Query 042181
Match_columns 417
No_of_seqs 123 out of 139
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 03:37:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042181.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042181hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2921 Intramembrane metallop 100.0 1.3E-45 2.9E-50 370.6 16.3 260 1-322 208-475 (484)
2 KOG2921 Intramembrane metallop 99.5 8.5E-15 1.8E-19 149.0 4.7 182 77-299 291-482 (484)
3 TIGR00054 RIP metalloprotease 98.5 2.7E-07 5.8E-12 95.6 7.7 43 13-55 203-246 (420)
4 PF13180 PDZ_2: PDZ domain; PD 98.3 5.4E-07 1.2E-11 72.3 3.8 44 12-55 13-57 (82)
5 cd00986 PDZ_LON_protease PDZ d 98.3 1.4E-06 3.1E-11 69.1 6.1 45 11-55 6-50 (79)
6 cd00991 PDZ_archaeal_metallopr 98.2 1.8E-06 3.9E-11 69.2 5.3 47 9-55 6-53 (79)
7 cd00136 PDZ PDZ domain, also c 98.1 5.5E-06 1.2E-10 63.5 4.7 43 14-56 14-59 (70)
8 cd00987 PDZ_serine_protease PD 98.0 7.4E-06 1.6E-10 65.3 5.0 45 12-56 23-68 (90)
9 cd00992 PDZ_signaling PDZ doma 98.0 1.7E-05 3.6E-10 62.2 5.6 43 13-55 26-71 (82)
10 cd00989 PDZ_metalloprotease PD 97.9 1.2E-05 2.6E-10 62.9 4.5 45 12-56 11-56 (79)
11 cd00990 PDZ_glycyl_aminopeptid 97.9 1.5E-05 3.2E-10 62.8 4.4 42 11-55 10-52 (80)
12 cd00988 PDZ_CTP_protease PDZ d 97.8 3E-05 6.5E-10 61.6 5.3 44 11-54 11-57 (85)
13 smart00228 PDZ Domain present 97.5 0.00012 2.6E-09 57.2 4.4 42 13-54 26-68 (85)
14 cd06162 S2P-M50_PDZ_SREBP Ster 97.4 0.00019 4.1E-09 71.5 5.2 63 257-319 210-275 (277)
15 TIGR01713 typeII_sec_gspC gene 97.4 0.00022 4.8E-09 70.1 5.2 45 13-57 191-236 (259)
16 PF02163 Peptidase_M50: Peptid 97.3 0.00019 4.1E-09 65.8 4.0 62 257-320 122-183 (192)
17 PRK10779 zinc metallopeptidase 97.3 0.00028 6E-09 73.9 5.4 41 16-56 129-170 (449)
18 PF00595 PDZ: PDZ domain (Also 97.3 0.00021 4.6E-09 56.8 3.3 43 13-55 25-70 (81)
19 TIGR02037 degP_htrA_DO peripla 97.3 0.00034 7.4E-09 72.4 5.5 45 12-56 256-301 (428)
20 TIGR02038 protease_degS peripl 97.3 0.00029 6.3E-09 71.6 4.6 43 13-55 278-321 (351)
21 PRK10898 serine endoprotease; 97.2 0.00034 7.5E-09 71.2 5.0 44 12-55 278-322 (353)
22 TIGR02037 degP_htrA_DO peripla 97.2 0.00037 7.9E-09 72.2 4.9 44 13-56 362-406 (428)
23 PRK10139 serine endoprotease; 97.2 0.00042 9.1E-09 73.0 5.0 44 12-55 289-333 (455)
24 PRK10139 serine endoprotease; 97.1 0.00051 1.1E-08 72.4 5.1 44 13-56 390-434 (455)
25 PRK10942 serine endoprotease; 97.1 0.0005 1.1E-08 72.8 4.9 44 13-56 408-452 (473)
26 PRK10942 serine endoprotease; 97.1 0.00059 1.3E-08 72.2 5.2 45 12-56 310-355 (473)
27 cd05709 S2P-M50 Site-2 proteas 96.9 0.0014 3.1E-08 59.7 5.4 43 253-295 112-154 (180)
28 KOG3553 Tax interaction protei 96.9 0.00078 1.7E-08 58.6 2.8 40 6-45 52-92 (124)
29 PRK10779 zinc metallopeptidase 96.8 0.0011 2.3E-08 69.5 4.4 42 14-55 222-264 (449)
30 COG0265 DegQ Trypsin-like seri 96.7 0.002 4.3E-08 64.7 5.0 45 11-55 268-313 (347)
31 TIGR00054 RIP metalloprotease 96.7 0.0014 3E-08 68.3 3.9 45 12-56 127-172 (420)
32 TIGR00225 prc C-terminal pepti 96.6 0.0026 5.7E-08 63.9 5.2 43 12-54 61-106 (334)
33 PLN00049 carboxyl-terminal pro 96.5 0.0025 5.5E-08 65.7 4.5 34 14-47 103-137 (389)
34 TIGR02860 spore_IV_B stage IV 96.5 0.003 6.6E-08 66.0 5.1 50 8-57 100-158 (402)
35 PF12812 PDZ_1: PDZ-like domai 96.4 0.0045 9.8E-08 50.8 4.4 47 11-57 28-75 (78)
36 cd06158 S2P-M50_like_1 Unchara 96.2 0.0066 1.4E-07 56.6 5.0 40 255-294 115-154 (181)
37 cd06163 S2P-M50_PDZ_RseP-like 96.2 0.0064 1.4E-07 57.1 4.6 35 261-295 113-147 (182)
38 TIGR03279 cyano_FeS_chp putati 96.1 0.0034 7.3E-08 66.3 2.7 39 17-55 2-41 (433)
39 PF14685 Tricorn_PDZ: Tricorn 96.1 0.0096 2.1E-07 50.1 4.7 45 12-56 11-66 (88)
40 COG0750 Predicted membrane-ass 95.9 0.012 2.6E-07 59.1 5.3 54 255-308 297-352 (375)
41 cd06164 S2P-M50_SpoIVFB_CBS Sp 95.5 0.024 5.2E-07 54.8 5.4 41 256-296 130-170 (227)
42 cd06161 S2P-M50_SpoIVFB SpoIVF 95.3 0.028 6.1E-07 53.3 5.4 41 256-296 113-153 (208)
43 COG3480 SdrC Predicted secrete 95.2 0.027 5.9E-07 57.5 5.2 48 8-55 125-172 (342)
44 COG0793 Prc Periplasmic protea 95.2 0.022 4.9E-07 59.5 4.7 45 13-58 112-157 (406)
45 cd06159 S2P-M50_PDZ_Arch Uncha 95.0 0.022 4.8E-07 56.5 3.8 48 261-308 194-242 (263)
46 PF04495 GRASP55_65: GRASP55/6 94.7 0.024 5.1E-07 51.3 2.9 45 12-56 42-88 (138)
47 KOG1320 Serine protease [Postt 94.5 0.05 1.1E-06 58.2 5.1 44 12-55 397-441 (473)
48 COG1994 SpoIVFB Zn-dependent p 93.9 0.077 1.7E-06 51.1 4.6 40 255-294 134-173 (230)
49 KOG3580 Tight junction protein 93.5 0.047 1E-06 59.8 2.7 43 12-54 428-473 (1027)
50 PRK11186 carboxy-terminal prot 93.4 0.052 1.1E-06 60.3 2.9 37 12-48 254-294 (667)
51 cd06160 S2P-M50_like_2 Unchara 93.0 0.11 2.4E-06 48.9 3.9 33 262-294 116-148 (183)
52 KOG3552 FERM domain protein FR 91.2 0.22 4.7E-06 57.0 4.2 45 9-54 71-115 (1298)
53 COG3975 Predicted protease wit 89.8 0.26 5.6E-06 53.4 3.2 31 12-42 461-492 (558)
54 PRK09681 putative type II secr 87.7 0.63 1.4E-05 46.8 4.1 46 13-58 204-253 (276)
55 KOG3532 Predicted protein kina 87.3 0.66 1.4E-05 51.9 4.3 46 12-57 397-443 (1051)
56 KOG1421 Predicted signaling-as 84.9 1.1 2.3E-05 50.4 4.4 45 12-56 861-905 (955)
57 KOG3209 WW domain-containing p 83.9 0.64 1.4E-05 52.2 2.2 39 17-55 782-824 (984)
58 KOG3129 26S proteasome regulat 83.8 1.1 2.5E-05 43.7 3.6 39 15-54 141-180 (231)
59 KOG1421 Predicted signaling-as 78.7 2.2 4.7E-05 48.1 3.9 49 12-60 301-350 (955)
60 KOG0606 Microtubule-associated 77.9 1.7 3.7E-05 50.9 3.0 41 15-55 660-703 (1205)
61 KOG3542 cAMP-regulated guanine 76.3 1 2.2E-05 50.5 0.7 39 9-47 558-597 (1283)
62 KOG3550 Receptor targeting pro 71.9 5 0.00011 37.8 3.9 37 12-48 114-152 (207)
63 KOG3580 Tight junction protein 71.2 3.9 8.3E-05 45.6 3.5 45 7-51 33-78 (1027)
64 KOG3571 Dishevelled 3 and rela 66.7 4.9 0.00011 43.8 3.1 47 12-58 276-326 (626)
65 KOG3651 Protein kinase C, alph 59.3 9.8 0.00021 39.4 3.6 34 15-48 32-67 (429)
66 COG3031 PulC Type II secretory 54.0 33 0.00071 34.6 6.1 51 10-60 201-255 (275)
67 KOG3209 WW domain-containing p 53.8 12 0.00026 42.6 3.3 43 12-54 922-968 (984)
68 KOG1892 Actin filament-binding 48.5 16 0.00034 43.0 3.3 34 13-46 960-995 (1629)
69 COG0750 Predicted membrane-ass 46.7 23 0.00051 35.6 4.0 37 19-55 135-172 (375)
70 KOG3549 Syntrophins (type gamm 33.6 23 0.0005 37.4 1.6 40 15-54 82-125 (505)
71 COG0260 PepB Leucyl aminopepti 30.8 50 0.0011 36.0 3.6 34 15-48 300-335 (485)
72 KOG3834 Golgi reassembly stack 30.3 36 0.00077 36.7 2.3 52 12-63 14-67 (462)
73 cd00433 Peptidase_M17 Cytosol 28.9 56 0.0012 35.3 3.6 30 16-45 288-317 (468)
74 PRK00913 multifunctional amino 28.4 60 0.0013 35.3 3.7 30 16-45 302-331 (483)
75 PF00883 Peptidase_M17: Cytoso 27.6 37 0.0008 35.0 1.9 34 16-49 133-168 (311)
76 PRK05015 aminopeptidase B; Pro 27.1 67 0.0015 34.5 3.7 30 16-45 239-268 (424)
77 PTZ00412 leucyl aminopeptidase 21.5 89 0.0019 34.8 3.4 33 16-48 347-381 (569)
78 KOG2442 Uncharacterized conser 21.3 1.3E+02 0.0029 33.0 4.6 55 283-339 336-392 (541)
79 KOG3606 Cell polarity protein 20.1 97 0.0021 31.9 3.1 34 14-47 195-230 (358)
No 1
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.3e-45 Score=370.60 Aligned_cols=260 Identities=27% Similarity=0.373 Sum_probs=220.1
Q ss_pred CCcccccceeeCCceEEEEeCCCCCCCC--CCCCCCeEEeeCCeecCChhhHHHHHHhhcccCCCCCCCCCCCCccccCC
Q 042181 1 MPLILFPFYKQCEGTMVLDVPSTSPLSG--YLSPGDVIVSLDGIHIHNEQDWMEVAALLDKYTPQNSSHSKYPGLRAADG 78 (417)
Q Consensus 1 LP~lLsP~Y~~g~Gv~V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~~~dW~~cL~~~~~~~~~~~~~s~~~g~~~~~~ 78 (417)
+|++|+|+|.+|+||.|++|+..||+.| ||++||+|+++|||||++++||.+|+.. ..++
T Consensus 208 lpViLsPfya~g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v~dW~ecl~t------------------sl~~ 269 (484)
T KOG2921|consen 208 LPVILSPFYAHGEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKVSDWLECLAT------------------SLDK 269 (484)
T ss_pred hhHhhchhhhcCceEEEEeccccCCCcCcccCCccceEEecCCcccCCHHHHHHHHHh------------------hccc
Confidence 6999999999999999999999999999 8999999999999999999999999953 2578
Q ss_pred CceeeecchhHhhhhhhh--ccCCccCCCCCcCccceecceeccccccccccccccccccccccccccccccccc-cCCC
Q 042181 79 RKGYCVSNYMIEESKKIQ--LLDNQSACPNDFTAFVTVQCFDISISVNVSSEGDQLNKLENVYCLNANDIVKLKK-CGDG 155 (417)
Q Consensus 79 ~~GYCVp~s~ides~~~~--~~dg~~~CCd~~ta~~s~lCF~~~~l~~~~~e~~~~~~~~~~~CL~aR~vve~~~-C~~~ 155 (417)
++||||+++.+++...+. .+||+..|||+.+-+..+.||.+. ++ + ...++.||+||.+.|... |++.
