42 E-value=0.09 Score=40.43 Aligned_cols=69 Identities=19% Similarity=0.270 Sum_probs=46.8
Q ss_pred EecHHHHHHHHHccC-ccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHH
Q 042367 293 VVGVDDSVKALEMGA-IHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVD 371 (428)
Q Consensus 293 ~yG~~~V~~Al~~Ga-V~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~ 371 (428)
+||...|.+||+.|. +..|+++++.. .+ . +..+++
T Consensus 2 ieG~~~V~eaL~~~~~i~~l~~~~~~~-------~~------------------------------------~-~~~i~~ 37 (76)
T PF08032_consen 2 IEGRHAVEEALKSGPRIKKLFVTEEKA-------DK------------------------------------R-IKEILK 37 (76)
T ss_dssp EESHHHHHHHHHCTGGEEEEEEETT----------C------------------------------------C-THHHHH
T ss_pred EEEHHHHHHHHcCCCCccEEEEEcCcc-------ch------------------------------------h-HHHHHH
Confidence 799999999999987 99999988732 11 0 445889
Q ss_pred HHHhcCCEEEEECCCCchhhhh--hcccccEEEEeccc
Q 042367 372 HYKQFGCSLEIVTDKSQEGSQF--CRGFGGIGGILRYQ 407 (428)
Q Consensus 372 ~a~~~ga~V~ivs~~~~~G~q~--L~~lgGIaAiLRf~ 407 (428)
.+...|..+..++..-- .++ -....||+|..+-+
T Consensus 38 ~~~~~~i~v~~v~~~~l--~~ls~~~~hQGv~a~v~~~ 73 (76)
T PF08032_consen 38 LAKKKGIPVYEVSKKVL--DKLSDTENHQGVVAVVKPP 73 (76)
T ss_dssp HHHHCT-EEEEE-HHHH--HHCTTTSS-TTEEEEEE--
T ss_pred HHHHcCCeEEEeCHHHH--HHHcCCCCCCeEEEEEeCC
Confidence 99999999999996421 111 24456999987643
No 17
>PRK07283 hypothetical protein; Provisional
Probab=94.27 E-value=0.3 Score=40.01 Aligned_cols=34 Identities=24% Similarity=0.429 Sum_probs=29.2
Q ss_pred hcCCCCceEecHHHHHHHHHccCccEEEeeccCc
Q 042367 285 IGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLD 318 (428)
Q Consensus 285 l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~ 318 (428)
++...|+.+.|.+.|.+|++.|.+.-++++.|..
T Consensus 12 lA~raGklv~G~~~v~~aik~gk~~lVi~A~Das 45 (98)
T PRK07283 12 LAQRAGRIISGEELVVKAIQSGQAKLVFLANDAG 45 (98)
T ss_pred HHHHhCCeeEcHHHHHHHHHcCCccEEEEeCCCC
Confidence 3444599999999999999999999999988764
No 18
>PRK06683 hypothetical protein; Provisional
Probab=93.45 E-value=0.51 Score=37.35 Aligned_cols=60 Identities=22% Similarity=0.335 Sum_probs=50.5
Q ss_pred CCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHH
Q 042367 289 TGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEW 368 (428)
Q Consensus 289 ~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~ 368 (428)
.|+.+.|.++|++|++.|.+..++|..|.. ++....
T Consensus 9 agk~v~G~~~v~kaik~gkaklViiA~Da~--------------------------------------------~~~~~~ 44 (82)
T PRK06683 9 AENVVVGHKRTLEAIKNGIVKEVVIAEDAD--------------------------------------------MRLTHV 44 (82)
T ss_pred CCCEEEcHHHHHHHHHcCCeeEEEEECCCC--------------------------------------------HHHHHH
Confidence 488999999999999999999999987764 123556
Q ss_pred HHHHHHhcCCEEEEECCCCchhhh
Q 042367 369 LVDHYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 369 L~~~a~~~ga~V~ivs~~~~~G~q 392 (428)
+.+.+..++..+..+++..+.|.-
T Consensus 45 i~~~~~~~~Vpv~~~~t~~eLG~A 68 (82)
T PRK06683 45 IIRTALQHNIPITKVESVRKLGKV 68 (82)
T ss_pred HHHHHHhcCCCEEEECCHHHHHHH
Confidence 888999999999999987777665
No 19
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=92.68 E-value=0.87 Score=37.36 Aligned_cols=60 Identities=22% Similarity=0.257 Sum_probs=48.0
Q ss_pred CCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHH
Q 042367 289 TGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEW 368 (428)
Q Consensus 289 ~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~ 368 (428)
.|+.+.|.++|++|++.|.+..++|+.|.. .+....
T Consensus 14 agkl~~G~~~v~kai~~gkaklViiA~D~~--------------------------------------------~~~~~~ 49 (99)
T PRK01018 14 TGKVILGSKRTIKAIKLGKAKLVIVASNCP--------------------------------------------KDIKED 49 (99)
T ss_pred cCCEEEcHHHHHHHHHcCCceEEEEeCCCC--------------------------------------------HHHHHH
Confidence 489999999999999999999999987753 122455
Q ss_pred HHHHHHhcCCEEEEE-CCCCchhhh
Q 042367 369 LVDHYKQFGCSLEIV-TDKSQEGSQ 392 (428)
Q Consensus 369 L~~~a~~~ga~V~iv-s~~~~~G~q 392 (428)
+...++..+..+..+ .+..+.|.-
T Consensus 50 i~~~c~~~~Ip~~~~~~tk~eLG~a 74 (99)
T PRK01018 50 IEYYAKLSGIPVYEYEGSSVELGTL 74 (99)
T ss_pred HHHHHHHcCCCEEEECCCHHHHHHH
Confidence 788888999998776 577777765
No 20
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=92.61 E-value=0.77 Score=38.36 Aligned_cols=40 Identities=23% Similarity=0.420 Sum_probs=31.7
Q ss_pred HHHHHHHhcCCCCceEecHHHHHHHHHccCccEEEeeccCc
Q 042367 278 IGKFFEEIGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLD 318 (428)
Q Consensus 278 l~~f~~~l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~ 318 (428)
++.++.... ..|+.+.|.++|++|++.|.+..++|+.|..
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 344444333 3499999999999999999999999987764
No 21
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=92.52 E-value=0.42 Score=40.44 Aligned_cols=61 Identities=23% Similarity=0.335 Sum_probs=51.4
Q ss_pred CCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHH
Q 042367 289 TGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEW 368 (428)
Q Consensus 289 ~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~ 368 (428)
.++..+|.++|.+|++.|.+.-++|+.|.. ..+++..
T Consensus 25 ~~ki~~G~~e~~Kai~~g~a~LVviA~Dv~-------------------------------------------P~~~~~~ 61 (116)
T COG1358 25 AGKLKKGTNEVTKAIERGKAKLVVIAEDVS-------------------------------------------PEELVKH 61 (116)
T ss_pred cCCchhhHHHHHHHHHcCCCcEEEEecCCC-------------------------------------------HHHHHHH
Confidence 478999999999999999999999988764 1234666
Q ss_pred HHHHHHhcCCEEEEECCCCchhhh
Q 042367 369 LVDHYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 369 L~~~a~~~ga~V~ivs~~~~~G~q 392 (428)
|...++..+..+.+|.+..+.|.-
T Consensus 62 l~~lc~~~~vpyv~V~sk~~LG~a 85 (116)
T COG1358 62 LPALCEEKNVPYVYVGSKKELGKA 85 (116)
T ss_pred HHHHHHhcCCCEEEeCCHHHHHHH
Confidence 888899999999999998887764
No 22
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=91.74 E-value=0.96 Score=35.83 Aligned_cols=60 Identities=13% Similarity=0.182 Sum_probs=50.2
Q ss_pred CCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHH
Q 042367 289 TGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEW 368 (428)
Q Consensus 289 ~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~ 368 (428)
.|+.+.|.++|++|++.|.+..++|..|.. ++....
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da~--------------------------------------------~~~~k~ 41 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDAE--------------------------------------------EHVTKK 41 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCCC--------------------------------------------HHHHHH
Confidence 478999999999999999999999987754 123566
Q ss_pred HHHHHHhcCCEEEEECCCCchhhh
Q 042367 369 LVDHYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 369 L~~~a~~~ga~V~ivs~~~~~G~q 392 (428)
+.+.+..++..+.++.+..+.|.-
T Consensus 42 i~~~c~~~~Vpv~~~~t~~eLG~A 65 (82)
T PRK13601 42 IKELCEEKSIKIVYIDTMKELGVM 65 (82)
T ss_pred HHHHHHhCCCCEEEeCCHHHHHHH
Confidence 888999999999888887777765
No 23
>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=91.64 E-value=1.2 Score=37.81 Aligned_cols=75 Identities=21% Similarity=0.294 Sum_probs=55.2
Q ss_pred CCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHH
Q 042367 288 DTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLE 367 (428)
Q Consensus 288 ~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~ 367 (428)
..|+.+.|.++|.+|++.|.+.-++|+.|... .+...
T Consensus 23 ragkl~~G~~~v~kaikkgka~LVilA~D~s~-------------------------------------------~~~~~ 59 (117)
T TIGR03677 23 ETGKIKKGTNEVTKAVERGIAKLVVIAEDVEP-------------------------------------------PEIVA 59 (117)
T ss_pred HcCCEeEcHHHHHHHHHcCCccEEEEeCCCCc-------------------------------------------HHHHH
Confidence 34899999999999999999999999887641 11245
Q ss_pred HHHHHHHhcCCEEEEECCCCchhhhhhccc-ccEEEEec
Q 042367 368 WLVDHYKQFGCSLEIVTDKSQEGSQFCRGF-GGIGGILR 405 (428)
Q Consensus 368 ~L~~~a~~~ga~V~ivs~~~~~G~q~L~~l-gGIaAiLR 405 (428)
.+...++..+..+.++.+..+-|.-+-+.. -.+.||+-
T Consensus 60 ~i~~lc~~~~Ip~~~~~sk~eLG~a~Gk~~~~svvaI~d 98 (117)
T TIGR03677 60 HLPALCEEKGIPYVYVKKKEDLGAAAGLEVGAASAAIVD 98 (117)
T ss_pred HHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEEc
Confidence 678888899999888888887776522111 23555554
No 24
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=91.39 E-value=1.9 Score=36.83 Aligned_cols=62 Identities=26% Similarity=0.333 Sum_probs=50.4
Q ss_pred CCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHH
Q 042367 288 DTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLE 367 (428)
Q Consensus 288 ~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~ 367 (428)
..|+.+.|.++|++|++.|.+..++|+.|... .++..
