Query 001890
Match_columns 1000
No_of_seqs 168 out of 225
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 11:41:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001890.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001890hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1877 Putative transmembrane 100.0 2E-133 4E-138 1179.1 43.1 792 12-997 1-819 (819)
2 PF01602 Adaptin_N: Adaptin N 94.6 4.6 0.0001 47.9 22.4 316 87-520 202-522 (526)
3 KOG2171 Karyopherin (importin) 94.0 28 0.0006 45.6 28.0 135 109-293 200-337 (1075)
4 KOG2171 Karyopherin (importin) 93.7 8.5 0.00018 50.0 22.8 311 87-477 216-596 (1075)
5 KOG2023 Nuclear transport rece 91.3 8.1 0.00017 47.9 17.4 228 109-367 172-451 (885)
6 PF01602 Adaptin_N: Adaptin N 89.7 23 0.00049 42.1 19.6 256 88-452 242-498 (526)
7 PF12348 CLASP_N: CLASP N term 88.4 15 0.00032 38.9 15.3 138 281-441 69-210 (228)
8 PF10508 Proteasom_PSMB: Prote 86.8 83 0.0018 38.2 22.4 348 79-523 43-421 (503)
9 KOG1877 Putative transmembrane 80.9 5.9 0.00013 50.2 9.1 50 866-916 730-784 (819)
10 PF12755 Vac14_Fab1_bd: Vacuol 80.5 3.5 7.6E-05 39.3 5.6 37 179-217 2-38 (97)
11 KOG1824 TATA-binding protein-i 74.5 92 0.002 40.6 16.5 113 66-194 250-363 (1233)
12 KOG1241 Karyopherin (importin) 57.6 2.6E+02 0.0056 36.0 15.6 320 68-459 362-734 (859)
13 PF12348 CLASP_N: CLASP N term 57.4 1.3E+02 0.0029 31.8 11.9 96 421-521 107-205 (228)
14 PF08161 NUC173: NUC173 domain 50.8 1.6E+02 0.0035 31.7 11.2 175 328-521 19-198 (198)
15 smart00638 LPD_N Lipoprotein N 49.8 4E+02 0.0086 32.7 15.8 50 458-517 489-540 (574)
16 KOG1242 Protein containing ada 48.8 6.4E+02 0.014 31.6 20.2 206 284-523 235-445 (569)
17 PF11864 DUF3384: Domain of un 47.3 3.8E+02 0.0082 32.3 14.8 123 324-462 233-362 (464)
18 PF11864 DUF3384: Domain of un 42.7 6.8E+02 0.015 30.2 25.4 364 55-518 50-462 (464)
19 PF08623 TIP120: TATA-binding 40.0 1.3E+02 0.0029 31.8 8.3 95 93-192 46-147 (169)
20 COG5215 KAP95 Karyopherin (imp 39.0 5.1E+02 0.011 32.6 13.8 143 48-194 343-531 (858)
21 PF05804 KAP: Kinesin-associat 37.3 4E+02 0.0087 34.2 13.4 91 78-171 253-344 (708)
22 PF10350 DUF2428: Putative dea 36.4 2.1E+02 0.0047 31.6 9.8 41 279-320 211-255 (255)
23 PF02444 HEV_ORF1: Hepatitis E 32.6 17 0.00036 34.9 0.3 13 15-27 18-30 (114)
24 PF08506 Cse1: Cse1; InterPro 32.1 3.1E+02 0.0067 32.3 10.6 122 276-401 222-356 (370)
25 PF08167 RIX1: rRNA processing 31.5 2.2E+02 0.0047 29.5 8.3 109 78-193 29-144 (165)
26 PF08711 Med26: TFIIS helical 30.5 65 0.0014 27.0 3.6 45 758-802 2-47 (53)
27 PF00790 VHS: VHS domain; Int 30.0 87 0.0019 31.4 5.0 110 32-146 5-119 (140)
28 KOG1062 Vesicle coat complex A 28.4 1.5E+03 0.032 29.8 23.2 98 67-164 172-280 (866)
29 PF10508 Proteasom_PSMB: Prote 27.8 1.2E+03 0.026 28.5 16.9 191 305-520 120-317 (503)
30 PF10165 Ric8: Guanine nucleot 26.7 1.2E+03 0.026 28.2 17.4 32 492-523 307-338 (446)
31 PF04826 Arm_2: Armadillo-like 26.0 72 0.0016 35.6 3.9 69 116-191 55-123 (254)
32 PF08064 UME: UME (NUC010) dom 25.9 1.3E+02 0.0028 29.1 5.2 59 92-153 33-91 (107)
33 PF04821 TIMELESS: Timeless pr 25.8 6.8E+02 0.015 28.0 11.5 181 284-523 10-209 (266)
34 PTZ00429 beta-adaptin; Provisi 25.8 1.6E+03 0.034 29.3 28.7 342 51-520 197-544 (746)
35 PF12460 MMS19_C: RNAPII trans 24.3 1.3E+02 0.0028 35.5 5.8 119 86-217 246-376 (415)
36 cd00197 VHS_ENTH_ANTH VHS, ENT 23.0 77 0.0017 30.4 3.0 60 47-110 14-73 (115)
37 cd00020 ARM Armadillo/beta-cat 22.9 1.2E+02 0.0025 27.8 4.2 93 93-191 26-119 (120)
38 cd03572 ENTH_epsin_related ENT 22.4 8.1E+02 0.017 24.7 11.2 112 309-435 5-117 (122)
39 PF02172 KIX: KIX domain; Int 22.0 74 0.0016 29.8 2.5 29 34-62 20-48 (81)
40 KOG1059 Vesicle coat complex A 21.8 3.4E+02 0.0075 34.8 8.7 182 32-214 174-505 (877)
41 PF12460 MMS19_C: RNAPII trans 21.7 1.4E+03 0.03 27.1 16.9 46 474-523 172-220 (415)
42 KOG0212 Uncharacterized conser 21.0 1.3E+03 0.028 29.2 13.0 190 160-435 40-235 (675)
43 KOG1047 Bifunctional leukotrie 20.7 1.3E+02 0.0028 37.2 4.9 53 608-669 494-546 (613)
44 PF12755 Vac14_Fab1_bd: Vacuol 20.4 1.6E+02 0.0036 28.1 4.6 73 94-168 6-78 (97)
45 cd03572 ENTH_epsin_related ENT 20.1 2E+02 0.0043 28.9 5.3 52 48-104 16-68 (122)
No 1
>KOG1877 consensus Putative transmembrane protein cmp44E [General function prediction only]
Probab=100.00 E-value=2e-133 Score=1179.08 Aligned_cols=792 Identities=32% Similarity=0.449 Sum_probs=639.9
Q ss_pred CCccccccCCCcccccCchhhhhhhhccccCCCCCCCCChhhhhHHHHHHhhCCCChhhhHHHHHHHHHHHHhhhcCCce
Q 001890 12 CGNLCFFCPSMRARSRQPVKRYKKMLADIFPRNQDAEPNDRKIGKLCEYASKNPLRIPKITTLLEQRCYKDLRNENFGSV 91 (1000)
Q Consensus 12 c~~~C~cCpalR~rsrqpvkRykkLV~~iyP~~p~~~Pn~~~lsKL~~Ya~s~P~KL~KIg~yLekR~~kDl~r~r~G~V 91 (1000)
|+|||+|||+||| ||||||++||||+|++|||+++|+||||||++||+||||||.||++||+||+||+|+|+|
T Consensus 1 ~~s~c~cc~alR~-------RyKkLV~~iFPr~~e~gpn~s~m~kL~~YAasnp~KL~KI~~yL~~R~~kdl~~~r~~~v 73 (819)
T KOG1877|consen 1 CESMCCCCPALRP-------RYKKLVDNIFPRSPEDGPNKSKMEKLTFYAASNPSKLPKIGTYLEERCYKDLRRERFGSV 73 (819)
T ss_pred CCceeeecHHHHH-------HHHHHHHHhCCCCCCCCcccccHHHHHHHHhhChhhhhHHHHHHHHHHHHHHHhccCcch
Confidence 8999999999999 999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCch-hhHHhhhhHHHHHHHHhHhc
Q 001890 92 KVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDG-TYMFNLEGLIPKLCQLAQEM 170 (1000)
Q Consensus 92 ~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~-~y~~~ye~fV~~f~~ma~~~ 170 (1000)
+|+|+||++||++||+|+|+||++||+||+.||++ ++++|+|+||++|++|+++++|+ +|||+||+||++||+||++.
