Query 013275
Match_columns 446
No_of_seqs 165 out of 197
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 02:11:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013275.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013275hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2625 Uncharacterized conser 100.0 1.3E-97 3E-102 687.1 8.6 348 87-444 1-348 (348)
2 PF06159 DUF974: Protein of un 100.0 2E-70 4.3E-75 532.4 27.9 241 88-328 1-249 (249)
3 PF07919 Gryzun: Gryzun, putat 99.9 2.2E-21 4.9E-26 208.7 34.1 320 88-426 177-554 (554)
4 KOG4386 Uncharacterized conser 99.8 1.2E-20 2.6E-25 192.7 -1.6 317 99-445 446-800 (809)
5 PF12735 Trs65: TRAPP traffick 98.8 4.1E-08 8.9E-13 98.8 12.9 108 333-443 156-306 (306)
6 PF08626 TRAPPC9-Trs120: Trans 98.3 0.00037 8.1E-09 82.1 30.0 307 90-410 788-1184(1185)
7 PF12742 Gryzun-like: Gryzun, 97.7 8.6E-05 1.9E-09 55.4 5.7 50 369-424 8-57 (57)
8 PF12584 TRAPPC10: Trafficking 97.6 0.001 2.2E-08 59.9 11.9 80 343-428 24-114 (147)
9 PF07705 CARDB: CARDB; InterP 96.6 0.025 5.5E-07 46.2 10.2 79 333-420 2-80 (101)
10 PF00927 Transglut_C: Transglu 96.5 0.0049 1.1E-07 52.2 5.5 72 341-418 6-83 (107)
11 PF10633 NPCBM_assoc: NPCBM-as 95.3 0.048 1E-06 43.4 6.0 72 100-175 4-78 (78)
12 PF07919 Gryzun: Gryzun, putat 95.0 4.9 0.00011 43.5 22.4 223 195-420 11-276 (554)
13 PF14874 PapD-like: Flagellar- 94.9 0.3 6.6E-06 40.5 10.0 73 93-172 12-86 (102)
14 PF05753 TRAP_beta: Translocon 93.8 0.56 1.2E-05 43.8 10.1 82 341-425 29-111 (181)
15 PF07705 CARDB: CARDB; InterP 93.4 0.56 1.2E-05 38.1 8.4 77 93-176 11-87 (101)
16 PF10633 NPCBM_assoc: NPCBM-as 90.5 0.82 1.8E-05 36.2 5.9 59 347-411 2-60 (78)
17 PF05753 TRAP_beta: Translocon 90.1 2.5 5.5E-05 39.5 9.7 82 98-180 35-118 (181)
18 smart00809 Alpha_adaptinC2 Ada 86.5 11 0.00025 31.0 10.6 74 100-177 17-90 (104)
19 PF11797 DUF3324: Protein of u 86.2 6 0.00013 35.2 9.2 93 95-191 33-130 (140)
20 PF02883 Alpha_adaptinC2: Adap 84.7 21 0.00045 30.1 11.6 75 99-177 22-101 (115)
21 PF14874 PapD-like: Flagellar- 84.4 8.1 0.00018 31.8 8.7 66 345-418 15-81 (102)
22 PF00207 A2M: Alpha-2-macroglo 81.8 6.1 0.00013 32.3 6.8 42 330-373 51-92 (92)
23 PF00927 Transglut_C: Transglu 81.2 2 4.4E-05 36.0 3.9 75 95-171 9-87 (107)
24 KOG3865 Arrestin [Signal trans 77.5 11 0.00023 38.2 8.0 90 331-424 191-289 (402)
25 PF06159 DUF974: Protein of un 71.8 26 0.00057 34.3 9.3 77 345-421 9-87 (249)
26 KOG3865 Arrestin [Signal trans 70.2 15 0.00032 37.2 7.0 29 98-126 207-235 (402)
27 PF06030 DUF916: Bacterial pro 68.3 24 0.00052 30.7 7.3 60 349-409 26-101 (121)
28 PF00635 Motile_Sperm: MSP (Ma 68.3 14 0.00031 30.5 5.8 56 349-414 17-72 (109)
29 COG1361 S-layer domain [Cell e 63.9 2.1E+02 0.0046 30.7 16.3 151 87-243 153-311 (500)
30 PF11614 FixG_C: IG-like fold 61.7 26 0.00056 29.8 6.2 74 331-412 7-85 (118)
31 PF14524 Wzt_C: Wzt C-terminal 61.0 58 0.0013 27.7 8.5 95 96-194 30-130 (142)
32 PF03896 TRAP_alpha: Transloco 59.2 1.3E+02 0.0028 30.3 11.4 92 87-180 85-183 (285)
33 PF14796 AP3B1_C: Clathrin-ada 56.3 29 0.00063 31.3 5.7 50 352-407 87-136 (145)
34 TIGR03769 P_ac_wall_RPT actino 56.0 27 0.00059 24.5 4.4 34 159-192 8-41 (41)
35 PF01345 DUF11: Domain of unkn 54.3 22 0.00047 27.7 4.2 33 94-126 34-66 (76)
36 COG2847 Copper(I)-binding prot 53.9 1.1E+02 0.0024 27.8 9.1 104 91-205 20-143 (151)
37 PF14796 AP3B1_C: Clathrin-ada 53.5 39 0.00084 30.5 6.0 81 77-162 62-142 (145)
38 PF09624 DUF2393: Protein of u 53.3 85 0.0019 27.8 8.4 61 99-159 60-132 (149)
39 KOG3317 Translocon-associated 53.0 68 0.0015 29.7 7.5 74 349-425 41-115 (188)
40 PF12735 Trs65: TRAPP traffick 49.7 1.9E+02 0.0041 29.2 11.1 46 142-187 256-301 (306)
41 PF13584 BatD: Oxygen toleranc 49.4 3.5E+02 0.0076 28.7 29.4 104 333-444 271-382 (484)
42 PF06280 DUF1034: Fn3-like dom 49.0 1.2E+02 0.0025 25.5 8.2 79 348-428 6-102 (112)
43 PF13584 BatD: Oxygen toleranc 47.7 2.8E+02 0.006 29.5 12.6 130 277-425 72-220 (484)
44 TIGR01451 B_ant_repeat conserv 45.2 41 0.00089 24.7 4.1 31 97-127 8-38 (53)
45 KOG1931 Putative transmembrane 42.7 29 0.00063 40.4 4.3 57 369-427 1069-1125(1156)
46 PF15146 FANCAA: Fanconi anemi 41.7 52 0.0011 34.5 5.6 85 333-421 57-149 (435)
47 PF01345 DUF11: Domain of unkn 38.2 1.3E+02 0.0028 23.2 6.3 46 328-375 19-64 (76)
48 COG5066 SCS2 VAMP-associated p 34.9 75 0.0016 30.5 5.0 74 354-439 21-94 (242)
49 PF14728 PHTB1_C: PTHB1 C-term 31.3 2.8E+02 0.0062 28.9 9.2 80 105-188 1-83 (377)
50 COG1361 S-layer domain [Cell e 31.1 6.8E+02 0.015 26.7 30.2 295 97-421 43-355 (500)
51 PF11906 DUF3426: Protein of u 30.8 1.8E+02 0.004 25.5 6.8 59 348-410 66-135 (149)
52 PF00630 Filamin: Filamin/ABP2 30.6 2.8E+02 0.0061 22.1 8.2 67 97-172 17-90 (101)
53 PF13473 Cupredoxin_1: Cupredo 30.1 1.2E+02 0.0026 25.0 5.2 56 342-417 33-88 (104)
54 PF09478 CBM49: Carbohydrate b 29.1 1.6E+02 0.0035 23.3 5.5 50 105-155 21-76 (80)
55 TIGR02745 ccoG_rdxA_fixG cytoc 28.4 2.2E+02 0.0049 30.3 8.0 88 331-427 322-418 (434)
56 COG1470 Predicted membrane pro 27.1 2.4E+02 0.0052 30.4 7.7 65 345-411 279-343 (513)
57 PF08033 Sec23_BS: Sec23/Sec24 25.9 1.3E+02 0.0027 24.6 4.5 40 143-182 44-85 (96)
58 PF00345 PapD_N: Pili and flag 25.8 2.1E+02 0.0045 24.2 6.0 50 353-407 17-70 (122)
59 PF08626 TRAPPC9-Trs120: Trans 24.9 1.3E+03 0.028 27.9 28.7 154 79-240 625-825 (1185)
60 PF14524 Wzt_C: Wzt C-terminal 24.6 2.2E+02 0.0049 24.0 6.1 91 344-442 29-126 (142)
61 PF02752 Arrestin_C: Arrestin 24.3 1.2E+02 0.0025 25.4 4.2 28 97-124 16-43 (136)
62 PF09624 DUF2393: Protein of u 23.8 3.3E+02 0.0072 24.0 7.2 41 334-375 47-87 (149)
63 PF00207 A2M: Alpha-2-macroglo 23.2 2.9E+02 0.0062 22.2 6.1 39 189-232 49-88 (92)
64 cd05755 Ig2_ICAM-1_like Second 23.1 85 0.0018 26.3 3.0 25 337-361 4-28 (100)
65 KOG1953 Targeting complex (TRA 21.8 2.2E+02 0.0048 33.5 6.6 71 345-425 688-761 (1235)
66 PF03896 TRAP_alpha: Transloco 21.5 7.8E+02 0.017 24.7 9.9 80 344-425 93-177 (285)
67 TIGR03517 GldM_gliding gliding 21.3 5.1E+02 0.011 28.4 9.2 81 93-195 242-322 (523)
68 PF04314 DUF461: Protein of un 21.3 3.1E+02 0.0068 23.0 6.2 62 102-172 15-85 (110)
69 PF11611 DUF4352: Domain of un 20.7 3E+02 0.0066 22.8 6.1 69 102-170 37-112 (123)
No 1
>KOG2625 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.3e-97 Score=687.14 Aligned_cols=348 Identities=30% Similarity=0.533 Sum_probs=322.2
Q ss_pred cccccccccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEEccccCce
Q 013275 87 LLVLPQAFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHDVKELGAH 166 (446)
Q Consensus 87 ~L~LP~sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~lke~G~h 166 (446)
+|.+||.||+|||||||+.||+|||+|++.|++|.+||||||.+||+.|... .....+++|.++.+.+|+||+||+|+|
T Consensus 1 ~l~~pq~f~niflgetfs~yinv~nds~k~v~~i~lk~dlqtssqrl~l~~s-~~~~aei~~~~c~~~vi~hevkeig~h 79 (348)
T KOG2625|consen 1 MLIAPQMFENIFLGETFSFYINVHNDSEKTVKDILLKADLQTSSQRLNLPAS-NAAAAEIEPDCCEDDVIHHEVKEIGQH 79 (348)
T ss_pred CccchhhhcceeeccceEEEEEEecchhhhhhhheeeecccccceeeccccc-hhhhhhcCccccchhhhhHHHHhhccE
Confidence 4789999999999999999999999999999999999999999999999653 344678999999999999999999999
Q ss_pred EEEEEEEEEcCCCceeeeceEEEEEeecCeEEEEEeEEccccccccCCeeEEEEEEEecccccEEEEeEEeeecCCceee
Q 013275 167 TLVCTALYSDGEGERKYLPQFFKFIVSNPLSVRTKVRVVKVGATHFQEITFLEACIENHTKSNLYMDQVEFEPSQNWSAT 246 (446)
Q Consensus 167 ~L~c~VsY~~~~Ge~~~frK~fkF~v~~Pl~VrtK~~~~~~~~~~~~~~~~LEaqiqN~s~~~l~le~v~Lep~~~~~~~ 246 (446)
+|+|+|+|++++||.++|||||||+|.+|++||||||+++..-...++++||||||||+|..+|+||+|+|+|+.+|.++
T Consensus 80 ilicavny~tq~ge~myfrkffkf~v~kpidvktkfynaesdlssv~~dvfleaqien~s~a~mflekv~ldps~~ynvt 159 (348)
T KOG2625|consen 80 ILICAVNYKTQAGEKMYFRKFFKFPVLKPIDVKTKFYNAESDLSSVNDDVFLEAQIENMSNANMFLEKVELDPSIHYNVT 159 (348)
T ss_pred EEEEEEeeeccCccchhHHhhccccccccccccceeecccccccccchhhhhhhhhhcccccchhhhhhccCchheecce
Confidence 99999999999999999999999999999999999999964444557899999999999999999999999999999999
Q ss_pred eecCCCCCCCCCcccccccCCceEEeCCCCeeeEEEEEeecCCCCCCCccccCceeeEEEEEEEEcCCCCCceeeEEeee
Q 013275 247 MLKADGPHSDYNAQSREIFKPPVLIRSGGGIHNYLYQLKMLSHGSSSPVKVQGSNVLGKLQITWRTNLGEPGRLQTQQIL 326 (446)
Q Consensus 247 ~ln~~~~~~~~~~~~~~~~~~~~l~~~~gd~~q~lf~l~~~~~~~~~~~~~~g~~~lGkL~I~WRs~~Ge~G~L~Ts~l~ 326 (446)
+++.+.+.++.-++ |.... +++|.|+|||||||+|+.+..++.+-.++.+.+|||||.||++|||+|||||++||
T Consensus 160 ~i~~~~e~gdcvst----fg~~~-~lkp~d~rq~l~cl~pk~d~~~~~gi~k~lt~igkldi~wktnlgekgrlqts~lq 234 (348)
T KOG2625|consen 160 EIAHEDEAGDCVST----FGSGA-LLKPKDIRQFLFCLKPKADFAEKAGIIKDLTSIGKLDISWKTNLGEKGRLQTSALQ 234 (348)
T ss_pred eecchhhccccccc----ccccc-ccCccchhhheeecCchHHHHHhhccccccceeeeeEEEeeccccccccchHHHHH
Confidence 99988777665433 33332 46789999999999999887656666788999999999999999999999999999
Q ss_pred eecCcCCCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEE
Q 013275 327 GTTITSKEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFH 406 (446)
Q Consensus 327 ~~~~~~~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~ 406 (446)
|.+|+++|++|+++.+|+.|.+++||.++|+++|||+|.|| |++.+++.. ..-++|||+++++||+|.|.+...|.
T Consensus 235 riapgygdvrlsle~~p~~vdleepf~iscki~ncserald-l~l~l~~~n---nrhi~~c~~sg~qlgkl~ps~~l~~a 310 (348)
T KOG2625|consen 235 RIAPGYGDVRLSLEAIPACVDLEEPFEISCKITNCSERALD-LQLELCNPN---NRHIHFCGISGRQLGKLHPSQHLCFA 310 (348)
T ss_pred hhcCCCCceEEEeeccccccccCCCeEEEEEEcccchhhhh-hhhhhcCCC---CceeEEeccccccccCCCCcceeeeE
Confidence 99999999999999999999999999999999999999999 999998763 35799999999999999999999999
Q ss_pred EEEEecccceEEeCceEEEecCCCeeeccCCCeeeEee
Q 013275 407 LNLIATKLGVQRITGITVFDKLEKITYDSLPDLEIFVD 444 (446)
Q Consensus 407 L~l~pl~~Glq~isgi~l~D~~~~r~y~~~~~~~vfV~ 444 (446)
|+++|...|+|+|+||+|+|+++||+|||+|++||||.
T Consensus 311 l~l~~~~~giqsisgiritdtf~kr~ye~ddiaqi~v~ 348 (348)
T KOG2625|consen 311 LNLFPSTQGIQSISGIRITDTFLKRIYEHDDIAQICVS 348 (348)
T ss_pred EeeccchhcceeecceEeehhhhhhhhcccchHHhhcC
Confidence 99999999999999999999999999999999999984
No 2
>PF06159 DUF974: Protein of unknown function (DUF974); InterPro: IPR010378 This is a family of uncharacterised eukaryotic proteins.
Probab=100.00 E-value=2e-70 Score=532.45 Aligned_cols=241 Identities=43% Similarity=0.679 Sum_probs=209.0
Q ss_pred ccccccccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCc--eEeccCCCCC--CccccCCCCeeeEEEEEEcccc
Q 013275 88 LVLPQAFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQ--RILLLDTSKS--PVESIRAGGRYDFIVEHDVKEL 163 (446)
Q Consensus 88 L~LP~sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~--r~~L~~~~~~--~~~~L~pg~~ld~iv~~~lke~ 163 (446)
|+||+|||+|||||||+||||+||+++++|++|.|||||||+++ |+.|.++... ++.+|+||+++|+||+|+|||+
T Consensus 1 L~LP~sfG~iylGEtF~~~l~~~N~s~~~v~~v~ikvemqT~s~~~r~~L~~~~~~~~~~~~L~p~~~l~~iv~~~lkE~ 80 (249)
T PF06159_consen 1 LTLPQSFGSIYLGETFSCYLSVNNDSNKPVRNVRIKVEMQTPSQSLRLPLSDNENSDSPVASLAPGESLDFIVSHELKEL 80 (249)
T ss_pred CCCCcccCCEeecCCEEEEEEeecCCCCceEEeEEEEEEeCCCCCccccCCCCccccccccccCCCCeEeEEEEEEeeec
Confidence 78999999999999999999999999999999999999999999 9999876544 5678999999999999999999
Q ss_pred CceEEEEEEEEEcC---CCceeeeceEEEEEeecCeEEEEEeEEccccc-cccCCeeEEEEEEEecccccEEEEeEEeee
Q 013275 164 GAHTLVCTALYSDG---EGERKYLPQFFKFIVSNPLSVRTKVRVVKVGA-THFQEITFLEACIENHTKSNLYMDQVEFEP 239 (446)
Q Consensus 164 G~h~L~c~VsY~~~---~Ge~~~frK~fkF~v~~Pl~VrtK~~~~~~~~-~~~~~~~~LEaqiqN~s~~~l~le~v~Lep 239 (446)
|+|+|+|+|+|+++ +||+|+|||+|||+|.+||+||||+++++... ...++++||||||||+|+.||+||+|+|+|
T Consensus 81 G~h~L~c~VsY~~~~~~~g~~~tfRK~ykF~v~~PL~VktK~~~~~~~~~~~~~~~~~LEaqlqN~s~~pl~Le~v~lep 160 (249)
T PF06159_consen 81 GNHTLVCTVSYTDPTETSGERRTFRKFYKFQVLNPLSVKTKVYNLEDDSSLSPRERVFLEAQLQNISSGPLFLEKVKLEP 160 (249)
T ss_pred CceEEEEEEEEecCcccCCccceEeeeeEEeCCCCcEEEEEEEecCCccccccceeEEEEEEEEecCCCceEEEEEEeec
Confidence 99999999999999 99999999999999999999999999995211 122349999999999999999999999999
Q ss_pred cCCceeeeecCCCCCCCCCcccccccCCceEEeCCCCeeeEEEEEeecCCCCCCCccccCceeeEEEEEEEEcCCCCCce
Q 013275 240 SQNWSATMLKADGPHSDYNAQSREIFKPPVLIRSGGGIHNYLYQLKMLSHGSSSPVKVQGSNVLGKLQITWRTNLGEPGR 319 (446)
Q Consensus 240 ~~~~~~~~ln~~~~~~~~~~~~~~~~~~~~l~~~~gd~~q~lf~l~~~~~~~~~~~~~~g~~~lGkL~I~WRs~~Ge~G~ 319 (446)
.++|++.++||+....+.......+......+++|+|+|||||+|+++..........+++.+||||+|.||++|||+||
T Consensus 161 ~~~~~~~~ln~~~~~~~~~~~~~~~~~~~~~~L~P~d~~qylF~l~~~~~~~~~~~~~~~~~~lGkL~I~WRs~~Ge~Gr 240 (249)
T PF06159_consen 161 SPGFKVTDLNWEPSGESSDGEFGGISSGSRPYLQPGDVRQYLFCLTPKPEGAQNDSGADGRTNLGKLDIVWRSNMGERGR 240 (249)
T ss_pred CCCceeEecccccccccccccccccccCCcceeCCCCEEEEEEEEEECCccccccccccCcceeeEEEEEEECCCCCCce
Confidence 99999999998765433221111111122345789999999999999987443555678899999999999999999999
Q ss_pred eeEEeeeee
Q 013275 320 LQTQQILGT 328 (446)
Q Consensus 320 L~Ts~l~~~ 328 (446)
|||++|+|.
T Consensus 241 LqT~~L~rr 249 (249)
T PF06159_consen 241 LQTSQLQRR 249 (249)
T ss_pred eehhhcccC
Confidence 999999873
No 3
>PF07919 Gryzun: Gryzun, putative trafficking through Golgi; InterPro: IPR012880 The proteins featured in this family are all hypothetical eukaryotic proteins of unknown function. The region in question is approximately 150 residues long.