T Consensus 27 ragklv~G~~~v~kaikkgkakLVilA~D~s~-------------------------------------------~~i~~ 63 (122)
T PRK04175 27 DTGKIKKGTNETTKAVERGIAKLVVIAEDVDP-------------------------------------------EEIVA 63 (122)
T ss_pred HcCCEeEcHHHHHHHHHcCCccEEEEeCCCCh-------------------------------------------HHHHH
Confidence 34899999999999999999999999887641 12245
Q ss_pred HHHHHHHhcCCEEEEECCCCchhhh
Q 042367 368 WLVDHYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 368 ~L~~~a~~~ga~V~ivs~~~~~G~q 392 (428)
.+...++..|..+.++.+..+.|.-
T Consensus 64 ~~~~lc~~~~Vp~~~~~tk~eLG~a 88 (122)
T PRK04175 64 HLPLLCEEKKIPYVYVPSKKDLGKA 88 (122)
T ss_pred HHHHHHHHcCCCEEEECCHHHHHHH
Confidence 6788899999999888888777764
No 25
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=90.87 E-value=1.4 Score=36.48 Aligned_cols=33 Identities=18% Similarity=0.399 Sum_probs=28.6
Q ss_pred cCCCCceEecHHHHHHHHHccCccEEEeeccCc
Q 042367 286 GQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLD 318 (428)
Q Consensus 286 ~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~ 318 (428)
+...|+.++|.+.|.+|+..|.+.-||++.|..
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 344599999999999999999999999887754
No 26
>PRK09190 hypothetical protein; Provisional
Probab=90.67 E-value=2.4 Score=40.04 Aligned_cols=34 Identities=26% Similarity=0.351 Sum_probs=29.9
Q ss_pred hcCCCCceEecHHHHHHHHHccCccEEEeeccCc
Q 042367 285 IGQDTGKFVVGVDDSVKALEMGAIHTLIVWEDLD 318 (428)
Q Consensus 285 l~~~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~ 318 (428)
+++..|+.++|.+.|..|+..|.+.-||++.|..
T Consensus 105 LArRAGklVsG~~~V~~alk~gk~~Lvi~A~DaS 138 (220)
T PRK09190 105 LARKAGQVVSGFEKVDAALRSGEAAALIHASDGA 138 (220)
T ss_pred HHhhhCCEeecHHHHHHHHHcCCceEEEEeccCC
Confidence 3455699999999999999999999999988875
No 27
>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=90.27 E-value=1.6 Score=35.12 Aligned_cols=60 Identities=23% Similarity=0.326 Sum_probs=49.0
Q ss_pred CceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHH
Q 042367 290 GKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWL 369 (428)
Q Consensus 290 g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L 369 (428)
++.++|..+|.++++.|.+.-++++.|... ......+
T Consensus 14 ~~lv~G~~~v~k~l~~~~~~lvilA~d~~~-------------------------------------------~~~~~~l 50 (95)
T PF01248_consen 14 GRLVKGIKEVLKALKKGKAKLVILAEDCSP-------------------------------------------DSIKKHL 50 (95)
T ss_dssp SEEEESHHHHHHHHHTTCESEEEEETTSSS-------------------------------------------GHHHHHH
T ss_pred CCEEEchHHHHHHHHcCCCcEEEEcCCCCh-------------------------------------------hhhcccc
Confidence 789999999999999999999999887641 0112347
Q ss_pred HHHHHhcCCEEEEECCCCchhhh
Q 042367 370 VDHYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 370 ~~~a~~~ga~V~ivs~~~~~G~q 392 (428)
...+.+.+..+.++++..+-|.-
T Consensus 51 ~~~c~~~~Ip~~~~~s~~eLG~~ 73 (95)
T PF01248_consen 51 PALCEEKNIPYVFVPSKEELGRA 73 (95)
T ss_dssp HHHHHHTTEEEEEESHHHHHHHH
T ss_pred hhheeccceeEEEECCHHHHHHH
Confidence 78889999999999987887775
No 28
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=79.87 E-value=1.6 Score=39.83 Aligned_cols=43 Identities=9% Similarity=-0.031 Sum_probs=27.9
Q ss_pred eecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHH
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVD 371 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~ 371 (428)
+.||+|+. +..++... ...+.||.||+.|......+.+..|=+
T Consensus 118 Y~Cp~C~~-rytf~eA~----~~~F~Cp~Cg~~L~~~dn~~~~~~l~~ 160 (178)
T PRK06266 118 FFCPNCHI-RFTFDEAM----EYGFRCPQCGEMLEEYDNSELIKELKE 160 (178)
T ss_pred EECCCCCc-EEeHHHHh----hcCCcCCCCCCCCeecccHHHHHHHHH
Confidence 68999984 33333222 246899999999887766655554433
No 29
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=79.33 E-value=20 Score=34.40 Aligned_cols=71 Identities=18% Similarity=0.325 Sum_probs=53.0
Q ss_pred ceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHH
Q 042367 291 KFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLV 370 (428)
Q Consensus 291 ~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~ 370 (428)
..++|..+|..+++.|.+.-+||..|.. + ..++.+|.
T Consensus 132 ~LvsG~n~VtkaIekkKAkLVIIA~DVs--------P-----------------------------------ie~vk~Lp 168 (263)
T PTZ00222 132 AVVTGLQEVTRAIEKKQARMVVIANNVD--------P-----------------------------------VELVLWMP 168 (263)
T ss_pred eeccCHHHHHHHHHcCCceEEEEeCCCC--------H-----------------------------------HHHHHHHH
Confidence 4789999999999999999999988764 1 12345688
Q ss_pred HHHHhcCCEEEEECCCCchhhhhhcccccEEEEe
Q 042367 371 DHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGIL 404 (428)
Q Consensus 371 ~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiL 404 (428)
..|..+|.-..+|.+..+.|.-+=+.--.+.||.
T Consensus 169 aLCrk~~VPY~iVktKaeLG~AIGkKtravVAIt 202 (263)
T PTZ00222 169 NLCRANKIPYAIVKDMARLGDAIGRKTATCVAIT 202 (263)
T ss_pred HHHHhcCCCEEEECCHHHHHHHHCCCCCeEEEEe
Confidence 8899999999999988877764211123455555
No 30
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=79.30 E-value=1.5 Score=39.14 Aligned_cols=44 Identities=11% Similarity=-0.027 Sum_probs=29.1
Q ss_pred eecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHH
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDH 372 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~ 372 (428)
+.||+|+. +..+.... ...+.||.||+.|......++++.|-+.
T Consensus 110 Y~Cp~c~~-r~tf~eA~----~~~F~Cp~Cg~~L~~~dn~~~i~~l~~~ 153 (158)
T TIGR00373 110 FICPNMCV-RFTFNEAM----ELNFTCPRCGAMLDYLDNSEAIEKLEEQ 153 (158)
T ss_pred EECCCCCc-EeeHHHHH----HcCCcCCCCCCEeeeccCHHHHHHHHHH
Confidence 58999883 22222211 1368999999999888777777755443
No 31
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=78.50 E-value=1.4 Score=39.57 Aligned_cols=25 Identities=4% Similarity=-0.279 Sum_probs=17.9
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
+|+|+-||++.. ...+..||.||.+
T Consensus 134 ~~vC~vCGy~~~---------ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHE---------GEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCccc---------CCCCCcCCCCCCh
Confidence 389999997431 1235679999976
No 32
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=77.88 E-value=33 Score=27.92 Aligned_cols=72 Identities=19% Similarity=0.260 Sum_probs=50.1
Q ss_pred CCCceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHH
Q 042367 288 DTGKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLE 367 (428)
Q Consensus 288 ~~g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~ 367 (428)
++|+++.|.+.+++++.+|..+.++|..+.. .++-+
T Consensus 16 kTGkvilG~k~tiK~lk~gkaKliiiAsN~P--------------------------------------------~~~k~ 51 (100)
T COG1911 16 KTGKVILGSKRTIKSLKLGKAKLIIIASNCP--------------------------------------------KELKE 51 (100)
T ss_pred hcCCEEEehHHHHHHHHcCCCcEEEEecCCC--------------------------------------------HHHHH
Confidence 3589999999999999999999999875432 11223
Q ss_pred HHHHHHHhcCCEEEEECCCC-chhhhhhcccccEEEEe
Q 042367 368 WLVDHYKQFGCSLEIVTDKS-QEGSQFCRGFGGIGGIL 404 (428)
Q Consensus 368 ~L~~~a~~~ga~V~ivs~~~-~~G~q~L~~lgGIaAiL 404 (428)
.|--.|+=.+..|.+++..+ +.|.- +...-.||++.