T Consensus 270 ~ngycvsas~vq~~sa~~h~~~dg~~~Ccde~n~t~~~vcf~ve--n~--~------n~p~h~clnar~~le~~~~~r~~ 339 (484)
T KOG2921|consen 270 ENGYCVSASLVQGGSAFRHFTHDGKGYCCDESNITEGYVCFMVE--NQ--F------NCPGHDCLNARTMLESNAAIREV 339 (484)
T ss_pred CCCeeecHHHHhccchhhhccccCceEecCCcCCccceeEEEEe--cc--c------CCCCccchHhHhhhhcccccccc
Confidence 999999999999888554 469999999999977779999875 22 1 134589999999998766 5542
Q ss_pred CccccCCCCCCCCCCCCeeeeeeeCCCceEEEEEEecCCchhhhhccCCCcCCCCCCCCCCCCCCceEEEeechhhheee
Q 042181 156 WVTSSTNGSHCVCSKEESCLTPVQLPGLAWVEITYSRPYSLECKQLSRSSVSDTRTTDFTDPHCGGTFVFFGDVIFMAQS 235 (417)
Q Consensus 156 w~~~~~~~s~C~C~~~~~Cv~P~l~~~~~lv~I~~~Rp~s~~~~~~~~~s~~~~~~~~f~~~~~~~~vLFvG~~~eL~~s 235 (417)
+.| -++ .|+.|.+..+++|+.. +++ +|.+- +..+++|+|+|+|+.++
T Consensus 340 --------~vc--~~g-kcI~kl~~~htr~vt~--k~~--------~n~se------------p~~p~~yvahp~~~~~t 386 (484)
T KOG2921|consen 340 --------SVC--LDG-KCIVKLQKCHTRWVTT--KDT--------DNQSE------------PVCPQVYVAHPQEKICT 386 (484)
T ss_pred --------ccc--cCC-ceeeeehhccceEEEE--ecc--------ccCCC------------CCCCeeecCCcceeEEE
Confidence 565 555 9999999999996654 454 33222 46699999999999999
Q ss_pred EeecccccCCCcccCCchHHHHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHH-hcccch--hcccccccccee
Q 042181 236 VSLTQYQPRWASSFGAYLPNILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCF-ITSLSP--RQREKVRHDCRY 312 (417)
Q Consensus 236 V~VS~yvPR~~fl~~~~lP~vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~-l~~l~p--r~r~~il~~c~~ 312 (417)
|.+++|.||+.+ +.+++|+..++|+||+..+|.+||+.|++|||.|||+|||+++++. +..++- ..+.-|-.....
T Consensus 387 v~~~~f~pR~~~-l~~a~p~~~~lfvkyl~~~s~~lai~na~PcF~fdg~~il~~f~~t~l~~~~~~~a~~d~i~~~i~~ 465 (484)
T KOG2921|consen 387 VPALHFGPRLVK-LELANPNKPILFVKYLNEMSEMLAISNATPCFTFDGISILEHFELTALYLFTLSLALGDFIAMPIYA 465 (484)
T ss_pred Eeecccccceee-EeecCCCchhhHHHHHHHHHHHHHHhcCccceeeccHHHHHHHHHHHHHhhhhhhhhhhhheehhhh
Confidence 999999999998 5999999999999999999999999999999999999999999998 444443 677777777777
Q ss_pred hhhhHHHHHh
Q 042181 313 EIQVAIDITV 322 (417)
Q Consensus 313 ~~~~~~~~~~ 322 (417)
+|.++|..+|
T Consensus 466 ~gs~l~a~~l 475 (484)
T KOG2921|consen 466 LGSQLIAHTL 475 (484)
T ss_pred cchHHHHHHH
Confidence 7777666554
No 2
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=8.5e-15 Score=148.97 Aligned_cols=182 Identities=27% Similarity=0.417 Sum_probs=150.6
Q ss_pred CCCceeeecchhHhhhhhhhccCCccCCCC-CcCccceecceeccccccccccccccccccccccccccccccccccCCC
Q 042181 77 DGRKGYCVSNYMIEESKKIQLLDNQSACPN-DFTAFVTVQCFDISISVNVSSEGDQLNKLENVYCLNANDIVKLKKCGDG 155 (417)
Q Consensus 77 ~~~~GYCVp~s~ides~~~~~~dg~~~CCd-~~ta~~s~lCF~~~~l~~~~~e~~~~~~~~~~~CL~aR~vve~~~C~~~ 155 (417)
+..+|||.+..-+.+...-++.+++..|+. +..+....+|-+. .-++...|+.++.++++++|++.
T Consensus 291 ~dg~~~Ccde~n~t~~~vcf~ven~~n~p~h~clnar~~le~~~-------------~~r~~~vc~~gkcI~kl~~~htr 357 (484)
T KOG2921|consen 291 HDGKGYCCDESNITEGYVCFMVENQFNCPGHDCLNARTMLESNA-------------AIREVSVCLDGKCIVKLQKCHTR 357 (484)
T ss_pred ccCceEecCCcCCccceeEEEEecccCCCCccchHhHhhhhccc-------------cccccccccCCceeeeehhccce
Confidence 568999999999987766666677777775 2333333333321 12445789999999999999999
Q ss_pred Ccccc--CCCCCCCCC-------CCCeeeeeeeCCCceEEEEEEecCCchhhhhccCCCcCCCCCCCCCCCCCCceEEEe
Q 042181 156 WVTSS--TNGSHCVCS-------KEESCLTPVQLPGLAWVEITYSRPYSLECKQLSRSSVSDTRTTDFTDPHCGGTFVFF 226 (417)
Q Consensus 156 w~~~~--~~~s~C~C~-------~~~~Cv~P~l~~~~~lv~I~~~Rp~s~~~~~~~~~s~~~~~~~~f~~~~~~~~vLFv 226 (417)
|.|.+ ||+++|.|+ ++.+|.+|++..+.+++.++.+-| ..+++||
T Consensus 358 ~vt~k~~~n~sep~~p~~yvahp~~~~~tv~~~~f~pR~~~l~~a~p--------------------------~~~~lfv 411 (484)
T KOG2921|consen 358 WVTTKDTDNQSEPVCPQVYVAHPQEKICTVPALHFGPRLVKLELANP--------------------------NKPILFV 411 (484)
T ss_pred EEEEeccccCCCCCCCeeecCCcceeEEEEeecccccceeeEeecCC--------------------------CchhhHH
Confidence 98877 778898774 567899999999999999987654 3489999
Q ss_pred echhhheeeEeecccccCCCcccCCchHHHHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHHhcccc
Q 042181 227 GDVIFMAQSVSLTQYQPRWASSFGAYLPNILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFITSLS 299 (417)
Q Consensus 227 G~~~eL~~sV~VS~yvPR~~fl~~~~lP~vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l~~l~ 299 (417)
|...+|...+.+++.+|+|.| =+.++-+-+|.-.+|++..|.|+..+|++|+|.+|||-|.-+++.. +|++
T Consensus 412 kyl~~~s~~lai~na~PcF~f-dg~~il~~f~~t~l~~~~~~~a~~d~i~~~i~~~gs~l~a~~llk~-~wls 482 (484)
T KOG2921|consen 412 KYLNEMSEMLAISNATPCFTF-DGISILEHFELTALYLFTLSLALGDFIAMPIYALGSQLIAHTLLKS-SWLS 482 (484)
T ss_pred HHHHHHHHHHHHhcCccceee-ccHHHHHHHHHHHHHhhhhhhhhhhhheehhhhcchHHHHHHHHHh-hcee
Confidence 999999999999999999998 4888888889999999999999999999999999999999999977 4443
No 3
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=98.49 E-value=2.7e-07 Score=95.60 Aligned_cols=43 Identities=26% Similarity=0.378 Sum_probs=40.5
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
.|++|.+|.++|||+. ||++||+|++|||.+|++.+|+.+.+.
T Consensus 203 ~g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~~dl~~~l~ 246 (420)
T TIGR00054 203 IEPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTDFVSAVK 246 (420)
T ss_pred cCcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHH
Confidence 5899999999999998 999999999999999999999998884
No 4
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=98.31 E-value=5.4e-07 Score=72.26 Aligned_cols=44 Identities=27% Similarity=0.572 Sum_probs=40.6
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
..|++|.+|.++|||+. ||++||+|++|||.+|++.+++.+.+.
