Query psy6526
Match_columns 696
No_of_seqs 674 out of 4951
Neff 9.2
Searched_HMMs 46136
Date Fri Aug 16 20:20:08 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6526.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6526hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1600|consensus 100.0 1.8E-70 3.8E-75 529.7 7.2 260 151-417 34-321 (321)
2 PLN02220 delta-9 acyl-lipid de 100.0 6.7E-55 1.4E-59 435.6 7.0 235 157-409 33-294 (299)
3 COG1398 OLE1 Fatty-acid desatu 100.0 1.4E-53 2.9E-58 402.4 4.2 242 157-409 20-287 (289)
4 cd03505 Delta9-FADS-like The D 100.0 1.9E-48 4.1E-53 359.3 4.9 157 184-400 2-178 (178)
5 KOG1600|consensus 100.0 1.1E-46 2.5E-51 364.5 4.1 243 305-565 65-317 (321)
6 PLN02220 delta-9 acyl-lipid de 100.0 8.1E-34 1.7E-38 284.1 0.8 228 306-559 55-292 (299)
7 COG1398 OLE1 Fatty-acid desatu 100.0 2.3E-32 4.9E-37 258.7 3.3 253 284-560 20-286 (289)
8 KOG3627|consensus 99.9 9.5E-27 2.1E-31 237.0 13.9 220 450-690 23-255 (256)
9 cd00190 Tryp_SPc Trypsin-like 99.9 1.2E-26 2.5E-31 232.5 12.3 218 450-688 11-232 (232)
10 cd03505 Delta9-FADS-like The D 99.9 3.6E-26 7.9E-31 211.3 -4.8 160 313-552 9-178 (178)
11 smart00020 Tryp_SPc Trypsin-li 99.9 3.2E-23 6.9E-28 207.3 11.1 211 451-685 13-229 (229)
12 cd00190 Tryp_SPc Trypsin-like 99.8 1.6E-20 3.5E-25 187.9 16.1 146 19-169 1-158 (232)
13 PF00089 Trypsin: Trypsin; In 99.8 1.7E-21 3.7E-26 193.3 7.0 201 451-685 12-220 (220)
14 smart00020 Tryp_SPc Trypsin-li 99.8 1.8E-19 3.9E-24 180.1 15.9 146 18-169 1-159 (229)
15 PF00089 Trypsin: Trypsin; In 99.8 2E-18 4.4E-23 171.2 15.1 144 19-169 1-155 (220)
16 KOG3627|consensus 99.8 2.4E-18 5.1E-23 175.2 15.5 150 16-169 10-178 (256)
17 COG5640 Secreted trypsin-like 99.7 9.1E-18 2E-22 165.2 12.4 111 577-690 159-279 (413)
18 COG5640 Secreted trypsin-like 99.4 3.2E-13 6.9E-18 133.5 4.8 103 15-123 29-136 (413)
19 PF09342 DUF1986: Domain of un 99.0 1.2E-09 2.7E-14 103.1 10.2 100 27-136 13-114 (267)
20 PF03761 DUF316: Domain of unk 98.5 3.3E-07 7.2E-12 94.5 10.2 129 7-138 28-186 (282)
21 PF00487 FA_desaturase: Fatty 98.2 8.3E-07 1.8E-11 89.7 2.7 48 194-241 15-80 (257)
22 PF03761 DUF316: Domain of unk 98.2 1.5E-05 3.3E-10 82.1 11.9 112 551-690 166-280 (282)
23 cd01060 Membrane-FADS-like The 97.6 8.8E-06 1.9E-10 72.3 -1.5 42 327-368 74-122 (122)
24 PF09342 DUF1986: Domain of un 97.2 0.0013 2.8E-08 63.1 8.2 113 451-586 16-131 (267)
25 cd03513 CrtW_beta-carotene-ket 97.0 0.0017 3.8E-08 63.6 6.7 38 329-368 171-214 (225)
26 COG3591 V8-like Glu-specific e 96.8 0.0076 1.6E-07 59.3 9.7 54 633-690 197-251 (251)
27 PF13365 Trypsin_2: Trypsin-li 96.3 0.013 2.8E-07 51.4 6.8 21 44-64 1-22 (120)
28 COG3591 V8-like Glu-specific e 95.4 0.03 6.5E-07 55.2 6.1 41 25-65 44-87 (251)
29 PF00487 FA_desaturase: Fatty 94.9 0.04 8.7E-07 55.2 5.7 48 328-375 21-75 (257)
30 cd03512 Alkane-hydroxylase Alk 94.9 0.049 1.1E-06 56.6 6.1 23 346-368 251-273 (314)
31 cd03506 Delta6-FADS-like The D 94.8 0.008 1.7E-07 58.6 0.0 23 347-369 160-182 (204)
32 cd03511 Rhizopine-oxygenase-li 93.3 0.042 9.1E-07 56.6 1.8 21 348-368 235-255 (285)
33 cd03514 CrtR_beta-carotene-hyd 92.8 0.023 5.1E-07 55.3 -0.9 23 346-368 162-184 (207)
34 COG3239 DesA Fatty acid desatu 89.6 0.15 3.3E-06 53.7 1.3 24 345-368 255-278 (343)
35 cd03509 DesA_FADS-like Fatty a 89.0 0.16 3.4E-06 52.1 0.9 21 348-368 219-239 (288)
36 PLN02579 sphingolipid delta-4 88.5 0.18 4E-06 52.4 1.0 20 349-368 249-268 (323)
37 cd03506 Delta6-FADS-like The D 87.9 0.13 2.8E-06 50.1 -0.6 45 328-374 15-68 (204)
38 KOG2987|consensus 87.8 1.2 2.5E-05 43.4 5.7 64 302-368 63-135 (324)
39 PLN02579 sphingolipid delta-4 87.6 3.2 7E-05 43.2 9.4 19 504-522 252-270 (323)
40 cd03508 Delta4-sphingolipid-FA 87.4 0.25 5.4E-06 50.6 1.1 20 349-368 221-240 (289)
41 TIGR02037 degP_htrA_DO peripla 87.1 3.4 7.3E-05 45.3 9.8 18 470-488 62-80 (428)
42 TIGR02037 degP_htrA_DO peripla 87.0 1.8 3.8E-05 47.5 7.6 68 41-135 57-125 (428)
43 PF02395 Peptidase_S6: Immunog 86.8 0.57 1.2E-05 54.3 3.7 33 636-668 213-246 (769)
44 cd03513 CrtW_beta-carotene-ket 86.7 1.5 3.3E-05 43.1 6.1 48 329-377 48-104 (225)
45 TIGR02038 protease_degS peripl 86.4 5.6 0.00012 42.2 10.7 26 634-663 193-218 (351)
46 PRK10898 serine endoprotease; 83.9 12 0.00027 39.6 11.9 27 634-664 193-219 (353)
47 TIGR02038 protease_degS peripl 80.5 9.3 0.0002 40.6 9.5 34 30-63 55-100 (351)
48 PLN02598 omega-6 fatty acid de 79.8 1.7 3.7E-05 47.0 3.6 20 349-368 329-348 (421)
49 cd03510 Rhizobitoxine-FADS-lik 79.3 0.43 9.3E-06 45.1 -1.0 44 194-237 30-91 (175)
50 cd03507 Delta12-FADS-like The 79.0 1.1 2.5E-05 44.1 1.8 20 349-368 196-215 (222)
51 cd03508 Delta4-sphingolipid-FA 78.9 2.5 5.4E-05 43.4 4.4 75 294-374 30-114 (289)
52 cd01060 Membrane-FADS-like The 76.0 1.1 2.3E-05 39.3 0.6 46 328-374 16-69 (122)
53 PRK10942 serine endoprotease; 72.0 12 0.00027 41.4 7.8 57 42-121 111-169 (473)
54 PRK10898 serine endoprotease; 71.2 20 0.00043 38.1 8.9 69 30-121 55-135 (353)
55 cd03514 CrtR_beta-carotene-hyd 70.4 6.1 0.00013 38.4 4.4 23 500-522 164-186 (207)
56 PRK10139 serine endoprotease; 69.7 16 0.00034 40.3 8.0 57 42-121 90-148 (455)
57 PF00947 Pico_P2A: Picornaviru 67.1 5.2 0.00011 34.9 2.8 34 638-681 89-122 (127)
58 PRK10139 serine endoprotease; 63.7 23 0.00049 39.1 7.7 26 634-663 207-232 (455)
59 PLN02598 omega-6 fatty acid de 55.9 24 0.00051 38.4 6.0 51 328-380 140-199 (421)
60 PLN02869 fatty aldehyde decarb 55.7 51 0.0011 37.1 8.5 23 351-374 238-260 (620)
61 PRK10942 serine endoprotease; 55.6 33 0.00071 38.1 7.2 24 635-662 229-252 (473)
62 cd03511 Rhizopine-oxygenase-li 49.8 50 0.0011 33.8 7.2 48 328-376 59-114 (285)
63 PF13365 Trypsin_2: Trypsin-li 41.4 10 0.00022 32.6 0.4 21 469-490 2-23 (120)
64 PLN03198 delta6-acyl-lipid des 40.1 44 0.00096 37.5 5.2 43 329-372 252-303 (526)
65 PLN03199 delta6-acyl-lipid des 38.6 72 0.0016 35.5 6.6 11 359-369 215-225 (485)
66 COG5274 CYB5 Cytochrome b invo 38.6 6.3 0.00014 36.1 -1.4 39 344-384 3-41 (164)
67 KOG4232|consensus 38.4 44 0.00095 35.6 4.5 47 329-375 159-213 (430)
68 PF10520 Kua-UEV1_localn: Kua- 38.1 1.6E+02 0.0035 27.8 7.7 41 329-374 99-143 (178)
69 PLN03198 delta6-acyl-lipid des 35.9 1.8E+02 0.0038 32.8 9.1 49 348-400 450-498 (526)
70 KOG0873|consensus 35.8 21 0.00046 35.8 1.7 20 355-374 226-245 (283)
71 PF05579 Peptidase_S32: Equine 30.9 37 0.00079 33.8 2.3 21 638-662 207-227 (297)
72 PF02907 Peptidase_S29: Hepati 29.9 41 0.0009 29.7 2.3 20 638-661 107-126 (148)
73 KOG3011|consensus 29.9 1.3E+02 0.0027 29.7 5.7 24 349-372 221-248 (293)
74 cd03510 Rhizobitoxine-FADS-lik 29.2 1.3E+02 0.0028 28.3 5.7 42 328-370 36-86 (175)
75 PLN02505 omega-6 fatty acid de 28.8 89 0.0019 33.5 5.1 49 329-379 102-159 (381)
76 COG3239 DesA Fatty acid desatu 28.7 1.1E+02 0.0023 32.4 5.7 48 325-374 76-132 (343)
77 PF00944 Peptidase_S3: Alphavi 28.6 28 0.00061 30.6 1.0 24 637-664 104-127 (158)
78 cd03512 Alkane-hydroxylase Alk 26.7 7.4E+02 0.016 25.7 11.9 16 506-521 259-274 (314)
79 PLN02498 omega-3 fatty acid de 25.2 1.2E+02 0.0026 33.2 5.2 53 325-379 162-223 (450)
80 KOG2987|consensus 24.4 19 0.00042 35.3 -0.7 23 349-371 247-269 (324)
81 PF08047 His_leader: Histidine 24.0 45 0.00098 17.3 0.9 9 223-231 8-16 (16)
82 KOG4349|consensus 20.3 1.5E+02 0.0032 25.7 3.7 47 246-297 44-97 (143)
No 1
>KOG1600|consensus
Probab=100.00 E-value=1.8e-70 Score=529.74 Aligned_cols=260 Identities=35% Similarity=0.619 Sum_probs=249.2
Q ss_pred ccceEEEeeechhhHHHHhhhceeEEEecchhhhhhHHHHHHh--hhccccccccC----CCccccc-ccceEEEE----
Q psy6526 151 YKWDIVWFNLIGFAVLHLATLYGYYLMFTGEVKFATFLWSKSV--ISTDSIVEEPS----SMTDTCS-PRPIALKV---- 219 (696)
Q Consensus 151 ~~L~~v~v~vi~~~~c~~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~t~g~H----H~~~~~~-~~~~~~~~---- 219 (696)
.+.+.+|.+++.....+..++|+++..+... +|.|++|++++ ++++|||+|+| ||||||+ |+|+|||+
T Consensus 34 ~~~~~~w~nv~~~~~l~~~a~ygl~~~~~~~-~w~t~~~~~~l~~v~glgITag~HRlwsHRSyKa~kpLr~fla~~~~~ 112 (321)
T KOG1600|consen 34 WKRELVWRNVVLFSALHIVALYGLLAPPFSA-KWETLLFAFFLYAVGGLGITAGYHRLWSHRSYKAPKPLRYFLAYCNTL 112 (321)
T ss_pred hhcchhhhhhHHHHHHHHHHHHHHHHhhccc-hHHHHHHHHHHHHHhhceeeeehhhhcccccccCCccHHHHHHHHHHH
Confidence 5788999999999999999999998874333 39999999988 99999999999 9999999 99999999
Q ss_pred ---------eecCCCCCCCCCCCCCCCCCcCCCcceeehhhhHHhhh--chhhh-hcce-----ecccCceeeehhhhHH
Q psy6526 220 ---------HKDNKDDPKSELTQFKPGNQKSYKWDIVWFNLIGFAVL--HLATL-YGYY-----LMFTGEVKFATLLYYK 282 (696)
Q Consensus 220 ---------~~~hr~hh~~~~~~~dp~~~~~~~~~g~~~~~~g~~~~--~~~~~-~~~~-----l~~d~~~~~~~~~~~~ 282 (696)
+||||.||+++|||+||||++| |||||||||++. ||+.+ +|+. |++||++|| |+|+|.
T Consensus 113 A~Qg~~~~WvrdHR~HHk~tdTD~DPhn~~r----GF~FsHvgWl~~~k~p~~k~~G~~~dvsDL~~dp~v~F-q~k~y~ 187 (321)
T KOG1600|consen 113 AFQGDIIDWVRDHRVHHKFTDTDADPHNPRR----GFWFSHVGWLLDKKHPQVKECGGRLDVSDLEADPVVRF-QRKTYL 187 (321)
T ss_pred hccCChhHHHhhhhhhccccccCCCCCCccc----chhhhhhhhHhccCChHHHhhcCcCChhHhhhCceeee-hhhhHH
Confidence 9999999999999999999999 999999999999 99999 8877 999999999 999999
Q ss_pred HHHHHHHHHHhhhhhhhhcccchhHHHHHHHHHHHHhhhhchhhhhhHHHhhcCCCCCCCCCcchhHHHHHHhhcccccc
Q psy6526 283 TWFTIFSIGIPTLVPYYFWNEGLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHN 362 (696)
Q Consensus 283 ~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~t~~ins~~H~~g~r~~~~~~~~~~~~~~~~~~~Ge~~Hn 362 (696)
+++.++++++|+++|+++|+++...+++.+ ++|++.++|+||+|||+||+||.|||++++.|+||++++++++||||||
T Consensus 188 ~l~~~~~f~lp~~~p~~~~~~~~~~~~~~~-~~r~~~~lh~TwlVNSaaH~~G~rp~d~~~~s~nn~~~s~~t~GEgwHN 266 (321)
T KOG1600|consen 188 LLMLFFCFLLPTLGPMYFWGEGMGLAFYVG-LFRYCIVLHATWLVNSAAHIWGSRPYDTNDTSRNNWWVSILTFGEGWHN 266 (321)
T ss_pred HHHHHHHHHHHHhCcceeeeecchhhhhHH-HHHHHHHHhhHHhhhhHHHHeecccCCCCCCcccceEEEEEEecccccc
Confidence 999999999999999999999998888888 9999999999999999999999999999999999999999999999999
Q ss_pred ccccCChhhhhcccCCcCcchHHHHHHHHhhccccccccCCHHHHHHhhccCCCC
Q psy6526 363 YHHSFPWDYRAAEMGQHFNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDG 417 (696)
Q Consensus 363 ~HH~~p~d~~~~~~~~~~d~~~~~i~~~~~~g~~~~~~~~~~~~~~~~~~~~~d~ 417 (696)
|||+||+|||+||+|+++|+|+.+|++++.+|||+|+|.++.+++++++.+.+|.
T Consensus 267 yHH~Fp~dyr~ge~~y~~d~T~~~I~~~a~lGlA~D~K~~s~~~i~~~~~~~g~~ 321 (321)
T KOG1600|consen 267 YHHAFPWDYRHGEEWYQLDITWYLIDFFAALGLAYDLKTPSEAQIRRMALRRGDG 321 (321)
T ss_pred ccccCchhhHhhhHHhhhCcchHHHHHHHHhhhHhhcCCchHHHHHHHHHhccCC
Confidence 9999999999999999999999999999999999999999999999998887763
No 2
>PLN02220 delta-9 acyl-lipid desaturase
Probab=100.00 E-value=6.7e-55 Score=435.62 Aligned_cols=235 Identities=17% Similarity=0.167 Sum_probs=196.5
Q ss_pred EeeechhhHHHHhhhceeEEEecchhhhhhHHHHHHh--hhccccccccC----CCccccc-ccceEEEE----------
Q psy6526 157 WFNLIGFAVLHLATLYGYYLMFTGEVKFATFLWSKSV--ISTDSIVEEPS----SMTDTCS-PRPIALKV---------- 219 (696)
Q Consensus 157 ~v~vi~~~~c~~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~t~g~H----H~~~~~~-~~~~~~~~---------- 219 (696)
+..++....++..++.+.+ .+ +|.++++.+++ ++++|||+|+| ||||||+ |+|++|++
T Consensus 33 ~~~~~~~~~~h~~~l~~~~-~~----~w~~~~~~~~~~~it~lGiT~GyHRl~sHrsfka~~~l~~~la~~g~~a~Qgs~ 107 (299)
T PLN02220 33 VVRASAVGTVHFLCLLAPF-NY----KWEALRFGLILYIVTGLSITFSYHRNLAHRSFKLPKWLEYPFAYSALFALQGDP 107 (299)
T ss_pred hHHHHHHHHHHHHHHHHHH-hc----cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcCcHHHHHHHHHHHHHHhCCCH
Confidence 3444455567766665443 11 26566665555 88999999999 9999999 99999988
Q ss_pred ---eecCCCCCCCCCCCCCCCCCcCCCcceeehhhhHHhhhchh--hh-----hcceecccCceeeehhhhHHHHHHHHH
Q psy6526 220 ---HKDNKDDPKSELTQFKPGNQKSYKWDIVWFNLIGFAVLHLA--TL-----YGYYLMFTGEVKFATLLYYKTWFTIFS 289 (696)
Q Consensus 220 ---~~~hr~hh~~~~~~~dp~~~~~~~~~g~~~~~~g~~~~~~~--~~-----~~~~l~~d~~~~~~~~~~~~~~~~~~~ 289 (696)
+++||.||+++|||+|||||.+ ||||+|+||++.++. .. ...++++||+++| +++++..