T Consensus 52 ~ieyYAkLs~ipV~~y~Gt~~eLG~~-cgkpf~v~~la 88 (100)
T COG1911 52 DIEYYAKLSDIPVYVYEGTSVELGTV-CGKPFRVAALA 88 (100)
T ss_pred HHHHHHHHcCCcEEEecCCceeHHhh-hCCCceEEEEE
Confidence 34455677799999999654 44443 33333566654
No 33
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=75.50 E-value=0.83 Score=31.81 Aligned_cols=38 Identities=8% Similarity=0.038 Sum_probs=23.7
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHH
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLL 366 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v 366 (428)
.++|++||.. +...+. .....||.||.++....+.+++
T Consensus 3 ~y~C~~CG~~--~~~~~~----~~~~~Cp~CG~~~~~~~~~~~v 40 (46)
T PRK00398 3 EYKCARCGRE--VELDEY----GTGVRCPYCGYRILFKERPPVV 40 (46)
T ss_pred EEECCCCCCE--EEECCC----CCceECCCCCCeEEEccCCCcc
Confidence 4699999952 112221 1257899999987655555544
No 34
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=72.58 E-value=13 Score=39.85 Aligned_cols=32 Identities=28% Similarity=0.326 Sum_probs=28.4
Q ss_pred CCCCcchhhHhHHHHHHHHHHHHHHHHHHHHh
Q 042367 170 GRGGQSALRFSRLRVEKRHNYLREAAELATKC 201 (428)
Q Consensus 170 ~~gG~s~~Rf~r~~ee~~~~f~~~Vae~l~~~ 201 (428)
++|||||.||.|+.-.++.+-.++|-+.|.+.
T Consensus 149 g~GGwSq~RY~R~vh~av~~~~reIee~L~~a 180 (652)
T COG2433 149 GPGGWSQNRYRRRVHGAVKRVVREIEEKLDEA 180 (652)
T ss_pred CCCCccHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56899999999999999998888888888865
No 35
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=70.45 E-value=24 Score=34.02 Aligned_cols=73 Identities=15% Similarity=0.188 Sum_probs=53.5
Q ss_pred CceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHH
Q 042367 290 GKFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWL 369 (428)
Q Consensus 290 g~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L 369 (428)
-...||+.+|..+++.|.+.-+||..|.. + ...+.+|
T Consensus 131 ~~vk~Gin~VtklIekkKAkLVIIA~DVs--------P-----------------------------------~t~kk~L 167 (266)
T PTZ00365 131 FMLKYGLNHVTDLVEYKKAKLVVIAHDVD--------P-----------------------------------IELVCFL 167 (266)
T ss_pred hHHHhhhHHHHHHHHhCCccEEEEeCCCC--------H-----------------------------------HHHHHHH
Confidence 34679999999999999999999988764 1 1235556
Q ss_pred HHHHHhcCCEEEEECCCCchhhhhhcccccEEEEec
Q 042367 370 VDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGILR 405 (428)
Q Consensus 370 ~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiLR 405 (428)
...|..+|.-..++.+..+.|.-+=+.--.+.||.-
T Consensus 168 P~LC~k~~VPY~iv~sK~eLG~AIGkktraVVAItd 203 (266)
T PTZ00365 168 PALCRKKEVPYCIIKGKSRLGKLVHQKTAAVVAIDN 203 (266)
T ss_pred HHHHhccCCCEEEECCHHHHHHHhCCCCceEEEecc
Confidence 788999999999999887777542111225666654
No 36
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=62.78 E-value=7.6 Score=25.78 Aligned_cols=33 Identities=15% Similarity=0.079 Sum_probs=19.0
Q ss_pred cceeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 321 RYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
-+.++|++|+..-.. +.+. .+.....||.||.+
T Consensus 3 ~Y~y~C~~Cg~~fe~-~~~~--~~~~~~~CP~Cg~~ 35 (41)
T smart00834 3 IYEYRCEDCGHTFEV-LQKI--SDDPLATCPECGGD 35 (41)
T ss_pred CEEEEcCCCCCEEEE-EEec--CCCCCCCCCCCCCc
Confidence 356799999962211 1111 11234679999975
No 37
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=62.27 E-value=11 Score=25.60 Aligned_cols=32 Identities=13% Similarity=-0.028 Sum_probs=19.5
Q ss_pred cceeecCCCCceEEEecccccccCCCCCCCccccc
Q 042367 321 RYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAAS 355 (428)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~ 355 (428)
-+.++|++|+..-.... +- .+.....||.||+
T Consensus 3 ~Yey~C~~Cg~~fe~~~-~~--~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 3 IYEYRCEECGHEFEVLQ-SI--SEDDPVPCPECGS 34 (42)
T ss_pred CEEEEeCCCCCEEEEEE-Ec--CCCCCCcCCCCCC
Confidence 35689999995322222 21 1234568999998
No 38
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=61.58 E-value=4.7 Score=35.48 Aligned_cols=43 Identities=12% Similarity=0.112 Sum_probs=23.0
Q ss_pred eeecCCCCceEEEecccccccC-CCCCCCccccccchhhhhhcHH
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAE-PSNFKDSAAASDLKVEGKMGLL 366 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~c~~~g~~~~~~~~~~~v 366 (428)
.+.||+|+. ...++.-..... ...+.||.||+.+........+
T Consensus 99 ~Y~Cp~C~~-~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~dn~~~~ 142 (147)
T smart00531 99 YYKCPNCQS-KYTFLEANQLLDMDGTFTCPRCGEELEEDDNSEPI 142 (147)
T ss_pred EEECcCCCC-EeeHHHHHHhcCCCCcEECCCCCCEEEEcCchhhH
Confidence 368999884 212211111101 1238899999997655444433
No 39
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=52.65 E-value=11 Score=26.96 Aligned_cols=24 Identities=13% Similarity=0.040 Sum_probs=14.0
Q ss_pred CCccccccchhhhhhcHHHHHHHH
Q 042367 349 KDSAAASDLKVEGKMGLLEWLVDH 372 (428)
Q Consensus 349 ~c~~~g~~~~~~~~~~~v~~L~~~ 372 (428)
.||.||.++...++..++..+-..
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~~~~ 45 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKYKSE 45 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHHHHH
Confidence 799999999877776666655443
No 40
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=50.40 E-value=21 Score=25.09 Aligned_cols=32 Identities=13% Similarity=0.056 Sum_probs=18.8
Q ss_pred cceeecCCCCceEEEecccccccCCCCCCCccccc
Q 042367 321 RYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAAS 355 (428)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~ 355 (428)
-+.++|++|+..-.. +.+.. +.....||.||.
T Consensus 3 ~Yey~C~~Cg~~fe~-~~~~~--~~~~~~CP~Cg~ 34 (52)
T TIGR02605 3 IYEYRCTACGHRFEV-LQKMS--DDPLATCPECGG 34 (52)
T ss_pred CEEEEeCCCCCEeEE-EEecC--CCCCCCCCCCCC
Confidence 356899999962222 22211 123457999997
No 41
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=48.40 E-value=11 Score=24.84 Aligned_cols=33 Identities=3% Similarity=-0.094 Sum_probs=21.0
Q ss_pred eecCCCCceEEEecccccccCC-CCCCCccccccch
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEP-SNFKDSAAASDLK 358 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~-~~~~c~~~g~~~~ 358 (428)
+.||+|+. .+.+.+++.+.. ....||.||..+.
T Consensus 3 ~~CP~C~~--~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKT--SFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCC--EEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 47888885 244555554422 3568999997653
No 42
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=48.23 E-value=44 Score=30.40 Aligned_cols=27 Identities=15% Similarity=0.036 Sum_probs=18.2
Q ss_pred cceeecCCCCceEEEecccccccCCCCCCCccccccc
Q 042367 321 RYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDL 357 (428)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~ 357 (428)
.+.++|-.|.. ++. .....||.||+++
T Consensus 137 ~w~~rC~GC~~--~f~--------~~~~~Cp~CG~~~ 163 (177)
T COG1439 137 KWRLRCHGCKR--IFP--------EPKDFCPICGSPL 163 (177)
T ss_pred eeeEEEecCce--ecC--------CCCCcCCCCCCce
Confidence 34578999985 221 1245799999984
No 43
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=47.02 E-value=81 Score=30.48 Aligned_cols=74 Identities=18% Similarity=0.169 Sum_probs=52.9
Q ss_pred CceEecHHHHHHHHHcc-CccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHH
Q 042367 290 GKFVVGVDDSVKALEMG-AIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEW 368 (428)
Q Consensus 290 g~a~yG~~~V~~Al~~G-aV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~ 368 (428)
...+||...|.+|++.| .|..++++++.. . ....
T Consensus 21 ~~~~~G~~~v~~al~~~~~i~~i~~~~~~~-~--------------------------------------------~~~~ 55 (260)
T COG0566 21 EFLIEGEHAVLEALASGPKIVRILVTEGRL-P--------------------------------------------RFEE 55 (260)
T ss_pred cEEEeeHHHHHHHHhcCCCceEEEEecccc-h--------------------------------------------hHHH
Confidence 46899999999999999 899999876643 0 1445
Q ss_pred HHHHHHhcCCEEEEECCCCchhhhhhcccccEEEEecccC
Q 042367 369 LVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGILRYQP 408 (428)
Q Consensus 369 L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiLRf~i 408 (428)
+...+...|..+..++...-.-----..+.||+|...-+-
T Consensus 56 ~~~~~~~~~~~~~~v~~~~l~~~~~~~~hqGi~a~~~~~~ 95 (260)
T COG0566 56 LLALAAAKGIPVYVVSEAILDKLSGTENHQGIVAVVKKRR 95 (260)
T ss_pred HHHHHHhcCCeEEEECHHHHHHHhCCCCCCeEEEEEeccc
Confidence 7888899999999998753211000135778998885443
No 44
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=46.43 E-value=16 Score=23.42 Aligned_cols=25 Identities=12% Similarity=0.049 Sum_probs=17.0
Q ss_pred eecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
|+|..||+.. .+ ...+..||.||.+
T Consensus 2 ~~C~~CGy~y----~~----~~~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIY----DG----EEAPWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEE----CC----CcCCCcCcCCCCc
Confidence 7899999731 22 1245789999975
No 45
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=46.06 E-value=15 Score=25.40 Aligned_cols=30 Identities=0% Similarity=-0.130 Sum_probs=19.2
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCccccccchh
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKV 359 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~ 359 (428)
.++|.+||.. +.++ ......||.||.+.-.