Probab=99.91 E-value=2.2e-21 Score=208.65 Aligned_cols=320 Identities=17% Similarity=0.210 Sum_probs=232.8
Q ss_pred ccccccccceeecceEEEEEEEEcCCCcceEEEEEEEEEeC---------CCceEe------ccC----CCCCCccccCC
Q 013275 88 LVLPQAFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQT---------DKQRIL------LLD----TSKSPVESIRA 148 (446)
Q Consensus 88 L~LP~sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT---------~s~r~~------L~~----~~~~~~~~L~p 148 (446)
+.+|..-+-+|+||.+..-|.|.|.++.....+. .+.+.. ...... ..+ ....+++.|++
T Consensus 177 I~~~~~~~~~l~gE~~~i~i~I~n~e~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~l~~ 255 (554)
T PF07919_consen 177 IKLPNHKPPALTGEFYPIPITISNNEDEEASGVL-EVRLLHPSQLGVSSEETEDLSQVNWDSDKDDEPLFLGIPLGELAP 255 (554)
T ss_pred EEeCCCCCCeEcCCEEEEEEEEEcCCCccceeEE-EEEEecccccccccccCccceecccccccccchhccCcccccCCC
Confidence 4556788899999999999999999877655543 333330 011110 000 01234678999
Q ss_pred CCeeeEEEEEEccccCceEEEEEEEEEc--CC--CceeeeceEEEEEeecCe----EEEEEeEEccc--cc---------
Q 013275 149 GGRYDFIVEHDVKELGAHTLVCTALYSD--GE--GERKYLPQFFKFIVSNPL----SVRTKVRVVKV--GA--------- 209 (446)
Q Consensus 149 g~~ld~iv~~~lke~G~h~L~c~VsY~~--~~--Ge~~~frK~fkF~v~~Pl----~VrtK~~~~~~--~~--------- 209 (446)
|++....++......|.+.|.++++|.. .+ +-.-+-.+.+++.+.+|| ++.++++.-+. +.
T Consensus 256 ~~s~~~~l~i~~~~~~~~~L~i~~~Y~l~~~~~~~~~i~~~~~~~l~~~~PF~~~y~~~~~~~~~~~~~p~~f~~~~~~~ 335 (554)
T PF07919_consen 256 GSSITVTLYIRTSRPGEYELSISVSYHLDVESDPETPISKTKTVQLPVINPFEANYDFSPRFHPDPWDMPSPFDVDGSSD 335 (554)
T ss_pred CCcEEEEEEEEeCCceeEEEEEEEEEEEecCCCCceeEEEeEEEeeeEEcCEEeeeeEEeeeccCCccCCcccccccccc
Confidence 9999999999999999999999999975 32 223344667999999999 67777776554 10
Q ss_pred ----------------cccCCeeEEEEEEEecccccEEEEeEEeeecCCceeeeecCCCCCCCCCcccccccCCceEEeC
Q 013275 210 ----------------THFQEITFLEACIENHTKSNLYMDQVEFEPSQNWSATMLKADGPHSDYNAQSREIFKPPVLIRS 273 (446)
Q Consensus 210 ----------------~~~~~~~~LEaqiqN~s~~~l~le~v~Lep~~~~~~~~ln~~~~~~~~~~~~~~~~~~~~l~~~ 273 (446)
...+.+++|.++++|.++++|.|++++|+................... ......++
T Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~s~a~~~L~I~~~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~l~ 407 (554)
T PF07919_consen 336 FQTLNPEPLTRDGILSVGLNQPWCLNSDIESFAPEPLEIEDISLEVLSSNGGASCDVSSEDSSS--------PESGTVLQ 407 (554)
T ss_pred cccccccccccccccccccCCCeEEEccceecCCCceEEEEEEEEEecCCCceeeeeccccccC--------CCccceeC
Confidence 123567899999999999999999999997655443322111100000 00112345
Q ss_pred CCCeeeEEEEEe--ecCCCCCCCccccCceeeEEEEEEEEc-CCCCCceeeEEeeeeecCcCCCeEEEE-EecCceEeeC
Q 013275 274 GGGIHNYLYQLK--MLSHGSSSPVKVQGSNVLGKLQITWRT-NLGEPGRLQTQQILGTTITSKEIELNV-VEVPSVVGID 349 (446)
Q Consensus 274 ~gd~~q~lf~l~--~~~~~~~~~~~~~g~~~lGkL~I~WRs-~~Ge~G~L~Ts~l~~~~~~~~dl~l~v-~~~P~~v~l~ 349 (446)
+++.+...|++. .... ..........+|.+.|.||| ..+..+...++.+........+.++.| +++|+...++
T Consensus 408 ~~~~~~~~f~~~~~~~~~---~~~~~~~~~~~g~~~I~WrR~~~~s~~~~~~t~l~lP~~~v~~~~~~v~~~~p~~~~~~ 484 (554)
T PF07919_consen 408 PGECREDQFCLRLDVQKL---SLDDRRNVTLLGSLVIKWRRNSSNSSDPVVTTPLPLPRVNVPSSPLRVLASVPPSAIVG 484 (554)
T ss_pred cccccccccccccccccc---ccccCccceeEEEEEEEEEECCCCCCCceEEEEeecCceEccCCCcEEEEecCCccccC
Confidence 778887777743 2111 11123446789999999999 566667777777665544555555666 6789999999
Q ss_pred CcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEecccceEEeCceEEEe
Q 013275 350 KPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRITGITVFD 426 (446)
Q Consensus 350 ~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isgi~l~D 426 (446)
.||++.|+|+|+|.+.+. +.+.|+.+ ++|+++|.+...+ .|.|+++.++.++|+|+.+|++.+|.++|.|
T Consensus 485 ~~~~l~~~I~N~T~~~~~-~~~~me~s-----~~F~fsG~k~~~~-~llP~s~~~~~y~l~pl~~G~~~lP~l~v~d 554 (554)
T PF07919_consen 485 EPFTLSYTIENPTNHFQT-FELSMEPS-----DDFMFSGPKQTTF-SLLPFSRHTVRYNLLPLVAGWWILPRLKVRD 554 (554)
T ss_pred cEEEEEEEEECCCCccEE-EEEEEccC-----CCEEEECCCcCce-EECCCCcEEEEEEEEEccCCcEECCcEEEeC
Confidence 999999999999999998 99999776 4699999999999 5999999999999999999999999999987
No 4
>KOG4386 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.78 E-value=1.2e-20 Score=192.75 Aligned_cols=317 Identities=15% Similarity=0.132 Sum_probs=231.0
Q ss_pred ecceEEEEEEEEcCCCcceEEEEEEEEEeCCC-----ceE--eccCC-----------CCCCccccCCCCeeeEEEEEEc
Q 013275 99 LGETFCSYISINNSSTLEVRDVVIKAEIQTDK-----QRI--LLLDT-----------SKSPVESIRAGGRYDFIVEHDV 160 (446)
Q Consensus 99 lGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s-----~r~--~L~~~-----------~~~~~~~L~pg~~ld~iv~~~l 160 (446)
--|.++.++.+.-+....++++..||++..+. +|- .++.. ...+.+.+-+|+...+....++
T Consensus 446 ~~E~~~~~lki~~~kts~~~e~~~kv~~~~Ge~tsLT~rn~~k~~~~~~~~d~~~~~~k~~~a~~v~~~EQ~~Kmlyvrc 525 (809)
T KOG4386|consen 446 HVENIIGFLKIGVAKTSVKLESVEKVDCLIGEVTSLTIRNTCKSSPIHGLLDFKRKEQKHAEAAAVLFVEQELKMLYVRC 525 (809)
T ss_pred chheEEEEEEeeechhhhhhhhhhhcCcccccccceeeecccccCCchhhhhhhhHhhccCchhhcchHHHHHHHHHHhh
Confidence 45788889999999999999999999988763 111 11110 1235667778888888888888
Q ss_pred cccCceEEEEEEEEEcCCC--c---eeeece--EEEEEeecCeEEEEEeEEcccccc---ccCCeeEEEEEEEecccccE
Q 013275 161 KELGAHTLVCTALYSDGEG--E---RKYLPQ--FFKFIVSNPLSVRTKVRVVKVGAT---HFQEITFLEACIENHTKSNL 230 (446)
Q Consensus 161 ke~G~h~L~c~VsY~~~~G--e---~~~frK--~fkF~v~~Pl~VrtK~~~~~~~~~---~~~~~~~LEaqiqN~s~~~l 230 (446)
-.+|....-+.|+|-.++. + .-.+.| .-..+..-||+|+-||...+..+. +.+-.+.|+..+-..++|++
T Consensus 526 gtvgsrmflvyvsyLinttVeekeivckchkdeTvtietvfpfdvavkFvstkfehlervyadIpfllmtdLlsaspwAl 605 (809)
T KOG4386|consen 526 GTVGSRMFLVYVSYLINTTVEEKEIVCKCHKDETVTIETVFPFDVAVKFVSTKFEHLERVYADIPFLLMTDLLSASPWAL 605 (809)
T ss_pred hhhccchhhHHHHHHhhhHHHHhhHhhhccccceEEEEEEeeeeeeeeeehhhhhhccChhhhhhHHHHHHHhhhchHHH
Confidence 8899988888899987531 1 011233 234444556666666665443321 12233445555666688988
Q ss_pred EEEeEEeeecCCceeeeecCCCCCCCCCcccccccCCceEEeCCCCeeeEEEEEeecCCCCCCCccccCceeeEEEEEEE
Q 013275 231 YMDQVEFEPSQNWSATMLKADGPHSDYNAQSREIFKPPVLIRSGGGIHNYLYQLKMLSHGSSSPVKVQGSNVLGKLQITW 310 (446)
Q Consensus 231 ~le~v~Lep~~~~~~~~ln~~~~~~~~~~~~~~~~~~~~l~~~~gd~~q~lf~l~~~~~~~~~~~~~~g~~~lGkL~I~W 310 (446)
.|-..+++-.+.++-++ +. +. +...+++|.|++...+||+.+..- ...+|.++.|++.|+|
T Consensus 606 tIVsSelqlapsmttvd-ql-----eS--------qvdnvilqtgEsasecfclqcpsl-----gniEggvatGhyiisW 666 (809)
T KOG4386|consen 606 TIVSSELQLAPSMTTVD-QL-----ES--------QVDNVILQTGESASECFCLQCPSL-----GNIEGGVATGHYIISW 666 (809)
T ss_pred HHHHHHHhhhhhheeee-cc-----cc--------cccchhhhcccceeeeeeEecccc-----ccccCCCccceEEEEE
Confidence 88887777666555432 10 11 334556788999999999999754 3468899999999999
Q ss_pred EcC--CCCCceeeEEeeeeecCcCCCeEEEE-EecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEe
Q 013275 311 RTN--LGEPGRLQTQQILGTTITSKEIELNV-VEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMIN 387 (446)
Q Consensus 311 Rs~--~Ge~G~L~Ts~l~~~~~~~~dl~l~v-~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~ 387 (446)
|+. |-..-. -|+-+...-.....++|+| .++|++.+|++|..+.+.+.|+|+..++ +++.++++ ++||++
T Consensus 667 kRtsameNipi-ittVitLphviVe~iPlhvnadlpsfgrVReslpvkyhLqnktdlvqd-veisveps-----DaFMFS 739 (809)
T KOG4386|consen 667 KRTSAMENIPI-ITTVITLPHVIVEAIPLHVNADLPSFGRVRESLPVKYHLQNKTDLVQD-VEISVEPS-----DAFMFS 739 (809)
T ss_pred eecccccCCCc-eeeecccccceeeeccceeecCCCCcceecccccEEEEeccccceeee-EEeecccc-----hhheec
Confidence 985 334433 3344443346778899999 6799999999999999999999999999 99999887 689999
Q ss_pred cccceeecccCCCCeeEEEEEEEecccceEEeCceEEEecC-------CCeeeccCCCeeeEeec
Q 013275 388 GLRIMALAPVEAFGSTDFHLNLIATKLGVQRITGITVFDKL-------EKITYDSLPDLEIFVDQ 445 (446)
Q Consensus 388 G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isgi~l~D~~-------~~r~y~~~~~~~vfV~~ 445 (446)
|.+.++| ++.||.+.++.++++|+.+|+|++|.|.|.-.+ +.|++ -++.|||++
T Consensus 740 Glkqirl-riLPGteqemlynfypLmAGyqqlPslninllrfpnfTnQllrRf---iPtsIFVkP 800 (809)
T KOG4386|consen 740 GLKQIRL-RILPGTEQEMLYNFYPLMAGYQQLPSLNINLLRFPNFTNQLLRRF---IPTSIFVKP 800 (809)
T ss_pred ccceEEE-EEcCCCceEEEEEEehhhchhhhCCcccccCccCCchHHHHHHhh---cCceEEEcc
Confidence 9999999 899999999999999999999999998886322 23344 588999975
No 5
>PF12735 Trs65: TRAPP trafficking subunit Trs65; InterPro: IPR024662 This family is one of the subunits of the TRAPP Golgi trafficking complex []. TRAPP subunits are found in two different sized complexes, TRAPP I and TRAPP II. While both complexes contain the same seven subunits, Bet3p, Bet5p, Trs20p, Trs23p, Trs31p, Trs33p and Trs85p, with TRAPPC human equivalents, TRAPP II has the additional three subunits ,Trs65p, Trs120p and Trs130p []. While it has been implicated in cell wall biogenesis and stress response, the role of Trs65 in TRAPP II is supported by the findings that the protein co-localises with Trs130p, and deletion of TRS65 in yeast leads to a conditional lethal phenotype if either one of the other TRAPP II-specific subunits is modified []. Furthermore, the trs65 mutant has reduced Ypt31/32p guanine nucleotide exchange, GEF, activity []. Trs65 is also known as killer toxin-resistance protein 11.
Probab=98.82 E-value=4.1e-08 Score=98.78 Aligned_cols=108 Identities=19% Similarity=0.278 Sum_probs=91.4
Q ss_pred CCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCC----------------------------------
Q 013275 333 KEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDS---------------------------------- 378 (446)
Q Consensus 333 ~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~---------------------------------- 378 (446)
..+.++.. -|..|++|++|..++.|.|+|+..++ |.|.+.+...
T Consensus 156 ~gv~~sF~-gp~~V~~Ge~F~w~v~ivN~S~~~r~-L~l~~~~~r~~~~~~~~~~~~~~~~s~~~~~~~~~~~v~~en~~ 233 (306)
T PF12735_consen 156 SGVTFSFS-GPSSVKVGEPFSWKVFIVNRSSSPRK-LALYVPPRRRRNDERSNSPPPNPSSSSNLNNKQIADAVTDENIV 233 (306)
T ss_pred cCeEEEEe-CCceEecCCeEEEEEEEEECCCCCee-EEEEecCccccccccccCCCCCcccccccccccccccceehhHH
Confidence 35555543 45999999999999999999999998 9999887210
Q ss_pred ------C--C-cceEEEecccceeecccCCCCeeEEEEEEEecccceEEeCceEEEecCCCeeeccCCCeeeEe
Q 013275 379 ------D--E-EKVVMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRITGITVFDKLEKITYDSLPDLEIFV 443 (446)
Q Consensus 379 ------~--~-~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isgi~l~D~~~~r~y~~~~~~~vfV 443 (446)
. . ..++++-.. .+++|.|.||++..+.|.++|+.+|++.|.||+|+|..++..+|+-+..+|||
T Consensus 234 ~~~~~~~~~~~~~gli~Lsn-DiriGpL~P~~c~~~eL~fi~l~~G~~~L~~lkvvDl~t~e~~di~~l~~IvV 306 (306)
T PF12735_consen 234 QAMQKYSSVEESTGLICLSN-DIRIGPLAPGACYSVELRFIALSPGVHNLEGLKVVDLNTNEHVDIGDLPDIVV 306 (306)
T ss_pred HHhhhhcccccCCceEEecc-cccccccCCCceEEEEEEEEEeccceEeecceEEEECCCCceEEeCCCceEEC
Confidence 0 0 235655554 68999999999999999999999999999999999999999999999999997
No 6
>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].
Probab=98.34 E-value=0.00037 Score=82.14 Aligned_cols=307 Identities=18% Similarity=0.240 Sum_probs=177.1
Q ss_pred ccccccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCc-eEecc----------CCC-----CCC-----ccccCC
Q 013275 90 LPQAFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQ-RILLL----------DTS-----KSP-----VESIRA 148 (446)
Q Consensus 90 LP~sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~-r~~L~----------~~~-----~~~-----~~~L~p 148 (446)
++++-=.+|=||+..+.|.+.|.++.+|..+.++..=.|..+ .-.+. +.+ ... -..|+|
T Consensus 788 l~~~~~mlleGE~~~~~ItL~N~S~~pvd~l~~sf~DS~~~~~~~~l~~k~l~~~e~yelE~~l~~~~~~~i~~~~~I~P 867 (1185)
T PF08626_consen 788 LTQGALMLLEGEKQTFTITLRNTSSVPVDFLSFSFQDSTIEPLQKALSNKDLSPDELYELEWQLFKLPAFRILNKPPIPP 867 (1185)
T ss_pred CCCcceEEECCcEEEEEEEEEECCccccceEEEEEEeccHHHHhhhhhcccCChhhhhhhhhhhhcCcceeecccCccCC
Confidence 455445679999999999999999999999988864111100 00010 000 000 017899
Q ss_pred CCeeeEEEEEEcccc--CceEEEEEEEEEc--CCCceeeece---EEEEEeecCeEEE-EEeEEcccc------------
Q 013275 149 GGRYDFIVEHDVKEL--GAHTLVCTALYSD--GEGERKYLPQ---FFKFIVSNPLSVR-TKVRVVKVG------------ 208 (446)
Q Consensus 149 g~~ld~iv~~~lke~--G~h~L~c~VsY~~--~~Ge~~~frK---~fkF~v~~Pl~Vr-tK~~~~~~~------------ 208 (446)
|++..+-++.+.+.. ..+-....+.|.. .+++.-+.|+ -+...|.+.++|. .-+..+...
T Consensus 868 g~~~~~~~~~~~~~~~~~~~~~~i~l~y~~~~~~~~~~y~Rql~ipl~vtV~~slev~~~dilp~~~~~~~~~~~~~~~~ 947 (1185)
T PF08626_consen 868 GESATFTVEVDGKPGPIQLTYADIQLEYGYSGEDSSTFYTRQLSIPLTVTVNPSLEVTRCDILPLNSDSVSSNSDSWISY 947 (1185)
T ss_pred CCEEEEEEEecCcccccceeeeeEEEEecccCCCCCCCeeEEEEEEEEEEEeceEEEeeeeEEecccccccccCcchhhh
Confidence 999999888776653 2444555567763 2344555566 3566666666554 244433100
Q ss_pred -----c---cccCCeeEEEEEEEecccccEEEEeEEeeecCCceeee--ecCCCCCCCCCc---ccccc------cC-Cc
Q 013275 209 -----A---THFQEITFLEACIENHTKSNLYMDQVEFEPSQNWSATM--LKADGPHSDYNA---QSREI------FK-PP 268 (446)
Q Consensus 209 -----~---~~~~~~~~LEaqiqN~s~~~l~le~v~Lep~~~~~~~~--ln~~~~~~~~~~---~~~~~------~~-~~ 268 (446)
+ ....+-.+|...|.|....+|.++ +.+ ...+.... +.. +.... |...+ +. .|
T Consensus 948 ~~~~~~~~~~~~~~~clL~lDlrNsw~~~~~v~-l~~--~~~~~~~~~~I~p----g~t~Ri~vPi~Ri~l~~~~~~~~p 1020 (1185)
T PF08626_consen 948 ITSLKSDVNDDSSDYCLLLLDLRNSWPNPLSVN-LHY--DEDFSSSEITIEP----GHTSRIIVPIKRIYLEDPDFSFKP 1020 (1185)
T ss_pred hhhhcccccCCCCCeEEEEEEEEecCCCceEEE-EEe--ccCccccceEECC----CCeEEEEEEecccccCCcccccCc
Confidence 0 023456799999999999988731 112 12222211 111 00000 00000 00 11
Q ss_pred eEEeCCCCeeeEEEEEeecCCCCCCCccccC-----ceeeEEEEEEEEcCCCCCceeeEEeee----eec--CcCCCeEE
Q 013275 269 VLIRSGGGIHNYLYQLKMLSHGSSSPVKVQG-----SNVLGKLQITWRTNLGEPGRLQTQQIL----GTT--ITSKEIEL 337 (446)
Q Consensus 269 ~l~~~~gd~~q~lf~l~~~~~~~~~~~~~~g-----~~~lGkL~I~WRs~~Ge~G~L~Ts~l~----~~~--~~~~dl~l 337 (446)
. .+....|||+=. +.... .....+. ...+-+|...|+...+..|.+.-..+. ++. .-.+++++
T Consensus 1021 i--p~l~~~rqfv~s---k~s~e-ee~~~re~FW~RE~ll~~l~~~W~~~~~~~G~i~lR~~irLt~~mv~~L~~~~i~i 1094 (1185)
T PF08626_consen 1021 I--PSLSRNRQFVVS---KLSEE-EERAMRELFWYREELLSRLKGTWKESSNSSGEIDLRGIIRLTPRMVDILRLDPIQI 1094 (1185)
T ss_pred C--CCcccCceeEEC---CCCHH-HHHHHHHHHHHHHHHHhhcceEEEcCCCCcEEEEcccccccCHHHHHhhccCccce
Confidence 1 112234565422 21110 0000111 146889999999876669988776652 121 34566655
Q ss_pred EEE--e-cCc---------eEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCC------CCCcceEEEecccceeecccCC
Q 013275 338 NVV--E-VPS---------VVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQND------SDEEKVVMINGLRIMALAPVEA 399 (446)
Q Consensus 338 ~v~--~-~P~---------~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~------~~~~~~~~~~G~s~~~Lg~L~P 399 (446)
.+. . .+. .+.+++.++++++|+|++++++. +.+....+. .+...-++|+|.....++.|+|
T Consensus 1095 ~~~l~~~~~~~~~~~~~~~~v~~~~f~~l~v~i~N~s~~~i~-l~~~~~~~~~~~~~~~~~~~ril~~G~Lq~~l~~l~p 1173 (1185)
T PF08626_consen 1095 DFSLSDDSDSVKVGESSKFSVQVDEFYTLRVTITNRSSRPIS-LRLQPSLDHQNGNVALDLDRRILWNGSLQQPLPELEP 1173 (1185)
T ss_pred EEEEcccccccccCcceeEEEecCCcEEEEEEeecCCCCcee-eEeeeeccCCCcccccCcCCeEEEEccCcccccccCC
Confidence 552 2 222 36799999999999999999876 443332221 1234569999999999999999
Q ss_pred CCeeEEEEEEE
Q 013275 400 FGSTDFHLNLI 410 (446)
Q Consensus 400 ~~s~~~~L~l~ 410 (446)
+++.++.+.++
T Consensus 1174 ~~~~~~~~~li 1184 (1185)
T PF08626_consen 1174 GESTEHELSLI 1184 (1185)
T ss_pred CceEEEEEEEE
Confidence 99999999876
No 7
>PF12742 Gryzun-like: Gryzun, putative Golgi trafficking
Probab=97.72 E-value=8.6e-05 Score=55.44 Aligned_cols=50 Identities=16% Similarity=0.237 Sum_probs=44.8
Q ss_pred EEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEecccceEEeCceEE
Q 013275 369 FEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRITGITV 424 (446)
Q Consensus 369 l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isgi~l 424 (446)
+.|.++++ +.|+++|.+.+++ .+.||+..++.++++|+..|++.+|-|.|
T Consensus 8 lli~V~~n-----~~F~v~G~~~~~~-~~~~~~~~~i~~~Fipl~aG~~~LP~I~I 57 (57)
T PF12742_consen 8 LLIEVDKN-----DNFIVCGPKKMNF-HMWPGQKFEIPYNFIPLTAGFLKLPKINI 57 (57)
T ss_pred eEEEEcCC-----CceEEEccceeEE-EEccCceEEEEEEEEEeehheecCccccC
Confidence 55777765 6899999999998 89999999999999999999999999864
No 8
>PF12584 TRAPPC10: Trafficking protein particle complex subunit 10, TRAPPC10; InterPro: IPR022233 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. This entry represents a domain which forms part of the TRAPP complex for mediating vesicle docking and fusion in the Golgi apparatus. The fungal version is referred to as Trs130, and an alternative vertebrate alias is TMEM1 [, ].