T Consensus 74 ~Iamea~~kLL~~C~eq~n~F~ssfL~mv~~LLes-~~~~~~ilg~~sf~~F~~i~~d~~sy~~~yd~Fi~kf~~l~he~ 152 (819)
T KOG1877|consen 74 KIAMEAYDKLLQACKEQINLFVSSFLRMVQKLLES-NNDEMQILGTNSFVKFANIEEDGPSYHRNYDFFISKFSSLCHER 152 (819)
T ss_pred hhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhc-CCCceeeehhhHHHHHHhhcccCchhhhhhHHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999995 59999999999999999999998 99999999999999999999
Q ss_pred CchHHHHHHHHHHHHHHHHhHhhh---------ccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhhhhh
Q 001890 171 GNDERALRLRSAGLQVLAYMVKFM---------GEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQWVQG 241 (1000)
Q Consensus 171 ~~de~~~rlR~AGLqAL~~vV~~~---------~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e 241 (1000)
|+++.+..+|.||||||+||||+| ||.+| +|+|||.+++|++... +
T Consensus 153 ~~~~~~~~lr~agl~gLsa~v~~tv~d~l~~ti~e~~h----~d~ivpsl~~~l~~~e---~------------------ 207 (819)
T KOG1877|consen 153 GDDDMKDCLRAAGLQGLSAVVWLTVSDHLAATIWEPQH----MDKIVPSLLFELQSIE---N------------------ 207 (819)
T ss_pred cchhhhhhccHhhhhhHHHHHHHHHhhhhhhhhhhhhh----hccchhhHHHhhcchh---h------------------
Confidence 999999999999999999999998 78888 9999999999998431 0
Q ss_pred hcccccCCCCCCcccccccccccCCCCCCCCCCCCCCCChHHHHHHHHHHHHHhhhhcchHHHHhhhhhhhccCCCCCCC
Q 001890 242 LQNEEDNDSSFPDMSKKVSSLKDSMINPGPDPTMDTSKSPSYWSRVCLDNMARLAKETTTVRRVLEPLFQIFDAENHWST 321 (1000)
Q Consensus 242 ~~~~E~~~~~~~~~~~r~ps~~~~~~~~~~~~~~e~~e~p~vlA~~CLr~l~~~A~e~ttvr~VLepvf~~lD~~~~Wsp 321 (1000)
+++..+ .+|.+.. ..+.-+++..+|++||++|+|+|.++|+.+|++|.+|+|+|.|+|.|.+|.|
T Consensus 208 ----~~~~~S----~s~~~~~-------~~~~a~~~~~~p~vla~~cl~~l~~~A~~g~~iR~~l~pl~~~~d~h~~w~p 272 (819)
T KOG1877|consen 208 ----LGKRES----DSRIRTF-------SLLAAGDKTSDPKVLAERCLRELLGRAKFGTNIRNALKPLLSHLDFHELWTP 272 (819)
T ss_pred ----cccccC----cccccCc-------cccccCCcccCcchhHHHHHHHhhccccccchHHHHHHHHHhccccceeecC
Confidence 010000 1111111 1122334445699999999999999999888999999999999999999999
Q ss_pred CcchHHHHHHHHHHHHhhcCCCcchHHHHHHHhhhccC-CCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHH
Q 001890 322 ETGVACSVLLYLQSLLEESGENSHLLLCNLVKHLDHKS-VAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHL 400 (1000)
Q Consensus 322 ~~gfAi~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~-v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHL 400 (1000)
+||||++||+++++++ ++|++|.|++++|.|||++. +.+.|.+++.||.+.+.+++..++++++ ++++++|+|||
T Consensus 273 ~n~fav~~~~~vi~~i--q~q~s~~v~~~li~hLd~~~~~~~~~r~~~~iv~~~~~~i~~~~v~ps~--l~i~n~l~rhL 348 (819)
T KOG1877|consen 273 PNGFAVHVFKIVIYLI--QRQYSYFVIQELINHLDNKKLVAKKPRLGLSIVLVSIALIAATSVGPSV--LIIFNDLLRHL 348 (819)
T ss_pred CCccchHHHHHHHHHH--hhccchHHHHHHHHHHHhhcccccCccccchhHHHHHHHHHhcccchHH--HHHHHHHHHHH
Confidence 9999999999999988 89999999999999999988 8889999999999999888777777777 88899999999
Q ss_pred HHhhcccccCCCCCCccccc----hHHHHHHHHHHHHHhhcccCCCchHHHHHHHHHhhcCCCccchhhhH-HHHHH---
Q 001890 401 RKCLQNSVELSSSGDGMAKT----NADLQYSLENCISWLSKKVGDVGPILDVMAGVLENMSNNTVVARTTI-SAVHR--- 472 (1000)
Q Consensus 401 Rkslq~s~~~s~~g~~~~~~----~~~Lq~aL~~CIg~LA~hV~da~qI~DMmavmLenis~~~~~ar~tv-sa~y~--- 472 (1000)
|+|++++ ++++.|.+.... |..+++++++.++.+++++||+| +|++|++-++++|..+|..+ +.-+.