T Consensus 2 ~Y~C~~Cg~~--~~~~-----~~~~irC~~CG~rIly 31 (44)
T smart00659 2 IYICGECGRE--NEIK-----SKDVVRCRECGYRILY 31 (44)
T ss_pred EEECCCCCCE--eecC-----CCCceECCCCCceEEE
Confidence 4689999852 2222 2245789999987543
No 46
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=45.43 E-value=41 Score=29.15 Aligned_cols=9 Identities=22% Similarity=0.032 Sum_probs=7.7
Q ss_pred eeecCCCCc
Q 042367 323 ELKQSVTNG 331 (428)
Q Consensus 323 ~~~~~~~~~ 331 (428)
.|+|++|+.
T Consensus 70 ~~~C~~CG~ 78 (135)
T PRK03824 70 VLKCRNCGN 78 (135)
T ss_pred EEECCCCCC
Confidence 479999995
No 47
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=45.36 E-value=37 Score=29.57 Aligned_cols=51 Identities=12% Similarity=0.231 Sum_probs=33.5
Q ss_pred ceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHH
Q 042367 291 KFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLV 370 (428)
Q Consensus 291 ~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~ 370 (428)
+....+++..+.++.+.|++++|+.+.. ..+.+..++
T Consensus 125 ~~lg~~~~l~~~~~~~~id~v~ial~~~-------------------------------------------~~~~i~~ii 161 (175)
T PF13727_consen 125 PVLGDLDDLPELVREHDIDEVIIALPWS-------------------------------------------EEEQIKRII 161 (175)
T ss_dssp EEE--GGGHHHHHHHHT--EEEE--TTS--------------------------------------------HHHHHHHH
T ss_pred eeEcCHHHHHHHHHhCCCCEEEEEcCcc-------------------------------------------CHHHHHHHH
Confidence 3444579999999999999999975543 112367799
Q ss_pred HHHHhcCCEEEEEC
Q 042367 371 DHYKQFGCSLEIVT 384 (428)
Q Consensus 371 ~~a~~~ga~V~ivs 384 (428)
+.+++.|.+|.++|
T Consensus 162 ~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 162 EELENHGVRVRVVP 175 (175)
T ss_dssp HHHHTTT-EEEE--
T ss_pred HHHHhCCCEEEEeC
Confidence 99999999999987
No 48
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=44.04 E-value=78 Score=33.46 Aligned_cols=35 Identities=11% Similarity=0.102 Sum_probs=20.2
Q ss_pred cceEEEecChhhHH------HHhhcCCCChhhhcceeEEEEC
Q 042367 212 VTGLILAGSAEFKT------ELSQSGMFDPCLMAKILKVLDI 247 (428)
Q Consensus 212 ~~~iVlaGpg~~k~------~f~~~~~l~~~l~~~vi~~v~~ 247 (428)
.++||+++|..... .|.+. .....++.|.++++..
T Consensus 305 ad~vilGspT~~~~~~p~~~~fl~~-l~~~~l~gK~~~vFGS 345 (479)
T PRK05452 305 SKGVLVGSSTMNNVMMPKIAGLLEE-ITGLRFRNKRASAFGS 345 (479)
T ss_pred CCEEEEECCccCCcchHHHHHHHHH-hhccCcCCCEEEEEEC
Confidence 68999998874322 23322 2234467777666653
No 49
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=42.12 E-value=38 Score=29.86 Aligned_cols=36 Identities=6% Similarity=-0.240 Sum_probs=21.6
Q ss_pred eccCccccceeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 314 WEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 314 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
+-+...+|. ++|.+||+...+ -.|.. -.+||.||+.
T Consensus 104 sGE~~g~G~-l~C~~Cg~~~~~-~~~~~-----l~~Cp~C~~~ 139 (146)
T PF07295_consen 104 SGEVVGPGT-LVCENCGHEVEL-THPER-----LPPCPKCGHT 139 (146)
T ss_pred cCcEecCce-EecccCCCEEEe-cCCCc-----CCCCCCCCCC
Confidence 333344443 699999974333 23432 3479999975
No 50
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=42.01 E-value=23 Score=22.93 Aligned_cols=26 Identities=15% Similarity=-0.086 Sum_probs=17.2
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
.|+|..||++.. . ...+..||.||.+
T Consensus 2 ~~~C~~CG~i~~---g-----~~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHE---G-----EEAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeE---C-----CcCCCcCcCCCCc
Confidence 489999997321 1 1124579999975
No 51
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=40.57 E-value=27 Score=22.46 Aligned_cols=25 Identities=8% Similarity=-0.008 Sum_probs=14.1
Q ss_pred ecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 325 KQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
.|.+|+... .++ ......||.||.+
T Consensus 2 ~C~~Cg~~~--~~~-----~~~~irC~~CG~R 26 (32)
T PF03604_consen 2 ICGECGAEV--ELK-----PGDPIRCPECGHR 26 (32)
T ss_dssp BESSSSSSE---BS-----TSSTSSBSSSS-S
T ss_pred CCCcCCCee--EcC-----CCCcEECCcCCCe
Confidence 567777421 122 2345789999976
No 52
>PRK12496 hypothetical protein; Provisional
Probab=38.86 E-value=22 Score=31.90 Aligned_cols=28 Identities=4% Similarity=-0.174 Sum_probs=17.2
Q ss_pred ceeecCCCCceEEEecccccccCCCCCCCccccccc
Q 042367 322 YELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDL 357 (428)
Q Consensus 322 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~ 357 (428)
|.++|+.|+.. |-. ......||.||.++
T Consensus 126 w~~~C~gC~~~---~~~-----~~~~~~C~~CG~~~ 153 (164)
T PRK12496 126 WRKVCKGCKKK---YPE-----DYPDDVCEICGSPV 153 (164)
T ss_pred eeEECCCCCcc---ccC-----CCCCCcCCCCCChh
Confidence 44689999951 100 01224699999885
No 53
>PRK11032 hypothetical protein; Provisional
Probab=38.13 E-value=27 Score=31.23 Aligned_cols=37 Identities=5% Similarity=-0.218 Sum_probs=22.4
Q ss_pred eeccCccccceeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 313 VWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 313 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
.+-+....|. ++|.+|++.. .+..|.. -.+||.||+.
T Consensus 115 ~sGEvvg~G~-LvC~~Cg~~~-~~~~p~~-----i~pCp~C~~~ 151 (160)
T PRK11032 115 HSGEVVGLGN-LVCEKCHHHL-AFYTPEV-----LPLCPKCGHD 151 (160)
T ss_pred ecceeeecce-EEecCCCCEE-EecCCCc-----CCCCCCCCCC
Confidence 3444444443 5999999743 2334432 2479999975
No 54
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=37.37 E-value=1.3e+02 Score=28.79 Aligned_cols=70 Identities=13% Similarity=0.139 Sum_probs=47.1
Q ss_pred ceEecHHHHHHHHHc-c-CccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHH
Q 042367 291 KFVVGVDDSVKALEM-G-AIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEW 368 (428)
Q Consensus 291 ~a~yG~~~V~~Al~~-G-aV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~ 368 (428)
...||...|.+|++. + .+.+|++..+... .. ...
T Consensus 3 ~~i~G~~~v~eal~~~~~~~~~l~~~~~~~~-------------------------------------------~~-~~~ 38 (244)
T PRK11181 3 EIIYGIHAVQALLERAPERFIEVFVLKGRED-------------------------------------------KR-LLP 38 (244)
T ss_pred cEEEehHHHHHHHhCCCCceeEEEEECCCcc-------------------------------------------hH-HHH
Confidence 368999999999986 3 6888888644320 01 344
Q ss_pred HHHHHHhcCCEEEEECCCCchhhhh--hcccccEEEEecc
Q 042367 369 LVDHYKQFGCSLEIVTDKSQEGSQF--CRGFGGIGGILRY 406 (428)
Q Consensus 369 L~~~a~~~ga~V~ivs~~~~~G~q~--L~~lgGIaAiLRf 406 (428)
++..++..|..+..++...- .++ -....||.|+.+-
T Consensus 39 ~~~~~~~~~i~~~~v~~~~l--~~ls~~~~~qGv~a~~~~ 76 (244)
T PRK11181 39 LINELEAQGIVIQLANRQTL--DEKAEGAVHQGIIARVKP 76 (244)
T ss_pred HHHHHHHcCCcEEEeCHHHH--hhhhcCCCCceEEEEEec
Confidence 67777888999999886421 121 1347899999863
No 55
>COG1852 Uncharacterized conserved protein [Function unknown]
Probab=35.87 E-value=47 Score=30.62 Aligned_cols=34 Identities=12% Similarity=0.178 Sum_probs=28.3
Q ss_pred CCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCc
Q 042367 347 NFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQ 388 (428)
Q Consensus 347 ~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~ 388 (428)
-..|..||... +-++++.|++.|-+|.|+|+++-
T Consensus 111 G~~Ck~CgkCv--------i~ei~e~ae~~gykvfIvpGgs~ 144 (209)
T COG1852 111 GYECKKCGKCV--------IGEIKEIAEKYGYKVFIVPGGSF 144 (209)
T ss_pred cceecccCCee--------hHHHHHHHHHhCcEEEEecChHH
Confidence 45788998763 66699999999999999998764
No 56
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=35.60 E-value=98 Score=29.35 Aligned_cols=69 Identities=19% Similarity=0.304 Sum_probs=44.4
Q ss_pred ceEecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHH
Q 042367 291 KFVVGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLV 370 (428)
Q Consensus 291 ~a~yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~ 370 (428)
..+||...|.+|++.| ..+++..... . . ....++
T Consensus 2 ~~i~G~~~v~eal~~~--~~~~~~~~~~--------~-----------------------------------~-~~~~~~ 35 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQ--QRVFILKGLE--------S-----------------------------------K-RLKKLI 35 (237)
T ss_pred cEEEehHHHHHHHhCC--CEEEEEecCc--------c-----------------------------------h-HHHHHH
Confidence 3579999999999988 4555433221 0 0 123467
Q ss_pred HHHHhcCCEEEEECCCCchhhhhh--cccccEEEEeccc
Q 042367 371 DHYKQFGCSLEIVTDKSQEGSQFC--RGFGGIGGILRYQ 407 (428)
Q Consensus 371 ~~a~~~ga~V~ivs~~~~~G~q~L--~~lgGIaAiLRf~ 407 (428)
..+++.+..+..++..- =.++. ....||.|+.+.+
T Consensus 36 ~~~~~~~~~~~~v~~~~--l~~l~~~~~~qGv~a~~~~~ 72 (237)
T TIGR00186 36 QLAKKQGINIQLVDRQK--LDQLTKGGNHQGIAAKVKPI 72 (237)
T ss_pred HHHHHcCCcEEEeCHHH--HHHHhCCCCCCeEEEEEecC
Confidence 77888899999998631 11211 2366999999854
No 57
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=34.67 E-value=5.6e+02 Score=26.86 Aligned_cols=68 Identities=18% Similarity=0.224 Sum_probs=47.7
Q ss_pred ecH-HHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHH
Q 042367 294 VGV-DDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDH 372 (428)
Q Consensus 294 yG~-~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~ 372 (428)
+|. ++..+.++...|+.++|+-+.. ....+.++++.