T Consensus 13 ~~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~~~~~~~l~ 57 (82)
T PF13180_consen 13 TGGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSSEDLVNILS 57 (82)
T ss_dssp SSSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSHHHHHHHHH
T ss_pred CCeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCHHHHHHHHH
Confidence 35999999999999999 899999999999999999999999985
No 5
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.31 E-value=1.4e-06 Score=69.10 Aligned_cols=45 Identities=24% Similarity=0.455 Sum_probs=42.2
Q ss_pred eCCceEEEEeCCCCCCCCCCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 11 QCEGTMVLDVPSTSPLSGYLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 11 ~g~Gv~V~~V~~~SPl~ggL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
...|++|.+|.++|||+.+|++||+|++|||.+|++.+++.+.+.
T Consensus 6 ~~~Gv~V~~V~~~s~A~~gL~~GD~I~~Ing~~v~~~~~~~~~l~ 50 (79)
T cd00986 6 TYHGVYVTSVVEGMPAAGKLKAGDHIIAVDGKPFKEAEELIDYIQ 50 (79)
T ss_pred EecCEEEEEECCCCchhhCCCCCCEEEEECCEECCCHHHHHHHHH
Confidence 478999999999999998999999999999999999999998884
No 6
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.24 E-value=1.8e-06 Score=69.17 Aligned_cols=47 Identities=32% Similarity=0.499 Sum_probs=43.1
Q ss_pred eeeCCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 9 YKQCEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 9 Y~~g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
+....|++|.+|.++||++. ||++||+|++|||.+|++.+|+.+.+.
T Consensus 6 ~~~~~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~ 53 (79)
T cd00991 6 AEAVAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLEDFMEALK 53 (79)
T ss_pred cccCCcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCHHHHHHHHh
Confidence 44578999999999999997 999999999999999999999998884
No 7
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=98.06 E-value=5.5e-06 Score=63.47 Aligned_cols=43 Identities=35% Similarity=0.529 Sum_probs=40.6
Q ss_pred ceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh--hhHHHHHHh
Q 042181 14 GTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE--QDWMEVAAL 56 (417)
Q Consensus 14 Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~--~dW~~cL~~ 56 (417)
|++|.+|.++|||++ +|++||+|++|||.++.+. +++.+.+..
T Consensus 14 ~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~ 59 (70)
T cd00136 14 GVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKK 59 (70)
T ss_pred CEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhh
Confidence 999999999999998 8999999999999999998 999999853
No 8
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.03 E-value=7.4e-06 Score=65.30 Aligned_cols=45 Identities=31% Similarity=0.474 Sum_probs=41.6
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
..|++|.+|.++||++. +|++||+|++|||.+|++.+++.+.+..
T Consensus 23 ~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~ 68 (90)
T cd00987 23 TKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVADLRRALAE 68 (90)
T ss_pred CCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCHHHHHHHHHh
Confidence 56999999999999996 8999999999999999999999988853
No 9
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=97.95 E-value=1.7e-05 Score=62.21 Aligned_cols=43 Identities=23% Similarity=0.415 Sum_probs=39.8
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecC--ChhhHHHHHH
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIH--NEQDWMEVAA 55 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~--~~~dW~~cL~ 55 (417)
.|++|.+|.++||+.. +|++||+|++|||.++. +.+++.+.+.
T Consensus 26 ~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~ 71 (82)
T cd00992 26 GGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLK 71 (82)
T ss_pred CCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHH
Confidence 5899999999999998 89999999999999999 7888888774
No 10
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=97.94 E-value=1.2e-05 Score=62.87 Aligned_cols=45 Identities=22% Similarity=0.308 Sum_probs=40.8
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
...++|..|.++||++. +|++||+|++|||.++++.+++.+.+..
T Consensus 11 ~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~l~~ 56 (79)
T cd00989 11 PIEPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWEDLVDAVQE 56 (79)
T ss_pred ccCcEEEeECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHH
Confidence 34589999999999997 8999999999999999999999988853
No 11
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=97.90 E-value=1.5e-05 Score=62.81 Aligned_cols=42 Identities=21% Similarity=0.205 Sum_probs=37.0
Q ss_pred eCCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 11 QCEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 11 ~g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
.+.|++|..|.++||++. ||++||+|++|||.+|++ |.+.+.
T Consensus 10 ~~~~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~---~~~~l~ 52 (80)
T cd00990 10 EEGLGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDA---LQDRLK 52 (80)
T ss_pred cCCcEEEEEECCCChHHHhCCCCCCEEEEECCEEhHH---HHHHHH
Confidence 366899999999999998 899999999999999987 666553
No 12
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=97.84 E-value=3e-05 Score=61.57 Aligned_cols=44 Identities=25% Similarity=0.424 Sum_probs=40.4
Q ss_pred eCCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh--hhHHHHH
Q 042181 11 QCEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE--QDWMEVA 54 (417)
Q Consensus 11 ~g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~--~dW~~cL 54 (417)
.+.|++|..|.++||+.. +|++||+|++|||.++++. +++.+.+
T Consensus 11 ~~~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l 57 (85)
T cd00988 11 DDGGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLL 57 (85)
T ss_pred cCCeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHh
Confidence 378999999999999998 9999999999999999997 7887777
No 13
>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.
Probab=97.53 E-value=0.00012 Score=57.17 Aligned_cols=42 Identities=29% Similarity=0.393 Sum_probs=37.0
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHH
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVA 54 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL 54 (417)
.|++|..|.++||++. +|++||+|++|||.++.+..+...+.
T Consensus 26 ~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~ 68 (85)
T smart00228 26 GGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVD 68 (85)
T ss_pred CCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHH
Confidence 7999999999999998 79999999999999999866655444
No 14
>cd06162 S2P-M50_PDZ_SREBP Sterol regulatory element-binding protein (SREBP) Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50A), regulates intramembrane proteolysis (RIP) of SREBP and is part of a signal transduction mechanism involved in sterol and lipid metabolism. In sterol-depleted mammalian cells, a two-step proteolytic process releases the N-terminal domains of SREBPs from membranes of the endoplasmic reticulum (ER). These domains translocate into the nucleus, where they activate genes of cholesterol and fatty acid biosynthesis. The first cleavage occurs at Site-1 within the ER lumen to generate an intermediate that is subsequently released from the membrane by cleavage at Site-2, which lies within the first transmembrane domain. It is the second proteolytic step that is carried out by the SREBP Site-2 protease (S2P) which is present in this CD family. This group appears to be limited to eumetazoan proteins and contains one PDZ domain.
Probab=97.41 E-value=0.00019 Score=71.54 Aligned_cols=63 Identities=21% Similarity=0.274 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHH-hcccch--hccccccccceehhhhHHH
Q 042181 257 LRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCF-ITSLSP--RQREKVRHDCRYEIQVAID 319 (417)
Q Consensus 257 LE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~-l~~l~p--r~r~~il~~c~~~~~~~~~ 319 (417)
+..++.|+..++++||++|.+|++-|||.+|+.+++.. ..+..+ .++..|=.+.+..|++++.
T Consensus 210 ~~~~l~~la~iNl~lavfNLlP~~pLDGg~il~~ll~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~ 275 (277)
T cd06162 210 IETFLKYLISLSGALAVINAVPCFALDGQWILSTFLEATLVSVIVQKDKRDLIGFFILLVGSLLLA 275 (277)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHHhCCccchhhhhhhhHhHHHHhHHHHhh
Confidence 56689999999999999999999999999999999998 444333 3333333455666666654
No 15
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=97.38 E-value=0.00022 Score=70.13 Aligned_cols=45 Identities=22% Similarity=0.348 Sum_probs=42.5
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHhh
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAALL 57 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~~ 57 (417)
.|++|+.+.++||++. ||++||+|++|||.+|.+.+++.+.+.+.
T Consensus 191 ~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~~~~~~~l~~~ 236 (259)
T TIGR01713 191 EGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDPEQAFQALQML 236 (259)
T ss_pred eEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhc
Confidence 7999999999999998 99999999999999999999999999654
No 16
>PF02163 Peptidase_M50: Peptidase family M50; InterPro: IPR008915 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This entry contains metallopeptidases belonging to MEROPS peptidase family M50 (S2P protease family, clan MM). Members of the M50 metallopeptidase family include: mammalian sterol-regulatory element binding protein (SREBP) site 2 protease, Escherichia coli protease EcfE, stage IV sporulation protein FB and various hypothetical bacterial and eukaryotic homologues. A number of proteins are classified as non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity.; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3B4R_A 3ID4_A 3ID2_A 2ZPL_B 3ID1_A 2ZPM_A 3ID3_B 2HGA_A.
Probab=97.34 E-value=0.00019 Score=65.79 Aligned_cols=62 Identities=26% Similarity=0.262 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHHhcccchhccccccccceehhhhHHHH
Q 042181 257 LRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFITSLSPRQREKVRHDCRYEIQVAIDI 320 (417)
Q Consensus 257 LE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l~~l~pr~r~~il~~c~~~~~~~~~~ 320 (417)
+..++.++..+++.++++|++|++.|||.+|++++++.... .+.+++....+.+.+.+++.+
T Consensus 122 ~~~~~~~~~~~n~~l~~~NllPi~~lDG~~il~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 183 (192)
T PF02163_consen 122 FAEFLFFFAWLNFILALFNLLPIPPLDGGRILRALLEMIRR--RRINERIVQIILLIGLVLLLL 183 (192)
T ss_dssp TEEHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHH-HHHH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhhcccCCcCCHHHHHHHHHHHHhC--CHHHHHHHHHHHHhEEEEEEE
Confidence 45678899999999999999999999999999999955321 234445555666665544443
No 17
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=97.32 E-value=0.00028 Score=73.87 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=37.9
Q ss_pred EEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 16 MVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 16 ~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
+|.+|.++|||++ ||++||+|++|||.+|++.+|....+..
T Consensus 129 lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~~~l~~~v~~ 170 (449)
T PRK10779 129 VVGEIAPNSIAAQAQIAPGTELKAVDGIETPDWDAVRLALVS 170 (449)
T ss_pred cccccCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHh
Confidence 6899999999999 9999999999999999999998877743
No 18
>PF00595 PDZ: PDZ domain (Also known as DHR or GLGF) Coordinates are not yet available; InterPro: IPR001478 PDZ domains are found in diverse signalling proteins in bacteria, yeasts, plants, insects and vertebrates [, ]. PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences []. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 microns. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated. PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (beta-A to beta-F) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an anti-parallel beta-strand interacts with the beta-B strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the beta-A and beta-B strands.; GO: 0005515 protein binding; PDB: 3AXA_A 1WF8_A 1QAV_B 1QAU_A 1B8Q_A 1MC7_A 2KAW_A 1I16_A 1VB7_A 1WI4_A ....
