Query 021285
Match_columns 314
No_of_seqs 257 out of 1510
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 09:03:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021285.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021285hhsearch_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 8E-36 1.7E-40 260.8 17.1 138 152-289 2-163 (163)
2 PRK10861 signal peptidase I; P 100.0 1.6E-30 3.4E-35 250.3 17.0 139 151-289 63-305 (324)
3 KOG0171 Mitochondrial inner me 99.9 3.8E-27 8.2E-32 206.2 11.1 133 158-300 21-170 (176)
4 PRK13884 conjugal transfer pep 99.9 3E-23 6.4E-28 185.0 15.9 103 183-285 50-176 (178)
5 PRK13838 conjugal transfer pil 99.9 5.1E-23 1.1E-27 183.2 15.0 116 168-285 25-172 (176)
6 TIGR02771 TraF_Ti conjugative 99.9 8.6E-23 1.9E-27 180.9 15.6 119 166-285 20-169 (171)
7 PF10502 Peptidase_S26: Signal 99.9 1E-23 2.2E-28 180.7 1.9 102 184-285 22-137 (138)
8 KOG1568 Mitochondrial inner me 99.9 1.3E-22 2.8E-27 177.5 7.6 114 163-296 24-159 (174)
9 COG4959 TraF Type IV secretory 99.6 2.2E-15 4.7E-20 131.2 9.3 104 184-289 54-172 (173)
10 TIGR02754 sod_Ni_protease nick 99.5 2.1E-13 4.5E-18 107.6 9.2 85 174-283 2-90 (90)
11 cd06530 S26_SPase_I The S26 Ty 99.4 5.6E-13 1.2E-17 103.6 7.6 76 172-281 2-85 (85)
12 COG0681 LepB Signal peptidase 99.4 6.7E-12 1.4E-16 107.6 11.8 122 148-281 7-144 (166)
13 TIGR02228 sigpep_I_arch signal 99.0 4.3E-09 9.2E-14 92.6 10.6 71 175-282 36-119 (158)
14 PF00717 Peptidase_S24: Peptid 98.5 2.6E-07 5.6E-12 68.8 5.2 47 174-220 1-58 (70)
15 cd06462 Peptidase_S24_S26 The 98.2 7.7E-06 1.7E-10 62.1 7.7 80 172-281 2-84 (84)
16 COG2932 Predicted transcriptio 97.6 9.8E-05 2.1E-09 67.1 5.4 25 171-195 124-148 (214)
17 cd06529 S24_LexA-like Peptidas 97.3 0.00055 1.2E-08 51.9 6.0 24 172-195 2-25 (81)
18 PRK10276 DNA polymerase V subu 97.1 0.0072 1.6E-07 51.6 10.9 36 170-205 51-87 (139)
19 TIGR00498 lexA SOS regulatory 97.0 0.013 2.8E-07 52.5 11.9 87 169-287 110-197 (199)
20 PRK00215 LexA repressor; Valid 96.9 0.01 2.2E-07 53.4 10.8 85 169-285 117-202 (205)
21 PRK12423 LexA repressor; Provi 96.9 0.012 2.5E-07 53.4 11.0 83 172-285 116-199 (202)
22 COG1974 LexA SOS-response tran 95.8 0.11 2.3E-06 47.8 10.5 89 169-288 111-200 (201)
23 KOG3342 Signal peptidase I [In 94.2 0.34 7.3E-06 43.2 8.7 90 172-287 50-148 (180)
24 TIGR02754 sod_Ni_protease nick 70.2 11 0.00024 29.2 5.1 34 184-219 30-63 (90)
25 PLN02705 beta-amylase 56.9 23 0.00049 38.0 5.8 15 79-93 32-46 (681)
26 COG0681 LepB Signal peptidase 44.9 27 0.00058 29.5 3.5 28 202-229 138-165 (166)
27 PF15057 DUF4537: Domain of un 38.9 1E+02 0.0023 26.0 6.2 18 177-194 49-66 (124)
28 PLN02705 beta-amylase 37.5 45 0.00097 35.9 4.4 11 276-286 281-291 (681)
29 PF04790 Sarcoglycan_1: Sarcog 35.5 1.7E+02 0.0038 28.0 7.7 65 155-220 21-86 (264)
30 COG2932 Predicted transcriptio 28.9 1.6E+02 0.0036 26.4 6.2 39 246-285 172-210 (214)
31 TIGR00498 lexA SOS regulatory 20.8 3.5E+02 0.0076 23.8 6.7 31 182-218 138-168 (199)
32 PF11101 DUF2884: Protein of u 20.2 1.2E+02 0.0026 28.2 3.6 25 207-231 17-42 (229)
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=8e-36 Score=260.81 Aligned_cols=138 Identities=39% Similarity=0.706 Sum_probs=120.1
Q ss_pred HHHHHHHHHHHHHHHHheeeeEEEcCCCCCcCCCCCCEEEEEeec----c--------c----CCCceEEEEEEecCCCE
Q 021285 152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEV----G--------Y----TDDDVFIKRVVAKEGDV 215 (314)
Q Consensus 152 ~~~llialli~lll~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~~----~--------~----~~g~~lVKRVvGlPGDt 215 (314)
+..++++++++++++.|+++.+.|+|+||+|||++||+|++++.. . + ..++.++|||+|+|||+
T Consensus 2 ~~~~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~~~~~~iKRVig~pGd~ 81 (163)
T TIGR02227 2 ILSLLIAILLALLIRTFVFFPYKIPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYVKRVIGLPGDK 81 (163)
T ss_pred HHHHHHHHHHHHHHHhhEEEEEEECCcccccchhCCCEEEEEEeEcCCCCCCCCcEEEEecCCCCCceeEEEEEecCCCE
Confidence 457778888889999999999999999999999999999999821 1 1 13568999999999999
Q ss_pred EEEeCCEEEECCEEccccccccCC--------CCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcC
Q 021285 216 VEVREGKLIVNGVVRNEDYILEAP--------SYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP 287 (314)
Q Consensus 216 V~I~dg~vyINGk~i~e~yi~~~p--------~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP 287 (314)
|+++++.+||||+.+.+.|..... .....+++||+|||||||||+.+|+||||||+|++++|+|||++++||
T Consensus 82 v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~G~V~~~~I~Gk~~~~~~p 161 (163)
T TIGR02227 82 VEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGKVSFVFYP 161 (163)
T ss_pred EEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCcccCCcCcCCHHHeEEEEEEEECC
Confidence 999999999999999998765321 123446799999999999999999999999999999999999999999
Q ss_pred CC
Q 021285 288 PQ 289 (314)
Q Consensus 288 ~~ 289 (314)
++
T Consensus 162 ~~ 163 (163)
T TIGR02227 162 FD 163 (163)
T ss_pred CC
Confidence 75
No 2
>PRK10861 signal peptidase I; Provisional
Probab=99.97 E-value=1.6e-30 Score=250.29 Aligned_cols=139 Identities=35% Similarity=0.535 Sum_probs=113.0
Q ss_pred HHHHHHHHHHHHHHHHHheeeeEEEcCCCCCcCCCCCCEEEEEeec-c-------------------------c--CCCc
Q 021285 151 DAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEV-G-------------------------Y--TDDD 202 (314)
Q Consensus 151 ~~~~llialli~lll~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~~-~-------------------------~--~~g~ 202 (314)
++..++++++++++++.|+++++.|+|.||+|||..||+|+|+|.. + + ..+.
