Query 041456
Match_columns 92
No_of_seqs 103 out of 1054
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 07:17:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041456.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041456hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0840 ATP-dependent Clp prot 100.0 3.5E-35 7.5E-40 222.7 8.7 82 9-90 77-158 (275)
2 COG0740 ClpP Protease subunit 100.0 6.3E-31 1.4E-35 193.4 9.1 88 2-89 4-92 (200)
3 PRK14513 ATP-dependent Clp pro 100.0 1.6E-30 3.4E-35 190.9 9.9 89 2-90 4-93 (201)
4 PRK14514 ATP-dependent Clp pro 100.0 1.4E-30 3.1E-35 193.5 9.6 89 2-90 31-120 (221)
5 PRK12552 ATP-dependent Clp pro 100.0 2.5E-30 5.3E-35 192.6 9.3 89 2-90 8-115 (222)
6 CHL00028 clpP ATP-dependent Cl 100.0 5.6E-30 1.2E-34 187.4 9.6 84 7-90 13-96 (200)
7 PRK12551 ATP-dependent Clp pro 100.0 8.6E-30 1.9E-34 186.1 9.8 89 2-90 2-91 (196)
8 TIGR00493 clpP ATP-dependent C 99.9 4.2E-26 9.1E-31 165.3 9.8 89 2-90 3-92 (191)
9 PRK00277 clpP ATP-dependent Cl 99.9 3.8E-25 8.3E-30 161.1 9.7 89 2-90 8-97 (200)
10 PRK12553 ATP-dependent Clp pro 99.9 1.5E-23 3.2E-28 153.6 9.7 89 2-90 12-101 (207)
11 PRK14512 ATP-dependent Clp pro 99.9 1.3E-23 2.9E-28 153.2 9.3 83 8-90 7-89 (197)
12 PF00574 CLP_protease: Clp pro 99.9 6E-24 1.3E-28 150.5 6.0 79 12-90 4-82 (182)
13 cd07017 S14_ClpP_2 Caseinolyti 99.8 3.7E-21 8.1E-26 136.3 8.5 74 16-89 1-74 (171)
14 cd07013 S14_ClpP Caseinolytic 99.8 5.4E-19 1.2E-23 124.7 7.7 65 25-89 1-65 (162)
15 cd07016 S14_ClpP_1 Caseinolyti 99.4 6E-13 1.3E-17 92.5 5.8 62 25-89 1-65 (160)
16 cd07020 Clp_protease_NfeD_1 No 99.1 3.4E-10 7.4E-15 81.1 7.0 62 26-88 3-64 (187)
17 cd07015 Clp_protease_NfeD Nodu 99.1 4.1E-10 9E-15 81.1 7.3 64 26-90 3-66 (172)
18 cd00394 Clp_protease_like Case 99.0 5.5E-10 1.2E-14 77.1 6.4 64 26-89 1-64 (161)
19 cd07021 Clp_protease_NfeD_like 98.5 7E-07 1.5E-11 64.3 7.0 61 26-87 3-63 (178)
20 cd07023 S49_Sppa_N_C Signal pe 98.0 1.6E-05 3.4E-10 57.4 5.9 65 26-90 4-72 (208)
21 COG0616 SppA Periplasmic serin 97.7 7.5E-05 1.6E-09 57.9 5.5 58 26-83 63-127 (317)
22 TIGR00706 SppA_dom signal pept 97.5 0.00026 5.7E-09 51.4 5.9 61 26-87 4-66 (207)
23 TIGR00705 SppA_67K signal pept 97.3 0.00043 9.3E-09 57.7 5.2 62 26-87 312-383 (584)
24 PF01972 SDH_sah: Serine dehyd 96.9 0.0024 5.2E-08 49.7 5.9 53 31-86 70-122 (285)
25 cd07022 S49_Sppa_36K_type Sign 96.7 0.0057 1.2E-07 44.5 5.9 53 35-87 24-78 (214)
26 cd07019 S49_SppA_1 Signal pept 96.6 0.0047 1E-07 44.9 4.8 64 27-90 5-76 (211)
27 PRK10949 protease 4; Provision 96.3 0.008 1.7E-07 50.8 5.3 62 26-87 330-401 (618)
28 PRK11778 putative inner membra 96.1 0.011 2.4E-07 46.7 4.8 54 26-79 94-148 (330)
29 cd07014 S49_SppA Signal peptid 95.9 0.02 4.2E-07 40.3 5.1 55 37-91 23-78 (177)
30 COG1030 NfeD Membrane-bound se 95.8 0.033 7.1E-07 45.7 6.4 60 25-85 29-88 (436)
31 cd07018 S49_SppA_67K_type Sign 94.7 0.064 1.4E-06 39.2 4.7 60 31-90 24-84 (222)
32 PF13510 Fer2_4: 2Fe-2S iron-s 56.6 4 8.7E-05 25.6 0.2 37 54-90 1-37 (82)
33 PRK06476 pyrroline-5-carboxyla 56.0 7.9 0.00017 28.4 1.7 47 31-77 182-235 (258)
34 KOG3093 5-formyltetrahydrofola 55.1 25 0.00054 26.3 4.2 43 37-79 30-72 (200)
35 PF14566 PTPlike_phytase: Inos 51.3 42 0.00091 23.0 4.7 54 25-79 92-149 (149)
36 PRK10949 protease 4; Provision 46.7 37 0.00079 29.1 4.5 47 36-82 95-142 (618)
37 PRK12491 pyrroline-5-carboxyla 45.0 11 0.00023 28.5 0.9 46 32-77 194-245 (272)
38 PF08154 NLE: NLE (NUC135) dom 44.7 68 0.0015 19.2 4.4 37 25-63 18-54 (65)
39 PRK06928 pyrroline-5-carboxyla 44.0 12 0.00027 27.9 1.2 45 32-76 195-245 (277)
40 TIGR02886 spore_II_AA anti-sig 41.9 71 0.0015 19.8 4.3 23 26-48 11-33 (106)
41 PF08496 Peptidase_S49_N: Pept 40.0 94 0.002 22.1 5.1 39 29-70 105-147 (155)
42 TIGR00705 SppA_67K signal pept 37.9 58 0.0013 27.5 4.3 48 35-82 75-123 (584)
43 PTZ00431 pyrroline carboxylate 36.3 20 0.00042 26.6 1.2 46 32-77 187-238 (260)
44 PF06883 RNA_pol_Rpa2_4: RNA p 34.2 63 0.0014 19.3 3.0 22 31-52 2-23 (58)
45 KOG0584 Serine/threonine prote 34.1 59 0.0013 28.3 3.8 42 37-78 148-195 (632)
46 TIGR00661 MJ1255 conserved hyp 33.0 54 0.0012 24.6 3.1 31 57-88 2-33 (321)
47 PF13839 PC-Esterase: GDSL/SGN 30.2 71 0.0015 22.6 3.2 32 15-46 4-38 (263)
48 PRK14640 hypothetical protein; 30.0 1.8E+02 0.0039 20.3 5.2 41 27-67 39-83 (152)
49 PF08616 SPA: Stabilization of 29.5 1.1E+02 0.0023 20.3 3.8 33 16-48 17-50 (113)
50 PRK14633 hypothetical protein; 28.9 1.8E+02 0.0039 20.3 5.0 37 31-67 42-80 (150)
51 TIGR00513 accA acetyl-CoA carb 28.5 3E+02 0.0065 21.8 7.1 44 23-68 122-165 (316)
52 PF08889 WbqC: WbqC-like prote 28.2 33 0.00073 25.3 1.3 15 68-82 197-211 (219)
53 TIGR00377 ant_ant_sig anti-ant 28.1 1.4E+02 0.0031 18.3 4.0 34 26-59 15-48 (108)
54 cd07041 STAS_RsbR_RsbS_like Su 27.9 73 0.0016 19.8 2.7 23 26-48 13-35 (109)
55 TIGR00515 accD acetyl-CoA carb 26.8 2.1E+02 0.0045 22.2 5.5 49 28-78 131-179 (285)
56 PRK14635 hypothetical protein; 26.4 2.1E+02 0.0045 20.2 5.0 37 31-67 48-85 (162)
57 KOG2971 RNA-binding protein re 26.4 21 0.00045 28.1 -0.1 35 53-87 112-148 (299)
58 PRK05724 acetyl-CoA carboxylas 26.2 3E+02 0.0065 21.8 6.3 44 23-68 122-165 (319)
59 PLN02958 diacylglycerol kinase 25.2 2.6E+02 0.0056 23.0 6.0 48 26-73 82-130 (481)
60 KOG3569 RAS signaling inhibito 25.1 83 0.0018 26.0 3.1 31 19-49 196-227 (425)
61 TIGR00049 Iron-sulfur cluster 24.8 1.8E+02 0.0038 18.3 4.1 32 33-66 2-33 (105)
62 TIGR00112 proC pyrroline-5-car 23.1 44 0.00096 24.6 1.1 46 32-77 174-225 (245)
63 cd01216 Fe65 Fe65 Phosphotyros 23.0 1.8E+02 0.0038 19.6 4.0 36 30-66 15-50 (123)
64 PRK07634 pyrroline-5-carboxyla 23.0 30 0.00066 24.7 0.2 43 32-75 196-244 (245)
65 cd01612 APG12_C Ubiquitin-like 22.9 2.1E+02 0.0046 18.2 4.5 39 22-63 15-53 (87)
66 PRK14632 hypothetical protein; 22.7 2.6E+02 0.0055 20.0 4.9 41 27-67 40-84 (172)
67 PF11964 SpoIIAA-like: SpoIIAA 22.5 2E+02 0.0043 17.6 4.0 49 27-77 5-55 (109)
68 KOG3439 Protein conjugation fa 22.3 1.8E+02 0.0039 20.0 3.9 40 22-64 44-83 (116)
69 PF13617 Lipoprotein_19: YnbE- 21.8 75 0.0016 19.3 1.7 12 51-62 23-34 (59)
70 TIGR01117 mmdA methylmalonyl-C 21.4 3.6E+02 0.0078 22.5 6.2 35 30-66 328-362 (512)
71 PRK14638 hypothetical protein; 21.3 2.9E+02 0.0064 19.2 5.1 42 26-67 40-86 (150)
72 PHA02857 monoglyceride lipase; 21.2 1.9E+02 0.0041 20.5 4.0 37 37-73 79-115 (276)
73 KOG0585 Ca2+/calmodulin-depend 21.0 73 0.0016 27.4 2.1 42 15-59 325-366 (576)
74 PF09804 DUF2347: Uncharacteri 20.9 1.4E+02 0.0031 23.0 3.5 34 16-50 177-211 (280)
75 PF13552 DUF4127: Protein of u 20.8 68 0.0015 26.6 1.9 38 32-69 278-315 (497)
76 cd02975 PfPDO_like_N Pyrococcu 20.8 2.4E+02 0.0052 18.0 5.4 46 32-79 2-48 (113)
77 cd01834 SGNH_hydrolase_like_2 20.7 2.3E+02 0.005 18.6 4.2 47 24-73 2-50 (191)
78 PRK06781 amidophosphoribosyltr 20.6 1.7E+02 0.0037 24.2 4.1 39 23-64 348-386 (471)
79 COG2256 MGS1 ATPase related to 20.5 61 0.0013 27.0 1.5 74 11-84 141-222 (436)
80 PF01039 Carboxyl_trans: Carbo 20.2 2.1E+02 0.0046 23.5 4.6 58 28-87 305-372 (493)
No 1
>KOG0840 consensus ATP-dependent Clp protease, proteolytic subunit [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.5e-35 Score=222.66 Aligned_cols=82 Identities=32% Similarity=0.524 Sum_probs=79.2
Q ss_pred CCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhccccccee
Q 041456 9 AWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINAS 88 (92)
Q Consensus 9 ~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~ 88 (92)
.+.++|.|++++|||+|||||+++|||++|+.+++|||||+++|++|||++|||||||++++|+||||||+|+++||.|+
T Consensus 77 rG~~~~~Di~s~LlreRIi~lg~~Idd~va~~viaqlL~Ld~ed~~K~I~lyINSPGG~vtaglAIYDtMq~ik~~V~Ti 156 (275)
T KOG0840|consen 77 RGRERPYDIYSRLLRERIVFLGQPIDDDVANLVIAQLLYLDSEDPKKPIYLYINSPGGSVTAGLAIYDTMQYIKPDVSTI 156 (275)
T ss_pred cCCCCcccHHHHHHHhheeeeCCcCcHHHHHHHHHHHHHhhccCCCCCeEEEEeCCCCccchhhhHHHHHHhhCCCceee
Confidence 33489999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ee
Q 041456 89 EY 90 (92)
Q Consensus 89 ~~ 90 (92)
|-
T Consensus 157 c~ 158 (275)
T KOG0840|consen 157 CV 158 (275)
T ss_pred eh
Confidence 94
No 2
>COG0740 ClpP Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.97 E-value=6.3e-31 Score=193.38 Aligned_cols=88 Identities=30% Similarity=0.486 Sum_probs=83.2
Q ss_pred cccc-cCCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhh
Q 041456 2 IPFT-SGTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFF 80 (92)
Q Consensus 2 ~~~~-~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~ 80 (92)
+|.. +.++.+.++.|+|++|+++|+|||+|+|++.+++.+++||++|++++|+|||+||||||||+|+||++|||+|++
T Consensus 4 ~~~~~e~~~~~~~~~di~s~llk~riI~l~g~I~~~~a~~i~aqll~Lea~~~~k~I~lyINSpGG~V~aG~AIydtm~~ 83 (200)
T COG0740 4 VPMVIEQTSRGERSYDIYSRLLKERIIFLGGEIEDHMANLIVAQLLFLEAEDPDKDIYLYINSPGGSVTAGLAIYDTMQF 83 (200)
T ss_pred CccccCcccCCCChhhHHHHhhhccEEEEeeeechHHHHHHHHHHHHHHhcCCCCCeEEEEeCCCcccchhHHHHHHHHh
Confidence 4555 555677888999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceee
Q 041456 81 QISSINASE 89 (92)
Q Consensus 81 v~~~v~t~~ 89 (92)
+++||.|+|
T Consensus 84 ik~~V~ti~ 92 (200)
T COG0740 84 IKPPVSTIC 92 (200)
T ss_pred cCCCeEEEE
Confidence 999999998
No 3
>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=99.97 E-value=1.6e-30 Score=190.92 Aligned_cols=89 Identities=21% Similarity=0.370 Sum_probs=83.4
Q ss_pred cccc-cCCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhh
Q 041456 2 IPFT-SGTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFF 80 (92)
Q Consensus 2 ~~~~-~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~ 80 (92)
+|.. +.++.++.|.|++++||++|++||+++|++++|++++++|+||+++++++||++|||||||++++|++|||+|++
T Consensus 4 ~p~~~~~~~~~~~~~d~~~~l~~~Riifl~~~i~~~~a~~ii~~Ll~L~~~~~~~~I~l~INSpGG~v~~GlaIyd~m~~ 83 (201)
T PRK14513 4 IPYVIEQTGRGERMYDIYSRLLKDRIIFVGTPIESQMANTIVAQLLLLDSQNPEQEIQMYINCPGGEVYAGLAIYDTMRY 83 (201)
T ss_pred CCcccccCCCCccccCHHHHHhhCCEEEECCEEcHHHHHHHHHHHHHhhccCCCCCEEEEEECCCCchhhHHHHHHHHHh
Confidence 4654 556667789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceeee
Q 041456 81 QISSINASEY 90 (92)
Q Consensus 81 v~~~v~t~~~ 90 (92)
++++|.|+|.