T Consensus 108 ~~Wv~~HR~HH~~sDt~~DPHsp~~----Gfw~sH~gWl~~~~~~~~~~~~~~~~~Dl~~d~~~~~-~~~~~~~------ 176 (299)
T PLN02220 108 IDWVSTHRFHHQFTDSDRDPHSPIE----GFWFSHVLWIFDTSYIREKCGGRDNVMDLKQQWFYRF-LRKTIGL------ 176 (299)
T ss_pred HHHHHHHHHHHHhcCCCCCcccccc----CcHHHHhHhhcCcchhhhhcccccchHHHHhCcchHH-HHHHHHH------
Confidence 9999999999999999999998 999999999997322 11 2234999999999 7776532
Q ss_pred HHHhhhhhhhhcccchhHHHHHHHHHHHHhhhhchhhhhhHHHhhcCCCCCCCCCcchhHHHHHHhhccccccccccCCh
Q psy6526 290 IGIPTLVPYYFWNEGLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPW 369 (696)
Q Consensus 290 ~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~t~~ins~~H~~g~r~~~~~~~~~~~~~~~~~~~Ge~~Hn~HH~~p~ 369 (696)
.++|..+.++++|+ +..++|++++|++.++|+||+|||+||+||+|||++++.|+|+++++++|+|||||||||+||+
T Consensus 177 ~~l~~~~~~~~~gg--~~~~~wg~~~r~~~~~h~tw~VNS~~H~~G~rpy~~~d~srN~~~lallt~GEgwHNnHHafP~ 254 (299)
T PLN02220 177 HILMFWTLLYLWGG--LPYLTWGVGVGGAIGYHVTWLINSACHIWGSRTWKTKDTSRNVWWLSLFTMGESWHNNHHAFES 254 (299)
T ss_pred HHHHHHHHHHHHhH--HHHHHHHHHHHHHHHHhhhhccchhhhcccCCCCCCCCCcchhHHHHHHhccccccccccCCcc
Confidence 22333333445554 4678889999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcccCCcCcchHHHHHHHHhhccccccccCCHHHHHH
Q psy6526 370 DYRAAEMGQHFNITTLVIDFCAERGWAWGLKAASPAMVKY 409 (696)
Q Consensus 370 d~~~~~~~~~~d~~~~~i~~~~~~g~~~~~~~~~~~~~~~ 409 (696)
|||.|.+|+++||++++|++|+++|||+++|.|++++.++
T Consensus 255 sar~G~~w~~~D~t~~~I~~l~~lGLa~dlk~p~~~~~~~ 294 (299)
T PLN02220 255 SARQGLEWWQIDITWYLIRFFEVLGLATDVKLPTEAQKRK 294 (299)
T ss_pred chhhCCcCCCcCchHHHHHHHHHhCCcccccCCcHHHHHh
Confidence 9999999999999999999999999999999988777666
No 3
>COG1398 OLE1 Fatty-acid desaturase [Lipid metabolism]
Probab=100.00 E-value=1.4e-53 Score=402.40 Aligned_cols=242 Identities=24% Similarity=0.347 Sum_probs=204.8
Q ss_pred EeeechhhHHHHhhhceeEE-EecchhhhhhHHHHHHh--hhccccccccC----CCccccc-ccceEEEE---------
Q psy6526 157 WFNLIGFAVLHLATLYGYYL-MFTGEVKFATFLWSKSV--ISTDSIVEEPS----SMTDTCS-PRPIALKV--------- 219 (696)
Q Consensus 157 ~v~vi~~~~c~~~~l~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~t~g~H----H~~~~~~-~~~~~~~~--------- 219 (696)
+..+..+...++.++...+- .++ .+.+.++++++ ++++|||+|+| ||||+++ ++|++|++
T Consensus 20 ~~~v~~f~~~~i~~~l~~~~~~~~---~~~~~i~~l~~y~~~~igIt~G~HRl~sHRa~~~~k~Le~~la~~g~l~~~G~ 96 (289)
T COG1398 20 WNNVLFFIGPLIVAYLAFYPDFFS---WLAELIFTLAYYLIGGIGITLGLHRLWSHRAFKAHKWLEYVLAFWGALTTQGP 96 (289)
T ss_pred HHHHHHHHHHHHHHHHhhcccchH---HHHHHHHHHHHHHhccceeeeehhhhhhhhhcccchHHHHHHHHHHHhhcCCC
Confidence 55555666655544433221 122 24577777777 99999999999 9999999 99999998
Q ss_pred ----eecCCCCCCCCCCCCCC-CCCcCCCcceeehhhhHHhhhchhhh----hcceecccCceeeehhhhHHHHHHHHHH
Q psy6526 220 ----HKDNKDDPKSELTQFKP-GNQKSYKWDIVWFNLIGFAVLHLATL----YGYYLMFTGEVKFATLLYYKTWFTIFSI 290 (696)
Q Consensus 220 ----~~~hr~hh~~~~~~~dp-~~~~~~~~~g~~~~~~g~~~~~~~~~----~~~~l~~d~~~~~~~~~~~~~~~~~~~~ 290 (696)
+++||.||+++|||.|| ++.++ ||||||+||++.++... ...++..|...+| +.+++...+.++.+
T Consensus 97 ~~~W~~~HR~HHr~tDTd~DPh~~~~k----Gfw~shigWm~~~~~~~~~r~~~~~~~kd~~~~~-~~r~~~~~~~l~~i 171 (289)
T COG1398 97 AIEWVGIHRKHHRKTDTDQDPHYDSFK----GFWWSHIGWMLLYSAEAKDRETIQKLGKDIPLDW-QHRNLYLIALLMQI 171 (289)
T ss_pred ceeHHHHHHHhhcccCCCCCCCccccc----cchhhhcceeeecchhhcChhHHHHhCCCchhhH-HHHHHHHHHHHHHH
Confidence 99999999999999999 55555 99999999999944422 2223778888899 88999899999999
Q ss_pred HHhhhhhhhhcccchhHHHHHHHHHHHHhhhhchhhhhhHHHhhcCCCCCCCCCcchhHHHHHHhhccccccccccCChh
Q psy6526 291 GIPTLVPYYFWNEGLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPWD 370 (696)
Q Consensus 291 ~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~t~~ins~~H~~g~r~~~~~~~~~~~~~~~~~~~Ge~~Hn~HH~~p~d 370 (696)
++|.++. +++|+ +.+++|+++.|++.++|+||+|||++|.+|+|||+++|.++|.++++++|+|||||||||+||.|
T Consensus 172 ~~~l~~~-~~~gg--~~gl~~~gv~r~~~~~hat~~VNsl~H~~Gyr~fd~~d~arN~ww~al~t~GEgwHNnHHafp~~ 248 (289)
T COG1398 172 VLPLFIG-YALGG--WLGLIWGGVQRLVLVQHATWCVNSLGHYIGYRPFDCRDTARNCWWVALVTFGEGWHNNHHAFPNS 248 (289)
T ss_pred HHHHHHH-HHhcc--hhHHHHHHHHHHHHHHHHHHHHhhhhhhhcccccCCCCCccceeEEEEeecccccccccccCcch
Confidence 9994444 44433 55699999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccCCcCcchHHHHHHHHhhccccccccCCHHHHHH
Q psy6526 371 YRAAEMGQHFNITTLVIDFCAERGWAWGLKAASPAMVKY 409 (696)
Q Consensus 371 ~~~~~~~~~~d~~~~~i~~~~~~g~~~~~~~~~~~~~~~ 409 (696)
||+|.+|||+|++++.|++++.+|||+++|.++...+.+
T Consensus 249 ar~g~kWwe~D~tw~~I~l~s~lGLA~~~k~~p~~~~~~ 287 (289)
T COG1398 249 ARNGLKWWEFDVTWWIIKLLSLLGLAKVVKLAPKARIGE 287 (289)
T ss_pred hhcCceeEEeccHHHHHHHHHHHhHHHhcccCcHHHHhc
Confidence 999999999999999999999999999999988876654
No 4
>cd03505 Delta9-FADS-like The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide range of bacteria. These enzymes play essential roles in fatty acid metabolism and the regulation of cell membrane fluidity. Acyl-CoA desaturases are the enzymes involved in the CoA-bound desaturation of fatty acids. Mammalian stearoyl-CoA delta-9 desaturase is a key enzyme in the biosynthesis of monounsaturated fatty acids, and in yeast, the delta-9 acyl-CoA desaturase (OLE1) reaction accounts for all de nova unsaturated fatty acid production in Saccharomyces cerevisiae. These non-heme, iron-containing, ER membrane-bound enzymes are part of a three-component enzyme system involving cytochrome b5, cytochrome b5 reductase, and the delta-9 fatty acid desaturase. This complex catalyzes the NADH- and oxygen-dependent i
Probab=100.00 E-value=1.9e-48 Score=359.30 Aligned_cols=157 Identities=33% Similarity=0.560 Sum_probs=149.7
Q ss_pred hhhHHHHHHh--hhccccccccC----CCccccc-ccceEEEE-------------eecCCCCCCCCCCCCCCCCCcCCC
Q psy6526 184 FATFLWSKSV--ISTDSIVEEPS----SMTDTCS-PRPIALKV-------------HKDNKDDPKSELTQFKPGNQKSYK 243 (696)
Q Consensus 184 ~~~~~~~~~~--~~~~~~t~g~H----H~~~~~~-~~~~~~~~-------------~~~hr~hh~~~~~~~dp~~~~~~~ 243 (696)
+.+++|.+++ ++++|+|+|+| ||||||+ |+|++|++ +++||+||+++|||+|||||.+
T Consensus 2 ~~~~~~~~~~~~~~~lgit~G~HRl~aHrsfk~~~~l~~~l~~~g~~a~qgs~~~W~~~HR~HH~~sDt~~DPhs~~~-- 79 (178)
T cd03505 2 WATLVFLVLYYLLTGLGITAGYHRLWAHRSFKAPKPLRIFLAILGSLAGQGSPLWWVADHRLHHRYSDTDGDPHSPKR-- 79 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccCcCcHHHHHHHHHHHHHHcCcCHHHHHHHHHHhhcccCCCCCCCCccc--
Confidence 4566776666 99999999999 9999999 99999998 9999999999999999999998
Q ss_pred cceeehhhhHHhhhchhhhhcceecccCceeeehhhhHHHHHHHHHHHHhhhhhhhhcccchhHHHHHHHHHHHHhhhhc
Q psy6526 244 WDIVWFNLIGFAVLHLATLYGYYLMFTGEVKFATLLYYKTWFTIFSIGIPTLVPYYFWNEGLWISFLICFVTRLVTVLNG 323 (696)
Q Consensus 244 ~~g~~~~~~g~~~~~~~~~~~~~l~~d~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 323 (696)
|||++|+||+ ++++|++.++|+
T Consensus 80 --gf~~~h~gW~--------------------------------------------------------~~~~r~~~~~h~ 101 (178)
T cd03505 80 --GFWFSHVGWL--------------------------------------------------------GGLLRIVLVLHA 101 (178)
T ss_pred --CcHHHHHhhH--------------------------------------------------------HHHHHHHHHHHH
Confidence 9999999998 578899999999
Q ss_pred hhhhhhHHHhhcCCCCCCCCCcchhHHHHHHhhccccccccccCChhhhhcccCCcCcchHHHHHHHHhhccccccc
Q psy6526 324 TWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPWDYRAAEMGQHFNITTLVIDFCAERGWAWGLK 400 (696)
Q Consensus 324 t~~ins~~H~~g~r~~~~~~~~~~~~~~~~~~~Ge~~Hn~HH~~p~d~~~~~~~~~~d~~~~~i~~~~~~g~~~~~~ 400 (696)
||+|||+||+||+|||++++.|+|+++++++|+|||||||||+||+|||.|.+|+++||++++|++|+++|||+++|
T Consensus 102 t~~VNs~~H~~G~r~~~~~~~s~n~~~~~llt~GEg~HNnHHafP~~ar~g~~~~~~D~t~~~I~~l~~lGla~~lk 178 (178)
T cd03505 102 TWLVNSLAHMWGYRPYDTRDTSRNNWWVALLTFGEGWHNNHHAFPGDARNGLKWYQIDPTKWVIRLLEKLGLAWDLK 178 (178)
T ss_pred HHHHHHHHHhcCCCCCCCCCCchhhHHHHHHHccccccccccCCcchhhhCCcCCCcCchHHHHHHHHHcCCcccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999875
No 5
>KOG1600|consensus
Probab=100.00 E-value=1.1e-46 Score=364.47 Aligned_cols=243 Identities=35% Similarity=0.578 Sum_probs=228.8
Q ss_pred hhHHHHHHHHHHHHhhhhchhhhhhHHH-hhcCCCCCCCCCcchhHHHHHH--hhcc-------ccccccccCChhhhhc
Q psy6526 305 LWISFLICFVTRLVTVLNGTWNVNSLAH-IYGYRPFSKEILPTENWFVSFI--GAGE-------GWHNYHHSFPWDYRAA 374 (696)
Q Consensus 305 ~~~~~~~~~~~r~~~~~~~t~~ins~~H-~~g~r~~~~~~~~~~~~~~~~~--~~Ge-------~~Hn~HH~~p~d~~~~ 374 (696)
-|..+.++.++..+..+++| .++| +|.||+|+...+.+ .+++++ +++| +.||+||+|. |+.+|
T Consensus 65 ~w~t~~~~~~l~~v~glgIT----ag~HRlwsHRSyKa~kpLr--~fla~~~~~A~Qg~~~~WvrdHR~HHk~t-dTD~D 137 (321)
T KOG1600|consen 65 KWETLLFAFFLYAVGGLGIT----AGYHRLWSHRSYKAPKPLR--YFLAYCNTLAFQGDIIDWVRDHRVHHKFT-DTDAD 137 (321)
T ss_pred hHHHHHHHHHHHHHhhceee----eehhhhcccccccCCccHH--HHHHHHHHHhccCChhHHHhhhhhhcccc-ccCCC
Confidence 37888888888888888888 9999 99999999999999 777776 7777 6799999999 99999
Q ss_pred ccCCcCcchHHHHHHHHhhccccccccCCHHHHHHhhccCCCCCCCCCCccccccccchhhHHHHHHHHHHHHHHHHHhh
Q psy6526 375 EMGQHFNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGSHRVYSKVDDNNNEYYKTWFTIFSIGIPTLVPYYFWN 454 (696)
Q Consensus 375 ~~~~~~d~~~~~i~~~~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~~~dp~~~~~~~~~~~~~~~~~~~lp~~~~~~~w~ 454 (696)
|+|+.++| +++|+||+.++|+ |+..++ .+..|.+|+++||++|||+|+|.+++++++|+||+++|.++|+
T Consensus 138 ----Phn~~rGF--~FsHvgWl~~~k~--p~~k~~--G~~~dvsDL~~dp~v~Fq~k~y~~l~~~~~f~lp~~~p~~~~~ 207 (321)
T KOG1600|consen 138 ----PHNPRRGF--WFSHVGWLLDKKH--PQVKEC--GGRLDVSDLEADPVVRFQRKTYLLLMLFFCFLLPTLGPMYFWG 207 (321)
T ss_pred ----CCCcccch--hhhhhhhHhccCC--hHHHhh--cCcCChhHhhhCceeeehhhhHHHHHHHHHHHHHHhCcceeee
Confidence 99999999 9999999999998 777776 8899999999999999999999999999999999999999999
Q ss_pred cchhhhhhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCCccccccccceeeec
Q psy6526 455 EGLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPWDYRAAEMGQHFNI 534 (696)
Q Consensus 455 ~~~~~~~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p~~~~~~~~~~~~~~ 534 (696)
++...+++.+ .+|....++.+|.||||||++|.+|++.++.|+|+++++++++|||||||||+||+|||.++.+.++|+
T Consensus 208 ~~~~~~~~~~-~~r~~~~lh~TwlVNSaaH~~G~rp~d~~~~s~nn~~~s~~t~GEgwHNyHH~Fp~dyr~ge~~y~~d~ 286 (321)
T KOG1600|consen 208 EGMGLAFYVG-LFRYCIVLHATWLVNSAAHIWGSRPYDTNDTSRNNWWVSILTFGEGWHNYHHAFPWDYRHGEEWYQLDI 286 (321)
T ss_pred ecchhhhhHH-HHHHHHHHhhHHhhhhHHHHeecccCCCCCCcccceEEEEEEeccccccccccCchhhHhhhHHhhhCc
Confidence 9999999999 899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEEccccccCccccccccCcccccccccc
Q psy6526 535 TTLVIDFCAERGWAWGLKAASPAMVKYRATK 565 (696)
Q Consensus 535 ~~~~i~~~~~l~l~~dlkl~~~~~~~~~v~~ 565 (696)
++.+|+.++.|||++|+|+++.+.+...+..
T Consensus 287 T~~~I~~~a~lGlA~D~K~~s~~~i~~~~~~ 317 (321)
T KOG1600|consen 287 TWYLIDFFAALGLAYDLKTPSEAQIRRMALR 317 (321)
T ss_pred chHHHHHHHHhhhHhhcCCchHHHHHHHHHh
Confidence 9999999999999999999999888766543
No 6
>PLN02220 delta-9 acyl-lipid desaturase
Probab=99.97 E-value=8.1e-34 Score=284.09 Aligned_cols=228 Identities=20% Similarity=0.250 Sum_probs=187.9
Q ss_pred hHHHHHHHHHHHHhhhhchhhhhhHHH-hhcCCCCCCCCCcchhHHHHHH--hhcc-------ccccccccCChhhhhcc
Q psy6526 306 WISFLICFVTRLVTVLNGTWNVNSLAH-IYGYRPFSKEILPTENWFVSFI--GAGE-------GWHNYHHSFPWDYRAAE 375 (696)
Q Consensus 306 ~~~~~~~~~~r~~~~~~~t~~ins~~H-~~g~r~~~~~~~~~~~~~~~~~--~~Ge-------~~Hn~HH~~p~d~~~~~ 375 (696)
|..+.+..+..++..+++| .++| +|.||+|++....+ .+++++ .+|| +.|+.||+|. |...|
T Consensus 55 w~~~~~~~~~~~it~lGiT----~GyHRl~sHrsfka~~~l~--~~la~~g~~a~Qgs~~~Wv~~HR~HH~~s-Dt~~D- 126 (299)
T PLN02220 55 WEALRFGLILYIVTGLSIT----FSYHRNLAHRSFKLPKWLE--YPFAYSALFALQGDPIDWVSTHRFHHQFT-DSDRD- 126 (299)
T ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHhhcCcCcHHHH--HHHHHHHHHHhCCCHHHHHHHHHHHHHhc-CCCCC-
Confidence 4555555555555556655 9999 99999999988877 555555 6666 6799999999 99999
Q ss_pred cCCcCcchHHHHHHHHhhccccccccCCHHHHHHhhccCCCCCCCCCCccccccccchhhHHHHHHHHHHHHHHHHHhhc
Q psy6526 376 MGQHFNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGSHRVYSKVDDNNNEYYKTWFTIFSIGIPTLVPYYFWNE 455 (696)
Q Consensus 376 ~~~~~d~~~~~i~~~~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~~~dp~~~~~~~~~~~~~~~~~~~lp~~~~~~~w~~ 455 (696)
|+||.++| +++++||..+.+. + .++..+..+.+|+.+||+++||+|+|...++.+++++ +.|++
T Consensus 127 ---PHsp~~Gf--w~sH~gWl~~~~~--~---~~~~~~~~~~~Dl~~d~~~~~~~~~~~~~~l~~~~~~------~~~gg 190 (299)
T PLN02220 127 ---PHSPIEGF--WFSHVLWIFDTSY--I---REKCGGRDNVMDLKQQWFYRFLRKTIGLHILMFWTLL------YLWGG 190 (299)
T ss_pred ---ccccccCc--HHHHhHhhcCcch--h---hhhcccccchHHHHhCcchHHHHHHHHHHHHHHHHHH------HHHhH
Confidence 99999999 8999999986543 1 1222456688999999999999998876655544433 33432
Q ss_pred chhhhhhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCCccccccccceeeecc
Q psy6526 456 GLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPWDYRAAEMGQHFNIT 535 (696)
Q Consensus 456 ~~~~~~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p~~~~~~~~~~~~~~~ 535 (696)
...+.+++++|+..+++.+|.|||+||++|++||+.++.++|+..++++++||||||+||+||.+++.+..+.++|++
T Consensus 191 --~~~~~wg~~~r~~~~~h~tw~VNS~~H~~G~rpy~~~d~srN~~~lallt~GEgwHNnHHafP~sar~G~~w~~~D~t 268 (299)
T PLN02220 191 --LPYLTWGVGVGGAIGYHVTWLINSACHIWGSRTWKTKDTSRNVWWLSLFTMGESWHNNHHAFESSARQGLEWWQIDIT 268 (299)
T ss_pred --HHHHHHHHHHHHHHHHhhhhccchhhhcccCCCCCCCCCcchhHHHHHHhccccccccccCCccchhhCCcCCCcCch
Confidence 234566777899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEccccccCccccccccCcccc
Q psy6526 536 TLVIDFCAERGWAWGLKAASPAMV 559 (696)
Q Consensus 536 ~~~i~~~~~l~l~~dlkl~~~~~~ 559 (696)
+++|+.++.+||++|+|++++...
T Consensus 269 ~~~I~~l~~lGLa~dlk~p~~~~~ 292 (299)
T PLN02220 269 WYLIRFFEVLGLATDVKLPTEAQK 292 (299)
T ss_pred HHHHHHHHHhCCcccccCCcHHHH
Confidence 999999999999999998776544
No 7
>COG1398 OLE1 Fatty-acid desaturase [Lipid metabolism]
Probab=99.97 E-value=2.3e-32 Score=258.72 Aligned_cols=253 Identities=25% Similarity=0.370 Sum_probs=206.0
Q ss_pred HHHHHHHHHhhhhhhhhccc---chhHHHHHHHHHHHHhhhhchhhhhhHHH-hhcCCCCCCCCCcchhHHHHHH--hhc
Q psy6526 284 WFTIFSIGIPTLVPYYFWNE---GLWISFLICFVTRLVTVLNGTWNVNSLAH-IYGYRPFSKEILPTENWFVSFI--GAG 357 (696)
Q Consensus 284 ~~~~~~~~~p~~~~~~~~~~---~~~~~~~~~~~~r~~~~~~~t~~ins~~H-~~g~r~~~~~~~~~~~~~~~~~--~~G 357 (696)
+..++.+..|.+..+.++-. +++.-++...+...+...++| .+.| +|.||+|+.....+ .++++. ..+
T Consensus 20 ~~~v~~f~~~~i~~~l~~~~~~~~~~~~~i~~l~~y~~~~igIt----~G~HRl~sHRa~~~~k~Le--~~la~~g~l~~ 93 (289)
T COG1398 20 WNNVLFFIGPLIVAYLAFYPDFFSWLAELIFTLAYYLIGGIGIT----LGLHRLWSHRAFKAHKWLE--YVLAFWGALTT 93 (289)
T ss_pred HHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhccceee----eehhhhhhhhhcccchHHH--HHHHHHHHhhc
Confidence 55555666666655555433 334444555555555556666 9999 89999999998887 555555 333
Q ss_pred c-------ccccccccCChhhhhcccCCc-CcchHHHHHHHHhhccccccccCCHHHHHHhhccCCCCCCCCCCcccccc
Q psy6526 358 E-------GWHNYHHSFPWDYRAAEMGQH-FNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGSHRVYSKVDDNN 429 (696)
Q Consensus 358 e-------~~Hn~HH~~p~d~~~~~~~~~-~d~~~~~i~~~~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~~~dp~~~~~ 429 (696)
| +-|+-||+|. |+..| | +|..++| ..+++||+...+. ++ .-..+..+...|...+||
T Consensus 94 ~G~~~~W~~~HR~HHr~t-DTd~D----Ph~~~~kGf--w~shigWm~~~~~------~~--~~r~~~~~~~kd~~~~~~ 158 (289)
T COG1398 94 QGPAIEWVGIHRKHHRKT-DTDQD----PHYDSFKGF--WWSHIGWMLLYSA------EA--KDRETIQKLGKDIPLDWQ 158 (289)
T ss_pred CCCceeHHHHHHHhhccc-CCCCC----CCccccccc--hhhhcceeeecch------hh--cChhHHHHhCCCchhhHH
Confidence 4 7799999999 99999 7 8889999 8999999986543 11 122245577899999999
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHhhcchhhhhhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeec
Q psy6526 430 NEYYKTWFTIFSIGIPTLVPYYFWNEGLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAG 509 (696)
Q Consensus 430 ~~~~~~~~~~~~~~lp~~~~~~~w~~~~~~~~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~G 509 (696)
+|++...++++++++|.+++. .++ .+.++.+.|+.|.-.+.+.+|+|||++|-+|+++|+.++.++|.+.++++++|
T Consensus 159 ~r~~~~~~~l~~i~~~l~~~~-~~g--g~~gl~~~gv~r~~~~~hat~~VNsl~H~~Gyr~fd~~d~arN~ww~al~t~G 235 (289)
T COG1398 159 HRNLYLIALLMQIVLPLFIGY-ALG--GWLGLIWGGVQRLVLVQHATWCVNSLGHYIGYRPFDCRDTARNCWWVALVTFG 235 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-Hhc--chhHHHHHHHHHHHHHHHHHHHHhhhhhhhcccccCCCCCccceeEEEEeecc
Confidence 999999999999999955544 433 34559999999999999999999999999999999999999999999999999
Q ss_pred CCCcCCCCCCCccccccccceeeecceEEEccccccCccccccccCccccc
Q psy6526 510 EGWHNYHHSFPWDYRAAEMGQHFNITTLVIDFCAERGWAWGLKAASPAMVK 560 (696)
Q Consensus 510 eg~~n~~~~~p~~~~~~~~~~~~~~~~~~i~~~~~l~l~~dlkl~~~~~~~ 560 (696)
|||||+||+||.|+|.+..+.++|++++.|..+..+||++++|+++...+.
