Query 017822
Match_columns 365
No_of_seqs 181 out of 1546
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 03:44:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017822.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017822hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02227 sigpep_I_bact signal 100.0 2.6E-41 5.6E-46 302.0 18.4 154 185-345 2-163 (163)
2 PRK10861 signal peptidase I; P 100.0 2.1E-36 4.6E-41 296.9 18.5 156 184-346 63-306 (324)
3 KOG0171 Mitochondrial inner me 100.0 2.3E-34 4.9E-39 255.8 12.0 142 196-354 26-168 (176)
4 PRK13838 conjugal transfer pil 99.9 1.4E-25 3E-30 203.9 16.4 118 221-340 37-171 (176)
5 TIGR02771 TraF_Ti conjugative 99.9 7.3E-25 1.6E-29 198.3 16.0 120 215-340 32-168 (171)
6 KOG1568 Mitochondrial inner me 99.9 1E-25 2.2E-30 200.4 8.8 129 200-355 28-162 (174)
7 PRK13884 conjugal transfer pep 99.9 3.4E-24 7.3E-29 195.1 16.7 120 215-340 37-175 (178)
8 PF10502 Peptidase_S26: Signal 99.9 1.3E-25 2.7E-30 196.5 1.9 123 214-341 6-137 (138)
9 TIGR02754 sod_Ni_protease nick 99.8 1.5E-18 3.2E-23 140.0 10.1 88 207-338 2-89 (90)
10 cd06530 S26_SPase_I The S26 Ty 99.7 5.9E-18 1.3E-22 134.6 9.7 84 205-337 2-85 (85)
11 COG4959 TraF Type IV secretory 99.7 1.4E-16 3E-21 141.0 6.7 119 218-340 41-168 (173)
12 TIGR02228 sigpep_I_arch signal 99.6 2.7E-15 5.9E-20 134.4 12.5 85 207-338 35-119 (158)
13 COG0681 LepB Signal peptidase 99.6 1.6E-14 3.6E-19 126.8 12.1 135 182-337 8-144 (166)
14 PF00717 Peptidase_S24: Peptid 99.1 3E-10 6.4E-15 86.7 7.1 58 207-276 1-58 (70)
15 cd06462 Peptidase_S24_S26 The 98.9 1.3E-08 2.8E-13 79.3 9.7 82 205-336 2-83 (84)
16 KOG3342 Signal peptidase I [In 98.6 2.3E-07 5E-12 82.7 9.6 90 205-338 50-144 (180)
17 cd06529 S24_LexA-like Peptidas 98.3 2.6E-06 5.7E-11 66.2 7.5 56 205-274 2-57 (81)
18 COG2932 Predicted transcriptio 98.3 4.4E-06 9.5E-11 77.6 10.1 56 205-273 125-180 (214)
19 PRK10276 DNA polymerase V subu 98.0 4.8E-05 1E-09 66.5 10.5 48 205-266 53-101 (139)
20 TIGR00498 lexA SOS regulatory 97.9 0.00011 2.4E-09 67.2 11.3 48 204-265 112-160 (199)
21 PRK00215 LexA repressor; Valid 97.9 0.0001 2.2E-09 67.8 11.0 49 204-266 119-168 (205)
22 PRK12423 LexA repressor; Provi 97.7 0.00027 5.8E-09 65.5 10.6 47 205-265 116-163 (202)
23 COG1974 LexA SOS-response tran 96.6 0.026 5.6E-07 52.9 11.5 48 205-265 114-162 (201)
24 COG0681 LepB Signal peptidase 86.3 1 2.2E-05 39.3 4.2 29 257-285 137-165 (166)
25 PF05257 CHAP: CHAP domain; I 46.9 43 0.00093 28.0 5.1 37 233-276 61-98 (124)
26 TIGR00008 infA translation ini 41.7 25 0.00054 27.7 2.6 21 218-241 46-66 (68)
27 PF12518 DUF3721: Protein of u 40.1 13 0.00028 25.5 0.7 9 125-133 23-31 (34)
28 COG3602 Uncharacterized protei 40.0 25 0.00054 30.7 2.5 17 212-228 13-29 (134)
29 cd04456 S1_IF1A_like S1_IF1A_l 39.1 29 0.00063 27.8 2.6 21 219-241 41-61 (78)
30 COG0361 InfA Translation initi 37.6 32 0.00068 27.7 2.6 22 217-241 47-68 (75)
31 smart00439 BAH Bromo adjacent 35.5 2.4E+02 0.0052 22.8 7.8 28 305-342 58-85 (120)
32 COG4929 Uncharacterized membra 35.4 77 0.0017 29.7 5.1 28 217-244 32-59 (190)
33 cd04717 BAH_polybromo BAH, or 33.0 90 0.002 26.3 4.9 79 235-338 4-82 (121)
34 COG1097 RRP4 RNA-binding prote 32.2 82 0.0018 30.6 5.0 20 208-227 104-123 (239)
35 PF01176 eIF-1a: Translation i 30.1 40 0.00087 25.7 2.1 11 235-245 42-52 (65)
36 cd05793 S1_IF1A S1_IF1A: Trans 29.8 47 0.001 26.5 2.5 20 219-241 41-60 (77)
37 PF10000 ACT_3: ACT domain; I 29.8 28 0.00061 27.5 1.2 18 211-228 12-29 (72)
38 TIGR02594 conserved hypothetic 29.5 1.2E+02 0.0025 26.4 5.1 13 233-245 72-84 (129)
39 KOG0369 Pyruvate carboxylase [ 28.7 20 0.00042 39.9 0.1 34 8-41 586-622 (1176)
40 cd04712 BAH_DCM_I BAH, or Brom 28.5 3.3E+02 0.0072 23.6 7.8 96 234-345 5-103 (130)
41 smart00652 eIF1a eukaryotic tr 27.5 54 0.0012 26.5 2.5 10 219-228 46-55 (83)
42 cd04370 BAH BAH, or Bromo Adja 26.9 1.4E+02 0.0029 24.2 4.9 30 304-343 60-89 (123)
43 PRK04012 translation initiatio 26.6 57 0.0012 27.5 2.5 23 218-243 61-83 (100)
44 PRK12442 translation initiatio 26.2 63 0.0014 26.7 2.6 20 219-241 49-68 (87)
45 cd05792 S1_eIF1AD_like S1_eIF1 21.2 76 0.0016 25.6 2.2 11 235-245 39-49 (78)
46 PF11101 DUF2884: Protein of u 21.0 1E+02 0.0022 29.4 3.4 25 263-287 17-42 (229)
47 COG4079 Uncharacterized protei 21.0 1.6E+02 0.0034 29.1 4.6 31 256-286 248-282 (293)
No 1
>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type. A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes.