T Consensus 63 ~~~~~~~~l~i~~~ir~fv~~~~~Ips~SM~PTL~~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~~~~ 142 (324)
T PRK10861 63 TGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKL 142 (324)
T ss_pred HHHHHHHHHhHHHHHHhhEEEEEEECCCcCcCcccCCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCCCCC
Confidence 4556777888888999999999999999999999999999999921 0 0 1235
Q ss_pred eEEEEEEecCCCEEEEe--CCEEEECCEEcccc-----------------------------------------------
Q 021285 203 VFIKRVVAKEGDVVEVR--EGKLIVNGVVRNED----------------------------------------------- 233 (314)
Q Consensus 203 ~lVKRVvGlPGDtV~I~--dg~vyINGk~i~e~----------------------------------------------- 233 (314)
.+||||+|+|||+|+++ ++++||||+.+...
T Consensus 143 ~yIKRVIGlPGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (324)
T PRK10861 143 DYIKRVVGLPGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLNETKENGI 222 (324)
T ss_pred cEEEEeeecCCcEEEEEeCCCEEEEcCccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 79999999999999998 89999999742110
Q ss_pred ----cccc----------CCC-------------CCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEc
Q 021285 234 ----YILE----------APS-------------YNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYW 286 (314)
Q Consensus 234 ----yi~~----------~p~-------------~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~w 286 (314)
|... .+. .....++||+|+||||||||++|+||||||+||+++|+|||.++||
T Consensus 223 ~~~~~~E~l~~~~h~i~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~yf~mgdnr~~S~DSRy~G~Vp~~~i~G~a~~i~~ 302 (324)
T PRK10861 223 RLSERKETLGDVTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGKATAIWM 302 (324)
T ss_pred cceeEEEecCCccceeeecCCcccccccccccCCCcCceEEECCCeEEEeCCCCCCCcccCcccccCHHHcEEEEEEEEE
Confidence 0000 000 1134679999999999999999999999999999999999999999
Q ss_pred CCC
Q 021285 287 PPQ 289 (314)
Q Consensus 287 P~~ 289 (314)
+++
T Consensus 303 s~d 305 (324)
T PRK10861 303 SFE 305 (324)
T ss_pred EcC
Confidence 986
No 3
>KOG0171 consensus Mitochondrial inner membrane protease, subunit IMP1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=3.8e-27 Score=206.16 Aligned_cols=133 Identities=43% Similarity=0.642 Sum_probs=106.4
Q ss_pred HHHHHHHHHHheeeeEEEcCCCCCcCCCCCC-EEEEEee----ccc------------CCCceEEEEEEecCCCEEEEeC
Q 021285 158 ALVISLAFRSFVAEPRYIPSLSMYPTFDVGD-RIVAEKE----VGY------------TDDDVFIKRVVAKEGDVVEVRE 220 (314)
Q Consensus 158 alli~lll~~fv~~~~~V~G~SM~PTL~~GD-~Vlv~k~----~~~------------~~g~~lVKRVvGlPGDtV~I~d 220 (314)
-.+++.....|++++..++|.||+||+++++ ++++++. .+. ...+.++|||+|++||.|++.+
T Consensus 21 ~~~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD~v~v~~ 100 (176)
T KOG0171|consen 21 YAAFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPDPKEHICKRIVAMEGDLVEVHD 100 (176)
T ss_pred HHHHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCCchhhhhheeeccCCceEEEec
Confidence 3445555667999999999999999988755 5554661 111 2345789999999999999999
Q ss_pred CEEEECCEEccccccccCCCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCccccCCCCCc
Q 021285 221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGC 300 (314)
Q Consensus 221 g~vyINGk~i~e~yi~~~p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~rig~i~~~~~~ 300 (314)
+.+.+|+.. |.+ ..+++||+||+||+|||+.+|+|||+||+||...|+||+++++||.++++.+.....+
T Consensus 101 ~~~~~n~~~--e~~--------~~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~~~~~~~~ 170 (176)
T KOG0171|consen 101 GPLVVNDLV--EKF--------STPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSGLILHWIN 170 (176)
T ss_pred CCcccchhh--hhc--------cceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCchhcceeeecccc
Confidence 888887653 221 1468999999999999999999999999999999999999999999998877655444
No 4
>PRK13884 conjugal transfer peptidase TraF; Provisional
Probab=99.90 E-value=3e-23 Score=184.95 Aligned_cols=103 Identities=25% Similarity=0.399 Sum_probs=83.0
Q ss_pred CCCCCCEEEEEe----------ecccC------CC-ceEEEEEEecCCCEEEEeCCEEEECCEEccccccc--c-----C
Q 021285 183 TFDVGDRIVAEK----------EVGYT------DD-DVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYIL--E-----A 238 (314)
Q Consensus 183 TL~~GD~Vlv~k----------~~~~~------~g-~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~--~-----~ 238 (314)
.++.||+|+++. .++|. ++ ..++|||+|+|||+|+++++.+||||+.+.+.... + .