T Consensus 349 R~si~~s-~~~~~~~~~~~~~~~~e~~~q~~li~~~~~~~~~~P~~q----~~~vm~~~~~~v~~~sk~~~~~~~liq~~ 423 (819)
T KOG1877|consen 349 RKSISFS-DDGNIGLETDNGNYMIEAVVQEALIQLTKKFANTLPDYQ----KMAVMLFIMSKVPDLSKPSILGELLIQAM 423 (819)
T ss_pred Hhhcccc-ccccCCchhhhhHHHHHHHHHHHHHHHHHhhcccCchHH----HHHHHHhhcccccccCCccccHHHHHHHH
Confidence 9999998 455555544443 45555555555555555555555 55555555599998887443 32222
Q ss_pred ---HHHHHhhcCCcccccccCcHHHHHHHHHHhcCCCchhhHHHHHHHHHhhcCCCCCCCcccchhhhccccccCCCCcc
Q 001890 473 ---TAQIISTIPNISYRNKAFPEALFHQLLLAMAHPDHETRVGAHTVLSVVLMPSLLSPRSEQNKETSDAVSGALPVGAS 549 (1000)
Q Consensus 473 ---ta~i~a~~pn~sy~~kaFP~all~qLL~am~~pD~e~Rl~a~~If~~lL~ps~~~p~~d~~~~ls~~vs~f~~~~s~ 549 (1000)
....++.--.+.+--.+||++||+.||...+.+|.+.|+...+||+.+.++ |+|..+++. ++.+
T Consensus 424 ~~~s~L~~s~s~~i~~~~l~~~sS~L~sll~~~l~r~~~~~~~t~eil~sl~d~------~~n~a~l~~-v~~~------ 490 (819)
T KOG1877|consen 424 LLKSLLSVSTSYQIVSVALAFPSSFLDSLLSTALMRDAELRLVTLEILHSLKDS------HDNTAKLSG-VSYL------ 490 (819)
T ss_pred HHHHHhhhhhcceeeeehhhccHHHhhhhhhhhcCcccchhhHHHHHHHHHHHh------hcccccccc-ceee------
Confidence 112221111222344679999999999999999999999999999999999 999888776 7544
Q ss_pred hhcc--ccccccccccchhhhhhcCCCccccccccCCcccccccccccccccccccccchhhccchhHHHHHHHHHHHhh
Q 001890 550 QKVR--SASFSFQDEGKEKEEFLNGGLSAEERKTSDVDVKQCTYQSYSFKRAVTDGKMLTSFRLSSHQLSLLLSSIWVQA 627 (1000)
Q Consensus 550 ~~~~--~~~l~~ek~sr~d~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrls~~q~~lLlssiw~qa 627 (1000)
.+. +.+|++++++++|++|+ |+.++|+..++..+|.+.
T Consensus 491 -~~~~~~~~ls~~~~s~~D~~f~---------------------------------------kk~~~~i~~~~~~~~~~~ 530 (819)
T KOG1877|consen 491 -LESVDSLTLSREKPSRQDTIFM---------------------------------------KKNSQQIYRLLYSITATS 530 (819)
T ss_pred -ccccchhhhcccchhHHHHHHH---------------------------------------HhchHHHHHHHHHhhhhh
Confidence 222 35999999999999999 867777777777777776
Q ss_pred ccCCChhhhHHHHHHHHHHHHHHhhhccCchhhHHHHHHHHHHHhhhhccCCCCCCccchhhHHHHHHHHHHHHhhhcCC
Q 001890 628 TSTENSPANFEAMAHTYNIALLFTRSKRSSHVALIRCFQLAFSLRRISLDHEGGLRPSRRRSLFTLASYMLIFSARAGNL 707 (1000)
Q Consensus 628 ~~~~N~p~n~EAi~~Tysl~lL~s~~k~s~~e~lv~~fqLafsLr~~sl~~~~~L~ps~RrsL~tLa~~ml~f~ak~~~i 707 (1000)
. |+|+|||++|.|+++..+ ++ +++|+|+++||++|++|++++.++++||+++||+|||++++||+|++++++|
T Consensus 531 ~---~~~~n~~~~~~~~sl~~i---~~-~~~e~li~~~~~~~~l~~ls~~~~~~lp~~~r~~i~al~as~lv~~s~~~~i 603 (819)
T KOG1877|consen 531 D---NVPENYEAIYNTASLILI---EK-SINEVLIELFRLALTLQQLSLMNERPLPNSRRRSIFALAASYLVLISQAFAI 603 (819)
T ss_pred h---cchhhHHHHhhhHHHHHH---HH-HHHHHHHHHHHHHHHHHHHHhhhcCCCCCcccccHHHHHHHHHHHHHHHhcC
Confidence 6 999999999998876554 55 4999999999999999999999999999999999999999999999999999
Q ss_pred CcchHHHHHhhccccCCCceeecccceeEEEecCCCcccccCCChhhHHHHHHHhhhhccchhh-HHHHHHHHHHHHhcC
Q 001890 708 PELIPLVKASVTEKTVDPYLELVEDIRLQAVCADSCKVKTAYGSQEDEDAAMKSLAAIELDDRH-LKETVISHFMTKFEK 786 (1000)
Q Consensus 708 p~L~~~vk~~l~~r~~dP~L~lv~d~~l~a~~~~~~~~~~~ygs~eD~~~Al~~Ls~i~~~~~~-~~e~~~~~~~~~~~~ 786 (1000)
| +.|||++.|+|||++|+ ||+..|+++|...|+.+...... +++....+|++.+.+
T Consensus 604 ~-------------~l~~~~~~v~D~~~~a~----------~~~~~d~~~ass~l~~~~~~~~s~s~~~~~~~v~k~l~~ 660 (819)
T KOG1877|consen 604 P-------------TLDPFLQKVDDCRLEAV----------EGPSSDDNDASSTLSEIALAAESLSRELPALMVVKELIK 660 (819)
T ss_pred c-------------ccchHHHHHHHHHHHhc----------cCcccCchhhhhhHHHHHhhcccccccccHHHHHHHHHh
Confidence 9 68999999999999776 89999999999999999766555 999999999999999
Q ss_pred CCHHHHHHHHHHHccCCCCCCCCCCCCCCcccCCCCCCcchhhcccccccccCCcccCCCCcCCCCCCCCCCcccccCcC
Q 001890 787 LSEDELSDMKKQLLLGFSPDDAYPLGGPLFMETPRPCSPLARMEFQAFDEVMPLAALTDEEALPEPNGSQSDRKTSLSVN 866 (1000)
Q Consensus 787 ~~e~e~~~i~~qll~~F~pdd~~p~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~s~~~~~~~~s~~ 866 (1000)
+++.|....++||+. +||+|+|+..+++.. ..+++..+ | .++.. .+.--.