T Consensus 84 ~~~~V~Ti~~ 93 (201)
T PRK14513 84 IKAPVSTICV 93 (201)
T ss_pred cCCCEEEEEE
Confidence 9999999985
No 4
>PRK14514 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=99.97 E-value=1.4e-30 Score=193.52 Aligned_cols=89 Identities=25% Similarity=0.315 Sum_probs=83.5
Q ss_pred ccc-ccCCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhh
Q 041456 2 IPF-TSGTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFF 80 (92)
Q Consensus 2 ~~~-~~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~ 80 (92)
+|. ++++..+++|.|++++||++|+|||+++||+++|+++++||+||+++++++||++|||||||++++|++|||+|++
T Consensus 31 ~p~~~~~~~~~~~~~d~~~~ll~~Riifl~~~Idd~~a~~i~aqLl~L~~~~~~~~I~lyINSpGGsv~aGlaIyd~m~~ 110 (221)
T PRK14514 31 NPYILEERQLNVTQMDVFSRLMMDRIIFLGTQIDDYTANTIQAQLLYLDSVDPGKDISIYINSPGGSVYAGLGIYDTMQF 110 (221)
T ss_pred cceeeeeCCCCCcccCHHHHHhhCcEEEECCEEcHHHHHHHHHHHHHHhccCCCCCEEEEEECCCcchhhHHHHHHHHHh
Confidence 453 3566677899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceeee
Q 041456 81 QISSINASEY 90 (92)
Q Consensus 81 v~~~v~t~~~ 90 (92)
+++||.|+|.
T Consensus 111 ~~~~V~tv~~ 120 (221)
T PRK14514 111 ISSDVATICT 120 (221)
T ss_pred cCCCEEEEEE
Confidence 9999999984
No 5
>PRK12552 ATP-dependent Clp protease-like protein; Reviewed
Probab=99.97 E-value=2.5e-30 Score=192.56 Aligned_cols=89 Identities=42% Similarity=0.774 Sum_probs=84.7
Q ss_pred cccccCCCCCCCCcchHHhhhcCceEEeCcccCHH----------HHHHHHHHHHHhhhcCCCCCeEEEEeCCCCc----
Q 041456 2 IPFTSGTAWEQPPPDLASYLYKNRIVYLGMSFVPS----------VRELILAEFLYLQYEDAEKPIYLYLNSTGTT---- 67 (92)
Q Consensus 2 ~~~~~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~----------~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~---- 67 (92)
+||......++.|.|++++||++|+|||+++|+++ +|+++++|||||+.+|+++||++|||||||+
T Consensus 8 ~~~~~~~~~~~~~~d~~~~Ll~~Rii~l~~~i~~~~~~~~~~~~~~a~~iiaqLl~L~~~~~~k~I~lyINSpGGsv~~G 87 (222)
T PRK12552 8 APYYGDAVMRTPPPDLPSLLLKERIVYLGLPLFSDDDAKRQVGMDVTELIIAQLLYLEFDDPEKPIYFYINSTGTSWYTG 87 (222)
T ss_pred ccccCCCCCCCCCcCHHHHHhhCCEEEECCeeccccccccchhHhHHHHHHHHHHHHhccCCCCCEEEEEeCCCCCcccc
Confidence 68887777888999999999999999999999999 9999999999999999999999999999988
Q ss_pred -----chhhhhHHHHHhhcccccceeee
Q 041456 68 -----EVGSFLCHALVFFQISSINASEY 90 (92)
Q Consensus 68 -----v~aglaIyD~m~~v~~~v~t~~~ 90 (92)
+++|++|||+|++++++|.|+|.
T Consensus 88 ~~iG~v~~glaIyD~m~~ik~~V~Tv~~ 115 (222)
T PRK12552 88 DAIGFETEAFAICDTMRYIKPPVHTICI 115 (222)
T ss_pred ccccccccHHHHHHHHHhcCCCeEEEEE
Confidence 67889999999999999999985
No 6
>CHL00028 clpP ATP-dependent Clp protease proteolytic subunit
Probab=99.96 E-value=5.6e-30 Score=187.45 Aligned_cols=84 Identities=21% Similarity=0.389 Sum_probs=80.6
Q ss_pred CCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccc
Q 041456 7 GTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSIN 86 (92)
Q Consensus 7 ~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~ 86 (92)
.+..+.+|.|++++||++|+|||+++||+++++++++||+||+++|++++|++|||||||++++|++|||+|++++++|.
T Consensus 13 ~~~~~~~~~d~~~~l~~~Riifl~~~i~~~~a~~ii~~ll~L~~~~~~~~I~l~INSpGG~v~~g~aIyd~m~~~~~~V~ 92 (200)
T CHL00028 13 PGEEDATWVDLYNRLYRERLLFLGQEVDDEIANQLIGLMVYLSIEDDTKDLYLFINSPGGSVISGLAIYDTMQFVKPDVH 92 (200)
T ss_pred CCCCCcccccHHHHHhcCCEEEECCeecHHHHHHHHHHHHHHhccCCCCCEEEEEeCCCcchhhHHHHHHHHHhcCCCEE
Confidence 35667899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeee
Q 041456 87 ASEY 90 (92)
Q Consensus 87 t~~~ 90 (92)
|+|.
T Consensus 93 Tv~~ 96 (200)
T CHL00028 93 TICL 96 (200)
T ss_pred EEEE
Confidence 9985
No 7
>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=99.96 E-value=8.6e-30 Score=186.10 Aligned_cols=89 Identities=27% Similarity=0.423 Sum_probs=83.3
Q ss_pred ccc-ccCCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhh
Q 041456 2 IPF-TSGTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFF 80 (92)
Q Consensus 2 ~~~-~~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~ 80 (92)
+|. ++.+..++.+.|++++||++|+|||+++||+++|++++++|+||+++++++||++|||||||++++|++|||+|++
T Consensus 2 ~p~~~~~~~~~~~~~d~~~~l~~~Riifl~~~i~~~~a~~ii~~Ll~l~~~~~~~~I~l~INSpGG~v~~g~aIyd~m~~ 81 (196)
T PRK12551 2 IPIVIEESGRGERAFDIYSRLLRERIIFLGEPVTSDSANRIVAQLLFLEAEDPEKDIYLYINSPGGSVYDGLGIFDTMQH 81 (196)
T ss_pred CCcccccCCCCccccCHHHHHhcCcEEEECCeecHHHHHHHHHHHHHhhccCCCCCEEEEEeCCCcchhhHHHHHHHHHh
Confidence 564 3556667788999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceeee
Q 041456 81 QISSINASEY 90 (92)
Q Consensus 81 v~~~v~t~~~ 90 (92)
++++|.|+|.
T Consensus 82 ~~~~V~t~~~ 91 (196)
T PRK12551 82 VKPDVHTVCV 91 (196)
T ss_pred cCCCEEEEEE
Confidence 9999999984
No 8
>TIGR00493 clpP ATP-dependent Clp protease, proteolytic subunit ClpP. This model for the proteolytic subunit ClpP has been rebuilt to a higher stringency. In every bacterial genome with the ClpXP machine, a ClpP protein will be found that scores with this model. In general, this ClpP member will be encoded adjacent to the clpX gene, as were all examples used in the seed alignment. A large fraction of genomes have one or more additional ClpP paralogs, sometimes encoded nearby and sometimes elsewhere. The stringency of the trusted cutoff used here excludes the more divergent ClpP paralogs from being called authentic ClpP by this model.
Probab=99.93 E-value=4.2e-26 Score=165.25 Aligned_cols=89 Identities=33% Similarity=0.463 Sum_probs=83.4
Q ss_pred ccc-ccCCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhh
Q 041456 2 IPF-TSGTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFF 80 (92)
Q Consensus 2 ~~~-~~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~ 80 (92)
+|- ++.+..++.|.|++++|+++|+|||+|+|+++++++++++|++|+.++++++|++|||||||++++|++|||+|++
T Consensus 3 ~p~~~~~~~~~~~~~d~~~~l~~~riI~l~g~I~~~~~~~ii~~L~~l~~~~~~~~i~l~InSpGG~v~~g~~I~d~l~~ 82 (191)
T TIGR00493 3 IPMVIEQTGRGERSFDIYSRLLKERIIFLSGEVNDSVANLIVAQLLFLEAEDPEKDIYLYINSPGGSITAGLAIYDTMQF 82 (191)
T ss_pred CCcccccCCCCcccccHHHHHhcCeEEEEccEEChHHHHHHHHHHHHhhccCCCCCEEEEEECCCCCHHHHHHHHHHHHh
Confidence 563 4666777899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceeee
Q 041456 81 QISSINASEY 90 (92)
Q Consensus 81 v~~~v~t~~~ 90 (92)
.+++|.|+|.
T Consensus 83 ~~~~v~t~~~ 92 (191)
T TIGR00493 83 IKPDVSTICI 92 (191)
T ss_pred cCCCEEEEEE
Confidence 9999999985
No 9
>PRK00277 clpP ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=99.92 E-value=3.8e-25 Score=161.05 Aligned_cols=89 Identities=29% Similarity=0.475 Sum_probs=82.3
Q ss_pred cccc-cCCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhh
Q 041456 2 IPFT-SGTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFF 80 (92)
Q Consensus 2 ~~~~-~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~ 80 (92)
+|+. ......+.|.|++++|+++|+|||+|+|+++++++++++|++|+.++++++|++|||||||++++|++|||+|++
T Consensus 8 ~p~~~~~~~~~~~~~~~~~~l~~~rii~i~g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~InSpGG~v~~g~~I~d~i~~ 87 (200)
T PRK00277 8 VPMVIEQTSRGERSYDIYSRLLKERIIFLGGEVEDHMANLIVAQLLFLEAEDPDKDIYLYINSPGGSVTAGLAIYDTMQF 87 (200)
T ss_pred CceeeccCCCCcccccHHHHhhcCcEEEECCEECHHHHHHHHHHHHHhhccCCCCCEEEEEECCCCcHHHHHHHHHHHHh
Confidence 4654 345567899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceeee
Q 041456 81 QISSINASEY 90 (92)
Q Consensus 81 v~~~v~t~~~ 90 (92)
++++|.|++.
T Consensus 88 ~~~~v~t~~~ 97 (200)
T PRK00277 88 IKPDVSTICI 97 (200)
T ss_pred cCCCEEEEEE
Confidence 9999999873
No 10
>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=99.90 E-value=1.5e-23 Score=153.57 Aligned_cols=89 Identities=21% Similarity=0.319 Sum_probs=81.8
Q ss_pred ccc-ccCCCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhh
Q 041456 2 IPF-TSGTAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFF 80 (92)
Q Consensus 2 ~~~-~~~~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~ 80 (92)
+|. +.....+..+.|++++|+++|+|||+|+|+++++++++++|++++.+++.++|++|||||||++++|++|||+|+.