Probab=97.58 E-value=0.001 Score=59.91 Aligned_cols=80 Identities=14% Similarity=0.260 Sum_probs=63.4
Q ss_pred CceEeeCCcEEEEEEEEeC-----------CCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEe
Q 013275 343 PSVVGIDKPFLLKLKLTNQ-----------TDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIA 411 (446)
Q Consensus 343 P~~v~l~~pF~v~~~v~N~-----------s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~p 411 (446)
+...++++|..++++|+|. .+.... +...+..+ .+.++++|.+...+ .+..++..+|.+.|+|
T Consensus 24 ~~~~~vGqpi~~~l~I~~~~~W~~~~~~~~~~~~~~-~~yei~a~----~~~WlV~Grrrg~f-~~~~~~~~~~~l~LIP 97 (147)
T PF12584_consen 24 PPPCRVGQPIPAELRIKNSRKWSSEDQEESSNEDTE-FMYEIVAD----SDNWLVSGRRRGVF-SLSDGSEHEIPLTLIP 97 (147)
T ss_pred CcceEeCCeEEEEEEEEEcccCCccccccccCCCcc-EEEEEecC----CCcEEEeccCcceE-EecCCCeEEEEEEEEe
Confidence 5567999999999999995 122233 54555333 36799999998777 5589999999999999
Q ss_pred cccceEEeCceEEEecC
Q 013275 412 TKLGVQRITGITVFDKL 428 (446)
Q Consensus 412 l~~Glq~isgi~l~D~~ 428 (446)
|..|+-.+|.|+|....
T Consensus 98 L~~G~L~lP~V~i~~~~ 114 (147)
T PF12584_consen 98 LRAGYLPLPKVEIRPYD 114 (147)
T ss_pred cccceecCCEEEEEecc
Confidence 99999999999998544
No 9
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=96.59 E-value=0.025 Score=46.24 Aligned_cols=79 Identities=11% Similarity=0.185 Sum_probs=55.9
Q ss_pred CCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEec
Q 013275 333 KEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIAT 412 (446)
Q Consensus 333 ~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl 412 (446)
.||.+.+...|..+..++++++++.|+|.-.....++.+.+..+. ... ....++.|.||++..+.+++-+-
T Consensus 2 pDL~v~~~~~~~~~~~g~~~~i~~~V~N~G~~~~~~~~v~~~~~~-----~~~----~~~~i~~L~~g~~~~v~~~~~~~ 72 (101)
T PF07705_consen 2 PDLTVSITVSPSNVVPGEPVTITVTVKNNGTADAENVTVRLYLDG-----NSV----STVTIPSLAPGESETVTFTWTPP 72 (101)
T ss_dssp --EEE-EEEC-SEEETTSEEEEEEEEEE-SSS-BEEEEEEEEETT-----EEE----EEEEESEB-TTEEEEEEEEEE-S
T ss_pred CCEEEEEeeCCCcccCCCEEEEEEEEEECCCCCCCCEEEEEEECC-----cee----ccEEECCcCCCcEEEEEEEEEeC
Confidence 467776678999999999999999999995555655777776542 122 34567899999999999999999
Q ss_pred ccceEEeC
Q 013275 413 KLGVQRIT 420 (446)
Q Consensus 413 ~~Glq~is 420 (446)
.+|.+.|.
T Consensus 73 ~~G~~~i~ 80 (101)
T PF07705_consen 73 SPGSYTIR 80 (101)
T ss_dssp S-CEEEEE
T ss_pred CCCeEEEE
Confidence 99988853
No 10
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=96.53 E-value=0.0049 Score=52.17 Aligned_cols=72 Identities=13% Similarity=0.196 Sum_probs=54.6
Q ss_pred ecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEeccc------ceeecccCCCCeeEEEEEEEeccc
Q 013275 341 EVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLR------IMALAPVEAFGSTDFHLNLIATKL 414 (446)
Q Consensus 341 ~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s------~~~Lg~L~P~~s~~~~L~l~pl~~ 414 (446)
++++.+.++++|.+.++++|.++..+..+.+.+.- ..+.++|.. ......|.|+++..+.+.+.|...
T Consensus 6 ~~~~~~~vG~d~~v~v~~~N~~~~~l~~v~~~l~~------~~v~ytG~~~~~~~~~~~~~~l~p~~~~~~~~~i~p~~y 79 (107)
T PF00927_consen 6 KLPGDPVVGQDFTVSVSFTNPSSEPLRNVSLNLCA------FTVEYTGLTRDQFKKEKFEVTLKPGETKSVEVTITPSQY 79 (107)
T ss_dssp EEESEEBTTSEEEEEEEEEE-SSS-EECEEEEEEE------EEEECTTTEEEEEEEEEEEEEE-TTEEEEEEEEE-HHSH
T ss_pred EECCCccCCCCEEEEEEEEeCCcCccccceeEEEE------EEEEECCcccccEeEEEcceeeCCCCEEEEEEEEEceeE
Confidence 46677889999999999999988884447777754 357777774 335678999999999999999999
Q ss_pred ceEE
Q 013275 415 GVQR 418 (446)
Q Consensus 415 Glq~ 418 (446)
|-.+
T Consensus 80 G~~~ 83 (107)
T PF00927_consen 80 GPKQ 83 (107)
T ss_dssp EEEC
T ss_pred ecch
Confidence 9843
No 11
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=95.32 E-value=0.048 Score=43.41 Aligned_cols=72 Identities=22% Similarity=0.321 Sum_probs=45.6
Q ss_pred cceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEEccc---cCceEEEEEEEEE
Q 013275 100 GETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHDVKE---LGAHTLVCTALYS 175 (446)
Q Consensus 100 GEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~lke---~G~h~L~c~VsY~ 175 (446)
||++...+.|.|.....++++.+.+++ |..+. . ......+..|+||++....+...+-+ .|.|.+.+.+.|+
T Consensus 4 G~~~~~~~tv~N~g~~~~~~v~~~l~~--P~GW~-~-~~~~~~~~~l~pG~s~~~~~~V~vp~~a~~G~y~v~~~a~y~ 78 (78)
T PF10633_consen 4 GETVTVTLTVTNTGTAPLTNVSLSLSL--PEGWT-V-SASPASVPSLPPGESVTVTFTVTVPADAAPGTYTVTVTARYT 78 (78)
T ss_dssp TEEEEEEEEEE--SSS-BSS-EEEEE----TTSE-----EEEEE--B-TTSEEEEEEEEEE-TT--SEEEEEEEEEE--
T ss_pred CCEEEEEEEEEECCCCceeeEEEEEeC--CCCcc-c-cCCccccccCCCCCEEEEEEEEECCCCCCCceEEEEEEEEeC
Confidence 999999999999999999998887776 55443 1 00112244899999888777777754 5999999999995
No 12
>PF07919 Gryzun: Gryzun, putative trafficking through Golgi; InterPro: IPR012880 The proteins featured in this family are all hypothetical eukaryotic proteins of unknown function. The region in question is approximately 150 residues long.
Probab=95.03 E-value=4.9 Score=43.45 Aligned_cols=223 Identities=11% Similarity=0.149 Sum_probs=120.4
Q ss_pred CeEEEEEeEEccccccccCCeeEEEEEEEecccccEEEEeEEeeecCCceeeeecCCCC-CCCCCccc---ccccCCceE
Q 013275 195 PLSVRTKVRVVKVGATHFQEITFLEACIENHTKSNLYMDQVEFEPSQNWSATMLKADGP-HSDYNAQS---REIFKPPVL 270 (446)
Q Consensus 195 Pl~VrtK~~~~~~~~~~~~~~~~LEaqiqN~s~~~l~le~v~Lep~~~~~~~~ln~~~~-~~~~~~~~---~~~~~~~~l 270 (446)
+|+.+..|.... ....+.+.+++.|.+....||.+.++++.-++.-.-..+..+.. ....+.+. ...-....+
T Consensus 11 ~l~~~~~F~~~~---~~~~~~~~~ql~i~S~~~~pi~~s~l~V~fs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 87 (554)
T PF07919_consen 11 FLEASVAFSQSE---GKVGEPVQFQLSIRSNAPSPIRFSSLKVNFSGSLYPIVISHSDADASSADSSTSSGSPLSGSADL 87 (554)
T ss_pred cEEEEEEEccCC---ccCCCeEEEEEEEEcCCCCCEEeeEEEEEeeCCCCCceEeccccccccccCcccccccccCccce
Confidence 455555554432 11366788899999999999999999998665422211111110 00000000 001123345
Q ss_pred EeCCCCeeeEEEEEeecCCCCCCCccccC-ceeeE----EEEEEEEcCCCCC---ceeeEEee---------------ee
Q 013275 271 IRSGGGIHNYLYQLKMLSHGSSSPVKVQG-SNVLG----KLQITWRTNLGEP---GRLQTQQI---------------LG 327 (446)
Q Consensus 271 ~~~~gd~~q~lf~l~~~~~~~~~~~~~~g-~~~lG----kL~I~WRs~~Ge~---G~L~Ts~l---------------~~ 327 (446)
.+.||....|-|.+.++............ ...+| .+.+.|+-..+.. ....++.. .+
T Consensus 88 ~l~p~~~kv~~~~~~~~~~~~~g~~~i~sv~L~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~i~ 167 (554)
T PF07919_consen 88 TLSPGQTKVFSFKFVPREQDVSGELEITSVTLQLGSDKFDLTLSWSFESSSSSSSFWWWQSSDGPKSRPIRKPRDQSSIR 167 (554)
T ss_pred EEeecceEEEEEEEeccccccCCcEEEEEEEEEEecCeEEEEEEeccccccccccccccccCCcceeeeccCCCCCCEEE
Confidence 56688888888887776521101111111 23455 3556676542221 11111110 01
Q ss_pred ecCcCCCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCccc-EEEEEe--------eCCCCCcceEEEec-------ccc
Q 013275 328 TTITSKEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGP-FEIWLS--------QNDSDEEKVVMING-------LRI 391 (446)
Q Consensus 328 ~~~~~~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~-l~l~l~--------~~~~~~~~~~~~~G-------~s~ 391 (446)
-.+....+++.+.+.-....++|.+.+.++|.|..++.... +.+.+- ...+......-|.+ ...
T Consensus 168 I~p~pp~v~I~~~~~~~~~l~gE~~~i~i~I~n~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (554)
T PF07919_consen 168 ILPRPPKVSIKLPNHKPPALTGEFYPIPITISNNEDEEASGVLEVRLLHPSQLGVSSEETEDLSQVNWDSDKDDEPLFLG 247 (554)
T ss_pred EECCCCCeEEEeCCCCCCeEcCCEEEEEEEEEcCCCccceeEEEEEEecccccccccccCccceecccccccccchhccC
Confidence 12344566666644456678999999999999998776651 222332 01100111122333 335
Q ss_pred eeecccCCCCeeEEEEEEEecccceEEeC
Q 013275 392 MALAPVEAFGSTDFHLNLIATKLGVQRIT 420 (446)
Q Consensus 392 ~~Lg~L~P~~s~~~~L~l~pl~~Glq~is 420 (446)
..+|.|.++++.+..+.+....+|-..|.
T Consensus 248 ~~lg~l~~~~s~~~~l~i~~~~~~~~~L~ 276 (554)
T PF07919_consen 248 IPLGELAPGSSITVTLYIRTSRPGEYELS 276 (554)
T ss_pred cccccCCCCCcEEEEEEEEeCCceeEEEE
Confidence 67899999999999999887666666554
No 13
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=94.92 E-value=0.3 Score=40.50 Aligned_cols=73 Identities=16% Similarity=0.299 Sum_probs=53.4
Q ss_pred cccceeecceEEEEEEEEcCCCcceEEEEEEEEEeC-CCceEeccCCCCCCccccCCCCeeeEEEEEE-ccccCceEEEE
Q 013275 93 AFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQT-DKQRILLLDTSKSPVESIRAGGRYDFIVEHD-VKELGAHTLVC 170 (446)
Q Consensus 93 sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT-~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~-lke~G~h~L~c 170 (446)
.||++.+|++.+..|.+.|.+..++ ++++.... .+..+.... .-+.|+||++.+.-|.+. -++.|.+.-..
T Consensus 12 dFG~v~~g~~~~~~v~l~N~s~~p~---~f~v~~~~~~~~~~~v~~----~~g~l~PG~~~~~~V~~~~~~~~g~~~~~l 84 (102)
T PF14874_consen 12 DFGNVFVGQTYSRTVTLTNTSSIPA---RFRVRQPESLSSFFSVEP----PSGFLAPGESVELEVTFSPTKPLGDYEGSL 84 (102)
T ss_pred EeeEEccCCEEEEEEEEEECCCCCE---EEEEEeCCcCCCCEEEEC----CCCEECCCCEEEEEEEEEeCCCCceEEEEE
Confidence 6999999999999999999998874 44444443 223333321 135799999999999999 88889775444
Q ss_pred EE
Q 013275 171 TA 172 (446)
Q Consensus 171 ~V 172 (446)
.|
T Consensus 85 ~i 86 (102)
T PF14874_consen 85 VI 86 (102)
T ss_pred EE
Confidence 44
No 14
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=93.84 E-value=0.56 Score=43.84 Aligned_cols=82 Identities=9% Similarity=0.024 Sum_probs=63.9
Q ss_pred ecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcce-EEEecccceeecccCCCCeeEEEEEEEecccceEEe
Q 013275 341 EVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKV-VMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRI 419 (446)
Q Consensus 341 ~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~-~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~i 419 (446)
-++..+..++-++|++.|.|.-+.... .|.+..+.= ..+. -++.|.....+..|+||++..+.+.+-|...|...+
T Consensus 29 il~~~~v~g~~v~V~~~iyN~G~~~A~--dV~l~D~~f-p~~~F~lvsG~~s~~~~~i~pg~~vsh~~vv~p~~~G~f~~ 105 (181)
T PF05753_consen 29 ILNKYLVEGEDVTVTYTIYNVGSSAAY--DVKLTDDSF-PPEDFELVSGSLSASWERIPPGENVSHSYVVRPKKSGYFNF 105 (181)
T ss_pred eccccccCCcEEEEEEEEEECCCCeEE--EEEEECCCC-CccccEeccCceEEEEEEECCCCeEEEEEEEeeeeeEEEEc
Confidence 366777889999999999999555443 355543210 1123 468898889999999999999999999999999999
Q ss_pred CceEEE
Q 013275 420 TGITVF 425 (446)
Q Consensus 420 sgi~l~ 425 (446)
..-.|.
T Consensus 106 ~~a~Vt 111 (181)
T PF05753_consen 106 TPAVVT 111 (181)
T ss_pred cCEEEE
Confidence 997775
No 15
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=93.38 E-value=0.56 Score=38.13 Aligned_cols=77 Identities=13% Similarity=0.204 Sum_probs=54.4
Q ss_pred cccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEEccccCceEEEEEE
Q 013275 93 AFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHDVKELGAHTLVCTA 172 (446)
Q Consensus 93 sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~lke~G~h~L~c~V 172 (446)
+-+.++.|+.+...+.|.|.......++.++..+ ....+ . ...+..|+||++....+.+...+.|.|.+.+.|
T Consensus 11 ~~~~~~~g~~~~i~~~V~N~G~~~~~~~~v~~~~--~~~~~---~--~~~i~~L~~g~~~~v~~~~~~~~~G~~~i~~~i 83 (101)
T PF07705_consen 11 SPSNVVPGEPVTITVTVKNNGTADAENVTVRLYL--DGNSV---S--TVTIPSLAPGESETVTFTWTPPSPGSYTIRVVI 83 (101)
T ss_dssp C-SEEETTSEEEEEEEEEE-SSS-BEEEEEEEEE--TTEEE---E--EEEESEB-TTEEEEEEEEEE-SS-CEEEEEEEE
T ss_pred CCCcccCCCEEEEEEEEEECCCCCCCCEEEEEEE--CCcee---c--cEEECCcCCCcEEEEEEEEEeCCCCeEEEEEEE
Confidence 3456899999999999999988888888777533 22222 1 122568999999999999999999999999988
Q ss_pred EEEc
Q 013275 173 LYSD 176 (446)
Q Consensus 173 sY~~ 176 (446)
.+..
T Consensus 84 D~~n 87 (101)
T PF07705_consen 84 DPDN 87 (101)
T ss_dssp STTT
T ss_pred eeCC
Confidence 6643
No 16
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=90.47 E-value=0.82 Score=36.23 Aligned_cols=59 Identities=10% Similarity=0.012 Sum_probs=34.4
Q ss_pred eeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEe
Q 013275 347 GIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIA 411 (446)
Q Consensus 347 ~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~p 411 (446)
.-++++++++.|+|..+..+..+.+.++-- .++- ...+...++.|.||++.++.+.+-|
T Consensus 2 ~~G~~~~~~~tv~N~g~~~~~~v~~~l~~P-----~GW~-~~~~~~~~~~l~pG~s~~~~~~V~v 60 (78)
T PF10633_consen 2 TPGETVTVTLTVTNTGTAPLTNVSLSLSLP-----EGWT-VSASPASVPSLPPGESVTVTFTVTV 60 (78)
T ss_dssp -TTEEEEEEEEEE--SSS-BSS-EEEEE-------TTSE----EEEEE--B-TTSEEEEEEEEEE
T ss_pred CCCCEEEEEEEEEECCCCceeeEEEEEeCC-----CCcc-ccCCccccccCCCCCEEEEEEEEEC
Confidence 457889999999999665544477777642 2343 2333456668999999999998765
No 17
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=90.10 E-value=2.5 Score=39.46 Aligned_cols=82 Identities=21% Similarity=0.215 Sum_probs=62.9
Q ss_pred eecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCC-CCCccccCCCCeeeEEEEEEccccCceEE-EEEEEEE
Q 013275 98 YLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTS-KSPVESIRAGGRYDFIVEHDVKELGAHTL-VCTALYS 175 (446)
Q Consensus 98 ylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~-~~~~~~L~pg~~ld~iv~~~lke~G~h~L-~c~VsY~ 175 (446)
-.|+.....+.+-|.-+..+.||.|.-+= -++....|.... ......|.||+++.-++.-.=+..|.|.+ ...|+|+
T Consensus 35 v~g~~v~V~~~iyN~G~~~A~dV~l~D~~-fp~~~F~lvsG~~s~~~~~i~pg~~vsh~~vv~p~~~G~f~~~~a~VtY~ 113 (181)
T PF05753_consen 35 VEGEDVTVTYTIYNVGSSAAYDVKLTDDS-FPPEDFELVSGSLSASWERIPPGENVSHSYVVRPKKSGYFNFTPAVVTYR 113 (181)
T ss_pred cCCcEEEEEEEEEECCCCeEEEEEEECCC-CCccccEeccCceEEEEEEECCCCeEEEEEEEeeeeeEEEEccCEEEEEE
Confidence 45999999999999999999999997711 133444443221 12246899999998888888899999988 6779999
Q ss_pred cCCCc
Q 013275 176 DGEGE 180 (446)
Q Consensus 176 ~~~Ge 180 (446)
...|.