Probab=97.30 E-value=0.00021 Score=56.80 Aligned_cols=43 Identities=23% Similarity=0.386 Sum_probs=37.4
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh--hhHHHHHH
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE--QDWMEVAA 55 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~--~dW~~cL~ 55 (417)
.|++|.+|.++|||+. ||++||.|++|||.+|.+. ++..+.+.
T Consensus 25 ~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~ 70 (81)
T PF00595_consen 25 KGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLK 70 (81)
T ss_dssp EEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHH
T ss_pred CCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHH
Confidence 5999999999999998 7999999999999999965 55556554
No 19
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=97.27 E-value=0.00034 Score=72.37 Aligned_cols=45 Identities=31% Similarity=0.383 Sum_probs=42.0
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
..|++|.+|.++|||+. ||++||+|++|||.+|++.+++.+.+..
T Consensus 256 ~~Gv~V~~V~~~spA~~aGL~~GDvI~~Vng~~i~~~~~~~~~l~~ 301 (428)
T TIGR02037 256 QRGALVAQVLPGSPAEKAGLKAGDVILSVNGKPISSFADLRRAIGT 301 (428)
T ss_pred CCceEEEEccCCCChHHcCCCCCCEEEEECCEEcCCHHHHHHHHHh
Confidence 47999999999999997 9999999999999999999999998853
No 20
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=97.25 E-value=0.00029 Score=71.59 Aligned_cols=43 Identities=23% Similarity=0.385 Sum_probs=41.1
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
.|++|..|.++||+++ +|++||+|++|||.+|++.+|+.+.+.
T Consensus 278 ~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~dl~~~l~ 321 (351)
T TIGR02038 278 RGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGAEELMDRIA 321 (351)
T ss_pred ccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCHHHHHHHHH
Confidence 6999999999999998 999999999999999999999999885
No 21
>PRK10898 serine endoprotease; Provisional
Probab=97.25 E-value=0.00034 Score=71.22 Aligned_cols=44 Identities=20% Similarity=0.305 Sum_probs=41.5
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
..|++|.+|.++||+++ +|++||+|++|||.+|.+.+++.+.+.
T Consensus 278 ~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~~l~~~l~ 322 (353)
T PRK10898 278 LQGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISALETMDQVA 322 (353)
T ss_pred CCeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHH
Confidence 37999999999999998 999999999999999999999998884
No 22
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=97.22 E-value=0.00037 Score=72.17 Aligned_cols=44 Identities=32% Similarity=0.431 Sum_probs=41.7
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
.|++|++|.++|||+. ||++||+|++|||.+|++.+++.+.+.+
T Consensus 362 ~Gv~V~~V~~~SpA~~aGL~~GDvI~~Ing~~V~s~~d~~~~l~~ 406 (428)
T TIGR02037 362 KGVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSSVAELRKVLDR 406 (428)
T ss_pred CceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHh
Confidence 6999999999999997 8999999999999999999999999954
No 23
>PRK10139 serine endoprotease; Provisional
Probab=97.18 E-value=0.00042 Score=73.00 Aligned_cols=44 Identities=25% Similarity=0.309 Sum_probs=41.4
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
..|++|.+|.++||++. ||++||+|++|||.+|++.+|..+.+.
T Consensus 289 ~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~~~l~ 333 (455)
T PRK10139 289 QRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSFAELRSRIA 333 (455)
T ss_pred CCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCHHHHHHHHH
Confidence 57999999999999987 999999999999999999999998885
No 24
>PRK10139 serine endoprotease; Provisional
Probab=97.13 E-value=0.00051 Score=72.36 Aligned_cols=44 Identities=23% Similarity=0.296 Sum_probs=41.5
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
.|++|..|.++|||+. ||++||+|++|||.+|++.++|.+.+.+
T Consensus 390 ~Gv~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~l~~ 434 (455)
T PRK10139 390 KGIKIDEVVKGSPAAQAGLQKDDVIIGVNRDRVNSIAEMRKVLAA 434 (455)
T ss_pred CceEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHh
Confidence 6999999999999997 9999999999999999999999999953
No 25
>PRK10942 serine endoprotease; Provisional
Probab=97.12 E-value=0.0005 Score=72.77 Aligned_cols=44 Identities=23% Similarity=0.345 Sum_probs=41.5
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
.|++|++|.++||++. ||++||+|++|||.+|.+.++|.+.+.+
T Consensus 408 ~gvvV~~V~~~S~A~~aGL~~GDvIv~VNg~~V~s~~dl~~~l~~ 452 (473)
T PRK10942 408 KGVVVDNVKPGTPAAQIGLKKGDVIIGANQQPVKNIAELRKILDS 452 (473)
T ss_pred CCeEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHh
Confidence 5999999999999987 9999999999999999999999999853
No 26
>PRK10942 serine endoprotease; Provisional
Probab=97.10 E-value=0.00059 Score=72.24 Aligned_cols=45 Identities=27% Similarity=0.282 Sum_probs=41.9
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
..|++|.+|.++||++. ||++||+|++|||.+|.+.++..+.+..
T Consensus 310 ~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~~~l~~ 355 (473)
T PRK10942 310 QRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSFAALRAQVGT 355 (473)
T ss_pred CCceEEEEECCCChHHHcCCCCCCEEEEECCEECCCHHHHHHHHHh
Confidence 47999999999999998 9999999999999999999999998853
No 27
>cd05709 S2P-M50 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. The domain core structure appears to contain at least three transmembrane helices with a catalytic zinc atom coordinated by three conserved residues contained within the consensus sequence HExxH, together with a conserved aspartate residue. The S2P/M50 family of RIP proteases is widely distributed; in eukaryotic cells, they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum (ER) stress responses. In sterol-depleted mammalian cells, a two-step proteolytic process releases the N-terminal domains of sterol regulatory element-bindin
Probab=96.92 E-value=0.0014 Score=59.72 Aligned_cols=43 Identities=33% Similarity=0.352 Sum_probs=39.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHHh
Q 042181 253 LPNILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFI 295 (417)
Q Consensus 253 lP~vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l 295 (417)
....+..++.++..++..+|++|.+|++.|||.+|++++++..
T Consensus 112 ~~~~~~~~l~~~~~~n~~l~~fNLlPi~plDGg~il~~~l~~~ 154 (180)
T cd05709 112 ASSGLANLLAFLALINLNLAVFNLLPIPPLDGGRILRALLEAI 154 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHhHH
Confidence 3456788999999999999999999999999999999999884
No 28
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=96.85 E-value=0.00078 Score=58.60 Aligned_cols=40 Identities=28% Similarity=0.293 Sum_probs=36.2
Q ss_pred ccceeeCCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecC
Q 042181 6 FPFYKQCEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIH 45 (417)
Q Consensus 6 sP~Y~~g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~ 45 (417)
.|+-+++.|++||.|.++|||+- ||..+|-|.++||-...
T Consensus 52 ~Pf~ytD~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfT 92 (124)
T KOG3553|consen 52 NPFSYTDKGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFT 92 (124)
T ss_pred CCCCcCCccEEEEEeccCChhhhhcceecceEEEecCceeE
Confidence 57778899999999999999998 99999999999996554
No 29
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=96.85 E-value=0.0011 Score=69.54 Aligned_cols=42 Identities=26% Similarity=0.367 Sum_probs=39.5
Q ss_pred ceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 14 GTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 14 Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
+++|.+|.++|||+. ||++||+|++|||.+|++.+|+.+.+.
T Consensus 222 ~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~~dl~~~l~ 264 (449)
T PRK10779 222 EPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQTFVTLVR 264 (449)
T ss_pred CcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHH
Confidence 589999999999998 999999999999999999999988884
No 30
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.002 Score=64.71 Aligned_cols=45 Identities=27% Similarity=0.440 Sum_probs=42.6
Q ss_pred eCCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 11 QCEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 11 ~g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
...|++|.+|.++||+.. ++++||+|+++||.+|.+..++++.+.
T Consensus 268 ~~~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~~~l~~~v~ 313 (347)
T COG0265 268 VAAGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASLSDLVAAVA 313 (347)
T ss_pred CCCceEEEecCCCChHHHcCCCCCCEEEEECCEEccCHHHHHHHHh
Confidence 367899999999999998 999999999999999999999999995
No 31
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=96.69 E-value=0.0014 Score=68.25 Aligned_cols=45 Identities=24% Similarity=0.212 Sum_probs=41.7
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
..|.+|.+|.++|||++ ||++||+|++|||.++.+.+|..+.+..
T Consensus 127 ~~g~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~~dl~~~ia~ 172 (420)
T TIGR00054 127 EVGPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGFKDVRQQIAD 172 (420)
T ss_pred CCCceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHh
Confidence 47999999999999999 9999999999999999999998887754
No 32
>TIGR00225 prc C-terminal peptidase (prc). A C-terminal peptidase with different substrates in different species including processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein in E.coli E.coli and H influenza have the most distal branch of the tree and their proteins have an N-terminal 200 amino acids that show no homology to other proteins in the database.
Probab=96.63 E-value=0.0026 Score=63.88 Aligned_cols=43 Identities=19% Similarity=0.317 Sum_probs=36.8
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh--hhHHHHH
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE--QDWMEVA 54 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~--~dW~~cL 54 (417)
+.|++|.+|.++|||+. ||++||+|++|||.+|++. ++..+.+
T Consensus 61 ~~~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~~~l 106 (334)
T TIGR00225 61 DGEIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLDDAVALI 106 (334)
T ss_pred CCEEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHhc
Confidence 56899999999999998 9999999999999999874 3444444
No 33
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=96.54 E-value=0.0025 Score=65.72 Aligned_cols=34 Identities=29% Similarity=0.540 Sum_probs=32.4
Q ss_pred ceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh
Q 042181 14 GTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE 47 (417)
Q Consensus 14 Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~ 47 (417)
|++|..|.++|||+. ||++||+|++|||.+|.+.
T Consensus 103 g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~ 137 (389)
T PLN00049 103 GLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGL 137 (389)
T ss_pred cEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCC
Confidence 899999999999998 9999999999999999873
No 34
>TIGR02860 spore_IV_B stage IV sporulation protein B. SpoIVB, the stage IV sporulation protein B of endospore-forming bacteria such as Bacillus subtilis, is a serine proteinase, expressed in the spore (rather than mother cell) compartment, that participates in a proteolytic activation cascade for Sigma-K. It appears to be universal among endospore-forming bacteria and occurs nowhere else.