T Consensus 12 ~p~~~~~~~~~~~~~~~~~~l~~~r~I~l~g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~INSpGG~v~~g~~I~d~i~~ 91 (207)
T PRK12553 12 LPSFIERTSYGVKESDPYNKLFEERIIFLGGQVDDASANDVMAQLLVLESIDPDRDITLYINSPGGSVTAGDAIYDTIQF 91 (207)
T ss_pred CCcccccCCCCCccccHHHHHhcCeEEEEcceECHHHHHHHHHHHHHHHhCCCCCCEEEEEeCCCCcHHHHHHHHHHHHh
Confidence 554 3445556778999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceeee
Q 041456 81 QISSINASEY 90 (92)
Q Consensus 81 v~~~v~t~~~ 90 (92)
.+++|.|+|.
T Consensus 92 ~~~~v~t~~~ 101 (207)
T PRK12553 92 IRPDVQTVCT 101 (207)
T ss_pred cCCCcEEEEE
Confidence 9999999874
No 11
>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=99.90 E-value=1.3e-23 Score=153.17 Aligned_cols=83 Identities=18% Similarity=0.265 Sum_probs=78.0
Q ss_pred CCCCCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccce
Q 041456 8 TAWEQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINA 87 (92)
Q Consensus 8 ~~~~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t 87 (92)
.+......+++++|+++|+|||+|+|+++++++++++|++|+.+++.++|++|||||||++++|++|||+|+++++||.|
T Consensus 7 ~~~~~~~~~~~~~l~~~r~I~i~g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~INSpGG~v~ag~aI~d~i~~~~~~V~t 86 (197)
T PRK14512 7 DNKQTGIDKSLEKFLKSRSIVIAGEINKDLSELFQEKILLLEALDSKKPIFVYIDSEGGDIDAGFAIFNMIRFVKPKVFT 86 (197)
T ss_pred ccccCCcchHHHHHhcCcEEEECCEEcHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHHHHhCCCCEEE
Confidence 44556678999999999999999999999999999999999998889999999999999999999999999999999999
Q ss_pred eee
Q 041456 88 SEY 90 (92)
Q Consensus 88 ~~~ 90 (92)
+|.
T Consensus 87 ~v~ 89 (197)
T PRK14512 87 IGV 89 (197)
T ss_pred EEE
Confidence 874
No 12
>PF00574 CLP_protease: Clp protease; InterPro: IPR001907 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S14 (ClpP endopeptidase family, clan SK). ClpP is an ATP-dependent protease that cleaves a number of proteins, such as casein and albumin []. It exists as a heterodimer of ATP-binding regulatory A and catalytic P subunits, both of which are required for effective levels of protease activity in the presence of ATP [], although the P subunit alone does possess some catalytic activity. This family of sequences represent the P subunit. Proteases highly similar to ClpP have been found to be encoded in the genome of bacteria, metazoa, some viruses and in the chloroplast of plants. A number of the proteins in this family are classified as non-peptidase homologues as they have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for catalytic activity. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 2ZL3_L 2ZL0_F 2ZL2_M 2ZL4_C 1TG6_D 2F6I_D 3V5I_b 3V5E_M 3QWD_D 2DEO_A ....
Probab=99.90 E-value=6e-24 Score=150.47 Aligned_cols=79 Identities=23% Similarity=0.345 Sum_probs=76.3
Q ss_pred CCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccceeee
Q 041456 12 QPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINASEY 90 (92)
Q Consensus 12 ~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~~~ 90 (92)
..|+|++++|+++|+|||+|+||+++++.++++|++|+.++++++|++|||||||++.+|++|||+|+.++.+|.|.+.
T Consensus 4 ~~~~~i~~~l~~~r~i~l~g~I~~~~~~~~~~~L~~l~~~~~~~~i~i~INSpGG~v~~g~~i~~~i~~~~~~v~t~~~ 82 (182)
T PF00574_consen 4 EEWYDIYSRLLNERIIFLNGPIDEESANRLISQLLYLENEDKNKPINIYINSPGGDVDAGLAIYDAIRSSKAPVTTVVL 82 (182)
T ss_dssp EEEEEHHHHHHTTTEEEEESSBSHHHHHHHHHHHHHHHHHTSSSEEEEEEEECEBCHHHHHHHHHHHHHSSSEEEEEEE
T ss_pred cEEEeHHHHHhCCeEEEECCccCHHHHHHHHHHHHHHhccCCCceEEEEEcCCCCccHHHHHHHHHHHhcCCCeEEEEe
Confidence 4799999999999999999999999999999999999999999999999999999999999999999999999999864
No 13
>cd07017 S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activ
Probab=99.85 E-value=3.7e-21 Score=136.32 Aligned_cols=74 Identities=35% Similarity=0.576 Sum_probs=71.6
Q ss_pred chHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccceee
Q 041456 16 DLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINASE 89 (92)
Q Consensus 16 dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~~ 89 (92)
|++++|+++|+||++|+|+++++++++++|++++.+++.++|++|||||||++.+|++|||.|+..+.+|.|.+
T Consensus 1 ~~~~~l~~~r~i~i~g~I~~~~~~~i~~~l~~~~~~~~~~~i~l~inSpGG~v~~~~~i~~~l~~~~~~v~t~~ 74 (171)
T cd07017 1 DIYSRLLKERIIFLGGPIDDEVANLIIAQLLYLESEDPKKPIYLYINSPGGSVTAGLAIYDTMQYIKPPVSTIC 74 (171)
T ss_pred ChhHhhhcCcEEEEcCEEcHHHHHHHHHHHHHHHccCCCCceEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEE
Confidence 68999999999999999999999999999999999988899999999999999999999999999999999876
No 14
>cd07013 S14_ClpP Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. Additionally, they are implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of proteas
Probab=99.78 E-value=5.4e-19 Score=124.75 Aligned_cols=65 Identities=23% Similarity=0.281 Sum_probs=63.2
Q ss_pred ceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccceee
Q 041456 25 RIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINASE 89 (92)
Q Consensus 25 RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~~ 89 (92)
|+|||+|+|++.++++++++|++|+.+++.++|.+|||||||++++|++|||+|+.++++|.|++
T Consensus 1 r~i~i~g~I~~~~~~~~~~~L~~l~~~~~~~~i~l~InSpGG~v~~~~~i~~~i~~~~~~v~~~~ 65 (162)
T cd07013 1 REIMLTGEVEDISANQFAAQLLFLGAVNPEKDIYLYINSPGGDVFAGMAIYDTIKFIKADVVTII 65 (162)
T ss_pred CEEEEccEECcHHHHHHHHHHHHHhcCCCCCCEEEEEECCCCcHHHHHHHHHHHHhcCCCceEEE
Confidence 89999999999999999999999999999999999999999999999999999999999999875
No 15
>cd07016 S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. This subfamily only contains bacterial sequences. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which a
Probab=99.39 E-value=6e-13 Score=92.49 Aligned_cols=62 Identities=10% Similarity=0.016 Sum_probs=56.1
Q ss_pred ceEEeCcccCH---HHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccceee
Q 041456 25 RIVYLGMSFVP---SVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINASE 89 (92)
Q Consensus 25 RiifL~g~Id~---~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~~ 89 (92)
+.|+|+|+|++ .+++++.+.|.+++.+ ++|.||||||||++.+|++|+|.++.++.||.|..
T Consensus 1 ~~i~~~g~I~~~~~~~~~~~~~~l~~~~~~---~~i~l~inspGG~~~~~~~i~~~i~~~~~pvi~~v 65 (160)
T cd07016 1 AEIYIYGDIGSDWGVTAKEFKDALDALGDD---SDITVRINSPGGDVFAGLAIYNALKRHKGKVTVKI 65 (160)
T ss_pred CEEEEEeEeCCCcccCHHHHHHHHHhccCC---CCEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEE
Confidence 46899999999 8999999999987554 89999999999999999999999999988887754
No 16
>cd07020 Clp_protease_NfeD_1 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially c
Probab=99.09 E-value=3.4e-10 Score=81.09 Aligned_cols=62 Identities=5% Similarity=0.043 Sum_probs=55.0
Q ss_pred eEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhccccccee
Q 041456 26 IVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINAS 88 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~ 88 (92)
+|-|.|.|++..++.+.++|..++. ++.+.|.++||||||++.++..+++.|...+.||.+.
T Consensus 3 vv~i~g~I~~~~~~~l~~~l~~a~~-~~~~~vvl~InSpGG~v~~~~~i~~~l~~~~kPvia~ 64 (187)
T cd07020 3 VLEINGAITPATADYLERAIDQAEE-GGADALIIELDTPGGLLDSTREIVQAILASPVPVVVY 64 (187)
T ss_pred EEEEeeEEChHHHHHHHHHHHHHHh-CCCCEEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEE
Confidence 4678999999999999999999985 4478999999999999999999999998877777654
No 17
>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle
Probab=99.08 E-value=4.1e-10 Score=81.08 Aligned_cols=64 Identities=8% Similarity=-0.002 Sum_probs=54.7
Q ss_pred eEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccceeee
Q 041456 26 IVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINASEY 90 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~~~ 90 (92)
.+-+.|.|++..+..+...|-.-+ +++.++|.|+||||||++.++.+|||+|+..++||.|.++
T Consensus 3 vi~i~G~I~~~~~~~l~~~l~~A~-~~~~~~i~l~inSPGG~v~~~~~I~~~i~~~~~pvv~~v~ 66 (172)
T cd07015 3 VAQIKGQITSYTYDQFDRYITIAE-QDNAEAIIIELDTPGGRADAAGNIVQRIQQSKIPVIIYVY 66 (172)
T ss_pred EEEEeeEECHhHHHHHHHHHHHHh-cCCCCeEEEEEECCCCCHHHHHHHHHHHHhcCcCEEEEEe
Confidence 466789999988887777666543 4668999999999999999999999999999999998875
No 18
>cd00394 Clp_protease_like Caseinolytic protease (ClpP) is an ATP-dependent protease. Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradec
Probab=99.05 E-value=5.5e-10 Score=77.10 Aligned_cols=64 Identities=11% Similarity=0.123 Sum_probs=59.3
Q ss_pred eEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccceee
Q 041456 26 IVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINASE 89 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~~ 89 (92)
+|++.|+|++.+.+++++.|..++.+++-+.|.+++|||||++.++..++|+|+..+.||.+.+
T Consensus 1 vi~i~g~I~~~~~~~l~~~l~~a~~d~~~~~ivl~~~s~Gg~~~~~~~i~~~l~~~~kpvva~~ 64 (161)
T cd00394 1 VIFINGVIEDVSADQLAAQIRFAEADNSVKAIVLEVNTPGGRVDAGMNIVDALQASRKPVIAYV 64 (161)
T ss_pred CEEEEeEEccchHHHHHHHHHHHHhCCCCceEEEEEECCCcCHHHHHHHHHHHHHhCCCEEEEE
Confidence 5899999999999999999999998888899999999999999999999999999998877653
No 19
>cd07021 Clp_protease_NfeD_like Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentiall
Probab=98.46 E-value=7e-07 Score=64.28 Aligned_cols=61 Identities=8% Similarity=0.103 Sum_probs=50.2
Q ss_pred eEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccce
Q 041456 26 IVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSINA 87 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t 87 (92)
.|-+.|.|++..+..+...|-.... ++-+.|.++||||||.++++..|++.+...+.||.+
T Consensus 3 vi~i~g~I~~~~~~~l~~~l~~a~~-~~~~~ivl~inspGG~v~~~~~I~~~l~~~~~pvva 63 (178)
T cd07021 3 VIPIEGEIDPGLAAFVERALKEAKE-EGADAVVLDIDTPGGRVDSALEIVDLILNSPIPTIA 63 (178)
T ss_pred EEEEeeEECHHHHHHHHHHHHHHHh-CCCCeEEEEEECcCCCHHHHHHHHHHHHhCCCCEEE
Confidence 4668899999888877776665544 447899999999999999999999999987766544
No 20
>cd07023 S49_Sppa_N_C Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. This subfamily contains members with either a single domain (sometimes referred to as 36K type), such as sohB peptidase, protein C and archaeal signal peptide peptidase, or an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad
Probab=98.01 E-value=1.6e-05 Score=57.45 Aligned_cols=65 Identities=12% Similarity=0.040 Sum_probs=55.2
Q ss_pred eEEeCcccC---HHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhccc-ccceeee
Q 041456 26 IVYLGMSFV---PSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQIS-SINASEY 90 (92)
Q Consensus 26 iifL~g~Id---~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~-~v~t~~~ 90 (92)
++.+.|+|+ ..+..++...|..++.+++-+-|.+.+|||||++.++..++++++..+. +.-+++|
T Consensus 4 vi~i~g~i~~~~~~~~~~l~~~l~~a~~d~~i~~ivl~~~s~Gg~~~~~~~i~~~i~~~~~~~kpvia~ 72 (208)
T cd07023 4 VIDIEGTISDGGGIGADSLIEQLRKAREDDSVKAVVLRINSPGGSVVASEEIYREIRRLRKAKKPVVAS 72 (208)
T ss_pred EEEEEEEEcCCCCCCHHHHHHHHHHHHhCCCCcEEEEEEECCCCCHHHHHHHHHHHHHHHhcCCcEEEE
Confidence 578899999 7899999999999988777899999999999999999999999976643 4444554
No 21
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=97.71 E-value=7.5e-05 Score=57.91 Aligned_cols=58 Identities=17% Similarity=0.083 Sum_probs=47.4
Q ss_pred eEEeCcccCHHH-------HHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhccc
Q 041456 26 IVYLGMSFVPSV-------RELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQIS 83 (92)
Q Consensus 26 iifL~g~Id~~~-------a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~ 83 (92)
+|.+.|.|.... .+.+.+.|-.+...++.|.|-|.||||||++.++-.|++.++-.+.