T Consensus 114 ~~~~~ 118 (181)
T PF05753_consen 114 DSEGA 118 (181)
T ss_pred CCCCC
Confidence 87663
No 18
>smart00809 Alpha_adaptinC2 Adaptin C-terminal domain. Adaptins are components of the adaptor complexes which link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. Gamma-adaptin is a subunit of the golgi adaptor. Alpha adaptin is a heterotetramer that regulates clathrin-bud formation. The carboxyl-terminal appendage of the alpha subunit regulates translocation of endocytic accessory proteins to the bud site. This Ig-fold domain is found in alpha, beta and gamma adaptins and consists of a beta-sandwich containing 7 strands in 2 beta-sheets in a greek-key topology PUBMED:10430869, PUBMED:12176391. The adaptor appendage contains an additional N-terminal strand.
Probab=86.52 E-value=11 Score=31.00 Aligned_cols=74 Identities=14% Similarity=0.151 Sum_probs=58.8
Q ss_pred cceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEEccccCceEEEEEEEEEcC
Q 013275 100 GETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHDVKELGAHTLVCTALYSDG 177 (446)
Q Consensus 100 GEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~lke~G~h~L~c~VsY~~~ 177 (446)
+...+..+.+.|.+..++++..+.+-. .....+.+...+ ...|.||+.+...+.......+.-.+.+.|+|..+
T Consensus 17 ~~~~~i~~~~~N~s~~~it~f~~~~av-pk~~~l~l~~~s---~~~l~p~~~i~q~~~i~~~~~~~~~~~~~vsy~~~ 90 (104)
T smart00809 17 PGLIRITLTFTNKSPSPITNFSFQAAV-PKSLKLQLQPPS---SPTLPPGGQITQVLKVENPGKFPLRLRLRLSYLLG 90 (104)
T ss_pred CCeEEEEEEEEeCCCCeeeeEEEEEEc-ccceEEEEcCCC---CCccCCCCCEEEEEEEECCCCCCEEEEEEEEEEEC
Confidence 445678889999999999999998863 345566664322 24689999999999999988888999999999986
No 19
>PF11797 DUF3324: Protein of unknown function C-terminal (DUF3324); InterPro: IPR021759 This family consists of several hypothetical bacterial proteins of unknown function.
Probab=86.22 E-value=6 Score=35.20 Aligned_cols=93 Identities=13% Similarity=0.181 Sum_probs=68.7
Q ss_pred cceeecc---eEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEE--ccccCceEEE
Q 013275 95 GAIYLGE---TFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHD--VKELGAHTLV 169 (446)
Q Consensus 95 G~iylGE---tFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~--lke~G~h~L~ 169 (446)
+++-+|+ .....+.+.|....-+.++.+++++.-..+.-.+.... .....++|+..+++-|..+ -=..|.|.|.
T Consensus 33 ~~v~~~~~n~~~~i~~~l~N~~~~~l~~~~v~a~V~~~~~~k~~~~~~-~~~~~mAPNS~f~~~i~~~~~~lk~G~Y~l~ 111 (140)
T PF11797_consen 33 GKVKPGQINGRNVIQANLQNPQPAILKKLTVDAKVTKKGSKKVLYTFK-KENMQMAPNSNFNFPIPLGGKKLKPGKYTLK 111 (140)
T ss_pred eeeeeeEECCeeEEEEEEECCCchhhcCcEEEEEEEECCCCeEEEEee-ccCCEECCCCeEEeEecCCCcCccCCEEEEE
Confidence 4444444 66677889999999999999999999988754443322 2245799999999988885 4456999999
Q ss_pred EEEEEEcCCCceeeeceEEEEE
Q 013275 170 CTALYSDGEGERKYLPQFFKFI 191 (446)
Q Consensus 170 c~VsY~~~~Ge~~~frK~fkF~ 191 (446)
.++.+.. +...|.|-|+..
T Consensus 112 ~~~~~~~---~~W~f~k~F~It 130 (140)
T PF11797_consen 112 ITAKSGK---KTWTFTKDFTIT 130 (140)
T ss_pred EEEEcCC---cEEEEEEEEEEC
Confidence 9987643 356777766653
No 20
>PF02883 Alpha_adaptinC2: Adaptin C-terminal domain; InterPro: IPR008152 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. AP (adaptor protein) complexes are found in coated vesicles and clathrin-coated pits. AP complexes connect cargo proteins and lipids to clathrin at vesicle budding sites, as well as binding accessory proteins that regulate coat assembly and disassembly (such as AP180, epsins and auxilin). There are different AP complexes in mammals. AP1 is responsible for the transport of lysosomal hydrolases between the TGN and endosomes []. AP2 associates with the plasma membrane and is responsible for endocytosis []. AP3 is responsible for protein trafficking to lysosomes and other related organelles []. AP4 is less well characterised. AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). For example, in AP1 these subunits are gamma-1-adaptin, beta-1-adaptin, mu-1 and sigma-1, while in AP2 they are alpha-adaptin, beta-2-adaptin, mu-2 and sigma-2. Each subunit has a specific function. Adaptins recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal ear (appendage) domains. Mu recognises tyrosine-based sorting signals within the cytoplasmic domains of transmembrane cargo proteins []. One function of clathrin and AP2 complex-mediated endocytosis is to regulate the number of GABA(A) receptors available at the cell surface []. GGAs (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) are a family of monomeric clathrin adaptor proteins that are conserved from yeasts to humans. GGAs regulate clathrin-mediated the transport of proteins (such as mannose 6-phosphate receptors) from the TGN to endosomes and lysosomes through interactions with TGN-sorting receptors, sometimes in conjunction with AP-1 [, ]. GGAs bind cargo, membranes, clathrin and accessory factors. GGA1, GGA2 and GGA3 all contain a domain homologous to the ear domain of gamma-adaptin. GGAs are composed of a single polypeptide with four domains: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The VHS domain is responsible for endocytosis and signal transduction, recognising transmembrane cargo through the ACLL sequence in the cytoplasmic domains of sorting receptors []. The GAT domain (also found in Tom1 proteins) interacts with ARF (ADP-ribosylation factor) to regulate membrane trafficking [], and with ubiquitin for receptor sorting []. The hinge region contains a clathrin box for recognition and binding to clathrin, similar to that found in AP adaptins. The GAE domain is similar to the AP gamma-adaptin ear domain, and is responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. This entry represents a beta-sandwich structural motif found in the appendage (ear) domain of alpha-, beta- and gamma-adaptin from AP clathrin adaptor complexes, and the GAE (gamma-adaptin ear) domain of GGA adaptor proteins. These domains have an immunoglobulin-like beta-sandwich fold containing 7 or 8 strands in 2 beta-sheets in a Greek key topology [, ]. Although these domains share a similar fold, there is little sequence identity between the alpha/beta-adaptins and gamma-adaptin/GAE. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030131 clathrin adaptor complex; PDB: 3MNM_B 3ZY7_B 1GYU_A 1GYW_B 2A7B_A 1GYV_A 2E9G_A 1E42_B 2G30_A 2IV9_B ....
Probab=84.70 E-value=21 Score=30.07 Aligned_cols=75 Identities=11% Similarity=0.113 Sum_probs=55.0
Q ss_pred ecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEEc-----cccCceEEEEEEE
Q 013275 99 LGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHDV-----KELGAHTLVCTAL 173 (446)
Q Consensus 99 lGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~l-----ke~G~h~L~c~Vs 173 (446)
=+...+..+.+.|-+..+++++.+.+..- .+..+.|... +...|.|++.+.-.+.... .....-.+.+.|+
T Consensus 22 ~~~~~~i~~~f~N~s~~~it~f~~q~avp-k~~~l~l~~~---s~~~i~p~~~i~Q~~~v~~~~~~~~~~~~l~~~~~vs 97 (115)
T PF02883_consen 22 NPNQGRIKLTFGNKSSQPITNFSFQAAVP-KSFKLQLQPP---SSSTIPPGQQITQVIKVENSPFSEPTPKPLKPRLRVS 97 (115)
T ss_dssp ETTEEEEEEEEEE-SSS-BEEEEEEEEEB-TTSEEEEEES---S-SSB-TTTEEEEEEEEEESS-BSTTSSTTEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCCcceEEEEEEec-cccEEEEeCC---CCCeeCCCCeEEEEEEEEEeecccCCCCCcCeEEEEE
Confidence 46677888999999999999999998766 5666666432 2346889999999999999 2222338999999
Q ss_pred EEcC
Q 013275 174 YSDG 177 (446)
Q Consensus 174 Y~~~ 177 (446)
|...
T Consensus 98 y~~~ 101 (115)
T PF02883_consen 98 YNVG 101 (115)
T ss_dssp EEET
T ss_pred EEEC
Confidence 9985
No 21
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=84.38 E-value=8.1 Score=31.78 Aligned_cols=66 Identities=12% Similarity=0.132 Sum_probs=48.4
Q ss_pred eEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEE-ecccceEE
Q 013275 345 VVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLI-ATKLGVQR 418 (446)
Q Consensus 345 ~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~-pl~~Glq~ 418 (446)
.+.+++....++.|+|.+..... +.+..... ....|.+.-. =|.|.||.+.++.+.+. +-..|...
T Consensus 15 ~v~~g~~~~~~v~l~N~s~~p~~-f~v~~~~~---~~~~~~v~~~----~g~l~PG~~~~~~V~~~~~~~~g~~~ 81 (102)
T PF14874_consen 15 NVFVGQTYSRTVTLTNTSSIPAR-FRVRQPES---LSSFFSVEPP----SGFLAPGESVELEVTFSPTKPLGDYE 81 (102)
T ss_pred EEccCCEEEEEEEEEECCCCCEE-EEEEeCCc---CCCCEEEECC----CCEECCCCEEEEEEEEEeCCCCceEE
Confidence 46789999999999999999876 66655331 1234555432 35789999999999999 55567654
No 22
>PF00207 A2M: Alpha-2-macroglobulin family; InterPro: IPR001599 This entry contains serum complement C3 and C4 precursors and alpha-macrogrobulins. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0004866 endopeptidase inhibitor activity; PDB: 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 2PN5_A 3FRP_G 3HRZ_B ....
Probab=81.76 E-value=6.1 Score=32.26 Aligned_cols=42 Identities=19% Similarity=0.267 Sum_probs=29.8
Q ss_pred CcCCCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCcccEEEEE
Q 013275 330 ITSKEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWL 373 (446)
Q Consensus 330 ~~~~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l 373 (446)
...+++-+. .++|.+++.++.+.+.+.|.|+.+..++ ++|.|
T Consensus 51 ~v~~p~~i~-~~lP~~l~~GD~~~i~v~v~N~~~~~~~-v~V~l 92 (92)
T PF00207_consen 51 TVFKPFFIQ-LNLPRSLRRGDQIQIPVTVFNYTDKDQE-VTVTL 92 (92)
T ss_dssp EEB-SEEEE-EE--SEEETTSEEEEEEEEEE-SSS-EE-EEEEE
T ss_pred EEEeeEEEE-cCCCcEEecCCEEEEEEEEEeCCCCCEE-EEEEC
Confidence 445666544 5899999999999999999999999877 66654
No 23
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=81.21 E-value=2 Score=35.99 Aligned_cols=75 Identities=19% Similarity=0.219 Sum_probs=47.4
Q ss_pred cceeecceEEEEEEEEcCCCcceEEEEEEEEEeCC----CceEeccCCCCCCccccCCCCeeeEEEEEEccccCceEEEE
Q 013275 95 GAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTD----KQRILLLDTSKSPVESIRAGGRYDFIVEHDVKELGAHTLVC 170 (446)
Q Consensus 95 G~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~----s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~lke~G~h~L~c 170 (446)
|.+.+|+.|.+.+.+.|.++..+++|.+....++- -.+-.+.. .....+|+||+.....+...=++-|..-+.+
T Consensus 9 ~~~~vG~d~~v~v~~~N~~~~~l~~v~~~l~~~~v~ytG~~~~~~~~--~~~~~~l~p~~~~~~~~~i~p~~yG~~~~l~ 86 (107)
T PF00927_consen 9 GDPVVGQDFTVSVSFTNPSSEPLRNVSLNLCAFTVEYTGLTRDQFKK--EKFEVTLKPGETKSVEVTITPSQYGPKQLLV 86 (107)
T ss_dssp SEEBTTSEEEEEEEEEE-SSS-EECEEEEEEEEEEECTTTEEEEEEE--EEEEEEE-TTEEEEEEEEE-HHSHEEECCEE
T ss_pred CCccCCCCEEEEEEEEeCCcCccccceeEEEEEEEEECCcccccEeE--EEcceeeCCCCEEEEEEEEEceeEecchhcc
Confidence 56789999999999999999999998887755542 11101100 1124578888887777666666666644444
Q ss_pred E
Q 013275 171 T 171 (446)
Q Consensus 171 ~ 171 (446)
.
T Consensus 87 ~ 87 (107)
T PF00927_consen 87 D 87 (107)
T ss_dssp E
T ss_pred h
Confidence 3
No 24
>KOG3865 consensus Arrestin [Signal transduction mechanisms]
Probab=77.48 E-value=11 Score=38.24 Aligned_cols=90 Identities=13% Similarity=0.166 Sum_probs=65.5
Q ss_pred cCCCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEeccccee---------ecccCCCC
Q 013275 331 TSKEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMA---------LAPVEAFG 401 (446)
Q Consensus 331 ~~~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~---------Lg~L~P~~ 401 (446)
..+.|.|.+.=--....-++|..+++.|+|+|+++...+.+.+++- ++-++++.-+-.. -=.+.||+
T Consensus 191 S~~~lhLevsLDkEiYyHGE~isvnV~V~NNsnKtVKkIK~~V~Q~----adi~Lfs~aqy~~~VA~~E~~eGc~v~Pgs 266 (402)
T KOG3865|consen 191 SDGPLHLEVSLDKEIYYHGEPISVNVHVTNNSNKTVKKIKISVRQV----ADICLFSTAQYKKPVAMEETDEGCPVAPGS 266 (402)
T ss_pred CCCceEEEEEecchheecCCceeEEEEEecCCcceeeeeEEEeEee----ceEEEEecccccceeeeeecccCCccCCCC
Confidence 4555656553334577889999999999999999988788888774 3456664322111 11578999
Q ss_pred eeEEEEEEEecccceEEeCceEE
Q 013275 402 STDFHLNLIATKLGVQRITGITV 424 (446)
Q Consensus 402 s~~~~L~l~pl~~Glq~isgi~l 424 (446)
+.+=.+.++|+..--..=.||.|
T Consensus 267 tl~Kvf~l~PllanN~dkrGlAL 289 (402)
T KOG3865|consen 267 TLSKVFTLTPLLANNKDKRGLAL 289 (402)
T ss_pred eeeeeEEechhhhcCcccccccc
Confidence 99999999999887777777665
No 25
>PF06159 DUF974: Protein of unknown function (DUF974); InterPro: IPR010378 This is a family of uncharacterised eukaryotic proteins.
Probab=71.83 E-value=26 Score=34.30 Aligned_cols=77 Identities=16% Similarity=0.134 Sum_probs=53.2
Q ss_pred eEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCC--cceEEEecccceeecccCCCCeeEEEEEEEecccceEEeCc
Q 013275 345 VVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDE--EKVVMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRITG 421 (446)
Q Consensus 345 ~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~--~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isg 421 (446)
.+.||+.|...+.+.|.++.....+.|.++-.-... .-.+.-.+........|.||++.++.+..-=-..|.|.+.-
T Consensus 9 ~iylGEtF~~~l~~~N~s~~~v~~v~ikvemqT~s~~~r~~L~~~~~~~~~~~~L~p~~~l~~iv~~~lkE~G~h~L~c 87 (249)
T PF06159_consen 9 SIYLGETFSCYLSVNNDSNKPVRNVRIKVEMQTPSQSLRLPLSDNENSDSPVASLAPGESLDFIVSHELKELGNHTLVC 87 (249)
T ss_pred CEeecCCEEEEEEeecCCCCceEEeEEEEEEeCCCCCccccCCCCccccccccccCCCCeEeEEEEEEeeecCceEEEE
Confidence 578999999999999998887765666665321111 01122222222356789999999988887777889998854
No 26
>KOG3865 consensus Arrestin [Signal transduction mechanisms]
Probab=70.20 E-value=15 Score=37.18 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=26.1
Q ss_pred eecceEEEEEEEEcCCCcceEEEEEEEEE
Q 013275 98 YLGETFCSYISINNSSTLEVRDVVIKAEI 126 (446)
Q Consensus 98 ylGEtFs~~i~v~N~s~~~v~~V~ikael 126 (446)
|=||..+..++|.|+++..|+.+.+.+.=
T Consensus 207 yHGE~isvnV~V~NNsnKtVKkIK~~V~Q 235 (402)
T KOG3865|consen 207 YHGEPISVNVHVTNNSNKTVKKIKISVRQ 235 (402)
T ss_pred ecCCceeEEEEEecCCcceeeeeEEEeEe
Confidence 78999999999999999999998877643
No 27
>PF06030 DUF916: Bacterial protein of unknown function (DUF916); InterPro: IPR010317 This family consists of putative cell surface proteins, from Firmicutes, of unknown function.
Probab=68.32 E-value=24 Score=30.67 Aligned_cols=60 Identities=13% Similarity=0.203 Sum_probs=34.7
Q ss_pred CCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEeccccee-------e---------cccCCCCeeEEEEEE
Q 013275 349 DKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMA-------L---------APVEAFGSTDFHLNL 409 (446)
Q Consensus 349 ~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~-------L---------g~L~P~~s~~~~L~l 409 (446)
++.-+++++|.|++++.+. +.+.+.+-.+.....|-|....... + =.|+|+++..+.+++
T Consensus 26 ~q~~~l~v~i~N~s~~~~t-v~v~~~~A~Tn~nG~I~Y~~~~~~~d~sl~~~~~~~v~~~~~Vtl~~~~sk~V~~~i 101 (121)
T PF06030_consen 26 GQKQTLEVRITNNSDKEIT-VKVSANTATTNDNGVIDYSQNNPKKDKSLKYPFSDLVKIPKEVTLPPNESKTVTFTI 101 (121)
T ss_pred CCEEEEEEEEEeCCCCCEE-EEEEEeeeEecCCEEEEECCCCcccCcccCcchHHhccCCcEEEECCCCEEEEEEEE
Confidence 4556677777777777766 6666655433333334443322110 0 157899999988875
No 28
>PF00635 Motile_Sperm: MSP (Major sperm protein) domain; InterPro: IPR000535 Major sperm proteins (MSP) are central components in molecular interactions underlying sperm motility in Caenorhabditis elegans, whose sperm employ an amoebae-like crawling motion using a MSP-containing lamellipod, rather than the flagellar-based swimming motion associated with other sperm. These proteins oligomerise to form an extensive filament system that extends from sperm villipoda, along the leading edge of the pseudopod. About 30 MSP isoforms may exist in C. elegans. MSPs form a fibrous network, whereby MSP dimers form helical subfilaments that coil around one another to produce filaments, which in turn form supercoils to produce bundles. The crystal structure of MSP from C. elegans reveals an immunoglobulin (Ig)-like seven-stranded beta sandwich fold []. ; GO: 0005198 structural molecule activity; PDB: 1MSP_A 3MSP_B 2BVU_B 2MSP_C 1Z9O_F 1Z9L_A 3IKK_A 1WIC_A 2CRI_A 2RR3_A ....
Probab=68.30 E-value=14 Score=30.47 Aligned_cols=56 Identities=16% Similarity=0.191 Sum_probs=36.1
Q ss_pred CCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEeccc
Q 013275 349 DKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIATKL 414 (446)
Q Consensus 349 ~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~ 414 (446)
++.-...+.|+|.++..+. ..++.+. ...+.+. + ..|.|+||++..+.+++.|...