T Consensus 661 ~s~k~~~~~~~rL~~------~~p~g~q~~~~p~~~---~~~~~~~~-d--------~~~~~------------~s~~d~ 710 (819)
T KOG1877|consen 661 ESLKESGKDSERLFT------ACPYGSQLTKEPGYQ---SISKESKP-D--------REDQR------------FSSNDL 710 (819)
T ss_pred hcccccchHHHHHhh------hCCccccccCCCccc---ccccccCC-c--------ccccc------------cccccc
Confidence 999999999999988 999999999986222 33333322 1 01111 111123
Q ss_pred CCCccchHHHHHHHHhhhcccccccccCCC-CChhHHHHHHHHHhhhccccchhhhcchhhhhhhhhhcCCCCCCCCCCC
Q 001890 867 TLDILSVNELLDSVLETARQVASYPVVSTT-VPYDQMKSQCEALVTGKQQKMSVLQSFKTQQEVKALVVSSGYNQNDPPL 945 (1000)
Q Consensus 867 ~~~~l~v~qllesv~e~a~qv~~~~vs~~~-~py~~m~~qCEal~~gkqqKmS~~~s~~~~~~~~~~~~~~~~~~~~~~~ 945 (1000)
++..++||++++++.++++ |.+| ++|+||+.| |++++|||||++ ++... ..+.+.++.......
T Consensus 711 ~~~~~~vd~~~n~~~~~t~-------~~~~~vs~~~~~~~-e~~~~~~~q~~~--~~~~s-----~~~s~~~~~~~~~r~ 775 (819)
T KOG1877|consen 711 VTFSLDVDKILNPPEETTK-------SNPPEVSIDQMDAH-EATLSGKQQKRS--RSLTS-----STFSPSPFDEFLART 775 (819)
T ss_pred cccccchhhccCCcccccc-------CCcccCCHHHHhhH-HHHhhhhhhhcc--ccccc-----cccCcCchHHHHhhc
Confidence 4678899999999999987 7777 999999988 999999999999 22111 110111111111111
Q ss_pred CCcccccccCCCCCCcc-ccccccccccccccccCCCcccCCCCCccchhhhc
Q 001890 946 PIMEVVVSEGNLRLPSI-ERVRTKDQLAICSQEYGQYSFRLPPSSPYDKFLKA 997 (1000)
Q Consensus 946 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~lP~ssPyD~Flka 997 (1000)
.....+..+.++..... ...+.++..|.++.+ +|+|||||++|
T Consensus 776 ~s~~~~~~d~~Ls~~l~~t~~~~~~~~~~~~~~---------~s~~~~~~~~~ 819 (819)
T KOG1877|consen 776 TSGENLNEDFRLSRELAPTLVRRGQITRSTELQ---------ASSPKDNFETA 819 (819)
T ss_pred cCCCCchhhhhHHHHHhhccCCCCCCccccccc---------cCCCcchhhcC
Confidence 11111222222222222 235556667777665 99999999986
No 2
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 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. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin 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 []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: 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 GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=94.60 E-value=4.6 Score=47.85 Aligned_cols=316 Identities=15% Similarity=0.158 Sum_probs=183.5
Q ss_pred cCCceeeHHHHHHHHHHhcccccCcch--hhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHH
Q 001890 87 NFGSVKVVVCIYKKFLSSCKEQMPLFA--SSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLC 164 (1000)
Q Consensus 87 r~G~V~V~l~i~~~Ll~~C~~~l~LFa--~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~ 164 (1000)
...+--+.+.+++-|-.-|+. -+... ..++..+..+|. +.++.....++.++..+.. ... ....+++.+.
T Consensus 202 ~~~~~~~q~~il~~l~~~~~~-~~~~~~~~~~i~~l~~~l~-s~~~~V~~e~~~~i~~l~~---~~~---~~~~~~~~L~ 273 (526)
T PF01602_consen 202 SDPDPWLQIKILRLLRRYAPM-EPEDADKNRIIEPLLNLLQ-SSSPSVVYEAIRLIIKLSP---SPE---LLQKAINPLI 273 (526)
T ss_dssp TCCSHHHHHHHHHHHTTSTSS-SHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHSS---SHH---HHHHHHHHHH
T ss_pred cccchHHHHHHHHHHHhcccC-ChhhhhHHHHHHHHHHHhh-ccccHHHHHHHHHHHHhhc---chH---HHHhhHHHHH
Confidence 344444555566655544442 22333 457777777777 6677666666666664432 112 5667778888
Q ss_pred HHhHhcCchHHHHHHHHHHHHHHHHhHhhhccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhhhhhhcc
Q 001890 165 QLAQEMGNDERALRLRSAGLQVLAYMVKFMGEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQWVQGLQN 244 (1000)
Q Consensus 165 ~ma~~~~~de~~~rlR~AGLqAL~~vV~~~~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e~~~ 244 (1000)
.+-. ..+ ..+|.+||++|..++.... ..+. ....+++-+..
T Consensus 274 ~lL~--s~~---~nvr~~~L~~L~~l~~~~~------~~v~-~~~~~~~~l~~--------------------------- 314 (526)
T PF01602_consen 274 KLLS--SSD---PNVRYIALDSLSQLAQSNP------PAVF-NQSLILFFLLY--------------------------- 314 (526)
T ss_dssp HHHT--SSS---HHHHHHHHHHHHHHCCHCH------HHHG-THHHHHHHHHC---------------------------
T ss_pred HHhh--ccc---chhehhHHHHHHHhhcccc------hhhh-hhhhhhheecC---------------------------
Confidence 7776 222 4688999999998876430 0000 01111221110
Q ss_pred cccCCCCCCcccccccccccCCCCCCCCCCCCCCCChHHHHHHHHHHHHHhhhhcchHHHHhhhhhhhc-cCCCCCCCCc
Q 001890 245 EEDNDSSFPDMSKKVSSLKDSMINPGPDPTMDTSKSPSYWSRVCLDNMARLAKETTTVRRVLEPLFQIF-DAENHWSTET 323 (1000)
Q Consensus 245 ~E~~~~~~~~~~~r~ps~~~~~~~~~~~~~~e~~e~p~vlA~~CLr~l~~~A~e~ttvr~VLepvf~~l-D~~~~Wsp~~ 323 (1000)
+ .....+.++...|..+ +. ..++..|++-+..|+ +... .
T Consensus 315 -~------------------------------~d~~Ir~~~l~lL~~l---~~-~~n~~~Il~eL~~~l~~~~d-----~ 354 (526)
T PF01602_consen 315 -D------------------------------DDPSIRKKALDLLYKL---AN-ESNVKEILDELLKYLSELSD-----P 354 (526)
T ss_dssp -S------------------------------SSHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHC-------H
T ss_pred -C------------------------------CChhHHHHHHHHHhhc---cc-ccchhhHHHHHHHHHHhccc-----h
Confidence 0 0113444565555555 44 666888999999998 3322 3
Q ss_pred chHHHHHHHHHHHHhhcCCCcchHHHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHh
Q 001890 324 GVACSVLLYLQSLLEESGENSHLLLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLRKC 403 (1000)
Q Consensus 324 gfAi~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRks 403 (1000)
.+...+.+.|..+++.-..+.-..+..+++-|... ...+...++..+..++......- -.++..|++++..