Probab=100.00 E-value=2.6e-41 Score=301.99 Aligned_cols=154 Identities=39% Similarity=0.721 Sum_probs=138.1
Q ss_pred HHHHHHHHHHHHHHHHhcceeEEeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEE
Q 017822 185 AKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRI 264 (365)
Q Consensus 185 ~~~l~ialli~lli~~fl~~~~~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRV 264 (365)
++.++++++++++++.|+++++.|+|+||+|||+.||+|+++|+.+..+++++||+|+|+.|.+ .++.++|||
T Consensus 2 ~~~~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~-------~~~~~iKRV 74 (163)
T TIGR02227 2 ILSLLIAILLALLIRTFVFFPYKIPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKDPDD-------NKNIYVKRV 74 (163)
T ss_pred HHHHHHHHHHHHHHHhhEEEEEEECCcccccchhCCCEEEEEEeEcCCCCCCCCcEEEEecCCC-------CCceeEEEE
Confidence 4566777888899999999999999999999999999999999988888999999999998764 467899999
Q ss_pred EeecCcEEEEeCCEEEeCCeecccccccCccc--------cCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEE
Q 017822 265 VATAGDCVEVHGGKLLVNGVAQDEDFILEPLA--------YEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGR 336 (365)
Q Consensus 265 IGlPGDtV~I~~g~vyVNGk~~~e~~~~~~~~--------~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGk 336 (365)
+|+|||+|+++++.+||||+.+++.|...... ....+.+||+|||||||||+++|+||||||+|++++|+||
T Consensus 75 ig~pGd~v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~G~V~~~~I~Gk 154 (163)
T TIGR02227 75 IGLPGDKVEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGK 154 (163)
T ss_pred EecCCCEEEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCcccCCcCcCCHHHeEEE
Confidence 99999999999999999999999887644311 2345689999999999999999999999999999999999
Q ss_pred EEEEEcCCC
Q 017822 337 SVFRYWPPS 345 (365)
Q Consensus 337 vi~~~wP~~ 345 (365)
+++++||++
T Consensus 155 ~~~~~~p~~ 163 (163)
T TIGR02227 155 VSFVFYPFD 163 (163)
T ss_pred EEEEECCCC
Confidence 999999985
No 2
>PRK10861 signal peptidase I; Provisional
Probab=100.00 E-value=2.1e-36 Score=296.93 Aligned_cols=156 Identities=35% Similarity=0.554 Sum_probs=131.4
Q ss_pred HHHHHHHHHHHHHHHHHhcceeEEeCCCCcccccCCCCEEEEEeccccC------------CCCccccEEEEecCCcccc
Q 017822 184 DAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFF------------KRPEVSDIVIFRAPPILQE 251 (365)
Q Consensus 184 ~~~~l~ialli~lli~~fl~~~~~V~g~SMePTL~~GD~VlV~K~s~~~------------~~p~rGDIVVF~~P~~~~~ 251 (365)
+++.++++++++++++.|+++++.|+|+||+|||..||+|+|+|++|.+ .+|+|||||+|+.|.+
T Consensus 63 ~~~~~~~~l~i~~~ir~fv~~~~~Ips~SM~PTL~~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~--- 139 (324)
T PRK10861 63 TGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPED--- 139 (324)
T ss_pred HHHHHHHHHhHHHHHHhhEEEEEEECCCcCcCcccCCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCC---
Confidence 4456677788889999999999999999999999999999999999864 5789999999999875
Q ss_pred cccCCCceEEEEEEeecCcEEEEe--CCEEEeCCeeccccc-----------------c---------------------
Q 017822 252 IGFSSGDVFIKRIVATAGDCVEVH--GGKLLVNGVAQDEDF-----------------I--------------------- 291 (365)
Q Consensus 252 ~gy~~g~~~VKRVIGlPGDtV~I~--~g~vyVNGk~~~e~~-----------------~--------------------- 291 (365)
++..+||||||+|||+|+++ ++.+||||+.+...+ .
T Consensus 140 ----~~~~yIKRVIGlPGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 215 (324)
T PRK10861 140 ----PKLDYIKRVVGLPGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLN 215 (324)
T ss_pred ----CCCcEEEEeeecCCcEEEEEeCCCEEEEcCcccccccccccccccccccccccccccccccccccccccccccccc
Confidence 56789999999999999998 899999997421110 0
Q ss_pred ---------c---C---c---------c------------ccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeE
Q 017822 292 ---------L---E---P---------L------------AYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVG 335 (365)
Q Consensus 292 ---------~---~---~---------~------------~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiG 335 (365)
. + . . ...+.+++||+|+||||||||++|+||||||+||+++|+|
T Consensus 216 ~~~~~~~~~~~~~E~l~~~~h~i~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~yf~mgdnr~~S~DSRy~G~Vp~~~i~G 295 (324)
T PRK10861 216 ETKENGIRLSERKETLGDVTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANLVG 295 (324)
T ss_pred ccccccccceeEEEecCCccceeeecCCcccccccccccCCCcCceEEECCCeEEEeCCCCCCCcccCcccccCHHHcEE
Confidence 0 0 0 0 0013466999999999999999999999999999999999
Q ss_pred EEEEEEcCCCC
Q 017822 336 RSVFRYWPPSR 346 (365)
Q Consensus 336 kvi~~~wP~~r 346 (365)
||.++||+|+.
T Consensus 296 ~a~~i~~s~d~ 306 (324)
T PRK10861 296 KATAIWMSFEK 306 (324)
T ss_pred EEEEEEEEcCC
Confidence 99999999974
No 3
>KOG0171 consensus Mitochondrial inner membrane protease, subunit IMP1 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.3e-34 Score=255.81 Aligned_cols=142 Identities=54% Similarity=0.853 Sum_probs=124.8
Q ss_pred HHHHHhcceeEEeCCCCcccccCC-CCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEE
Q 017822 196 FLFKSFLAEPRSIPSASMNPTLDV-GDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEV 274 (365)
Q Consensus 196 lli~~fl~~~~~V~g~SMePTL~~-GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I 274 (365)
.....|++++..++|.||+|||+. ||+++.+|+++.++.+++||||+++.|.+ +.+.++|||+|+|||.|++
T Consensus 26 h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~-------~~~~~cKRIva~eGD~v~v 98 (176)
T KOG0171|consen 26 HVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPD-------PKEHICKRIVAMEGDLVEV 98 (176)
T ss_pred HHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCC-------chhhhhheeeccCCceEEE
Confidence 444568889999999999998877 55666699999999999999999999987 5677999999999999999
Q ss_pred eCCEEEeCCeecccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEEEcCCCCCCCCCCCc
Q 017822 275 HGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFRYWPPSRVSDMLDDP 354 (365)
Q Consensus 275 ~~g~vyVNGk~~~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~~wP~~r~g~~~~~~ 354 (365)
.++.+.+|+.. |.+. .++.||+||+||+|||++||+|||+|||||..+|+||+++++||+++.+.++.+.
T Consensus 99 ~~~~~~~n~~~--e~~~--------~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~~~~~~ 168 (176)
T KOG0171|consen 99 HDGPLVVNDLV--EKFS--------TPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSGLILHW 168 (176)
T ss_pred ecCCcccchhh--hhcc--------ceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCchhcceeeecc
Confidence 99988888644 2222 4689999999999999999999999999999999999999999999999877654
No 4
>PRK13838 conjugal transfer pilin processing protease TraF; Provisional
Probab=99.93 E-value=1.4e-25 Score=203.88 Aligned_cols=118 Identities=23% Similarity=0.336 Sum_probs=92.9
Q ss_pred CEEEEEeccccCCCCccccEEEEecCCccc-----ccccCC-------CceEEEEEEeecCcEEEEeCCEEEeCCeeccc
Q 017822 221 DRILAEKVSYFFKRPEVSDIVIFRAPPILQ-----EIGFSS-------GDVFIKRIVATAGDCVEVHGGKLLVNGVAQDE 288 (365)
Q Consensus 221 D~VlV~K~s~~~~~p~rGDIVVF~~P~~~~-----~~gy~~-------g~~~VKRVIGlPGDtV~I~~g~vyVNGk~~~e 288 (365)
+.+.+.++.+..+++++||+|+|+.|+... +++|.+ ...++|||+|+|||+|++++ .++|||+.+++
T Consensus 37 ~pig~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~-~v~iNg~~~~~ 115 (176)
T PRK13838 37 EPLGLWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGG-SVSIDGRPLPS 115 (176)
T ss_pred CEEEEEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECC-EEEECCEEccc
Confidence 446777776556889999999999887532 234421 23699999999999999985 89999999998
Q ss_pred ccccCcccc-----CCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEE
Q 017822 289 DFILEPLAY-----EMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFR 340 (365)
Q Consensus 289 ~~~~~~~~~-----~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~ 340 (365)
.|....... .....+||+|+||||||| ++|+||||||+|++++|+|++...
T Consensus 116 ~~~~~~~~~g~~l~~~~~~~vp~g~~fvlgd~-~~S~DSRy~G~V~~~~I~G~a~pi 171 (176)
T PRK13838 116 SSVRRRDGEGRPLTPFPGGVVPPGHLFLHSSF-AGSYDSRYFGPVPASGLLGLARPV 171 (176)
T ss_pred cccccccccCCcCCCCCccCcCCCeEEEECCC-CCCCcccccCcccHHHeEEEEEEE
Confidence 876543211 123468999999999998 589999999999999999998744
No 5
>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF. This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems.
Probab=99.93 E-value=7.3e-25 Score=198.26 Aligned_cols=120 Identities=30% Similarity=0.421 Sum_probs=91.8
Q ss_pred cccCCCCEEEEEeccccCCCCccccEEEEecCCccc-----ccccCC-C------ceEEEEEEeecCcEEEEeCCEEEeC
Q 017822 215 PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQ-----EIGFSS-G------DVFIKRIVATAGDCVEVHGGKLLVN 282 (365)
Q Consensus 215 PTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~-----~~gy~~-g------~~~VKRVIGlPGDtV~I~~g~vyVN 282 (365)
+.++.|-+. +.+. ++++|||+|+|+.|++.. .++|.+ + ..++|||+|+|||+|+++++.++||
T Consensus 32 ~S~P~g~Y~-~~~~----~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRViglpGD~V~i~~~~v~IN 106 (171)
T TIGR02771 32 KSLPLGLYW-TTSS----KPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGLPGDRVTVRADVVAIN 106 (171)
T ss_pred CCCcceEEE-eCCC----CCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEEEeCCCEEEEECCEEEEC
Confidence 444556555 3222 689999999999886422 234421 1 2799999999999999999999999
Q ss_pred CeecccccccCcc-----ccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEE
Q 017822 283 GVAQDEDFILEPL-----AYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFR 340 (365)
Q Consensus 283 Gk~~~e~~~~~~~-----~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~ 340 (365)
|+.+++.+..... .....+.+||+| ||+||||+++|+||||||+|++++|+||+...