Probab=96.53 E-value=0.003 Score=66.02 Aligned_cols=50 Identities=22% Similarity=0.318 Sum_probs=43.8
Q ss_pred ceeeCCceEEEEeCC--------CCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHhh
Q 042181 8 FYKQCEGTMVLDVPS--------TSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAALL 57 (417)
Q Consensus 8 ~Y~~g~Gv~V~~V~~--------~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~~ 57 (417)
.|...+||+|++..+ +|||+. +|++||+|++|||.+|++.+|..+.+...
T Consensus 100 I~l~t~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~~DL~~iL~~~ 158 (402)
T TIGR02860 100 VKLNTKGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNMDDLANLINKA 158 (402)
T ss_pred EEEecCEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhC
Confidence 466789999999743 689987 89999999999999999999999988654
No 35
>PF12812 PDZ_1: PDZ-like domain
Probab=96.41 E-value=0.0045 Score=50.76 Aligned_cols=47 Identities=21% Similarity=0.241 Sum_probs=42.2
Q ss_pred eCCceEEEEeCCCCCCCCC-CCCCCeEEeeCCeecCChhhHHHHHHhh
Q 042181 11 QCEGTMVLDVPSTSPLSGY-LSPGDVIVSLDGIHIHNEQDWMEVAALL 57 (417)
Q Consensus 11 ~g~Gv~V~~V~~~SPl~gg-L~~GDvI~sINgc~V~~~~dW~~cL~~~ 57 (417)
..-|++++....+||+..+ +..|-+|++|||.|+.|.+++.+.++++
T Consensus 28 ~~~~gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~Ld~f~~vvk~i 75 (78)
T PF12812_consen 28 IPVGGVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDLDDFIKVVKKI 75 (78)
T ss_pred CCCCEEEEEecCCChhhhCCCCCCeEEEeECCcCCcCHHHHHHHHHhC
Confidence 3556888899999998886 9999999999999999999999999754
No 36
>cd06158 S2P-M50_like_1 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with a minimal core protein and no PDZ domains.
Probab=96.23 E-value=0.0066 Score=56.65 Aligned_cols=40 Identities=33% Similarity=0.314 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHH
Q 042181 255 NILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCF 294 (417)
Q Consensus 255 ~vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~ 294 (417)
..+..++.++..++..||++|.+|++-|||..|+++++..
T Consensus 115 ~~l~~~~~~~~~~Ni~l~lfNLlPipPLDG~~il~~~l~~ 154 (181)
T cd06158 115 SFLFLMLAYGVLINLVLAVFNLLPIPPLDGSKILAALLPR 154 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHcch
Confidence 4567889999999999999999999999999999998854
No 37
>cd06163 S2P-M50_PDZ_RseP-like RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog RseP is involved in the sigmaE pathway of extracytoplasmic stress responses. Also included in this group are such homologs as Bacillus subtilis YluC, Mycobacterium tuberculosis Rv2869c S2P, and Bordetella bronchiseptica HurP. Rv2869c S2P appears to have a role in the regulation of prokaryotic lipid biosynthesis and membrane composition and YluC of Bacillus has a role in transducing membrane stress. This group includes bacterial and eukaryotic S2P/M50s homologs with either one or two PDZ domains present. PDZ domains are believed to have a regulatory role. The RseP PDZ domain is required for the inhibitory reaction that prevents cleavage of its substrate, RseA.
Probab=96.18 E-value=0.0064 Score=57.07 Aligned_cols=35 Identities=31% Similarity=0.410 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHccccccccchHHHHHHHHHHh
Q 042181 261 LICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFI 295 (417)
Q Consensus 261 l~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l 295 (417)
+.|+..+++.||++|.+|++-|||..|+.+++..+
T Consensus 113 ~~~~~~~n~~l~~fNLlPippLDGg~il~~~~~~~ 147 (182)
T cd06163 113 LSFLALLSINLGILNLLPIPALDGGHLLFLLIEAI 147 (182)
T ss_pred HHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence 67888899999999999999999999999999874
No 38
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=96.12 E-value=0.0034 Score=66.25 Aligned_cols=39 Identities=26% Similarity=0.365 Sum_probs=35.6
Q ss_pred EEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 17 VLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 17 V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
|.+|.|+|||+. ||++||+|++|||.+|++..|+...+.
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw~D~~~~l~ 41 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDLIDYQFLCA 41 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHhc
Confidence 678999999999 999999999999999999999877773
No 39
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=96.06 E-value=0.0096 Score=50.10 Aligned_cols=45 Identities=18% Similarity=0.273 Sum_probs=33.5
Q ss_pred CCceEEEEeCCC--------CCCCC-C--CCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPST--------SPLSG-Y--LSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~--------SPl~g-g--L~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
+.|..|..|-++ |||.. | +++||+|++|||.+|....+.++.|..
T Consensus 11 ~~~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~~~~~~lL~~ 66 (88)
T PF14685_consen 11 NGGYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTADANPYRLLEG 66 (88)
T ss_dssp TTEEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTTB-HHHHHHT
T ss_pred CCEEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCCCCHHHHhcc
Confidence 778889999875 88888 3 779999999999999999999999953
No 40
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=95.88 E-value=0.012 Score=59.13 Aligned_cols=54 Identities=24% Similarity=0.210 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHHhc-ccch-hccccccc
Q 042181 255 NILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFIT-SLSP-RQREKVRH 308 (417)
Q Consensus 255 ~vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l~-~l~p-r~r~~il~ 308 (417)
..++.++.++.-+|..||++|++|...|||-||+..+++.+. +..+ +.+..+.+
T Consensus 297 ~~~~~~l~~~~~lsi~lg~lNllP~p~LDGG~i~~~~~e~~~g~~~~~~~~~~~~~ 352 (375)
T COG0750 297 LGLINLLFFLALLSINLGILNLLPIPPLDGGHLLFYLLEALRGKPLSERVEAALYR 352 (375)
T ss_pred hHHHHHHHHHHHHHHHHHHHhccCCCccCccHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence 457889999999999999999999999999999999999964 5444 44444433
No 41
>cd06164 S2P-M50_SpoIVFB_CBS SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain. SpoIVFB is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB. It has been proposed tha
Probab=95.45 E-value=0.024 Score=54.78 Aligned_cols=41 Identities=34% Similarity=0.380 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHHhc
Q 042181 256 ILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFIT 296 (417)
Q Consensus 256 vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l~ 296 (417)
.+..++.++..+.+.||++|.+|++-|||..|+++++....
T Consensus 130 ~~~~~~~~~~~~Nl~l~~fNLlP~~PLDGgril~~ll~~~~ 170 (227)
T cd06164 130 PLGVLLGYLALINLLLAVFNLLPAFPLDGGRVLRALLWRRT 170 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcCCCCCChHHHHHHHHHHhc
Confidence 45678899999999999999999999999999999997743
No 42
>cd06161 S2P-M50_SpoIVFB SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB.
Probab=95.33 E-value=0.028 Score=53.31 Aligned_cols=41 Identities=37% Similarity=0.407 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHHhc
Q 042181 256 ILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFIT 296 (417)
Q Consensus 256 vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l~ 296 (417)
....++.+...+...++++|.+|++-|||..|+++++....
T Consensus 113 ~~~~~~~~~~~~N~~l~lfNLlPi~pLDGg~il~~ll~~~~ 153 (208)
T cd06161 113 PLSSLLEFLAQVNLILGLFNLLPALPLDGGRVLRALLWRRT 153 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHccCCCCCChHHHHHHHHHHhc
Confidence 35667888888999999999999999999999999998754
No 43
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=95.24 E-value=0.027 Score=57.50 Aligned_cols=48 Identities=27% Similarity=0.494 Sum_probs=44.2
Q ss_pred ceeeCCceEEEEeCCCCCCCCCCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 8 FYKQCEGTMVLDVPSTSPLSGYLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 8 ~Y~~g~Gv~V~~V~~~SPl~ggL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
.-.+-+||+|+.|..+||+.|-|+.||.|+.|||.++.+.++.++.+.
T Consensus 125 v~~~y~gvyv~~v~~~~~~~gkl~~gD~i~avdg~~f~s~~e~i~~v~ 172 (342)
T COG3480 125 VEVTYAGVYVLSVIDNSPFKGKLEAGDTIIAVDGEPFTSSDELIDYVS 172 (342)
T ss_pred eEEEEeeEEEEEccCCcchhceeccCCeEEeeCCeecCCHHHHHHHHh
Confidence 334567999999999999999999999999999999999999999995
No 44
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=95.22 E-value=0.022 Score=59.50 Aligned_cols=45 Identities=29% Similarity=0.425 Sum_probs=38.4
Q ss_pred CceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHhhc
Q 042181 13 EGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAALLD 58 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~~~ 58 (417)
.++.|.++.++|||++ ||++||+|++|||.++.+..- .++...++
T Consensus 112 ~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~-~~av~~ir 157 (406)
T COG0793 112 GGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSL-DEAVKLIR 157 (406)
T ss_pred CCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCH-HHHHHHhC
Confidence 8999999999999999 899999999999999999754 44444443
No 45
>cd06159 S2P-M50_PDZ_Arch Uncharacterized Archaeal homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group appears to be limited to Archaeal S2P/M50s homologs with additional putative N-terminal transmembrane spanning regions, relative to the core protein, and either one or two PDZ domains present.
Probab=95.01 E-value=0.022 Score=56.47 Aligned_cols=48 Identities=35% Similarity=0.518 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHccccccccchHHHHHHHHHHhcccch-hccccccc
Q 042181 261 LICIFHVSLTLALLNSLPAYFLDGESIFEVTLCFITSLSP-RQREKVRH 308 (417)
Q Consensus 261 l~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~l~~l~p-r~r~~il~ 308 (417)
+.|+..++..+|++|++|.+-|||.+|+++++..+..-.+ ++++++.+
T Consensus 194 l~~~~~~N~~l~lFNLlP~~PLDGg~il~~ll~~~~~~~~~~~~~~~~~ 242 (263)
T cd06159 194 LYWIFWINFLLGLFNCLPAIPLDGGHVFRDLLEALLRRFPSEKAERVVN 242 (263)
T ss_pred HHHHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence 5577778999999999999999999999999999654333 33444433
No 46
>PF04495 GRASP55_65: GRASP55/65 PDZ-like domain ; InterPro: IPR007583 GRASP55 (Golgi reassembly stacking protein of 55 kDa) and GRASP65 (a 65 kDa) protein are highly homologous. GRASP55 is a component of the Golgi stacking machinery. GRASP65, an N-ethylmaleimide-sensitive membrane protein required for the stacking of Golgi cisternae in a cell-free system [].; PDB: 3RLE_A 4EDJ_A.