T Consensus 355 ~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~----~~~~~~~~~~~i~~ll~~~~~~~----~~~l~~L~~~l~~- 425 (526)
T PF01602_consen 355 DFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEIS----GDYVSNEIINVIRDLLSNNPELR----EKILKKLIELLED- 425 (526)
T ss_dssp HHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCT----GGGCHCHHHHHHHHHHHHSTTTH----HHHHHHHHHHHTS-
T ss_pred hhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhc----cccccchHHHHHHHHhhcChhhh----HHHHHHHHHHHHH-
Confidence 46666666666665554445566778888888763 25556677777776665422221 1234444444433
Q ss_pred hcccccCCCCCCccccchHHHHHHHHHHHHHhhcccCCCchHHHHHHHHHhhcCCCccchhhhHHHHHHHHHHHhhcCCc
Q 001890 404 LQNSVELSSSGDGMAKTNADLQYSLENCISWLSKKVGDVGPILDVMAGVLENMSNNTVVARTTISAVHRTAQIISTIPNI 483 (1000)
Q Consensus 404 lq~s~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA~hV~da~qI~DMmavmLenis~~~~~ar~tvsa~y~ta~i~a~~pn~ 483 (1000)
- ....+..++.-+||+++.+++..+.+.|++..+.++....+...|..+ .--.+.+....|..
T Consensus 426 ---~------------~~~~~~~~~~wilGEy~~~~~~~~~~~~~~~~l~~~~~~~~~~vk~~i--lt~~~Kl~~~~~~~ 488 (526)
T PF01602_consen 426 ---I------------SSPEALAAAIWILGEYGELIENTESAPDILRSLIENFIEESPEVKLQI--LTALAKLFKRNPEN 488 (526)
T ss_dssp ---S------------SSHHHHHHHHHHHHHHCHHHTTTTHHHHHHHHHHHHHTTSHHHHHHHH--HHHHHHHHHHSCST
T ss_pred ---h------------hHHHHHHHHHhhhcccCCcccccccHHHHHHHHHHhhccccHHHHHHH--HHHHHHHHhhCCch
Confidence 1 035578999999999999999855888888999888877654444322 11223444222221
Q ss_pred ccccccCcHHHHHHHHHHhc--CCCchhhHHHHHHHHHh
Q 001890 484 SYRNKAFPEALFHQLLLAMA--HPDHETRVGAHTVLSVV 520 (1000)
Q Consensus 484 sy~~kaFP~all~qLL~am~--~pD~e~Rl~a~~If~~l 520 (1000)
.. .+.+++.++...- ..|+|+|--|...+..+
T Consensus 489 ~~-----~~~i~~~~~~~~~~~s~~~evr~Ra~~y~~ll 522 (526)
T PF01602_consen 489 EV-----QNEILQFLLSLATEDSSDPEVRDRAREYLRLL 522 (526)
T ss_dssp TH-----HHHHHHHHHCHHHHS-SSHHHHHHHHHHHHHH
T ss_pred hh-----HHHHHHHHHHHhccCCCCHHHHHHHHHHHHHH
Confidence 11 1245555555555 78999999999887655
No 3
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=94.00 E-value=28 Score=45.61 Aligned_cols=135 Identities=16% Similarity=0.271 Sum_probs=78.6
Q ss_pred cCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHHHHhHhcCchHHHHHHHHHHHHHHH
Q 001890 109 MPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLCQLAQEMGNDERALRLRSAGLQVLA 188 (1000)
Q Consensus 109 l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~~ma~~~~~de~~~rlR~AGLqAL~ 188 (1000)
+.-+.+++++++..+++ .++.+--..+.+.|..|+ ..++-+.+.+-..|=+||-.-- ++.+.-+-+|-..|+-|-
T Consensus 200 ~~~llP~~l~vl~~~i~-~~d~~~a~~~l~~l~El~--e~~pk~l~~~l~~ii~~~l~Ia--~n~~l~~~~R~~ALe~iv 274 (1075)
T KOG2171|consen 200 FRDLLPSLLNVLQEVIQ-DGDDDAAKSALEALIELL--ESEPKLLRPHLSQIIQFSLEIA--KNKELENSIRHLALEFLV 274 (1075)
T ss_pred HHHHhHHHHHHhHhhhh-ccchHHHHHHHHHHHHHH--hhchHHHHHHHHHHHHHHHHHh--hcccccHHHHHHHHHHHH
Confidence 33446777777777777 445443333444555555 4566777666555555554332 222334678887887776
Q ss_pred HhHhh---hccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhhhhhhcccccCCCCCCcccccccccccC
Q 001890 189 YMVKF---MGEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQWVQGLQNEEDNDSSFPDMSKKVSSLKDS 265 (1000)
Q Consensus 189 ~vV~~---~~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e~~~~E~~~~~~~~~~~r~ps~~~~ 265 (1000)
..+.+ |- ..+ +.-.+.+||++|.-|.... +| .+|..+
T Consensus 275 s~~e~Ap~~~-k~~-~~~~~~lv~~~l~~mte~~---~D-----------~ew~~~------------------------ 314 (1075)
T KOG2171|consen 275 SLSEYAPAMC-KKL-ALLGHTLVPVLLAMMTEEE---DD-----------DEWSNE------------------------ 314 (1075)
T ss_pred HHHHhhHHHh-hhc-hhhhccHHHHHHHhcCCcc---cc-----------hhhccc------------------------
Confidence 65554 21 111 1236888999998887431 11 244442
Q ss_pred CCCCCCCCCCCCCCChHHHHHHHHHHHH
Q 001890 266 MINPGPDPTMDTSKSPSYWSRVCLDNMA 293 (1000)
Q Consensus 266 ~~~~~~~~~~e~~e~p~vlA~~CLr~l~ 293 (1000)
-+.+.|++++|...|++||-.++
T Consensus 315 -----d~~ded~~~~~~~~A~~~lDrlA 337 (1075)
T KOG2171|consen 315 -----DDLDEDDEETPYRAAEQALDRLA 337 (1075)
T ss_pred -----cccccccccCcHHHHHHHHHHHH
Confidence 12234456889999999888775
No 4
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=93.68 E-value=8.5 Score=50.05 Aligned_cols=311 Identities=18% Similarity=0.204 Sum_probs=164.9
Q ss_pred cCCce---eeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhc-cCCcceeehhHhHHHHHHhcC---------------
Q 001890 87 NFGSV---KVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQ-TRQEEMQILGCGTLVNFIDSQ--------------- 147 (1000)
Q Consensus 87 r~G~V---~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~q-s~~~~l~i~a~~tf~~F~~~q--------------- 147 (1000)
..|.. +=+++.+..|++.+++-+.=+...++.+.-.+-.+ .-++..|..|.+..+.|+...