T Consensus 236 EgwHNnHHafp~~ar~g~kWwe~D~tw~~I~l~s~lGLA~~~k~~p~~~~~ 286 (289)
T COG1398 236 EGWHNNHHAFPNSARNGLKWWEFDVTWWIIKLLSLLGLAKVVKLAPKARIG 286 (289)
T ss_pred cccccccccCcchhhcCceeEEeccHHHHHHHHHHHhHHHhcccCcHHHHh
Confidence 999999999999999999999999999999999999999999998876554
No 8
>KOG3627|consensus
Probab=99.94 E-value=9.5e-27 Score=237.01 Aligned_cols=220 Identities=34% Similarity=0.576 Sum_probs=158.3
Q ss_pred HHHhhcchhhh---hhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCC---ccc
Q psy6526 450 YYFWNEGLWIS---FLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFP---WDY 523 (696)
Q Consensus 450 ~~~w~~~~~~~---~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p---~~~ 523 (696)
.+||+.++... .+.|| |++|+++|+| |||||+.... .+ ...+.+|+..-+.....+ ...
T Consensus 23 ~~Pw~~~l~~~~~~~~~Cg----gsli~~~~vl-taaHC~~~~~-------~~---~~~V~~G~~~~~~~~~~~~~~~~~ 87 (256)
T KOG3627|consen 23 SFPWQVSLQYGGNGRHLCG----GSLISPRWVL-TAAHCVKGAS-------AS---LYTVRLGEHDINLSVSEGEEQLVG 87 (256)
T ss_pred CCCCEEEEEECCCcceeee----eEEeeCCEEE-EChhhCCCCC-------Cc---ceEEEECccccccccccCchhhhc
Confidence 45677766643 56999 9999999999 9999986543 01 223455652111110111 111
Q ss_pred cccccceeeecceEEEccc-cccCccccccccCcccccccccccCCCCcc----cccCcccEEEecccccCC-CCccccc
Q psy6526 524 RAAEMGQHFNITTLVIDFC-AERGWAWGLKAASPAMVKYRATKRGDGSHR----VYSKRTGTVVGWGRVEES-GQIASDL 597 (696)
Q Consensus 524 ~~~~~~~~~~~~~~~i~~~-~~l~l~~dlkl~~~~~~~~~v~~~~~~~~~----~~~~~~~~v~GWG~~~~~-~~~~~~L 597 (696)
.+.+...|.++.... .. +++++ |++.+++.+++.++|+|++... ...+..|.++|||++... ...+..|
T Consensus 88 ~v~~~i~H~~y~~~~--~~~nDial---l~l~~~v~~~~~i~piclp~~~~~~~~~~~~~~~v~GWG~~~~~~~~~~~~L 162 (256)
T KOG3627|consen 88 DVEKIIVHPNYNPRT--LENNDIAL---LRLSEPVTFSSHIQPICLPSSADPYFPPGGTTCLVSGWGRTESGGGPLPDTL 162 (256)
T ss_pred eeeEEEECCCCCCCC--CCCCCEEE---EEECCCcccCCcccccCCCCCcccCCCCCCCEEEEEeCCCcCCCCCCCCcee
Confidence 111111222221111 11 45555 8999999999999999997443 345589999999987764 3467889
Q ss_pred eeeeeeeecccccccCCCCCCCCCCCeEEecccCCCCCCCCCCCCceeEEEecCCeEEEEEEEEcCCC-CCCCCCCcEEE
Q psy6526 598 RATQVPVMSNQECRQFPGFEPKLTGNMMCAGYVEGGKDSCQGDSGGALLMEDLDGRFLIAGVVSWGIG-CARPNSPGVYT 676 (696)
Q Consensus 598 ~~~~v~v~~~~~C~~~~~~~~~i~~~~iCa~~~~~~~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g~~-c~~~~~p~vyt 676 (696)
|++++++++.++|+..+.....++++++||+...++.++|+|||||||++.. +++++++||+|||.+ |...+.|++||
T Consensus 163 ~~~~v~i~~~~~C~~~~~~~~~~~~~~~Ca~~~~~~~~~C~GDSGGPLv~~~-~~~~~~~GivS~G~~~C~~~~~P~vyt 241 (256)
T KOG3627|consen 163 QEVDVPIISNSECRRAYGGLGTITDTMLCAGGPEGGKDACQGDSGGPLVCED-NGRWVLVGIVSWGSGGCGQPNYPGVYT 241 (256)
T ss_pred EEEEEeEcChhHhcccccCccccCCCEEeeCccCCCCccccCCCCCeEEEee-CCcEEEEEEEEecCCCCCCCCCCeEEe
Confidence 9999999999999988654335667899998756677899999999999998 448999999999998 99877899999
Q ss_pred eCcccHHHHHHhhc
Q psy6526 677 RVNHYMEWIQNNTR 690 (696)
Q Consensus 677 ~V~~~~~WI~~~~~ 690 (696)
||+.|.+||++.+.
T Consensus 242 ~V~~y~~WI~~~~~ 255 (256)
T KOG3627|consen 242 RVSSYLDWIKENIG 255 (256)
T ss_pred EhHHhHHHHHHHhc
Confidence 99999999999875
No 9
>cd00190 Tryp_SPc Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad residues.
Probab=99.94 E-value=1.2e-26 Score=232.48 Aligned_cols=218 Identities=33% Similarity=0.577 Sum_probs=160.5
Q ss_pred HHHhhcchhh--hhhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCCccccccc
Q psy6526 450 YYFWNEGLWI--SFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPWDYRAAE 527 (696)
Q Consensus 450 ~~~w~~~~~~--~~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p~~~~~~~ 527 (696)
.+||..++.. ..+.|+ |+||+++||| |||||+...+ . .-..+.+|+...+........+.+.+
T Consensus 11 ~~Pw~v~i~~~~~~~~C~----GtlIs~~~VL-TaAhC~~~~~-------~---~~~~v~~g~~~~~~~~~~~~~~~v~~ 75 (232)
T cd00190 11 SFPWQVSLQYTGGRHFCG----GSLISPRWVL-TAAHCVYSSA-------P---SNYTVRLGSHDLSSNEGGGQVIKVKK 75 (232)
T ss_pred CCCCEEEEEccCCcEEEE----EEEeeCCEEE-ECHHhcCCCC-------C---ccEEEEeCcccccCCCCceEEEEEEE
Confidence 3566666653 356777 9999999999 9999985432 0 11234566522211111122233333
Q ss_pred cceeeecceEEEccccccCccccccccCcccccccccccCCCCc--ccccCcccEEEecccccCCCCccccceeeeeeee
Q psy6526 528 MGQHFNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGSH--RVYSKRTGTVVGWGRVEESGQIASDLRATQVPVM 605 (696)
Q Consensus 528 ~~~~~~~~~~~i~~~~~l~l~~dlkl~~~~~~~~~v~~~~~~~~--~~~~~~~~~v~GWG~~~~~~~~~~~L~~~~v~v~ 605 (696)
...|.++... ..-.+++| |||.++......++|+|++.. ....+..+.++|||........+..+++.++.++
T Consensus 76 ~~~hp~y~~~--~~~~DiAl---l~L~~~~~~~~~v~picl~~~~~~~~~~~~~~~~G~g~~~~~~~~~~~~~~~~~~~~ 150 (232)
T cd00190 76 VIVHPNYNPS--TYDNDIAL---LKLKRPVTLSDNVRPICLPSSGYNLPAGTTCTVSGWGRTSEGGPLPDVLQEVNVPIV 150 (232)
T ss_pred EEECCCCCCC--CCcCCEEE---EEECCcccCCCcccceECCCccccCCCCCEEEEEeCCcCCCCCCCCceeeEEEeeeE
Confidence 3333222221 12356666 899999999899999998877 6677899999999987765456778999999999
Q ss_pred cccccccCCCCCCCCCCCeEEecccCCCCCCCCCCCCceeEEEecCCeEEEEEEEEcCCCCCCCCCCcEEEeCcccHHHH
Q psy6526 606 SNQECRQFPGFEPKLTGNMMCAGYVEGGKDSCQGDSGGALLMEDLDGRFLIAGVVSWGIGCARPNSPGVYTRVNHYMEWI 685 (696)
Q Consensus 606 ~~~~C~~~~~~~~~i~~~~iCa~~~~~~~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g~~c~~~~~p~vyt~V~~~~~WI 685 (696)
+.++|+..+.....+.++++|++......+.|.|||||||++.. +++++|+||+|+|..|...+.|++|++|+.|++||
T Consensus 151 ~~~~C~~~~~~~~~~~~~~~C~~~~~~~~~~c~gdsGgpl~~~~-~~~~~lvGI~s~g~~c~~~~~~~~~t~v~~~~~WI 229 (232)
T cd00190 151 SNAECKRAYSYGGTITDNMLCAGGLEGGKDACQGDSGGPLVCND-NGRGVLVGIVSWGSGCARPNYPGVYTRVSSYLDWI 229 (232)
T ss_pred CHHHhhhhccCcccCCCceEeeCCCCCCCccccCCCCCcEEEEe-CCEEEEEEEEehhhccCCCCCCCEEEEcHHhhHHh
Confidence 99999987543246789999998654467899999999999988 69999999999999998767899999999999999
Q ss_pred HHh
Q psy6526 686 QNN 688 (696)
Q Consensus 686 ~~~ 688 (696)
+++
T Consensus 230 ~~~ 232 (232)
T cd00190 230 QKT 232 (232)
T ss_pred hcC
Confidence 874
No 10
>cd03505 Delta9-FADS-like The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide range of bacteria. These enzymes play essential roles in fatty acid metabolism and the regulation of cell membrane fluidity. Acyl-CoA desaturases are the enzymes involved in the CoA-bound desaturation of fatty acids. Mammalian stearoyl-CoA delta-9 desaturase is a key enzyme in the biosynthesis of monounsaturated fatty acids, and in yeast, the delta-9 acyl-CoA desaturase (OLE1) reaction accounts for all de nova unsaturated fatty acid production in Saccharomyces cerevisiae. These non-heme, iron-containing, ER membrane-bound enzymes are part of a three-component enzyme system involving cytochrome b5, cytochrome b5 reductase, and the delta-9 fatty acid desaturase. This complex catalyzes the NADH- and oxygen-dependent i
Probab=99.90 E-value=3.6e-26 Score=211.34 Aligned_cols=160 Identities=34% Similarity=0.586 Sum_probs=140.2
Q ss_pred HHHHHHhhhhchhhhhhHHH-hhcCCCCCCCCCcchhHHHHHH--hhcc-------ccccccccCChhhhhcccCCcCcc
Q psy6526 313 FVTRLVTVLNGTWNVNSLAH-IYGYRPFSKEILPTENWFVSFI--GAGE-------GWHNYHHSFPWDYRAAEMGQHFNI 382 (696)
Q Consensus 313 ~~~r~~~~~~~t~~ins~~H-~~g~r~~~~~~~~~~~~~~~~~--~~Ge-------~~Hn~HH~~p~d~~~~~~~~~~d~ 382 (696)
++..++..++.| .++| +|.||+|++....+ .+++++ ..|| ..|+.||+|. |...| |++|
T Consensus 9 ~~~~~~~~lgit----~G~HRl~aHrsfk~~~~l~--~~l~~~g~~a~qgs~~~W~~~HR~HH~~s-Dt~~D----Phs~ 77 (178)
T cd03505 9 VLYYLLTGLGIT----AGYHRLWAHRSFKAPKPLR--IFLAILGSLAGQGSPLWWVADHRLHHRYS-DTDGD----PHSP 77 (178)
T ss_pred HHHHHHHHHHHH----HHHHHHHhhccCcCcHHHH--HHHHHHHHHHcCcCHHHHHHHHHHhhccc-CCCCC----CCCc
Confidence 344444555666 9999 99999999887777 555555 5566 6799999999 88889 9999
Q ss_pred hHHHHHHHHhhccccccccCCHHHHHHhhccCCCCCCCCCCccccccccchhhHHHHHHHHHHHHHHHHHhhcchhhhhh
Q psy6526 383 TTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGSHRVYSKVDDNNNEYYKTWFTIFSIGIPTLVPYYFWNEGLWISFL 462 (696)
Q Consensus 383 ~~~~i~~~~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~~~dp~~~~~~~~~~~~~~~~~~~lp~~~~~~~w~~~~~~~~~ 462 (696)
.+.| +.+++||.
T Consensus 78 ~~gf--~~~h~gW~------------------------------------------------------------------ 89 (178)
T cd03505 78 KRGF--WFSHVGWL------------------------------------------------------------------ 89 (178)
T ss_pred ccCc--HHHHHhhH------------------------------------------------------------------
Confidence 9999 89999997
Q ss_pred hhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCCccccccccceeeecceEEEccc
Q psy6526 463 ICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPWDYRAAEMGQHFNITTLVIDFC 542 (696)
Q Consensus 463 ~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p~~~~~~~~~~~~~~~~~~i~~~ 542 (696)
++++|+..+++.+|.|||+||.+|++||+.+++++|+..++++++||||||+||+||.|++.+..+.++|+++++|+.+
T Consensus 90 -~~~~r~~~~~h~t~~VNs~~H~~G~r~~~~~~~s~n~~~~~llt~GEg~HNnHHafP~~ar~g~~~~~~D~t~~~I~~l 168 (178)
T cd03505 90 -GGLLRIVLVLHATWLVNSLAHMWGYRPYDTRDTSRNNWWVALLTFGEGWHNNHHAFPGDARNGLKWYQIDPTKWVIRLL 168 (178)
T ss_pred -HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCchhhHHHHHHHccccccccccCCcchhhhCCcCCCcCchHHHHHHH
Confidence 4555666778889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCcccccc
Q psy6526 543 AERGWAWGLK 552 (696)
Q Consensus 543 ~~l~l~~dlk 552 (696)
+++||++|+|
T Consensus 169 ~~lGla~~lk 178 (178)
T cd03505 169 EKLGLAWDLK 178 (178)
T ss_pred HHcCCcccCC
Confidence 9999999875
No 11
>smart00020 Tryp_SPc Trypsin-like serine protease. Many of these are synthesised as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. A few, however, are active as single chain molecules, and others are inactive due to substitutions of the catalytic triad residues.
Probab=99.89 E-value=3.2e-23 Score=207.31 Aligned_cols=211 Identities=35% Similarity=0.610 Sum_probs=153.6
Q ss_pred HHhhcchhhh--hhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCC-ccccccc
Q psy6526 451 YFWNEGLWIS--FLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFP-WDYRAAE 527 (696)
Q Consensus 451 ~~w~~~~~~~--~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p-~~~~~~~ 527 (696)
+||...+... .+.|. |+||++++|| |||||+.... ... ..+.+|.. +...... ...++.+
T Consensus 13 ~Pw~~~i~~~~~~~~C~----GtlIs~~~VL-TaahC~~~~~-------~~~---~~v~~g~~--~~~~~~~~~~~~v~~ 75 (229)
T smart00020 13 FPWQVSLQYRGGRHFCG----GSLISPRWVL-TAAHCVYGSD-------PSN---IRVRLGSH--DLSSGEEGQVIKVSK 75 (229)
T ss_pred CCcEEEEEEcCCCcEEE----EEEecCCEEE-ECHHHcCCCC-------Ccc---eEEEeCcc--cCCCCCCceEEeeEE
Confidence 5666555433 56677 9999999999 9999986543 001 12455651 1111100 2333444
Q ss_pred cceeeecceEEEccccccCccccccccCcccccccccccCCCCc--ccccCcccEEEecccccC-CCCccccceeeeeee
Q psy6526 528 MGQHFNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGSH--RVYSKRTGTVVGWGRVEE-SGQIASDLRATQVPV 604 (696)
Q Consensus 528 ~~~~~~~~~~~i~~~~~l~l~~dlkl~~~~~~~~~v~~~~~~~~--~~~~~~~~~v~GWG~~~~-~~~~~~~L~~~~v~v 604 (696)
...+.++.. .....+++| |+|..++.+...++|+|++.. ....+..+.++|||.... .+..+..++..++.+
T Consensus 76 ~~~~p~~~~--~~~~~DiAl---l~L~~~i~~~~~~~pi~l~~~~~~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~ 150 (229)
T smart00020 76 VIIHPNYNP--STYDNDIAL---LKLKSPVTLSDNVRPICLPSSNYNVPAGTTCTVSGWGRTSEGAGSLPDTLQEVNVPI 150 (229)
T ss_pred EEECCCCCC--CCCcCCEEE---EEECcccCCCCceeeccCCCcccccCCCCEEEEEeCCCCCCCCCcCCCEeeEEEEEE
Confidence 433433332 123345666 899999888889999998876 566788999999998664 234456799999999
Q ss_pred ecccccccCCCCCCCCCCCeEEecccCCCCCCCCCCCCceeEEEecCCeEEEEEEEEcCCCCCCCCCCcEEEeCcccHHH
Q psy6526 605 MSNQECRQFPGFEPKLTGNMMCAGYVEGGKDSCQGDSGGALLMEDLDGRFLIAGVVSWGIGCARPNSPGVYTRVNHYMEW 684 (696)
Q Consensus 605 ~~~~~C~~~~~~~~~i~~~~iCa~~~~~~~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g~~c~~~~~p~vyt~V~~~~~W 684 (696)
++.+.|...+.....+.++++|++......+.|.|||||||++.. + +|+|+||+|+|..|...+.|++|+||.+|++|
T Consensus 151 ~~~~~C~~~~~~~~~~~~~~~C~~~~~~~~~~c~gdsG~pl~~~~-~-~~~l~Gi~s~g~~C~~~~~~~~~~~i~~~~~W 228 (229)
T smart00020 151 VSNATCRRAYSGGGAITDNMLCAGGLEGGKDACQGDSGGPLVCND-G-RWVLVGIVSWGSGCARPGKPGVYTRVSSYLDW 228 (229)
T ss_pred eCHHHhhhhhccccccCCCcEeecCCCCCCcccCCCCCCeeEEEC-C-CEEEEEEEEECCCCCCCCCCCEEEEecccccc
Confidence 999999987543335788999998654467899999999999987 4 99999999999999867789999999999999
Q ss_pred H
Q psy6526 685 I 685 (696)
Q Consensus 685 I 685 (696)
|
T Consensus 229 I 229 (229)
T smart00020 229 I 229 (229)
T ss_pred C
Confidence 8
No 12
>cd00190 Tryp_SPc Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad residues.
Probab=99.85 E-value=1.6e-20 Score=187.92 Aligned_cols=146 Identities=35% Similarity=0.548 Sum_probs=116.7
Q ss_pred eecCeecCCCCCceEEEEEeC-CceEEEEEEcccceEEeccccccccCCCcceEEEEeeeecccccccceEEEEEEEEEE
Q psy6526 19 IVGGWTTEVNEYPWVVALEQA-GKFFCGGTLISDRYVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIETRRVVKVLT 97 (696)
Q Consensus 19 IvgG~~a~~~~~Pw~v~l~~~-~~~~CgGtLIs~~~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~~~v~~i~~ 97 (696)
|+||+++..++|||+|++... ..+.|+||||++++|||||||+.... .....+.+|....... +...+.+.|.++++
T Consensus 1 i~~G~~~~~~~~Pw~v~i~~~~~~~~C~GtlIs~~~VLTaAhC~~~~~-~~~~~v~~g~~~~~~~-~~~~~~~~v~~~~~ 78 (232)
T cd00190 1 IVGGSEAKIGSFPWQVSLQYTGGRHFCGGSLISPRWVLTAAHCVYSSA-PSNYTVRLGSHDLSSN-EGGGQVIKVKKVIV 78 (232)
T ss_pred CcCCeECCCCCCCCEEEEEccCCcEEEEEEEeeCCEEEECHHhcCCCC-CccEEEEeCcccccCC-CCceEEEEEEEEEE
Confidence 689999999999999999876 67899999999999999999997532 4567788887665332 23567889999999
Q ss_pred cCCCCCCCCCCCCCceEEEEECCCCccCcccCCCCCCCCC--CCcc---------cccccCcCCccceEEEeeechhhHH
Q psy6526 98 HPKYNAQGAKSHDHDIALLKLDAPLEFKPTVSPDNKDDPK--SELT---------QFKPGNQKSYKWDIVWFNLIGFAVL 166 (696)
Q Consensus 98 hp~y~~~~~~~~~~DIALl~L~~~v~~~~~v~pi~Lp~~~--~~~~---------~~~~~~~~~~~L~~v~v~vi~~~~c 166 (696)
||+|+.. ...+|||||||++|+.+++.++|||||... ...+ ........+..++...+.++....|
T Consensus 79 hp~y~~~---~~~~DiAll~L~~~~~~~~~v~picl~~~~~~~~~~~~~~~~G~g~~~~~~~~~~~~~~~~~~~~~~~~C 155 (232)
T cd00190 79 HPNYNPS---TYDNDIALLKLKRPVTLSDNVRPICLPSSGYNLPAGTTCTVSGWGRTSEGGPLPDVLQEVNVPIVSNAEC 155 (232)
T ss_pred CCCCCCC---CCcCCEEEEEECCcccCCCcccceECCCccccCCCCCEEEEEeCCcCCCCCCCCceeeEEEeeeECHHHh
Confidence 9999875 578999999999999999999999999863 2111 1111113456789999999999999
Q ss_pred HHh
Q psy6526 167 HLA 169 (696)
Q Consensus 167 ~~~ 169 (696)
...
T Consensus 156 ~~~ 158 (232)
T cd00190 156 KRA 158 (232)
T ss_pred hhh
Confidence 764
No 13
>PF00089 Trypsin: Trypsin; InterPro: IPR001254 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine proteases belong to the MEROPS peptidase family S1 (chymotrypsin family, clan PA(S))and to peptidase family S6 (Hap serine peptidases). The chymotrypsin family is almost totally confined to animals, although trypsin-like enzymes are found in actinomycetes of the genera Streptomyces and Saccharopolyspora, and in the fungus Fusarium oxysporum []. The enzymes are inherently secreted, being synthesised with a signal peptide that targets them to the secretory pathway. Animal enzymes are either secreted directly, packaged into vesicles for regulated secretion, or are retained in leukocyte granules []. The Hap family, 'Haemophilus adhesion and penetration', are proteins that play a role in the interaction with human epithelial cells. The serine protease activity is localized at the N-terminal domain, whereas the binding domain is in the C-terminal region. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1SPJ_A 1A5I_A 2ZGH_A 2ZKS_A 2ZGJ_A 2ZGC_A 2ODP_A 2I6Q_A 2I6S_A 2ODQ_A ....
Probab=99.84 E-value=1.7e-21 Score=193.32 Aligned_cols=201 Identities=31% Similarity=0.575 Sum_probs=144.6
Q ss_pred HHhhcchhh-h-hhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCC--cccccc
Q psy6526 451 YFWNEGLWI-S-FLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFP--WDYRAA 526 (696)
Q Consensus 451 ~~w~~~~~~-~-~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p--~~~~~~ 526 (696)
+||...+.. . .+.|+ |+||+++||| |||||+... +... +.+|. .......+ ..+.+.