T Consensus 189 lG~~~dL~~~v~~~~IdeViIAip~~-------------------------------------------~~~~l~ell~~ 225 (463)
T PRK10124 189 AGNLQQLVEDAKAGKIHNVYIAMSMC-------------------------------------------DGARVKKLVRQ 225 (463)
T ss_pred CCCHHHHHHHHHhCCCCEEEEeCCCc-------------------------------------------chHHHHHHHHH
Confidence 544 7788899999999999975432 01125668999
Q ss_pred HHhcCCEEEEECCCCc---hhhhhhcccccEEEEec
Q 042367 373 YKQFGCSLEIVTDKSQ---EGSQFCRGFGGIGGILR 405 (428)
Q Consensus 373 a~~~ga~V~ivs~~~~---~G~q~L~~lgGIaAiLR 405 (428)
++..|.+|.++|+-.+ .... +..+||+-.+-=
T Consensus 226 ~~~~~v~V~ivP~l~~~~~~~~~-~~~~~~~p~~~~ 260 (463)
T PRK10124 226 LADTTCSVLLIPDVFTFNILHSR-LEEMNGVPVVPL 260 (463)
T ss_pred HHHcCCeEEEecchhhccccccc-hhhcCCeeEEEE
Confidence 9999999999997532 1123 567777765543
No 58
>PRK14873 primosome assembly protein PriA; Provisional
Probab=33.91 E-value=40 Score=37.23 Aligned_cols=15 Identities=20% Similarity=0.370 Sum_probs=11.2
Q ss_pred eEEEecChhhHHHHh
Q 042367 214 GLILAGSAEFKTELS 228 (428)
Q Consensus 214 ~iVlaGpg~~k~~f~ 228 (428)
.||++|.....+.++
T Consensus 295 ~lvLgSaTPSles~~ 309 (665)
T PRK14873 295 ALLIGGHARTAEAQA 309 (665)
T ss_pred cEEEECCCCCHHHHH
Confidence 477888887777775
No 59
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=33.64 E-value=10 Score=27.54 Aligned_cols=10 Identities=10% Similarity=0.175 Sum_probs=4.9
Q ss_pred CCccccccch
Q 042367 349 KDSAAASDLK 358 (428)
Q Consensus 349 ~c~~~g~~~~ 358 (428)
.||.||..++
T Consensus 24 ~Cp~CGaele 33 (54)
T TIGR01206 24 ICDECGAELE 33 (54)
T ss_pred eCCCCCCEEE
Confidence 4555554443
No 60
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=32.98 E-value=34 Score=31.16 Aligned_cols=29 Identities=17% Similarity=0.112 Sum_probs=19.9
Q ss_pred CCCCCccccccchhhhhhcHHHHHHHHHH
Q 042367 346 SNFKDSAAASDLKVEGKMGLLEWLVDHYK 374 (428)
Q Consensus 346 ~~~~c~~~g~~~~~~~~~~~v~~L~~~a~ 374 (428)
..+.||.||+.|+.......+..|-+...
T Consensus 131 ~~F~Cp~Cg~~L~~~d~s~~i~~l~~~i~ 159 (176)
T COG1675 131 LGFTCPKCGEDLEEYDSSEEIEELESELD 159 (176)
T ss_pred hCCCCCCCCchhhhccchHHHHHHHHHHH
Confidence 35789999999877766666665554443
No 61
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=32.88 E-value=22 Score=21.48 Aligned_cols=22 Identities=5% Similarity=-0.052 Sum_probs=13.6
Q ss_pred ecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 325 KQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
.|++|+.. + ......||.||.+
T Consensus 4 ~Cp~Cg~~----~------~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 4 FCPNCGAE----I------DPDAKFCPNCGAK 25 (26)
T ss_pred CCcccCCc----C------CcccccChhhCCC
Confidence 68888751 0 1134579999865
No 62
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=32.15 E-value=5.4e+02 Score=26.57 Aligned_cols=67 Identities=21% Similarity=0.310 Sum_probs=45.7
Q ss_pred Eec-HHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHH
Q 042367 293 VVG-VDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVD 371 (428)
Q Consensus 293 ~yG-~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~ 371 (428)
++| .++..+.++...|+.++|+.+.. ..+....+++
T Consensus 173 Vlg~~~~l~~~i~~~~id~ViIa~p~~-------------------------------------------~~~~~~~ll~ 209 (445)
T TIGR03025 173 VLGKLDDLVELVRAHRVDEVIIALPLS-------------------------------------------EEARILELLL 209 (445)
T ss_pred ccCCHHHHHHHHHhCCCCEEEEecCcc-------------------------------------------cHHHHHHHHH
Confidence 444 57788889999999999874332 0112556899
Q ss_pred HHHhcCCEEEEECCCCc--hhhhhhcccccEEE
Q 042367 372 HYKQFGCSLEIVTDKSQ--EGSQFCRGFGGIGG 402 (428)
Q Consensus 372 ~a~~~ga~V~ivs~~~~--~G~q~L~~lgGIaA 402 (428)
.+...|.+|.++|+-.+ .|..-+..++|+-.
T Consensus 210 ~~~~~gv~V~~vP~~~e~~~~~~~~~~i~~v~~ 242 (445)
T TIGR03025 210 QLRDLGVDVRLVPDLFEFLLGRLRIEELGGVPL 242 (445)
T ss_pred HHHhcCCEEEEeCchhhhccCCcceEEECCEEE
Confidence 99999999999997543 22222556666653
No 63
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=31.88 E-value=27 Score=29.16 Aligned_cols=27 Identities=4% Similarity=-0.068 Sum_probs=18.4
Q ss_pred eecCCCCceEEEe-cccccccCCCCCCCccccccch
Q 042367 324 LKQSVTNGIVIKH-LNKKQEAEPSNFKDSAAASDLK 358 (428)
Q Consensus 324 ~~~~~~~~~~~~~-~~~~~~~~~~~~~c~~~g~~~~ 358 (428)
..|+.||. .|| | .+.+..||.||....
T Consensus 10 R~Cp~CG~--kFYDL------nk~PivCP~CG~~~~ 37 (108)
T PF09538_consen 10 RTCPSCGA--KFYDL------NKDPIVCPKCGTEFP 37 (108)
T ss_pred ccCCCCcc--hhccC------CCCCccCCCCCCccC
Confidence 48999995 122 3 335678999998754
No 64
>PRK10864 putative methyltransferase; Provisional
Probab=31.61 E-value=1.1e+02 Score=31.01 Aligned_cols=71 Identities=10% Similarity=0.092 Sum_probs=47.4
Q ss_pred CceEecHHHHHHHHHc--cCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHH
Q 042367 290 GKFVVGVDDSVKALEM--GAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLE 367 (428)
Q Consensus 290 g~a~yG~~~V~~Al~~--GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~ 367 (428)
...+||...|.+|++. ..|..|++..+.. + . ..