T Consensus 107 g~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~~~~IiGk~~pl 168 (171)
T TIGR02771 107 GQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPISREQVIGRVKPL 168 (171)
T ss_pred CEEcccccccccccCCCccccCCCcEECCC-EEEECCCCCCCCcccccceecHHHeEEEEEEe
Confidence 9998775443211 112247899999 99999999999999999999999999998753
No 6
>KOG1568 consensus Mitochondrial inner membrane protease, subunit IMP2 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.92 E-value=1e-25 Score=200.39 Aligned_cols=129 Identities=33% Similarity=0.574 Sum_probs=111.7
Q ss_pred HhcceeEEeCCCCcccccCCC------CEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEE
Q 017822 200 SFLAEPRSIPSASMNPTLDVG------DRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVE 273 (365)
Q Consensus 200 ~fl~~~~~V~g~SMePTL~~G------D~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~ 273 (365)
--+.....|.|.||.|||+++ |+|+++|+.-..+...+||||+|+.|.+ +++.+||||+|+|||++.
T Consensus 28 DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~-------p~~~~iKRv~alegd~~~ 100 (174)
T KOG1568|consen 28 DRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPND-------PDKVIIKRVAALEGDIMV 100 (174)
T ss_pred eeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCC-------hhheeeeeeecccccEec
Confidence 335567889999999999975 8999999865445688999999999986 789999999999999987
Q ss_pred EeCCEEEeCCeecccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEEEcCCCCCCCCCCC
Q 017822 274 VHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFRYWPPSRVSDMLDD 353 (365)
Q Consensus 274 I~~g~vyVNGk~~~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~~wP~~r~g~~~~~ 353 (365)
-. ++....+.||+|||||.|||...|+|||.||||+...|+|||++++||+.|++....+
T Consensus 101 t~--------------------~~k~~~v~vpkghcWVegDn~~hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~~~ 160 (174)
T KOG1568|consen 101 TE--------------------DEKEEPVVVPKGHCWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLDKE 160 (174)
T ss_pred cC--------------------CCCCCceecCCCcEEEecCCcccccccCccCCcchhheeeeEEEEEcChHHhhhhccc
Confidence 52 2234567899999999999999999999999999999999999999999999977655
Q ss_pred ch
Q 017822 354 PY 355 (365)
Q Consensus 354 ~~ 355 (365)
..
T Consensus 161 ~~ 162 (174)
T KOG1568|consen 161 SP 162 (174)
T ss_pred CC
Confidence 43
No 7
>PRK13884 conjugal transfer peptidase TraF; Provisional
Probab=99.92 E-value=3.4e-24 Score=195.06 Aligned_cols=120 Identities=24% Similarity=0.342 Sum_probs=91.6
Q ss_pred cccCCCCEEEEEeccccCCCCccccEEEEecCCcc-----cccccC-----CC--ceEEEEEEeecCcEEEEeCCEEEeC
Q 017822 215 PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPIL-----QEIGFS-----SG--DVFIKRIVATAGDCVEVHGGKLLVN 282 (365)
Q Consensus 215 PTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~-----~~~gy~-----~g--~~~VKRVIGlPGDtV~I~~g~vyVN 282 (365)
++++.|=+.+ .. ..+++||+|+|+.|+.. .+++|. ++ ..++|||+|+|||+|+++++.++||
T Consensus 37 ~S~P~glY~~-~~-----~~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva~pGD~V~~~~~~l~VN 110 (178)
T PRK13884 37 KSIPVGLYWT-SS-----APVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLAAKGDAVSVTDDGVRVN 110 (178)
T ss_pred CCCcceEEEE-eC-----CCCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEeeCCcEEEEECCEEEEC
Confidence 4455665554 22 57899999999987642 235553 22 3799999999999999999999999
Q ss_pred Ceeccccccc--Cc----cc-cCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEE
Q 017822 283 GVAQDEDFIL--EP----LA-YEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFR 340 (365)
Q Consensus 283 Gk~~~e~~~~--~~----~~-~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~ 340 (365)
|+.+.+.... +. .+ +....++||+|+||+||||+++|+||||||+|++++|+|++...
T Consensus 111 G~~v~~~~~~~~d~~g~~l~~~~~~~~~lp~g~~fvlgd~~~~S~DSRYfG~V~~~~I~G~~~Pl 175 (178)
T PRK13884 111 GELLPLSKPILADGAGRPLPRYQANSYTLGESELLLMSDVSATSFDGRYFGPINRSQIKTVIRPV 175 (178)
T ss_pred CEEccccccccccccCCcccccCCCceEECCCEEEEECCCCCCCCcccccCcccHHHEEEEEEEe
Confidence 9998653221 11 11 12234689999999999999999999999999999999998754
No 8
>PF10502 Peptidase_S26: Signal peptidase, peptidase S26 ; InterPro: IPR019533 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 entry represents a conserved region found in the S26A family of serine endopeptidases, which function in the processing of newly-synthesised secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal signal peptides as proteins are translocated across membranes. ; PDB: 3S04_B 1KN9_C 1B12_D 3IIQ_B 1T7D_A.
Probab=99.91 E-value=1.3e-25 Score=196.49 Aligned_cols=123 Identities=38% Similarity=0.635 Sum_probs=32.7
Q ss_pred ccccCCCCEEEEEeccccCCCCccccEEEEecCCccc----ccccC-CCceEEEEEEeecCcEEEEeCCEEEeCCeeccc
Q 017822 214 NPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQ----EIGFS-SGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDE 288 (365)
Q Consensus 214 ePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~----~~gy~-~g~~~VKRVIGlPGDtV~I~~g~vyVNGk~~~e 288 (365)
+|++..|=+.+- +. ..+++||+|+|+.|.... +++|. .+..++|||+|+|||+|+++++.++|||+.+.+
T Consensus 6 T~SlP~g~Y~~~-~~----~~~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~ 80 (138)
T PF10502_consen 6 TPSLPVGIYLID-PS----DKIERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGE 80 (138)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccc-cc----ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 345555554333 32 348999999999987532 45664 355899999999999999999999999988877
Q ss_pred ccccCc----cccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEEE
Q 017822 289 DFILEP----LAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFRY 341 (365)
Q Consensus 289 ~~~~~~----~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~~ 341 (365)
.+..+. .+......+||+|+|||+|||+.+|+||||||+|++++|+|++..+|
T Consensus 81 ~~~~d~~g~~l~~~~~~~~vp~g~~~v~gd~~~~S~DSRy~G~V~~~~I~g~~~pl~ 137 (138)
T PF10502_consen 81 PLATDSDGRPLPQFSGSGTVPEGEYFVLGDNRPNSFDSRYFGPVPRSQIIGKARPLW 137 (138)
T ss_dssp --------S-T----TEEE--TTEEEEE-SBTTS--SHHHH--EEGGGEEEEEEEEE
T ss_pred ccccccccccccccCCceEeCCCEEEEecCCCCCccccCEecccCHHHEEEEEEEEE
Confidence 655433 23333578999999999999999999999999999999999998664
No 9
>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease. Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.