T Consensus 12 ~p~~v~i~~~~~~~~C~----G~li~~~~vL-TaahC~~~~---------~~~~---v~~g~--~~~~~~~~~~~~~~v~ 72 (220)
T PF00089_consen 12 FPWVVSIRYSNGRFFCT----GTLISPRWVL-TAAHCVDGA---------SDIK---VRLGT--YSIRNSDGSEQTIKVS 72 (220)
T ss_dssp STTEEEEEETTTEEEEE----EEEEETTEEE-EEGGGHTSG---------GSEE---EEESE--SBTTSTTTTSEEEEEE
T ss_pred CCeEEEEeeCCCCeeEe----EEeccccccc-ccccccccc---------cccc---ccccc--cccccccccccccccc
Confidence 455555542 2 56677 9999999999 999999651 1111 24443 11111111 122222
Q ss_pred cccee--eecceEEEccccccCccccccccCcccccccccccCCCCcc--cccCcccEEEecccccCCCCccccceeeee
Q psy6526 527 EMGQH--FNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGSHR--VYSKRTGTVVGWGRVEESGQIASDLRATQV 602 (696)
Q Consensus 527 ~~~~~--~~~~~~~i~~~~~l~l~~dlkl~~~~~~~~~v~~~~~~~~~--~~~~~~~~v~GWG~~~~~~~~~~~L~~~~v 602 (696)
....| ++... ...+++| ||+.++..+.+.++|++++... ...+..+.+.|||.....+ .+..++...+
T Consensus 73 ~~~~h~~~~~~~----~~~DiAl---l~L~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~-~~~~~~~~~~ 144 (220)
T PF00089_consen 73 KIIIHPKYDPST----YDNDIAL---LKLDRPITFGDNIQPICLPSAGSDPNVGTSCIVVGWGRTSDNG-YSSNLQSVTV 144 (220)
T ss_dssp EEEEETTSBTTT----TTTSEEE---EEESSSSEHBSSBEESBBTSTTHTTTTTSEEEEEESSBSSTTS-BTSBEEEEEE
T ss_pred cccccccccccc----ccccccc---ccccccccccccccccccccccccccccccccccccccccccc-cccccccccc
Confidence 22222 11111 1345666 8999998889999999988743 3678899999999866544 5667999999
Q ss_pred eeecccccccCCCCCCCCCCCeEEecccCCCCCCCCCCCCceeEEEecCCeEEEEEEEEcCCCCCCCCCCcEEEeCcccH
Q psy6526 603 PVMSNQECRQFPGFEPKLTGNMMCAGYVEGGKDSCQGDSGGALLMEDLDGRFLIAGVVSWGIGCARPNSPGVYTRVNHYM 682 (696)
Q Consensus 603 ~v~~~~~C~~~~~~~~~i~~~~iCa~~~~~~~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g~~c~~~~~p~vyt~V~~~~ 682 (696)
.+++.+.|+..+ ...+.++++|++.. +..+.|.|||||||++.+. +|+||+|.+.+|...+.|++|+||+.|+
T Consensus 145 ~~~~~~~c~~~~--~~~~~~~~~c~~~~-~~~~~~~g~sG~pl~~~~~----~lvGI~s~~~~c~~~~~~~v~~~v~~~~ 217 (220)
T PF00089_consen 145 PVVSRKTCRSSY--NDNLTPNMICAGSS-GSGDACQGDSGGPLICNNN----YLVGIVSFGENCGSPNYPGVYTRVSSYL 217 (220)
T ss_dssp EEEEHHHHHHHT--TTTSTTTEEEEETT-SSSBGGTTTTTSEEEETTE----EEEEEEEEESSSSBTTSEEEEEEGGGGH
T ss_pred cccccccccccc--cccccccccccccc-cccccccccccccccccee----eecceeeecCCCCCCCcCEEEEEHHHhh
Confidence 999999999862 23468899999864 5678999999999999763 7999999999999887899999999999
Q ss_pred HHH
Q psy6526 683 EWI 685 (696)
Q Consensus 683 ~WI 685 (696)
+||
T Consensus 218 ~WI 220 (220)
T PF00089_consen 218 DWI 220 (220)
T ss_dssp HHH
T ss_pred ccC
Confidence 999
No 14
>smart00020 Tryp_SPc Trypsin-like serine protease. Many of these are synthesised as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. A few, however, are active as single chain molecules, and others are inactive due to substitutions of the catalytic triad residues.
Probab=99.82 E-value=1.8e-19 Score=180.12 Aligned_cols=146 Identities=34% Similarity=0.561 Sum_probs=115.8
Q ss_pred ceecCeecCCCCCceEEEEEeCC-ceEEEEEEcccceEEeccccccccCCCcceEEEEeeeecccccccceEEEEEEEEE
Q psy6526 18 RIVGGWTTEVNEYPWVVALEQAG-KFFCGGTLISDRYVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIETRRVVKVL 96 (696)
Q Consensus 18 rIvgG~~a~~~~~Pw~v~l~~~~-~~~CgGtLIs~~~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~~~v~~i~ 96 (696)
||+||+++.+++|||+|.+.... .+.|+||||++++|||||||+.... .....+.+|...... ....+.+.|.+++
T Consensus 1 ~~~~G~~~~~~~~Pw~~~i~~~~~~~~C~GtlIs~~~VLTaahC~~~~~-~~~~~v~~g~~~~~~--~~~~~~~~v~~~~ 77 (229)
T smart00020 1 RIVGGSEANIGSFPWQVSLQYRGGRHFCGGSLISPRWVLTAAHCVYGSD-PSNIRVRLGSHDLSS--GEEGQVIKVSKVI 77 (229)
T ss_pred CccCCCcCCCCCCCcEEEEEEcCCCcEEEEEEecCCEEEECHHHcCCCC-CcceEEEeCcccCCC--CCCceEEeeEEEE
Confidence 68999999999999999998776 7899999999999999999997643 456788888766533 2223778999999
Q ss_pred EcCCCCCCCCCCCCCceEEEEECCCCccCcccCCCCCCCCCC--Ccc---------ccc-ccCcCCccceEEEeeechhh
Q psy6526 97 THPKYNAQGAKSHDHDIALLKLDAPLEFKPTVSPDNKDDPKS--ELT---------QFK-PGNQKSYKWDIVWFNLIGFA 164 (696)
Q Consensus 97 ~hp~y~~~~~~~~~~DIALl~L~~~v~~~~~v~pi~Lp~~~~--~~~---------~~~-~~~~~~~~L~~v~v~vi~~~ 164 (696)
.||+|+.. ...+|||||+|++|+.+++.++|+|||..+. ... ... .+......++...+.++...
T Consensus 78 ~~p~~~~~---~~~~DiAll~L~~~i~~~~~~~pi~l~~~~~~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~~~~ 154 (229)
T smart00020 78 IHPNYNPS---TYDNDIALLKLKSPVTLSDNVRPICLPSSNYNVPAGTTCTVSGWGRTSEGAGSLPDTLQEVNVPIVSNA 154 (229)
T ss_pred ECCCCCCC---CCcCCEEEEEECcccCCCCceeeccCCCcccccCCCCEEEEEeCCCCCCCCCcCCCEeeEEEEEEeCHH
Confidence 99999865 6789999999999999999999999997521 110 000 11223557888999999999
Q ss_pred HHHHh
Q psy6526 165 VLHLA 169 (696)
Q Consensus 165 ~c~~~ 169 (696)
.|...
T Consensus 155 ~C~~~ 159 (229)
T smart00020 155 TCRRA 159 (229)
T ss_pred Hhhhh
Confidence 99763
No 15
>PF00089 Trypsin: Trypsin; InterPro: IPR001254 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine proteases belong to the MEROPS peptidase family S1 (chymotrypsin family, clan PA(S))and to peptidase family S6 (Hap serine peptidases). The chymotrypsin family is almost totally confined to animals, although trypsin-like enzymes are found in actinomycetes of the genera Streptomyces and Saccharopolyspora, and in the fungus Fusarium oxysporum []. The enzymes are inherently secreted, being synthesised with a signal peptide that targets them to the secretory pathway. Animal enzymes are either secreted directly, packaged into vesicles for regulated secretion, or are retained in leukocyte granules []. The Hap family, 'Haemophilus adhesion and penetration', are proteins that play a role in the interaction with human epithelial cells. The serine protease activity is localized at the N-terminal domain, whereas the binding domain is in the C-terminal region. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1SPJ_A 1A5I_A 2ZGH_A 2ZKS_A 2ZGJ_A 2ZGC_A 2ODP_A 2I6Q_A 2I6S_A 2ODQ_A ....
Probab=99.78 E-value=2e-18 Score=171.17 Aligned_cols=144 Identities=35% Similarity=0.570 Sum_probs=114.8
Q ss_pred eecCeecCCCCCceEEEEEeCC-ceEEEEEEcccceEEeccccccccCCCcceEEEEeeeecccccccceEEEEEEEEEE
Q psy6526 19 IVGGWTTEVNEYPWVVALEQAG-KFFCGGTLISDRYVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIETRRVVKVLT 97 (696)
Q Consensus 19 IvgG~~a~~~~~Pw~v~l~~~~-~~~CgGtLIs~~~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~~~v~~i~~ 97 (696)
|+||.+++++++||+|.+.... .++|+|+||+++||||||||+.. .....+.+|..... ......+.+.+.+++.
T Consensus 1 i~~g~~~~~~~~p~~v~i~~~~~~~~C~G~li~~~~vLTaahC~~~---~~~~~v~~g~~~~~-~~~~~~~~~~v~~~~~ 76 (220)
T PF00089_consen 1 IVGGDPASPGEFPWVVSIRYSNGRFFCTGTLISPRWVLTAAHCVDG---ASDIKVRLGTYSIR-NSDGSEQTIKVSKIII 76 (220)
T ss_dssp SBSSEECGTTSSTTEEEEEETTTEEEEEEEEEETTEEEEEGGGHTS---GGSEEEEESESBTT-STTTTSEEEEEEEEEE
T ss_pred CCCCEECCCCCCCeEEEEeeCCCCeeEeEEeccccccccccccccc---cccccccccccccc-cccccccccccccccc
Confidence 7899999999999999999877 89999999999999999999975 34567778873332 2233468899999999
Q ss_pred cCCCCCCCCCCCCCceEEEEECCCCccCcccCCCCCCCCCCC--cc--ccccc------CcCCccceEEEeeechhhHHH
Q psy6526 98 HPKYNAQGAKSHDHDIALLKLDAPLEFKPTVSPDNKDDPKSE--LT--QFKPG------NQKSYKWDIVWFNLIGFAVLH 167 (696)
Q Consensus 98 hp~y~~~~~~~~~~DIALl~L~~~v~~~~~v~pi~Lp~~~~~--~~--~~~~~------~~~~~~L~~v~v~vi~~~~c~ 167 (696)
||+|+.. ...+|||||+|++++.+.+.++|+||+..... .+ ....| ...+..++...+.+++...|+
T Consensus 77 h~~~~~~---~~~~DiAll~L~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~c~ 153 (220)
T PF00089_consen 77 HPKYDPS---TYDNDIALLKLDRPITFGDNIQPICLPSAGSDPNVGTSCIVVGWGRTSDNGYSSNLQSVTVPVVSRKTCR 153 (220)
T ss_dssp ETTSBTT---TTTTSEEEEEESSSSEHBSSBEESBBTSTTHTTTTTSEEEEEESSBSSTTSBTSBEEEEEEEEEEHHHHH
T ss_pred ccccccc---cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 9999976 56899999999999999999999999984321 11 00001 113457888999999999998
Q ss_pred Hh
Q psy6526 168 LA 169 (696)
Q Consensus 168 ~~ 169 (696)
..
T Consensus 154 ~~ 155 (220)
T PF00089_consen 154 SS 155 (220)
T ss_dssp HH
T ss_pred cc
Confidence 74
No 16
>KOG3627|consensus
Probab=99.78 E-value=2.4e-18 Score=175.21 Aligned_cols=150 Identities=31% Similarity=0.512 Sum_probs=115.5
Q ss_pred CCceecCeecCCCCCceEEEEEeCC--ceEEEEEEcccceEEeccccccccCCCcceEEEEeeeecccccccc--eEEEE
Q psy6526 16 MDRIVGGWTTEVNEYPWVVALEQAG--KFFCGGTLISDRYVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQ--IETRR 91 (696)
Q Consensus 16 ~~rIvgG~~a~~~~~Pw~v~l~~~~--~~~CgGtLIs~~~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~--~~~~~ 91 (696)
..||+||.++.++++||+++++... .+.|||+||+++||||||||+...... ...|..|........+.. .+...
T Consensus 10 ~~~i~~g~~~~~~~~Pw~~~l~~~~~~~~~Cggsli~~~~vltaaHC~~~~~~~-~~~V~~G~~~~~~~~~~~~~~~~~~ 88 (256)
T KOG3627|consen 10 EGRIVGGTEAEPGSFPWQVSLQYGGNGRHLCGGSLISPRWVLTAAHCVKGASAS-LYTVRLGEHDINLSVSEGEEQLVGD 88 (256)
T ss_pred cCCEeCCccCCCCCCCCEEEEEECCCcceeeeeEEeeCCEEEEChhhCCCCCCc-ceEEEECccccccccccCchhhhce
Confidence 5799999999999999999999775 689999999999999999999764222 677788876543322222 24555
Q ss_pred EEEEEEcCCCCCCCCCCCC-CceEEEEECCCCccCcccCCCCCCCCCC---Ccc---ccccc--------CcCCccceEE
Q psy6526 92 VVKVLTHPKYNAQGAKSHD-HDIALLKLDAPLEFKPTVSPDNKDDPKS---ELT---QFKPG--------NQKSYKWDIV 156 (696)
Q Consensus 92 v~~i~~hp~y~~~~~~~~~-~DIALl~L~~~v~~~~~v~pi~Lp~~~~---~~~---~~~~~--------~~~~~~L~~v 156 (696)
+.++++||+|+.. ... ||||||+|++++.|++.|+|||||.... ... ....| ...+..|+.+
T Consensus 89 v~~~i~H~~y~~~---~~~~nDiall~l~~~v~~~~~i~piclp~~~~~~~~~~~~~~~v~GWG~~~~~~~~~~~~L~~~ 165 (256)
T KOG3627|consen 89 VEKIIVHPNYNPR---TLENNDIALLRLSEPVTFSSHIQPICLPSSADPYFPPGGTTCLVSGWGRTESGGGPLPDTLQEV 165 (256)
T ss_pred eeEEEECCCCCCC---CCCCCCEEEEEECCCcccCCcccccCCCCCcccCCCCCCCEEEEEeCCCcCCCCCCCCceeEEE
Confidence 7788899999976 555 9999999999999999999999985332 111 11111 1357789999
Q ss_pred EeeechhhHHHHh
Q psy6526 157 WFNLIGFAVLHLA 169 (696)
Q Consensus 157 ~v~vi~~~~c~~~ 169 (696)
.+++++...|...
T Consensus 166 ~v~i~~~~~C~~~ 178 (256)
T KOG3627|consen 166 DVPIISNSECRRA 178 (256)
T ss_pred EEeEcChhHhccc
Confidence 9999999999754
No 17
>COG5640 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.75 E-value=9.1e-18 Score=165.21 Aligned_cols=111 Identities=36% Similarity=0.625 Sum_probs=84.3
Q ss_pred cccEEEecccccCCC---Cc--cccceeeeeeeecccccccCCCC----CCCCCCCeEEecccCCCCCCCCCCCCceeEE
Q psy6526 577 RTGTVVGWGRVEESG---QI--ASDLRATQVPVMSNQECRQFPGF----EPKLTGNMMCAGYVEGGKDSCQGDSGGALLM 647 (696)
Q Consensus 577 ~~~~v~GWG~~~~~~---~~--~~~L~~~~v~v~~~~~C~~~~~~----~~~i~~~~iCa~~~~~~~~~C~gDsGgPL~~ 647 (696)
......+||.+.... .. ...|++.++..++...|...++. .....-.-+|++. ..+++|+||||||++.
T Consensus 159 s~~~n~t~~~~~~~~v~~~~p~gt~l~e~~v~fv~~stc~~~~g~an~~dg~~~lT~~cag~--~~~daCqGDSGGPi~~ 236 (413)
T COG5640 159 SPMTNGTFGVTTPSDVPRSSPKGTILHEVAVLFVPLSTCAQYKGCANASDGATGLTGFCAGR--PPKDACQGDSGGPIFH 236 (413)
T ss_pred ccccceeeeeeeecCCCCCCCccceeeeeeeeeechHHhhhhccccccCCCCCCccceecCC--CCcccccCCCCCceEE
Confidence 345566676544321 12 23599999999999999876531 1112223399985 3489999999999999
Q ss_pred EecCCeEEEEEEEEcCCC-CCCCCCCcEEEeCcccHHHHHHhhc
Q psy6526 648 EDLDGRFLIAGVVSWGIG-CARPNSPGVYTRVNHYMEWIQNNTR 690 (696)
Q Consensus 648 ~~~~gr~~lvGI~S~g~~-c~~~~~p~vyt~V~~~~~WI~~~~~ 690 (696)
+..+|+ .++||+|||.+ |+.+..|+|||+|+.|.+||...|+
T Consensus 237 ~g~~G~-vQ~GVvSwG~~~Cg~t~~~gVyT~vsny~~WI~a~~~ 279 (413)
T COG5640 237 KGEEGR-VQRGVVSWGDGGCGGTLIPGVYTNVSNYQDWIAAMTN 279 (413)
T ss_pred eCCCcc-EEEeEEEecCCCCCCCCcceeEEehhHHHHHHHHHhc
Confidence 886666 68899999986 9999999999999999999999887
No 18
>COG5640 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=3.2e-13 Score=133.49 Aligned_cols=103 Identities=33% Similarity=0.487 Sum_probs=79.4
Q ss_pred CCCceecCeecCCCCCceEEEEEeC-----CceEEEEEEcccceEEeccccccccCCCcceEEEEeeeecccccccceEE
Q psy6526 15 RMDRIVGGWTTEVNEYPWVVALEQA-----GKFFCGGTLISDRYVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIET 89 (696)
Q Consensus 15 ~~~rIvgG~~a~~~~~Pw~v~l~~~-----~~~~CgGtLIs~~~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~ 89 (696)
...||+||..|+.++||++|++..+ ...+|||+++..|||||||||+.... +...-+..+..+..+ ..+.+.
T Consensus 29 vs~rIigGs~Anag~~P~~VaLv~~isd~~s~tfCGgs~l~~RYvLTAAHC~~~~s-~is~d~~~vv~~l~d--~Sq~~r 105 (413)
T COG5640 29 VSSRIIGGSNANAGEYPSLVALVDRISDYVSGTFCGGSKLGGRYVLTAAHCADASS-PISSDVNRVVVDLND--SSQAER 105 (413)
T ss_pred cceeEecCcccccccCchHHHHHhhcccccceeEeccceecceEEeeehhhccCCC-CccccceEEEecccc--cccccC
Confidence 4579999999999999999998532 24689999999999999999997643 222223333333322 345567
Q ss_pred EEEEEEEEcCCCCCCCCCCCCCceEEEEECCCCc
Q psy6526 90 RRVVKVLTHPKYNAQGAKSHDHDIALLKLDAPLE 123 (696)
Q Consensus 90 ~~v~~i~~hp~y~~~~~~~~~~DIALl~L~~~v~ 123 (696)
..|.+++.|+.|.+. ++.||||+++|.++..
T Consensus 106 g~vr~i~~~efY~~~---n~~ND~Av~~l~~~a~ 136 (413)
T COG5640 106 GHVRTIYVHEFYSPG---NLGNDIAVLELARAAS 136 (413)
T ss_pred cceEEEeeecccccc---cccCcceeeccccccc
Confidence 789999999999876 8899999999998764
No 19
>PF09342 DUF1986: Domain of unknown function (DUF1986); InterPro: IPR015420 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found in serine endopeptidases belonging to MEROPS peptidase family S1A (clan PA). It is found in unusual mosaic proteins, which are encoded by the Drosophila nudel gene (see P98159 from SWISSPROT). Nudel is involved in defining embryonic dorsoventral polarity. Three proteases; ndl, gd and snk process easter to create active easter. Active easter defines cell identities along the dorsal-ventral continuum by activating the spz ligand for the Tl receptor in the ventral region of the embryo. Nudel, pipe and windbeutel together trigger the protease cascade within the extraembryonic perivitelline compartment which induces dorsoventral polarity of the Drosophila embryo [].
Probab=99.03 E-value=1.2e-09 Score=103.10 Aligned_cols=100 Identities=21% Similarity=0.461 Sum_probs=78.6
Q ss_pred CCCCceEEEEEeCCceEEEEEEcccceEEeccccccccC-CCcceEEEEeeee-cccccccceEEEEEEEEEEcCCCCCC
Q psy6526 27 VNEYPWVVALEQAGKFFCGGTLISDRYVLTAAHCVRSSK-RHKDLIAVISEHN-RATVYETQIETRRVVKVLTHPKYNAQ 104 (696)
Q Consensus 27 ~~~~Pw~v~l~~~~~~~CgGtLIs~~~VLTAAhC~~~~~-~~~~~~v~~g~~~-~~~~~~~~~~~~~v~~i~~hp~y~~~ 104 (696)
...|||.|.|+.++.+.|.|+||.+.|+|++-.|+.+.. +...+.+++|... ......+.+|.++|..+..=
T Consensus 13 ~y~WPWlA~IYvdG~~~CsgvLlD~~WlLvsssCl~~I~L~~~YvsallG~~Kt~~~v~Gp~EQI~rVD~~~~V------ 86 (267)
T PF09342_consen 13 DYHWPWLADIYVDGRYWCSGVLLDPHWLLVSSSCLRGISLSHHYVSALLGGGKTYLSVDGPHEQISRVDCFKDV------ 86 (267)
T ss_pred cccCcceeeEEEcCeEEEEEEEeccceEEEeccccCCcccccceEEEEecCcceecccCCChheEEEeeeeeec------
Confidence 446999999999999999999999999999999997632 2345667777554 22234566788888765332
Q ss_pred CCCCCCCceEEEEECCCCccCcccCCCCCCCC
Q psy6526 105 GAKSHDHDIALLKLDAPLEFKPTVSPDNKDDP 136 (696)
Q Consensus 105 ~~~~~~~DIALl~L~~~v~~~~~v~pi~Lp~~ 136 (696)
.+.+++|+.|++|+.|+.+|+|..||+.