T Consensus 216 ~~~d~~~a~~~l~~l~El~e~~pk~l~~~l~~ii~~~l~Ia~n~~l~~~~R~~ALe~ivs~~e~Ap~~~k~~~~~~~~lv 295 (1075)
T KOG2171|consen 216 QDGDDDAAKSALEALIELLESEPKLLRPHLSQIIQFSLEIAKNKELENSIRHLALEFLVSLSEYAPAMCKKLALLGHTLV 295 (1075)
T ss_pred hccchHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHhhHHHhhhchhhhccHH
Confidence 45666 66778888888888866655555555555555442 226667888887665555430
Q ss_pred -----------Cc-----------hhhHHhhhhHHHHHHHHhHhcCch-------H--------HHHHHHHHHHHHHHHh
Q 001890 148 -----------TD-----------GTYMFNLEGLIPKLCQLAQEMGND-------E--------RALRLRSAGLQVLAYM 190 (1000)
Q Consensus 148 -----------~D-----------~~y~~~ye~fV~~f~~ma~~~~~d-------e--------~~~rlR~AGLqAL~~v 190 (1000)
.| .+|-.+|..=++-.--+|..-|.. + ..-+-|-|||.||+.+
T Consensus 296 ~~~l~~mte~~~D~ew~~~d~~ded~~~~~~~~A~~~lDrlA~~L~g~~v~p~~~~~l~~~l~S~~w~~R~AaL~Als~i 375 (1075)
T KOG2171|consen 296 PVLLAMMTEEEDDDEWSNEDDLDEDDEETPYRAAEQALDRLALHLGGKQVLPPLFEALEAMLQSTEWKERHAALLALSVI 375 (1075)
T ss_pred HHHHHhcCCcccchhhccccccccccccCcHHHHHHHHHHHHhcCChhhehHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence 01 112222222222222222211100 0 0124688999999988
Q ss_pred HhhhccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhhhhhhcccccCCCCCCcccccccccccCCCCCC
Q 001890 191 VKFMGEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQWVQGLQNEEDNDSSFPDMSKKVSSLKDSMINPG 270 (1000)
Q Consensus 191 V~~~~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e~~~~E~~~~~~~~~~~r~ps~~~~~~~~~ 270 (1000)
+ +|-+.++-.++|+|+|.||-=+.++. +
T Consensus 376 ~--EGc~~~m~~~l~~Il~~Vl~~l~Dph-----------------p--------------------------------- 403 (1075)
T KOG2171|consen 376 A--EGCSDVMIGNLPKILPIVLNGLNDPH-----------------P--------------------------------- 403 (1075)
T ss_pred H--cccHHHHHHHHHHHHHHHHhhcCCCC-----------------H---------------------------------
Confidence 7 45556666789999999985555321 1
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHH-hhhh-cchHH-HHhhhhhhhccCCCCCCCCcchHHHHHHHHHHHHhhcC----CC
Q 001890 271 PDPTMDTSKSPSYWSRVCLDNMAR-LAKE-TTTVR-RVLEPLFQIFDAENHWSTETGVACSVLLYLQSLLEESG----EN 343 (1000)
Q Consensus 271 ~~~~~e~~e~p~vlA~~CLr~l~~-~A~e-~ttvr-~VLepvf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~----Q~ 343 (1000)
.++.-|--|+.+|.. .+-+ .-.-. +++.-+..-+|+.+. ....|-.+--.+-++-+.++ .|
T Consensus 404 ---------rVr~AA~naigQ~stdl~p~iqk~~~e~l~~aL~~~ld~~~~---~rV~ahAa~al~nf~E~~~~~~l~pY 471 (1075)
T KOG2171|consen 404 ---------RVRYAALNAIGQMSTDLQPEIQKKHHERLPPALIALLDSTQN---VRVQAHAAAALVNFSEECDKSILEPY 471 (1075)
T ss_pred ---------HHHHHHHHHHHhhhhhhcHHHHHHHHHhccHHHHHHhcccCc---hHHHHHHHHHHHHHHHhCcHHHHHHH
Confidence 133345566666642 1111 00122 233333444454442 11111111111111111111 11
Q ss_pred cchHHHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhhcccccCCCCCCccccchHH
Q 001890 344 SHLLLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLRKCLQNSVELSSSGDGMAKTNAD 423 (1000)
Q Consensus 344 ~~lvLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRkslq~s~~~s~~g~~~~~~~~~ 423 (1000)
==-++.-++.-|..++ .|.+|-.+|-.+.++|.. +....+--+-.+|-+|++.++...+ +..+.
T Consensus 472 Ld~lm~~~l~~L~~~~---~~~v~e~vvtaIasvA~A----A~~~F~pY~d~~Mp~L~~~L~n~~~---------~d~r~ 535 (1075)
T KOG2171|consen 472 LDGLMEKKLLLLLQSS---KPYVQEQAVTAIASVADA----AQEKFIPYFDRLMPLLKNFLQNADD---------KDLRE 535 (1075)
T ss_pred HHHHHHHHHHHHhcCC---chhHHHHHHHHHHHHHHH----HhhhhHhHHHHHHHHHHHHHhCCCc---------hhhHH
Confidence 1123333444555543 477787877777666642 3445577888999999999998642 23688
Q ss_pred HHHHHHHHHHHhhcccC------CCchHHHHHHHHHhhcCCCccchh-hhHHHHHHHHHHH
Q 001890 424 LQYSLENCISWLSKKVG------DVGPILDVMAGVLENMSNNTVVAR-TTISAVHRTAQII 477 (1000)
Q Consensus 424 Lq~aL~~CIg~LA~hV~------da~qI~DMmavmLenis~~~~~ar-~tvsa~y~ta~i~ 477 (1000)
|+--..+||+-+|+.|| +++++..+.-..=+++-..--+-| -++++--+.+.+.
T Consensus 536 LrgktmEcisli~~AVGke~F~~~a~eliqll~~~~~~~~~~dd~~~sy~~~~warmc~il 596 (1075)
T KOG2171|consen 536 LRGKTMECLSLIARAVGKEKFLPLAEELIQLLLELQGSDQDDDDPLRSYMIAFWARMCRIL 596 (1075)
T ss_pred HHhhHHHHHHHHHHHhhhhhhhHhHHHHHHHHHhhcccchhhccccHHHHHHHHHHHHHHh
Confidence 88889999999999998 555544444333211221111122 3566677777776
No 5
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=91.26 E-value=8.1 Score=47.88 Aligned_cols=228 Identities=21% Similarity=0.282 Sum_probs=114.4
Q ss_pred cCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHHHHhHhcCchHHHHHHHHHHH----
Q 001890 109 MPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLCQLAQEMGNDERALRLRSAGL---- 184 (1000)
Q Consensus 109 l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~~ma~~~~~de~~~rlR~AGL---- 184 (1000)
|+.+.+.||..+ + ...|.+|-.|....-.|+-++. +..+.+.|.|+..+..+| +..++++|..+-.|=.