T Consensus 108 ~~~I~G~~aV~ealk~~~~~i~~l~~~~~~~--------~------------------------------------~-~~ 142 (346)
T PRK10864 108 ETRVYGENACQALFQSRPEAIVRAWFIQSVT--------P------------------------------------R-FK 142 (346)
T ss_pred CcEEEEHHHHHHHHhCCCCceeEEEEecCcc--------H------------------------------------H-HH
Confidence 4568999999999986 4688888865421 0 0 23
Q ss_pred HHHHHHHhcCCEEEEECCCCchhhhh--hcccccEEEEeccc
Q 042367 368 WLVDHYKQFGCSLEIVTDKSQEGSQF--CRGFGGIGGILRYQ 407 (428)
Q Consensus 368 ~L~~~a~~~ga~V~ivs~~~~~G~q~--L~~lgGIaAiLRf~ 407 (428)
+++..+...+..+.+|+..- =.++ .+..+||+|+.+-+
T Consensus 143 ~il~~~~~~~~~v~~V~~~~--l~kls~~~~hqGV~A~v~~~ 182 (346)
T PRK10864 143 EALRWMAANRKAYHVVDEAE--LTKASGTEHHGGVCFLIKKR 182 (346)
T ss_pred HHHHHHHHcCCcEEEeCHHH--HHHHhCCCCCCeEEEEEeCC
Confidence 35666667788888887642 1121 14578999998754
No 65
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=30.64 E-value=46 Score=39.22 Aligned_cols=42 Identities=10% Similarity=-0.068 Sum_probs=30.6
Q ss_pred HHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccch
Q 042367 297 DDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLK 358 (428)
Q Consensus 297 ~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~ 358 (428)
..+.+|.+.|.++.+=|.. .+||+|+... -...||.||...+
T Consensus 656 R~i~~A~~~g~~~~vei~~--------~~Cp~Cg~~~------------~~~~Cp~CG~~~~ 697 (1627)
T PRK14715 656 RLINKAVEENKTDDIEIAF--------FKCPKCGKVG------------LYHVCPFCGTRVE 697 (1627)
T ss_pred hhHHHHhhcCCcceEEEEe--------eeCCCCCCcc------------ccccCcccCCccc
Confidence 5789999999997655532 4999999622 1357999997643
No 66
>COG5622 Protein required for attachment to host cells [Cell motility and secretion]
Probab=28.85 E-value=29 Score=29.92 Aligned_cols=63 Identities=13% Similarity=0.174 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhhHHHHhhcCCCChhhhcceeEEEECCCCCCccHHHH
Q 042367 188 HNYLREAAELATKCFIDPATSQPNVTGLILAGSAEFKTELSQSGMFDPCLMAKILKVLDISYGGVSGFNQA 258 (428)
Q Consensus 188 ~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~k~~f~~~~~l~~~l~~~vi~~v~~~~~~~~gl~Ev 258 (428)
++|...+++.+.+..+ ..+++.|||+-+..+.-.+++ .|++.|++++++.++-+..+ +++.++
T Consensus 70 ~~fa~~~a~~l~r~v~-----~g~~~~LvIiAaPrtLG~lRK--~lh~~lk~~~~~EI~Kdlt~-H~v~~i 132 (139)
T COG5622 70 DSFAAEIAKELNRSVH-----GGKFKNLVIIAAPRTLGELRK--ELHKGLKEKLTAEIAKDLTG-HPVDEI 132 (139)
T ss_pred hhHHHHHHHHHHHHHh-----hcccceeEEEeCchhHHHHHH--HHHHHHHHHHHHHHhhHhhc-CcHHHH
Confidence 6899999999999875 367888888888778888884 47788888776555444432 234444
No 67
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.82 E-value=1.1e+02 Score=32.61 Aligned_cols=41 Identities=10% Similarity=-0.024 Sum_probs=20.2
Q ss_pred CCCCccccccchhhhhhcHHHHHHHHHHhc--CCEEEEECCCCc
Q 042367 347 NFKDSAAASDLKVEGKMGLLEWLVDHYKQF--GCSLEIVTDKSQ 388 (428)
Q Consensus 347 ~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~--ga~V~ivs~~~~ 388 (428)
+..||.||+..- ....-=.+.+.+...+. ++.|..+..+..
T Consensus 253 ~~~Cp~C~s~~l-~~~g~Gte~~~e~l~~~fp~~~v~~~d~d~~ 295 (505)
T TIGR00595 253 PKTCPQCGSEDL-VYKGYGTEQVEEELAKLFPGARIARIDSDTT 295 (505)
T ss_pred CCCCCCCCCCee-EeecccHHHHHHHHHhhCCCCcEEEEecccc
Confidence 457999987510 00000123333333333 677777766543
No 68
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=28.22 E-value=39 Score=22.25 Aligned_cols=31 Identities=0% Similarity=-0.104 Sum_probs=20.0
Q ss_pred eecCCCCceEEEecccccccCC-CCCCCcccccc
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEP-SNFKDSAAASD 356 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~-~~~~c~~~g~~ 356 (428)
..||+|+. .+-+.+++++.. ....||.|+..
T Consensus 3 i~CP~C~~--~f~v~~~~l~~~~~~vrC~~C~~~ 34 (37)
T PF13719_consen 3 ITCPNCQT--RFRVPDDKLPAGGRKVRCPKCGHV 34 (37)
T ss_pred EECCCCCc--eEEcCHHHcccCCcEEECCCCCcE
Confidence 37888885 344666655433 45689999864
No 69
>COG1212 KdsB CMP-2-keto-3-deoxyoctulosonic acid synthetase [Cell envelope biogenesis, outer membrane]
Probab=28.01 E-value=85 Score=29.85 Aligned_cols=54 Identities=9% Similarity=0.136 Sum_probs=36.2
Q ss_pred CCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhhhhcccccEEEEecccCC
Q 042367 348 FKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQFCRGFGGIGGILRYQPD 409 (428)
Q Consensus 348 ~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q~L~~lgGIaAiLRf~i~ 409 (428)
..|..||.+| +.+..+.|.+.|++=.+|-.+++.=..-.+++||-+.+-|=..+
T Consensus 21 PLadI~Gkpm--------I~rV~e~a~~s~~~rvvVATDde~I~~av~~~G~~avmT~~~h~ 74 (247)
T COG1212 21 PLADIGGKPM--------IVRVAERALKSGADRVVVATDDERIAEAVQAFGGEAVMTSKDHQ 74 (247)
T ss_pred chhhhCCchH--------HHHHHHHHHHcCCCeEEEEcCCHHHHHHHHHhCCEEEecCCCCC
Confidence 3466677776 66677778888777667776666555557778777776654433
No 70
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=27.88 E-value=60 Score=35.84 Aligned_cols=38 Identities=3% Similarity=-0.090 Sum_probs=23.5
Q ss_pred CccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhh
Q 042367 307 AIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEG 361 (428)
Q Consensus 307 aV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~ 361 (428)
.|-=.=++-.+. +|++||... ...+.||.||.++++..
T Consensus 616 ~i~Y~~in~~~~------~C~~CG~~~-----------g~~~~CP~CG~~~~v~s 653 (656)
T PRK08270 616 RLPYITITPTFS------ICPKHGYLS-----------GEHEFCPKCGEETEVYS 653 (656)
T ss_pred CCceEEeCCCCc------ccCCCCCcC-----------CCCCCCcCCcCccceEE
Confidence 344444555554 899999621 12468999998755443
No 71
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=27.22 E-value=64 Score=28.78 Aligned_cols=36 Identities=11% Similarity=0.091 Sum_probs=28.6
Q ss_pred CCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchh
Q 042367 347 NFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEG 390 (428)
Q Consensus 347 ~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G 390 (428)
...|..||.-- +..|.+.+++.|-+|.++++.+-.-
T Consensus 64 g~~C~~Cg~C~--------Ig~l~~lae~~g~~v~i~~Ggt~ar 99 (158)
T PF01976_consen 64 GYNCKRCGKCD--------IGDLKKLAEKYGYKVYIATGGTLAR 99 (158)
T ss_pred CCcCCCCCCCc--------hhHHHHHHHHcCCEEEEEcChHHHH
Confidence 34688888552 6679999999999999999887543
No 72
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=26.64 E-value=42 Score=28.11 Aligned_cols=25 Identities=4% Similarity=-0.104 Sum_probs=15.7
Q ss_pred eecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
++|++|+... .+ ......||.||+.
T Consensus 71 ~~C~~Cg~~~----~~----~~~~~~CP~Cgs~ 95 (113)
T PRK12380 71 AWCWDCSQVV----EI----HQHDAQCPHCHGE 95 (113)
T ss_pred EEcccCCCEE----ec----CCcCccCcCCCCC
Confidence 6999999521 01 1123469999975
No 73
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=26.49 E-value=33 Score=20.16 Aligned_cols=10 Identities=0% Similarity=-0.270 Sum_probs=7.1
Q ss_pred CCCCcccccc
Q 042367 347 NFKDSAAASD 356 (428)
Q Consensus 347 ~~~c~~~g~~ 356 (428)
...||.||.+
T Consensus 13 ~~fC~~CG~~ 22 (23)
T PF13240_consen 13 AKFCPNCGTP 22 (23)
T ss_pred CcchhhhCCc
Confidence 3468888865
No 74
>TIGR02487 NrdD anaerobic ribonucleoside-triphosphate reductase. This model represents the oxygen-sensitive (anaerobic, class III) ribonucleotide reductase. The mechanism of the enzyme involves a glycine-centered radical, a C-terminal zinc binding site, and a set of conserved active site cysteines and asparagines. This enzyme requires an activating component, NrdG, a radical-SAM domain containing enzyme (TIGR02491). Together the two form an alpha-2/beta-2 heterodimer.
Probab=26.01 E-value=67 Score=34.91 Aligned_cols=37 Identities=19% Similarity=-0.003 Sum_probs=22.0
Q ss_pred HHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 303 LEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 303 l~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
.+.| +.=.=+.-.+. +|.+||... +.....||.||..
T Consensus 511 ~~~~-i~Y~~~n~~~~------~C~~CG~~g----------~~~~~~CP~Cgs~ 547 (579)
T TIGR02487 511 MKNG-IGYFGINPPVD------VCEDCGYTG----------EGLNDKCPKCGSH 547 (579)
T ss_pred HhcC-CceEEeccCCc------cCCCCCCCC----------CCCCCcCcCCCCc
Confidence 3444 55555555555 899999621 1112579999954
No 75
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=25.31 E-value=63 Score=36.82 Aligned_cols=48 Identities=19% Similarity=0.094 Sum_probs=31.5
Q ss_pred cceeecCCCCceEEEecccccccCCC--CCCCccccccchhh----hhhcHHHHHHHHHHhcCC
Q 042367 321 RYELKQSVTNGIVIKHLNKKQEAEPS--NFKDSAAASDLKVE----GKMGLLEWLVDHYKQFGC 378 (428)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~c~~~g~~~~~~----~~~~~v~~L~~~a~~~ga 378 (428)
|+.+||..|+. +| ++. ...||.||+.+..+ ....+++--.+.|.+++.
T Consensus 1010 rQ~fRC~kC~~---kY-------RR~PL~G~C~kCGg~lilTV~~GsV~KYl~~s~~la~~Y~v 1063 (1095)
T TIGR00354 1010 RQEVRCTKCNT---KY-------RRIPLVGKCLKCGNNLTLTVSKGSVMKYLELSKFLAENYNV 1063 (1095)
T ss_pred ccceeecccCC---cc-------ccCCCCCcccccCCeEEEEEecchhHhhHHHHHHHHHHcCc
Confidence 55689999994 22 222 23799999987655 444556656666666665
No 76
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=25.28 E-value=65 Score=37.10 Aligned_cols=58 Identities=22% Similarity=0.111 Sum_probs=33.2
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHHHhcCCEEEEECCCCchhhh
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHYKQFGCSLEIVTDKSQEGSQ 392 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a~~~ga~V~ivs~~~~~G~q 392 (428)
++||.+|+.-. . + ....||.||.+. +......++.|=+.|.+. -+|.|-.++..+|+.