T Consensus 87 ----~~S~v~LLHL~~~~~fTr~VlP~flp~~ 114 (267)
T PF09342_consen 87 ----PESNVLLLHLEQPANFTRYVLPTFLPET 114 (267)
T ss_pred ----cccceeeeeecCcccceeeecccccccc
Confidence 2369999999999999999999999973
No 20
>PF03761 DUF316: Domain of unknown function (DUF316) ; InterPro: IPR005514 This is a family of uncharacterised proteins from Caenorhabditis elegans.
Probab=98.54 E-value=3.3e-07 Score=94.50 Aligned_cols=129 Identities=25% Similarity=0.398 Sum_probs=79.5
Q ss_pred cccCCCCC--CCCceecCeecCCCCCceEEEEEeCC----ceEEEEEEcccceEEeccccccccCC-C---c--ce----
Q psy6526 7 IAGCGVPN--RMDRIVGGWTTEVNEYPWVVALEQAG----KFFCGGTLISDRYVLTAAHCVRSSKR-H---K--DL---- 70 (696)
Q Consensus 7 ~~~cg~~~--~~~rIvgG~~a~~~~~Pw~v~l~~~~----~~~CgGtLIs~~~VLTAAhC~~~~~~-~---~--~~---- 70 (696)
...||... ..+++.+|..+...+.||.+.+...+ ..+++||+||+||||||+||+..... . . +.
T Consensus 28 l~~CG~~~~~~~~~~~~g~~~~~~~~pW~v~v~~~~~~~~~~~~~gtlIS~RHiLtss~~~~~~~~~W~~~~~~~~~~C~ 107 (282)
T PF03761_consen 28 LETCGKKKLPYPSKVFNGTPAESGEAPWAVSVYTKNHNEGNYFSTGTLISPRHILTSSHCVMNDKSKWLNGEEFDNKKCE 107 (282)
T ss_pred HHhcCCCCCCCcccccCCcccccCCCCCEEEEEeccCcccceecceEEeccCeEEEeeeEEEecccccccCcccccceee
Confidence 35899542 34568899999999999999997654 25679999999999999999963211 0 0 00
Q ss_pred ----EEEEeee-----ec---ccccccceEEEEEEEEEEcCCCC-C-CCCCCCCCceEEEEECCCCccCcccCCCCCCCC
Q psy6526 71 ----IAVISEH-----NR---ATVYETQIETRRVVKVLTHPKYN-A-QGAKSHDHDIALLKLDAPLEFKPTVSPDNKDDP 136 (696)
Q Consensus 71 ----~v~~g~~-----~~---~~~~~~~~~~~~v~~i~~hp~y~-~-~~~~~~~~DIALl~L~~~v~~~~~v~pi~Lp~~ 136 (696)
...+-.. .. ...........+++++++- ++= . .......++++||+|+++ ++....|+|||+.
T Consensus 108 ~~~~~l~vP~~~l~~~~v~~~~~~~~~~~~~~~v~ka~il-~~C~~~~~~~~~~~~~mIlEl~~~--~~~~~~~~Cl~~~ 184 (282)
T PF03761_consen 108 GNNNHLIVPEEVLSKIDVRCCNCFSNGKCFSIKVKKAYIL-NGCKKIKKNFNRPYSPMILELEED--FSKNVSPPCLADS 184 (282)
T ss_pred CCCceEEeCHHHhccEEEEeecccccCCcccceeEEEEEE-ecCCCcccccccccceEEEEEccc--ccccCCCEEeCCC
Confidence 0000000 00 0000111223455665542 111 0 001134579999999999 8899999999986
Q ss_pred CC
Q psy6526 137 KS 138 (696)
Q Consensus 137 ~~ 138 (696)
..
T Consensus 185 ~~ 186 (282)
T PF03761_consen 185 ST 186 (282)
T ss_pred cc
Confidence 54
No 21
>PF00487 FA_desaturase: Fatty acid desaturase This entry is only a subset of the Pfam family.; InterPro: IPR005804 Fatty acid desaturases are enzymes that catalyse the insertion of a double bond at the delta position of fatty acids. There seem to be two distinct families of fatty acid desaturases which do not seem to be evolutionary related. Family 1 is composed of: Stearoyl-CoA desaturase (SCD) (1.14.19.1 from EC) []. Family 2 is composed of: Bacterial fatty acid desaturases. Plant stearoyl-acyl-carrier-protein desaturase (1.14.19.1 from EC) [], this enzyme catalyzes the introduction of a double bond at the delta(9) position of steraoyl-ACP to produce oleoyl-ACP. This enzyme is responsible for the conversion of saturated fatty acids to unsaturated fatty acids in the synthesis of vegetable oils. Cyanobacterial DesA [], an enzyme that can introduce a second cis double bond at the delta(12) position of fatty acid bound to membranes glycerolipids. DesA is involved in chilling tolerance; the phase transition temperature of lipids of cellular membranes being dependent on the degree of unsaturation of fatty acids of the membrane lipids. This entry contains fatty acid desaturases belonging to Family 1. ; GO: 0006629 lipid metabolic process
Probab=98.17 E-value=8.3e-07 Score=89.72 Aligned_cols=48 Identities=8% Similarity=-0.154 Sum_probs=33.8
Q ss_pred hhccccccccC---CCccccc-ccceEEEE-------------eecCCCCCCCCCCCC-CCCCCcC
Q psy6526 194 ISTDSIVEEPS---SMTDTCS-PRPIALKV-------------HKDNKDDPKSELTQF-KPGNQKS 241 (696)
Q Consensus 194 ~~~~~~t~g~H---H~~~~~~-~~~~~~~~-------------~~~hr~hh~~~~~~~-dp~~~~~ 241 (696)
........-.| |+++..+ ++..++.. ...|..||++++++. ||.....
T Consensus 15 ~~~~~~~~~~H~~~H~~~~~~~~~n~~l~~~~~~~~~~~~~~wr~~H~~HH~~~~~~~~Dpd~~~~ 80 (257)
T PF00487_consen 15 LSFARLFGLAHDAGHGAFFRSRWLNDLLGRLLGLPIGGPYSSWRISHNRHHHYTNNPDRDPDSWTR 80 (257)
T ss_pred HHHHHHHHHHHHHhccCCcccChHHHHHHHHHHHHhcCCHhHhheeeeccccccCCccccCccchh
Confidence 33334444445 9988888 55544433 778999999999988 9998865
No 22
>PF03761 DUF316: Domain of unknown function (DUF316) ; InterPro: IPR005514 This is a family of uncharacterised proteins from Caenorhabditis elegans.
Probab=98.16 E-value=1.5e-05 Score=82.11 Aligned_cols=112 Identities=21% Similarity=0.376 Sum_probs=71.0
Q ss_pred ccccCcccccccccccCCCCcccc--cCcccEEEecccccCCCCccccceeeeeeeecccccccCCCCCCCCCCCeEEec
Q psy6526 551 LKAASPAMVKYRATKRGDGSHRVY--SKRTGTVVGWGRVEESGQIASDLRATQVPVMSNQECRQFPGFEPKLTGNMMCAG 628 (696)
Q Consensus 551 lkl~~~~~~~~~v~~~~~~~~~~~--~~~~~~v~GWG~~~~~~~~~~~L~~~~v~v~~~~~C~~~~~~~~~i~~~~iCa~ 628 (696)
+.+.++ ......|+|++..... .++...+-|. .....+...++.+.....|. ..+|
T Consensus 166 lEl~~~--~~~~~~~~Cl~~~~~~~~~~~~~~~yg~-------~~~~~~~~~~~~i~~~~~~~-----------~~~~-- 223 (282)
T PF03761_consen 166 LELEED--FSKNVSPPCLADSSTNWEKGDEVDVYGF-------NSTGKLKHRKLKITNCTKCA-----------YSIC-- 223 (282)
T ss_pred EEEccc--ccccCCCEEeCCCccccccCceEEEeec-------CCCCeEEEEEEEEEEeeccc-----------eeEe--
Confidence 344444 4566778888765433 3344444454 12334666666655433221 1233
Q ss_pred ccCCCCCCCCCCCCceeEEEecCCeEEEEEEEEcCC-CCCCCCCCcEEEeCcccHHHHHHhhc
Q psy6526 629 YVEGGKDSCQGDSGGALLMEDLDGRFLIAGVVSWGI-GCARPNSPGVYTRVNHYMEWIQNNTR 690 (696)
Q Consensus 629 ~~~~~~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g~-~c~~~~~p~vyt~V~~~~~WI~~~~~ 690 (696)
..+..|.||+||||+... +||++|+||.+.+. .|.. ....|.+|+.|.+=|-+.++
T Consensus 224 ---~~~~~~~~d~Gg~lv~~~-~gr~tlIGv~~~~~~~~~~--~~~~f~~v~~~~~~IC~ltG 280 (282)
T PF03761_consen 224 ---TKQYSCKGDRGGPLVKNI-NGRWTLIGVGASGNYECNK--NNSYFFNVSWYQDEICELTG 280 (282)
T ss_pred ---cccccCCCCccCeEEEEE-CCCEEEEEEEccCCCcccc--cccEEEEHHHhhhhhcccee
Confidence 245789999999999988 89999999998775 3432 25789999998887766544
No 23
>cd01060 Membrane-FADS-like The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the exception of archaea. Membrane FADSs are non-heme, iron-containing, oxygen-dependent enzymes involved in regioselective introduction of double bonds in fatty acyl aliphatic chains. They play an important role in the maintenance of the proper structure and functioning of biological membranes. Alkane hydroxylases are bacterial, integral-membrane di-iron enzymes that share a requirement for iron and oxygen for activity similar to that of membrane FADSs, and are involved in the initial oxidation of inactivated alkanes. Beta-carotene ketolase and beta-carotene hydroxylase are carotenoid biosynthetic enzymes for astaxanthin and zeaxanthin, respectively. This superfamily domain has extensive hydrophobic regions that would
Probab=97.58 E-value=8.8e-06 Score=72.28 Aligned_cols=42 Identities=40% Similarity=0.723 Sum_probs=31.2
Q ss_pred hhhHHHhhcCCCCCC-------CCCcchhHHHHHHhhccccccccccCC
Q psy6526 327 VNSLAHIYGYRPFSK-------EILPTENWFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 327 ins~~H~~g~r~~~~-------~~~~~~~~~~~~~~~Ge~~Hn~HH~~p 368 (696)
++.+.|.....+... .....+.++..+++.|+++|+.||.||
T Consensus 74 ~~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~H~~HHl~P 122 (122)
T cd01060 74 VNYLEHYGGDRPFDTDGEWLRTTDNSRNGWLNLLLTGGLGYHNEHHLFP 122 (122)
T ss_pred cchHhhcCCCCCcccccccccccccCcccHHHHHHhcccccccccccCc
Confidence 446777655555443 345677788888888899999999998
No 24
>PF09342 DUF1986: Domain of unknown function (DUF1986); InterPro: IPR015420 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found in serine endopeptidases belonging to MEROPS peptidase family S1A (clan PA). It is found in unusual mosaic proteins, which are encoded by the Drosophila nudel gene (see P98159 from SWISSPROT). Nudel is involved in defining embryonic dorsoventral polarity. Three proteases; ndl, gd and snk process easter to create active easter. Active easter defines cell identities along the dorsal-ventral continuum by activating the spz ligand for the Tl receptor in the ventral region of the embryo. Nudel, pipe and windbeutel together trigger the protease cascade within the extraembryonic perivitelline compartment which induces dorsoventral polarity of the Drosophila embryo [].
Probab=97.22 E-value=0.0013 Score=63.10 Aligned_cols=113 Identities=16% Similarity=0.104 Sum_probs=69.6
Q ss_pred HHhhcchh-hhhhhhheeeeeeeeecceeeccceEEecccCCCCCcCCcccceEEEEeecCCCcCCCCCCCccccccccc
Q psy6526 451 YFWNEGLW-ISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGEGWHNYHHSFPWDYRAAEMG 529 (696)
Q Consensus 451 ~~w~~~~~-~~~~~cg~~r~g~lI~~~wvLnTAAHC~g~~~~~~~~~~~~~~~v~~v~~Geg~~n~~~~~p~~~~~~~~~ 529 (696)
|||.+.+. .+.++|. |+||.+.|+| ++..|.-.-.++ .++ ++ +.+|.+..-.+-..|. +..
T Consensus 16 WPWlA~IYvdG~~~Cs----gvLlD~~WlL-vsssCl~~I~L~------~~Y-vs-allG~~Kt~~~v~Gp~-----EQI 77 (267)
T PF09342_consen 16 WPWLADIYVDGRYWCS----GVLLDPHWLL-VSSSCLRGISLS------HHY-VS-ALLGGGKTYLSVDGPH-----EQI 77 (267)
T ss_pred CcceeeEEEcCeEEEE----EEEeccceEE-EeccccCCcccc------cce-EE-EEecCcceecccCCCh-----heE
Confidence 68887776 6889999 9999999999 999998432221 122 22 3445432211112221 111
Q ss_pred eeeecceEEEccccccCccccccccCcccccccccccCCCC--cccccCcccEEEeccc
Q psy6526 530 QHFNITTLVIDFCAERGWAWGLKAASPAMVKYRATKRGDGS--HRVYSKRTGTVVGWGR 586 (696)
Q Consensus 530 ~~~~~~~~~i~~~~~l~l~~dlkl~~~~~~~~~v~~~~~~~--~~~~~~~~~~v~GWG~ 586 (696)
..+|-...+.+ .+..| |.|..|+.++.+|+|+.++. ........|.+.|=..
T Consensus 78 ~rVD~~~~V~~--S~v~L---LHL~~~~~fTr~VlP~flp~~~~~~~~~~~CVAVg~d~ 131 (267)
T PF09342_consen 78 SRVDCFKDVPE--SNVLL---LHLEQPANFTRYVLPTFLPETSNENESDDECVAVGHDD 131 (267)
T ss_pred EEeeeeeeccc--cceee---eeecCcccceeeecccccccccCCCCCCCceEEEEccc
Confidence 12333333322 33444 89999999999999987765 4455566899998764
No 25
>cd03513 CrtW_beta-carotene-ketolase Beta-carotene ketolase/oxygenase (CrtW, also known as CrtO), the carotenoid astaxanthin biosynthetic enzyme, initially catalyzes the addition of two keto groups to carbons C4 and C4' of beta-carotene. Carotenoids are important natural pigments produced by many microorganisms and plants. Astaxanthin is reported to be an antioxidant, an anti-cancer agent, and an immune system stimulant. A number of bacteria and green algae can convert beta-carotene into astaxanthin by using several ketocarotenoids as intermediates and CrtW and a beta-carotene hydroxylase (CrtZ). CrtW initially converts beta-carotene to canthaxanthin via echinenone, and CrtZ initially mediates the conversion of beta-carotene to zeaxanthin via beta-cryptoxanthin. After a few more intermediates are formed, CrtW and CrtZ act in combination to produce astaxanthin. Sequences of this domain family appear to be structurally related to membrane fatty acid desaturases and alkane hydroxylases. Th
Probab=96.96 E-value=0.0017 Score=63.58 Aligned_cols=38 Identities=29% Similarity=0.395 Sum_probs=29.3
Q ss_pred hHHHhhcCCCCCCCCCcch---hHHHHHHh---hccccccccccCC
Q psy6526 329 SLAHIYGYRPFSKEILPTE---NWFVSFIG---AGEGWHNYHHSFP 368 (696)
Q Consensus 329 s~~H~~g~r~~~~~~~~~~---~~~~~~~~---~Ge~~Hn~HH~~p 368 (696)
-+.|.-+..||+....++. ..++++++ +| +|+-||.||
T Consensus 171 ~lpH~~~~~~~~~~~~a~~~~~~~~~~~l~c~~fg--yH~eHH~fP 214 (225)
T cd03513 171 WLPHRPGRGGFADRHRARSSRLSPVLSFLTCYHFG--YHHEHHLSP 214 (225)
T ss_pred hcCCCCCCCCCCCcccceecCccHHHHHHHHHhcC--cchhhccCC
Confidence 3678777778886555554 67888887 66 999999999
No 26
>COG3591 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]
Probab=96.81 E-value=0.0076 Score=59.31 Aligned_cols=54 Identities=24% Similarity=0.353 Sum_probs=38.6
Q ss_pred CCCCCCCCCCceeEEEecCCeEEEEEEEEcCCCCCCCCCCcEEEeCcc-cHHHHHHhhc
Q psy6526 633 GKDSCQGDSGGALLMEDLDGRFLIAGVVSWGIGCARPNSPGVYTRVNH-YMEWIQNNTR 690 (696)
Q Consensus 633 ~~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g~~c~~~~~p~vyt~V~~-~~~WI~~~~~ 690 (696)
..++|.|+||+|++.... +++||.+-|..-.........+|+.. +++||++.++
T Consensus 197 ~~dT~pG~SGSpv~~~~~----~vigv~~~g~~~~~~~~~n~~vr~t~~~~~~I~~~~~ 251 (251)
T COG3591 197 DADTLPGSSGSPVLISKD----EVIGVHYNGPGANGGSLANNAVRLTPEILNFIQQNIK 251 (251)
T ss_pred EecccCCCCCCceEecCc----eEEEEEecCCCcccccccCcceEecHHHHHHHHHhhC
Confidence 458899999999998663 79999998875333233344456554 6799998764
No 27
>PF13365 Trypsin_2: Trypsin-like peptidase domain; PDB: 1Y8T_A 2Z9I_A 3QO6_A 1L1J_A 1QY6_A 2O8L_A 3OTP_E 2ZLE_I 1KY9_A 3CS0_A ....
Probab=96.25 E-value=0.013 Score=51.37 Aligned_cols=21 Identities=48% Similarity=0.602 Sum_probs=19.1
Q ss_pred EEEEEcccc-eEEecccccccc
Q psy6526 44 CGGTLISDR-YVLTAAHCVRSS 64 (696)
Q Consensus 44 CgGtLIs~~-~VLTAAhC~~~~ 64 (696)
|.|.+|+++ +||||+||+...
T Consensus 1 GTGf~i~~~g~ilT~~Hvv~~~ 22 (120)
T PF13365_consen 1 GTGFLIGPDGYILTAAHVVEDW 22 (120)
T ss_dssp EEEEEEETTTEEEEEHHHHTCC
T ss_pred CEEEEEcCCceEEEchhheecc
Confidence 789999999 999999999754
No 28
>COG3591 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]
Probab=95.45 E-value=0.03 Score=55.18 Aligned_cols=41 Identities=32% Similarity=0.639 Sum_probs=30.4
Q ss_pred cCCCCCceEEEEEeC---CceEEEEEEcccceEEeccccccccC
Q psy6526 25 TEVNEYPWVVALEQA---GKFFCGGTLISDRYVLTAAHCVRSSK 65 (696)
Q Consensus 25 a~~~~~Pw~v~l~~~---~~~~CgGtLIs~~~VLTAAhC~~~~~ 65 (696)
....++||-+-.... ++.-|+++||+++-||||+||+.+..
T Consensus 44 ~dt~~~Py~av~~~~~~tG~~~~~~~lI~pntvLTa~Hc~~s~~ 87 (251)
T COG3591 44 TDTTQFPYSAVVQFEAATGRLCTAATLIGPNTVLTAGHCIYSPD 87 (251)
T ss_pred ccCCCCCcceeEEeecCCCcceeeEEEEcCceEEEeeeEEecCC
Confidence 334679997665432 34557779999999999999997643
No 29
>PF00487 FA_desaturase: Fatty acid desaturase This entry is only a subset of the Pfam family.; InterPro: IPR005804 Fatty acid desaturases are enzymes that catalyse the insertion of a double bond at the delta position of fatty acids. There seem to be two distinct families of fatty acid desaturases which do not seem to be evolutionary related. Family 1 is composed of: Stearoyl-CoA desaturase (SCD) (1.14.19.1 from EC) []. Family 2 is composed of: Bacterial fatty acid desaturases. Plant stearoyl-acyl-carrier-protein desaturase (1.14.19.1 from EC) [], this enzyme catalyzes the introduction of a double bond at the delta(9) position of steraoyl-ACP to produce oleoyl-ACP. This enzyme is responsible for the conversion of saturated fatty acids to unsaturated fatty acids in the synthesis of vegetable oils. Cyanobacterial DesA [], an enzyme that can introduce a second cis double bond at the delta(12) position of fatty acid bound to membranes glycerolipids. DesA is involved in chilling tolerance; the phase transition temperature of lipids of cellular membranes being dependent on the degree of unsaturation of fatty acids of the membrane lipids. This entry contains fatty acid desaturases belonging to Family 1. ; GO: 0006629 lipid metabolic process
Probab=94.94 E-value=0.04 Score=55.21 Aligned_cols=48 Identities=21% Similarity=0.080 Sum_probs=30.2
Q ss_pred hhHHHhhcCCCCCCCCCcchhHHHHHH-hhcc------ccccccccCChhhhhcc
Q psy6526 328 NSLAHIYGYRPFSKEILPTENWFVSFI-GAGE------GWHNYHHSFPWDYRAAE 375 (696)
Q Consensus 328 ns~~H~~g~r~~~~~~~~~~~~~~~~~-~~Ge------~~Hn~HH~~p~d~~~~~ 375 (696)
..++|-.+|+++..+....+.+-..+. ..|- ..|+.||++..+...|+
T Consensus 21 ~~~~H~~~H~~~~~~~~~n~~l~~~~~~~~~~~~~~wr~~H~~HH~~~~~~~~Dp 75 (257)
T PF00487_consen 21 FGLAHDAGHGAFFRSRWLNDLLGRLLGLPIGGPYSSWRISHNRHHHYTNNPDRDP 75 (257)
T ss_pred HHHHHHHhccCCcccChHHHHHHHHHHHHhcCCHhHhheeeeccccccCCccccC
Confidence 478899999998877654322211111 1232 67999999986666553
No 30
>cd03512 Alkane-hydroxylase Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes in Pseudomonas oleovorans encode conversion of alkanes to acyl CoA. The alkane omega-hydroxylase (AlkB) system is responsible for the initial oxidation of inactivated alkanes. It is a three-component system comprising a soluble NADH-rubredoxin reductase (AlkT), a soluble rubredoxin (AlkG), and the integral membrane oxygenase (AlkB). AlkB utilizes the oxygen rebound mechanism to hydroxylate alkanes. This mechanism involves homolytic cleavage of the C-H bond by an electrophilic metal-oxo intermediate to generate a substrate-based radical. As with other members of this superfamily, this domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. The active
Probab=94.87 E-value=0.049 Score=56.61 Aligned_cols=23 Identities=17% Similarity=0.286 Sum_probs=20.3
Q ss_pred chhHHHHHHhhccccccccccCC
Q psy6526 346 TENWFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 346 ~~~~~~~~~~~Ge~~Hn~HH~~p 368 (696)
.++.+..++++--..|.-||++|
T Consensus 251 s~~~~~n~l~~nl~rHsdHH~~p 273 (314)
T cd03512 251 SNHIVSNLLLFNLQRHSDHHAHP 273 (314)
T ss_pred cCcHHHHHHHHhcchhhhhccCC
Confidence 34788999999889999999999
No 31
>cd03506 Delta6-FADS-like The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases are required for the synthesis of highly unsaturated fatty acids (HUFAs), which are mainly esterified into phospholipids and contribute to maintaining membrane fluidity. While HUFAs may be required for cold tolerance in bacteria, plants and fish, the primary role of HUFAs in mammals is cell signaling. These enzymes are described as front-end desaturases because they introduce a double bond between the pre-exiting double bond and the carboxyl (front) end of the fatty acid. Various substrates are involved, with both acyl-coenzyme A (CoA) and acyl-lipid desaturases present in this CD. Acyl-lipid desaturases are localized in the membranes of cyanobacterial thylakoid, plant endoplasmic reticulum (ER), and plastid; an
Probab=94.78 E-value=0.008 Score=58.57 Aligned_cols=23 Identities=26% Similarity=0.507 Sum_probs=20.2
Q ss_pred hhHHHHHHhhccccccccccCCh
Q psy6526 347 ENWFVSFIGAGEGWHNYHHSFPW 369 (696)
Q Consensus 347 ~~~~~~~~~~Ge~~Hn~HH~~p~ 369 (696)
...++.+++.|.+.|.-||.||.