T Consensus 17 ~~~~~~~l~l~N~s~~~i~---fKiktt~---~~~y~v~-P---~~G~i~p~~~~~i~I~~~~~~~ 72 (109)
T PF00635_consen 17 NKQQSCELTLTNPSDKPIA---FKIKTTN---PNRYRVK-P---SYGIIEPGESVEITITFQPFDF 72 (109)
T ss_dssp SS-EEEEEEEEE-SSSEEE---EEEEES----TTTEEEE-S---SEEEE-TTEEEEEEEEE-SSST
T ss_pred CceEEEEEEEECCCCCcEE---EEEEcCC---CceEEec-C---CCEEECCCCEEEEEEEEEeccc
Confidence 4456889999999988654 4554432 1345554 3 2688999999999999998443
No 29
>COG1361 S-layer domain [Cell envelope biogenesis, outer membrane]
Probab=63.90 E-value=2.1e+02 Score=30.65 Aligned_cols=151 Identities=17% Similarity=0.098 Sum_probs=94.5
Q ss_pred cccccccccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCce-EeccCCC-CCCccccCCCCeeeEEEEEEcc---
Q 013275 87 LLVLPQAFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQR-ILLLDTS-KSPVESIRAGGRYDFIVEHDVK--- 161 (446)
Q Consensus 87 ~L~LP~sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r-~~L~~~~-~~~~~~L~pg~~ld~iv~~~lk--- 161 (446)
.....++-..++-||++...+.+.|..+..++++.+..+- +..- ....... ..-++.|.||++..........
T Consensus 153 ~~~v~~~~~~i~~G~~~~l~~~I~N~G~~~~~~v~l~~~~--~~~~~~~i~~~~~~~~i~~l~p~es~~v~f~v~~~~~a 230 (500)
T COG1361 153 SFEVVSSPEAIIPGETNTLTLTIKNPGEGPAKNVSLSLES--PTSYLGPIYSANDTPYIGALGPGESVNVTFSVYAGSNA 230 (500)
T ss_pred eeEEecCccccCCCCccEEEEEEEeCCcccccceEEEEeC--CcceeccccccccceeeeeeCCCceEEEEEEEEeecCC
Confidence 3555666778899999999999999999999999888764 1111 1111111 0136789999999988888888
Q ss_pred ccCceEEEEEEEEEcCCCceeeeceEEEEEeec---CeEEEEEeEEccccccccCCeeEEEEEEEecccccEEEEeEEee
Q 013275 162 ELGAHTLVCTALYSDGEGERKYLPQFFKFIVSN---PLSVRTKVRVVKVGATHFQEITFLEACIENHTKSNLYMDQVEFE 238 (446)
Q Consensus 162 e~G~h~L~c~VsY~~~~Ge~~~frK~fkF~v~~---Pl~VrtK~~~~~~~~~~~~~~~~LEaqiqN~s~~~l~le~v~Le 238 (446)
+.|.|.+-..++|.+..+.++ ...-+.|.... .|++..--... .........++..+.|....+.-...+.+.
T Consensus 231 ~~g~y~i~i~i~~~~~~~~~~-~~~~~~~i~~~~~~~~~is~v~~~p---~~~~~~~~~i~~~~~~~~~~~~~~~~~~~v 306 (500)
T COG1361 231 EPGTYTINLEITYKDEEGSVK-SPTITIGIVVVGEPKLDISNVKFDP---GVIPLGGVSIEITITIENSGSAPNQTVRLV 306 (500)
T ss_pred CCccEEEEEEEEEecCCcccc-ccceEEEEecCCceeEEEEEEEecC---CeeccceeEEEEEEEEEecccccceEEEEE
Confidence 699999999999999655433 23333333332 33333211110 011245566777777766655545555555
Q ss_pred ecCCc
Q 013275 239 PSQNW 243 (446)
Q Consensus 239 p~~~~ 243 (446)
....+
T Consensus 307 ~~~~~ 311 (500)
T COG1361 307 TGSPF 311 (500)
T ss_pred ecCCc
Confidence 44433
No 30
>PF11614 FixG_C: IG-like fold at C-terminal of FixG, putative oxidoreductase; PDB: 2R39_A.
Probab=61.72 E-value=26 Score=29.82 Aligned_cols=74 Identities=22% Similarity=0.199 Sum_probs=36.9
Q ss_pred cCCCeEEEEEecCceEeeCCc-----EEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEE
Q 013275 331 TSKEIELNVVEVPSVVGIDKP-----FLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDF 405 (446)
Q Consensus 331 ~~~dl~l~v~~~P~~v~l~~p-----F~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~ 405 (446)
..+++++.|..-+.....+.. =..+++|.|+++..+. +.|.++.. +++-|.+. ...+ .|+||++..+
T Consensus 7 ~R~~~~~~V~rdr~~ly~~~~dg~I~N~Y~lkl~Nkt~~~~~-~~i~~~g~-----~~~~l~~~-~~~i-~v~~g~~~~~ 78 (118)
T PF11614_consen 7 TRKPVELNVLRDRGPLYRELSDGSIRNQYTLKLTNKTNQPRT-YTISVEGL-----PGAELQGP-ENTI-TVPPGETREV 78 (118)
T ss_dssp ---SEEEEEEE-SS---------SEEEEEEEEEEE-SSS-EE-EEEEEES------SS-EE-ES---EE-EE-TT-EEEE
T ss_pred ccCcEEEEEEecCCCcEEEcCCCeEEEEEEEEEEECCCCCEE-EEEEEecC-----CCeEEECC-Ccce-EECCCCEEEE
Confidence 455666666554432222111 1256889999999988 88888753 46777442 2223 4699999998
Q ss_pred EEEEEec
Q 013275 406 HLNLIAT 412 (446)
Q Consensus 406 ~L~l~pl 412 (446)
.+.+..-
T Consensus 79 ~v~v~~p 85 (118)
T PF11614_consen 79 PVFVTAP 85 (118)
T ss_dssp EEEEEE-
T ss_pred EEEEEEC
Confidence 8876543
No 31
>PF14524 Wzt_C: Wzt C-terminal domain; PDB: 2R5O_B.
Probab=60.97 E-value=58 Score=27.73 Aligned_cols=95 Identities=18% Similarity=0.207 Sum_probs=55.6
Q ss_pred ceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEec-cCC--CCCCccccCCCCeeeEEEEEEc-cccCceEEEEE
Q 013275 96 AIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILL-LDT--SKSPVESIRAGGRYDFIVEHDV-KELGAHTLVCT 171 (446)
Q Consensus 96 ~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L-~~~--~~~~~~~L~pg~~ld~iv~~~l-ke~G~h~L~c~ 171 (446)
.+..||++...+.++. ..++.++.+-..+.+....... .++ ...+....+ ++.....+..+. =..|.|.+.+.
T Consensus 30 ~~~~ge~~~i~i~~~~--~~~i~~~~~~~~i~~~~g~~v~~~~t~~~~~~~~~~~-~g~~~~~~~i~~~L~~G~Y~i~v~ 106 (142)
T PF14524_consen 30 SFESGEPIRIRIDYEV--NEDIDDPVFGFAIRDSDGQRVFGTNTYDSGFPIPLSE-GGTYEVTFTIPKPLNPGEYSISVG 106 (142)
T ss_dssp SEETTSEEEEEEEEEE--SS-EEEEEEEEEEEETT--EEEEEEHHHHT--EEE-T-T-EEEEEEEEE--B-SEEEEEEEE
T ss_pred EEeCCCEEEEEEEEEE--CCCCCccEEEEEEEcCCCCEEEEECccccCccccccC-CCEEEEEEEEcCccCCCeEEEEEE
Confidence 3788999999999987 6778888888888887653222 111 112222232 665555555554 44599999999
Q ss_pred EEEEcCCCceeee--ceEEEEEeec
Q 013275 172 ALYSDGEGERKYL--PQFFKFIVSN 194 (446)
Q Consensus 172 VsY~~~~Ge~~~f--rK~fkF~v~~ 194 (446)
+.+ ...+..... .+.+.|.|..
T Consensus 107 l~~-~~~~~~~~d~~~~~~~f~V~~ 130 (142)
T PF14524_consen 107 LGD-DSSGGEVLDWIEDALSFEVED 130 (142)
T ss_dssp EEE-TTTEEEEEEEEEEEEEEEEE-
T ss_pred EEe-cCCCCEEEEEECCEEEEEEEC
Confidence 944 333333333 4578888876
No 32
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=59.22 E-value=1.3e+02 Score=30.27 Aligned_cols=92 Identities=15% Similarity=0.205 Sum_probs=70.3
Q ss_pred cccccccccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceE----eccCCCCCCccccCCCCeeeEEEEEEccc
Q 013275 87 LLVLPQAFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRI----LLLDTSKSPVESIRAGGRYDFIVEHDVKE 162 (446)
Q Consensus 87 ~L~LP~sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~----~L~~~~~~~~~~L~pg~~ld~iv~~~lke 162 (446)
....|...-.+.-|+.-.+.|.+.|....++.-..|.+-+..+...- ++.-. .-...+.||+...+-..|-..+
T Consensus 85 ~~~F~~~~~~l~aG~~~~~LvgftN~g~~~~~V~~i~aSl~~p~d~~~~iqNfTa~--~y~~~V~pg~~aT~~YsF~~~~ 162 (285)
T PF03896_consen 85 TILFPKPTKKLPAGEPVKFLVGFTNKGSEPFTVESIEASLRYPQDYSYYIQNFTAV--RYNREVPPGEEATFPYSFTPSE 162 (285)
T ss_pred EEEeccccccccCCCeEEEEEEEEeCCCCCEEEEEEeeeecCccccceEEEeeccc--ccCcccCCCCeEEEEEEEecch
Confidence 35555556778999999999999999999999999999998885321 22211 1124689999988888887743
Q ss_pred ---cCceEEEEEEEEEcCCCc
Q 013275 163 ---LGAHTLVCTALYSDGEGE 180 (446)
Q Consensus 163 ---~G~h~L~c~VsY~~~~Ge 180 (446)
.+.+-|+..+.|.+.+|.
T Consensus 163 ~l~pr~f~L~i~l~y~d~~g~ 183 (285)
T PF03896_consen 163 ELAPRPFGLVINLIYEDSDGN 183 (285)
T ss_pred hcCCcceEEEEEEEEEeCCCC
Confidence 466899999999998885
No 33
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=56.33 E-value=29 Score=31.29 Aligned_cols=50 Identities=18% Similarity=0.240 Sum_probs=36.1
Q ss_pred EEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEE
Q 013275 352 FLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHL 407 (446)
Q Consensus 352 F~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L 407 (446)
..|.+.++|+++..+. .|++..+. ...++-+.+ .-.++.|+||++.+..+
T Consensus 87 vsIql~ftN~s~~~i~--~I~i~~k~--l~~g~~i~~--F~~I~~L~pg~s~t~~l 136 (145)
T PF14796_consen 87 VSIQLTFTNNSDEPIK--NIHIGEKK--LPAGMRIHE--FPEIESLEPGASVTVSL 136 (145)
T ss_pred EEEEEEEEecCCCeec--ceEECCCC--CCCCcEeec--cCcccccCCCCeEEEEE
Confidence 3477889999999887 45555442 234666666 34788999999988777
No 34
>TIGR03769 P_ac_wall_RPT actinobacterial surface-anchored protein domain. This model describes a repeat domain that one to three times in Actinobacterial proteins, some of which have LPXTG-type sortase recognition motifs for covalent attachment to the Gram-positive cell wall. Where it occurs with duplication in an LPXTG-anchored protein, it tends to be adjacent to the substrate-binding protein of the gene trio of an ABC transporter system, where that substrate-binding protein has a single copy of this same domain. This arrangement suggests a substrate-binding relay system, with the LPXTG protein acting as a substrate receptor.
Probab=55.97 E-value=27 Score=24.47 Aligned_cols=34 Identities=26% Similarity=0.252 Sum_probs=27.9
Q ss_pred EccccCceEEEEEEEEEcCCCceeeeceEEEEEe
Q 013275 159 DVKELGAHTLVCTALYSDGEGERKYLPQFFKFIV 192 (446)
Q Consensus 159 ~lke~G~h~L~c~VsY~~~~Ge~~~frK~fkF~v 192 (446)
-..++|.|.|...++-+..+|+..+=..-|.|.|
T Consensus 8 ~FT~PG~Y~l~~~a~~~~~~G~~~s~~~t~tf~V 41 (41)
T TIGR03769 8 VFTKPGTYTLTVQATATLTDGKVSSDPQTLTFAV 41 (41)
T ss_pred eeCCCeEEEEEEEEEEEeCCCcEecCCEEEEEEC
Confidence 3568999999999998888898666677888875
No 35
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=54.30 E-value=22 Score=27.71 Aligned_cols=33 Identities=18% Similarity=0.284 Sum_probs=28.2
Q ss_pred ccceeecceEEEEEEEEcCCCcceEEEEEEEEE
Q 013275 94 FGAIYLGETFCSYISINNSSTLEVRDVVIKAEI 126 (446)
Q Consensus 94 fG~iylGEtFs~~i~v~N~s~~~v~~V~ikael 126 (446)
-..++.||++.-.|.+.|..+..+.+|.|+=-|
T Consensus 34 ~~~~~~Gd~v~ytitvtN~G~~~a~nv~v~D~l 66 (76)
T PF01345_consen 34 PSTANPGDTVTYTITVTNTGPAPATNVVVTDTL 66 (76)
T ss_pred CCcccCCCEEEEEEEEEECCCCeeEeEEEEEcC
Confidence 345899999999999999999999999886433
No 36
>COG2847 Copper(I)-binding protein [Inorganic ion transport and metabolism]
Probab=53.94 E-value=1.1e+02 Score=27.77 Aligned_cols=104 Identities=26% Similarity=0.338 Sum_probs=65.8
Q ss_pred cccccceeecceE-----------EEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCC---------CCCccccCCCC
Q 013275 91 PQAFGAIYLGETF-----------CSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTS---------KSPVESIRAGG 150 (446)
Q Consensus 91 P~sfG~iylGEtF-----------s~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~---------~~~~~~L~pg~ 150 (446)
...++.|++...+ .+|+.+.|.++.+++-|.++.+. ..|+.|++.. +.+.-.|.+|+
T Consensus 20 ~~~~~~i~v~~a~~ra~~pg~~~~a~~~ti~N~~~~~~~Lv~v~s~~---a~~~ElHe~i~~~gvmkMr~v~~i~Ipa~~ 96 (151)
T COG2847 20 AVAAAAIHVEDAWARATPPGAKMGAAFMTITNNGDKDDRLVGVSSPI---AARAELHETIHDGGVMKMRKVPGIVIPAGG 96 (151)
T ss_pred ccccCceEEeccEEEecCCCCcceeEEEEEeCCCCCCceEEEEecCc---cceeEEEEEEecCCeEEEEEcCcEEECCCc
Confidence 3455555555544 48999999999999988877654 4555554421 11233577888
Q ss_pred eeeEEEEEEccccCceEEEEEEEEEcCCCceeeeceEEEEEeecCeEEEEEeEEc
Q 013275 151 RYDFIVEHDVKELGAHTLVCTALYSDGEGERKYLPQFFKFIVSNPLSVRTKVRVV 205 (446)
Q Consensus 151 ~ld~iv~~~lke~G~h~L~c~VsY~~~~Ge~~~frK~fkF~v~~Pl~VrtK~~~~ 205 (446)
++ ++|-=|-|++.--+.=--..|+ .|..-++|.......|+.++...
T Consensus 97 ~v------~lkpGgyHvMlm~lK~pl~eGd--~v~vtL~f~~~~~~~v~~~v~~~ 143 (151)
T COG2847 97 TV------ELKPGGYHVMLMGLKKPLKEGD--KVPVTLKFEKAGKVTVEAPVKKK 143 (151)
T ss_pred eE------EecCCCEEEEEeccCCCccCCC--EEEEEEEEecCCeEEEEEEEecc
Confidence 76 4688899998865533333454 34556677766666666666544
No 37
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=53.46 E-value=39 Score=30.52 Aligned_cols=81 Identities=16% Similarity=0.217 Sum_probs=54.2
Q ss_pred CCCCccCCCCcccccccccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEE
Q 013275 77 DSADSIGLSGLLVLPQAFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIV 156 (446)
Q Consensus 77 ~~~~~~~~~~~L~LP~sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv 156 (446)
+....-||+=....+.+- .+|-.-+-+.-|.+.|+++.++++|.|.-.=.....++.- ..+++.|+||+++..++
T Consensus 62 ~~v~G~GL~v~Y~F~RqP-~~~s~~mvsIql~ftN~s~~~i~~I~i~~k~l~~g~~i~~----F~~I~~L~pg~s~t~~l 136 (145)
T PF14796_consen 62 NRVNGKGLSVEYRFSRQP-SLYSPSMVSIQLTFTNNSDEPIKNIHIGEKKLPAGMRIHE----FPEIESLEPGASVTVSL 136 (145)
T ss_pred eccCCCceeEEEEEccCC-cCCCCCcEEEEEEEEecCCCeecceEECCCCCCCCcEeec----cCcccccCCCCeEEEEE
Confidence 344555555555555532 1455666678889999999999999886543233333322 35578999999999888
Q ss_pred EEEccc
Q 013275 157 EHDVKE 162 (446)
Q Consensus 157 ~~~lke 162 (446)
..+..+
T Consensus 137 gIDF~D 142 (145)
T PF14796_consen 137 GIDFND 142 (145)
T ss_pred EEeccc
Confidence 877654
No 38
>PF09624 DUF2393: Protein of unknown function (DUF2393); InterPro: IPR013417 The function of this protein is unknown. It is always found as part of a two-gene operon with IPR013416 from INTERPRO, a protein that appears to span the membrane seven times. It has so far been found in the bacteria Anabaena sp. (strain PCC 7120), Agrobacterium tumefaciens, Rhizobium meliloti, and Gloeobacter violaceus.
Probab=53.35 E-value=85 Score=27.84 Aligned_cols=61 Identities=16% Similarity=0.313 Sum_probs=41.9
Q ss_pred ecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceE-----ec-cCCC-----CCCcc-ccCCCCeeeEEEEEE
Q 013275 99 LGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRI-----LL-LDTS-----KSPVE-SIRAGGRYDFIVEHD 159 (446)
Q Consensus 99 lGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~-----~L-~~~~-----~~~~~-~L~pg~~ld~iv~~~ 159 (446)
.+|.|.....|.|.++..++++.+.+++....+.. .. .... ..++. .|.||++-++.+.++
T Consensus 60 ~~~~~~v~g~V~N~g~~~i~~c~i~~~l~~~~~~~~n~~~~~~~~~~~f~~~~~~i~~~L~~~e~~~f~~~~~ 132 (149)
T PF09624_consen 60 YSESFYVDGTVTNTGKFTIKKCKITVKLYNDKQVSGNKFKEIFYQQIPFVKKSIPIADNLKPGESKEFRFIFP 132 (149)
T ss_pred eccEEEEEEEEEECCCCEeeEEEEEEEEEeCCCccCchhhhhhccccchhccceeHHhhcCcccceeEEEEec
Confidence 48999999999999999999999999997643211 00 0000 01222 288998888766654
No 39
>KOG3317 consensus Translocon-associated complex TRAP, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.03 E-value=68 Score=29.71 Aligned_cols=74 Identities=19% Similarity=0.168 Sum_probs=54.6
Q ss_pred CCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceE-EEecccceeecccCCCCeeEEEEEEEecccceEEeCceEEE
Q 013275 349 DKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVV-MINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRITGITVF 425 (446)
Q Consensus 349 ~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~-~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isgi~l~ 425 (446)
++-+.+++-|.|.-+.+. +.|.|+.++= ..+.| ++.|+....-++|++|+.+..++.+.|...|+-.-..-.|+
T Consensus 41 ~rd~~leY~IyNvGsspA--ldVtLsD~Sf-pt~~FeIvkG~~~~swerIpags~vsHsivl~prv~g~f~~t~atVt 115 (188)
T KOG3317|consen 41 ARDVSLEYDIYNVGSSPA--LDVTLSDNSF-PTKTFEIVKGNLSVSWERIPAGSNVSHSIVLRPRVKGVFNGTPATVT 115 (188)
T ss_pred ceeeEEEEeeEEcCCCcc--eeEEecCCCC-CccceeeeccccccceeecCCCCceEEEEEEeecccceeccCceEEE
Confidence 467889999999844443 3355544321 11233 67899999999999999999999999999999776665554
No 40
>PF12735 Trs65: TRAPP trafficking subunit Trs65; InterPro: IPR024662 This family is one of the subunits of the TRAPP Golgi trafficking complex []. TRAPP subunits are found in two different sized complexes, TRAPP I and TRAPP II. While both complexes contain the same seven subunits, Bet3p, Bet5p, Trs20p, Trs23p, Trs31p, Trs33p and Trs85p, with TRAPPC human equivalents, TRAPP II has the additional three subunits ,Trs65p, Trs120p and Trs130p []. While it has been implicated in cell wall biogenesis and stress response, the role of Trs65 in TRAPP II is supported by the findings that the protein co-localises with Trs130p, and deletion of TRS65 in yeast leads to a conditional lethal phenotype if either one of the other TRAPP II-specific subunits is modified []. Furthermore, the trs65 mutant has reduced Ypt31/32p guanine nucleotide exchange, GEF, activity []. Trs65 is also known as killer toxin-resistance protein 11.