Probab=99.77 E-value=1.5e-18 Score=139.97 Aligned_cols=88 Identities=34% Similarity=0.607 Sum_probs=75.7
Q ss_pred EeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEEeCCEEEeCCeec
Q 017822 207 SIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQ 286 (365)
Q Consensus 207 ~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I~~g~vyVNGk~~ 286 (365)
.|.|+||+|||+.||+|+++++......+++||+|+|+.|.+ ++..++||+++++
T Consensus 2 ~V~g~SM~P~l~~GD~vlv~~~~~~~~~~~~Gdivv~~~~~~-------~~~~~vkRv~~~~------------------ 56 (90)
T TIGR02754 2 KVTGVSMSPTLPPGDRIIVVPWLKIFRVPPIGNVVVVRHPLQ-------PYGLIIKRLAAVD------------------ 56 (90)
T ss_pred EeeCCCccCccCCCCEEEEEEccccCCCCCCCeEEEEecCCC-------CcceEEEEeeEEc------------------
Confidence 588999999999999999998644335567899999998753 4678999999863
Q ss_pred ccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEE
Q 017822 287 DEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSV 338 (365)
Q Consensus 287 ~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi 338 (365)
++++|++|||+.++.|||++|+|+..+|+|||+
T Consensus 57 -------------------~~~~~l~~dN~~~~~d~~~~g~v~~~~I~G~v~ 89 (90)
T TIGR02754 57 -------------------DNGLFLLGDNPKASTDSRQLGPVPRSLLLGKVL 89 (90)
T ss_pred -------------------CCeEEEeCCCCCCCCcccccCCCcHHHEEEEEE
Confidence 347899999999999999999999999999985
No 10
>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa
Probab=99.75 E-value=5.9e-18 Score=134.61 Aligned_cols=84 Identities=50% Similarity=0.953 Sum_probs=75.0
Q ss_pred eEEeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEEeCCEEEeCCe
Q 017822 205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV 284 (365)
Q Consensus 205 ~~~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I~~g~vyVNGk 284 (365)
.+.|.|+||+|+++.||++++++....+.++++||+|+|+.+.. ++..++|||++
T Consensus 2 ~~~v~g~SM~P~i~~gd~v~v~~~~~~~~~~~~GDiv~~~~~~~-------~~~~~vkRv~~------------------ 56 (85)
T cd06530 2 PVVVPGGSMEPTLQPGDLVLVNKLSYGFREPKRGDVVVFKSPGD-------PGKPIIKRVIG------------------ 56 (85)
T ss_pred eeEEcCCCCcCcccCCCEEEEEEeecccCCCCCCCEEEEeCCCC-------CCCEEEEEEEE------------------
Confidence 57899999999999999999998765444799999999999753 35789999997
Q ss_pred ecccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEE
Q 017822 285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRS 337 (365)
Q Consensus 285 ~~~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkv 337 (365)
||++|||++||.|||+||+++.++|+|++
T Consensus 57 ------------------------~~~~gDn~~ns~d~~~~g~~~~~~i~G~~ 85 (85)
T cd06530 57 ------------------------YFVLGDNRNNSLDSRYWGPVPEDDIVGKV 85 (85)
T ss_pred ------------------------EEEeeCCCCCCCccCCcCCCcHHHeEEeC
Confidence 89999999999999999999999999985
No 11
>COG4959 TraF Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.65 E-value=1.4e-16 Score=141.04 Aligned_cols=119 Identities=22% Similarity=0.311 Sum_probs=95.9
Q ss_pred CCCCEEEEEeccccCCCCccccEEEEecCCc----ccccccC-CCceEEEEEEeecCcEEEEeCCEEEeCCeeccc----
Q 017822 218 DVGDRILAEKVSYFFKRPEVSDIVIFRAPPI----LQEIGFS-SGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDE---- 288 (365)
Q Consensus 218 ~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~----~~~~gy~-~g~~~VKRVIGlPGDtV~I~~g~vyVNGk~~~e---- 288 (365)
..|- ..+.|.+ ..+.+||+|+++.|.. ..++||. ...+++|||.|+|||+|++..+.+.|||+.+..
T Consensus 41 plGl-yrv~k~~---~Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~ 116 (173)
T COG4959 41 PLGL-YRVSKLS---APVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPV 116 (173)
T ss_pred ceeE-EEecccC---CCcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeeccc
Confidence 3443 4566553 3459999999999975 3358885 456799999999999999999999999997654
Q ss_pred ccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEE
Q 017822 289 DFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFR 340 (365)
Q Consensus 289 ~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~ 340 (365)
|....+++.+.+...+.++++|+|+|..+.|+|||||||||.++|+|.+..+
T Consensus 117 D~~GR~lp~~~gcR~l~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRPv 168 (173)
T COG4959 117 DRVGRALPRWQGCRYLAPSELLLLTDRSSTSFDSRYFGPIPASQVIGVARPV 168 (173)
T ss_pred cccCCcCCcccCCceecCCeEEEEeccCCcccccceecccCHHHcceeeeee
Confidence 3334455666677779999999999999999999999999999999987654
No 12
>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type. This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.
Probab=99.63 E-value=2.7e-15 Score=134.44 Aligned_cols=85 Identities=29% Similarity=0.526 Sum_probs=69.2
Q ss_pred EeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEEeCCEEEeCCeec
Q 017822 207 SIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQ 286 (365)
Q Consensus 207 ~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I~~g~vyVNGk~~ 286 (365)
.|.|+||+|||++||++++++..+ .++++||+|+|+.|+. ...++|||+++.++ ++
T Consensus 35 ~V~g~SM~Ptl~~GD~vlv~~~~~--~~~~~GDIVvf~~~~~--------~~~iihRVi~v~~~-----~g--------- 90 (158)
T TIGR02228 35 VVLSGSMEPTFNTGDLILVTGADP--NDIQVGDVITYKSPGF--------NTPVTHRVIEINNS-----GG--------- 90 (158)
T ss_pred EEcCCCCcCCccCCCEEEEEeccc--CCCCCCCEEEEEECCC--------CccEEEEEEEEECC-----CC---------
Confidence 399999999999999999999543 6899999999998752 36799999997543 11
Q ss_pred ccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEE
Q 017822 287 DEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSV 338 (365)
Q Consensus 287 ~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi 338 (365)
+-.|++.|||+ ...| .++|+.+||+||+.
T Consensus 91 -------------------~~~~~tkGDnN-~~~D---~~~v~~~~IiG~v~ 119 (158)
T TIGR02228 91 -------------------ELGFITKGDNN-PAPD---GEPVPSENVIGKYL 119 (158)
T ss_pred -------------------cEEEEEEecCC-CCCC---cccCCHHHEEEEEE
Confidence 11578899996 5556 68999999999997
No 13
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=99.58 E-value=1.6e-14 Score=126.78 Aligned_cols=135 Identities=29% Similarity=0.431 Sum_probs=100.0
Q ss_pred HHHHHHHHHHHHHHHHH--HHhcceeEEeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCce
Q 017822 182 SDDAKAAFTALTVSFLF--KSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDV 259 (365)
Q Consensus 182 ~~~~~~l~ialli~lli--~~fl~~~~~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~ 259 (365)
.+++..++.++++++++ +.++++.+.|+|+||+|||+.||+|+++|.++.+..+..+|++ ..|.. .+..
T Consensus 8 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~~GD~v~v~k~~~~~~~~~~~~~~--~~~~~-------~~~~ 78 (166)
T COG0681 8 LELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLNVGDRVLVKKFSYGFGKLKVPDII--VLPAV-------VEGD 78 (166)
T ss_pred HHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccccCCEEEEEeccccccCCccceee--ecCCC-------CCcc
Confidence 35566677777777777 8999999999999999999999999999999988889999888 33322 4677
Q ss_pred EEEEEEeecCcEEEEeCCEEEeCCeecccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEE
Q 017822 260 FIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRS 337 (365)
Q Consensus 260 ~VKRVIGlPGDtV~I~~g~vyVNGk~~~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkv 337 (365)
++||+++++||.+.++++.+++ +..+.+.+. .+..++.++..++..++.+++.++.......+.++
T Consensus 79 ~~kr~~~~~GD~i~~~~~~~~~-~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (166)
T COG0681 79 LIKRVIGLRGDIVVFKDDRLYV-VPIIPRVYG-----------LVEKDNGKHLVDVIVNANSSRVFGIITKKDYIKRV 144 (166)
T ss_pred eEEEeccCCCCEEEEECCEEEe-ecccCcchh-----------hhhcccccccccccccccCccccccccccccccce
Confidence 9999999999999999999988 222222211 11111112455555667777777777777777766
No 14
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 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) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=99.09 E-value=3e-10 Score=86.66 Aligned_cols=58 Identities=28% Similarity=0.533 Sum_probs=47.4
Q ss_pred EeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEEeC
Q 017822 207 SIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHG 276 (365)
Q Consensus 207 ~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I~~ 276 (365)
+|.|+||+|+|+.||+|++++. .+++.||+|+|..+.. +..++||+++.+|+.+.+..