T Consensus 160 ~~~~~~~l~ggln~qieHHLfP~ 182 (204)
T cd03506 160 GSPFLDWLHGGLNYQIEHHLFPT 182 (204)
T ss_pred CCCHHHHHhcchhhHHHHhcCCC
Confidence 35788899999999999999993
No 32
>cd03511 Rhizopine-oxygenase-like This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase) under the regulation of MocR, act in concert to form a ferredoxin oxygenase system that demethylates 3-O-MSI to form scyllo-inosamine. This domain family appears to be structurally related to the membrane fatty acid desaturases and the alkane hydroxylases. They all share in common extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXXHH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within homologs, stearoyl CoA d
Probab=93.27 E-value=0.042 Score=56.61 Aligned_cols=21 Identities=29% Similarity=0.414 Sum_probs=18.3
Q ss_pred hHHHHHHhhccccccccccCC
Q psy6526 348 NWFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 348 ~~~~~~~~~Ge~~Hn~HH~~p 368 (696)
++++.++..+-++|.-||.||
T Consensus 235 ~~~~~~l~~n~nyH~eHHl~P 255 (285)
T cd03511 235 NPPLRFLYWNMPYHAEHHMYP 255 (285)
T ss_pred hHHHHHHHcCCchHHHHhcCC
Confidence 467788888889999999999
No 33
>cd03514 CrtR_beta-carotene-hydroxylase Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important natural pigments; zeaxanthin and lutein are the only dietary carotenoids that accumulate in the macular region of the retina and lens. It is proposed that these carotenoids protect ocular tissues against photooxidative damage. CrtR does not show overall amino acid sequence similarity to the beta-carotene hydroxylases similar to CrtZ, an astaxanthin biosynthetic beta-carotene hydroxylase. However, CrtR does show sequence similarity to the green alga, Haematococcus pluvialis, beta-carotene ketolase (CrtW), which converts beta-carotene to canthaxanthin. Sequences of the CrtR_beta-carotene-hydroxylase domain family, as well as, the CrtW_beta-carotene-ketolase domain family appear to be structurally related
Probab=92.76 E-value=0.023 Score=55.31 Aligned_cols=23 Identities=22% Similarity=0.426 Sum_probs=19.8
Q ss_pred chhHHHHHHhhccccccccccCC
Q psy6526 346 TENWFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 346 ~~~~~~~~~~~Ge~~Hn~HH~~p 368 (696)
...++..++++|.++|--||.||
T Consensus 162 ~~~~l~~~l~~~~nyH~~HHL~P 184 (207)
T cd03514 162 YPSKLLNPLIMGQNYHLVHHLWP 184 (207)
T ss_pred ccchhHheeecCCchhHHHhCCC
Confidence 34577788899999999999999
No 34
>COG3239 DesA Fatty acid desaturase [Lipid metabolism]
Probab=89.57 E-value=0.15 Score=53.74 Aligned_cols=24 Identities=25% Similarity=0.458 Sum_probs=20.8
Q ss_pred cchhHHHHHHhhccccccccccCC
Q psy6526 345 PTENWFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 345 ~~~~~~~~~~~~Ge~~Hn~HH~~p 368 (696)
-..++++.+++.+-++|--||.||
T Consensus 255 ~~~~~~~~~l~~n~nyH~~HHl~P 278 (343)
T COG3239 255 VDAPPLLRFLTGNINYHVEHHLFP 278 (343)
T ss_pred cCchHHHHHhcCCccccHhhhCCC
Confidence 344678999999999999999998
No 35
>cd03509 DesA_FADS-like Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family appear to be structurally related to membrane fatty acid desaturases and alkane hydroxylases. They all share in common extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of these sequences also reveals three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXXHH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within homologs, stearoyl CoA desaturase and alkane hydroxylase.
Probab=88.99 E-value=0.16 Score=52.14 Aligned_cols=21 Identities=19% Similarity=0.293 Sum_probs=18.7
Q ss_pred hHHHHHHhhccccccccccCC
Q psy6526 348 NWFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 348 ~~~~~~~~~Ge~~Hn~HH~~p 368 (696)
..++.+++..-++|.-||.+|
T Consensus 219 ~~~~~~l~~ninyH~~HH~~P 239 (288)
T cd03509 219 GGPLRLLFLNNNLHVVHHDLP 239 (288)
T ss_pred cHHHHHHHhcCCchHhhcCCC
Confidence 466788999999999999998
No 36
>PLN02579 sphingolipid delta-4 desaturase
Probab=88.55 E-value=0.18 Score=52.38 Aligned_cols=20 Identities=35% Similarity=0.640 Sum_probs=18.0
Q ss_pred HHHHHHhhccccccccccCC
Q psy6526 349 WFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 349 ~~~~~~~~Ge~~Hn~HH~~p 368 (696)
-++.+++..-|+|+-||.||
T Consensus 249 g~ln~l~~NigYH~eHH~fP 268 (323)
T PLN02579 249 GPLNLLTWNVGYHNEHHDFP 268 (323)
T ss_pred hHHHHHhhcccccHhhcCCC
Confidence 35599999999999999999
No 37
>cd03506 Delta6-FADS-like The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases are required for the synthesis of highly unsaturated fatty acids (HUFAs), which are mainly esterified into phospholipids and contribute to maintaining membrane fluidity. While HUFAs may be required for cold tolerance in bacteria, plants and fish, the primary role of HUFAs in mammals is cell signaling. These enzymes are described as front-end desaturases because they introduce a double bond between the pre-exiting double bond and the carboxyl (front) end of the fatty acid. Various substrates are involved, with both acyl-coenzyme A (CoA) and acyl-lipid desaturases present in this CD. Acyl-lipid desaturases are localized in the membranes of cyanobacterial thylakoid, plant endoplasmic reticulum (ER), and plastid; an
Probab=87.87 E-value=0.13 Score=50.12 Aligned_cols=45 Identities=22% Similarity=0.170 Sum_probs=28.5
Q ss_pred hhHHHhhcCCCCCCCCCcchhHHHHHH---hhcc------ccccccccCChhhhhc
Q psy6526 328 NSLAHIYGYRPFSKEILPTENWFVSFI---GAGE------GWHNYHHSFPWDYRAA 374 (696)
Q Consensus 328 ns~~H~~g~r~~~~~~~~~~~~~~~~~---~~Ge------~~Hn~HH~~p~d~~~~ 374 (696)
..+.|=.+|..+..+.. .| .+++.+ ..|- ..||.||+++.+...|
T Consensus 15 ~~~~Hd~~H~~~~~~~~-~n-~~~g~~~~~~~g~s~~~w~~~H~~HH~~tn~~~~D 68 (204)
T cd03506 15 GFLAHDAGHGQVFKNRW-LN-KLLGLTVGNLLGASAGWWKNKHNVHHAYTNILGHD 68 (204)
T ss_pred HHHHHhccCccccCCch-HH-HHHHHHHHhccCCCHHHHHHHHhhhcCcCCCCCCC
Confidence 36788888888865433 22 223222 1233 5699999999777666
No 38
>KOG2987|consensus
Probab=87.79 E-value=1.2 Score=43.38 Aligned_cols=64 Identities=16% Similarity=0.156 Sum_probs=39.4
Q ss_pred ccchhHHHHHHHHHHHHhhhhchhhhhhHHHhhcCCCCCCCCCcchhHHHHHH--hhcc-------ccccccccCC
Q psy6526 302 NEGLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFI--GAGE-------GWHNYHHSFP 368 (696)
Q Consensus 302 ~~~~~~~~~~~~~~r~~~~~~~t~~ins~~H~~g~r~~~~~~~~~~~~~~~~~--~~Ge-------~~Hn~HH~~p 368 (696)
+.+|..-++++-++--+..+..|..|.-++|--+ |.++.+..|-++-.+. -.|- -+|--||+|-
T Consensus 63 dl~W~~il~~AYf~gg~iNhsl~LAIHeiSHN~a---Fg~~rpl~NR~~g~fANLPigvP~siSFkkYHleHHry~ 135 (324)
T KOG2987|consen 63 DLDWKWILFIAYFFGGFINHSLTLAIHEISHNLA---FGTNRPLYNRIFGFFANLPIGVPMSISFKKYHLEHHRYL 135 (324)
T ss_pred cccHHHHHHHHHHhhhhhchhHHHHHHHhhhhhh---cccCchHHHHHHHHhhcCcccCceeeeehhhhhHHhHhc
Confidence 3444444555777777788999989999999322 3334444443433333 3333 6888899995
No 39
>PLN02579 sphingolipid delta-4 desaturase
Probab=87.60 E-value=3.2 Score=43.22 Aligned_cols=19 Identities=37% Similarity=0.685 Sum_probs=15.3
Q ss_pred EEEeecCCCcCCCCCCCcc
Q psy6526 504 SFIGAGEGWHNYHHSFPWD 522 (696)
Q Consensus 504 ~~v~~Geg~~n~~~~~p~~ 522 (696)
.++++.-|+|+.||.+|.-
T Consensus 252 n~l~~NigYH~eHH~fP~I 270 (323)
T PLN02579 252 NLLTWNVGYHNEHHDFPRI 270 (323)
T ss_pred HHHhhcccccHhhcCCCCC
Confidence 4567777899999999964
No 40
>cd03508 Delta4-sphingolipid-FADS-like The Delta4-sphingolipid Fatty Acid Desaturase (Delta4-sphingolipid-FADS)-like CD includes the integral-membrane enzymes, dihydroceramide Delta-4 desaturase, involved in the synthesis of sphingosine; and the human membrane fatty acid (lipid) desaturase (MLD), reported to modulate biosynthesis of the epidermal growth factor receptor; and other related proteins. These proteins are found in various eukaryotes including vertebrates, higher plants, and fungi. Studies show that MLD is localized to the endoplasmic reticulum. As with other members of this superfamily, this domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXXHH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for
Probab=87.38 E-value=0.25 Score=50.62 Aligned_cols=20 Identities=35% Similarity=0.662 Sum_probs=17.8
Q ss_pred HHHHHHhhccccccccccCC
Q psy6526 349 WFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 349 ~~~~~~~~Ge~~Hn~HH~~p 368 (696)
.++.+++..-++|+-||.+|
T Consensus 221 ~~~~~~~~n~~yH~~HH~~p 240 (289)
T cd03508 221 GPLNLLTFNVGYHNEHHDFP 240 (289)
T ss_pred HHHHHHhhccChHHHhcCCC
Confidence 35688899999999999999
No 41
>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=87.09 E-value=3.4 Score=45.30 Aligned_cols=18 Identities=6% Similarity=0.176 Sum_probs=15.5
Q ss_pred eeeeecc-eeeccceEEecc
Q psy6526 470 VTVLNGT-WNVNSLAHIYGY 488 (696)
Q Consensus 470 g~lI~~~-wvLnTAAHC~g~ 488 (696)
|++|++. +|| |.+|++..
T Consensus 62 Gfii~~~G~Il-Tn~Hvv~~ 80 (428)
T TIGR02037 62 GVIISADGYIL-TNNHVVDG 80 (428)
T ss_pred EEEECCCCEEE-EcHHHcCC
Confidence 9999876 999 99999843
No 42
>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=87.00 E-value=1.8 Score=47.49 Aligned_cols=68 Identities=28% Similarity=0.398 Sum_probs=41.1
Q ss_pred ceEEEEEEcccc-eEEeccccccccCCCcceEEEEeeeecccccccceEEEEEEEEEEcCCCCCCCCCCCCCceEEEEEC
Q psy6526 41 KFFCGGTLISDR-YVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKLD 119 (696)
Q Consensus 41 ~~~CgGtLIs~~-~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~~~v~~i~~hp~y~~~~~~~~~~DIALl~L~ 119 (696)
...+.|.+|+++ +|||++|++.+. ..+.|.... ...+..+-+..+| ..||||||++
T Consensus 57 ~~~GSGfii~~~G~IlTn~Hvv~~~---~~i~V~~~~----------~~~~~a~vv~~d~----------~~DlAllkv~ 113 (428)
T TIGR02037 57 RGLGSGVIISADGYILTNNHVVDGA---DEITVTLSD----------GREFKAKLVGKDP----------RTDIAVLKID 113 (428)
T ss_pred cceeeEEEECCCCEEEEcHHHcCCC---CeEEEEeCC----------CCEEEEEEEEecC----------CCCEEEEEec
Confidence 357999999976 999999999653 334443321 1223333222222 3699999998
Q ss_pred CCCccCcccCCCCCCC
Q psy6526 120 APLEFKPTVSPDNKDD 135 (696)
Q Consensus 120 ~~v~~~~~v~pi~Lp~ 135 (696)
.+ ....++.|.+
T Consensus 114 ~~----~~~~~~~l~~ 125 (428)
T TIGR02037 114 AK----KNLPVIKLGD 125 (428)
T ss_pred CC----CCceEEEccC
Confidence 64 2344555543
No 43
>PF02395 Peptidase_S6: Immunoglobulin A1 protease Serine protease Prosite pattern; InterPro: IPR000710 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S6 (clan PA(S)). The type sample being the IgA1-specific serine endopeptidase from Neisseria gonorrhoeae []. These cleave prolyl bonds in the hinge regions of immunoglobulin A heavy chains. Similar specificity is shown by the unrelated family of M26 metalloendopeptidases.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 3SZE_A 3H09_B 3SYJ_A 1WXR_A 3AK5_B.
Probab=86.83 E-value=0.57 Score=54.31 Aligned_cols=33 Identities=33% Similarity=0.552 Sum_probs=23.6
Q ss_pred CCCCCCCceeEEEe-cCCeEEEEEEEEcCCCCCC
Q psy6526 636 SCQGDSGGALLMED-LDGRFLIAGVVSWGIGCAR 668 (696)
Q Consensus 636 ~C~gDsGgPL~~~~-~~gr~~lvGI~S~g~~c~~ 668 (696)
.-.||||+||+..+ .+++|+|+|+++.+.+...
T Consensus 213 ~~~GDSGSPlF~YD~~~kKWvl~Gv~~~~~~~~g 246 (769)
T PF02395_consen 213 GSPGDSGSPLFAYDKEKKKWVLVGVLSGGNGYNG 246 (769)
T ss_dssp --TT-TT-EEEEEETTTTEEEEEEEEEEECCCCH
T ss_pred cccCcCCCceEEEEccCCeEEEEEEEccccccCC
Confidence 35699999999876 4679999999998766543
No 44
>cd03513 CrtW_beta-carotene-ketolase Beta-carotene ketolase/oxygenase (CrtW, also known as CrtO), the carotenoid astaxanthin biosynthetic enzyme, initially catalyzes the addition of two keto groups to carbons C4 and C4' of beta-carotene. Carotenoids are important natural pigments produced by many microorganisms and plants. Astaxanthin is reported to be an antioxidant, an anti-cancer agent, and an immune system stimulant. A number of bacteria and green algae can convert beta-carotene into astaxanthin by using several ketocarotenoids as intermediates and CrtW and a beta-carotene hydroxylase (CrtZ). CrtW initially converts beta-carotene to canthaxanthin via echinenone, and CrtZ initially mediates the conversion of beta-carotene to zeaxanthin via beta-cryptoxanthin. After a few more intermediates are formed, CrtW and CrtZ act in combination to produce astaxanthin. Sequences of this domain family appear to be structurally related to membrane fatty acid desaturases and alkane hydroxylases. Th
Probab=86.66 E-value=1.5 Score=43.07 Aligned_cols=48 Identities=17% Similarity=-0.005 Sum_probs=27.3
Q ss_pred hHHHhhcCCCCCCCCCcchhHHHHH---Hhhcc------ccccccccCChhhhhcccC
Q psy6526 329 SLAHIYGYRPFSKEILPTENWFVSF---IGAGE------GWHNYHHSFPWDYRAAEMG 377 (696)
Q Consensus 329 s~~H~~g~r~~~~~~~~~~~~~~~~---~~~Ge------~~Hn~HH~~p~d~~~~~~~ 377 (696)
.++|=-+|+.+..+.+-.|..+-.+ +..|- ..|+-||++|.+. .|+--
T Consensus 48 i~~HDa~Hg~~~~~~~~~N~~iG~~~~~l~~g~~~~~~~~~H~~HH~~~~~~-~DpD~ 104 (225)
T cd03513 48 IIAHDAMHGSLAPGNPRLNRAIGRLCLFLYAGFSYDRLLRKHHLHHRHPGTA-KDPDF 104 (225)
T ss_pred HHHHHhhhhccccCCchHHHHHHHHHHHHhhcCCHHHHHHHHHHHcCCCCCC-CCCCC
Confidence 4677677777654333333332212 12233 5688999999776 66443
No 45
>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=86.41 E-value=5.6 Score=42.22 Aligned_cols=26 Identities=31% Similarity=0.571 Sum_probs=19.0
Q ss_pred CCCCCCCCCceeEEEecCCeEEEEEEEEcC
Q psy6526 634 KDSCQGDSGGALLMEDLDGRFLIAGVVSWG 663 (696)
Q Consensus 634 ~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g 663 (696)
.....|.|||||+-. +|+ ++||.+..
T Consensus 193 a~i~~GnSGGpl~n~--~G~--vIGI~~~~ 218 (351)
T TIGR02038 193 AAINAGNSGGALINT--NGE--LVGINTAS 218 (351)
T ss_pred CccCCCCCcceEECC--CCe--EEEEEeee
Confidence 345678899999854 344 99998754
No 46
>PRK10898 serine endoprotease; Provisional
Probab=83.95 E-value=12 Score=39.62 Aligned_cols=27 Identities=30% Similarity=0.530 Sum_probs=19.5
Q ss_pred CCCCCCCCCceeEEEecCCeEEEEEEEEcCC
Q psy6526 634 KDSCQGDSGGALLMEDLDGRFLIAGVVSWGI 664 (696)
Q Consensus 634 ~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g~ 664 (696)
.....|.|||||+-. +|+ ++||.+...
T Consensus 193 a~i~~GnSGGPl~n~--~G~--vvGI~~~~~ 219 (353)
T PRK10898 193 ASINHGNSGGALVNS--LGE--LMGINTLSF 219 (353)
T ss_pred cccCCCCCcceEECC--CCe--EEEEEEEEe
Confidence 345678999999853 454 999987643
No 47
>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=80.52 E-value=9.3 Score=40.57 Aligned_cols=34 Identities=26% Similarity=0.466 Sum_probs=25.6
Q ss_pred CceEEEEEeCC-----------ceEEEEEEcccc-eEEeccccccc
Q psy6526 30 YPWVVALEQAG-----------KFFCGGTLISDR-YVLTAAHCVRS 63 (696)
Q Consensus 30 ~Pw~v~l~~~~-----------~~~CgGtLIs~~-~VLTAAhC~~~ 63 (696)
-|-+|.+.... .....|.+|+++ +|||++|.+.+
T Consensus 55 ~psVV~I~~~~~~~~~~~~~~~~~~GSG~vi~~~G~IlTn~HVV~~ 100 (351)
T TIGR02038 55 APAVVNIYNRSISQNSLNQLSIQGLGSGVIMSKEGYILTNYHVIKK 100 (351)
T ss_pred CCcEEEEEeEeccccccccccccceEEEEEEeCCeEEEecccEeCC
Confidence 47777775321 236999999876 99999999964
No 48
>PLN02598 omega-6 fatty acid desaturase
Probab=79.82 E-value=1.7 Score=47.01 Aligned_cols=20 Identities=20% Similarity=0.225 Sum_probs=17.0
Q ss_pred HHHHHHhhccccccccccCC
Q psy6526 349 WFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 349 ~~~~~~~~Ge~~Hn~HH~~p 368 (696)
.++..++.+=+.|--||.||
T Consensus 329 ~~~~~L~hnIn~HV~HHLfP 348 (421)
T PLN02598 329 AWIEFLCHDISVHIPHHISS 348 (421)
T ss_pred HHHHHHHcCCccchhhhcCC
Confidence 45678888889999999999
No 49
>cd03510 Rhizobitoxine-FADS-like This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine biosynthesis. This domain family appears to be structurally related to the membrane fatty acid desaturases and the alkane hydroxylases. They all share in common extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXX(X)HH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within homologs, stearoyl CoA desaturase and alkane hydroxylase.