T Consensus 50 ~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva~pGD~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~l 129 (178)
T PRK13884 50 PVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLAAKGDAVSVTDDGVRVNGELLPLSKPILADGAGRPL 129 (178)
T ss_pred CCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEeeCCcEEEEECCEEEECCEEccccccccccccCCcc
Confidence 478899999985 12332 11 37999999999999999999999999998643322 1 1
Q ss_pred CCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285 239 PSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285 (314)
Q Consensus 239 p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~ 285 (314)
+.+....++||+|+|||||||+.+|+||||||+|++++|+|++..++
T Consensus 130 ~~~~~~~~~lp~g~~fvlgd~~~~S~DSRYfG~V~~~~I~G~~~Pl~ 176 (178)
T PRK13884 130 PRYQANSYTLGESELLLMSDVSATSFDGRYFGPINRSQIKTVIRPVI 176 (178)
T ss_pred cccCCCceEECCCEEEEECCCCCCCCcccccCcccHHHEEEEEEEeE
Confidence 23444457999999999999999999999999999999999998764
No 5
>PRK13838 conjugal transfer pilin processing protease TraF; Provisional
Probab=99.90 E-value=5.1e-23 Score=183.23 Aligned_cols=116 Identities=23% Similarity=0.299 Sum_probs=87.9
Q ss_pred heeeeEEEcCCCCC----------cCCCCCCEEEEEee----------cccC-------CCceEEEEEEecCCCEEEEeC
Q 021285 168 FVAEPRYIPSLSMY----------PTFDVGDRIVAEKE----------VGYT-------DDDVFIKRVVAKEGDVVEVRE 220 (314)
Q Consensus 168 fv~~~~~V~G~SM~----------PTL~~GD~Vlv~k~----------~~~~-------~g~~lVKRVvGlPGDtV~I~d 220 (314)
|........++||. -.++.||+|+++.. .+|. ....++|||+|+|||+|++++
T Consensus 25 ~~~~~~~N~T~S~pig~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~ 104 (176)
T PRK13838 25 WIGGYRINLTPSEPLGLWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGG 104 (176)
T ss_pred HHCceEEECCCCCEEEEEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECC
Confidence 33444555566652 25789999999851 1221 123599999999999999985
Q ss_pred CEEEECCEEccccccccCCCC-----CCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285 221 GKLIVNGVVRNEDYILEAPSY-----NMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285 (314)
Q Consensus 221 g~vyINGk~i~e~yi~~~p~~-----~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~ 285 (314)
.+||||+.+.+.|+...... .....+||+|+||||||| .+|+||||||+|++++|+|+|..+|
T Consensus 105 -~v~iNg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g~~fvlgd~-~~S~DSRy~G~V~~~~I~G~a~pi~ 172 (176)
T PRK13838 105 -SVSIDGRPLPSSSVRRRDGEGRPLTPFPGGVVPPGHLFLHSSF-AGSYDSRYFGPVPASGLLGLARPVL 172 (176)
T ss_pred -EEEECCEEccccccccccccCCcCCCCCccCcCCCeEEEECCC-CCCCcccccCcccHHHeEEEEEEEE
Confidence 89999999998876532211 122468999999999998 5899999999999999999998764
No 6
>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=99.90 E-value=8.6e-23 Score=180.93 Aligned_cols=119 Identities=26% Similarity=0.407 Sum_probs=91.2
Q ss_pred HHheeeeEEEcCCCCCc---------CCCCCCEEEEEee----------ccc-CCC------ceEEEEEEecCCCEEEEe
Q 021285 166 RSFVAEPRYIPSLSMYP---------TFDVGDRIVAEKE----------VGY-TDD------DVFIKRVVAKEGDVVEVR 219 (314)
Q Consensus 166 ~~fv~~~~~V~G~SM~P---------TL~~GD~Vlv~k~----------~~~-~~g------~~lVKRVvGlPGDtV~I~ 219 (314)
..|........++||-. .++.||+|+++.. +++ ..+ ..+||||+|+|||+|+++
T Consensus 20 ~~~~~~~~~N~T~S~P~g~Y~~~~~~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRViglpGD~V~i~ 99 (171)
T TIGR02771 20 GLYCVGARINTTKSLPLGLYWTTSSKPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGLPGDRVTVR 99 (171)
T ss_pred hcceeeEEEECCCCCcceEEEeCCCCCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEEEeCCCEEEEE
Confidence 34444455566777743 5788999999851 111 111 279999999999999999
Q ss_pred CCEEEECCEEccccccccC-----CCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285 220 EGKLIVNGVVRNEDYILEA-----PSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285 (314)
Q Consensus 220 dg~vyINGk~i~e~yi~~~-----p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~ 285 (314)
++.++|||+.+.+.+.... +.....+++||+| ||+||||+.+|+||||||+|++++|+|||..+|
T Consensus 100 ~~~v~INg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~~~~IiGk~~pl~ 169 (171)
T TIGR02771 100 ADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPISREQVIGRVKPLF 169 (171)
T ss_pred CCEEEECCEEcccccccccccCCCccccCCCcEECCC-EEEECCCCCCCCcccccceecHHHeEEEEEEeE
Confidence 9999999999877654321 1112236799999 999999999999999999999999999998753
No 7
>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=99.88 E-value=1e-23 Score=180.66 Aligned_cols=102 Identities=38% Similarity=0.605 Sum_probs=33.0
Q ss_pred CCCCCEEEEEee---------ccc-CCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCC----CcceEec
Q 021285 184 FDVGDRIVAEKE---------VGY-TDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYN----MTPITVP 249 (314)
Q Consensus 184 L~~GD~Vlv~k~---------~~~-~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~----~~~~~VP 249 (314)
++.||+|+++.. .+| ..+..++|||+|+|||+|+++++.++|||+.+.+.+..+..+.. ....+||
T Consensus 22 ~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~~~~~d~~g~~l~~~~~~~~vp 101 (138)
T PF10502_consen 22 IERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGEPLATDSDGRPLPQFSGSGTVP 101 (138)
T ss_dssp -------------------------------------------------------------------S-T----TEEE--
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCceEeC
Confidence 899999999872 233 24568999999999999999999999999988877655332221 1478999
Q ss_pred CCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285 250 ENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285 (314)
Q Consensus 250 ~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~ 285 (314)
+|+|||||||+.+|+||||||+|++++|+|||..+|
T Consensus 102 ~g~~~v~gd~~~~S~DSRy~G~V~~~~I~g~~~pl~ 137 (138)
T PF10502_consen 102 EGEYFVLGDNRPNSFDSRYFGPVPRSQIIGKARPLW 137 (138)
T ss_dssp TTEEEEE-SBTTS--SHHHH--EEGGGEEEEEEEEE