T Consensus 1 ~V~GdSM~P~i~~Gd~v~v~~~----~~~~~gdivv~~~~~~--------~~~~iKrv~~~~~~~~~~~~ 58 (70)
T PF00717_consen 1 RVEGDSMEPTIKDGDIVLVDPS----SEPKDGDIVVVKIDGD--------EELYIKRVVGEPGGIILISS 58 (70)
T ss_dssp EEESSTTGGTSSTTEEEEEEET----S---TTSEEEEEETTE--------ESEEEEEEEEETTEEEEE-S
T ss_pred CeECcCcccCeeCCCEEEEEEc----CCCccCeEEEEEECCc--------eeeEEEEEEEeCCCEEEEec
Confidence 4789999999999999999987 5899999999998642 13899999999999998863
No 15
>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr
Probab=98.89 E-value=1.3e-08 Score=79.28 Aligned_cols=82 Identities=45% Similarity=0.716 Sum_probs=62.1
Q ss_pred eEEeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEEeCCEEEeCCe
Q 017822 205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV 284 (365)
Q Consensus 205 ~~~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I~~g~vyVNGk 284 (365)
.+.|.|+||+|+++.||++++++.. ..++.||+|+++.+. +..++||+...++
T Consensus 2 ~~~v~g~SM~P~i~~gd~v~i~~~~---~~~~~G~iv~~~~~~---------~~~~ikrl~~~~~--------------- 54 (84)
T cd06462 2 ALRVEGDSMEPTIPDGDLVLVDKSS---YEPKRGDIVVFRLPG---------GELTVKRVIGLPG--------------- 54 (84)
T ss_pred eeEEcCCCccCcccCCCEEEEEecC---CCCcCCEEEEEEcCC---------CcEEEEEEEEECC---------------
Confidence 3579999999999999999999863 248999999999852 3789999997655
Q ss_pred ecccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCCcCcccCCCEeEE
Q 017822 285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGR 336 (365)
Q Consensus 285 ~~~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGk 336 (365)
++++++.+||+ +..|.+..+. ...+|+|+
T Consensus 55 ---------------------~~~~~l~~~N~-~~~~~~~~~~-~~~~i~g~ 83 (84)
T cd06462 55 ---------------------EGHYFLLGDNP-NSPDSRIDGP-PELDIVGV 83 (84)
T ss_pred ---------------------CCEEEEECCCC-CCCcccccCC-CHHHEEEe
Confidence 24677888984 5555554443 55666665
No 16
>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.61 E-value=2.3e-07 Score=82.73 Aligned_cols=90 Identities=23% Similarity=0.335 Sum_probs=64.4
Q ss_pred eEEeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEEeCCEEEeCCe
Q 017822 205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV 284 (365)
Q Consensus 205 ~~~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I~~g~vyVNGk 284 (365)
.+.|.++||||.++.||.++...... ...+.||||+|+.++ ...++++||+-.-+- ++
T Consensus 50 iVVVLSgSMePaF~RGDlLfL~N~~~--~p~~vGdivVf~veg--------R~IPiVHRviK~he~----~~-------- 107 (180)
T KOG3342|consen 50 IVVVLSGSMEPAFHRGDLLFLTNRNE--DPIRVGDIVVFKVEG--------REIPIVHRVIKQHEK----SN-------- 107 (180)
T ss_pred EEEEEcCCcCcccccccEEEEecCCC--CcceeccEEEEEECC--------ccCchhHHHHHHhcc----cC--------
Confidence 57889999999999999998875432 446789999999875 467899999842111 01
Q ss_pred ecccccccCccccCCCCeeecCCeEEEecCCCCCCCCCCC-c----CcccCCCEeEEEE
Q 017822 285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHN-W----GPLPIENIVGRSV 338 (365)
Q Consensus 285 ~~~e~~~~~~~~~~~~~~~VP~g~yFVlGDNr~nS~DSRy-~----GpVp~~~IiGkvi 338 (365)
.+-++.+.|||+ -.|-|. | -.+.+++|+|+|.
T Consensus 108 --------------------~~~~~LTKGDNN--~~dD~~Ly~~gq~~L~r~~Ivg~~~ 144 (180)
T KOG3342|consen 108 --------------------GHIKFLTKGDNN--AVDDRGLYAQGQNWLERKDIVGRVR 144 (180)
T ss_pred --------------------CcEEEEecCCCC--cccchhcccccccceeccceeeEEe
Confidence 111678889994 445552 1 2367899999975
No 17
>cd06529 S24_LexA-like Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the
Probab=98.30 E-value=2.6e-06 Score=66.23 Aligned_cols=56 Identities=29% Similarity=0.510 Sum_probs=46.9
Q ss_pred eEEeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEE
Q 017822 205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEV 274 (365)
Q Consensus 205 ~~~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I 274 (365)
.+.|.|+||+|+++.||++++++. ..++.||++++..+ +..++||+...+++.+.+
T Consensus 2 ~~~v~g~sM~p~i~~gd~lii~~~----~~~~~g~i~~~~~~----------~~~~ikr~~~~~~~~~~L 57 (81)
T cd06529 2 ALRVKGDSMEPTIPDGDLVLVDPS----DTPRDGDIVVARLD----------GELTVKRLQRRGGGRLRL 57 (81)
T ss_pred EEEEECCCcCCccCCCCEEEEcCC----CCCCCCCEEEEEEC----------CEEEEEEEEECCCCcEEE
Confidence 357999999999999999999886 45999999999974 467899999887655544
No 18
>COG2932 Predicted transcriptional regulator [Transcription]
Probab=98.29 E-value=4.4e-06 Score=77.65 Aligned_cols=56 Identities=21% Similarity=0.430 Sum_probs=44.7
Q ss_pred eEEeCCCCcccccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEeecCcEEE
Q 017822 205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVE 273 (365)
Q Consensus 205 ~~~V~g~SMePTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~ 273 (365)
...|.|+||+|+++.||.++|+.- ....+||.|++..- .+..+|||+.-.+|-.+.
T Consensus 125 ~i~V~GDSMeP~~~~Gd~ilVd~~----~~~~~gd~v~v~~~---------g~~~~VK~l~~~~~~~~~ 180 (214)
T COG2932 125 ALRVTGDSMEPTYEDGDTLLVDPG----VNTRRGDRVYVETD---------GGELYVKKLQREPGGLLR 180 (214)
T ss_pred EEEEeCCcccccccCCCEEEECCC----CceeeCCEEEEEEe---------CCeEEEEEEEEecCCeEE
Confidence 567999999999999999999876 56778997777653 368899999976655443
No 19
>PRK10276 DNA polymerase V subunit UmuD; Provisional
Probab=98.02 E-value=4.8e-05 Score=66.47 Aligned_cols=48 Identities=21% Similarity=0.291 Sum_probs=39.6
Q ss_pred eEEeCCCCcc-cccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEe
Q 017822 205 PRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVA 266 (365)
Q Consensus 205 ~~~V~g~SMe-PTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIG 266 (365)
...|.|+||. |+++.||++++++- .+++.||+|++.. .+...+||+.-
T Consensus 53 ~l~V~GdSM~~~~I~~GD~liVd~~----~~~~~Gdivv~~~----------~g~~~vKrl~~ 101 (139)
T PRK10276 53 FVKASGDSMIDAGISDGDLLIVDSA----ITASHGDIVIAAV----------DGEFTVKKLQL 101 (139)
T ss_pred EEEEecCCCCCCCCCCCCEEEEECC----CCCCCCCEEEEEE----------CCEEEEEEEEE
Confidence 5789999998 68999999999875 4578899999875 35678999873
No 20
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=97.91 E-value=0.00011 Score=67.24 Aligned_cols=48 Identities=23% Similarity=0.243 Sum_probs=40.6
Q ss_pred eeEEeCCCCcc-cccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEE
Q 017822 204 EPRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIV 265 (365)
Q Consensus 204 ~~~~V~g~SMe-PTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVI 265 (365)
..+.|.|+||. |.++.||++++++. ..++.||+|++.. .+...+||+.