Probab=94.75 E-value=0.024 Score=51.26 Aligned_cols=45 Identities=36% Similarity=0.474 Sum_probs=36.6
Q ss_pred CCceEEEEeCCCCCCCC-CCCC-CCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSP-GDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~-GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
..|.-|++|.|+|||+. ||.+ .|-|+.+|+..+.+.+++.+.+.+
T Consensus 42 ~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~~~l~~~v~~ 88 (138)
T PF04495_consen 42 EEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDEDDLFELVEA 88 (138)
T ss_dssp CCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--STCHHHHHHHH
T ss_pred cceEEEeEecCCCHHHHCCccccccEEEEccceecCCHHHHHHHHHH
Confidence 67999999999999987 9999 699999999999999999999853
No 47
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=94.52 E-value=0.05 Score=58.18 Aligned_cols=44 Identities=27% Similarity=0.366 Sum_probs=41.4
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
.+|++|-.|.++||+.+ ++.+||+|.+|||.+|+|..+-++.+.
T Consensus 397 ~q~v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n~~~l~~~i~ 441 (473)
T KOG1320|consen 397 VQLVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNLKHLYELIE 441 (473)
T ss_pred eeEEEEEEeccCCCcccccccCCCEEEEECCEEeechHHHHHHHH
Confidence 35899999999999999 799999999999999999999999994
No 48
>COG1994 SpoIVFB Zn-dependent proteases [General function prediction only]
Probab=93.88 E-value=0.077 Score=51.12 Aligned_cols=40 Identities=35% Similarity=0.389 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHccccccccchHHHHHHHHHH
Q 042181 255 NILRKSLICIFHVSLTLALLNSLPAYFLDGESIFEVTLCF 294 (417)
Q Consensus 255 ~vLE~fl~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~ 294 (417)
..+..++.++..+-+.||++|++|++-|||..|+++++..
T Consensus 134 ~~~~~~~~~la~~Nl~L~lFNLiPi~PLDGg~vlr~~~~~ 173 (230)
T COG1994 134 SVLFAFLAALALVNLVLALFNLLPIPPLDGGRVLRALLPR 173 (230)
T ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCCCChHHHHHHHccH
Confidence 4568899999999999999999999999999999998876
No 49
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=93.55 E-value=0.047 Score=59.79 Aligned_cols=43 Identities=23% Similarity=0.295 Sum_probs=37.3
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh--hhHHHHH
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE--QDWMEVA 54 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~--~dW~~cL 54 (417)
+.|+.|.+|.++|||++ ||+.||.|++||+.+.+|. ++-...|
T Consensus 428 DVGIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfL 473 (1027)
T KOG3580|consen 428 DVGIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFL 473 (1027)
T ss_pred ceeEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHH
Confidence 67999999999999999 9999999999999999984 4444444
No 50
>PRK11186 carboxy-terminal protease; Provisional
Probab=93.41 E-value=0.052 Score=60.27 Aligned_cols=37 Identities=27% Similarity=0.293 Sum_probs=31.7
Q ss_pred CCceEEEEeCCCCCCCC--CCCCCCeEEeeC--CeecCChh
Q 042181 12 CEGTMVLDVPSTSPLSG--YLSPGDVIVSLD--GIHIHNEQ 48 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g--gL~~GDvI~sIN--gc~V~~~~ 48 (417)
+++++|..|.|+|||.+ +|++||.|++|| |.++.+..
T Consensus 254 ~~~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~ 294 (667)
T PRK11186 254 DDYTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVI 294 (667)
T ss_pred CCeEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccc
Confidence 56799999999999997 799999999999 66665544
No 51
>cd06160 S2P-M50_like_2 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with additional putative N- and C-terminal transmembrane spanning regions, relative to the core protein, and no PDZ domains.
Probab=92.99 E-value=0.11 Score=48.88 Aligned_cols=33 Identities=30% Similarity=0.257 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHccccccccchHHHHHHHHHH
Q 042181 262 ICIFHVSLTLALLNSLPAYFLDGESIFEVTLCF 294 (417)
Q Consensus 262 ~YL~slSlALAllN~LPcy~LDGq~IL~tlL~~ 294 (417)
.++..+.+.++++|.+|++-|||..|+++++..
T Consensus 116 ~~~~~~nl~l~~fNLLPi~PLDGGril~~~l~~ 148 (183)
T cd06160 116 AVAGWVGLLVTALNLLPVGQLDGGHIVRALFGR 148 (183)
T ss_pred HHHHHHHHHHHHHHhCCCCCcChHHHHHHHhCH
Confidence 345667888999999999999999999998744
No 52
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=91.20 E-value=0.22 Score=57.02 Aligned_cols=45 Identities=24% Similarity=0.374 Sum_probs=38.4
Q ss_pred eeeCCceEEEEeCCCCCCCCCCCCCCeEEeeCCeecCChhhHHHHH
Q 042181 9 YKQCEGTMVLDVPSTSPLSGYLSPGDVIVSLDGIHIHNEQDWMEVA 54 (417)
Q Consensus 9 Y~~g~Gv~V~~V~~~SPl~ggL~~GDvI~sINgc~V~~~~dW~~cL 54 (417)
|+.|.-|+|..|.++-|..|.|+|||.|+.|||-||.+. .|.+.+
T Consensus 71 fvagrPviVr~VT~GGps~GKL~PGDQIl~vN~Epv~da-prervI 115 (1298)
T KOG3552|consen 71 FVAGRPVIVRFVTEGGPSIGKLQPGDQILAVNGEPVKDA-PRERVI 115 (1298)
T ss_pred eecCCceEEEEecCCCCccccccCCCeEEEecCcccccc-cHHHHH
Confidence 445888999999999999999999999999999999873 344444
No 53
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=89.81 E-value=0.26 Score=53.42 Aligned_cols=31 Identities=35% Similarity=0.408 Sum_probs=29.9
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCe
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGI 42 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc 42 (417)
+.+.+|++|.++|||.+ ||.+||.|+.|||.
T Consensus 461 ~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~ 492 (558)
T COG3975 461 GGHEKITFVFPGGPAYKAGLSPGDKIVAINGI 492 (558)
T ss_pred CCeeEEEecCCCChhHhccCCCccEEEEEcCc
Confidence 77899999999999999 99999999999999
No 54
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=87.70 E-value=0.63 Score=46.85 Aligned_cols=46 Identities=17% Similarity=0.267 Sum_probs=33.9
Q ss_pred CceEEEEeCCCCCCC--C--CCCCCCeEEeeCCeecCChhhHHHHHHhhc
Q 042181 13 EGTMVLDVPSTSPLS--G--YLSPGDVIVSLDGIHIHNEQDWMEVAALLD 58 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~--g--gL~~GDvI~sINgc~V~~~~dW~~cL~~~~ 58 (417)
+|+.=--|.|+-..+ . ||++||++++|||.++++.+.-.+.+.+++
T Consensus 204 ~Gl~GYrl~Pgkd~~lF~~~GLq~GDva~sING~dL~D~~qa~~l~~~L~ 253 (276)
T PRK09681 204 EGIVGYAVKPGADRSLFDASGFKEGDIAIALNQQDFTDPRAMIALMRQLP 253 (276)
T ss_pred CCceEEEECCCCcHHHHHHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHhc
Confidence 453333355554332 2 899999999999999999998888887665
No 55
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=87.27 E-value=0.66 Score=51.87 Aligned_cols=46 Identities=22% Similarity=0.302 Sum_probs=41.8
Q ss_pred CCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHHhh
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAALL 57 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~~~ 57 (417)
++-|.|-.|.++|||.+ .+.+|||++.|||.||+++..-.+.+..+
T Consensus 397 ~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~~q~~~~~~s~ 443 (1051)
T KOG3532|consen 397 NRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSERQATRFLQST 443 (1051)
T ss_pred ceEEEEEEecCCChhhHhcCCCcceEEEecCccchhHHHHHHHHHhc
Confidence 66788999999999999 79999999999999999999988888543
No 56
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=84.94 E-value=1.1 Score=50.35 Aligned_cols=45 Identities=20% Similarity=0.234 Sum_probs=43.2
Q ss_pred CCceEEEEeCCCCCCCCCCCCCCeEEeeCCeecCChhhHHHHHHh
Q 042181 12 CEGTMVLDVPSTSPLSGYLSPGDVIVSLDGIHIHNEQDWMEVAAL 56 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~ggL~~GDvI~sINgc~V~~~~dW~~cL~~ 56 (417)
.+||+|+..-.+|||...|..-.-|+.|||....+.+||+..+.+
T Consensus 861 p~gvyvt~rg~gspalq~l~aa~fitavng~~t~~lddf~~~~~~ 905 (955)
T KOG1421|consen 861 PEGVYVTSRGYGSPALQMLRAAHFITAVNGHDTNTLDDFYHMLLE 905 (955)
T ss_pred CCceEEeecccCChhHhhcchheeEEEecccccCcHHHHHHHHhh
Confidence 689999999999999999999999999999999999999999964
No 57
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=83.89 E-value=0.64 Score=52.18 Aligned_cols=39 Identities=26% Similarity=0.364 Sum_probs=32.8
Q ss_pred EEEeCCCCCCCC--CCCCCCeEEeeCCeecCC--hhhHHHHHH
Q 042181 17 VLDVPSTSPLSG--YLSPGDVIVSLDGIHIHN--EQDWMEVAA 55 (417)
Q Consensus 17 V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~--~~dW~~cL~ 55 (417)
|-.|.++|||+. .|++||-|..||||.|-| ..|..+.++
T Consensus 782 iGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHadiv~LIK 824 (984)
T KOG3209|consen 782 IGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHADIVSLIK 824 (984)
T ss_pred ccccccCChhHhhccccccceEEEecCeeeeccCchhHHHHHH
Confidence 667899999998 599999999999999987 456666653
No 58
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=83.76 E-value=1.1 Score=43.71 Aligned_cols=39 Identities=26% Similarity=0.279 Sum_probs=33.7
Q ss_pred eEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHH
Q 042181 15 TMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVA 54 (417)
Q Consensus 15 v~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL 54 (417)
++|-.|.|+|||+. ||.+||-|+++....-.|..+ .+-+
T Consensus 141 a~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~-lq~i 180 (231)
T KOG3129|consen 141 AVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLP-LQNI 180 (231)
T ss_pred EEEeecCCCChhhhhCcccCceEEEecccccccchh-HHHH
Confidence 58999999999998 999999999999988877777 3434
No 59
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=78.67 E-value=2.2 Score=48.06 Aligned_cols=49 Identities=16% Similarity=0.250 Sum_probs=40.8
Q ss_pred CCce-EEEEeCCCCCCCCCCCCCCeEEeeCCeecCChhhHHHHHHhhccc
Q 042181 12 CEGT-MVLDVPSTSPLSGYLSPGDVIVSLDGIHIHNEQDWMEVAALLDKY 60 (417)
Q Consensus 12 g~Gv-~V~~V~~~SPl~ggL~~GDvI~sINgc~V~~~~dW~~cL~~~~~~ 60 (417)
..|+ +|.+|.++||+++.|++||++..||+.-+.+...-.+.|.+...+
T Consensus 301 ~tgmLvV~~vL~~gpa~k~Le~GDillavN~t~l~df~~l~~iLDegvgk 350 (955)
T KOG1421|consen 301 RTGMLVVETVLPEGPAEKKLEPGDILLAVNSTCLNDFEALEQILDEGVGK 350 (955)
T ss_pred cceeEEEEEeccCCchhhccCCCcEEEEEcceehHHHHHHHHHHhhccCc
Confidence 4455 788999999999999999999999988888888888888654433
No 60
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=77.92 E-value=1.7 Score=50.94 Aligned_cols=41 Identities=32% Similarity=0.368 Sum_probs=35.5
Q ss_pred eEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh--hhHHHHHH
Q 042181 15 TMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE--QDWMEVAA 55 (417)
Q Consensus 15 v~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~--~dW~~cL~ 55 (417)
=+|..|.++|||.. +|++||.|++|||.+|++. .+-+++|.