T ss_pred CCEEEEecCCCCCccccCEecccCHHHEEEEEEEEE
Confidence 999999999999999999999999999999998875
No 8
>KOG1568 consensus Mitochondrial inner membrane protease, subunit IMP2 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.87 E-value=1.3e-22 Score=177.52 Aligned_cols=114 Identities=34% Similarity=0.580 Sum_probs=95.7
Q ss_pred HHHHHheeeeEEEcCCCCCcCCCCC------CEEEEEee--------c--------ccCCCceEEEEEEecCCCEEEEeC
Q 021285 163 LAFRSFVAEPRYIPSLSMYPTFDVG------DRIVAEKE--------V--------GYTDDDVFIKRVVAKEGDVVEVRE 220 (314)
Q Consensus 163 lll~~fv~~~~~V~G~SM~PTL~~G------D~Vlv~k~--------~--------~~~~g~~lVKRVvGlPGDtV~I~d 220 (314)
+.+...+.....|.|.||.|+++++ |+|++.+. + ..+.++.+||||+|++||++.-.+
T Consensus 24 ~t~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t~~ 103 (174)
T KOG1568|consen 24 LTFSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVTED 103 (174)
T ss_pred eeeeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCChhheeeeeeecccccEeccCC
Confidence 3445567788999999999999874 88999881 1 123567899999999999987532
Q ss_pred CEEEECCEEccccccccCCCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCccccCC
Q 021285 221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVP 296 (314)
Q Consensus 221 g~vyINGk~i~e~yi~~~p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~rig~i~~ 296 (314)
+....+.||+|||||.|||...|+|||.||||+...|+|||++++||+.|++.+.+
T Consensus 104 --------------------~k~~~v~vpkghcWVegDn~~hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~~ 159 (174)
T KOG1568|consen 104 --------------------EKEEPVVVPKGHCWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLDK 159 (174)
T ss_pred --------------------CCCCceecCCCcEEEecCCcccccccCccCCcchhheeeeEEEEEcChHHhhhhcc
Confidence 33456799999999999999999999999999999999999999999999887764
No 9
>COG4959 TraF Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.61 E-value=2.2e-15 Score=131.24 Aligned_cols=104 Identities=21% Similarity=0.423 Sum_probs=85.5
Q ss_pred CCCCCEEEEEe---------ecccC-CCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccC-----CCCCCcceEe
Q 021285 184 FDVGDRIVAEK---------EVGYT-DDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEA-----PSYNMTPITV 248 (314)
Q Consensus 184 L~~GD~Vlv~k---------~~~~~-~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~-----p~~~~~~~~V 248 (314)
+..||+|+++. .++|. ....++|||.|+|||+|++.++.+.|||+.+......+. |.++.+ ..+
T Consensus 54 vt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~D~~GR~lp~~~gc-R~l 132 (173)
T COG4959 54 VTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPVDRVGRALPRWQGC-RYL 132 (173)
T ss_pred cccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeeccccccCCcCCcccCC-cee
Confidence 78899999987 45663 356789999999999999999999999999866544432 334433 358
Q ss_pred cCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCC
Q 021285 249 PENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQ 289 (314)
Q Consensus 249 P~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~ 289 (314)
-++|+|+|+|....|+||||||+||.++|+|.+..+ |-++
T Consensus 133 ~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRPv-wt~~ 172 (173)
T COG4959 133 APSELLLLTDRSSTSFDSRYFGPIPASQVIGVARPV-WTED 172 (173)
T ss_pred cCCeEEEEeccCCcccccceecccCHHHcceeeeee-eccC
Confidence 999999999999999999999999999999999885 4433
No 10
>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=99.48 E-value=2.1e-13 Score=107.59 Aligned_cols=85 Identities=34% Similarity=0.553 Sum_probs=59.6
Q ss_pred EEcCCCCCcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeC----CEEEECCEEccccccccCCCCCCcceEec
Q 021285 174 YIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVRE----GKLIVNGVVRNEDYILEAPSYNMTPITVP 249 (314)
Q Consensus 174 ~V~G~SM~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~d----g~vyINGk~i~e~yi~~~p~~~~~~~~VP 249 (314)
.|.|+||+|+|++||+|++++...... .-.+||.|.+.. +.++|. .-+.++
T Consensus 2 ~V~g~SM~P~l~~GD~vlv~~~~~~~~--------~~~~Gdivv~~~~~~~~~~~vk-----------------Rv~~~~ 56 (90)
T TIGR02754 2 KVTGVSMSPTLPPGDRIIVVPWLKIFR--------VPPIGNVVVVRHPLQPYGLIIK-----------------RLAAVD 56 (90)
T ss_pred EeeCCCccCccCCCCEEEEEEccccCC--------CCCCCeEEEEecCCCCcceEEE-----------------EeeEEc
Confidence 689999999999999999986211000 001255544431 122221 012345
Q ss_pred CCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEE
Q 021285 250 ENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVF 283 (314)
Q Consensus 250 ~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~ 283 (314)
++++|++|||+..|.|||+||+|+..+|+|||+|
T Consensus 57 ~~~~~l~~dN~~~~~d~~~~g~v~~~~I~G~v~~ 90 (90)
T TIGR02754 57 DNGLFLLGDNPKASTDSRQLGPVPRSLLLGKVLW 90 (90)
T ss_pred CCeEEEeCCCCCCCCcccccCCCcHHHEEEEEEC
Confidence 7889999999999999999999999999999963
No 11
>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=99.41 E-value=5.6e-13 Score=103.59 Aligned_cols=76 Identities=42% Similarity=0.719 Sum_probs=55.7
Q ss_pred eEEEcCCCCCcCCCCCCEEEEEeecc----cCCCceEEEEEEecCCCEEEEeCC----EEEECCEEccccccccCCCCCC
Q 021285 172 PRYIPSLSMYPTFDVGDRIVAEKEVG----YTDDDVFIKRVVAKEGDVVEVREG----KLIVNGVVRNEDYILEAPSYNM 243 (314)
Q Consensus 172 ~~~V~G~SM~PTL~~GD~Vlv~k~~~----~~~g~~lVKRVvGlPGDtV~I~dg----~vyINGk~i~e~yi~~~p~~~~ 243 (314)
.+.|.|+||+|+++.||+|++++... .. .||.|.++.. ..++. +
T Consensus 2 ~~~v~g~SM~P~i~~gd~v~v~~~~~~~~~~~------------~GDiv~~~~~~~~~~~~vk-R--------------- 53 (85)
T cd06530 2 PVVVPGGSMEPTLQPGDLVLVNKLSYGFREPK------------RGDVVVFKSPGDPGKPIIK-R--------------- 53 (85)
T ss_pred eeEEcCCCCcCcccCCCEEEEEEeecccCCCC------------CCCEEEEeCCCCCCCEEEE-E---------------
Confidence 57899999999999999999987321 22 3444444321 11110 0
Q ss_pred cceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEE
Q 021285 244 TPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS 281 (314)
Q Consensus 244 ~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV 281 (314)