Probab=49.70 E-value=1.9e+02 Score=29.24 Aligned_cols=46 Identities=13% Similarity=0.164 Sum_probs=32.1
Q ss_pred CccccCCCCeeeEEEEEEccccCceEEEEEEEEEcCCCceeeeceE
Q 013275 142 PVESIRAGGRYDFIVEHDVKELGAHTLVCTALYSDGEGERKYLPQF 187 (446)
Q Consensus 142 ~~~~L~pg~~ld~iv~~~lke~G~h~L~c~VsY~~~~Ge~~~frK~ 187 (446)
-++-|.||+++..=++|-==..|.|.|-.-=-+-..+||..-||+.
T Consensus 256 riGpL~P~~c~~~eL~fi~l~~G~~~L~~lkvvDl~t~e~~di~~l 301 (306)
T PF12735_consen 256 RIGPLAPGACYSVELRFIALSPGVHNLEGLKVVDLNTNEHVDIGDL 301 (306)
T ss_pred cccccCCCceEEEEEEEEEeccceEeecceEEEECCCCceEEeCCC
Confidence 3567889999988888888888998774332233345776666654
No 41
>PF13584 BatD: Oxygen tolerance
Probab=49.44 E-value=3.5e+02 Score=28.74 Aligned_cols=104 Identities=18% Similarity=0.158 Sum_probs=63.7
Q ss_pred CCeEEEEEecCceEeeCCcEEEEEEEEeCCCCC-cccEEEEEeeCCCCCcceEEE-ecccceeecccC---CCCeeEEEE
Q 013275 333 KEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKE-QGPFEIWLSQNDSDEEKVVMI-NGLRIMALAPVE---AFGSTDFHL 407 (446)
Q Consensus 333 ~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~-~~~l~l~l~~~~~~~~~~~~~-~G~s~~~Lg~L~---P~~s~~~~L 407 (446)
+++.|...--|..+++++|++++++|.-.-+-. +..-.+.+. +++-+ ........ ... ..+++++.+
T Consensus 271 g~f~l~~~~~~~~~~~Ge~vt~ti~i~g~Gn~~~~~lP~l~~~-------~~~~vy~~~~~~~~-~~~~~g~~g~~~~~~ 342 (484)
T PF13584_consen 271 GNFSLSQSWDPTEVKVGEPVTRTITISGEGNLPSIQLPPLNLP-------KGFRVYPPKPQEQD-KPSGGGLTGSRTFKY 342 (484)
T ss_pred eEEEEEEEcCcccccCCCeEEEEEEEEEEcchhcccCCCCCCC-------cccEEcCCCccccc-cccCCcceEEEEEEE
Confidence 567777655678999999999999998663322 221111111 23322 21111111 111 235789999
Q ss_pred EEEecccceEEeCceEE--EecCCCeeeccC-CCeeeEee
Q 013275 408 NLIATKLGVQRITGITV--FDKLEKITYDSL-PDLEIFVD 444 (446)
Q Consensus 408 ~l~pl~~Glq~isgi~l--~D~~~~r~y~~~-~~~~vfV~ 444 (446)
.++|...|-..||.|++ +|...++-.... +...|=|.
T Consensus 343 ~~ip~~~G~~~lP~i~~~~fdp~~~~y~~~~~~~~~i~V~ 382 (484)
T PF13584_consen 343 TLIPKKPGDFTLPAIRFSWFDPQTGKYETATLPPITITVA 382 (484)
T ss_pred EEEeCCCCeEEcCCeEEEEEcCCCCeEEEEEcCCEEEEEe
Confidence 99999999999999877 588877655433 44555443
No 42
>PF06280 DUF1034: Fn3-like domain (DUF1034); InterPro: IPR010435 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 of unknown function is present in bacterial and plant peptidases belonging to MEROPS peptidase family S8 (subfamily S8A subtilisin, clan SB). It is C-terminal to and adjacent to the S8 peptidase domain and can be found in conjunction with the PA (Protease associated) domain (IPR003137 from INTERPRO) and additionally in Gram-positive bacteria with the surface protein anchor domain (IPR001899 from INTERPRO).; GO: 0004252 serine-type endopeptidase activity, 0005618 cell wall, 0016020 membrane; PDB: 3EIF_A 1XF1_B.
Probab=49.00 E-value=1.2e+02 Score=25.49 Aligned_cols=79 Identities=16% Similarity=0.096 Sum_probs=40.8
Q ss_pred eCCcEEEEEEEEeCCCCCcccEEEEEeeCC---CCCcceE---E-------EecccceeecccCCCCeeEEEEEEEecc-
Q 013275 348 IDKPFLLKLKLTNQTDKEQGPFEIWLSQND---SDEEKVV---M-------INGLRIMALAPVEAFGSTDFHLNLIATK- 413 (446)
Q Consensus 348 l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~---~~~~~~~---~-------~~G~s~~~Lg~L~P~~s~~~~L~l~pl~- 413 (446)
++..+.++++|+|++++... ..+....-. .+...+- . ........+ .|+||++.++.+++-+=.
T Consensus 6 ~~~~~~~~itl~N~~~~~~t-y~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~v-TV~ag~s~~v~vti~~p~~ 83 (112)
T PF06280_consen 6 TGNKFSFTITLHNYGDKPVT-YTLSHVPVLTDKTDTEEGYSILVPPVPSISTVSFSPDTV-TVPAGQSKTVTVTITPPSG 83 (112)
T ss_dssp E-SEEEEEEEEEE-SSS-EE-EEEEEE-EEEEEE--ETTEEEEEEEE----EEE---EEE-EE-TTEEEEEEEEEE--GG
T ss_pred cCCceEEEEEEEECCCCCEE-EEEeeEEEEeeEeeccCCcccccccccceeeEEeCCCeE-EECCCCEEEEEEEEEehhc
Confidence 35679999999999888766 555544100 0000010 0 222222334 579999999999988844
Q ss_pred ---cceEEeCc-eEEEecC
Q 013275 414 ---LGVQRITG-ITVFDKL 428 (446)
Q Consensus 414 ---~Glq~isg-i~l~D~~ 428 (446)
.-.+.+.| |.+.+..
T Consensus 84 ~~~~~~~~~eG~I~~~~~~ 102 (112)
T PF06280_consen 84 LDASNGPFYEGFITFKSSD 102 (112)
T ss_dssp GHHTT-EEEEEEEEEESST
T ss_pred CCcccCCEEEEEEEEEcCC
Confidence 33567777 5555433
No 43
>PF13584 BatD: Oxygen tolerance
Probab=47.66 E-value=2.8e+02 Score=29.51 Aligned_cols=130 Identities=16% Similarity=0.170 Sum_probs=73.3
Q ss_pred eeeEEEEEeecCCCCCCCccccCceeeEEEEEEEEcCCCCCceeeEEeeeeec------------CcCCCeEEEEEecCc
Q 013275 277 IHNYLYQLKMLSHGSSSPVKVQGSNVLGKLQITWRTNLGEPGRLQTQQILGTT------------ITSKEIELNVVEVPS 344 (446)
Q Consensus 277 ~~q~lf~l~~~~~~~~~~~~~~g~~~lGkL~I~WRs~~Ge~G~L~Ts~l~~~~------------~~~~dl~l~v~~~P~ 344 (446)
...|.|.|.|+. .|...|+-+.|.+.+. ...|..+.... ...+++.+.+.--+.
T Consensus 72 ~~~~~~~l~p~~---------~G~~~IP~~~v~v~Gk-----~~~S~pi~i~V~~~~~~~~~~~~~~~~~~~l~~~v~~~ 137 (484)
T PF13584_consen 72 STTYTYTLQPKK---------TGTFTIPPFTVEVDGK-----TYKSQPITIEVSKASQSPSQPPSNADDDVFLEAEVSKK 137 (484)
T ss_pred EEEEEEEEEecc---------cceEEEceEEEEECCE-----EEeecCEEEEEEecccCCccccccccccEEEEEEeCCC
Confidence 456677777753 3677888888877431 22333333221 135677777654577
Q ss_pred eEeeCCcEEEEEEEEeCCCCC-cccEEEEEeeCCCCCcceEEEecccce-eec--ccCCCC--eeE-EEEEEEecccceE
Q 013275 345 VVGIDKPFLLKLKLTNQTDKE-QGPFEIWLSQNDSDEEKVVMINGLRIM-ALA--PVEAFG--STD-FHLNLIATKLGVQ 417 (446)
Q Consensus 345 ~v~l~~pF~v~~~v~N~s~r~-~~~l~l~l~~~~~~~~~~~~~~G~s~~-~Lg--~L~P~~--s~~-~~L~l~pl~~Glq 417 (446)
.+.++|++.+++++.=..+.. .+ .. .+..- ..+++.+.-.... ... .+.... ... ..+-++|.++|-.
T Consensus 138 ~~Yvge~v~lt~~ly~~~~~~~~~-~~-~~~~p---~~~~~~~~~~~~~~~~~~~~i~G~~y~~~~~~~~~l~P~ksG~l 212 (484)
T PF13584_consen 138 SVYVGEPVILTLRLYTRNNFRQLG-IE-ELPPP---DFEGFWVEQLGDDRQYEEERINGRRYRVIELRRYALFPQKSGTL 212 (484)
T ss_pred ceecCCcEEEEEEEEEecCchhcc-cc-ccCCC---CCCCcEEEECCCCCceeEEEECCEEEEEEEEEEEEEEeCCceeE
Confidence 999999999999998664432 11 00 11111 1233433322111 110 112111 233 3478999999999
Q ss_pred EeCceEEE
Q 013275 418 RITGITVF 425 (446)
Q Consensus 418 ~isgi~l~ 425 (446)
.|+.+++.
T Consensus 213 ~I~~~~~~ 220 (484)
T PF13584_consen 213 TIPPATFE 220 (484)
T ss_pred EecCEEEE
Confidence 99986664
No 44
>TIGR01451 B_ant_repeat conserved repeat domain. This model represents the conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis, and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydial outer membrane proteins.
Probab=45.22 E-value=41 Score=24.68 Aligned_cols=31 Identities=19% Similarity=0.392 Sum_probs=26.8
Q ss_pred eeecceEEEEEEEEcCCCcceEEEEEEEEEe
Q 013275 97 IYLGETFCSYISINNSSTLEVRDVVIKAEIQ 127 (446)
Q Consensus 97 iylGEtFs~~i~v~N~s~~~v~~V~ikaelq 127 (446)
+.+|+++.-.|.+.|.....+++|.|.=.|-
T Consensus 8 ~~~Gd~v~Yti~v~N~g~~~a~~v~v~D~lP 38 (53)
T TIGR01451 8 ATIGDTITYTITVTNNGNVPATNVVVTDILP 38 (53)
T ss_pred cCCCCEEEEEEEEEECCCCceEeEEEEEcCC
Confidence 6789999999999999999999998875443
No 45
>KOG1931 consensus Putative transmembrane protein [General function prediction only]
Probab=42.71 E-value=29 Score=40.42 Aligned_cols=57 Identities=9% Similarity=0.095 Sum_probs=43.1
Q ss_pred EEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEecccceEEeCceEEEec
Q 013275 369 FEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRITGITVFDK 427 (446)
Q Consensus 369 l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isgi~l~D~ 427 (446)
-++..+... ....++++|.+...+..=.-.++..+.+.++||.+|+..+|.++|..-
T Consensus 1069 ~elmYEv~a--~s~~Wli~Gr~~g~Is~~~~q~t~~i~v~~vPL~aGyl~lP~v~l~n~ 1125 (1156)
T KOG1931|consen 1069 GELMYEVLA--NSNNWLIAGRKRGVISMKRKQTTHQISVHVVPLKAGYLPLPRVRLTNY 1125 (1156)
T ss_pred ceEEEEecC--CCceEEEecCccceeeeeccccceEEEEEEEEeccccccCceeecccc
Confidence 445444321 236899999998887443444588999999999999999999999853
No 46
>PF15146 FANCAA: Fanconi anemia-associated
Probab=41.69 E-value=52 Score=34.55 Aligned_cols=85 Identities=14% Similarity=0.077 Sum_probs=57.4
Q ss_pred CCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCccc---EEEEEeeCC----CC-CcceEEEecccceeecccCCCCeeE
Q 013275 333 KEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGP---FEIWLSQND----SD-EEKVVMINGLRIMALAPVEAFGSTD 404 (446)
Q Consensus 333 ~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~---l~l~l~~~~----~~-~~~~~~~~G~s~~~Lg~L~P~~s~~ 404 (446)
+.|..+++.-=+...+..-.+++|.+.|.|+-.++. |-|.+.... ++ ...+.-| .+++..|.||+.++
T Consensus 57 kpI~C~~tt~WSrll~qD~L~~tCvLeNsS~~sLe~GWtLCiqv~~~s~~~~~~~~~Satty----tfPv~~L~PG~~~E 132 (435)
T PF15146_consen 57 KPISCTVTTSWSRLLLQDSLTATCVLENSSDFSLERGWTLCIQVLSSSCALDTDSASSATTY----TFPVDNLGPGERRE 132 (435)
T ss_pred CCceeEEechhhHHHhhcceeeEEEEecCCCccccCCceEEEEeccCCCCcccCCCCCceeE----EEEcccCCCCceeE
Confidence 335555554445566778899999999999887662 445443321 00 0112222 36788999999999
Q ss_pred EEEEEEecccceEEeCc
Q 013275 405 FHLNLIATKLGVQRITG 421 (446)
Q Consensus 405 ~~L~l~pl~~Glq~isg 421 (446)
|+|.|-|-.-|--.+|=
T Consensus 133 VtLPLg~~~~g~l~lPv 149 (435)
T PF15146_consen 133 VTLPLGPAEDGKLDLPV 149 (435)
T ss_pred EEEecCccccccccccE
Confidence 99999888888777764
No 47
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=38.20 E-value=1.3e+02 Score=23.21 Aligned_cols=46 Identities=11% Similarity=0.197 Sum_probs=34.9
Q ss_pred ecCcCCCeEEEEEecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEee
Q 013275 328 TTITSKEIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQ 375 (446)
Q Consensus 328 ~~~~~~dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~ 375 (446)
......++.+....-+..+.+++.+.++++++|....... -+.+..
T Consensus 19 ~~~~~~~~~~~k~~~~~~~~~Gd~v~ytitvtN~G~~~a~--nv~v~D 64 (76)
T PF01345_consen 19 TVVAIPDLSITKTVNPSTANPGDTVTYTITVTNTGPAPAT--NVVVTD 64 (76)
T ss_pred eccCCCCEEEEEecCCCcccCCCEEEEEEEEEECCCCeeE--eEEEEE
Confidence 3455667777777788899999999999999999776644 355544
No 48
>COG5066 SCS2 VAMP-associated protein involved in inositol metabolism [Intracellular trafficking and secretion]
Probab=34.93 E-value=75 Score=30.52 Aligned_cols=74 Identities=11% Similarity=0.060 Sum_probs=53.2
Q ss_pred EEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEecccceEEeCceEEEecCCCeee
Q 013275 354 LKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQRITGITVFDKLEKITY 433 (446)
Q Consensus 354 v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq~isgi~l~D~~~~r~y 433 (446)
--+.|.|++..... ..+... ++-.++.-+ .-|.|+|++++.+..-|.++.- -..++.++-|+++=+.|
T Consensus 21 e~~sv~Nnspepvg---fKVKTT----aPK~YcVRP---N~g~Iep~stv~VeVilq~l~e--EpapdfKCrdKFLiqs~ 88 (242)
T COG5066 21 EMFSVQNNSPEPVG---FKVKTT----APKDYCVRP---NMGLIEPMSTVEVEVILQGLTE--EPAPDFKCRDKFLIQSY 88 (242)
T ss_pred eeeEeecCCCCcee---EEeecc----CCcceeEcC---CCceeccCCeeEEEEEeecccc--CCCCCccccceeEEEEe
Confidence 44678888777655 445443 233444433 4678999999999998887754 46788999999999999
Q ss_pred ccCCCe
Q 013275 434 DSLPDL 439 (446)
Q Consensus 434 ~~~~~~ 439 (446)
.++...
T Consensus 89 ~~~~~l 94 (242)
T COG5066 89 RFDWRL 94 (242)
T ss_pred ccChhh
Confidence 887543
No 49
>PF14728 PHTB1_C: PTHB1 C-terminus
Probab=31.26 E-value=2.8e+02 Score=28.95 Aligned_cols=80 Identities=14% Similarity=0.163 Sum_probs=47.8
Q ss_pred EEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEEcccc-CceEEEE--EEEEEcCCCce
Q 013275 105 SYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHDVKEL-GAHTLVC--TALYSDGEGER 181 (446)
Q Consensus 105 ~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~lke~-G~h~L~c--~VsY~~~~Ge~ 181 (446)
|.+.|.=.+...+++|.+.+..+.| +.... ..--+..+.+|.+-...+.+-+++. =.+.+.| .++|+.+.|..
T Consensus 1 ~~v~v~~~~~~~~~~v~v~v~~~~P---l~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~pssl~v~v~asy~~~~G~~ 76 (377)
T PF14728_consen 1 CTVKVTLKSRSTLENVQVSVVVDPP---LACSQ-DTFVFENISPGSSQTVEISFYVSGSLPPSSLEVTVVASYTTPTGIP 76 (377)
T ss_pred CeEEEEEecceeeEeeEEEEEeCCC---EeecC-CeEEEEecCCCCcEEEEEEEEeCCCcCCccceEEEEEEEECCCccc
Confidence 3455555566778888888877776 11100 1112356778777666666666543 2345544 45899988987
Q ss_pred eeeceEE
Q 013275 182 KYLPQFF 188 (446)
Q Consensus 182 ~~frK~f 188 (446)
|...+.+
T Consensus 77 rv~~~~~ 83 (377)
T PF14728_consen 77 RVVQCTF 83 (377)
T ss_pred eeeEEEE
Confidence 6655543
No 50
>COG1361 S-layer domain [Cell envelope biogenesis, outer membrane]
Probab=31.14 E-value=6.8e+02 Score=26.74 Aligned_cols=295 Identities=13% Similarity=0.033 Sum_probs=150.6
Q ss_pred eeecceEEEEEEEEcCCCcceEEEEEEEEEeCC--CceEeccCCCCCCccccCCCCeeeEEEEE---EccccCceEEEEE
Q 013275 97 IYLGETFCSYISINNSSTLEVRDVVIKAEIQTD--KQRILLLDTSKSPVESIRAGGRYDFIVEH---DVKELGAHTLVCT 171 (446)
Q Consensus 97 iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~--s~r~~L~~~~~~~~~~L~pg~~ld~iv~~---~lke~G~h~L~c~ 171 (446)
+--|+.|--.+.+.|.......++.+...-.-+ -.+.............+. |+..+.-.+. .-...|.|.+-..
T Consensus 43 ~~~~~~~~l~v~~~n~~~~~~~~v~v~i~~~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~V~~~a~~g~y~i~v~ 121 (500)
T COG1361 43 ARPGEDVDLTVTIENVGELLAEDVKVEITPEYPFSLVSGETLLLSIGTLNFLG-GEPATVKFKLTVDENAKSGDYEIDVY 121 (500)
T ss_pred cCcccceEEEEEeccccccccccEEEEEEecccceeeEEEeecCCCceeeecC-CCcceEEEEEEEcCCCCCCcEEEeEE
Confidence 456999999999999987777777766655544 111111111111222333 4433333333 3356699999888
Q ss_pred EE--EEcCCCceeee--ceEEEEEeecC----eEEEEEeEEccccccccCCeeEEEEEEEecccccEEEEeEEeeecCCc
Q 013275 172 AL--YSDGEGERKYL--PQFFKFIVSNP----LSVRTKVRVVKVGATHFQEITFLEACIENHTKSNLYMDQVEFEPSQNW 243 (446)
Q Consensus 172 Vs--Y~~~~Ge~~~f--rK~fkF~v~~P----l~VrtK~~~~~~~~~~~~~~~~LEaqiqN~s~~~l~le~v~Lep~~~~ 243 (446)
+. |....+..-.+ .....+.+..+ +.+-+--..+. ..+..-|..-|+|....+..=-.+.+++...+
T Consensus 122 ~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~v~~~~~~i~-----~G~~~~l~~~I~N~G~~~~~~v~l~~~~~~~~ 196 (500)
T COG1361 122 VSIIGSSDESEETSFTVEVTIYVEVDVPVIESFEVVSSPEAII-----PGETNTLTLTIKNPGEGPAKNVSLSLESPTSY 196 (500)
T ss_pred EEEEeecccceeEEEEeeeeEEEEEeecccceeEEecCccccC-----CCCccEEEEEEEeCCcccccceEEEEeCCcce
Confidence 85 33333322111 22333333322 33333222221 23334689999999988776556666541100
Q ss_pred eeeeecCCCCCCCCCcccccccCCceEEeCCCCeeeEEEEEeecCCCCCCCccccCceeeEEEEEEEEcCCCCCceeeEE
Q 013275 244 SATMLKADGPHSDYNAQSREIFKPPVLIRSGGGIHNYLYQLKMLSHGSSSPVKVQGSNVLGKLQITWRTNLGEPGRLQTQ 323 (446)
Q Consensus 244 ~~~~ln~~~~~~~~~~~~~~~~~~~~l~~~~gd~~q~lf~l~~~~~~~~~~~~~~g~~~lGkL~I~WRs~~Ge~G~L~Ts 323 (446)
... + .+.+ +.+. .=.+.++++...-|.+...... ....-..++.|.|+..-+..-...+.