Probab=79.26 E-value=0.43 Score=45.09 Aligned_cols=44 Identities=9% Similarity=-0.112 Sum_probs=27.1
Q ss_pred hhccccccccC---CCccccc-ccceEE-----EE---------eecCCCCCCCCCCCCCCC
Q psy6526 194 ISTDSIVEEPS---SMTDTCS-PRPIAL-----KV---------HKDNKDDPKSELTQFKPG 237 (696)
Q Consensus 194 ~~~~~~t~g~H---H~~~~~~-~~~~~~-----~~---------~~~hr~hh~~~~~~~dp~ 237 (696)
....+.-.-.| |+++..+ .+..++ .+ ...|..||++..++.||-
T Consensus 30 ~~~~~l~~l~Hea~H~~l~~~~~~N~~~g~~~~~~p~~~~~~~~r~~H~~HH~~~~~~~Dpd 91 (175)
T cd03510 30 ARQRALAILMHDAAHGLLFRNRRLNDFLGNWLAAVPIFQSLAAYRRSHLKHHRHLGTEDDPD 91 (175)
T ss_pred HHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHhhhhCCHHHHHHHHHHHhCccCCCCCCc
Confidence 45555566667 7766554 322211 11 466888999999887775
No 50
>cd03507 Delta12-FADS-like The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of organisms including higher plants, green algae, diatoms, nematodes, fungi, and bacteria. The expression of these proteins appears to be temperature dependent: decreases in temperature result in increased levels of fatty acid desaturation within membrane lipids subsequently altering cell membrane fluidity. An important enzyme for the production of polyunsaturates in plants is the oleate delta-12 desaturase (Arabidopsis FAD2) of the endoplasmic reticulum. This enzyme accepts l-acyl-2-oleoyl-sn-glycero-3-phosphocholine as substrate and requires NADH:cytochrome b oxidoreductase, cytochrome b, and oxygen for activity. FAD2 converts oleate(18:1) to linoleate (18:2) and is closely related to oleate 12-hydroxylase which cat
Probab=78.99 E-value=1.1 Score=44.05 Aligned_cols=20 Identities=30% Similarity=0.481 Sum_probs=17.2
Q ss_pred HHHHHHhhccccccccccCC
Q psy6526 349 WFVSFIGAGEGWHNYHHSFP 368 (696)
Q Consensus 349 ~~~~~~~~Ge~~Hn~HH~~p 368 (696)
.++.+++.|=+.|--||.||
T Consensus 196 ~~~~~l~~~i~~hv~HHlfP 215 (222)
T cd03507 196 GWLNWLTHIIGTHVAHHLFP 215 (222)
T ss_pred HHHHHHhcCCCcccchhcCC
Confidence 46688888889999999999
No 51
>cd03508 Delta4-sphingolipid-FADS-like The Delta4-sphingolipid Fatty Acid Desaturase (Delta4-sphingolipid-FADS)-like CD includes the integral-membrane enzymes, dihydroceramide Delta-4 desaturase, involved in the synthesis of sphingosine; and the human membrane fatty acid (lipid) desaturase (MLD), reported to modulate biosynthesis of the epidermal growth factor receptor; and other related proteins. These proteins are found in various eukaryotes including vertebrates, higher plants, and fungi. Studies show that MLD is localized to the endoplasmic reticulum. As with other members of this superfamily, this domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXXHH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for
Probab=78.94 E-value=2.5 Score=43.36 Aligned_cols=75 Identities=11% Similarity=0.079 Sum_probs=37.5
Q ss_pred hhhhhhhcccchhHHHHHHHHHHHHhhhhchhhhhhHHHhhcCCCCCCCCCcchhHHHHHH---hhc--c-----ccccc
Q psy6526 294 TLVPYYFWNEGLWISFLICFVTRLVTVLNGTWNVNSLAHIYGYRPFSKEILPTENWFVSFI---GAG--E-----GWHNY 363 (696)
Q Consensus 294 ~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~t~~ins~~H~~g~r~~~~~~~~~~~~~~~~~---~~G--e-----~~Hn~ 363 (696)
++...++...++|..++.+.++-....+... .+.|=.+|..+-.+ +-.|.+ ++.+ ..| . ..|+.
T Consensus 30 ~~~~~~l~~~sw~~~ll~a~vi~~~~~~~l~----~l~Hd~~H~~~f~~-~~~N~~-~g~~~~~~~g~p~~~~~r~~H~~ 103 (289)
T cd03508 30 IITAYLLRDSSWWKILLVAYFFGGTINHSLF----LAIHEISHNLAFGK-PLWNRL-FGIFANLPIGVPYSISFKKYHLE 103 (289)
T ss_pred HHHHHHHhcCcHHHHHHHHHHHHHHHHHHHH----HHHHHhHHHhhcCC-hHHHHH-HHHHHHHHhcCChhhHHHHHHHH
Confidence 3344455556666555555443333333333 45565666665432 222322 2222 223 1 35899
Q ss_pred cccCChhhhhc
Q psy6526 364 HHSFPWDYRAA 374 (696)
Q Consensus 364 HH~~p~d~~~~ 374 (696)
||+++.+.+.|
T Consensus 104 HH~~~n~~~~D 114 (289)
T cd03508 104 HHRYLGEDGLD 114 (289)
T ss_pred hccCCCCCCCC
Confidence 99999765544
No 52
>cd01060 Membrane-FADS-like The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the exception of archaea. Membrane FADSs are non-heme, iron-containing, oxygen-dependent enzymes involved in regioselective introduction of double bonds in fatty acyl aliphatic chains. They play an important role in the maintenance of the proper structure and functioning of biological membranes. Alkane hydroxylases are bacterial, integral-membrane di-iron enzymes that share a requirement for iron and oxygen for activity similar to that of membrane FADSs, and are involved in the initial oxidation of inactivated alkanes. Beta-carotene ketolase and beta-carotene hydroxylase are carotenoid biosynthetic enzymes for astaxanthin and zeaxanthin, respectively. This superfamily domain has extensive hydrophobic regions that would
Probab=76.01 E-value=1.1 Score=39.28 Aligned_cols=46 Identities=22% Similarity=0.294 Sum_probs=27.1
Q ss_pred hhHHHhhcCCCCCCCCCcchhHHHHHH--hhcc------ccccccccCChhhhhc
Q psy6526 328 NSLAHIYGYRPFSKEILPTENWFVSFI--GAGE------GWHNYHHSFPWDYRAA 374 (696)
Q Consensus 328 ns~~H~~g~r~~~~~~~~~~~~~~~~~--~~Ge------~~Hn~HH~~p~d~~~~ 374 (696)
..++|--+|++|..... .|.++..++ .+|- ..|+.||+++.+.+.|
T Consensus 16 ~~~~H~~~H~~~~~~~~-~n~~~~~~~~~~~~~~~~~~~~~H~~HH~~~~~~~~D 69 (122)
T cd01060 16 TVLAHELGHRSFFRSRW-LNRLLGALLGLALGGSYGWWRRSHRRHHRYTNTPGKD 69 (122)
T ss_pred HHHHHHHhhhhhhcccc-HHHHHHHHHHHHHcCCHHHHHHHHHHHhcCcCCCCCC
Confidence 37788668888875433 222222222 1222 6699999999655344
No 53
>PRK10942 serine endoprotease; Provisional
Probab=72.03 E-value=12 Score=41.36 Aligned_cols=57 Identities=28% Similarity=0.409 Sum_probs=35.5
Q ss_pred eEEEEEEccc--ceEEeccccccccCCCcceEEEEeeeecccccccceEEEEEEEEEEcCCCCCCCCCCCCCceEEEEEC
Q psy6526 42 FFCGGTLISD--RYVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKLD 119 (696)
Q Consensus 42 ~~CgGtLIs~--~~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~~~v~~i~~hp~y~~~~~~~~~~DIALl~L~ 119 (696)
....|.+|++ .+|||.+|.+.+ ...+.|.+.. +..+..+-+..+| ..||||||++
T Consensus 111 ~~GSG~ii~~~~G~IlTn~HVv~~---a~~i~V~~~d----------g~~~~a~vv~~D~----------~~DlAvlki~ 167 (473)
T PRK10942 111 ALGSGVIIDADKGYVVTNNHVVDN---ATKIKVQLSD----------GRKFDAKVVGKDP----------RSDIALIQLQ 167 (473)
T ss_pred ceEEEEEEECCCCEEEeChhhcCC---CCEEEEEECC----------CCEEEEEEEEecC----------CCCEEEEEec
Confidence 4799999985 599999999864 2344454321 1223333222222 3699999997
Q ss_pred CC
Q psy6526 120 AP 121 (696)
Q Consensus 120 ~~ 121 (696)
.+
T Consensus 168 ~~ 169 (473)
T PRK10942 168 NP 169 (473)
T ss_pred CC
Confidence 43
No 54
>PRK10898 serine endoprotease; Provisional
Probab=71.25 E-value=20 Score=38.08 Aligned_cols=69 Identities=23% Similarity=0.402 Sum_probs=41.4
Q ss_pred CceEEEEEeCC-----------ceEEEEEEcccc-eEEeccccccccCCCcceEEEEeeeecccccccceEEEEEEEEEE
Q psy6526 30 YPWVVALEQAG-----------KFFCGGTLISDR-YVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIETRRVVKVLT 97 (696)
Q Consensus 30 ~Pw~v~l~~~~-----------~~~CgGtLIs~~-~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~~~v~~i~~ 97 (696)
-|-.|.+.... .....|.+|+++ +|||++|=+.+ ...+.|... + +..+..+-+..
T Consensus 55 ~psvV~v~~~~~~~~~~~~~~~~~~GSGfvi~~~G~IlTn~HVv~~---a~~i~V~~~--------d--g~~~~a~vv~~ 121 (353)
T PRK10898 55 APAVVNVYNRSLNSTSHNQLEIRTLGSGVIMDQRGYILTNKHVIND---ADQIIVALQ--------D--GRVFEALLVGS 121 (353)
T ss_pred CCcEEEEEeEeccccCcccccccceeeEEEEeCCeEEEecccEeCC---CCEEEEEeC--------C--CCEEEEEEEEE
Confidence 47777765321 146999999875 99999999864 233444332 1 12233332222
Q ss_pred cCCCCCCCCCCCCCceEEEEECCC
Q psy6526 98 HPKYNAQGAKSHDHDIALLKLDAP 121 (696)
Q Consensus 98 hp~y~~~~~~~~~~DIALl~L~~~ 121 (696)
.| ..||||||++.+
T Consensus 122 d~----------~~DlAvl~v~~~ 135 (353)
T PRK10898 122 DS----------LTDLAVLKINAT 135 (353)
T ss_pred cC----------CCCEEEEEEcCC
Confidence 22 369999999754
No 55
>cd03514 CrtR_beta-carotene-hydroxylase Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important natural pigments; zeaxanthin and lutein are the only dietary carotenoids that accumulate in the macular region of the retina and lens. It is proposed that these carotenoids protect ocular tissues against photooxidative damage. CrtR does not show overall amino acid sequence similarity to the beta-carotene hydroxylases similar to CrtZ, an astaxanthin biosynthetic beta-carotene hydroxylase. However, CrtR does show sequence similarity to the green alga, Haematococcus pluvialis, beta-carotene ketolase (CrtW), which converts beta-carotene to canthaxanthin. Sequences of the CrtR_beta-carotene-hydroxylase domain family, as well as, the CrtW_beta-carotene-ketolase domain family appear to be structurally related
Probab=70.43 E-value=6.1 Score=38.45 Aligned_cols=23 Identities=22% Similarity=0.358 Sum_probs=18.0
Q ss_pred cceEEEEeecCCCcCCCCCCCcc
Q psy6526 500 NWFVSFIGAGEGWHNYHHSFPWD 522 (696)
Q Consensus 500 ~~~v~~v~~Geg~~n~~~~~p~~ 522 (696)
.+....++.|.++|-.||.+|.-
T Consensus 164 ~~l~~~l~~~~nyH~~HHL~P~I 186 (207)
T cd03514 164 SKLLNPLIMGQNYHLVHHLWPSI 186 (207)
T ss_pred chhHheeecCCchhHHHhCCCCC
Confidence 34456678999999999999973
No 56
>PRK10139 serine endoprotease; Provisional
Probab=69.68 E-value=16 Score=40.30 Aligned_cols=57 Identities=23% Similarity=0.388 Sum_probs=36.1
Q ss_pred eEEEEEEccc--ceEEeccccccccCCCcceEEEEeeeecccccccceEEEEEEEEEEcCCCCCCCCCCCCCceEEEEEC
Q psy6526 42 FFCGGTLISD--RYVLTAAHCVRSSKRHKDLIAVISEHNRATVYETQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKLD 119 (696)
Q Consensus 42 ~~CgGtLIs~--~~VLTAAhC~~~~~~~~~~~v~~g~~~~~~~~~~~~~~~~v~~i~~hp~y~~~~~~~~~~DIALl~L~ 119 (696)
....|.+|++ .+|||.+|.+.+ ...+.|.+. +. ..++.+-+... ...||||||++
T Consensus 90 ~~GSG~ii~~~~g~IlTn~HVv~~---a~~i~V~~~--------dg--~~~~a~vvg~D----------~~~DlAvlkv~ 146 (455)
T PRK10139 90 GLGSGVIIDAAKGYVLTNNHVINQ---AQKISIQLN--------DG--REFDAKLIGSD----------DQSDIALLQIQ 146 (455)
T ss_pred ceEEEEEEECCCCEEEeChHHhCC---CCEEEEEEC--------CC--CEEEEEEEEEc----------CCCCEEEEEec
Confidence 4799999974 699999999965 234555442 11 22333333222 23699999998
Q ss_pred CC
Q psy6526 120 AP 121 (696)
Q Consensus 120 ~~ 121 (696)
.+
T Consensus 147 ~~ 148 (455)
T PRK10139 147 NP 148 (455)
T ss_pred CC
Confidence 54
No 57
>PF00947 Pico_P2A: Picornavirus core protein 2A; InterPro: IPR000081 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This domain defines cysteine peptidases belong to MEROPS peptidase family C3 (picornain, clan PA(C)), subfamilies 3CA and 3CB. The protein fold of this peptidase domain for members of this family resembles that of the serine peptidase, chymotrypsin [], the type example for clan PA. Picornaviral proteins are expressed as a single polyprotein which is cleaved by the viral 3C cysteine protease []. The poliovirus polyprotein is selectively cleaved between the Gln-|-Gly bond. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0016032 viral reproduction; PDB: 2HRV_B 1Z8R_A.
Probab=67.14 E-value=5.2 Score=34.86 Aligned_cols=34 Identities=24% Similarity=0.426 Sum_probs=25.3
Q ss_pred CCCCCceeEEEecCCeEEEEEEEEcCCCCCCCCCCcEEEeCccc
Q psy6526 638 QGDSGGALLMEDLDGRFLIAGVVSWGIGCARPNSPGVYTRVNHY 681 (696)
Q Consensus 638 ~gDsGgPL~~~~~~gr~~lvGI~S~g~~c~~~~~p~vyt~V~~~ 681 (696)
.||-||+|.|+.. ++||++-|- +.-.-|++|+.+
T Consensus 89 PGdCGg~L~C~HG-----ViGi~Tagg-----~g~VaF~dir~~ 122 (127)
T PF00947_consen 89 PGDCGGILRCKHG-----VIGIVTAGG-----EGHVAFADIRDL 122 (127)
T ss_dssp TT-TCSEEEETTC-----EEEEEEEEE-----TTEEEEEECCCG
T ss_pred CCCCCceeEeCCC-----eEEEEEeCC-----CceEEEEechhh
Confidence 4899999999885 899998762 123568998875
No 58
>PRK10139 serine endoprotease; Provisional
Probab=63.73 E-value=23 Score=39.07 Aligned_cols=26 Identities=35% Similarity=0.510 Sum_probs=19.3
Q ss_pred CCCCCCCCCceeEEEecCCeEEEEEEEEcC
Q psy6526 634 KDSCQGDSGGALLMEDLDGRFLIAGVVSWG 663 (696)
Q Consensus 634 ~~~C~gDsGgPL~~~~~~gr~~lvGI~S~g 663 (696)
.....|.|||||+-.+ |+ ++||.+..
T Consensus 207 a~in~GnSGGpl~n~~--G~--vIGi~~~~ 232 (455)
T PRK10139 207 ASINRGNSGGALLNLN--GE--LIGINTAI 232 (455)
T ss_pred CccCCCCCcceEECCC--Ce--EEEEEEEE
Confidence 4456789999998643 44 99998864
No 59
>PLN02598 omega-6 fatty acid desaturase
Probab=55.88 E-value=24 Score=38.35 Aligned_cols=51 Identities=29% Similarity=0.234 Sum_probs=32.9
Q ss_pred hhHHHhhcCCCCCCCCCcchhHHHHHHhh---cc------ccccccccCChhhhhcccCCcC
Q psy6526 328 NSLAHIYGYRPFSKEILPTENWFVSFIGA---GE------GWHNYHHSFPWDYRAAEMGQHF 380 (696)
Q Consensus 328 ns~~H~~g~r~~~~~~~~~~~~~~~~~~~---Ge------~~Hn~HH~~p~d~~~~~~~~~~ 380 (696)
-+++|=-||+.|..+.. .|. +++.+.. +- ..|+.||++++....|+.+.+.
T Consensus 140 ~vl~Hec~H~s~~~~~~-lN~-~vG~~~~~~ll~p~~~wr~~H~~HH~~tn~~~~D~~~~p~ 199 (421)
T PLN02598 140 FVIGHDCGHNSFSKNQL-VED-IVGTIAFTPLIYPFEPWRIKHNTHHAHTNKLVMDTAWQPF 199 (421)
T ss_pred HHHHHhccccCCCCCHH-HHH-HHHHHHHHHhcCCHHHHHHHHHHHccCcCCCCCCCCcCCc
Confidence 47888889999864432 333 3333322 22 5699999999888888655443
No 60
>PLN02869 fatty aldehyde decarbonylase
Probab=55.71 E-value=51 Score=37.06 Aligned_cols=23 Identities=13% Similarity=0.262 Sum_probs=14.8
Q ss_pred HHHHhhccccccccccCChhhhhc
Q psy6526 351 VSFIGAGEGWHNYHHSFPWDYRAA 374 (696)
Q Consensus 351 ~~~~~~Ge~~Hn~HH~~p~d~~~~ 374 (696)
+..+..+-..|+.||..- +...|
T Consensus 238 Lkyll~TPsfHdlHHs~f-d~NYG 260 (620)
T PLN02869 238 LKYLMYTPSYHSLHHTQF-RTNYS 260 (620)
T ss_pred chheecCchHHhHHhccC-CcCcc
Confidence 334455667999999975 43333
No 61
>PRK10942 serine endoprotease; Provisional
Probab=55.59 E-value=33 Score=38.09 Aligned_cols=24 Identities=33% Similarity=0.578 Sum_probs=17.8
Q ss_pred CCCCCCCCceeEEEecCCeEEEEEEEEc
Q psy6526 635 DSCQGDSGGALLMEDLDGRFLIAGVVSW 662 (696)
Q Consensus 635 ~~C~gDsGgPL~~~~~~gr~~lvGI~S~ 662 (696)
..-.|.|||||+..+ |+ ++||.+.
T Consensus 229 ~i~~GnSGGpL~n~~--Ge--viGI~t~ 252 (473)
T PRK10942 229 AINRGNSGGALVNLN--GE--LIGINTA 252 (473)
T ss_pred ccCCCCCcCccCCCC--Ce--EEEEEEE
Confidence 445689999998643 44 9999865
No 62
>cd03511 Rhizopine-oxygenase-like This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase) under the regulation of MocR, act in concert to form a ferredoxin oxygenase system that demethylates 3-O-MSI to form scyllo-inosamine. This domain family appears to be structurally related to the membrane fatty acid desaturases and the alkane hydroxylases. They all share in common extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXXHH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within homologs, stearoyl CoA d
Probab=49.75 E-value=50 Score=33.80 Aligned_cols=48 Identities=8% Similarity=-0.251 Sum_probs=29.3
Q ss_pred hhHHHhhcCCCCCCCCCcchhHHHHHH--hhcc------ccccccccCChhhhhccc
Q psy6526 328 NSLAHIYGYRPFSKEILPTENWFVSFI--GAGE------GWHNYHHSFPWDYRAAEM 376 (696)
Q Consensus 328 ns~~H~~g~r~~~~~~~~~~~~~~~~~--~~Ge------~~Hn~HH~~p~d~~~~~~ 376 (696)
..++|=-+|+++..+.. .|..+-.++ ..|- ..|+.||+++.+...|+.
T Consensus 59 ~~~~He~~H~~~~~~~~-~N~~~g~l~~~~~~~~~~~~~~~H~~HH~~~~~~~~Dpd 114 (285)
T cd03511 59 FARWHECVHGTAFATRW-LNDAVGQIAGLMILLPPDFFRWSHARHHRYTQIPGRDPE 114 (285)
T ss_pred HHHHHHhhcccccCCch-HHHHHHHHHHHHhcCChHHHHHHHHHHhcCcCCCCCCCC
Confidence 45789888988765433 333332222 2233 459999999987766643
No 63
>PF13365 Trypsin_2: Trypsin-like peptidase domain; PDB: 1Y8T_A 2Z9I_A 3QO6_A 1L1J_A 1QY6_A 2O8L_A 3OTP_E 2ZLE_I 1KY9_A 3CS0_A ....
Probab=41.44 E-value=10 Score=32.56 Aligned_cols=21 Identities=10% Similarity=0.071 Sum_probs=17.8
Q ss_pred eeeeeecc-eeeccceEEecccC
Q psy6526 469 LVTVLNGT-WNVNSLAHIYGYRP 490 (696)
Q Consensus 469 ~g~lI~~~-wvLnTAAHC~g~~~ 490 (696)
+|++|.++ ++| |++||+....
T Consensus 2 TGf~i~~~g~il-T~~Hvv~~~~ 23 (120)
T PF13365_consen 2 TGFLIGPDGYIL-TAAHVVEDWN 23 (120)
T ss_dssp EEEEEETTTEEE-EEHHHHTCCT
T ss_pred EEEEEcCCceEE-Echhheeccc
Confidence 48999999 999 9999986543
No 64
>PLN03198 delta6-acyl-lipid desaturase; Provisional
Probab=40.07 E-value=44 Score=37.49 Aligned_cols=43 Identities=19% Similarity=0.076 Sum_probs=26.1
Q ss_pred hHHHhhcCCCCCCCCCcchhHHH---HHHhhcc------ccccccccCChhhh
Q psy6526 329 SLAHIYGYRPFSKEILPTENWFV---SFIGAGE------GWHNYHHSFPWDYR 372 (696)
Q Consensus 329 s~~H~~g~r~~~~~~~~~~~~~~---~~~~~Ge------~~Hn~HH~~p~d~~ 372 (696)
.+.|=.||..+..+.. .|.++- +-+..|- ..||.||++|+...