T Consensus 63 vi~~~G~I~~~~~~~~~~~~~~~~~~l~~~~~~~~vk~vvL~inSPGG~v~as~~i~~~l~~l~~ 127 (317)
T COG0616 63 VIHVEGAIVAGGGPLRFIGGDDIEEILRAARADPSVKAVVLRINSPGGSVVASELIARALKRLRA 127 (317)
T ss_pred EEEeeeeeecCCCccccccHHHHHHHHHHHhcCCCCceEEEEEECcCCchhHHHHHHHHHHHHhh
Confidence 466677777544 5666666777777788999999999999999999999999987766
No 22
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=97.53 E-value=0.00026 Score=51.35 Aligned_cols=61 Identities=18% Similarity=0.063 Sum_probs=50.4
Q ss_pred eEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcc--cccce
Q 041456 26 IVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQI--SSINA 87 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~--~~v~t 87 (92)
+|.+.|.|+ ....++...|-.+...+.-+.|.|.+|||||++.++..+++.+...+ .||.+
T Consensus 4 vi~i~g~i~-~s~~~l~~~l~~a~~d~~i~~vvl~~~s~Gg~~~~~~~l~~~i~~~~~~kpvia 66 (207)
T TIGR00706 4 ILPVSGAIA-VSPEDFDKKIKRIKDDKSIKALLLRINSPGGTVVASEEIYEKLKKLKAKKPVVA 66 (207)
T ss_pred EEEEEEEEe-cCHHHHHHHHHHHhhCCCccEEEEEecCCCCCHHHHHHHHHHHHHhcCCCCEEE
Confidence 467788887 55678888888777666678899999999999999999999999987 55543
No 23
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=97.29 E-value=0.00043 Score=57.74 Aligned_cols=62 Identities=16% Similarity=0.085 Sum_probs=46.8
Q ss_pred eEEeCcccCHH-------HHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcc---cccce
Q 041456 26 IVYLGMSFVPS-------VRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQI---SSINA 87 (92)
Q Consensus 26 iifL~g~Id~~-------~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~---~~v~t 87 (92)
+|.+.|+|.+. ..+.+.+.|-.+..++.-|.|.|.||||||++.++..|++.+...+ .||.+
T Consensus 312 vI~~~G~I~~~~~~~~~~~~~~~~~~l~~a~~D~~VkaIVLrinSpGGs~~ase~i~~~i~~~~~~gKPVva 383 (584)
T TIGR00705 312 IVHLEGPIADGRDTEGNTGGDTVAALLRVARSDPDIKAVVLRINSPGGSVFASEIIRRELARAQARGKPVIV 383 (584)
T ss_pred EEEEEEEEcCCCCcccccCHHHHHHHHHHHhhCCCceEEEEEecCCCCCHHHHHHHHHHHHHHHhCCCcEEE
Confidence 89999999752 2455666665554444458999999999999999999999987554 45544
No 24
>PF01972 SDH_sah: Serine dehydrogenase proteinase; InterPro: IPR002825 This family of archaebacterial proteins, formerly known as DUF114, has been found to be a serine dehydrogenase proteinase distantly related to ClpP proteinases that belong to the serine proteinase superfamily. The family belong to MEROPS peptidase family S49; they are mostly unassigned peptidases but include the archaean signal peptide peptidase 1 []. The family has a catalytic triad of Ser, Asp, His residues, which shows an altered residue ordering compared with the ClpP proteinases but similar to that of the carboxypeptidase clan []. ; GO: 0016021 integral to membrane
Probab=96.94 E-value=0.0024 Score=49.70 Aligned_cols=53 Identities=13% Similarity=0.065 Sum_probs=41.6
Q ss_pred cccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcccccc
Q 041456 31 MSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSIN 86 (92)
Q Consensus 31 g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~ 86 (92)
..|+.+.++.+...+- ..+++++|-|.||+|||.+.|+..|-+.++--..++.
T Consensus 70 ~~I~i~dse~v~raI~---~~~~~~~IdLii~TpGG~v~AA~~I~~~l~~~~~~v~ 122 (285)
T PF01972_consen 70 RYIDIDDSEFVLRAIR---EAPKDKPIDLIIHTPGGLVDAAEQIARALREHPAKVT 122 (285)
T ss_pred eeEcHhhHHHHHHHHH---hcCCCCceEEEEECCCCcHHHHHHHHHHHHhCCCCEE
Confidence 4577778888755554 4466789999999999999999999999986555544
No 25
>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.
Probab=96.68 E-value=0.0057 Score=44.49 Aligned_cols=53 Identities=21% Similarity=0.102 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcc--cccce
Q 041456 35 PSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQI--SSINA 87 (92)
Q Consensus 35 ~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~--~~v~t 87 (92)
..+..++.+.|-.++..+.-+-|.+.+|||||++.+...+++++...+ .||.+
T Consensus 24 ~~~~~~l~~~l~~a~~d~~i~~Vvl~~~s~gg~~~~~~~l~~~l~~~~~~KpViA 78 (214)
T cd07022 24 LTSYEGIAAAIRAALADPDVRAIVLDIDSPGGEVAGVFELADAIRAARAGKPIVA 78 (214)
T ss_pred cccHHHHHHHHHHHhhCCCCcEEEEEEeCCCCcHHHHHHHHHHHHHHhcCCCEEE
Confidence 356789999999988777778899999999999999999999998887 55443
No 26
>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te
Probab=96.55 E-value=0.0047 Score=44.90 Aligned_cols=64 Identities=17% Similarity=0.085 Sum_probs=45.7
Q ss_pred EEeCcccCHHH-------HHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcc-cccceeee
Q 041456 27 VYLGMSFVPSV-------RELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQI-SSINASEY 90 (92)
Q Consensus 27 ifL~g~Id~~~-------a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~-~~v~t~~~ 90 (92)
|.+.|+|.+.. ..++...|-.++.++.-+-|.|.+|||||++.+...+++.++.++ ++.-+|.|
T Consensus 5 ~~~~g~i~~~~~~~~~~~~~~l~~~l~~a~~d~~v~~ivL~~~s~Gg~~~~~~~~~~~l~~~~~~~kpVia~ 76 (211)
T cd07019 5 VFANGAIVDGEETQGNVGGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVS 76 (211)
T ss_pred EEEEEEEeCCCCCCCccCHHHHHHHHHHHhhCCCceEEEEEEcCCCcCHHHHHHHHHHHHHHHhCCCCEEEE
Confidence 44555555433 367888888887666669999999999999999989999886553 34444444
No 27
>PRK10949 protease 4; Provisional
Probab=96.30 E-value=0.008 Score=50.80 Aligned_cols=62 Identities=15% Similarity=0.127 Sum_probs=50.5
Q ss_pred eEEeCcccCHH-------HHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcc---cccce
Q 041456 26 IVYLGMSFVPS-------VRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQI---SSINA 87 (92)
Q Consensus 26 iifL~g~Id~~-------~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~---~~v~t 87 (92)
+|.+.|.|.+. .++.++.+|-.....+.-|-|-|-||||||++.+...|++.+...+ .||..
T Consensus 330 vi~~~G~I~~g~~~~g~~~~~~~~~~l~~a~~D~~vkaVvLrInSpGGs~~ase~i~~~i~~~r~~gKPVva 401 (618)
T PRK10949 330 VIFANGAIMDGEETPGNVGGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVV 401 (618)
T ss_pred EEEEEEEEcCCCCcCCCcCHHHHHHHHHHHHhCCCCcEEEEEecCCCCcHHHHHHHHHHHHHHHhcCCcEEE
Confidence 67888888752 2567888888887777889999999999999999999999997664 45554
No 28
>PRK11778 putative inner membrane peptidase; Provisional
Probab=96.09 E-value=0.011 Score=46.74 Aligned_cols=54 Identities=17% Similarity=0.110 Sum_probs=33.9
Q ss_pred eEEeCcccCHHHHHHHHHHHHHh-hhcCCCCCeEEEEeCCCCcchhhhhHHHHHh
Q 041456 26 IVYLGMSFVPSVRELILAEFLYL-QYEDAEKPIYLYLNSTGTTEVGSFLCHALVF 79 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L-~~~d~~~~I~lyINSpGG~v~aglaIyD~m~ 79 (92)
+|-+.|.|+...+..+...+..+ ....+++.|.|-||||||++.+.-.+...+.
T Consensus 94 VI~~~G~I~~~~~~~l~e~i~a~l~~A~~~~aVvLridSpGG~v~~s~~a~~~l~ 148 (330)
T PRK11778 94 VLDFKGDIDASEVESLREEITAILAVAKPGDEVLLRLESPGGVVHGYGLAASQLQ 148 (330)
T ss_pred EEEEEEEECCCcchhhHHHHHHHHHhccCCCeEEEEEeCCCCchhHHHHHHHHHH
Confidence 45677999976654443333332 2223346799999999999987444444443
No 29
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=95.93 E-value=0.02 Score=40.32 Aligned_cols=55 Identities=16% Similarity=0.032 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcc-cccceeeec
Q 041456 37 VRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQI-SSINASEYI 91 (92)
Q Consensus 37 ~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~-~~v~t~~~~ 91 (92)
+.+.+...+-.++..+.-+-|.|-+|||||++.....+.+.+.-.+ ++.-+|+|+
T Consensus 23 ~~~~l~~~l~~a~~d~~v~~vvl~~~~~gg~~~~~~~~~~~i~~~~~~~kpVia~v 78 (177)
T cd07014 23 SGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVASG 78 (177)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEeeCCCcCHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence 4678888888887666667899999999999988888888775443 555556553
No 30
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.033 Score=45.69 Aligned_cols=60 Identities=8% Similarity=0.078 Sum_probs=50.9
Q ss_pred ceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhccccc
Q 041456 25 RIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQISSI 85 (92)
Q Consensus 25 RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v 85 (92)
..+-+.|+|++.+++.+...|-.-+.++ -..+-+.+|.|||.+++...|-..+.-...||
T Consensus 29 ~vi~i~g~I~~~s~~~l~r~l~~A~~~~-a~~vvl~ldTPGGl~~sm~~iv~~i~~s~vPV 88 (436)
T COG1030 29 YVIEIDGAIDPASADYLQRALQSAEEEN-AAAVVLELDTPGGLLDSMRQIVRAILNSPVPV 88 (436)
T ss_pred EEEEecCccCHHHHHHHHHHHHHHHhCC-CcEEEEEecCCCchHHHHHHHHHHHHcCCCCE
Confidence 5788999999999999998887554433 57899999999999999999999998777774
No 31
>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys
Probab=94.75 E-value=0.064 Score=39.23 Aligned_cols=60 Identities=13% Similarity=-0.124 Sum_probs=47.1
Q ss_pred cccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHhhcc-cccceeee
Q 041456 31 MSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVFFQI-SSINASEY 90 (92)
Q Consensus 31 g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~~v~-~~v~t~~~ 90 (92)
+.-+......++..|-.+...+.-+-|-|.+|||||++.+...+++.++-.+ ++.-+++|
T Consensus 24 ~~~~~~~~~~l~~~l~~a~~d~~ik~vvL~~~s~gg~~~~~~el~~~i~~~~~~~kpVia~ 84 (222)
T cd07018 24 GESSELSLRDLLEALEKAAEDDRIKGIVLDLDGLSGGLAKLEELRQALERFRASGKPVIAY 84 (222)
T ss_pred CCcCCccHHHHHHHHHHHhcCCCeEEEEEECCCCCCCHHHHHHHHHHHHHHHHhCCeEEEE
Confidence 4445667889999999887766678899999999999999999999997665 33333444
No 32
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=56.58 E-value=4 Score=25.59 Aligned_cols=37 Identities=8% Similarity=-0.035 Sum_probs=26.3
Q ss_pred CCCeEEEEeCCCCcchhhhhHHHHHhhcccccceeee
Q 041456 54 EKPIYLYLNSTGTTEVGSFLCHALVFFQISSINASEY 90 (92)
Q Consensus 54 ~~~I~lyINSpGG~v~aglaIyD~m~~v~~~v~t~~~ 90 (92)
+++|+++||--==.+.+|.+|++++.....++-+.||
T Consensus 1 ~~~v~i~idG~~v~~~~G~til~al~~~gi~ip~~c~ 37 (82)
T PF13510_consen 1 DKMVTITIDGKPVEVPPGETILEALLAAGIDIPRLCY 37 (82)
T ss_dssp -EEEEEEETTEEEEEEET-BHHHHHHHTT--B-EETT
T ss_pred CCEEEEEECCEEEEEcCCCHHHHHHHHCCCeEEEeee
Confidence 3578888886555678999999999998888888876
No 33
>PRK06476 pyrroline-5-carboxylate reductase; Reviewed
Probab=56.01 E-value=7.9 Score=28.38 Aligned_cols=47 Identities=6% Similarity=-0.021 Sum_probs=33.8
Q ss_pred cccCHHHHHHHHHHHHH------hhhc-CCCCCeEEEEeCCCCcchhhhhHHHH
Q 041456 31 MSFVPSVRELILAEFLY------LQYE-DAEKPIYLYLNSTGTTEVGSFLCHAL 77 (92)
Q Consensus 31 g~Id~~~a~~ii~~Ll~------L~~~-d~~~~I~lyINSpGG~v~aglaIyD~ 77 (92)
.-++++.+.+++.+++. +... .+-.++.=-+.||||.-.+|+..++.