.+. ||++|||..+|.|||+||+|+.++|+|++
T Consensus 54 ---v~~---~~~~gDn~~ns~d~~~~g~~~~~~i~G~~ 85 (85)
T cd06530 54 ---VIG---YFVLGDNRNNSLDSRYWGPVPEDDIVGKV 85 (85)
T ss_pred ---EEE---EEEeeCCCCCCCccCCcCCCcHHHeEEeC
Confidence 111 99999999999999999999999999985
No 12
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=99.36 E-value=6.7e-12 Score=107.63 Aligned_cols=122 Identities=31% Similarity=0.417 Sum_probs=90.7
Q ss_pred hhhHHHHHHHHHHHHHHH--HHheeeeEEEcCCCCCcCCCCCCEEEEEeecc--------------cCCCceEEEEEEec
Q 021285 148 TSDDAKTVLAALVISLAF--RSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVG--------------YTDDDVFIKRVVAK 211 (314)
Q Consensus 148 ~~~~~~~llialli~lll--~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~~~--------------~~~g~~lVKRVvGl 211 (314)
...++..+++++++++++ +.|+++.+.|+|.||+||++.||+|++++... ......++||++++
T Consensus 7 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~~GD~v~v~k~~~~~~~~~~~~~~~~~~~~~~~~~kr~~~~ 86 (166)
T COG0681 7 FLELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLNVGDRVLVKKFSYGFGKLKVPDIIVLPAVVEGDLIKRVIGL 86 (166)
T ss_pred HHHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccccCCEEEEEeccccccCCccceeeecCCCCCcceEEEeccC
Confidence 345666777777888877 89999999999999999999999999999211 24566799999999
Q ss_pred CCCEEEEeCCEEEECCEEccccccccCCCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEE
Q 021285 212 EGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS 281 (314)
Q Consensus 212 PGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV 281 (314)
+||.+.+++...|+ +..+.+.+ ..+..++.++.++....+.++|.++......++.++
T Consensus 87 ~GD~i~~~~~~~~~-~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (166)
T COG0681 87 RGDIVVFKDDRLYV-VPIIPRVY-----------GLVEKDNGKHLVDVIVNANSSRVFGIITKKDYIKRV 144 (166)
T ss_pred CCCEEEEECCEEEe-ecccCcch-----------hhhhcccccccccccccccCccccccccccccccce
Confidence 99999999999888 22222211 111222222556666677888888887778888777
No 13
>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=98.97 E-value=4.3e-09 Score=92.58 Aligned_cols=71 Identities=31% Similarity=0.465 Sum_probs=48.5
Q ss_pred EcCCCCCcCCCCCCEEEEEeec--ccC---------CC--ceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCC
Q 021285 175 IPSLSMYPTFDVGDRIVAEKEV--GYT---------DD--DVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSY 241 (314)
Q Consensus 175 V~G~SM~PTL~~GD~Vlv~k~~--~~~---------~g--~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~ 241 (314)
|.|.||+||+++||++++++.. ... ++ ..++|||+++.++ + |
T Consensus 36 V~g~SM~Ptl~~GD~vlv~~~~~~~~~~GDIVvf~~~~~~~~iihRVi~v~~~-----~------g-------------- 90 (158)
T TIGR02228 36 VLSGSMEPTFNTGDLILVTGADPNDIQVGDVITYKSPGFNTPVTHRVIEINNS-----G------G-------------- 90 (158)
T ss_pred EcCCCCcCCccCCCEEEEEecccCCCCCCCEEEEEECCCCccEEEEEEEEECC-----C------C--------------
Confidence 8999999999999999998711 111 11 3344454444321 0 0
Q ss_pred CCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEE
Q 021285 242 NMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSV 282 (314)
Q Consensus 242 ~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~ 282 (314)
+-.|+..|||. ...| .++|..++|+||+.
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 11377889996 5557 68999999999998
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=98.47 E-value=2.6e-07 Score=68.81 Aligned_cols=47 Identities=30% Similarity=0.486 Sum_probs=37.8
Q ss_pred EEcCCCCCcCCCCCCEEEEEeec---------ccCCCc--eEEEEEEecCCCEEEEeC
Q 021285 174 YIPSLSMYPTFDVGDRIVAEKEV---------GYTDDD--VFIKRVVAKEGDVVEVRE 220 (314)
Q Consensus 174 ~V~G~SM~PTL~~GD~Vlv~k~~---------~~~~g~--~lVKRVvGlPGDtV~I~d 220 (314)
+|.|+||+|++++||+|++++.. ...++. .++|||++.+|+.+.+..
T Consensus 1 ~V~GdSM~P~i~~Gd~v~v~~~~~~~~gdivv~~~~~~~~~~iKrv~~~~~~~~~~~~ 58 (70)
T PF00717_consen 1 RVEGDSMEPTIKDGDIVLVDPSSEPKDGDIVVVKIDGDEELYIKRVVGEPGGIILISS 58 (70)
T ss_dssp EEESSTTGGTSSTTEEEEEEETS---TTSEEEEEETTEESEEEEEEEEETTEEEEE-S
T ss_pred CeECcCcccCeeCCCEEEEEEcCCCccCeEEEEEECCceeeEEEEEEEeCCCEEEEec
Confidence 58999999999999999999821 112333 899999999999999874
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=98.19 E-value=7.7e-06 Score=62.05 Aligned_cols=80 Identities=38% Similarity=0.533 Sum_probs=49.2
Q ss_pred eEEEcCCCCCcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCC--EEEECCEEccccccccCCCCCCcceEec
Q 021285 172 PRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREG--KLIVNGVVRNEDYILEAPSYNMTPITVP 249 (314)
Q Consensus 172 ~~~V~G~SM~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg--~vyINGk~i~e~yi~~~p~~~~~~~~VP 249 (314)
.+.|.|+||+|++..||+|++++... ....||.+.+..+ .++|.- -...+
T Consensus 2 ~~~v~g~SM~P~i~~gd~v~i~~~~~-----------~~~~G~iv~~~~~~~~~~ikr-----------------l~~~~ 53 (84)
T cd06462 2 ALRVEGDSMEPTIPDGDLVLVDKSSY-----------EPKRGDIVVFRLPGGELTVKR-----------------VIGLP 53 (84)
T ss_pred eeEEcCCCccCcccCCCEEEEEecCC-----------CCcCCEEEEEEcCCCcEEEEE-----------------EEEEC
Confidence 46899999999999999999988433 1224444444321 222210 01222
Q ss_pred -CCeEEEecCCCCCCCCCCCcCcccCCCeeEEE
Q 021285 250 -ENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS 281 (314)
Q Consensus 250 -~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV 281 (314)
++++++.+|| .+..|.+..+. ....|+|++
T Consensus 54 ~~~~~~l~~~N-~~~~~~~~~~~-~~~~i~g~v 84 (84)
T cd06462 54 GEGHYFLLGDN-PNSPDSRIDGP-PELDIVGVV 84 (84)
T ss_pred CCCEEEEECCC-CCCCcccccCC-CHHHEEEeC
Confidence 3789999999 35666655443 556677763
No 16
>COG2932 Predicted transcriptional regulator [Transcription]
Probab=97.59 E-value=9.8e-05 Score=67.06 Aligned_cols=25 Identities=24% Similarity=0.373 Sum_probs=22.8
Q ss_pred eeEEEcCCCCCcCCCCCCEEEEEee
Q 021285 171 EPRYIPSLSMYPTFDVGDRIVAEKE 195 (314)
Q Consensus 171 ~~~~V~G~SM~PTL~~GD~Vlv~k~ 195 (314)
..+.|.|+||+|++++||+|+|+..