T Consensus 172 l~~mipkfl~f~----~-h~spkiRs~A~~cvNq~i~~~~-qal~~~iD~Fle~lFala-nD~~~eVRk~vC~alv~Lle 244 (885)
T KOG2023|consen 172 LNIMIPKFLQFF----K-HPSPKIRSHAVGCVNQFIIIQT-QALYVHIDKFLEILFALA-NDEDPEVRKNVCRALVFLLE 244 (885)
T ss_pred hHHhHHHHHHHH----h-CCChhHHHHHHhhhhheeecCc-HHHHHHHHHHHHHHHHHc-cCCCHHHHHHHHHHHHHHHH
Confidence 444444444333 2 3477777777766666665564 577889999999999999 3334455554322211
Q ss_pred -------HHHHHhHhhh----------------------cccc----ccccccchHHHHHHhhhccccCCCCCCccCccC
Q 001890 185 -------QVLAYMVKFM----------------------GEQS----HMSMDFDKIISVTLENFVDLQMKPANGKEGRQH 231 (1000)
Q Consensus 185 -------qAL~~vV~~~----------------------~e~s----his~q~D~IVpvILeNl~~~~~~~~d~~~~~~~ 231 (1000)
--|.++|.+| +|.+ ...+-+|++||++|.+|.-+ ++|.+
T Consensus 245 vr~dkl~phl~~IveyML~~tqd~dE~VALEACEFwla~aeqpi~~~~L~p~l~kliPvLl~~M~Ys----d~D~~---- 316 (885)
T KOG2023|consen 245 VRPDKLVPHLDNIVEYMLQRTQDVDENVALEACEFWLALAEQPICKEVLQPYLDKLIPVLLSGMVYS----DDDII---- 316 (885)
T ss_pred hcHHhcccchHHHHHHHHHHccCcchhHHHHHHHHHHHHhcCcCcHHHHHHHHHHHHHHHHccCccc----cccHH----
Confidence 1245666665 2222 12344899999999999743 22210
Q ss_pred Ccchhhhhhhhcc-cccCC---CCCCcccccccccccCCCCC-CCCCCCC-----CCCChHHHH-HHHHHHHH-Hhhhhc
Q 001890 232 SQSEDQWVQGLQN-EEDND---SSFPDMSKKVSSLKDSMINP-GPDPTMD-----TSKSPSYWS-RVCLDNMA-RLAKET 299 (1000)
Q Consensus 232 ~~~~~~~v~e~~~-~E~~~---~~~~~~~~r~ps~~~~~~~~-~~~~~~e-----~~e~p~vlA-~~CLr~l~-~~A~e~ 299 (1000)
+++ .|+.+ +...++..|.-..+....+. ..+.|.+ ....-..|- +.|--.-. .+|+.+
T Consensus 317 ----------LL~~~eeD~~vpDreeDIkPRfhksk~~~~~~~~~~eDdddDe~DDdD~~~dWNLRkCSAAaLDVLanvf 386 (885)
T KOG2023|consen 317 ----------LLKNNEEDESVPDREEDIKPRFHKSKEHGNGEDADDEDDDDDEDDDDDAFSDWNLRKCSAAALDVLANVF 386 (885)
T ss_pred ----------HhcCccccccCCchhhhccchhhhchhccCccccccccccccccccccccccccHhhccHHHHHHHHHhh
Confidence 111 11110 11122322211111111111 1111111 112234462 23322111 123222
Q ss_pred ch-HHHHhhhhhhhccCCCCCCCCcchHHHHHHHHHHHHhhcCCCcch--HHHHHHHhhhccCCCCCchhh
Q 001890 300 TT-VRRVLEPLFQIFDAENHWSTETGVACSVLLYLQSLLEESGENSHL--LLCNLVKHLDHKSVAKQPLAQ 367 (1000)
Q Consensus 300 tt-vr~VLepvf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~~~l--vLs~Lv~HLd~k~v~~~p~~q 367 (1000)
+. +--++=|+++-.=.+..|.- +.=++-.+..|..=+ .+|=+.|+ ++-.++.-|+.|- |-+|
T Consensus 387 ~~elL~~l~PlLk~~L~~~~W~v-rEagvLAlGAIAEGc-M~g~~p~LpeLip~l~~~L~DKk----plVR 451 (885)
T KOG2023|consen 387 GDELLPILLPLLKEHLSSEEWKV-REAGVLALGAIAEGC-MQGFVPHLPELIPFLLSLLDDKK----PLVR 451 (885)
T ss_pred HHHHHHHHHHHHHHHcCcchhhh-hhhhHHHHHHHHHHH-hhhcccchHHHHHHHHHHhccCc----ccee
Confidence 22 33444555553334467887 566777788876432 25667787 8888888888753 5555
No 6
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 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. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin 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 []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: 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 GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=89.71 E-value=23 Score=42.11 Aligned_cols=256 Identities=13% Similarity=0.203 Sum_probs=150.0
Q ss_pred CCceeeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHHHHh
Q 001890 88 FGSVKVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLCQLA 167 (1000)
Q Consensus 88 ~G~V~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~~ma 167 (1000)
..+-.|.+++.+.++.-.+..- ....+...+..+|. +.+++++..+..++...+... ..+.+ .. .+..| +
T Consensus 242 s~~~~V~~e~~~~i~~l~~~~~--~~~~~~~~L~~lL~-s~~~nvr~~~L~~L~~l~~~~--~~~v~-~~-~~~~~---~ 311 (526)
T PF01602_consen 242 SSSPSVVYEAIRLIIKLSPSPE--LLQKAINPLIKLLS-SSDPNVRYIALDSLSQLAQSN--PPAVF-NQ-SLILF---F 311 (526)
T ss_dssp HHHHHHHHHHHHHHHHHSSSHH--HHHHHHHHHHHHHT-SSSHHHHHHHHHHHHHHCCHC--HHHHG-TH-HHHHH---H
T ss_pred ccccHHHHHHHHHHHHhhcchH--HHHhhHHHHHHHhh-cccchhehhHHHHHHHhhccc--chhhh-hh-hhhhh---e
Confidence 4455678888888875333222 67778888889999 889999999999998887543 33444 11 12222 1
Q ss_pred HhcCchHHHHHHHHHHHHHHHHhHhhhccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhhhhhhccccc
Q 001890 168 QEMGNDERALRLRSAGLQVLAYMVKFMGEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQWVQGLQNEED 247 (1000)
Q Consensus 168 ~~~~~de~~~rlR~AGLqAL~~vV~~~~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e~~~~E~ 247 (1000)
-...+| .-+|...|..|..++... +...|++.++.-+... .|
T Consensus 312 l~~~~d---~~Ir~~~l~lL~~l~~~~--------n~~~Il~eL~~~l~~~----~d----------------------- 353 (526)
T PF01602_consen 312 LLYDDD---PSIRKKALDLLYKLANES--------NVKEILDELLKYLSEL----SD----------------------- 353 (526)
T ss_dssp HHCSSS---HHHHHHHHHHHHHH--HH--------HHHHHHHHHHHHHHHC-----------------------------
T ss_pred ecCCCC---hhHHHHHHHHHhhccccc--------chhhHHHHHHHHHHhc----cc-----------------------
Confidence 111233 346777899988888643 2677888777666311 00
Q ss_pred CCCCCCcccccccccccCCCCCCCCCCCCCCCChHHHHHHHHHHHHHhhhh-cchHHHHhhhhhhhccCCCCCCCCcchH
Q 001890 248 NDSSFPDMSKKVSSLKDSMINPGPDPTMDTSKSPSYWSRVCLDNMARLAKE-TTTVRRVLEPLFQIFDAENHWSTETGVA 326 (1000)
Q Consensus 248 ~~~~~~~~~~r~ps~~~~~~~~~~~~~~e~~e~p~vlA~~CLr~l~~~A~e-~ttvr~VLepvf~~lD~~~~Wsp~~gfA 326 (1000)
.+ .....++.|...|.. .......++.++..+...+. ...