T Consensus 182 ~Gl~~~~a~~~~~~~~~G~~~l~~~~~~~~~~~l~~~v~spgGtT~~gl~~le~ 235 (258)
T PRK06476 182 QGLKRQKARAYLAPLFASLAQDAVRSTKTDFSALSREFSTKGGLNEQVLNDFSR 235 (258)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHhCCCCCchHHHHHHHHHH
Confidence 35678888888888876 3333 22244556679999999999988765
No 34
>KOG3093 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=55.10 E-value=25 Score=26.33 Aligned_cols=43 Identities=14% Similarity=0.099 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHHh
Q 041456 37 VRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALVF 79 (92)
Q Consensus 37 ~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m~ 79 (92)
-...+.++.+.+.--...|.+.+|+|.++|.|+.+--|=++.+
T Consensus 30 Qs~ai~~kV~e~~~fk~skrvs~YmSm~~~Ev~T~~Ii~~~fq 72 (200)
T KOG3093|consen 30 QSEAISKKVLELPWFKNSKRVSIYMSMDKGEVDTGEIIKEAFQ 72 (200)
T ss_pred HHHHHHHHHHhhHHHHhcCceEEEEecCcccccHHHHHHHHHh
Confidence 3566777777776555688999999999999999988877765
No 35
>PF14566 PTPlike_phytase: Inositol hexakisphosphate; PDB: 1U24_A 2PSZ_B 3MOZ_A 3D1H_B 2B4P_B 3D1Q_A 2B4O_A 3MMJ_B 1U25_A 1U26_B ....
Probab=51.33 E-value=42 Score=23.05 Aligned_cols=54 Identities=9% Similarity=0.100 Sum_probs=29.7
Q ss_pred ceEEeCcccCHHH--HHHHHHHHHHhhhcCCCCCeEEEEeCCCCc--chhhhhHHHHHh
Q 041456 25 RIVYLGMSFVPSV--RELILAEFLYLQYEDAEKPIYLYLNSTGTT--EVGSFLCHALVF 79 (92)
Q Consensus 25 RiifL~g~Id~~~--a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~--v~aglaIyD~m~ 79 (92)
.+-|.-=+++|+. ....+.+++.+=..- .++-.|.+||-.|. -+.++++||.|.
T Consensus 92 g~~Y~Ripitd~~~P~~~~iD~fi~~v~~~-p~~~~l~fhC~~G~GRTTt~Mv~~~li~ 149 (149)
T PF14566_consen 92 GLRYYRIPITDHQAPDPEDIDAFINFVKSL-PKDTWLHFHCQAGRGRTTTFMVMYDLIR 149 (149)
T ss_dssp T-EEEEEEE-TTS---HHHHHHHHHHHHTS--TT-EEEEE-SSSSHHHHHHHHHHHHHH
T ss_pred CceEEEEeCCCcCCCCHHHHHHHHHHHHhC-CCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence 4444444555544 333334444332222 44688999999996 888999999874
No 36
>PRK10949 protease 4; Provisional
Probab=46.65 E-value=37 Score=29.08 Aligned_cols=47 Identities=11% Similarity=-0.138 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhh-hhHHHHHhhcc
Q 041456 36 SVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGS-FLCHALVFFQI 82 (92)
Q Consensus 36 ~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~ag-laIyD~m~~v~ 82 (92)
..-.+++..|-.....+.-+-|.|.+|||||...+. ..|.+++.-.+
T Consensus 95 ~~l~div~~i~~Aa~D~rIkgivL~i~s~gG~~~a~~~eI~~ai~~fk 142 (618)
T PRK10949 95 NSLFDIVNTIRQAKDDRNITGIVLDLKNFAGADQPSMQYIGKALREFR 142 (618)
T ss_pred ccHHHHHHHHHHHhcCCCceEEEEEeCCCCCccHHHHHHHHHHHHHHH
Confidence 345678888888877777888999999999977665 57889886655
No 37
>PRK12491 pyrroline-5-carboxylate reductase; Reviewed
Probab=45.05 E-value=11 Score=28.50 Aligned_cols=46 Identities=11% Similarity=-0.026 Sum_probs=32.8
Q ss_pred ccCHHHHHHHHHHHHH------hhhcCCCCCeEEEEeCCCCcchhhhhHHHH
Q 041456 32 SFVPSVRELILAEFLY------LQYEDAEKPIYLYLNSTGTTEVGSFLCHAL 77 (92)
Q Consensus 32 ~Id~~~a~~ii~~Ll~------L~~~d~~~~I~lyINSpGG~v~aglaIyD~ 77 (92)
-++.+.|..++.+++. +++...-.++.=-+.||||.-.+|+.-++-
T Consensus 194 Gl~~~~A~~l~~~t~~G~a~ll~~~~~~p~~l~~~V~sPGGtT~~gl~~le~ 245 (272)
T PRK12491 194 GMPRKQAYKFAAQAVLGSAKMVLETGIHPGELKDMVCSPGGTTIEAVATLEE 245 (272)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhCCCCchHHHHHHHHHHH
Confidence 4678888888888775 233333334555789999999999887663
No 38
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=44.72 E-value=68 Score=19.16 Aligned_cols=37 Identities=11% Similarity=0.187 Sum_probs=29.9
Q ss_pred ceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeC
Q 041456 25 RIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNS 63 (92)
Q Consensus 25 RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINS 63 (92)
--+.+-..++.+--+.++.+|| +..+...|..++||.
T Consensus 18 ~~~~VP~~~t~~~Ls~LvN~LL--~~~~~~vpfdF~i~~ 54 (65)
T PF08154_consen 18 TPISVPSNITRKELSELVNQLL--DDEEEPVPFDFLING 54 (65)
T ss_pred CCEEEeCCCCHHHHHHHHHHHh--ccCCCCCcEEEEECC
Confidence 4566777788888899999998 566678899999986
No 39
>PRK06928 pyrroline-5-carboxylate reductase; Reviewed
Probab=43.99 E-value=12 Score=27.95 Aligned_cols=45 Identities=9% Similarity=-0.107 Sum_probs=33.9
Q ss_pred ccCHHHHHHHHHHHHH------hhhcCCCCCeEEEEeCCCCcchhhhhHHH
Q 041456 32 SFVPSVRELILAEFLY------LQYEDAEKPIYLYLNSTGTTEVGSFLCHA 76 (92)
Q Consensus 32 ~Id~~~a~~ii~~Ll~------L~~~d~~~~I~lyINSpGG~v~aglaIyD 76 (92)
-++++.|.+++.+++. +++...-.++.=-++||||.-.+|+.-++
T Consensus 195 gl~~~~a~~l~~~~~~G~a~l~~~~~~~p~~l~~~v~spgGtT~~gl~~le 245 (277)
T PRK06928 195 SLSDEEAFQFLNFALAGTGKLLVEEDYTFSGTIERVATKGGITAEGAEVIQ 245 (277)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHhCCCCChHHHHHHHHHH
Confidence 5889999999998876 23322334455568999999999998876
No 40
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=41.86 E-value=71 Score=19.80 Aligned_cols=23 Identities=17% Similarity=-0.000 Sum_probs=16.2
Q ss_pred eEEeCcccCHHHHHHHHHHHHHh
Q 041456 26 IVYLGMSFVPSVRELILAEFLYL 48 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L 48 (92)
++-+.|+++-..++.+..++..+
T Consensus 11 vi~l~G~L~f~~~~~~~~~l~~~ 33 (106)
T TIGR02886 11 IVRLSGELDHHTAERVRRKIDDA 33 (106)
T ss_pred EEEEecccchhhHHHHHHHHHHH
Confidence 45677777777777777776554
No 41
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=39.99 E-value=94 Score=22.06 Aligned_cols=39 Identities=23% Similarity=0.163 Sum_probs=25.7
Q ss_pred eCcccCHHHHH----HHHHHHHHhhhcCCCCCeEEEEeCCCCcchh
Q 041456 29 LGMSFVPSVRE----LILAEFLYLQYEDAEKPIYLYLNSTGTTEVG 70 (92)
Q Consensus 29 L~g~Id~~~a~----~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~a 70 (92)
..|.|+..-.+ .|.+.|- ...|+.++-+=+-||||-|.+
T Consensus 105 F~Gdi~A~~v~~LReeisail~---~a~~~DeV~~rLES~GG~Vh~ 147 (155)
T PF08496_consen 105 FKGDIKASEVESLREEISAILS---VATPEDEVLVRLESPGGMVHG 147 (155)
T ss_pred cCCCccHHHHHHHHHHHHHHHH---hCCCCCeEEEEEecCCceeec
Confidence 45777754433 3333332 336678899999999998764
No 42
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=37.91 E-value=58 Score=27.51 Aligned_cols=48 Identities=6% Similarity=-0.165 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCeEEEEeC-CCCcchhhhhHHHHHhhcc
Q 041456 35 PSVRELILAEFLYLQYEDAEKPIYLYLNS-TGTTEVGSFLCHALVFFQI 82 (92)
Q Consensus 35 ~~~a~~ii~~Ll~L~~~d~~~~I~lyINS-pGG~v~aglaIyD~m~~v~ 82 (92)
+....+++.+|-.....+.-+-|.|-+|+ |||++.+...|++++.-.+
T Consensus 75 ~~~l~~i~~~i~~A~~D~~IkgIvL~i~~~~g~~~~~~~ei~~ai~~fk 123 (584)
T TIGR00705 75 AISLFDIVNAIRQAADDRRIEGLVFDLSNFSGWDSPHLVEIGSALSEFK 123 (584)
T ss_pred CcCHHHHHHHHHHHhcCCCceEEEEEccCCCCCCHHHHHHHHHHHHHHH
Confidence 34577889998888777777889999996 5777777778999987654
No 43
>PTZ00431 pyrroline carboxylate reductase; Provisional
Probab=36.32 E-value=20 Score=26.58 Aligned_cols=46 Identities=7% Similarity=0.065 Sum_probs=33.0
Q ss_pred ccCHHHHHHHHHHHHH-----h-hhcCCCCCeEEEEeCCCCcchhhhhHHHH
Q 041456 32 SFVPSVRELILAEFLY-----L-QYEDAEKPIYLYLNSTGTTEVGSFLCHAL 77 (92)
Q Consensus 32 ~Id~~~a~~ii~~Ll~-----L-~~~d~~~~I~lyINSpGG~v~aglaIyD~ 77 (92)
-++.+.|.+++++++. | ++..+-..+.=-++||||.-.+|+.-++.
T Consensus 187 Gl~~~~a~~l~~~~~~G~a~ll~~~~~~~~~l~~~v~spgG~T~~gl~~le~ 238 (260)
T PTZ00431 187 GLNRDVSKNLVLQTILGSVHMVKASDQPVQQLKDDVCSPGGITIVGLYTLEK 238 (260)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhCCCCChHHHHHHHHHHH
Confidence 4778889999999886 3 33222334555689999999999877653
No 44
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=34.17 E-value=63 Score=19.31 Aligned_cols=22 Identities=27% Similarity=0.318 Sum_probs=19.6
Q ss_pred cccCHHHHHHHHHHHHHhhhcC
Q 041456 31 MSFVPSVRELILAEFLYLQYED 52 (92)
Q Consensus 31 g~Id~~~a~~ii~~Ll~L~~~d 52 (92)
|.++++.|.+++++|-++..+.