T Consensus 112 f~~~V~GdSM~~~~i~~Gd~v~v~~~----~~~~~G~ivvv~~----------~~~~~vKrl~ 160 (199)
T TIGR00498 112 FLLKVMGDSMVDAGICDGDLLIVRSQ----KDARNGEIVAAMI----------DGEVTVKRFY 160 (199)
T ss_pred EEEEecCCCCCCCCCCCCCEEEEecC----CCCCCCCEEEEEE----------CCEEEEEEEE
Confidence 46789999996 68999999999875 5788999999987 2567899987
No 21
>PRK00215 LexA repressor; Validated
Probab=97.91 E-value=0.0001 Score=67.83 Aligned_cols=49 Identities=18% Similarity=0.175 Sum_probs=40.5
Q ss_pred eeEEeCCCCcc-cccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEEe
Q 017822 204 EPRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVA 266 (365)
Q Consensus 204 ~~~~V~g~SMe-PTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIG 266 (365)
....|.|+||. |+++.||+|+|++. ..++.||+|++... +...+||+.-
T Consensus 119 ~~~~V~GdSM~~~~i~~Gd~v~v~~~----~~~~~G~ivv~~~~----------~~~~vKrl~~ 168 (205)
T PRK00215 119 FLLRVRGDSMIDAGILDGDLVIVRKQ----QTARNGQIVVALID----------DEATVKRFRR 168 (205)
T ss_pred EEEEEccCCCCCCCcCCCCEEEEeCC----CCCCCCCEEEEEEC----------CEEEEEEEEE
Confidence 35789999995 79999999999874 46789999999863 4678999873
No 22
>PRK12423 LexA repressor; Provisional
Probab=97.73 E-value=0.00027 Score=65.52 Aligned_cols=47 Identities=26% Similarity=0.292 Sum_probs=39.8
Q ss_pred eEEeCCCCcc-cccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEE
Q 017822 205 PRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIV 265 (365)
Q Consensus 205 ~~~V~g~SMe-PTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVI 265 (365)
...|.|+||. |+|..||+|+|++- ..++.||+|++.. .+...+||+.
T Consensus 116 ~l~V~GdSM~~~~i~~Gd~viv~~~----~~~~~Gdivv~~~----------~~~~~vKrl~ 163 (202)
T PRK12423 116 LLQVQGDSMIDDGILDGDLVGVHRS----PEARDGQIVVARL----------DGEVTIKRLE 163 (202)
T ss_pred EEEEecCcCCCCCcCCCCEEEEeCC----CcCCCCCEEEEEE----------CCEEEEEEEE
Confidence 5689999997 79999999999874 5688899999986 2567899987
No 23
>COG1974 LexA SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]
Probab=96.64 E-value=0.026 Score=52.94 Aligned_cols=48 Identities=21% Similarity=0.248 Sum_probs=39.7
Q ss_pred eEEeCCCCcc-cccCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCceEEEEEE
Q 017822 205 PRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIV 265 (365)
Q Consensus 205 ~~~V~g~SMe-PTL~~GD~VlV~K~s~~~~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVI 265 (365)
...|.|+||. +.+..||+|+|++. .+.+-||||+...++ +..-+||..
T Consensus 114 ~L~V~GdSM~~~gi~dGDlvvV~~~----~~a~~GdiVvA~i~g---------~e~TvKrl~ 162 (201)
T COG1974 114 FLRVSGDSMIDAGILDGDLVVVDPT----EDAENGDIVVALIDG---------EEATVKRLY 162 (201)
T ss_pred EEEecCCccccCcCCCCCEEEEcCC----CCCCCCCEEEEEcCC---------CcEEEEEEE
Confidence 5579999997 57778999999986 789999999999853 346788877
No 24
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=86.33 E-value=1 Score=39.26 Aligned_cols=29 Identities=28% Similarity=0.485 Sum_probs=23.1
Q ss_pred CceEEEEEEeecCcEEEEeCCEEEeCCee
Q 017822 257 GDVFIKRIVATAGDCVEVHGGKLLVNGVA 285 (365)
Q Consensus 257 g~~~VKRVIGlPGDtV~I~~g~vyVNGk~ 285 (365)
...++||++++|||.+...+..+++||+.
T Consensus 137 ~~~~~~~~~~~~gd~~~~~~~~~~~~g~~ 165 (166)
T COG0681 137 KKDYIKRVIGLPGDNILYTDDDLPINGKP 165 (166)
T ss_pred ccccccceEEeeccceeeccCceeecCCC
Confidence 35689999999999999886447777753
No 25
>PF05257 CHAP: CHAP domain; InterPro: IPR007921 The CHAP (cysteine, histidine-dependent amidohydrolases/peptidases) domain is a region between 110 and 140 amino acids that is found in proteins from bacteria, bacteriophages, archaea and eukaryotes of the Trypanosomidae family. Many of these proteins are uncharacterised, but it has been proposed that they may function mainly in peptidoglycan hydrolysis. The CHAP domain is found in a wide range of protein architectures; it is commonly associated with bacterial type SH3 domains and with several families of amidase domains. It has been suggested that CHAP domain containing proteins utilise a catalytic cysteine residue in a nucleophilic-attack mechanism [, ]. The CHAP domain contains two invariant residues, a cysteine and a histidine. These residues form part of the putative active site of CHAP domain containing proteins. Secondary structure predictions show that the CHAP domain belongs to the alpha + beta structural class, with the N-terminal half largely containing predicted alpha helices and the C-terminal half principally composed of predicted beta strands [, ]. Some proteins known to contain a CHAP domain are listed below: Bacterial and trypanosomal glutathionylspermidine amidases. A variety of bacterial autolysins. A Nocardia aerocolonigenes putative esterase. Streptococcus pneumoniae choline-binding protein D. Methanosarcina mazei protein MM2478, a putative chloride channel. Several phage-encoded peptidoglycan hydrolases. Cysteine peptidases belonging to MEROPS peptidase family C51 (D-alanyl-glycyl endopeptidase, clan CA). ; PDB: 2LRJ_A 2VPM_B 2VOB_B 2VPS_A 2K3A_A 2IO9_A 2IO8_A 2IOB_A 2IOA_B 2IO7_B ....
Probab=46.89 E-value=43 Score=28.03 Aligned_cols=37 Identities=19% Similarity=0.311 Sum_probs=23.0
Q ss_pred CCCccccEEEEecCCcccccccCCCceEEEEEEee-cCcEEEEeC
Q 017822 233 KRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVAT-AGDCVEVHG 276 (365)
Q Consensus 233 ~~p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGl-PGDtV~I~~ 276 (365)
..|+.||||+|..... ...=+|--|.++ .+++|.+.+
T Consensus 61 ~~P~~Gdivv~~~~~~-------~~~GHVaIV~~v~~~~~i~v~e 98 (124)
T PF05257_consen 61 STPQPGDIVVWDSGSG-------GGYGHVAIVESVNDGGTITVIE 98 (124)
T ss_dssp S---TTEEEEEEECTT-------TTT-EEEEEEEE-TTSEEEEEE
T ss_pred cccccceEEEeccCCC-------CCCCeEEEEEEECCCCEEEEEE
Confidence 6899999999962111 222378888888 888888754
No 26
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=41.68 E-value=25 Score=27.68 Aligned_cols=21 Identities=24% Similarity=0.278 Sum_probs=11.1
Q ss_pred CCCCEEEEEeccccCCCCccccEE
Q 017822 218 DVGDRILAEKVSYFFKRPEVSDIV 241 (365)
Q Consensus 218 ~~GD~VlV~K~s~~~~~p~rGDIV 241 (365)
.+||+|.|...+| ++.+||||
T Consensus 46 ~~GD~V~Ve~spy---d~tkgrIi 66 (68)
T TIGR00008 46 LPGDKVKVELSPY---DLTRGRIT 66 (68)
T ss_pred CCCCEEEEEECcc---cCCcEeEE
Confidence 3456666655543 35555554
No 27
>PF12518 DUF3721: Protein of unknown function; InterPro: IPR022196 This domain family is found in bacteria and eukaryotes, and is approximately 30 amino acids in length. There is a conserved WMPC sequence motif. There are two completely conserved residues (A and C) that may be functionally important.