T Consensus 694 IKrC~dcg~q~---~------~-~~~~cP~Cgs~~-v~d~~~~ve~lRelA~Ev-DeVlIgTDPDtEGEK 751 (1187)
T COG1110 694 IKRCRDCGEQF---V------D-SEDKCPRCGSRN-VEDKTETVEALRELALEV-DEILIGTDPDTEGEK 751 (1187)
T ss_pred HHHHhhcCcee---c------c-ccccCCCCCCcc-ccccHHHHHHHHHHHhhc-CEEEEcCCCCCccch
Confidence 47899999621 1 1 123799999853 223344466444444433 245566666667876
No 77
>CHL00181 cbbX CbbX; Provisional
Probab=25.03 E-value=3.9e+02 Score=26.06 Aligned_cols=86 Identities=12% Similarity=0.124 Sum_probs=44.8
Q ss_pred eEEEecChhhHHHHhhcCCCChhhhcceeEEEECCCCCCccHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCceE
Q 042367 214 GLILAGSAEFKTELSQSGMFDPCLMAKILKVLDISYGGVSGFNQAIELSSDVIANVNVLKEKRVIGKFFEEIGQDTGKFV 293 (428)
Q Consensus 214 ~iVlaGpg~~k~~f~~~~~l~~~l~~~vi~~v~~~~~~~~gl~Evl~~~~~~l~~~~~~~e~~ll~~f~~~l~~~~g~a~ 293 (428)
.||++|.....+.|. .+++.+++|+-..+..+.-. ..|+.+-....+++....-..+..+.+...+.+..+...
T Consensus 163 ~vI~ag~~~~~~~~~---~~np~L~sR~~~~i~F~~~t---~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~ 236 (287)
T CHL00181 163 VVIFAGYKDRMDKFY---ESNPGLSSRIANHVDFPDYT---PEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPL 236 (287)
T ss_pred EEEEeCCcHHHHHHH---hcCHHHHHhCCceEEcCCcC---HHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCC
Confidence 577777666566666 34677888864444544432 334444444444443322223334444444443323346
Q ss_pred ec-HHHHHHHHHc
Q 042367 294 VG-VDDSVKALEM 305 (428)
Q Consensus 294 yG-~~~V~~Al~~ 305 (428)
+| ..++...++.
T Consensus 237 ~GNaR~vrn~ve~ 249 (287)
T CHL00181 237 FANARSVRNALDR 249 (287)
T ss_pred CccHHHHHHHHHH
Confidence 77 5666666543
No 78
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=24.68 E-value=49 Score=27.77 Aligned_cols=27 Identities=11% Similarity=-0.114 Sum_probs=15.9
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
.++|.+|+... ..+ ......||.||+.
T Consensus 70 ~~~C~~Cg~~~---~~~----~~~~~~CP~Cgs~ 96 (114)
T PRK03681 70 ECWCETCQQYV---TLL----TQRVRRCPQCHGD 96 (114)
T ss_pred EEEcccCCCee---ecC----CccCCcCcCcCCC
Confidence 36999999521 000 1112569999975
No 79
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=24.62 E-value=49 Score=27.78 Aligned_cols=26 Identities=12% Similarity=-0.020 Sum_probs=16.5
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
.++|++|+... .+ ......||.||+.
T Consensus 70 ~~~C~~Cg~~~----~~----~~~~~~CP~Cgs~ 95 (115)
T TIGR00100 70 ECECEDCSEEV----SP----EIDLYRCPKCHGI 95 (115)
T ss_pred EEEcccCCCEE----ec----CCcCccCcCCcCC
Confidence 36999999521 11 1123579999976
No 80
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=24.08 E-value=74 Score=36.29 Aligned_cols=39 Identities=15% Similarity=-0.068 Sum_probs=26.2
Q ss_pred HHHHHHHHcc-CccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 297 DDSVKALEMG-AIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 297 ~~V~~Al~~G-aV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
..+.+|.+.| .|+.=+ . ..+||+|+... -...||.||+.
T Consensus 607 R~i~~A~~~g~~i~vev-~--------~RKCPkCG~yT------------lk~rCP~CG~~ 646 (1095)
T TIGR00354 607 RDIKNAINYTKEIEVEI-A--------IRKCPQCGKES------------FWLKCPVCGEL 646 (1095)
T ss_pred hhHHHHhccCCeeEEEE-E--------EEECCCCCccc------------ccccCCCCCCc
Confidence 5689999888 442222 1 13999999621 23579999987
No 81
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.95 E-value=53 Score=27.68 Aligned_cols=26 Identities=8% Similarity=-0.098 Sum_probs=15.2
Q ss_pred eecCCCCceEEEecccccccCCCCCCCcccccc
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASD 356 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~ 356 (428)
++|.+|+... .+. ......||.||+.
T Consensus 72 ~~C~~Cg~~~----~~~---~~~~~~CP~Cgs~ 97 (117)
T PRK00564 72 LECKDCSHVF----KPN---ALDYGVCEKCHSK 97 (117)
T ss_pred EEhhhCCCcc----ccC---CccCCcCcCCCCC
Confidence 6999998511 110 1112359999975
No 82
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=23.10 E-value=1.7e+02 Score=24.30 Aligned_cols=52 Identities=13% Similarity=0.212 Sum_probs=37.2
Q ss_pred ecHHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHHHHHHHHH
Q 042367 294 VGVDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLLEWLVDHY 373 (428)
Q Consensus 294 yG~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v~~L~~~a 373 (428)
-|+...+++++.|.+++|+|.+--... |.+ .. .-.+++..
T Consensus 52 ~~~~~ll~~~~~~~~d~ivv~~~~Rl~----R~~-----------------------------------~~-~~~~~~~l 91 (137)
T cd00338 52 PGLQRLLADVKAGKIDVVLVEKLDRLS----RNL-----------------------------------VD-LLELLELL 91 (137)
T ss_pred HHHHHHHHHHHcCCCCEEEEEecchhh----CCH-----------------------------------HH-HHHHHHHH
Confidence 478899999999999999987644311 211 12 33478888
Q ss_pred HhcCCEEEEECC
Q 042367 374 KQFGCSLEIVTD 385 (428)
Q Consensus 374 ~~~ga~V~ivs~ 385 (428)
...|..|.++..
T Consensus 92 ~~~gi~l~~~~~ 103 (137)
T cd00338 92 EAHGVRVVTADG 103 (137)
T ss_pred HHCCCEEEEecC
Confidence 889999998873
No 83
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=22.72 E-value=27 Score=34.94 Aligned_cols=34 Identities=6% Similarity=0.035 Sum_probs=20.7
Q ss_pred eecCCCCceEEEecccccccCCCCCCCccccccchhhhhhcHH
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVEGKMGLL 366 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~v 366 (428)
++|++|.. |+. + -....||.||.+.+...+..++
T Consensus 58 ~kC~~c~~-------~~~-y-~~~~~C~~cg~~~~l~R~VSfV 91 (415)
T COG5257 58 YKCPECYR-------PEC-Y-TTEPKCPNCGAETELVRRVSFV 91 (415)
T ss_pred EeCCCCCC-------Ccc-c-ccCCCCCCCCCCccEEEEEEEe
Confidence 69999974 111 0 1235699999887655444333
No 84
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=22.04 E-value=64 Score=21.13 Aligned_cols=31 Identities=3% Similarity=0.005 Sum_probs=19.7
Q ss_pred eecCCCCceEEEecccccccCC-CCCCCcccccc
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEP-SNFKDSAAASD 356 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~-~~~~c~~~g~~ 356 (428)
..|++|+. ...+..+.++.. ....|+.||..
T Consensus 3 i~Cp~C~~--~y~i~d~~ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 3 ITCPNCQA--KYEIDDEKIPPKGRKVRCSKCGHV 34 (36)
T ss_pred EECCCCCC--EEeCCHHHCCCCCcEEECCCCCCE
Confidence 37888875 233566655543 35689999864
No 85
>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]
Probab=21.56 E-value=32 Score=35.80 Aligned_cols=28 Identities=7% Similarity=0.028 Sum_probs=17.2
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCccccccchhh
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVE 360 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~ 360 (428)
+|+|+.||..-...++| .| .||..++..
T Consensus 130 ~w~c~~cg~~iean~kp---------~c-~cg~~~~~~ 157 (593)
T COG2401 130 LWRCEKCGTIIEANTKP---------EC-KCGSHVHIL 157 (593)
T ss_pred EEecchhchhhhhcCCc---------cc-CCCCceEEE
Confidence 48999999632222222 48 788775544
No 86
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=21.50 E-value=46 Score=24.32 Aligned_cols=24 Identities=8% Similarity=-0.187 Sum_probs=16.1
Q ss_pred ecCCCCceEEEecccccccCCCCCCCccccccchhh
Q 042367 325 KQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVE 360 (428)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~ 360 (428)
.|++|+.-. . ...||.||+.....
T Consensus 7 ~C~~CgvYT-----------L-k~~CP~CG~~t~~~ 30 (56)
T PRK13130 7 KCPKCGVYT-----------L-KEICPVCGGKTKNP 30 (56)
T ss_pred ECCCCCCEE-----------c-cccCcCCCCCCCCC
Confidence 788888521 1 34699999876544
No 87
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=21.48 E-value=1.4e+02 Score=33.28 Aligned_cols=59 Identities=8% Similarity=-0.045 Sum_probs=30.8
Q ss_pred HhcCCCCceEec-----------HHHHHHHHHccCccEEEeeccCccccceeecCCCCceEEEecccccccCCCCCCCcc
Q 042367 284 EIGQDTGKFVVG-----------VDDSVKALEMGAIHTLIVWEDLDINRYELKQSVTNGIVIKHLNKKQEAEPSNFKDSA 352 (428)
Q Consensus 284 ~l~~~~g~a~yG-----------~~~V~~Al~~GaV~tLLv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~ 352 (428)
.+..| |-..|+ ++++++.+-.+ |-=.=|+-.+. +|++||.. ++.........||.