T Consensus 2 G~~~~~~a~~~~~~LR~~Kv~~ 23 (58)
T PF06883_consen 2 GYVSPEEAEQIADQLRYLKVEG 23 (58)
T ss_pred ceecHHHHHHHHHHHHHHHHcC
Confidence 5688999999999999999875
No 45
>KOG0584 consensus Serine/threonine protein kinase [General function prediction only]
Probab=34.14 E-value=59 Score=28.27 Aligned_cols=42 Identities=19% Similarity=0.207 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhhcCC---CCCe---EEEEeCCCCcchhhhhHHHHH
Q 041456 37 VRELILAEFLYLQYEDA---EKPI---YLYLNSTGTTEVGSFLCHALV 78 (92)
Q Consensus 37 ~a~~ii~~Ll~L~~~d~---~~~I---~lyINSpGG~v~aglaIyD~m 78 (92)
=+.+|...|.||++.+| .+|+ .+|||.+=|+|-=|-..+-++
T Consensus 148 W~RQILkGL~yLHs~~PPIIHRDLKCDNIFinG~~G~VKIGDLGLAtl 195 (632)
T KOG0584|consen 148 WCRQILKGLVYLHSQDPPIIHRDLKCDNIFVNGNLGEVKIGDLGLATL 195 (632)
T ss_pred HHHHHHHHhhhhhcCCCCccccccccceEEEcCCcCceeecchhHHHH
Confidence 38999999999999887 2222 599999999997776666665
No 46
>TIGR00661 MJ1255 conserved hypothetical protein. This model represents nearly the full length of MJ1255 from Methanococcus jannaschii and of an unpublished protein from Vibrio cholerae, as well as the C-terminal half of a protein from Methanobacterium thermoautotrophicum. A small region (~50 amino acids) within the domain appears related to a family of sugar transferases.
Probab=33.00 E-value=54 Score=24.60 Aligned_cols=31 Identities=10% Similarity=-0.064 Sum_probs=24.8
Q ss_pred eEEEEeCCC-CcchhhhhHHHHHhhccccccee
Q 041456 57 IYLYLNSTG-TTEVGSFLCHALVFFQISSINAS 88 (92)
Q Consensus 57 I~lyINSpG-G~v~aglaIyD~m~~v~~~v~t~ 88 (92)
|-++++++| |.+.-++++.+.++- ..+|.-+
T Consensus 2 il~~~~g~G~GH~~r~~ala~~L~~-g~ev~~~ 33 (321)
T TIGR00661 2 ILYSVCGEGFGHTTRSVAIGEALKN-DYEVSYI 33 (321)
T ss_pred EEEEEeccCccHHHHHHHHHHHHhC-CCeEEEE
Confidence 677899999 999999999999886 5565433
No 47
>PF13839 PC-Esterase: GDSL/SGNH-like Acyl-Esterase family found in Pmr5 and Cas1p
Probab=30.23 E-value=71 Score=22.58 Aligned_cols=32 Identities=25% Similarity=0.248 Sum_probs=23.9
Q ss_pred cchHHhhh---cCceEEeCcccCHHHHHHHHHHHH
Q 041456 15 PDLASYLY---KNRIVYLGMSFVPSVRELILAEFL 46 (92)
Q Consensus 15 ~dl~~~l~---~~RiifL~g~Id~~~a~~ii~~Ll 46 (92)
.|..++|- .+|++|+|.-++-.....++..|-
T Consensus 4 ~d~~~cL~~lr~k~i~fiGDS~~Rq~~~~l~~~l~ 38 (263)
T PF13839_consen 4 FDARECLQRLRNKRIVFIGDSTTRQQYESLVCLLG 38 (263)
T ss_pred hhHHHHHHHccCCEEEEEechhhHHHHHHHHHHHh
Confidence 35556665 889999999888887777777554
No 48
>PRK14640 hypothetical protein; Provisional
Probab=29.97 E-value=1.8e+02 Score=20.27 Aligned_cols=41 Identities=20% Similarity=0.272 Sum_probs=25.0
Q ss_pred EEeC--cccCHHHHHHHHHHH-HHhhhcCC-CCCeEEEEeCCCCc
Q 041456 27 VYLG--MSFVPSVRELILAEF-LYLQYEDA-EKPIYLYLNSTGTT 67 (92)
Q Consensus 27 ifL~--g~Id~~~a~~ii~~L-l~L~~~d~-~~~I~lyINSpGG~ 67 (92)
||+. +.|+-+-+..+..++ -.|+.+|+ ..+.+|=++|||-+
T Consensus 39 V~ID~~~gv~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGl~ 83 (152)
T PRK14640 39 VYIDGENGVSVENCAEVSHQVGAIMDVEDPITEEYYLEVSSPGLD 83 (152)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCC
Confidence 4553 337766555554444 22355555 56789999999965
No 49
>PF08616 SPA: Stabilization of polarity axis
Probab=29.48 E-value=1.1e+02 Score=20.32 Aligned_cols=33 Identities=21% Similarity=0.054 Sum_probs=22.1
Q ss_pred chHH-hhhcCceEEeCcccCHHHHHHHHHHHHHh
Q 041456 16 DLAS-YLYKNRIVYLGMSFVPSVRELILAEFLYL 48 (92)
Q Consensus 16 dl~~-~l~~~RiifL~g~Id~~~a~~ii~~Ll~L 48 (92)
-+++ .++++|+++++..-..+...+.+..|..|
T Consensus 17 ~L~~alL~~krivv~s~~~~~~~~s~~Vlal~~L 50 (113)
T PF08616_consen 17 LLWEALLLGKRIVVYSPSPSAGEVSEFVLALCSL 50 (113)
T ss_pred HHHHHHHhCCCEEEECCCCCHHHHHHHHHHHHHH
Confidence 3545 45888999999888775555555555544
No 50
>PRK14633 hypothetical protein; Provisional
Probab=28.89 E-value=1.8e+02 Score=20.26 Aligned_cols=37 Identities=16% Similarity=0.170 Sum_probs=23.0
Q ss_pred cccCHHHHHHHHHHH-HHhhhcCC-CCCeEEEEeCCCCc
Q 041456 31 MSFVPSVRELILAEF-LYLQYEDA-EKPIYLYLNSTGTT 67 (92)
Q Consensus 31 g~Id~~~a~~ii~~L-l~L~~~d~-~~~I~lyINSpGG~ 67 (92)
+.++-+-+..+..++ -.|+.+|+ ....+|=++|||-+
T Consensus 42 ~Gv~lddC~~vSr~i~~~LD~~d~i~~~Y~LEVSSPGld 80 (150)
T PRK14633 42 NGVSVDDCQIVSKEISAVFDVEDPVSGKYILEVSSPGMN 80 (150)
T ss_pred CCCCHHHHHHHHHHHHHHhccCcCCCCCeEEEEeCCCCC
Confidence 346655555544444 22355555 56789999999975
No 51
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=28.46 E-value=3e+02 Score=21.81 Aligned_cols=44 Identities=16% Similarity=0.153 Sum_probs=30.6
Q ss_pred cCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcc
Q 041456 23 KNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTE 68 (92)
Q Consensus 23 ~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v 68 (92)
++|+-...|-++.+.+.....- ..+. +.-+-||-.++++||..+
T Consensus 122 ~e~~~~~~G~~~p~g~rKa~R~-m~lA-~~f~iPvVtlvDTpGa~~ 165 (316)
T TIGR00513 122 KEKLRRNFGMPAPEGYRKALRL-MKMA-ERFKMPIITFIDTPGAYP 165 (316)
T ss_pred cccccccCCCCCHHHHHHHHHH-HHHH-HHcCCCEEEEEECCCCCC
Confidence 4555556677888777766544 4443 334899999999999873
No 52
>PF08889 WbqC: WbqC-like protein family; InterPro: IPR014985 This family of proteins are functionally uncharacterised. However, it is found in an O-antigen gene cluster in Escherichia coli [] and other bacteria [] suggesting a role in O-antigen production. It has been suggested that wbnG may code for a glycine transferase [].
Probab=28.15 E-value=33 Score=25.26 Aligned_cols=15 Identities=13% Similarity=-0.157 Sum_probs=8.7
Q ss_pred chhhhhHHHHHhhcc
Q 041456 68 EVGSFLCHALVFFQI 82 (92)
Q Consensus 68 v~aglaIyD~m~~v~ 82 (92)
..++|+|.|.+..+.
T Consensus 197 F~p~LSilDlL~n~g 211 (219)
T PF08889_consen 197 FVPNLSILDLLMNCG 211 (219)
T ss_pred CcCCCcHHHHHhcCC
Confidence 455666666665443
No 53
>TIGR00377 ant_ant_sig anti-anti-sigma factor. This superfamily includes small (105-125 residue) proteins related to SpoIIAA of Bacillus subtilis, an anti-anti-sigma factor. SpoIIAA can bind to and inhibit the anti-sigma F factor SpoIIAB. Also, it can be phosphorylated by SpoIIAB on a Ser residue at position 59 of the seed alignment. A similar arrangement is inferred for RsbV, an anti-anti-sigma factor for sigma B. This Ser is fairly well conserved within a motif resembling MXS[STA]G[VIL]X[VIL][VILF] among homologous known or predicted anti-anti-sigma factors. Regions similar to SpoIIAA and apparently homologous, but differing considerably near the phosphorlated Ser of SpoIIAA, appear in a single copy in several longer proteins.
Probab=28.08 E-value=1.4e+02 Score=18.25 Aligned_cols=34 Identities=21% Similarity=0.196 Sum_probs=21.4
Q ss_pred eEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEE
Q 041456 26 IVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYL 59 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~l 59 (92)
++-+.|+++-+.+..+-..+..+......+.+.+
T Consensus 15 vi~~~G~l~~~~~~~~~~~l~~~~~~~~~~~vvi 48 (108)
T TIGR00377 15 IVRLSGELDAHTAPLLREKVTPAAERTGPRPIVL 48 (108)
T ss_pred EEEEecccccccHHHHHHHHHHHHHhcCCCeEEE
Confidence 4567788888888888777776644322333444
No 54
>cd07041 STAS_RsbR_RsbS_like Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain of proteins related to RsbS and RsbR which are part of the "stressosome" complex that plays an important role in the regulation of the bacterial stress activated alternative sigma factor sigma-B. During stress conditions RsbS and RsbR are phosphorylated which leads to the release of RsbT, an activator of of the RsbU phosphatase, which in turn activates RsbV which leads to the release and activation of sigma factor B. RsbS is a single domain protein (STAS domain), while RsbR-like proteins have a well-conserved C-terminal STATS domain and a variable N-terminal domain. The STAS domain is also found in the C- terminal region of sulphate transporters and anti-anti-sigma factors.
Probab=27.87 E-value=73 Score=19.84 Aligned_cols=23 Identities=13% Similarity=0.002 Sum_probs=18.5
Q ss_pred eEEeCcccCHHHHHHHHHHHHHh
Q 041456 26 IVYLGMSFVPSVRELILAEFLYL 48 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll~L 48 (92)
++-+.|+++...++.+...++..
T Consensus 13 v~~l~G~L~~~~a~~~~~~l~~~ 35 (109)
T cd07041 13 VLPLIGDLDDERAEQLQERLLEA 35 (109)
T ss_pred EEeeeeeECHHHHHHHHHHHHHH
Confidence 56688999999999998877643
No 55
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=26.77 E-value=2.1e+02 Score=22.19 Aligned_cols=49 Identities=16% Similarity=0.247 Sum_probs=35.6
Q ss_pred EeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhhHHHHH
Q 041456 28 YLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFLCHALV 78 (92)
Q Consensus 28 fL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~aglaIyD~m 78 (92)
|++|.+....++.+...+-+- . ...-|+-.+..|+|.....|...+-.|
T Consensus 131 f~gGSmg~~~geKi~r~~e~A-~-~~~lPlV~l~dSgGaRmqEg~~sL~~~ 179 (285)
T TIGR00515 131 FMGGSMGSVVGEKFVRAIEKA-L-EDNCPLIIFSASGGARMQEALLSLMQM 179 (285)
T ss_pred ccCCCccHHHHHHHHHHHHHH-H-HcCCCEEEEEcCCCcccccchhHHHhH
Confidence 457888888888886655433 2 337899999999999877776555433
No 56
>PRK14635 hypothetical protein; Provisional
Probab=26.38 E-value=2.1e+02 Score=20.16 Aligned_cols=37 Identities=16% Similarity=0.047 Sum_probs=22.7
Q ss_pred cccCHHHHHHHHHHH-HHhhhcCCCCCeEEEEeCCCCc
Q 041456 31 MSFVPSVRELILAEF-LYLQYEDAEKPIYLYLNSTGTT 67 (92)
Q Consensus 31 g~Id~~~a~~ii~~L-l~L~~~d~~~~I~lyINSpGG~ 67 (92)
+.++-+-+..+...+ -.|+.+|+..+.+|=++|||=+
T Consensus 48 ~gv~lddC~~vSr~is~~LD~~d~~~~Y~LEVSSPGld 85 (162)
T PRK14635 48 GSVSLLECEQVSRKLKEELERISPDLDFTLKVSSAGAE 85 (162)
T ss_pred CCcCHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCCCCC
Confidence 346655544444333 1235556667889999999954
No 57
>KOG2971 consensus RNA-binding protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]
Probab=26.37 E-value=21 Score=28.09 Aligned_cols=35 Identities=17% Similarity=0.039 Sum_probs=22.3
Q ss_pred CCCCeEEEE-eCCCC-cchhhhhHHHHHhhcccccce
Q 041456 53 AEKPIYLYL-NSTGT-TEVGSFLCHALVFFQISSINA 87 (92)
Q Consensus 53 ~~~~I~lyI-NSpGG-~v~aglaIyD~m~~v~~~v~t 87 (92)
..+|.+||+ |+|+| ++-==..-.-||.-++-+.++
T Consensus 112 kr~DlYlWm~~~p~GpSvkFlv~n~hTM~ElkmtgN~ 148 (299)
T KOG2971|consen 112 KRKDLYLWMSNSPNGPSVKFLVHNVHTMAELKMTGNC 148 (299)
T ss_pred ccCceeEEEecCCCCCceEEehhhhhhHHHhCCcccc
Confidence 378999999 89966 544333444466666555543
No 58
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=26.19 E-value=3e+02 Score=21.83 Aligned_cols=44 Identities=18% Similarity=0.123 Sum_probs=31.1
Q ss_pred cCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcc
Q 041456 23 KNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTE 68 (92)
Q Consensus 23 ~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v 68 (92)
++|+-..+|-++.+.+.....-+- +. +.-+-||-.++++||..+
T Consensus 122 ~e~~~~~~G~~~peg~rKa~R~m~-lA-~~f~lPIVtlvDTpGa~~ 165 (319)
T PRK05724 122 KEKIRRNFGMPRPEGYRKALRLMK-MA-EKFGLPIITFIDTPGAYP 165 (319)
T ss_pred cccccccCCCCCHHHHHHHHHHHH-HH-HHcCCCEEEEEeCCCCCC
Confidence 555556778888887776654443 32 344899999999999864
No 59
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=25.18 E-value=2.6e+02 Score=23.05 Aligned_cols=48 Identities=17% Similarity=0.224 Sum_probs=33.9
Q ss_pred eEEeCcccCHHHHHHHHHHHH-HhhhcCCCCCeEEEEeCCCCcchhhhh
Q 041456 26 IVYLGMSFVPSVRELILAEFL-YLQYEDAEKPIYLYLNSTGTTEVGSFL 73 (92)
Q Consensus 26 iifL~g~Id~~~a~~ii~~Ll-~L~~~d~~~~I~lyINSpGG~v~agla 73 (92)
.-|..+..+++.+.+-+..|. +|+..+..|.+.+++|.-+|.-.+...