T Consensus 660 h~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll 703 (1205)
T KOG0606|consen 660 HSVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLL 703 (1205)
T ss_pred eeeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHH
Confidence 47889999999977 9999999999999999974 56777773
No 61
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=76.31 E-value=1 Score=50.49 Aligned_cols=39 Identities=26% Similarity=0.294 Sum_probs=34.8
Q ss_pred eeeCCceEEEEeCCCCCCCC-CCCCCCeEEeeCCeecCCh
Q 042181 9 YKQCEGTMVLDVPSTSPLSG-YLSPGDVIVSLDGIHIHNE 47 (417)
Q Consensus 9 Y~~g~Gv~V~~V~~~SPl~g-gL~~GDvI~sINgc~V~~~ 47 (417)
--.|.|+.|.+|.|+|.|+. ||+.||.|..|||....+.
T Consensus 558 sEkGfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfeni 597 (1283)
T KOG3542|consen 558 SEKGFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENI 597 (1283)
T ss_pred ccccceeEEeeecCCchHHHhhhhhhhhhhhccccchhhh
Confidence 33489999999999999988 9999999999999988764
No 62
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=71.93 E-value=5 Score=37.78 Aligned_cols=37 Identities=16% Similarity=0.285 Sum_probs=31.6
Q ss_pred CCceEEEEeCCCCCCCC--CCCCCCeEEeeCCeecCChh
Q 042181 12 CEGTMVLDVPSTSPLSG--YLSPGDVIVSLDGIHIHNEQ 48 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~~~ 48 (417)
+.-++|..|.|+--++. ||+.||.+++|||..|..+.
T Consensus 114 nspiyisriipggvadrhgglkrgdqllsvngvsvege~ 152 (207)
T KOG3550|consen 114 NSPIYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGEH 152 (207)
T ss_pred CCceEEEeecCCccccccCcccccceeEeecceeecchh
Confidence 44577888999988886 79999999999999998754
No 63
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=71.24 E-value=3.9 Score=45.58 Aligned_cols=45 Identities=22% Similarity=0.442 Sum_probs=38.0
Q ss_pred cceee-CCceEEEEeCCCCCCCCCCCCCCeEEeeCCeecCChhhHH
Q 042181 7 PFYKQ-CEGTMVLDVPSTSPLSGYLSPGDVIVSLDGIHIHNEQDWM 51 (417)
Q Consensus 7 P~Y~~-g~Gv~V~~V~~~SPl~ggL~~GDvI~sINgc~V~~~~dW~ 51 (417)
|.|.. ...++|.+|.|+-||+|-|+.||-|.-|||.+..|...-+
T Consensus 33 Phf~~getSiViSDVlpGGPAeG~LQenDrvvMVNGvsMenv~haF 78 (1027)
T KOG3580|consen 33 PHFENGETSIVISDVLPGGPAEGLLQENDRVVMVNGVSMENVLHAF 78 (1027)
T ss_pred CCccCCceeEEEeeccCCCCcccccccCCeEEEEcCcchhhhHHHH
Confidence 34444 4578999999999999999999999999999999976543
No 64
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=66.68 E-value=4.9 Score=43.84 Aligned_cols=47 Identities=17% Similarity=0.250 Sum_probs=38.0
Q ss_pred CCceEEEEeCCCCCCCC--CCCCCCeEEeeCCeecCC--hhhHHHHHHhhc
Q 042181 12 CEGTMVLDVPSTSPLSG--YLSPGDVIVSLDGIHIHN--EQDWMEVAALLD 58 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~--~~dW~~cL~~~~ 58 (417)
+.|++|-+|.++-.++. -|.+||+|++||+....| -++-.+.|.++.
T Consensus 276 DggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV 326 (626)
T KOG3571|consen 276 DGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAV 326 (626)
T ss_pred CCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHh
Confidence 67999999999887766 499999999999998887 455666665543
No 65
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=59.31 E-value=9.8 Score=39.39 Aligned_cols=34 Identities=24% Similarity=0.469 Sum_probs=31.0
Q ss_pred eEEEEeCCCCCCCC--CCCCCCeEEeeCCeecCChh
Q 042181 15 TMVLDVPSTSPLSG--YLSPGDVIVSLDGIHIHNEQ 48 (417)
Q Consensus 15 v~V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~~~ 48 (417)
++|+.|-.+|||.. .+..||-|+.|||..|.+..
T Consensus 32 lYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGkt 67 (429)
T KOG3651|consen 32 LYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKT 67 (429)
T ss_pred EEEEEeccCCchhccCccccCCeeEEecceeecCcc
Confidence 68999999999998 59999999999999999854
No 66
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=54.00 E-value=33 Score=34.56 Aligned_cols=51 Identities=16% Similarity=0.203 Sum_probs=40.4
Q ss_pred eeCCceEEEEeCCCCCCCC----CCCCCCeEEeeCCeecCChhhHHHHHHhhccc
Q 042181 10 KQCEGTMVLDVPSTSPLSG----YLSPGDVIVSLDGIHIHNEQDWMEVAALLDKY 60 (417)
Q Consensus 10 ~~g~Gv~V~~V~~~SPl~g----gL~~GDvI~sINgc~V~~~~dW~~cL~~~~~~ 60 (417)
..++++.=-.+.|+-+..- ||++||+-.+||+..+++.++-.+.|..+..+
T Consensus 201 ~r~eki~Gyr~~pgkd~slF~~sglq~GDIavaiNnldltdp~~m~~llq~l~~m 255 (275)
T COG3031 201 IRNEKIEGYRFEPGKDGSLFYKSGLQRGDIAVAINNLDLTDPEDMFRLLQMLRNM 255 (275)
T ss_pred eeCCceEEEEecCCCCcchhhhhcCCCcceEEEecCcccCCHHHHHHHHHhhhcC
Confidence 3466666666666655543 89999999999999999999999999776644
No 67
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=53.82 E-value=12 Score=42.59 Aligned_cols=43 Identities=19% Similarity=0.267 Sum_probs=35.6
Q ss_pred CCceEEEEeCCCCCCCC--CCCCCCeEEeeCCeecCCh--hhHHHHH
Q 042181 12 CEGTMVLDVPSTSPLSG--YLSPGDVIVSLDGIHIHNE--QDWMEVA 54 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~~--~dW~~cL 54 (417)
+-++.|+.+.++-||.. -+++||.|+.|||.+.++- ++-.+.+
T Consensus 922 nM~LfVLRlAeDGPA~rdGrm~VGDqi~eINGesTkgmtH~rAIelI 968 (984)
T KOG3209|consen 922 NMDLFVLRLAEDGPAIRDGRMRVGDQITEINGESTKGMTHDRAIELI 968 (984)
T ss_pred ccceEEEEeccCCCccccCceeecceEEEecCcccCCCcHHHHHHHH
Confidence 55789999999999998 4999999999999998873 3444444
No 68
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=48.47 E-value=16 Score=42.98 Aligned_cols=34 Identities=26% Similarity=0.346 Sum_probs=30.7
Q ss_pred CceEEEEeCCCCCCCC--CCCCCCeEEeeCCeecCC
Q 042181 13 EGTMVLDVPSTSPLSG--YLSPGDVIVSLDGIHIHN 46 (417)
Q Consensus 13 ~Gv~V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~ 46 (417)
-|++|..|.++.+|+. -|..||.+++|||..+-+
T Consensus 960 lGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiG 995 (1629)
T KOG1892|consen 960 LGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIG 995 (1629)
T ss_pred cceEEEEeccCCccccccccccCceeeeecCccccc
Confidence 4899999999999987 499999999999988765
No 69
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=46.75 E-value=23 Score=35.63 Aligned_cols=37 Identities=30% Similarity=0.383 Sum_probs=33.6
Q ss_pred EeCCCCCCCC-CCCCCCeEEeeCCeecCChhhHHHHHH
Q 042181 19 DVPSTSPLSG-YLSPGDVIVSLDGIHIHNEQDWMEVAA 55 (417)
Q Consensus 19 ~V~~~SPl~g-gL~~GDvI~sINgc~V~~~~dW~~cL~ 55 (417)
++..+||+.. ++.+||.|+++|+.++.+.++-.+.+.