T Consensus 124 ~~i~V~GDSMeP~~~~Gd~ilVd~~ 148 (214)
T COG2932 124 FALRVTGDSMEPTYEDGDTLLVDPG 148 (214)
T ss_pred EEEEEeCCcccccccCCCEEEECCC
Confidence 5689999999999999999999883
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=97.35 E-value=0.00055 Score=51.86 Aligned_cols=24 Identities=25% Similarity=0.319 Sum_probs=21.7
Q ss_pred eEEEcCCCCCcCCCCCCEEEEEee
Q 021285 172 PRYIPSLSMYPTFDVGDRIVAEKE 195 (314)
Q Consensus 172 ~~~V~G~SM~PTL~~GD~Vlv~k~ 195 (314)
.++|.|+||+|+++.||+|++++.
T Consensus 2 ~~~v~g~sM~p~i~~gd~lii~~~ 25 (81)
T cd06529 2 ALRVKGDSMEPTIPDGDLVLVDPS 25 (81)
T ss_pred EEEEECCCcCCccCCCCEEEEcCC
Confidence 468999999999999999999873
No 18
>PRK10276 DNA polymerase V subunit UmuD; Provisional
Probab=97.09 E-value=0.0072 Score=51.61 Aligned_cols=36 Identities=17% Similarity=0.198 Sum_probs=26.7
Q ss_pred eeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEE
Q 021285 170 AEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFI 205 (314)
Q Consensus 170 ~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lV 205 (314)
....+|.|+||. |++.+||+|++++.....+|+.++
T Consensus 51 ~f~l~V~GdSM~~~~I~~GD~liVd~~~~~~~Gdivv 87 (139)
T PRK10276 51 TYFVKASGDSMIDAGISDGDLLIVDSAITASHGDIVI 87 (139)
T ss_pred EEEEEEecCCCCCCCCCCCCEEEEECCCCCCCCCEEE
Confidence 445899999998 689999999999743334444444
No 19
>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=96.97 E-value=0.013 Score=52.45 Aligned_cols=87 Identities=15% Similarity=0.100 Sum_probs=52.9
Q ss_pred eeeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceE
Q 021285 169 VAEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPIT 247 (314)
Q Consensus 169 v~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~ 247 (314)
-...++|.|+||. |.+.+||+|+++......+|+.++-++ ++.+.++ .+.
T Consensus 110 ~~f~~~V~GdSM~~~~i~~Gd~v~v~~~~~~~~G~ivvv~~----~~~~~vK-------------------------rl~ 160 (199)
T TIGR00498 110 AVFLLKVMGDSMVDAGICDGDLLIVRSQKDARNGEIVAAMI----DGEVTVK-------------------------RFY 160 (199)
T ss_pred CEEEEEecCCCCCCCCCCCCCEEEEecCCCCCCCCEEEEEE----CCEEEEE-------------------------EEE
Confidence 3457899999996 689999999998754444455544443 2222222 112
Q ss_pred ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcC
Q 021285 248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP 287 (314)
Q Consensus 248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP 287 (314)
...+.+++..+|.+. .-..... ..-.|+|+|+..+..
T Consensus 161 ~~~~~i~L~s~N~~y--~~i~~~~-~~~~IiG~Vv~~~r~ 197 (199)
T TIGR00498 161 KDGTKVELKPENPEF--DPIVLNA-EDVTILGKVVGVIRN 197 (199)
T ss_pred EECCEEEEEcCCCCC--cCCcCCC-CcEEEEEEEEEEEEe
Confidence 234678888888642 1111110 135899999987654
No 20
>PRK00215 LexA repressor; Validated
Probab=96.92 E-value=0.01 Score=53.38 Aligned_cols=85 Identities=14% Similarity=0.136 Sum_probs=49.3
Q ss_pred eeeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceE
Q 021285 169 VAEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPIT 247 (314)
Q Consensus 169 v~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~ 247 (314)
-....+|.|+||. |++.+||+|+|++.....+|+.++-++ .| .+.++ .+.
T Consensus 117 ~~~~~~V~GdSM~~~~i~~Gd~v~v~~~~~~~~G~ivv~~~---~~-~~~vK-------------------------rl~ 167 (205)
T PRK00215 117 EDFLLRVRGDSMIDAGILDGDLVIVRKQQTARNGQIVVALI---DD-EATVK-------------------------RFR 167 (205)
T ss_pred CeEEEEEccCCCCCCCcCCCCEEEEeCCCCCCCCCEEEEEE---CC-EEEEE-------------------------EEE
Confidence 3456889999995 799999999998733323343333222 11 22222 112
Q ss_pred ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285 248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285 (314)
Q Consensus 248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~ 285 (314)
...|.+++..||.+ ++......= .-.|+|+|+..+
T Consensus 168 ~~~~~~~L~s~Np~--y~~~~~~~~-~~~IiG~Vv~~~ 202 (205)
T PRK00215 168 REGGHIRLEPENPA--YEPIIVDPD-RVTIEGKVVGLI 202 (205)
T ss_pred EeCCEEEEEcCCCC--CCCEEeCCC-cEEEEEEEEEEE
Confidence 22466888888864 222221110 358999998765
No 21
>PRK12423 LexA repressor; Provisional
Probab=96.90 E-value=0.012 Score=53.42 Aligned_cols=83 Identities=16% Similarity=0.136 Sum_probs=49.9
Q ss_pred eEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceEecC
Q 021285 172 PRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPE 250 (314)
Q Consensus 172 ~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~VP~ 250 (314)
...|.|+||. |+|.+||+|+|++.....+|++++-++ ++.+.++. +..-.