T Consensus 599 ~~~~G-G~I~yve~~~~~~n~~a~~~lv~~~~~~-i~Y~~in~~~~------~C~~CG~~------Ge~~~~~~~~~CP~ 664 (711)
T PRK09263 599 PLASG-GFIHYCEYPNLQHNLKALEAVWDYSYDR-VGYLGTNTPID------ECYECGFT------GEFECTEKGFTCPK 664 (711)
T ss_pred cccCC-eEEEEEecCCCcCCHHHHHHHHHHHHHC-CCeEEeCCCCc------ccCCCCCC------ccccCCCCCCcCcC
Confidence 34555 666663 33444443332 44444444444 99999962 22111112367999
Q ss_pred cccc
Q 042367 353 AASD 356 (428)
Q Consensus 353 ~g~~ 356 (428)
||..
T Consensus 665 CG~~ 668 (711)
T PRK09263 665 CGNH 668 (711)
T ss_pred CCCC
Confidence 9953
No 88
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=21.30 E-value=1.3e+02 Score=24.63 Aligned_cols=61 Identities=7% Similarity=0.061 Sum_probs=37.2
Q ss_pred eecCCCCceEEEecccccccCCCCCCCccccccchh-----hhhhcHHHHHHHHHHhcCCEEEEECCCC
Q 042367 324 LKQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKV-----EGKMGLLEWLVDHYKQFGCSLEIVTDKS 387 (428)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~-----~~~~~~v~~L~~~a~~~ga~V~ivs~~~ 387 (428)
+.|++|+...+. +.-.. ......||.||...+- .+..|++...++...+.-..+.+.....
T Consensus 22 f~CP~Cge~~v~-v~~~k--~~~h~~C~~CG~y~~~~V~~l~epIDVY~~wiD~~~eg~i~~~~~~~~~ 87 (99)
T PRK14892 22 FECPRCGKVSIS-VKIKK--NIAIITCGNCGLYTEFEVPSVYDEVDVYNKFIDLYLEGKIEIKERKNEE 87 (99)
T ss_pred eECCCCCCeEee-eecCC--CcceEECCCCCCccCEECCccccchhhHHHHHHHHHhcCCCccccCccc
Confidence 589999952211 00000 1123479999865322 2556888889999988877777666543
No 89
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.26 E-value=86 Score=36.03 Aligned_cols=49 Identities=16% Similarity=0.181 Sum_probs=0.0
Q ss_pred cceeecCCCCceEEEecccccccCCCCC--CCccccccchhh----hhhcHHHHHHHHHHhcCCE
Q 042367 321 RYELKQSVTNGIVIKHLNKKQEAEPSNF--KDSAAASDLKVE----GKMGLLEWLVDHYKQFGCS 379 (428)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~c~~~g~~~~~~----~~~~~v~~L~~~a~~~ga~ 379 (428)
++.+||..|+. -+++.++ .||.||+.+..+ ....+++--...|.+++..
T Consensus 1035 rQ~fRC~kC~~----------kYRR~PL~G~C~kCGg~lilTVh~GsV~KYl~~s~~la~~Y~v~ 1089 (1121)
T PRK04023 1035 RQEFRCTKCGA----------KYRRPPLSGKCPKCGGNLILTVHKGSVEKYLEVSKKLAEEYGVS 1089 (1121)
T ss_pred ccceeecccCc----------ccccCCCCCcCccCCCeEEEEEecchHHHHHHHHHHHHHHcCCh
No 90
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=21.22 E-value=83 Score=37.04 Aligned_cols=49 Identities=8% Similarity=0.008 Sum_probs=0.0
Q ss_pred cceeecCCCCceEEEecccccccCCCCC--CCccccccchhh----hhhcHHHHHHHHHHhcCCE
Q 042367 321 RYELKQSVTNGIVIKHLNKKQEAEPSNF--KDSAAASDLKVE----GKMGLLEWLVDHYKQFGCS 379 (428)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~c~~~g~~~~~~----~~~~~v~~L~~~a~~~ga~ 379 (428)
|+.+||..|+. -+++.++ .||.||+.+..+ ....+++--...|.+++..
T Consensus 1251 rQ~~RC~kC~~----------kyRR~PL~G~C~kCGg~iilTv~~Gsv~KYl~~a~~~~~~y~~~ 1305 (1337)
T PRK14714 1251 RQEFRCLKCGT----------KYRRMPLAGKCRKCGGRIILTVHEGSVEKYLDTAKMVATEYNVR 1305 (1337)
T ss_pred ccceeecccCc----------ccccCCCCCcccccCCeEEEEEecchHHHHHHHHHHHHHHcCch
No 91
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.82 E-value=62 Score=27.79 Aligned_cols=26 Identities=8% Similarity=-0.138 Sum_probs=18.0
Q ss_pred eecCCCCceEEEe-cccccccCCCCCCCccccccc
Q 042367 324 LKQSVTNGIVIKH-LNKKQEAEPSNFKDSAAASDL 357 (428)
Q Consensus 324 ~~~~~~~~~~~~~-~~~~~~~~~~~~~c~~~g~~~ 357 (428)
..|++|+. .|| | .+.+..||.||...
T Consensus 10 r~Cp~cg~--kFYDL------nk~p~vcP~cg~~~ 36 (129)
T TIGR02300 10 RICPNTGS--KFYDL------NRRPAVSPYTGEQF 36 (129)
T ss_pred ccCCCcCc--ccccc------CCCCccCCCcCCcc
Confidence 48999995 122 2 34567899999874
No 92
>TIGR00300 conserved hypothetical protein TIGR00300. All members of the family come from genome projects. A partial length search brings in two plant lysine-ketoglutarate reductase/saccharopine dehydrogenase bifunctional enzymes hitting the N-terminal region of the family.
Probab=20.62 E-value=1.8e+02 Score=29.82 Aligned_cols=38 Identities=11% Similarity=-0.050 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCcceEEEecChhh
Q 042367 180 SRLRVEKRHNYLREAAELATKCFIDPATSQPNVTGLILAGSAEF 223 (428)
Q Consensus 180 ~r~~ee~~~~f~~~Vae~l~~~~~~~~~~~~~~~~iVlaGpg~~ 223 (428)
.+.+|......|+++|+.+.+. +..+=+.++++||.-.
T Consensus 176 ~vS~E~p~~~~~~~ia~~lr~~------r~~gG~Iv~V~GPAvv 213 (407)
T TIGR00300 176 GVSSERPVETLIEQIAWEMYEI------RDKGGKIGVVAGPAVI 213 (407)
T ss_pred CCCcCCccHHHHHHHHHHHHHH------HHCCCCEEEEecCeEE
Confidence 3456777778899999999976 2346778999999753
No 93
>PRK00420 hypothetical protein; Validated
Probab=20.60 E-value=58 Score=27.36 Aligned_cols=29 Identities=10% Similarity=-0.095 Sum_probs=17.9
Q ss_pred ecCCCCceEEEecccccccCCCCCCCccccccchhh
Q 042367 325 KQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVE 360 (428)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~ 360 (428)
.||.|+. |-..-......||.||....+.
T Consensus 25 ~CP~Cg~-------pLf~lk~g~~~Cp~Cg~~~~v~ 53 (112)
T PRK00420 25 HCPVCGL-------PLFELKDGEVVCPVHGKVYIVK 53 (112)
T ss_pred CCCCCCC-------cceecCCCceECCCCCCeeeec
Confidence 7999984 1111122456899999876543
No 94
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=20.37 E-value=45 Score=24.54 Aligned_cols=24 Identities=21% Similarity=0.043 Sum_probs=15.6
Q ss_pred ecCCCCceEEEecccccccCCCCCCCccccccchhh
Q 042367 325 KQSVTNGIVIKHLNKKQEAEPSNFKDSAAASDLKVE 360 (428)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~ 360 (428)
+|++|+.- +.. ..||.||+...+.
T Consensus 7 kC~~cg~Y-----------TLk-e~Cp~CG~~t~~~ 30 (59)
T COG2260 7 KCPKCGRY-----------TLK-EKCPVCGGDTKVP 30 (59)
T ss_pred cCcCCCce-----------eec-ccCCCCCCccccC
Confidence 78888741 112 4699999875444
No 95
>PRK11823 DNA repair protein RadA; Provisional
Probab=20.28 E-value=55 Score=34.25 Aligned_cols=23 Identities=0% Similarity=-0.312 Sum_probs=14.9
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCccccc
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAAS 355 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~ 355 (428)
.|+|.+||+... +-...||.|+.
T Consensus 7 ~y~C~~Cg~~~~----------~~~g~Cp~C~~ 29 (446)
T PRK11823 7 AYVCQECGAESP----------KWLGRCPECGA 29 (446)
T ss_pred eEECCcCCCCCc----------ccCeeCcCCCC
Confidence 478999996211 11357999975
No 96
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=20.20 E-value=60 Score=34.12 Aligned_cols=23 Identities=9% Similarity=-0.207 Sum_probs=15.2
Q ss_pred eeecCCCCceEEEecccccccCCCCCCCccccc
Q 042367 323 ELKQSVTNGIVIKHLNKKQEAEPSNFKDSAAAS 355 (428)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~ 355 (428)
.|+|.+||+... +-...||.|+.
T Consensus 7 ~y~C~~Cg~~~~----------~~~g~Cp~C~~ 29 (454)
T TIGR00416 7 KFVCQHCGADSP----------KWQGKCPACHA 29 (454)
T ss_pred eEECCcCCCCCc----------cccEECcCCCC
Confidence 479999996211 11358999975
Done!