T Consensus 135 ~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~~~~~~~~~ 172 (375)
T COG0750 135 EVAPKSAAALAGLRPGDRIVAVDGEKVASWDDVRRLLV 172 (375)
T ss_pred ecCCCCHHHHcCCCCCCEEEeECCEEccCHHHHHHHHH
Confidence 6899999988 999999999999999999998877773
No 70
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=33.55 E-value=23 Score=37.41 Aligned_cols=40 Identities=15% Similarity=0.294 Sum_probs=29.2
Q ss_pred eEEEEeCCCCCCCC--CCCCCCeEEeeCCeecCC--hhhHHHHH
Q 042181 15 TMVLDVPSTSPLSG--YLSPGDVIVSLDGIHIHN--EQDWMEVA 54 (417)
Q Consensus 15 v~V~~V~~~SPl~g--gL~~GDvI~sINgc~V~~--~~dW~~cL 54 (417)
|+|..|-++-.|+- -|.+||.|++|||..|.+ .++-...|
T Consensus 82 vviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iL 125 (505)
T KOG3549|consen 82 VVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNIL 125 (505)
T ss_pred EEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHH
Confidence 55556665555544 599999999999999987 45555555
No 71
>COG0260 PepB Leucyl aminopeptidase [Amino acid transport and metabolism]
Probab=30.79 E-value=50 Score=35.99 Aligned_cols=34 Identities=32% Similarity=0.474 Sum_probs=27.6
Q ss_pred eEEEEeCCCCCCCCCCCCCCeEEeeCCeec--CChh
Q 042181 15 TMVLDVPSTSPLSGYLSPGDVIVSLDGIHI--HNEQ 48 (417)
Q Consensus 15 v~V~~V~~~SPl~ggL~~GDvI~sINgc~V--~~~~ 48 (417)
+.|+...+|.|-..-.+|||||++-||..| .|+|
T Consensus 300 ~~vl~~~ENm~~g~A~rPGDVits~~GkTVEV~NTD 335 (485)
T COG0260 300 VGVLPAVENMPSGNAYRPGDVITSMNGKTVEVLNTD 335 (485)
T ss_pred EEEEeeeccCCCCCCCCCCCeEEecCCcEEEEcccC
Confidence 457788899988888999999999999654 5653
No 72
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.29 E-value=36 Score=36.72 Aligned_cols=52 Identities=31% Similarity=0.421 Sum_probs=43.4
Q ss_pred CCceEEEEeCCCCCCCC-CCCC-CCeEEeeCCeecCChhhHHHHHHhhcccCCC
Q 042181 12 CEGTMVLDVPSTSPLSG-YLSP-GDVIVSLDGIHIHNEQDWMEVAALLDKYTPQ 63 (417)
Q Consensus 12 g~Gv~V~~V~~~SPl~g-gL~~-GDvI~sINgc~V~~~~dW~~cL~~~~~~~~~ 63 (417)
..|.-|+.|.+|||+.+ ||.+ =|-|++|||..+...+|-.+.+.+-..++++
T Consensus 14 teg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dnd~Lk~llk~~sekVk 67 (462)
T KOG3834|consen 14 TEGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDNDTLKALLKANSEKVK 67 (462)
T ss_pred ceeEEEEEeecCChHHhcCcchhhhhhheeCcccccCchHHHHHHHHhcccceE
Confidence 57889999999999998 6554 6899999999999999999988765555433
No 73
>cd00433 Peptidase_M17 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and play a key role in protein degradation and in the metabolism of biologically active peptides. They do not contain HEXXH motif (which is used as one of the signature patterns to group the peptidase families) in the metal-binding site. The two associated zinc ions and the active site are entirely enclosed within the C-terminal catalytic domain in leucine aminopeptidase. The enzyme is a hexamer, with the catalytic domains clustered around the three-fold axis, and the two trimers related to one another by a two-fold rotation. The N-terminal domain is structurally similar to the ADP-ribose binding Macro domain. This family includes proteins from bacteria, archaea, animals and plants.
Probab=28.91 E-value=56 Score=35.29 Aligned_cols=30 Identities=30% Similarity=0.366 Sum_probs=25.2
Q ss_pred EEEEeCCCCCCCCCCCCCCeEEeeCCeecC
Q 042181 16 MVLDVPSTSPLSGYLSPGDVIVSLDGIHIH 45 (417)
Q Consensus 16 ~V~~V~~~SPl~ggL~~GDvI~sINgc~V~ 45 (417)
.|..+.+|.|-....+|||||++-||..|.
T Consensus 288 ~i~~~~EN~is~~A~rPgDVi~s~~GkTVE 317 (468)
T cd00433 288 GVLPLAENMISGNAYRPGDVITSRSGKTVE 317 (468)
T ss_pred EEEEeeecCCCCCCCCCCCEeEeCCCcEEE
Confidence 466778899888899999999999996554
No 74
>PRK00913 multifunctional aminopeptidase A; Provisional
Probab=28.38 E-value=60 Score=35.34 Aligned_cols=30 Identities=30% Similarity=0.454 Sum_probs=25.1
Q ss_pred EEEEeCCCCCCCCCCCCCCeEEeeCCeecC
Q 042181 16 MVLDVPSTSPLSGYLSPGDVIVSLDGIHIH 45 (417)
Q Consensus 16 ~V~~V~~~SPl~ggL~~GDvI~sINgc~V~ 45 (417)
-|....+|.|-....+|||||++-||..|.
T Consensus 302 ~v~~l~ENm~~~~A~rPgDVi~~~~GkTVE 331 (483)
T PRK00913 302 GVVAACENMPSGNAYRPGDVLTSMSGKTIE 331 (483)
T ss_pred EEEEeeccCCCCCCCCCCCEEEECCCcEEE
Confidence 456678888888889999999999996654
No 75
>PF00883 Peptidase_M17: Cytosol aminopeptidase family, catalytic domain; InterPro: IPR000819 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M17 (leucyl aminopeptidase family, clan MF), the type example being leucyl aminopeptidase from Bos taurus (Bovine). Aminopeptidases are exopeptidases involved in the processing and regular turnover of intracellular proteins, although their precise role in cellular metabolism is unclear [, ]. Leucine aminopeptidases cleave leucine residues from the N-terminal of polypeptide chains, but substantial rates are evident for all amino acids []. The enzymes exist as homo-hexamers, comprising 2 trimers stacked on top of one another []. Each monomer binds 2 zinc ions and folds into 2 alpha/beta-type quasi-spherical globular domains, producing a comma-like shape []. The N-terminal 150 residues form a 5-stranded beta-sheet with 4 parallel and 1 anti-parallel strand sandwiched between 4 alpha-helices []. An alpha-helix extends into the C-terminal domain, which comprises a central 8-stranded saddle-shaped beta-sheet sandwiched between groups of helices, forming the monomer hydrophobic core []. A 3-stranded beta-sheet resides on the surface of the monomer, where it interacts with other members of the hexamer []. The 2 zinc ions and the active site are entirely located in the C-terminal catalytic domain [].; GO: 0004177 aminopeptidase activity, 0006508 proteolysis, 0005622 intracellular; PDB: 3KZW_L 3KQX_C 3KQZ_L 3KR4_I 3KR5_J 3T8W_C 3H8F_D 3H8G_A 3H8E_B 3IJ3_A ....
Probab=27.63 E-value=37 Score=34.96 Aligned_cols=34 Identities=32% Similarity=0.449 Sum_probs=22.9
Q ss_pred EEEEeCCCCCCCCCCCCCCeEEeeCCee--cCChhh
Q 042181 16 MVLDVPSTSPLSGYLSPGDVIVSLDGIH--IHNEQD 49 (417)
Q Consensus 16 ~V~~V~~~SPl~ggL~~GDvI~sINgc~--V~~~~d 49 (417)
-|..+.+|+|-....+|||||++.||.. |.|++.
T Consensus 133 ~~l~~~EN~i~~~a~~pgDVi~s~~GkTVEI~NTDA 168 (311)
T PF00883_consen 133 AVLPLAENMISGNAYRPGDVITSMNGKTVEIGNTDA 168 (311)
T ss_dssp EEEEEEEE--STTSTTTTEEEE-TTS-EEEES-TTG
T ss_pred EEEEcccccCCCCCCCCCCEEEeCCCCEEEEEeeCc
Confidence 4667778888888899999999999955 556543
No 76
>PRK05015 aminopeptidase B; Provisional
Probab=27.11 E-value=67 Score=34.52 Aligned_cols=30 Identities=17% Similarity=0.229 Sum_probs=24.8
Q ss_pred EEEEeCCCCCCCCCCCCCCeEEeeCCeecC
Q 042181 16 MVLDVPSTSPLSGYLSPGDVIVSLDGIHIH 45 (417)
Q Consensus 16 ~V~~V~~~SPl~ggL~~GDvI~sINgc~V~ 45 (417)
.|+.+.+|.|-....+|||||++-||..|.
T Consensus 239 ~il~~aENmisg~A~kpgDVIt~~nGkTVE 268 (424)
T PRK05015 239 LFLCCAENLISGNAFKLGDIITYRNGKTVE 268 (424)
T ss_pred EEEEecccCCCCCCCCCCCEEEecCCcEEe
Confidence 456677888877789999999999997664
No 77
>PTZ00412 leucyl aminopeptidase; Provisional
Probab=21.47 E-value=89 Score=34.81 Aligned_cols=33 Identities=15% Similarity=0.271 Sum_probs=26.1
Q ss_pred EEEEeCCCCCCCCCCCCCCeEEeeCCee--cCChh
Q 042181 16 MVLDVPSTSPLSGYLSPGDVIVSLDGIH--IHNEQ 48 (417)
Q Consensus 16 ~V~~V~~~SPl~ggL~~GDvI~sINgc~--V~~~~ 48 (417)
-|....+|.|-....+|||||++.||.. |.|++
T Consensus 347 ~iiplaENm~sg~A~rPGDVits~nGkTVEV~NTD 381 (569)
T PTZ00412 347 AAVGLAENAIGPESYHPSSIITSRKGLTVEVLNTD 381 (569)
T ss_pred EEEEhhhcCCCCCCCCCCCEeEecCCCEEeecccC
Confidence 4566778888777899999999999976 55643
No 78
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=21.34 E-value=1.3e+02 Score=33.04 Aligned_cols=55 Identities=15% Similarity=0.045 Sum_probs=31.8
Q ss_pred chHHHHHHHHHH--hcccchhccccccccceehhhhHHHHHhhccceeEEEEecCCCCc
Q 042181 283 DGESIFEVTLCF--ITSLSPRQREKVRHDCRYEIQVAIDITVNAAWTRVTIVFGSNEHS 339 (417)
Q Consensus 283 DGq~IL~tlL~~--l~~l~pr~r~~il~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 339 (417)
|=.||++-+|.+ .-.+...-|-.-+|+|.++ ++...+--+||-|+|=++--|..|
T Consensus 336 ~~AwilqDvLGIalci~vLk~vRLPnlK~~tiL--L~c~f~YDiF~VFitp~~t~~geS 392 (541)
T KOG2442|consen 336 DWAWILQDVLGIALCITVLKTVRLPNLKVCTIL--LLCLFLYDIFFVFITPFITKNGES 392 (541)
T ss_pred chHHHHHhhHhHHHHHHHHHHhcCCchhHHHHH--HHHHHHHhhheeeeehhhccCCce
Confidence 667888877766 1233334555556666543 334455677887777555444334
No 79
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=20.10 E-value=97 Score=31.94 Aligned_cols=34 Identities=15% Similarity=0.311 Sum_probs=28.0
Q ss_pred ceEEEEeCCCCCCCC-C-CCCCCeEEeeCCeecCCh
Q 042181 14 GTMVLDVPSTSPLSG-Y-LSPGDVIVSLDGIHIHNE 47 (417)
Q Consensus 14 Gv~V~~V~~~SPl~g-g-L~~GDvI~sINgc~V~~~ 47 (417)
|+.|..+.|+--|+. | |.+.|-|+.|||++|.+.
T Consensus 195 GIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGK 230 (358)
T KOG3606|consen 195 GIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGK 230 (358)
T ss_pred ceEEEeecCCccccccceeeecceeEEEcCEEeccc
Confidence 667777788776666 4 899999999999999873
Done!