T Consensus 82 ~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~kr~lvIvNP~SGkg~a~k~ 130 (481)
T PLN02958 82 KDFVFEPLSDESRRLWCQKLRDYLDSLGRPKRLLVFVNPFGGKKSASKI 130 (481)
T ss_pred eeEEEeCCCHHHHHHHHHHHHHHHhhccCCcEEEEEEcCCCCCcchhHH
Confidence 334446777888888888773 555556678899999999887665443
No 60
>KOG3569 consensus RAS signaling inhibitor ST5 [Signal transduction mechanisms]
Probab=25.10 E-value=83 Score=26.05 Aligned_cols=31 Identities=23% Similarity=0.342 Sum_probs=22.2
Q ss_pred HhhhcCceEEeCcccCHHH-HHHHHHHHHHhh
Q 041456 19 SYLYKNRIVYLGMSFVPSV-RELILAEFLYLQ 49 (92)
Q Consensus 19 ~~l~~~RiifL~g~Id~~~-a~~ii~~Ll~L~ 49 (92)
+.|+.+||||++..+..=+ +-.-++.|||--
T Consensus 196 SlL~ERRIifia~KLStLssCiHa~~ALLYPm 227 (425)
T KOG3569|consen 196 SLLLERRIIFIASKLSTLSSCIHAVAALLYPM 227 (425)
T ss_pred HHHhhceeEeeccchhHHHHHHHHHHHHhhhh
Confidence 4556778999998887654 556677787753
No 61
>TIGR00049 Iron-sulfur cluster assembly accessory protein. Proteins in this subfamily appear to be associated with the process of FeS-cluster assembly. The HesB proteins are associated with the nif gene cluster and the Rhizobium gene IscN has been shown to be required for nitrogen fixation. Nitrogenase includes multiple FeS clusters and many genes for their assembly. The E. coli SufA protein is associated with SufS, a NifS homolog and SufD which are involved in the FeS cluster assembly of the FhnF protein. The Azotobacter protein IscA (homologs of which are also found in E.coli) is associated which IscS, another NifS homolog and IscU, a nifU homolog as well as other factors consistent with a role in FeS cluster chemistry. A homolog from Geobacter contains a selenocysteine in place of an otherwise invariant cysteine, further suggesting a role in redox chemistry.
Probab=24.81 E-value=1.8e+02 Score=18.29 Aligned_cols=32 Identities=13% Similarity=0.027 Sum_probs=20.0
Q ss_pred cCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCC
Q 041456 33 FVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGT 66 (92)
Q Consensus 33 Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG 66 (92)
|+++.++.+...+ .. .+.+.+.++|++-..|.
T Consensus 2 iT~~A~~~l~~~~-~~-~~~~~~~lRi~~~~~Gc 33 (105)
T TIGR00049 2 LTDSAAKRIKALL-AG-EGEPNLGLRVGVKGGGC 33 (105)
T ss_pred cCHHHHHHHHHHH-hc-CCCCceEEEEEEecCCC
Confidence 5666666665544 22 22334679999998875
No 62
>TIGR00112 proC pyrroline-5-carboxylate reductase. This enzyme catalyzes the final step in proline biosynthesis. Among the four paralogs in Bacillus subtilis (proG, proH, proI, and comER), ComER is the most divergent and does not prevent proline auxotrophy from mutation of the other three. It is excluded from the seed and scores between the trusted and noise cutoffs.
Probab=23.06 E-value=44 Score=24.56 Aligned_cols=46 Identities=11% Similarity=0.060 Sum_probs=31.3
Q ss_pred ccCHHHHHHHHHHHHH-----h-hhcCCCCCeEEEEeCCCCcchhhhhHHHH
Q 041456 32 SFVPSVRELILAEFLY-----L-QYEDAEKPIYLYLNSTGTTEVGSFLCHAL 77 (92)
Q Consensus 32 ~Id~~~a~~ii~~Ll~-----L-~~~d~~~~I~lyINSpGG~v~aglaIyD~ 77 (92)
-++.+.|.+++.+++. + ++...-.++.=-+.||||.-.+|+.-++.
T Consensus 174 Gl~~~~A~~lv~~~~~G~a~l~~~~~~~~~~l~~~v~spgGtT~~gl~~Le~ 225 (245)
T TIGR00112 174 GLPRELALELAAQTVKGAAKLLEESGEHPALLKDQVTSPGGTTIAGLAVLEE 225 (245)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHcCCCCcHHHHHHHHHHHH
Confidence 4778889999888875 3 22222223334479999999999877653
No 63
>cd01216 Fe65 Fe65 Phosphotyrosine-binding (PTB) domain, phosphotyrosine-interaction (PI) domain. Fe65 Phosphotyrosine-binding (PTB) domain, phosphotyrosine-interaction (PI) domain. Fe65 is an amyloid beta A4 precursor (APP) protein-binding. It contains an N-terminal WW domain followed by two PTB domains. The C-terminal PTB domain is responsible for APP binding. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=22.98 E-value=1.8e+02 Score=19.63 Aligned_cols=36 Identities=8% Similarity=-0.055 Sum_probs=25.3
Q ss_pred CcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCC
Q 041456 30 GMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGT 66 (92)
Q Consensus 30 ~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG 66 (92)
..+-..++.++.+.+|+.-.....-++.+|.| ||+|
T Consensus 15 ~~~~g~~vv~~ai~~L~~~~~~~~~~~v~l~V-s~~~ 50 (123)
T cd01216 15 AEEDGSEALNKAIDDLSSCSNWEDWKDLNMDL-APST 50 (123)
T ss_pred CCCCCHHHHHHHHHHHHhccccccCeEEEEEE-ecCc
Confidence 34556788999999998655444456889999 4444
No 64
>PRK07634 pyrroline-5-carboxylate reductase; Reviewed
Probab=22.97 E-value=30 Score=24.73 Aligned_cols=43 Identities=7% Similarity=0.096 Sum_probs=29.0
Q ss_pred ccCHHHHHHHHHHHHH------hhhcCCCCCeEEEEeCCCCcchhhhhHH
Q 041456 32 SFVPSVRELILAEFLY------LQYEDAEKPIYLYLNSTGTTEVGSFLCH 75 (92)
Q Consensus 32 ~Id~~~a~~ii~~Ll~------L~~~d~~~~I~lyINSpGG~v~aglaIy 75 (92)
-++++.|.+++.+++. .+..+ -..+.=-+.||||.-.+|+..+
T Consensus 196 Gl~~~~a~~~~~~~~~g~~~~~~~~~~-~~~l~~~v~spgG~T~~gl~~l 244 (245)
T PRK07634 196 GVDEETAKHLVIQMISGSASMLEQTQD-PANLREQVTTPGGSTAEGLKAL 244 (245)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCCC-HHHHHHhCCCCChHHHHHHHHh
Confidence 5788888999888876 22112 2233345699999988887643
No 65
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=22.85 E-value=2.1e+02 Score=18.15 Aligned_cols=39 Identities=21% Similarity=0.304 Sum_probs=23.5
Q ss_pred hcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeC
Q 041456 22 YKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNS 63 (92)
Q Consensus 22 ~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINS 63 (92)
++++...+.+..+=..-..++.+-|.| ++++.+++|||.
T Consensus 15 l~k~kflv~~~~tv~~~~~~lrk~L~l---~~~~slflyvnn 53 (87)
T cd01612 15 LKQKVFKISATQSFQAVIDFLRKRLKL---KASDSLFLYINN 53 (87)
T ss_pred ccccEEEeCCCCCHHHHHHHHHHHhCC---CccCeEEEEECC
Confidence 345555555555544444555555544 457789999986
No 66
>PRK14632 hypothetical protein; Provisional
Probab=22.66 E-value=2.6e+02 Score=20.00 Aligned_cols=41 Identities=17% Similarity=0.190 Sum_probs=23.7
Q ss_pred EEeCc--ccCHHHHHHHHHHH-HHhhhcCC-CCCeEEEEeCCCCc
Q 041456 27 VYLGM--SFVPSVRELILAEF-LYLQYEDA-EKPIYLYLNSTGTT 67 (92)
Q Consensus 27 ifL~g--~Id~~~a~~ii~~L-l~L~~~d~-~~~I~lyINSpGG~ 67 (92)
||+.. .|+-+-+..+..++ -.|+.+|+ ...-+|=++|||-+
T Consensus 40 V~ID~~~GV~ldDC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGld 84 (172)
T PRK14632 40 LFVDGPEGVTIDQCAEVSRHVGLALEVEDVISSAYVLEVSSPGLE 84 (172)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCC
Confidence 45543 36655544444443 22344444 56778999999965
No 67
>PF11964 SpoIIAA-like: SpoIIAA-like; InterPro: IPR021866 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 120 to 132 amino acids in length. This protein has a single completely conserved residue A that may be functionally important. ; PDB: 2Q3L_B 2OOK_A 3BL4_A.
Probab=22.48 E-value=2e+02 Score=17.64 Aligned_cols=49 Identities=10% Similarity=-0.044 Sum_probs=33.0
Q ss_pred EEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCC-C-CcchhhhhHHHH
Q 041456 27 VYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNST-G-TTEVGSFLCHAL 77 (92)
Q Consensus 27 ifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSp-G-G~v~aglaIyD~ 77 (92)
+-+.|+++.+-...+...+..+- +..+++.++++-+ + +..+.+....+.
T Consensus 5 v~~~g~~t~ed~~~~~~~~~~~~--~~~~~~~ll~d~~~~~~~~~~~a~~~~~ 55 (109)
T PF11964_consen 5 VRVSGKLTEEDYKELLPALEELI--ADHGKIRLLVDLRRDFEGWSPEARWEDA 55 (109)
T ss_dssp EEEEEEE-HHHHHHHHHHHHHHH--TTSSSEEEEEEEC-CEEEEHHHHHHHHH
T ss_pred EEEeeeeCHHHHHHHHHHHHHHH--hcCCceEEEEEecCccCCCCHHHHHHHH
Confidence 34569999999999888888763 3577899999855 5 234444444443
No 68
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=22.29 E-value=1.8e+02 Score=20.03 Aligned_cols=40 Identities=28% Similarity=0.392 Sum_probs=21.2
Q ss_pred hcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCC
Q 041456 22 YKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNST 64 (92)
Q Consensus 22 ~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSp 64 (92)
++++.--+...=+=+..-..+...|.|+ ....+++|||+.
T Consensus 44 lK~~k~~i~~t~tfa~vi~Flkk~Lkl~---as~slflYVN~s 83 (116)
T KOG3439|consen 44 LKKSKFKINPTQTFAKVILFLKKFLKLQ---ASDSLFLYVNNS 83 (116)
T ss_pred eecceEEeCcchhhHHHHHHHHHHhCCc---ccCeEEEEEcCc
Confidence 4444444433222233344455555554 356799999863
No 69
>PF13617 Lipoprotein_19: YnbE-like lipoprotein
Probab=21.85 E-value=75 Score=19.29 Aligned_cols=12 Identities=50% Similarity=0.789 Sum_probs=10.1
Q ss_pred cCCCCCeEEEEe
Q 041456 51 EDAEKPIYLYLN 62 (92)
Q Consensus 51 ~d~~~~I~lyIN 62 (92)
+-|++||++.+|
T Consensus 23 ~aP~~PI~InlN 34 (59)
T PF13617_consen 23 EAPDKPITINLN 34 (59)
T ss_pred ecCCCCEEEEEE
Confidence 467899999987
No 70
>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit. This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane.