Probab=40.13 E-value=13 Score=25.54 Aligned_cols=9 Identities=56% Similarity=1.782 Sum_probs=7.7
Q ss_pred ccCcccCCC
Q 017822 125 GSKWLPCNE 133 (365)
Q Consensus 125 ~~~~~~~~~ 133 (365)
+.||+||.+
T Consensus 23 g~~WMPC~~ 31 (34)
T PF12518_consen 23 GDKWMPCSN 31 (34)
T ss_pred cCccccCcc
Confidence 689999985
No 28
>COG3602 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.01 E-value=25 Score=30.68 Aligned_cols=17 Identities=35% Similarity=0.491 Sum_probs=14.6
Q ss_pred CcccccCCCCEEEEEec
Q 017822 212 SMNPTLDVGDRILAEKV 228 (365)
Q Consensus 212 SMePTL~~GD~VlV~K~ 228 (365)
||+|.|.+||+|+..--
T Consensus 13 smtPeL~~G~yVfcT~~ 29 (134)
T COG3602 13 SMTPELLDGDYVFCTVA 29 (134)
T ss_pred hcCccccCCceEEEEec
Confidence 79999999999987543
No 29
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=39.09 E-value=29 Score=27.80 Aligned_cols=21 Identities=19% Similarity=0.357 Sum_probs=9.3
Q ss_pred CCCEEEEEeccccCCCCccccEE
Q 017822 219 VGDRILAEKVSYFFKRPEVSDIV 241 (365)
Q Consensus 219 ~GD~VlV~K~s~~~~~p~rGDIV 241 (365)
.||+|+|....| .+..+|||+
T Consensus 41 ~GD~VlV~~~~~--~~~~kg~Iv 61 (78)
T cd04456 41 RGDFLIVDPIEE--GEDVKADII 61 (78)
T ss_pred CCCEEEEEeccc--CCCceEEEE
Confidence 355555544332 234445444
No 30
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=37.64 E-value=32 Score=27.67 Aligned_cols=22 Identities=32% Similarity=0.385 Sum_probs=12.7
Q ss_pred cCCCCEEEEEeccccCCCCccccEE
Q 017822 217 LDVGDRILAEKVSYFFKRPEVSDIV 241 (365)
Q Consensus 217 L~~GD~VlV~K~s~~~~~p~rGDIV 241 (365)
+.+||.|+|...+| +.++|||+
T Consensus 47 I~~GD~V~Ve~~~~---d~~kg~I~ 68 (75)
T COG0361 47 ILPGDVVLVELSPY---DLTKGRIV 68 (75)
T ss_pred eCCCCEEEEEeccc---ccccccEE
Confidence 44566666666554 35566654
No 31
>smart00439 BAH Bromo adjacent homology domain.
Probab=35.51 E-value=2.4e+02 Score=22.80 Aligned_cols=28 Identities=18% Similarity=0.374 Sum_probs=18.9
Q ss_pred cCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEEEc
Q 017822 305 PEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFRYW 342 (365)
Q Consensus 305 P~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~~w 342 (365)
-++++|...+. --++.+.|+||+.....
T Consensus 58 ~~~Elf~s~~~----------~~i~~~~I~~kc~V~~~ 85 (120)
T smart00439 58 DKNEVFLSDEY----------DTVPLSDIIGKCNVLSK 85 (120)
T ss_pred CCcceEEEccC----------ccCChHHeeeEEEEEEc
Confidence 46777754432 15899999999866543
No 32
>COG4929 Uncharacterized membrane-anchored protein [Function unknown]
Probab=35.35 E-value=77 Score=29.73 Aligned_cols=28 Identities=14% Similarity=0.158 Sum_probs=20.0
Q ss_pred cCCCCEEEEEeccccCCCCccccEEEEe
Q 017822 217 LDVGDRILAEKVSYFFKRPEVSDIVIFR 244 (365)
Q Consensus 217 L~~GD~VlV~K~s~~~~~p~rGDIVVF~ 244 (365)
+..|+.|+..-.+-..+++-+||.++..
T Consensus 32 l~~G~~IiLqtaPVDPRslmrGDYmtLn 59 (190)
T COG4929 32 LTTGREIILQTAPVDPRSLMRGDYMTLN 59 (190)
T ss_pred hccCCEEEEEeCCCChHHhhccceEEee
Confidence 4458877777666556777789888765
No 33
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=33.03 E-value=90 Score=26.27 Aligned_cols=79 Identities=20% Similarity=0.098 Sum_probs=41.7
Q ss_pred CccccEEEEecCCcccccccCCCceEEEEEEeecCcEEEEeCCEEEeCCeecccccccCccccCCCCeeecCCeEEEecC
Q 017822 235 PEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGD 314 (365)
Q Consensus 235 p~rGDIVVF~~P~~~~~~gy~~g~~~VKRVIGlPGDtV~I~~g~vyVNGk~~~e~~~~~~~~~~~~~~~VP~g~yFVlGD 314 (365)
++.||.|.++.++. ++..+|-||..+- +-.++..++++.-.-.+-.... ......-++++|....
T Consensus 4 ~~vGD~V~v~~~~~-------~~~~~i~~I~~i~----~~~~g~~~~~~~Wf~rP~et~~----~~~~~~~~~Evfls~~ 68 (121)
T cd04717 4 YRVGDCVYVANPED-------PSKPIIFRIERLW----KDEDGEKFFFGCWFYRPEETFH----EPTRKFYKNEVFKSPL 68 (121)
T ss_pred EECCCEEEEeCCCC-------CCCCEEEEEeEEE----ECCCCCEEEEEEEEeChHHccC----CCccccccCceEEcCc
Confidence 46788888887653 3556777776432 2123445555442211100000 0011234577777544
Q ss_pred CCCCCCCCCCcCcccCCCEeEEEE
Q 017822 315 NRNNSFDSHNWGPLPIENIVGRSV 338 (365)
Q Consensus 315 Nr~nS~DSRy~GpVp~~~IiGkvi 338 (365)
. --+|.+.|+||..
T Consensus 69 ~----------d~~~~~~I~~kc~ 82 (121)
T cd04717 69 Y----------ETVPVEEIVGKCA 82 (121)
T ss_pred c----------ccccHHHhcCeeE
Confidence 3 3578889999974
No 34
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=32.23 E-value=82 Score=30.60 Aligned_cols=20 Identities=30% Similarity=0.501 Sum_probs=15.8
Q ss_pred eCCCCcccccCCCCEEEEEe
Q 017822 208 IPSASMNPTLDVGDRILAEK 227 (365)
Q Consensus 208 V~g~SMePTL~~GD~VlV~K 227 (365)
-....|.|.|+.||+|+..-
T Consensus 104 ~~~~~~r~~l~vGD~v~AkV 123 (239)
T COG1097 104 NAEKDLRPFLNVGDLVYAKV 123 (239)
T ss_pred ccccccccccccCCEEEEEE
Confidence 33788999999999876543
No 35
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=30.08 E-value=40 Score=25.70 Aligned_cols=11 Identities=18% Similarity=0.296 Sum_probs=5.6
Q ss_pred CccccEEEEec
Q 017822 235 PEVSDIVIFRA 245 (365)
Q Consensus 235 p~rGDIVVF~~ 245 (365)
+++||+|+...
T Consensus 42 I~~GD~V~V~~ 52 (65)
T PF01176_consen 42 IKRGDFVLVEP 52 (65)
T ss_dssp --TTEEEEEEE
T ss_pred cCCCCEEEEEe
Confidence 45666666654
No 36
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=29.84 E-value=47 Score=26.49 Aligned_cols=20 Identities=25% Similarity=0.522 Sum_probs=8.8
Q ss_pred CCCEEEEEeccccCCCCccccEE
Q 017822 219 VGDRILAEKVSYFFKRPEVSDIV 241 (365)
Q Consensus 219 ~GD~VlV~K~s~~~~~p~rGDIV 241 (365)
.||+|+|...+| +..+|||+
T Consensus 41 ~GD~V~Ve~~~~---d~~kg~Iv 60 (77)
T cd05793 41 EGDIVLVAPWDF---QDDKADII 60 (77)
T ss_pred CCCEEEEEeccc---cCCEEEEE
Confidence 355555544332 34444443
No 37
>PF10000 ACT_3: ACT domain; InterPro: IPR018717 This domain has no known function.; PDB: 1ZVP_C.
Probab=29.83 E-value=28 Score=27.47 Aligned_cols=18 Identities=33% Similarity=0.578 Sum_probs=12.3
Q ss_pred CCcccccCCCCEEEEEec
Q 017822 211 ASMNPTLDVGDRILAEKV 228 (365)
Q Consensus 211 ~SMePTL~~GD~VlV~K~ 228 (365)
.+|+|.|++|++||+.--
T Consensus 12 ~~m~P~L~~~~yVF~t~~ 29 (72)
T PF10000_consen 12 ASMSPELNPGEYVFCTVP 29 (72)
T ss_dssp ST-EEEE-SS-EEEEEE-
T ss_pred hhCCcEeCCCCEEEEEec
Confidence 489999999999998654
No 38
>TIGR02594 conserved hypothetical protein TIGR02594. Members of this protein family known so far are restricted to the bacteria, and for the most to the proteobacteria. The function is unknown.
Probab=29.52 E-value=1.2e+02 Score=26.41 Aligned_cols=13 Identities=23% Similarity=0.373 Sum_probs=11.1
Q ss_pred CCCccccEEEEec
Q 017822 233 KRPEVSDIVIFRA 245 (365)
Q Consensus 233 ~~p~rGDIVVF~~ 245 (365)
.+|+.||||+|+.