T Consensus 197 ~~~-i------~~~~----~~~~--i~~l~p~es~~v~f~v~~~~~a-------~~g~y~i~i~i~~~~~~~~~~~~~~~ 256 (500)
T COG1361 197 LGP-I------YSAN----DTPY--IGALGPGESVNVTFSVYAGSNA-------EPGTYTINLEITYKDEEGSVKSPTIT 256 (500)
T ss_pred ecc-c------cccc----ccee--eeeeCCCceEEEEEEEEeecCC-------CCccEEEEEEEEEecCCccccccceE
Confidence 000 0 0000 0000 1135688999998888876421 33556789999999944333333322
Q ss_pred eeeeecCcCCCeEEEEEecCceEeeCCcEEEEEEEEe--CCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCC
Q 013275 324 QILGTTITSKEIELNVVEVPSVVGIDKPFLLKLKLTN--QTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFG 401 (446)
Q Consensus 324 ~l~~~~~~~~dl~l~v~~~P~~v~l~~pF~v~~~v~N--~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~ 401 (446)
. -.......++.++.+..........-..+..++.| .-.... ..++..... .....-.+.......+|.|.+|.
T Consensus 257 ~-~i~~~~~~~~~is~v~~~p~~~~~~~~~i~~~~~~~~~~~~~~--~~~~~v~~~-~~~~~~~~~~~~~~~ig~l~~g~ 332 (500)
T COG1361 257 I-GIVVVGEPKLDISNVKFDPGVIPLGGVSIEITITIENSGSAPN--QTVRLVTGS-PFTEKSGYTPGEYVAIGNLGPGE 332 (500)
T ss_pred E-EEecCCceeEEEEEEEecCCeeccceeEEEEEEEEEecccccc--eEEEEEecC-CcccccCCccceEEEEeccCCCc
Confidence 1 11224455555555443322222333344444444 322222 333332211 00001113444557799999999
Q ss_pred eeEEEEEEEecccc---eEEeCc
Q 013275 402 STDFHLNLIATKLG---VQRITG 421 (446)
Q Consensus 402 s~~~~L~l~pl~~G---lq~isg 421 (446)
.....+++-.-..| -..+|.
T Consensus 333 ~~~~~f~v~~d~~~~~~~~~~Pi 355 (500)
T COG1361 333 LATASFDVKLDEDGISGEYEIPI 355 (500)
T ss_pred eeeeEEEEEcCccccCCCCcccE
Confidence 99999988877774 555554
No 51
>PF11906 DUF3426: Protein of unknown function (DUF3426); InterPro: IPR021834 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 262 to 463 amino acids in length.
Probab=30.79 E-value=1.8e+02 Score=25.50 Aligned_cols=59 Identities=19% Similarity=0.151 Sum_probs=37.0
Q ss_pred eCCcEEEEEEEEeCCCCCcc--cEEEEEeeCCCCCcceEEEecc---------cceeecccCCCCeeEEEEEEE
Q 013275 348 IDKPFLLKLKLTNQTDKEQG--PFEIWLSQNDSDEEKVVMINGL---------RIMALAPVEAFGSTDFHLNLI 410 (446)
Q Consensus 348 l~~pF~v~~~v~N~s~r~~~--~l~l~l~~~~~~~~~~~~~~G~---------s~~~Lg~L~P~~s~~~~L~l~ 410 (446)
-...|.++.+|+|.+++.+. .+++.+.... +..+..=. ....-..|.||++..|.+.+.
T Consensus 66 ~~~~l~v~g~i~N~~~~~~~~P~l~l~L~D~~----g~~l~~r~~~P~~yl~~~~~~~~~l~pg~~~~~~~~~~ 135 (149)
T PF11906_consen 66 GPGVLVVSGTIRNRADFPQALPALELSLLDAQ----GQPLARRVFTPADYLPPGLAAQAGLPPGESVPFRLRLE 135 (149)
T ss_pred CCCEEEEEEEEEeCCCCcccCceEEEEEECCC----CCEEEEEEEChHHhcccccccccccCCCCeEEEEEEee
Confidence 45678899999999888665 2666665432 11221100 000133589999999999776
No 52
>PF00630 Filamin: Filamin/ABP280 repeat; InterPro: IPR017868 The many different actin cross-linking proteins share a common architecture, consisting of a globular actin-binding domain and an extended rod. Whereas their actin-binding domains consist of two calponin homology domains (see IPR001715 from INTERPRO), their rods fall into three families. The rod domain of the family including the Dictyostelium discoideum (Slime mould) gelation factor (ABP120) and human filamin (ABP280) is constructed from tandem repeats of a 100-residue motif that is glycine and proline rich []. The gelation factor's rod contains 6 copies of the repeat, whereas filamin has a rod constructed from 24 repeats. The resolution of the 3D structure of rod repeats from the gelation factor has shown that they consist of a beta-sandwich, formed by two beta-sheets arranged in an immunoglobulin-like fold [, ]. Because conserved residues that form the core of the repeats are preserved in filamin, the repeat structure should be common to the members of the gelation factor/filamin family. The head to tail homodimerisation is crucial to the function of the ABP120 and ABP280 proteins. This interaction involves a small portion at the distal end of the rod domains. For the gelation factor it has been shown that the carboxy-terminal repeat 6 dimerises through a double edge-to-edge extension of the beta-sheet and that repeat 5 contributes to dimerisation to some extent [, , ].; PDB: 2DI9_A 2EEC_A 2DIC_A 2EEA_A 2DMC_A 2EE9_A 2D7O_A 2D7N_A 2K7P_A 2NQC_A ....
Probab=30.59 E-value=2.8e+02 Score=22.14 Aligned_cols=67 Identities=13% Similarity=0.138 Sum_probs=45.7
Q ss_pred eeecceEEEEEEEEcCCCcceE--EEEEEEEEeCCCce-----EeccCCCCCCccccCCCCeeeEEEEEEccccCceEEE
Q 013275 97 IYLGETFCSYISINNSSTLEVR--DVVIKAEIQTDKQR-----ILLLDTSKSPVESIRAGGRYDFIVEHDVKELGAHTLV 169 (446)
Q Consensus 97 iylGEtFs~~i~v~N~s~~~v~--~V~ikaelqT~s~r-----~~L~~~~~~~~~~L~pg~~ld~iv~~~lke~G~h~L~ 169 (446)
+.+|+....+|...+.....+. ...+.|.+..++.. +... +.+...| ...++|..++.|.|.|.
T Consensus 17 ~~~g~~~~F~V~~~d~~g~~~~~~~~~~~v~i~~p~~~~~~~~~~~~------v~~~~~G---~y~v~y~p~~~G~y~i~ 87 (101)
T PF00630_consen 17 AVVGEPATFTVDTRDAGGNPVSSGGDEFQVTITSPDGKEEPVPVPVE------VIDNGDG---TYTVSYTPTEPGKYKIS 87 (101)
T ss_dssp EETTSEEEEEEEETTTTSSBEESTSSEEEEEEESSSSESS--EEEEE------EEEESSS---EEEEEEEESSSEEEEEE
T ss_pred eECCCcEEEEEEEccCCCCccccCCceeEEEEeCCCCCccccccceE------EEECCCC---EEEEEEEeCccEeEEEE
Confidence 4889999999999988766554 24556677666544 2210 1122223 46799999999999998
Q ss_pred EEE
Q 013275 170 CTA 172 (446)
Q Consensus 170 c~V 172 (446)
+.+
T Consensus 88 V~~ 90 (101)
T PF00630_consen 88 VKI 90 (101)
T ss_dssp EEE
T ss_pred EEE
Confidence 875
No 53
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=30.10 E-value=1.2e+02 Score=25.01 Aligned_cols=56 Identities=14% Similarity=0.173 Sum_probs=27.6
Q ss_pred cCceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEecccceE
Q 013275 342 VPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIATKLGVQ 417 (446)
Q Consensus 342 ~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~pl~~Glq 417 (446)
-|+.+.+..==++++.++|..++..+ +.+ .+. ... ..|.||++.++.+ -|.++|-.
T Consensus 33 ~P~~i~v~~G~~v~l~~~N~~~~~h~---~~i-------------~~~-~~~-~~l~~g~~~~~~f--~~~~~G~y 88 (104)
T PF13473_consen 33 SPSTITVKAGQPVTLTFTNNDSRPHE---FVI-------------PDL-GIS-KVLPPGETATVTF--TPLKPGEY 88 (104)
T ss_dssp ES-EEEEETTCEEEEEEEE-SSS-EE---EEE-------------GGG-TEE-EEE-TT-EEEEEE--EE-S-EEE
T ss_pred ecCEEEEcCCCeEEEEEEECCCCcEE---EEE-------------CCC-ceE-EEECCCCEEEEEE--cCCCCEEE
Confidence 57766555544455668898666533 323 221 112 4689999987776 47777743
No 54
>PF09478 CBM49: Carbohydrate binding domain CBM49; InterPro: IPR019028 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This domain is found at the C-terminal of cellulases and in vitro binding studies have shown it to binds to crystalline cellulose []. ; GO: 0030246 carbohydrate binding, 0005576 extracellular region
Probab=29.12 E-value=1.6e+02 Score=23.29 Aligned_cols=50 Identities=18% Similarity=0.193 Sum_probs=31.6
Q ss_pred EEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCC------CCCccccCCCCeeeEE
Q 013275 105 SYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTS------KSPVESIRAGGRYDFI 155 (446)
Q Consensus 105 ~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~------~~~~~~L~pg~~ld~i 155 (446)
--+.+.|.++.+|+++.|.++ ....+-..+.... +.=...|+||+++.|-
T Consensus 21 y~v~I~N~~~~~I~~~~i~~~-~l~~~iW~l~~~~~~~y~lPs~~~~i~pg~s~~FG 76 (80)
T PF09478_consen 21 YDVTITNNGSKPIKSLKISID-NLYGSIWGLDKVSGNTYTLPSYQPTIKPGQSFTFG 76 (80)
T ss_pred EEEEEEECCCCeEEEEEEEEC-ccchhheeEEeccCCEEECCccccccCCCCEEEEE
Confidence 446678999999999999998 4332222221100 1113478999988764
No 55
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein FixG. Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.
Probab=28.41 E-value=2.2e+02 Score=30.31 Aligned_cols=88 Identities=20% Similarity=0.260 Sum_probs=55.4
Q ss_pred cCCCeEEEEEecCce--EeeCC---cEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEE
Q 013275 331 TSKEIELNVVEVPSV--VGIDK---PFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDF 405 (446)
Q Consensus 331 ~~~dl~l~v~~~P~~--v~l~~---pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~ 405 (446)
.+.++++.|...+.. +.... -=..+++|.|.+++... +.+.++.. ++..+.+... .+ .++||+..++
T Consensus 322 ~r~~~~~~v~r~r~~l~~~~~~g~i~N~Y~~~i~Nk~~~~~~-~~l~v~g~-----~~~~~~~~~~-~i-~v~~g~~~~~ 393 (434)
T TIGR02745 322 TREPMDLNVLRDRNLLYVRNSDGVVENTYTLKILNKTEQPHE-YYLSVLGL-----PGIKIEGPGA-PI-HVKAGEKVKL 393 (434)
T ss_pred CCCceEEEEEecCCcceEECCCCcEEEEEEEEEEECCCCCEE-EEEEEecC-----CCcEEEcCCc-eE-EECCCCEEEE
Confidence 468888888665442 22111 22467889999999887 88888653 3455555421 33 6799999988
Q ss_pred EEEEEe----cccceEEeCceEEEec
Q 013275 406 HLNLIA----TKLGVQRITGITVFDK 427 (446)
Q Consensus 406 ~L~l~p----l~~Glq~isgi~l~D~ 427 (446)
.+.+.. +..|.+.|. +++.|.
T Consensus 394 ~v~v~~~~~~~~~~~~~i~-~~v~~~ 418 (434)
T TIGR02745 394 PVFLRTPPDALKSGITSIE-IRAYAE 418 (434)
T ss_pred EEEEEechhhccCCceeEE-EEEEEC
Confidence 888655 345555432 445553
No 56
>COG1470 Predicted membrane protein [Function unknown]
Probab=27.09 E-value=2.4e+02 Score=30.39 Aligned_cols=65 Identities=11% Similarity=0.146 Sum_probs=0.0
Q ss_pred eEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCeeEEEEEEEe
Q 013275 345 VVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGSTDFHLNLIA 411 (446)
Q Consensus 345 ~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L~l~p 411 (446)
.+..+.-+.++++|.|+...... +.+.++.-+..=-.-|.--+.+--.+ +|.||.+.++.+.+.|
T Consensus 279 ~i~~~~t~sf~V~IeN~g~~~d~-y~Le~~g~pe~w~~~Fteg~~~vt~v-kL~~gE~kdvtleV~p 343 (513)
T COG1470 279 EISPSTTASFTVSIENRGKQDDE-YALELSGLPEGWTAEFTEGELRVTSV-KLKPGEEKDVTLEVYP 343 (513)
T ss_pred EEccCCceEEEEEEccCCCCCce-eEEEeccCCCCcceEEeeCceEEEEE-EecCCCceEEEEEEec
No 57
>PF08033 Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterPro: IPR012990 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes part of the Sec23/24 beta-barrel domain, which is formed from approximately 180 residues from three segments of the polypeptide. The strands of the barrel are oriented roughly parallel to the membrane such that one end of the barrel forms part of the inner surface of the coat and the other end part of the membrane-distal surface. The barrel is constructed from two opposed sheets: a six-stranded beta sheet facing partly towards the zinc finger domain and partly towards the solvent, and a five-stranded beta sheet facing the helical domain.; PDB: 3EFO_B 3EG9_B 1PD0_A 1PD1_A 1M2V_B 1PCX_A 3EH2_C 3EGD_A 2NUP_A 3EGX_A ....
Probab=25.88 E-value=1.3e+02 Score=24.62 Aligned_cols=40 Identities=25% Similarity=0.438 Sum_probs=26.8
Q ss_pred ccccCCCCeeeEEEEEE--ccccCceEEEEEEEEEcCCCcee
Q 013275 143 VESIRAGGRYDFIVEHD--VKELGAHTLVCTALYSDGEGERK 182 (446)
Q Consensus 143 ~~~L~pg~~ld~iv~~~--lke~G~h~L~c~VsY~~~~Ge~~ 182 (446)
++.+.++.++.+.++++ +++...-.+-+.+.|++.+|+++
T Consensus 44 ~~~l~~~~s~~~~~~~~~~~~~~~~~~iQ~~~~Yt~~~G~r~ 85 (96)
T PF08033_consen 44 LPSLDPDTSFAFEFEIDEDLPNGSQAYIQFALLYTDSNGERR 85 (96)
T ss_dssp EEEEETT--EEEEEEESSBTBTTSEEEEEEEEEEEETTSEEE
T ss_pred ecccCCCCEEEEEEEECCCCCCCCeEEEEEEEEEECCCCCEE
Confidence 34567788887777776 33334557788999999999854
No 58
>PF00345 PapD_N: Pili and flagellar-assembly chaperone, PapD N-terminal domain; InterPro: IPR016147 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the N-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of seven strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2CO6_B 2CO7_B 1L4I_B 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 3DSN_D 2OS7_B ....
Probab=25.80 E-value=2.1e+02 Score=24.19 Aligned_cols=50 Identities=14% Similarity=0.288 Sum_probs=34.9
Q ss_pred EEEEEEEeCCCCCcccEEEEEeeC---C-CCCcceEEEecccceeecccCCCCeeEEEE
Q 013275 353 LLKLKLTNQTDKEQGPFEIWLSQN---D-SDEEKVVMINGLRIMALAPVEAFGSTDFHL 407 (446)
Q Consensus 353 ~v~~~v~N~s~r~~~~l~l~l~~~---~-~~~~~~~~~~G~s~~~Lg~L~P~~s~~~~L 407 (446)
...+.|+|.+++.+- +++++... . ....+.|+++=. +-.|+||++..+.+
T Consensus 17 ~~~i~v~N~~~~~~~-vq~~v~~~~~~~~~~~~~~~~vsPp----~~~L~pg~~q~vRv 70 (122)
T PF00345_consen 17 SASITVTNNSDQPYL-VQVWVYDQDDEDEDEPTDPFIVSPP----IFRLEPGESQTVRV 70 (122)
T ss_dssp EEEEEEEESSSSEEE-EEEEEEETTSTTSSSSSSSEEEESS----EEEEETTEEEEEEE
T ss_pred EEEEEEEcCCCCcEE-EEEEEEcCCCcccccccccEEEeCC----ceEeCCCCcEEEEE
Confidence 668899999998887 88888761 1 112336776643 33579999888888
No 59
>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].
Probab=24.85 E-value=1.3e+03 Score=27.94 Aligned_cols=154 Identities=12% Similarity=0.071 Sum_probs=91.9
Q ss_pred CCccCCCCcccccc-----cccceeecceEEEEEEEEcCCCc--ceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCe
Q 013275 79 ADSIGLSGLLVLPQ-----AFGAIYLGETFCSYISINNSSTL--EVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGR 151 (446)
Q Consensus 79 ~~~~~~~~~L~LP~-----sfG~iylGEtFs~~i~v~N~s~~--~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ 151 (446)
.++| .+|+..-.. .=...-+||....-+.+.|-... .|.++.+.+|-..- +....++.-++|...
T Consensus 625 ~~pF-YnPf~k~~~~~~~~~~~~~V~gE~~~v~VtLqNPf~fel~I~~I~L~~egv~f-------es~~~s~~l~~p~s~ 696 (1185)
T PF08626_consen 625 KGPF-YNPFSKKSSSSSNKKEPLWVVGEPAEVKVTLQNPFKFELEISSISLSTEGVPF-------ESYPVSIVLLPPNST 696 (1185)
T ss_pred CCCc-CChhhcCCcccccccCccEEcCCeEEEEEEEECCccceEEEEEEEEEEcCCcc-------ccceeeeEecCCCcc
Confidence 4567 777776211 22456889999999999998765 45666655543321 000111222377777
Q ss_pred eeEEEEEEccccCce-EEEEEEEEEcCC--------Cce-------------------eee---------ceEEEEEeec
Q 013275 152 YDFIVEHDVKELGAH-TLVCTALYSDGE--------GER-------------------KYL---------PQFFKFIVSN 194 (446)
Q Consensus 152 ld~iv~~~lke~G~h-~L~c~VsY~~~~--------Ge~-------------------~~f---------rK~fkF~v~~ 194 (446)
-...+...=++.|.- +--|.|...--. .+. +.. .+.+++.|.+
T Consensus 697 ~~v~L~g~P~~~G~L~I~G~~i~v~g~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~i~VIp 776 (1185)
T PF08626_consen 697 QTVRLSGTPLETGTLKITGCIIKVFGCREEFFPIFKSEWGSIKGKKLKDKFRKGSRLDKPSPPLESESPKTKSLSIKVIP 776 (1185)
T ss_pred eEEEEEEEECccceEEEEEEEEEEcccccceecccCcccchhhhhhcccccccccccccccccccccccccCcceEEEEC
Confidence 777788888888884 446666432210 000 000 1247888886
Q ss_pred Ce-EEEEEeEEccccc--cccCCeeEEEEEEEecccccEEEEeEEeeec
Q 013275 195 PL-SVRTKVRVVKVGA--THFQEITFLEACIENHTKSNLYMDQVEFEPS 240 (446)
Q Consensus 195 Pl-~VrtK~~~~~~~~--~~~~~~~~LEaqiqN~s~~~l~le~v~Lep~ 240 (446)
++ .+.-+..++...+ ..+.+..-+.+.|+|+|..|+-.-.+.|..+
T Consensus 777 ~qP~L~v~~~sl~~~~~mlleGE~~~~~ItL~N~S~~pvd~l~~sf~DS 825 (1185)
T PF08626_consen 777 PQPLLEVKSSSLTQGALMLLEGEKQTFTITLRNTSSVPVDFLSFSFQDS 825 (1185)
T ss_pred CCCeEEEEeccCCCcceEEECCcEEEEEEEEEECCccccceEEEEEEec
Confidence 54 3333333332111 2456778889999999999998888888744
No 60
>PF14524 Wzt_C: Wzt C-terminal domain; PDB: 2R5O_B.