T Consensus 252 ~l~HD~~H~s~~~~~~-~n~~~g~~~~~~~~G~s~~~W~~~Hn~HH~~tN~~~ 303 (526)
T PLN03198 252 WLSHDFLHNQVFETRW-LNEVVGYLIGNAVLGFSTGWWKEKHNLHHAAPNECD 303 (526)
T ss_pred HHHHhcccccccCCcH-HHHHHHHHHHHhhcCCCHHHHHHHHHHhccCCCCCC
Confidence 5678888888765432 333221 1123444 56999999997653
No 65
>PLN03199 delta6-acyl-lipid desaturase-like protein; Provisional
Probab=38.63 E-value=72 Score=35.50 Aligned_cols=11 Identities=45% Similarity=0.604 Sum_probs=9.8
Q ss_pred ccccccccCCh
Q psy6526 359 GWHNYHHSFPW 369 (696)
Q Consensus 359 ~~Hn~HH~~p~ 369 (696)
..||-||++|+
T Consensus 215 ~~Hn~HH~~tN 225 (485)
T PLN03199 215 NKHNGHHAVPN 225 (485)
T ss_pred HHHhhhhcCcC
Confidence 56999999997
No 66
>COG5274 CYB5 Cytochrome b involved in lipid metabolism [Energy production and conversion / Lipid metabolism]
Probab=38.56 E-value=6.3 Score=36.15 Aligned_cols=39 Identities=10% Similarity=-0.128 Sum_probs=32.0
Q ss_pred CcchhHHHHHHhhccccccccccCChhhhhcccCCcCcchH
Q psy6526 344 LPTENWFVSFIGAGEGWHNYHHSFPWDYRAAEMGQHFNITT 384 (696)
Q Consensus 344 ~~~~~~~~~~~~~Ge~~Hn~HH~~p~d~~~~~~~~~~d~~~ 384 (696)
++++..+.++-+.||+ |+||.+|.|+++...+++++++.
T Consensus 3 s~~~~~~~~l~~~~~~--~~~~~~~~d~~~~~~~~~~~~~~ 41 (164)
T COG5274 3 SKTSEKCVILSDGPKY--TNKLYAGKDHAALDWDSLVQEHA 41 (164)
T ss_pred cccccceEEEeecCCc--ceeeecCccHHHHhHHHhhcchh
Confidence 3445566666788898 99999999999998888888887
No 67
>KOG4232|consensus
Probab=38.39 E-value=44 Score=35.63 Aligned_cols=47 Identities=28% Similarity=0.273 Sum_probs=27.6
Q ss_pred hHHHhhcCCC-CCCCCCc-chhHHHHHHhhcc------ccccccccCChhhhhcc
Q psy6526 329 SLAHIYGYRP-FSKEILP-TENWFVSFIGAGE------GWHNYHHSFPWDYRAAE 375 (696)
Q Consensus 329 s~~H~~g~r~-~~~~~~~-~~~~~~~~~~~Ge------~~Hn~HH~~p~d~~~~~ 375 (696)
.+.|=+||+. |+.+..- .-..+++-+..|- .+||-||+.|+++..++
T Consensus 159 ~l~Hd~gH~~i~~~~~wN~~~~~fv~n~L~G~sa~WW~~~H~~HHa~pN~~~~Dp 213 (430)
T KOG4232|consen 159 WLQHDYGHLSIFKNSKWNHLAQKFVGNHLKGFSAAWWKSHHNQHHAAPNSLDKDP 213 (430)
T ss_pred HHhcccccccccccccHHHHHHHHHhhhcccccHHHHHHHHhhhhccCccCCCCc
Confidence 5667667644 4332221 0123444444554 67999999999888773
No 68
>PF10520 Kua-UEV1_localn: Kua-ubiquitin conjugating enzyme hybrid localisation domain; InterPro: IPR019547 This entry represents part of the transcript of the fusion of two genes, the UEV1. UEV1 is an enzymatically inactive variant of the E2 ubiquitin-conjugating enzymes that regulate non-canonical elongation of ubiquitin chains, and Kua, an otherwise unknown gene. UEV1A is a nuclear protein, whereas both Kua and Kua-UEV localise to cytoplasmic structures, indicating that the addition of a Kua domain to UEV confers new biological properties. UEV1-Kua carries the B domain with its characteristic double histidine motif, and it is probably this domain which determines the cytoplasmic localisation. It is postulated that this hybrid transcript could preferentially direct the variant polyubiquitination of substrates closely associated with the cytoplasmic face of the endoplasmic reticulum, possibly, although not necessarily, in conjunction with membrane-bound ubiquitin-conjugating enzymes [].
Probab=38.07 E-value=1.6e+02 Score=27.78 Aligned_cols=41 Identities=24% Similarity=0.330 Sum_probs=28.0
Q ss_pred hHHHhhcCCCCCCCCCcchhHHHHHHh----hccccccccccCChhhhhc
Q psy6526 329 SLAHIYGYRPFSKEILPTENWFVSFIG----AGEGWHNYHHSFPWDYRAA 374 (696)
Q Consensus 329 s~~H~~g~r~~~~~~~~~~~~~~~~~~----~Ge~~Hn~HH~~p~d~~~~ 374 (696)
--.|.|.|.+.. .|. +...+-. ..-.-|.-||+-|.|..--
T Consensus 99 nq~HkWsH~~~~---~P~--~V~~LQ~~gillsr~~H~~HH~aPh~~~YC 143 (178)
T PF10520_consen 99 NQFHKWSHTYKS---LPP--WVRFLQDAGILLSRKHHRIHHVAPHDTNYC 143 (178)
T ss_pred HHHHHHHcCCCC---CCH--HHHHHHHCCcccCchhhhccccCcccCCeE
Confidence 456999988766 333 4444443 3447899999999887755
No 69
>PLN03198 delta6-acyl-lipid desaturase; Provisional
Probab=35.89 E-value=1.8e+02 Score=32.81 Aligned_cols=49 Identities=27% Similarity=0.345 Sum_probs=32.7
Q ss_pred hHHHHHHhhccccccccccCChhhhhcccCCcCcchHHHHHHHHhhccccccc
Q psy6526 348 NWFVSFIGAGEGWHNYHHSFPWDYRAAEMGQHFNITTLVIDFCAERGWAWGLK 400 (696)
Q Consensus 348 ~~~~~~~~~Ge~~Hn~HH~~p~d~~~~~~~~~~d~~~~~i~~~~~~g~~~~~~ 400 (696)
++++.+++.|=.+|--||-||.-.+.- ---....+-+++++-|+-+...
T Consensus 450 ~~~~~wf~GGLN~QiEHHLFP~iP~~~----l~~i~piVk~~C~k~GlpY~~~ 498 (526)
T PLN03198 450 NIFNDWFTGGLNRQIEHHLFPTMPRHN----LNKIAPQVEAFCIKHGLVYEDV 498 (526)
T ss_pred chHHHHhhcCCcccchhhcCCCCchhh----HHHHhHHHHHHHHHcCCCCCCC
Confidence 478889999999999999999544432 1123344555666666666544
No 70
>KOG0873|consensus
Probab=35.82 E-value=21 Score=35.81 Aligned_cols=20 Identities=30% Similarity=0.350 Sum_probs=14.1
Q ss_pred hhccccccccccCChhhhhc
Q psy6526 355 GAGEGWHNYHHSFPWDYRAA 374 (696)
Q Consensus 355 ~~Ge~~Hn~HH~~p~d~~~~ 374 (696)
-.|...|.+||....+...+
T Consensus 226 y~ga~~HD~HH~~f~~n~~~ 245 (283)
T KOG0873|consen 226 YGGAEHHDYHHLVFIGNFAS 245 (283)
T ss_pred cCCCcccchhhhhccccccc
Confidence 44666999999998444444
No 71
>PF05579 Peptidase_S32: Equine arteritis virus serine endopeptidase S32; InterPro: IPR008760 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S32 (clan PA(S)). The type example is equine arteritis virus serine endopeptidase (equine arteritis virus), which is involved in processing of nidovirus polyproteins [].; GO: 0004252 serine-type endopeptidase activity, 0016032 viral reproduction, 0019082 viral protein processing; PDB: 3FAN_A 3FAO_A 1MBM_A.
Probab=30.85 E-value=37 Score=33.81 Aligned_cols=21 Identities=38% Similarity=0.493 Sum_probs=15.1
Q ss_pred CCCCCceeEEEecCCeEEEEEEEEc
Q psy6526 638 QGDSGGALLMEDLDGRFLIAGVVSW 662 (696)
Q Consensus 638 ~gDsGgPL~~~~~~gr~~lvGI~S~ 662 (696)
.||||+|++.++. .++||.+-
T Consensus 207 ~GDSGSPVVt~dg----~liGVHTG 227 (297)
T PF05579_consen 207 PGDSGSPVVTEDG----DLIGVHTG 227 (297)
T ss_dssp GGCTT-EEEETTC-----EEEEEEE
T ss_pred CCCCCCccCcCCC----CEEEEEec
Confidence 3999999998653 38999764
No 72
>PF02907 Peptidase_S29: Hepatitis C virus NS3 protease; InterPro: IPR004109 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 signature identifies the Hepatitis C virus NS3 protein as a serine protease which belongs to MEROPS peptidase family S29 (hepacivirin family, clan PA(S)), which has a trypsin-like fold. The non-structural (NS) protein NS3 is one of the NS proteins involved in replication of the HCV genome. The NS2 proteinase (IPR002518 from INTERPRO), a zinc-dependent enzyme, performs a single proteolytic cut to release the N terminus of NS3. The action of NS3 proteinase (NS3P), which resides in the N-terminal one-third of the NS3 protein, then yields all remaining non-structural proteins. The C-terminal two-thirds of the NS3 protein contain a helicase. The functional relationship between the proteinase and helicase domains is unknown. NS3 has a structural zinc-binding site and requires cofactor NS4. It has been suggested that the NS3 serine protease of hepatitus C is involved in cell transformation and that the ability to transform requires an active enzyme [].; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis, 0019087 transformation of host cell by virus; PDB: 2QV1_B 3LOX_C 2OBQ_C 2OC1_C 2OC0_A 3LON_A 3KNX_A 2O8M_A 2OBO_A 2OC8_A ....
Probab=29.91 E-value=41 Score=29.70 Aligned_cols=20 Identities=30% Similarity=0.522 Sum_probs=13.8
Q ss_pred CCCCCceeEEEecCCeEEEEEEEE
Q psy6526 638 QGDSGGALLMEDLDGRFLIAGVVS 661 (696)
Q Consensus 638 ~gDsGgPL~~~~~~gr~~lvGI~S 661 (696)
+|-||||++|... .++||..
T Consensus 107 kGSSGgPiLC~~G----H~vG~f~ 126 (148)
T PF02907_consen 107 KGSSGGPILCPSG----HAVGMFR 126 (148)
T ss_dssp TT-TT-EEEETTS----EEEEEEE
T ss_pred ecCCCCcccCCCC----CEEEEEE
Confidence 5789999999763 4788864
No 73
>KOG3011|consensus
Probab=29.85 E-value=1.3e+02 Score=29.67 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=17.3
Q ss_pred HHHHHHhhcc----ccccccccCChhhh
Q psy6526 349 WFVSFIGAGE----GWHNYHHSFPWDYR 372 (696)
Q Consensus 349 ~~~~~~~~Ge----~~Hn~HH~~p~d~~ 372 (696)
+.+++--+|- ..|+.||.-|....
T Consensus 221 wVv~LQd~hlilpRkhH~iHH~aPh~~y 248 (293)
T KOG3011|consen 221 WVVLLQDMHLILPRKHHRIHHVAPHNTY 248 (293)
T ss_pred HHHHHhhcceecccccccccccCccccc
Confidence 5666654444 78999999996654
No 74
>cd03510 Rhizobitoxine-FADS-like This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine biosynthesis. This domain family appears to be structurally related to the membrane fatty acid desaturases and the alkane hydroxylases. They all share in common extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXX(X)HH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within homologs, stearoyl CoA desaturase and alkane hydroxylase.
Probab=29.17 E-value=1.3e+02 Score=28.31 Aligned_cols=42 Identities=12% Similarity=0.017 Sum_probs=24.6
Q ss_pred hhHHHhhcCCCCCCCCCcchhHHHHHH---hhcc------ccccccccCChh
Q psy6526 328 NSLAHIYGYRPFSKEILPTENWFVSFI---GAGE------GWHNYHHSFPWD 370 (696)
Q Consensus 328 ns~~H~~g~r~~~~~~~~~~~~~~~~~---~~Ge------~~Hn~HH~~p~d 370 (696)
..+.|=-+|+.+-.+.. .|..+-.++ .+|- ..|+.||+++.+
T Consensus 36 ~~l~Hea~H~~l~~~~~-~N~~~g~~~~~~p~~~~~~~~r~~H~~HH~~~~~ 86 (175)
T cd03510 36 AILMHDAAHGLLFRNRR-LNDFLGNWLAAVPIFQSLAAYRRSHLKHHRHLGT 86 (175)
T ss_pred HHHHHHHHHhccccccc-HHHHHHHHHHHhhhhCCHHHHHHHHHHHhCccCC
Confidence 47788777877765332 333322121 2232 578999999955
No 75
>PLN02505 omega-6 fatty acid desaturase
Probab=28.77 E-value=89 Score=33.49 Aligned_cols=49 Identities=22% Similarity=0.102 Sum_probs=31.7
Q ss_pred hHHHhhcCCCCCCCCCcchhHHHHHH----hhc--c---ccccccccCChhhhhcccCCc
Q psy6526 329 SLAHIYGYRPFSKEILPTENWFVSFI----GAG--E---GWHNYHHSFPWDYRAAEMGQH 379 (696)
Q Consensus 329 s~~H~~g~r~~~~~~~~~~~~~~~~~----~~G--e---~~Hn~HH~~p~d~~~~~~~~~ 379 (696)
.++|=-||+.|..+.. .|.+ ++.+ ... + ..||.||++++.-..|+.+.+
T Consensus 102 vl~HDcgH~s~~~~~~-lN~~-vG~i~~~~ll~p~~~Wr~~H~~HH~~tn~~~~D~~~~P 159 (381)
T PLN02505 102 VIAHECGHHAFSDYQW-LDDT-VGLVLHSALLVPYFSWKYSHRRHHSNTGSLERDEVFVP 159 (381)
T ss_pred HHHHhhcchhhhCChH-HHHH-HHHHHHHHHcCCHHHHHHHHHHHhhccCCCCCCccccC
Confidence 4888889999865543 2322 2222 222 1 569999999988888876543
No 76
>COG3239 DesA Fatty acid desaturase [Lipid metabolism]
Probab=28.66 E-value=1.1e+02 Score=32.40 Aligned_cols=48 Identities=21% Similarity=0.140 Sum_probs=30.0
Q ss_pred hhhhhHHHhhcCCCCCCCCCcchhHHHHHHhhcc---------ccccccccCChhhhhc
Q psy6526 325 WNVNSLAHIYGYRPFSKEILPTENWFVSFIGAGE---------GWHNYHHSFPWDYRAA 374 (696)
Q Consensus 325 ~~ins~~H~~g~r~~~~~~~~~~~~~~~~~~~Ge---------~~Hn~HH~~p~d~~~~ 374 (696)
....++.|=-||+.|..+.. .| -+++-++... ..||.||++..+...+
T Consensus 76 ~~~~~v~Hd~~Hgs~~~~r~-iN-d~ig~l~~~~~~~p~~~wR~~H~~HH~~t~~~~~d 132 (343)
T COG3239 76 TGLFSVGHDCGHGSFFKNRW-IN-DLIGHLAAALLLAPPVFWRISHNQHHAHTNILDDD 132 (343)
T ss_pred HHHHhhhhhccccchhhhhh-HH-HHHHHHHHHHHhcChhhhhhhHHHhhcccCCCCCC
Confidence 34558889889999843332 22 2333222211 3499999998887777
No 77
>PF00944 Peptidase_S3: Alphavirus core protein ; InterPro: IPR000930 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) [, ]. Togavirin, also known as Sindbis virus core endopeptidase, is a serine protease resident at the N terminus of the p130 polyprotein of togaviruses []. The endopeptidase signature identifies the peptidase as belonging to the MEROPS peptidase family S3 (togavirin family, clan PA(S)). The polyprotein also includes structural proteins for the nucleocapsid core and for the glycoprotein spikes []. Togavirin is only active while part of the polyprotein, cleavage at a Trp-Ser bond resulting in total lack of activity []. Mutagenesis studies have identified the location of the His-Asp-Ser catalytic triad, and X-ray studies have revealed the protein fold to be similar to that of chymotrypsin [, ].; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 2YEW_D 1EP5_A 3J0C_F 1EP6_C 1WYK_D 1DYL_A 1VCQ_B 1VCP_B 1LD4_D 1KXA_A ....
Probab=28.56 E-value=28 Score=30.62 Aligned_cols=24 Identities=33% Similarity=0.513 Sum_probs=16.9
Q ss_pred CCCCCCceeEEEecCCeEEEEEEEEcCC
Q psy6526 637 CQGDSGGALLMEDLDGRFLIAGVVSWGI 664 (696)
Q Consensus 637 C~gDsGgPL~~~~~~gr~~lvGI~S~g~ 664 (696)
-.||||.|++- +.|| +|||+--|.
T Consensus 104 ~~GDSGRpi~D--NsGr--VVaIVLGG~ 127 (158)
T PF00944_consen 104 KPGDSGRPIFD--NSGR--VVAIVLGGA 127 (158)
T ss_dssp STTSTTEEEES--TTSB--EEEEEEEEE
T ss_pred CCCCCCCccCc--CCCC--EEEEEecCC
Confidence 36999999873 3566 778876553
No 78
>cd03512 Alkane-hydroxylase Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes in Pseudomonas oleovorans encode conversion of alkanes to acyl CoA. The alkane omega-hydroxylase (AlkB) system is responsible for the initial oxidation of inactivated alkanes. It is a three-component system comprising a soluble NADH-rubredoxin reductase (AlkT), a soluble rubredoxin (AlkG), and the integral membrane oxygenase (AlkB). AlkB utilizes the oxygen rebound mechanism to hydroxylate alkanes. This mechanism involves homolytic cleavage of the C-H bond by an electrophilic metal-oxo intermediate to generate a substrate-based radical. As with other members of this superfamily, this domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. The active
Probab=26.69 E-value=7.4e+02 Score=25.74 Aligned_cols=16 Identities=25% Similarity=0.258 Sum_probs=9.8
Q ss_pred EeecCCCcCCCCCCCc
Q psy6526 506 IGAGEGWHNYHHSFPW 521 (696)
Q Consensus 506 v~~Geg~~n~~~~~p~ 521 (696)
+.+--++|..||.+|.
T Consensus 259 l~~nl~rHsdHH~~p~ 274 (314)
T cd03512 259 LLFNLQRHSDHHAHPT 274 (314)
T ss_pred HHHhcchhhhhccCCC
Confidence 3444456777777765
No 79
>PLN02498 omega-3 fatty acid desaturase
Probab=25.20 E-value=1.2e+02 Score=33.16 Aligned_cols=53 Identities=23% Similarity=0.149 Sum_probs=36.1
Q ss_pred hhhhhHHHhhcCCCCCCCCCcchhHHHHHHhhc---c------ccccccccCChhhhhcccCCc
Q psy6526 325 WNVNSLAHIYGYRPFSKEILPTENWFVSFIGAG---E------GWHNYHHSFPWDYRAAEMGQH 379 (696)
Q Consensus 325 ~~ins~~H~~g~r~~~~~~~~~~~~~~~~~~~G---e------~~Hn~HH~~p~d~~~~~~~~~ 379 (696)
+.+-.++|=-||+.|..+.. -|-+++.+... - ..||.||++++....|+-+.+
T Consensus 162 ~gL~vl~HDcgHgsf~~~k~--lNd~vG~ll~~~ll~py~~Wr~sH~~HH~~Tn~~e~D~~~~P 223 (450)
T PLN02498 162 WALFVLGHDCGHGSFSNNPK--LNSVVGHLLHSSILVPYHGWRISHRTHHQNHGHVENDESWHP 223 (450)
T ss_pred HHHHHHHHhccccccccChH--HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCCCCCCCc
Confidence 44568899889999976543 22333433222 1 569999999998888887653
No 80
>KOG2987|consensus
Probab=24.40 E-value=19 Score=35.27 Aligned_cols=23 Identities=26% Similarity=0.449 Sum_probs=18.7
Q ss_pred HHHHHHhhccccccccccCChhh
Q psy6526 349 WFVSFIGAGEGWHNYHHSFPWDY 371 (696)
Q Consensus 349 ~~~~~~~~Ge~~Hn~HH~~p~d~ 371 (696)
-.+.++|+.-|+||=||.||+-+
T Consensus 247 GplN~~tfNvGYH~EHHDFP~Ip 269 (324)
T KOG2987|consen 247 GPLNLLTFNVGYHVEHHDFPYIP 269 (324)
T ss_pred cceeeEEEecccccccccCCCCC
Confidence 45677889999999999999543
No 81
>PF08047 His_leader: Histidine operon leader peptide; InterPro: IPR012565 This family consists of the leader peptide of the histidine (his) operon. The his operon contains all the genes necessary for histidine biosynthesis. The region corresponding to the untranslated 5'-end of the transcript, named the his leader region, displays the typical features of the T box transcriptional attenuation mechanism which is involved in the regulation of many amino acid biosynthetic operons [].; GO: 0000105 histidine biosynthetic process
Probab=24.02 E-value=45 Score=17.30 Aligned_cols=9 Identities=0% Similarity=-0.093 Sum_probs=4.3
Q ss_pred CCCCCCCCC
Q psy6526 223 NKDDPKSEL 231 (696)
Q Consensus 223 hr~hh~~~~ 231 (696)
|+-||+++|
T Consensus 8 ~hhhhhhpd 16 (16)
T PF08047_consen 8 HHHHHHHPD 16 (16)
T ss_pred ccccccCCC
Confidence 444555443
No 82
>KOG4349|consensus
Probab=20.34 E-value=1.5e+02 Score=25.73 Aligned_cols=47 Identities=21% Similarity=0.368 Sum_probs=30.4
Q ss_pred eeehhhhHHhhh-----chhhh-hcce-ecccCceeeehhhhHHHHHHHHHHHHhhhhh
Q psy6526 246 IVWFNLIGFAVL-----HLATL-YGYY-LMFTGEVKFATLLYYKTWFTIFSIGIPTLVP 297 (696)
Q Consensus 246 g~~~~~~g~~~~-----~~~~~-~~~~-l~~d~~~~~~~~~~~~~~~~~~~~~~p~~~~ 297 (696)
-.|++.+.|.+. |..+- ...+ |..+|+.+| ....+.+++++.|...+
T Consensus 44 Emwy~vFLWal~Ss~fih~~A~ilalFTLRkHkygrF-----~si~iliMgfi~P~~~G 97 (143)
T KOG4349|consen 44 EMWYSVFLWALLSSMFIHLGATILALFTLRKHKYGRF-----ISIPILIMGFIIPFVFG 97 (143)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCcccee-----eehHHHHHHHHHHHHhc
Confidence 678899999887 43332 3333 667777777 33456677777777544
Done!