Probab=21.43 E-value=3.6e+02 Score=22.52 Aligned_cols=35 Identities=11% Similarity=0.127 Sum_probs=26.7
Q ss_pred CcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCC
Q 041456 30 GMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGT 66 (92)
Q Consensus 30 ~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG 66 (92)
+|.++.+.+..+..-+-.-+ ..+-|+-.++||||-
T Consensus 328 ~G~~~~~~~~K~~r~i~~a~--~~~lPlV~lvDs~G~ 362 (512)
T TIGR01117 328 AGCLDIDSSDKIARFIRFCD--AFNIPIVTFVDVPGF 362 (512)
T ss_pred cCCCCHHHHHHHHHHHHHHH--HcCCCEEEEEeCcCc
Confidence 57788888888776555433 248999999999996
No 71
>PRK14638 hypothetical protein; Provisional
Probab=21.33 E-value=2.9e+02 Score=19.20 Aligned_cols=42 Identities=24% Similarity=0.209 Sum_probs=24.9
Q ss_pred eEEeC---cccCHHHHHHHHHHHH-HhhhcCC-CCCeEEEEeCCCCc
Q 041456 26 IVYLG---MSFVPSVRELILAEFL-YLQYEDA-EKPIYLYLNSTGTT 67 (92)
Q Consensus 26 iifL~---g~Id~~~a~~ii~~Ll-~L~~~d~-~~~I~lyINSpGG~ 67 (92)
.||+. |.|+-+-+..+...+= .|+.+|+ ...-+|=++|||-+
T Consensus 40 rV~ID~~~G~v~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGld 86 (150)
T PRK14638 40 RIIIDNPVGYVSVRDCELFSREIERFLDREDLIEHSYTLEVSSPGLD 86 (150)
T ss_pred EEEEECCCCCcCHHHHHHHHHHHHHHhccccccCCceEEEEeCCCCC
Confidence 34554 3377666555554442 2344444 45678999999965
No 72
>PHA02857 monoglyceride lipase; Provisional
Probab=21.20 E-value=1.9e+02 Score=20.49 Aligned_cols=37 Identities=14% Similarity=0.090 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhh
Q 041456 37 VRELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFL 73 (92)
Q Consensus 37 ~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~agla 73 (92)
..+++++.+-++....+.+++.++=+|=||-+-..++
T Consensus 79 ~~~d~~~~l~~~~~~~~~~~~~lvG~S~GG~ia~~~a 115 (276)
T PHA02857 79 YVRDVVQHVVTIKSTYPGVPVFLLGHSMGATISILAA 115 (276)
T ss_pred HHHHHHHHHHHHHhhCCCCCEEEEEcCchHHHHHHHH
Confidence 3566777776665555677899999999997554444
No 73
>KOG0585 consensus Ca2+/calmodulin-dependent protein kinase kinase beta and related serine/threonine protein kinases [Signal transduction mechanisms]
Probab=21.05 E-value=73 Score=27.36 Aligned_cols=42 Identities=14% Similarity=0.172 Sum_probs=33.0
Q ss_pred cchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEE
Q 041456 15 PDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYL 59 (92)
Q Consensus 15 ~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~l 59 (92)
.++|++.-+++..|=.++.--+.+.+++..||. .||++.|++
T Consensus 325 ~~l~~KIvn~pL~fP~~pe~~e~~kDli~~lL~---KdP~~Ri~l 366 (576)
T KOG0585|consen 325 LELFDKIVNDPLEFPENPEINEDLKDLIKRLLE---KDPEQRITL 366 (576)
T ss_pred HHHHHHHhcCcccCCCcccccHHHHHHHHHHhh---cChhheeeh
Confidence 589999999999998777667778888888883 466666653
No 74
>PF09804 DUF2347: Uncharacterized conserved protein (DUF2347); InterPro: IPR018626 Members of this family of hypothetical proteins have no known function.
Probab=20.86 E-value=1.4e+02 Score=23.00 Aligned_cols=34 Identities=18% Similarity=0.094 Sum_probs=21.8
Q ss_pred chHH-hhhcCceEEeCcccCHHHHHHHHHHHHHhhh
Q 041456 16 DLAS-YLYKNRIVYLGMSFVPSVRELILAEFLYLQY 50 (92)
Q Consensus 16 dl~~-~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~ 50 (92)
-||. .|+|+||++++++ .=+.++.++=.+-.|.+
T Consensus 177 ~L~K~aLLRKRILi~~~~-pv~~~c~~vY~ls~Ls~ 211 (280)
T PF09804_consen 177 PLWKAALLRKRILIFSPP-PVEVACSFVYCLSLLSS 211 (280)
T ss_pred HHHHHHhhcCcEEEecCC-ChHHHHHHHHHHHhhcc
Confidence 3444 6899999999665 44456666555555543
No 75
>PF13552 DUF4127: Protein of unknown function (DUF4127)
Probab=20.84 E-value=68 Score=26.60 Aligned_cols=38 Identities=26% Similarity=0.160 Sum_probs=22.4
Q ss_pred ccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCCCcch
Q 041456 32 SFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTGTTEV 69 (92)
Q Consensus 32 ~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~ 69 (92)
++.+.+..+|.+.=-.+.....+.|+.|+||+||....
T Consensus 278 pl~esv~~hI~aaGg~~~~~~~~AD~vL~Vntp~~~~~ 315 (497)
T PF13552_consen 278 PLGESVKEHIRAAGGVLVDSPEEADLVLAVNTPGDGMT 315 (497)
T ss_pred CHHHHHHHHHHhcCCEEcCCCCCCCEEEEEecCCCccc
Confidence 34444444444332222222368899999999987653
No 76
>cd02975 PfPDO_like_N Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO)-like family, N-terminal TRX-fold subdomain; composed of proteins with similarity to PfPDO, a redox active thermostable protein believed to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI), which are both involved in oxidative protein folding. PfPDO contains two redox active CXXC motifs in two contiguous TRX-fold subdomains. The active site in the N-terminal TRX-fold subdomain is required for isomerase but not for reductase activity of PfPDO. The exclusive presence of PfPDO-like proteins in extremophiles may suggest that they have a special role in adaptation to extreme conditions.
Probab=20.78 E-value=2.4e+02 Score=18.00 Aligned_cols=46 Identities=9% Similarity=-0.017 Sum_probs=30.4
Q ss_pred ccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCC-CcchhhhhHHHHHh
Q 041456 32 SFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTG-TTEVGSFLCHALVF 79 (92)
Q Consensus 32 ~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpG-G~v~aglaIyD~m~ 79 (92)
-++++..+++-.++.. ....+.++.++..+|+ |.......+++.+.
T Consensus 2 ~~~~~~~~~~~~~~~~--~l~~~~~vvv~f~a~wC~~C~~~~~~l~~la 48 (113)
T cd02975 2 LLSDEDRKALKEEFFK--EMKNPVDLVVFSSKEGCQYCEVTKQLLEELS 48 (113)
T ss_pred CCCHHHHHHHHHHHHH--HhCCCeEEEEEeCCCCCCChHHHHHHHHHHH
Confidence 3567777777765543 1233666888888887 67777666666654
No 77
>cd01834 SGNH_hydrolase_like_2 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=20.70 E-value=2.3e+02 Score=18.60 Aligned_cols=47 Identities=19% Similarity=0.202 Sum_probs=27.5
Q ss_pred CceEEeCcccCHHH--HHHHHHHHHHhhhcCCCCCeEEEEeCCCCcchhhhh
Q 041456 24 NRIVYLGMSFVPSV--RELILAEFLYLQYEDAEKPIYLYLNSTGTTEVGSFL 73 (92)
Q Consensus 24 ~RiifL~g~Id~~~--a~~ii~~Ll~L~~~d~~~~I~lyINSpGG~v~agla 73 (92)
+|++++|.-+++-. ...+.. .|..+.+..++.+.=-+-+|.....+.
T Consensus 2 ~~v~~~GDSit~g~~~~~~~~~---~l~~~~~~~~~~v~n~g~~G~t~~~~~ 50 (191)
T cd01834 2 DRIVFIGNSITDRGGYVGYVET---YLAARYPELKLTFRNLGWSGDTVSDLA 50 (191)
T ss_pred CEEEEeCCChhhccccHHHHHH---HHHHhCCCCCcEEEEcccCccchhhhh
Confidence 58888888888754 222222 223344456677766667776665543
No 78
>PRK06781 amidophosphoribosyltransferase; Provisional
Probab=20.60 E-value=1.7e+02 Score=24.22 Aligned_cols=39 Identities=15% Similarity=0.190 Sum_probs=27.2
Q ss_pred cCceEEeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCC
Q 041456 23 KNRIVYLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNST 64 (92)
Q Consensus 23 ~~RiifL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSp 64 (92)
.+|++.+..-|+.-..-.-++++|. ..+ -+.|++.|.||
T Consensus 348 gk~VlLVDDvittGtTl~~~~~~Lk--~aG-A~eV~v~i~sP 386 (471)
T PRK06781 348 GKRVVMIDDSIVRGTTSKRIVRMLR--EAG-ATEVHVRIASP 386 (471)
T ss_pred CceEEEEeceeccchHHHHHHHHHH--HcC-CcEEEEEECCC
Confidence 4578888888776655555555553 224 67799999999
No 79
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=20.55 E-value=61 Score=26.97 Aligned_cols=74 Identities=12% Similarity=0.080 Sum_probs=54.8
Q ss_pred CCCCcchHHhhhcCceEEeCcccCHHHHHHHHHHHHHhhhc--C------CCCCeEEEEeCCCCcchhhhhHHHHHhhcc
Q 041456 11 EQPPPDLASYLYKNRIVYLGMSFVPSVRELILAEFLYLQYE--D------AEKPIYLYLNSTGTTEVGSFLCHALVFFQI 82 (92)
Q Consensus 11 ~~~~~dl~~~l~~~RiifL~g~Id~~~a~~ii~~Ll~L~~~--d------~~~~I~lyINSpGG~v~aglaIyD~m~~v~ 82 (92)
..+.+.+.+.|+.+-.||.-.+++++--..++.+-+..+.. + ++.-..+.++..+|+..+++...+.+....
T Consensus 141 ENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~ 220 (436)
T COG2256 141 ENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSA 220 (436)
T ss_pred CCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhc
Confidence 34567899999988889999999998888888874433322 1 122345677999999999999999886655
Q ss_pred cc
Q 041456 83 SS 84 (92)
Q Consensus 83 ~~ 84 (92)
.+
T Consensus 221 ~~ 222 (436)
T COG2256 221 EP 222 (436)
T ss_pred CC
Confidence 43
No 80
>PF01039 Carboxyl_trans: Carboxyl transferase domain; InterPro: IPR000022 Members in this domain include biotin dependent carboxylases [, ]. The carboxyl transferase domain carries out the following reaction; transcarboxylation from biotin to an acceptor molecule. There are two recognised types of carboxyl transferase. One of them uses acyl-CoA and the other uses 2-oxo acid as the acceptor molecule of carbon dioxide. All of the members in this family utilise acyl-CoA as the acceptor molecule.; GO: 0016874 ligase activity; PDB: 2F9Y_B 1XO6_B 1XNV_B 3MFM_C 3IBB_A 1XNW_F 3IAV_B 1XNY_A 3IB9_A 3U9S_F ....
Probab=20.16 E-value=2.1e+02 Score=23.49 Aligned_cols=58 Identities=5% Similarity=-0.140 Sum_probs=39.1
Q ss_pred EeCcccCHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCC----------CcchhhhhHHHHHhhcccccce
Q 041456 28 YLGMSFVPSVRELILAEFLYLQYEDAEKPIYLYLNSTG----------TTEVGSFLCHALVFFQISSINA 87 (92)
Q Consensus 28 fL~g~Id~~~a~~ii~~Ll~L~~~d~~~~I~lyINSpG----------G~v~aglaIyD~m~~v~~~v~t 87 (92)
+.+|.++.+.+.....-+-..+. -+-||-.+.|.|| |-+..|..+.+++.-++.|+-|
T Consensus 305 ~~~G~~~~~~a~K~arfi~lcd~--~~iPlv~l~dtpGf~~g~~~E~~g~~~~ga~~~~a~~~~~vP~it 372 (493)
T PF01039_consen 305 QRAGALDPDGARKAARFIRLCDA--FNIPLVTLVDTPGFMPGPEAERAGIIRAGARLLYALAEATVPKIT 372 (493)
T ss_dssp CGGGEB-HHHHHHHHHHHHHHHH--TT--EEEEEEECEB--SHHHHHTTHHHHHHHHHHHHHHH-S-EEE
T ss_pred cccccCChHHHHHHHHHHHHHHh--hCCceEEEeecccccccchhhhcchHHHHHHHHHHHHcCCCCEEE
Confidence 34578899998888776665554 3789999999998 4566678888888776666544
Done!