T Consensus 72 ~~p~~GDiv~f~~ 84 (129)
T TIGR02594 72 SKPAYGCIAVKRR 84 (129)
T ss_pred CCCCccEEEEEEC
Confidence 4789999999975
No 39
>KOG0369 consensus Pyruvate carboxylase [Energy production and conversion]
Probab=28.66 E-value=20 Score=39.90 Aligned_cols=34 Identities=24% Similarity=0.334 Sum_probs=28.5
Q ss_pred EechHhHHHhhhhhCceeccCC---CCcchhhhcccc
Q 017822 8 NFSGYVAQNLAHSAGIRFGFST---TSTRSFHECLFR 41 (365)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~ 41 (365)
.-+-||||+++.-+.+-|-.+| -.-||||||-|+
T Consensus 586 ~IaPyvah~f~~lfslE~WGGATFDVamRFLhEcPWe 622 (1176)
T KOG0369|consen 586 KIAPYVAHAFAGLFSLENWGGATFDVAMRFLHECPWE 622 (1176)
T ss_pred hcchHHHHHhhhhhhhhhcCCchhhHHHHHHhcChHH
Confidence 3478999999999999887766 457999999875
No 40
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=28.49 E-value=3.3e+02 Score=23.60 Aligned_cols=96 Identities=10% Similarity=0.015 Sum_probs=44.6
Q ss_pred CCccccEEEEecCCccc--cccc-CCCceEEEEEEeecCcEEEEeCCEEEeCCeecccccccCccccCCCCeeecCCeEE
Q 017822 234 RPEVSDIVIFRAPPILQ--EIGF-SSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVF 310 (365)
Q Consensus 234 ~p~rGDIVVF~~P~~~~--~~gy-~~g~~~VKRVIGlPGDtV~I~~g~vyVNGk~~~e~~~~~~~~~~~~~~~VP~g~yF 310 (365)
.++.||+|..+.++... ..+- .....+|-||.-+.-+. ++..++.++-+.. +...-.+. .-.+.++|
T Consensus 5 ~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e~~----~g~~~~h~~W~yr-----p~eTv~g~-~~~~~ElF 74 (130)
T cd04712 5 TIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKKGS----DGSKMFHGRWLYR-----GCDTVLGN-YANERELF 74 (130)
T ss_pred EEeCCCEEEEcCCCCCccccccccccccceEEEEEEeeecC----CCceEEEEEEEEc-----chhccccc-cCCCceEE
Confidence 45678888888754310 0000 00134677776443221 3333444432211 11111111 34566777
Q ss_pred EecCCCCCCCCCCCcCcccCCCEeEEEEEEEcCCC
Q 017822 311 VLGDNRNNSFDSHNWGPLPIENIVGRSVFRYWPPS 345 (365)
Q Consensus 311 VlGDNr~nS~DSRy~GpVp~~~IiGkvi~~~wP~~ 345 (365)
+ .|+.+ . -....+ .+.|+||+...+.+..
T Consensus 75 L-Sd~c~-~---~~~~~~-~~~I~~k~~V~~~~~~ 103 (130)
T cd04712 75 L-TNECT-C---LELDLL-STEIKGVHKVDWSGTP 103 (130)
T ss_pred E-ecccc-c---cccccc-cceeEEEEEEEEecCc
Confidence 7 45541 1 111111 4599999988776644
No 41
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=27.50 E-value=54 Score=26.52 Aligned_cols=10 Identities=30% Similarity=0.454 Sum_probs=4.7
Q ss_pred CCCEEEEEec
Q 017822 219 VGDRILAEKV 228 (365)
Q Consensus 219 ~GD~VlV~K~ 228 (365)
.||+|+|...
T Consensus 46 ~GD~VlVe~~ 55 (83)
T smart00652 46 RGDIVLVDPW 55 (83)
T ss_pred CCCEEEEEec
Confidence 3555555443
No 42
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=26.86 E-value=1.4e+02 Score=24.15 Aligned_cols=30 Identities=17% Similarity=0.376 Sum_probs=20.2
Q ss_pred ecCCeEEEecCCCCCCCCCCCcCcccCCCEeEEEEEEEcC
Q 017822 304 VPEGYVFVLGDNRNNSFDSHNWGPLPIENIVGRSVFRYWP 343 (365)
Q Consensus 304 VP~g~yFVlGDNr~nS~DSRy~GpVp~~~IiGkvi~~~wP 343 (365)
..++++|...+. --++.+.|+||+....++
T Consensus 60 ~~~~Elf~s~~~----------~~i~v~~I~gkc~V~~~~ 89 (123)
T cd04370 60 ALRRELFLSDHL----------DEIPVESIIGKCKVLFVS 89 (123)
T ss_pred cccceeEEecCc----------cccCHHHhccccEEEech
Confidence 356677775432 257889999998766544
No 43
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=26.60 E-value=57 Score=27.46 Aligned_cols=23 Identities=22% Similarity=0.380 Sum_probs=13.5
Q ss_pred CCCCEEEEEeccccCCCCccccEEEE
Q 017822 218 DVGDRILAEKVSYFFKRPEVSDIVIF 243 (365)
Q Consensus 218 ~~GD~VlV~K~s~~~~~p~rGDIVVF 243 (365)
..||+|+|....| +..+||||--
T Consensus 61 ~~GD~VlVe~~~~---~~~kg~Iv~r 83 (100)
T PRK04012 61 REGDVVIVAPWDF---QDEKADIIWR 83 (100)
T ss_pred cCCCEEEEEeccc---CCCEEEEEEE
Confidence 3577777766554 2556666543
No 44
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=26.22 E-value=63 Score=26.71 Aligned_cols=20 Identities=30% Similarity=0.383 Sum_probs=9.9
Q ss_pred CCCEEEEEeccccCCCCccccEE
Q 017822 219 VGDRILAEKVSYFFKRPEVSDIV 241 (365)
Q Consensus 219 ~GD~VlV~K~s~~~~~p~rGDIV 241 (365)
.||.|.|...+| ++.+|+||
T Consensus 49 ~GD~V~VE~spY---DltkGRIi 68 (87)
T PRK12442 49 AGDRVTLELSPY---DLTKGRIN 68 (87)
T ss_pred CCCEEEEEECcc---cCCceeEE
Confidence 455555555443 34455543
No 45
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=21.23 E-value=76 Score=25.57 Aligned_cols=11 Identities=18% Similarity=0.296 Sum_probs=6.6
Q ss_pred CccccEEEEec
Q 017822 235 PEVSDIVIFRA 245 (365)
Q Consensus 235 p~rGDIVVF~~ 245 (365)
+++||+|+..+
T Consensus 39 IkrGd~VlV~p 49 (78)
T cd05792 39 IKRGDFVLVEP 49 (78)
T ss_pred EEeCCEEEEEe
Confidence 35666666653
No 46
>PF11101 DUF2884: Protein of unknown function (DUF2884); InterPro: IPR021307 Some members in this bacterial family of proteins are annotated as YggN which currently has no known function.
Probab=21.03 E-value=1e+02 Score=29.37 Aligned_cols=25 Identities=24% Similarity=0.574 Sum_probs=20.5
Q ss_pred EEEeecCcEEEE-eCCEEEeCCeecc
Q 017822 263 RIVATAGDCVEV-HGGKLLVNGVAQD 287 (365)
Q Consensus 263 RVIGlPGDtV~I-~~g~vyVNGk~~~ 287 (365)
+|.+..|+.+.| .+|.+||||+.+.
T Consensus 17 ~v~~~~~~~~~I~~~g~L~i~G~~v~ 42 (229)
T PF11101_consen 17 EVVQASGEKLRIDPDGNLFINGKKVS 42 (229)
T ss_pred EEEeCCCceEEEcCCCcEEECCEEcc
Confidence 466777888888 6899999999865
No 47
>COG4079 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.01 E-value=1.6e+02 Score=29.09 Aligned_cols=31 Identities=23% Similarity=0.426 Sum_probs=24.1
Q ss_pred CCceEEEEEEe----ecCcEEEEeCCEEEeCCeec
Q 017822 256 SGDVFIKRIVA----TAGDCVEVHGGKLLVNGVAQ 286 (365)
Q Consensus 256 ~g~~~VKRVIG----lPGDtV~I~~g~vyVNGk~~ 286 (365)
|+..++++|-+ .|||.|.++|+.+.|+|+.+
T Consensus 248 Pg~~v~m~v~~~g~~~pGd~vvv~dg~mki~G~d~ 282 (293)
T COG4079 248 PGEEVVMAVEGNGEVEPGDRVVVKDGVMKIDGKDL 282 (293)
T ss_pred CCceEEEEEccCCccCCCCEEEEecCceEeccccc
Confidence 35556666654 58999999999999999754
Done!