T Consensus 116 ~l~V~GdSM~~~~i~~Gd~viv~~~~~~~~Gdivv~~~----~~~~~vKr-------------------------l~~~~ 166 (202)
T PRK12423 116 LLQVQGDSMIDDGILDGDLVGVHRSPEARDGQIVVARL----DGEVTIKR-------------------------LERSG 166 (202)
T ss_pred EEEEecCcCCCCCcCCCCEEEEeCCCcCCCCCEEEEEE----CCEEEEEE-------------------------EEEeC
Confidence 5799999997 799999999999754444455444332 22233321 11123
Q ss_pred CeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285 251 NSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285 (314)
Q Consensus 251 g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~ 285 (314)
+.+++..+|.+ ++...+-.-..=.|+|+|+..+
T Consensus 167 ~~~~L~s~N~~--y~~i~~~~~~~~~I~Gvv~g~~ 199 (202)
T PRK12423 167 DRIRLLPRNPA--YAPIVVAPDQDFAIEGVFCGLI 199 (202)
T ss_pred CEEEEEcCCCC--CCCEEcCCCCcEEEEEEEEEEE
Confidence 56888888853 2222221112347999998764
No 22
>COG1974 LexA SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]
Probab=95.76 E-value=0.11 Score=47.82 Aligned_cols=89 Identities=16% Similarity=0.151 Sum_probs=58.9
Q ss_pred eeeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceE
Q 021285 169 VAEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPIT 247 (314)
Q Consensus 169 v~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~ 247 (314)
-....+|.|+||. +.+.+||+|+|++.....+|++.|-++-+ +..+++ +++
T Consensus 111 ~~f~L~V~GdSM~~~gi~dGDlvvV~~~~~a~~GdiVvA~i~g---~e~TvK--rl~----------------------- 162 (201)
T COG1974 111 ATFFLRVSGDSMIDAGILDGDLVVVDPTEDAENGDIVVALIDG---EEATVK--RLY----------------------- 162 (201)
T ss_pred ceEEEEecCCccccCcCCCCCEEEEcCCCCCCCCCEEEEEcCC---CcEEEE--EEE-----------------------
Confidence 3446889999997 68889999999997666777777666643 445544 122
Q ss_pred ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCC
Q 021285 248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPP 288 (314)
Q Consensus 248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~ 288 (314)
...+.++++--|. .+....+..- .-.|+|+|+.++|+.
T Consensus 163 ~~g~~i~L~p~Np--~~~~i~~~~~-~~~I~G~vvgv~r~~ 200 (201)
T COG1974 163 RDGNQILLKPENP--AYPPIPVDAD-SVTILGKVVGVIRDI 200 (201)
T ss_pred EeCCEEEEEeCCC--CCCCcccCcc-ceEEEEEEEEEEecC
Confidence 2234566666664 2233333222 467999999999874
No 23
>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.17 E-value=0.34 Score=43.18 Aligned_cols=90 Identities=29% Similarity=0.332 Sum_probs=50.5
Q ss_pred eEEEcCCCCCcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEcccc--ccccCCCCCCcceEec
Q 021285 172 PRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNED--YILEAPSYNMTPITVP 249 (314)
Q Consensus 172 ~~~V~G~SM~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~--yi~~~p~~~~~~~~VP 249 (314)
+..|-+.||+|.++.||+++......- .+ .-||.|.++ +.|++++-- -+.. + .=-
T Consensus 50 iVVVLSgSMePaF~RGDlLfL~N~~~~-----p~-----~vGdivVf~-----vegR~IPiVHRviK~---h-----e~~ 106 (180)
T KOG3342|consen 50 IVVVLSGSMEPAFHRGDLLFLTNRNED-----PI-----RVGDIVVFK-----VEGREIPIVHRVIKQ---H-----EKS 106 (180)
T ss_pred EEEEEcCCcCcccccccEEEEecCCCC-----cc-----eeccEEEEE-----ECCccCchhHHHHHH---h-----ccc
Confidence 567788999999999999988641110 00 046666543 333333210 0000 0 001
Q ss_pred CC--eEEEecCCCCCCCCCCC-c----CcccCCCeeEEEEEEEcC
Q 021285 250 EN--SVFVMGDNRNNSYDSHV-W----GPLPAKNIIGRSVFRYWP 287 (314)
Q Consensus 250 ~g--~yfVLGDNr~nS~DSRy-f----G~Vp~~~IiGKV~~i~wP 287 (314)
+| +++.-||| |--|-|- | -...+++|+|+|.= |.|
T Consensus 107 ~~~~~~LTKGDN--N~~dD~~Ly~~gq~~L~r~~Ivg~~~G-~~P 148 (180)
T KOG3342|consen 107 NGHIKFLTKGDN--NAVDDRGLYAQGQNWLERKDIVGRVRG-YLP 148 (180)
T ss_pred CCcEEEEecCCC--CcccchhcccccccceeccceeeEEee-ccc
Confidence 22 36777888 5555552 2 24678999999864 444
No 24
>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=70.19 E-value=11 Score=29.15 Aligned_cols=34 Identities=18% Similarity=0.253 Sum_probs=24.6
Q ss_pred CCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEe
Q 021285 184 FDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVR 219 (314)
Q Consensus 184 L~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~ 219 (314)
.+.||+|++... ...+..++|||++++++.+.+.
T Consensus 30 ~~~Gdivv~~~~--~~~~~~~vkRv~~~~~~~~~l~ 63 (90)
T TIGR02754 30 PPIGNVVVVRHP--LQPYGLIIKRLAAVDDNGLFLL 63 (90)
T ss_pred CCCCeEEEEecC--CCCcceEEEEeeEEcCCeEEEe
Confidence 346999999641 1236789999999987766554
No 25
>PLN02705 beta-amylase
Probab=56.91 E-value=23 Score=38.02 Aligned_cols=15 Identities=13% Similarity=0.437 Sum_probs=7.2
Q ss_pred CCCCCCCCCcccccc
Q 021285 79 QHQNPRPLNPKNLLY 93 (314)
Q Consensus 79 ~~~~~~~~~~~~~~~ 93 (314)
.|+.|++-+|..+..