Probab=24.58 E-value=2.2e+02 Score=23.96 Aligned_cols=91 Identities=15% Similarity=0.113 Sum_probs=51.3
Q ss_pred ceEeeCCcEEEEEEEEeCCC-CCcccEEEEEeeCCCCCcceEEEecccce----eecccCCCC--eeEEEEEEEecccce
Q 013275 344 SVVGIDKPFLLKLKLTNQTD-KEQGPFEIWLSQNDSDEEKVVMINGLRIM----ALAPVEAFG--STDFHLNLIATKLGV 416 (446)
Q Consensus 344 ~~v~l~~pF~v~~~v~N~s~-r~~~~l~l~l~~~~~~~~~~~~~~G~s~~----~Lg~L~P~~--s~~~~L~l~pl~~Gl 416 (446)
+.+..++++.+++.+....+ .... +.+.+... .+..+.|.... .+...+ ++ +.++.+... |.+|-
T Consensus 29 ~~~~~ge~~~i~i~~~~~~~i~~~~-~~~~i~~~-----~g~~v~~~~t~~~~~~~~~~~-~g~~~~~~~i~~~-L~~G~ 100 (142)
T PF14524_consen 29 SSFESGEPIRIRIDYEVNEDIDDPV-FGFAIRDS-----DGQRVFGTNTYDSGFPIPLSE-GGTYEVTFTIPKP-LNPGE 100 (142)
T ss_dssp SSEETTSEEEEEEEEEESS-EEEEE-EEEEEEET-----T--EEEEEEHHHHT--EEE-T-T-EEEEEEEEE---B-SEE
T ss_pred eEEeCCCEEEEEEEEEECCCCCccE-EEEEEEcC-----CCCEEEEECccccCccccccC-CCEEEEEEEEcCc-cCCCe
Confidence 46789999999999998522 2233 56666654 34445543332 344442 33 556677778 99999
Q ss_pred EEeCceEEEecCCCeeeccCCCeeeE
Q 013275 417 QRITGITVFDKLEKITYDSLPDLEIF 442 (446)
Q Consensus 417 q~isgi~l~D~~~~r~y~~~~~~~vf 442 (446)
-.|+=--..+......|++.+.+-.|
T Consensus 101 Y~i~v~l~~~~~~~~~~d~~~~~~~f 126 (142)
T PF14524_consen 101 YSISVGLGDDSSGGEVLDWIEDALSF 126 (142)
T ss_dssp EEEEEEEEETTTEEEEEEEEEEEEEE
T ss_pred EEEEEEEEecCCCCEEEEEECCEEEE
Confidence 88875222366677777776444333
No 61
>PF02752 Arrestin_C: Arrestin (or S-antigen), C-terminal domain; InterPro: IPR011022 G protein-coupled receptors are a large family of signalling molecules that respond to a wide variety of extracellular stimuli. The receptors relay the information encoded by the ligand through the activation of heterotrimeric G proteins and intracellular effector molecules. To ensure the appropriate regulation of the signalling cascade, it is vital to properly inactivate the receptor. This inactivation is achieved, in part, by the binding of a soluble protein, arrestin, which uncouples the receptor from the downstream G protein after the receptors are phosphorylated by G protein-coupled receptor kinases. In addition to the inactivation of G protein-coupled receptors, arrestins have also been implicated in the endocytosis of receptors and cross talk with other signalling pathways. Arrestin (retinal S-antigen) is a major protein of the retinal rod outer segments. It interacts with photo-activated phosphorylated rhodopsin, inhibiting or 'arresting' its ability to interact with transducin []. The protein binds calcium, and shows similarity in its C terminus to alpha-transducin and other purine nucleotide-binding proteins. In mammals, arrestin is associated with autoimmune uveitis. Arrestins comprise a family of closely-related proteins that includes beta-arrestin-1 and -2, which regulate the function of beta-adrenergic receptors by binding to their phosphorylated forms, impairing their capacity to activate G(S) proteins; Cone photoreceptors C-arrestin (arrestin-X) [], which could bind to phosphorylated red/green opsins; and Drosophila phosrestins I and II, which undergo light-induced phosphorylation, and probably play a role in photoreceptor transduction [, , ]. The crystal structure of bovine retinal arrestin comprises two domains of antiparallel beta-sheets connected through a hinge region and one short alpha-helix on the back of the amino-terminal fold []. The binding region for phosphorylated light-activated rhodopsin is located at the N-terminal domain, as indicated by the docking of the photoreceptor to the three-dimensional structure of arrestin. The C-terminal domain consists of an immunoglobulin-like beta-sandwich structure. This entry represents proteins with immunoglobulin-like domains that are similar to those found in arrestin.; PDB: 1SUJ_A 3UGX_A 1CF1_B 1AYR_A 3UGU_A 3P2D_B 1ZSH_A 2WTR_B 3GC3_A 1G4R_A ....
Probab=24.25 E-value=1.2e+02 Score=25.45 Aligned_cols=28 Identities=21% Similarity=0.343 Sum_probs=22.3
Q ss_pred eeecceEEEEEEEEcCCCcceEEEEEEE
Q 013275 97 IYLGETFCSYISINNSSTLEVRDVVIKA 124 (446)
Q Consensus 97 iylGEtFs~~i~v~N~s~~~v~~V~ika 124 (446)
.+.||+....+.+.|.++..|+.+.++.
T Consensus 16 ~~~Ge~i~v~v~i~n~s~~~i~~I~v~L 43 (136)
T PF02752_consen 16 YVPGETIPVNVEIDNQSKKKIKKIKVSL 43 (136)
T ss_dssp EETT--EEEEEEEEE-SSSEEEEEEEEE
T ss_pred ECCCCEEEEEEEEEECCCCEEEEEEEEE
Confidence 4679999999999999999999997776
No 62
>PF09624 DUF2393: Protein of unknown function (DUF2393); InterPro: IPR013417 The function of this protein is unknown. It is always found as part of a two-gene operon with IPR013416 from INTERPRO, a protein that appears to span the membrane seven times. It has so far been found in the bacteria Anabaena sp. (strain PCC 7120), Agrobacterium tumefaciens, Rhizobium meliloti, and Gloeobacter violaceus.
Probab=23.76 E-value=3.3e+02 Score=23.98 Aligned_cols=41 Identities=17% Similarity=0.180 Sum_probs=29.4
Q ss_pred CeEEEEEecCceEeeCCcEEEEEEEEeCCCCCcccEEEEEee
Q 013275 334 EIELNVVEVPSVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQ 375 (446)
Q Consensus 334 dl~l~v~~~P~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~ 375 (446)
..++.+.+.-. ...++-|.+...|+|.++++.....|.++-
T Consensus 47 ~~~~~~~~~~~-l~~~~~~~v~g~V~N~g~~~i~~c~i~~~l 87 (149)
T PF09624_consen 47 KIELTLTSQKR-LQYSESFYVDGTVTNTGKFTIKKCKITVKL 87 (149)
T ss_pred CceEEEeeeee-eeeccEEEEEEEEEECCCCEeeEEEEEEEE
Confidence 34455544322 668999999999999999988766666554
No 63
>PF00207 A2M: Alpha-2-macroglobulin family; InterPro: IPR001599 This entry contains serum complement C3 and C4 precursors and alpha-macrogrobulins. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0004866 endopeptidase inhibitor activity; PDB: 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 2PN5_A 3FRP_G 3HRZ_B ....
Probab=23.15 E-value=2.9e+02 Score=22.21 Aligned_cols=39 Identities=13% Similarity=0.195 Sum_probs=28.0
Q ss_pred EEEeecCeEEEEEe-EEccccccccCCeeEEEEEEEecccccEEE
Q 013275 189 KFIVSNPLSVRTKV-RVVKVGATHFQEITFLEACIENHTKSNLYM 232 (446)
Q Consensus 189 kF~v~~Pl~VrtK~-~~~~~~~~~~~~~~~LEaqiqN~s~~~l~l 232 (446)
+|.+.+||-|+... +.+. ..|++.+.+.|-|-++..+.+
T Consensus 49 ~~~v~~p~~i~~~lP~~l~-----~GD~~~i~v~v~N~~~~~~~v 88 (92)
T PF00207_consen 49 EITVFKPFFIQLNLPRSLR-----RGDQIQIPVTVFNYTDKDQEV 88 (92)
T ss_dssp EEEEB-SEEEEEE--SEEE-----TTSEEEEEEEEEE-SSS-EEE
T ss_pred EEEEEeeEEEEcCCCcEEe-----cCCEEEEEEEEEeCCCCCEEE
Confidence 89999999998764 3332 488999999999999887754
No 64
>cd05755 Ig2_ICAM-1_like Second immunoglobulin (Ig)-like domain of intercellular cell adhesion molecule-1 (ICAM-1, CD54) and similar proteins. Ig2_ ICAM-1_like: domain similar to the second immunoglobulin (Ig)-like domain of intercellular cell adhesion molecule-1 (ICAM-1, CD54). During the inflammation process, these molecules recruit leukocytes onto the vascular endothelium before extravasation to the injured tissues. ICAM-1 may be involved in organ targeted tumor metastasis. The interaction of ICAM-1 with leukocyte function-associated antigen-1 (LFA-1) plays a part in leukocyte-endothelial cell recognition. This group also contains ICAM-2, which also interacts with LFA-1. Transmigration of immature dendritic cells across resting endothelium is dependent on the interaction of ICAM-2 with, yet unidentified, ligand(s) on the dendritic cells. ICAM-1 has five Ig-like domains and ICAM-2 has two. ICAM-1 may also act as host receptor for viruses and parasites.
Probab=23.12 E-value=85 Score=26.35 Aligned_cols=25 Identities=16% Similarity=0.315 Sum_probs=22.0
Q ss_pred EEEEecCceEeeCCcEEEEEEEEeC
Q 013275 337 LNVVEVPSVVGIDKPFLLKLKLTNQ 361 (446)
Q Consensus 337 l~v~~~P~~v~l~~pF~v~~~v~N~ 361 (446)
+.+...|..+..++.|+++|.+.|-
T Consensus 4 V~l~~~p~~~~eG~~~tL~C~v~g~ 28 (100)
T cd05755 4 VELSPLPSWQPVGKNYTLQCDVPGV 28 (100)
T ss_pred EEEecCCCcccCCCcEEEEEEEcCc
Confidence 4566789999999999999999995
No 65
>KOG1953 consensus Targeting complex (TRAPP) subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.78 E-value=2.2e+02 Score=33.50 Aligned_cols=71 Identities=18% Similarity=0.156 Sum_probs=49.4
Q ss_pred eEeeCCcEEEEEEEEeC--CCCCcccEEEEEeeCCCCCcceEEEecccceeecccCCCCe-eEEEEEEEecccceEEeCc
Q 013275 345 VVGIDKPFLLKLKLTNQ--TDKEQGPFEIWLSQNDSDEEKVVMINGLRIMALAPVEAFGS-TDFHLNLIATKLGVQRITG 421 (446)
Q Consensus 345 ~v~l~~pF~v~~~v~N~--s~r~~~~l~l~l~~~~~~~~~~~~~~G~s~~~Lg~L~P~~s-~~~~L~l~pl~~Glq~isg 421 (446)
.-.+++|..|+|+|.|. .+-..+++.+..+... .+.+. +.+ .++|... .+++|.-+|+..|=..|.|
T Consensus 688 vwVvdepvef~v~v~Np~~fdl~V~Di~L~~egvn---F~~~~------vs~-~~Ppns~~e~Irl~g~P~e~gpl~i~g 757 (1235)
T KOG1953|consen 688 VWVVDEPVEFSVYVRNPLSFDLEVQDIHLETEGVN---FKCSH------VSF-TMPPNSIAERIRLTGTPTETGPLHIVG 757 (1235)
T ss_pred EEEeCCceEEEEEEcCccceeEEEeeEEEEecccc---ceeee------eee-ecCcccccceEEEeccccccCceeeee
Confidence 34689999999999997 4444444555444321 12222 223 4677777 8999999999999999999
Q ss_pred eEEE
Q 013275 422 ITVF 425 (446)
Q Consensus 422 i~l~ 425 (446)
-++.
T Consensus 758 y~v~ 761 (1235)
T KOG1953|consen 758 YRVK 761 (1235)
T ss_pred EEEE
Confidence 6664
No 66
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=21.46 E-value=7.8e+02 Score=24.72 Aligned_cols=80 Identities=8% Similarity=0.041 Sum_probs=51.9
Q ss_pred ceEeeCCcEEEEEEEEeCCCCCcccEEEEEeeCCC-CCcceEEEecccceeec-ccCCCCeeEEEEEEEe---cccceEE
Q 013275 344 SVVGIDKPFLLKLKLTNQTDKEQGPFEIWLSQNDS-DEEKVVMINGLRIMALA-PVEAFGSTDFHLNLIA---TKLGVQR 418 (446)
Q Consensus 344 ~~v~l~~pF~v~~~v~N~s~r~~~~l~l~l~~~~~-~~~~~~~~~G~s~~~Lg-~L~P~~s~~~~L~l~p---l~~Glq~ 418 (446)
..+..++|..+-+-++|+-+.... + ..++.+.. ...-.+++...+..+.+ .++||...+|.+.+.| +.++=..
T Consensus 93 ~~l~aG~~~~~LvgftN~g~~~~~-V-~~i~aSl~~p~d~~~~iqNfTa~~y~~~V~pg~~aT~~YsF~~~~~l~pr~f~ 170 (285)
T PF03896_consen 93 KKLPAGEPVKFLVGFTNKGSEPFT-V-ESIEASLRYPQDYSYYIQNFTAVRYNREVPPGEEATFPYSFTPSEELAPRPFG 170 (285)
T ss_pred ccccCCCeEEEEEEEEeCCCCCEE-E-EEEeeeecCccccceEEEeecccccCcccCCCCeEEEEEEEecchhcCCcceE
Confidence 456789999999999999554332 1 12211100 01245677777666544 4899999999999998 6677666
Q ss_pred eCceEEE
Q 013275 419 ITGITVF 425 (446)
Q Consensus 419 isgi~l~ 425 (446)
+..--++
T Consensus 171 L~i~l~y 177 (285)
T PF03896_consen 171 LVINLIY 177 (285)
T ss_pred EEEEEEE
Confidence 6664444
No 67
>TIGR03517 GldM_gliding gliding motility-associated protein GldM. This protein family, GldM, is named for the member from Flavobacterium johnsoniae, which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes. However, members are found also in several members of the Bacteriodetes that appear not to be motile. The best conserved region, toward the N-terminus, is centered on a highly hydrobobic probable transmembrane helix. Two paralogs are found in Cytophaga hutchinsonii.
Probab=21.33 E-value=5.1e+02 Score=28.38 Aligned_cols=81 Identities=14% Similarity=0.180 Sum_probs=51.9
Q ss_pred cccceeecceEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCCCCCccccCCCCeeeEEEEEEccccCceEEEEEE
Q 013275 93 AFGAIYLGETFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTSKSPVESIRAGGRYDFIVEHDVKELGAHTLVCTA 172 (446)
Q Consensus 93 sfG~iylGEtFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~~~~~~~L~pg~~ld~iv~~~lke~G~h~L~c~V 172 (446)
.-+.+|-||+|.+-|.+...++..-=. +.+.. . .|..++ .-++.+...-+|.|.+.-.+
T Consensus 242 ~s~~v~~Ge~~~a~vvL~a~ds~~~P~-------------~~vnG---~---~l~~~G--~g~~~~~aggvGe~~i~G~i 300 (523)
T TIGR03517 242 KSDAVFAGETYEAEVVLGASDSTLQPT-------------MFVNG---Q---LLTVEG--IGVYTFKAGGVGKQTWKGQI 300 (523)
T ss_pred CCceeecCCeEEEEEEEEecCCCcCce-------------EEECC---e---EcccCC--cEEEEEecCCceeEEEEEEE
Confidence 346789999999999888653321111 12211 0 111011 12355555689999999999
Q ss_pred EEEcCCCceeeeceEEEEEeecC
Q 013275 173 LYSDGEGERKYLPQFFKFIVSNP 195 (446)
Q Consensus 173 sY~~~~Ge~~~frK~fkF~v~~P 195 (446)
.|.+ +|+...+.-..+|.|.+|
T Consensus 301 ~~~~-~G~~~~~~~~~~Y~Vi~~ 322 (523)
T TIGR03517 301 KIKE-NGKDTRRSFSEDYFVVKP 322 (523)
T ss_pred EEec-CCcEEEEecceeEEEecc
Confidence 9996 898877776688888863
No 68
>PF04314 DUF461: Protein of unknown function (DUF461); InterPro: IPR007410 This entry represents a domain found in of proteins of unknown function, including DR1885 from Deinococcus radiodurans and CC3502 from Caulobacter crescentus (Caulobacter vibrioides), which share a potential metal binding motif H(M)X10MX21HXM. DR1885 was found to bind copper(I) through a histidine and three Mets in a cupredoxin-like fold []. The surface location of the copper-binding site as well as the type of coordination are well poised for metal transfer chemistry, suggesting that DR1885 might transfer copper, taking the role of Cox17 in bacteria (Cox17 being an accessory protein required for correct assembly of eukaryotic cyochrome c oxidase). ; PDB: 2K6W_A 2K6Z_A 2K6Y_A 2K70_A 1X9L_A 2JQA_A.
Probab=21.28 E-value=3.1e+02 Score=23.02 Aligned_cols=62 Identities=23% Similarity=0.279 Sum_probs=37.3
Q ss_pred eEEEEEEEEcCCCcceEEEEEEEEEeCCCceEeccCCC---------CCCccccCCCCeeeEEEEEEccccCceEEEEEE
Q 013275 102 TFCSYISINNSSTLEVRDVVIKAEIQTDKQRILLLDTS---------KSPVESIRAGGRYDFIVEHDVKELGAHTLVCTA 172 (446)
Q Consensus 102 tFs~~i~v~N~s~~~v~~V~ikaelqT~s~r~~L~~~~---------~~~~~~L~pg~~ld~iv~~~lke~G~h~L~c~V 172 (446)
.=..|+.+.|.++.+++-+.++.+ ...++.|+.+. ...--.|.||+++.+ +--|.|++...+
T Consensus 15 ~~a~y~ti~N~g~~~~~L~~v~s~---~a~~v~lh~~~~~~g~~~m~~v~~i~ipa~~~v~l------~pgg~HlmL~g~ 85 (110)
T PF04314_consen 15 VTAAYFTITNNGDQDDRLVGVSSP---AAARVELHETVMEDGVMKMRPVDSIPIPAGSTVEL------KPGGYHLMLMGL 85 (110)
T ss_dssp EEEEEEEEE-CSSSEEEEEEEE-T---TCCEEEEEEECCCCCEEEECCSS-EEEETT-EEEE-------CCCCEEEEECE
T ss_pred cEEEEEEEEeCCCCCeEEEEEEcC---CCceEEEEEEEccCCeEEEEECCCEEECCCCeEEe------cCCCEEEEEeCC
Confidence 456899999999999888877764 23444443321 111235778887765 666788887664
No 69
>PF11611 DUF4352: Domain of unknown function (DUF4352); InterPro: IPR021652 This entry is represented by Bacteriophage A118, Gp32. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a group of putative lipoproteins of unknown function.; PDB: 3CFU_A.
Probab=20.74 E-value=3e+02 Score=22.76 Aligned_cols=69 Identities=12% Similarity=0.009 Sum_probs=38.1
Q ss_pred eEEEEEEEEcCCCcceEEEEEEEEEeCCC-ceEecc--CCCC---CCccccCCCCeeeEEEEEEccccCc-eEEEE
Q 013275 102 TFCSYISINNSSTLEVRDVVIKAEIQTDK-QRILLL--DTSK---SPVESIRAGGRYDFIVEHDVKELGA-HTLVC 170 (446)
Q Consensus 102 tFs~~i~v~N~s~~~v~~V~ikaelqT~s-~r~~L~--~~~~---~~~~~L~pg~~ld~iv~~~lke~G~-h~L~c 170 (446)
-....+.|.|.++.++.--.....|.+.. ...... .... ....+|.||++.+-.+-|++..-.. ..|..
T Consensus 37 fv~v~v~v~N~~~~~~~~~~~~f~l~d~~g~~~~~~~~~~~~~~~~~~~~i~pG~~~~g~l~F~vp~~~~~~~l~~ 112 (123)
T PF11611_consen 37 FVVVDVTVKNNGDEPLDFSPSDFKLYDSDGNKYDPDFSASSNDNDLFSETIKPGESVTGKLVFEVPKDDKPYTLEY 112 (123)
T ss_dssp EEEEEEEEEE-SSS-EEEEGGGEEEE-TT--B--EEE-CCCTTTB--EEEE-TT-EEEEEEEEEESTT-GG-EEEE
T ss_pred EEEEEEEEEECCCCcEEecccceEEEeCCCCEEcccccchhccccccccEECCCCEEEEEEEEEECCCCccEEEEE
Confidence 34578888998887765433355666554 222211 1111 1246899999999999999988766 66665
Done!