T Consensus 32 ~~~~~~~~~~~~~~~ 46 (681)
T PLN02705 32 NRNQPQSRRPRGFAA 46 (681)
T ss_pred CCCCCccCCCcchhh
Confidence 444455555544443
No 26
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=44.85 E-value=27 Score=29.46 Aligned_cols=28 Identities=32% Similarity=0.498 Sum_probs=22.5
Q ss_pred ceEEEEEEecCCCEEEEeCCEEEECCEE
Q 021285 202 DVFIKRVVAKEGDVVEVREGKLIVNGVV 229 (314)
Q Consensus 202 ~~lVKRVvGlPGDtV~I~dg~vyINGk~ 229 (314)
..++||+.+++||.+...+..++++|++
T Consensus 138 ~~~~~~~~~~~gd~~~~~~~~~~~~g~~ 165 (166)
T COG0681 138 KDYIKRVIGLPGDNILYTDDDLPINGKP 165 (166)
T ss_pred cccccceEEeeccceeeccCceeecCCC
Confidence 5689999999999999885447777764
No 27
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=38.92 E-value=1e+02 Score=25.95 Aligned_cols=18 Identities=33% Similarity=0.479 Sum_probs=15.8
Q ss_pred CCCCCcCCCCCCEEEEEe
Q 021285 177 SLSMYPTFDVGDRIVAEK 194 (314)
Q Consensus 177 G~SM~PTL~~GD~Vlv~k 194 (314)
+++|.+.|+.||.|++..
T Consensus 49 ~~~~~~~L~~GD~VLA~~ 66 (124)
T PF15057_consen 49 SDAMRHSLQVGDKVLAPW 66 (124)
T ss_pred cCcccCcCCCCCEEEEec
Confidence 477899999999999974
No 28
>PLN02705 beta-amylase
Probab=37.46 E-value=45 Score=35.89 Aligned_cols=11 Identities=36% Similarity=0.658 Sum_probs=4.6
Q ss_pred CeeEEEEEEEc
Q 021285 276 NIIGRSVFRYW 286 (314)
Q Consensus 276 ~IiGKV~~i~w 286 (314)
-|-|..+=+||
T Consensus 281 GVdGVmvDVWW 291 (681)
T PLN02705 281 NVDGVVVDCWW 291 (681)
T ss_pred CCCEEEEeeee
Confidence 34444444444
No 29
>PF04790 Sarcoglycan_1: Sarcoglycan complex subunit protein; InterPro: IPR006875 The dystrophin glycoprotein complex (DGC) is a membrane-spanning complex that links the interior cytoskeleton to the extracellular matrix in muscle. The sarcoglycan complex is a subcomplex within the DGC and is composed of several muscle-specific, transmembrane proteins (alpha-, beta-, gamma-, delta- and zeta-sarcoglycan). The sarcoglycans are asparagine-linked glycosylated proteins with single transmembrane domains. This family contains beta, gamma and delta members [, ].; GO: 0007010 cytoskeleton organization, 0016012 sarcoglycan complex, 0016021 integral to membrane
Probab=35.45 E-value=1.7e+02 Score=28.00 Aligned_cols=65 Identities=12% Similarity=0.151 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHheeeeEEEcCCCCCc-CCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeC
Q 021285 155 VLAALVISLAFRSFVAEPRYIPSLSMYP-TFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVRE 220 (314)
Q Consensus 155 llialli~lll~~fv~~~~~V~G~SM~P-TL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~d 220 (314)
+++.+++-+++..+++...++....|.. .+.+++.+++.....+ -..++.+.|.+.+++.+.++.
T Consensus 21 L~il~iiNL~LTiwIl~Vl~~~~~Gm~~l~~~~~g~~~f~g~~~~-~~~l~~~~I~s~~d~~l~i~s 86 (264)
T PF04790_consen 21 LFILAIINLALTIWILKVLRFSSNGMGSLEFIPDGLRLFEGESEF-LQPLYASEIHSFRDSPLVIQS 86 (264)
T ss_pred HHHHHHHHHHHHhhhheeeecccCccccEEEecCCeEEEcCceeE-eeeeeeceeeeecCCCEEEEe
Confidence 3334445555677888899998888886 4555555554331111 123355666666666666653
No 30
>COG2932 Predicted transcriptional regulator [Transcription]
Probab=28.90 E-value=1.6e+02 Score=26.41 Aligned_cols=39 Identities=21% Similarity=0.137 Sum_probs=23.0
Q ss_pred eEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285 246 ITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285 (314)
Q Consensus 246 ~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~ 285 (314)
+..+.|.+.++.+|.+...|--+.-. ..=.|||||++..
T Consensus 172 ~~~~~~~~~l~S~N~~~~~~~~~~~~-~~v~iIgrVv~~~ 210 (214)
T COG2932 172 QREPGGLLRLVSLNPDYYPDEIFSED-DDVEIIGRVVWVS 210 (214)
T ss_pred EEecCCeEEEEeCCCCCCcccccCcc-ceEEEEEEEEEEe
Confidence 46677777799999754333322110 0024899998754
No 31
>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=20.83 E-value=3.5e+02 Score=23.82 Aligned_cols=31 Identities=29% Similarity=0.383 Sum_probs=22.7
Q ss_pred cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEE
Q 021285 182 PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEV 218 (314)
Q Consensus 182 PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I 218 (314)
..+++||+|++.. ++..++||+.-. |+.+.+
T Consensus 138 ~~~~~G~ivvv~~-----~~~~~vKrl~~~-~~~i~L 168 (199)
T TIGR00498 138 KDARNGEIVAAMI-----DGEVTVKRFYKD-GTKVEL 168 (199)
T ss_pred CCCCCCCEEEEEE-----CCEEEEEEEEEE-CCEEEE
Confidence 4678899999864 578999998755 444443
No 32
>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=20.17 E-value=1.2e+02 Score=28.22 Aligned_cols=25 Identities=28% Similarity=0.573 Sum_probs=19.9
Q ss_pred EEEecCCCEEEE-eCCEEEECCEEcc
Q 021285 207 RVVAKEGDVVEV-REGKLIVNGVVRN 231 (314)
Q Consensus 207 RVvGlPGDtV~I-~dg~vyINGk~i~ 231 (314)
+|++..|+.+.| .+|.+||||+.+.
T Consensus 17 ~v~~~~~~~~~I~~~g~L~i~G~~v~ 42 (229)
T PF11101_consen 17 EVVQASGEKLRIDPDGNLFINGKKVS 42 (229)
T ss_pred EEEeCCCceEEEcCCCcEEECCEEcc
Confidence 345667788888 5899999999974
Done!