T Consensus 354 -------------------------------~~---~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~~~-----~~~ 394 (526)
T PF01602_consen 354 -------------------------------PD---FRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEISGD-----YVS 394 (526)
T ss_dssp -------------------------------HH---HHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCTGG-----GCH
T ss_pred -------------------------------hh---hhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhccc-----ccc
Confidence 00 222333333333332 23355666777776665431 122
Q ss_pred HHHHHHHHHHHhhcCCCcchHHHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhhcc
Q 001890 327 CSVLLYLQSLLEESGENSHLLLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLRKCLQN 406 (1000)
Q Consensus 327 i~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRkslq~ 406 (1000)
..++..+..++.+..+.+.-++..++++++. .+++..+..++.++..-...... . +...++++++-..+..
T Consensus 395 ~~~~~~i~~ll~~~~~~~~~~l~~L~~~l~~---~~~~~~~~~~~wilGEy~~~~~~-~-----~~~~~~~~~l~~~~~~ 465 (526)
T PF01602_consen 395 NEIINVIRDLLSNNPELREKILKKLIELLED---ISSPEALAAAIWILGEYGELIEN-T-----ESAPDILRSLIENFIE 465 (526)
T ss_dssp CHHHHHHHHHHHHSTTTHHHHHHHHHHHHTS---SSSHHHHHHHHHHHHHHCHHHTT-T-----THHHHHHHHHHHHHTT
T ss_pred chHHHHHHHHhhcChhhhHHHHHHHHHHHHH---hhHHHHHHHHHhhhcccCCcccc-c-----ccHHHHHHHHHHhhcc
Confidence 2233333333444455566789999999988 34677777877777655443222 1 1344455555555432
Q ss_pred cccCCCCCCccccchHHHHHHHHHHHHHhhcccCCCchHHHHHHHH
Q 001890 407 SVELSSSGDGMAKTNADLQYSLENCISWLSKKVGDVGPILDVMAGV 452 (1000)
Q Consensus 407 s~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA~hV~da~qI~DMmavm 452 (1000)
. ....+..+..++..+..+.++......|...+
T Consensus 466 ~-------------~~~vk~~ilt~~~Kl~~~~~~~~~~~~i~~~~ 498 (526)
T PF01602_consen 466 E-------------SPEVKLQILTALAKLFKRNPENEVQNEILQFL 498 (526)
T ss_dssp S-------------HHHHHHHHHHHHHHHHHHSCSTTHHHHHHHHH
T ss_pred c-------------cHHHHHHHHHHHHHHHhhCCchhhHHHHHHHH
Confidence 1 45678889999999999988766555555555
No 7
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=88.37 E-value=15 Score=38.92 Aligned_cols=138 Identities=17% Similarity=0.189 Sum_probs=76.7
Q ss_pred hHHHHHHHHHHHHHhhhh-cc-hHHHHhhhhhhhccCCCCCCCCcchHHHHHHHHHHHHhhcCC-CcchHHHHHHHhhhc
Q 001890 281 PSYWSRVCLDNMARLAKE-TT-TVRRVLEPLFQIFDAENHWSTETGVACSVLLYLQSLLEESGE-NSHLLLCNLVKHLDH 357 (1000)
Q Consensus 281 p~vlA~~CLr~l~~~A~e-~t-tvr~VLepvf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q-~~~lvLs~Lv~HLd~ 357 (1000)
....|..|+..|+...+. .. .+..++.+++..+.+++.+.- .-|..++..|.. ... ...+++..+...+.+
T Consensus 69 v~~~A~~~l~~l~~~l~~~~~~~~~~~l~~Ll~~~~~~~~~i~--~~a~~~L~~i~~----~~~~~~~~~~~~l~~~~~~ 142 (228)
T PF12348_consen 69 VSKTACQLLSDLARQLGSHFEPYADILLPPLLKKLGDSKKFIR--EAANNALDAIIE----SCSYSPKILLEILSQGLKS 142 (228)
T ss_dssp HHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHHHGGG---HHHH--HHHHHHHHHHHT----TS-H--HHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHccccHHHH--HHHHHHHHHHHH----HCCcHHHHHHHHHHHHHhC
Confidence 556788999999876543 22 267788888888887764332 234445544443 233 244556666667777
Q ss_pred cCCCCCchhhhhHHHHHHHHHHhcc-cccchhHHHHHHHHHHHHHHhhcccccCCCCCCccccchHHHHHHHHHHHHHhh
Q 001890 358 KSVAKQPLAQTNIVDIATKLAQNAK-LLASVAIIGTINDLIKHLRKCLQNSVELSSSGDGMAKTNADLQYSLENCISWLS 436 (1000)
Q Consensus 358 k~v~~~p~~q~~IV~Vlt~La~~~~-~~~svsvidvlsdLlrHLRkslq~s~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA 436 (1000)
|| |.+|...++++..++..-. ......--..+..+++-+.+++.-+ +.+.+++-.+|+..|.
T Consensus 143 Kn----~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D~-------------~~~VR~~Ar~~~~~l~ 205 (228)
T PF12348_consen 143 KN----PQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLSDA-------------DPEVREAARECLWALY 205 (228)
T ss_dssp S-----HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHTSS--------------HHHHHHHHHHHHHHH
T ss_pred CC----HHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCCCC-------------CHHHHHHHHHHHHHHH
Confidence 64 9999999999987775433 2222222334566777777776442 3445555555555555
Q ss_pred cccCC
Q 001890 437 KKVGD 441 (1000)
Q Consensus 437 ~hV~d 441 (1000)
.++|+
T Consensus 206 ~~~~~ 210 (228)
T PF12348_consen 206 SHFPE 210 (228)
T ss_dssp HHH-H
T ss_pred HHCCH
Confidence 55544
No 8
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=86.82 E-value=83 Score=38.24 Aligned_cols=348 Identities=15% Similarity=0.215 Sum_probs=170.2
Q ss_pred HHHHHhhhcCCceeeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhh
Q 001890 79 CYKDLRNENFGSVKVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEG 158 (1000)
Q Consensus 79 ~~kDl~r~r~G~V~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~ 158 (1000)
+...+....-..|.+++.|+++++..- ...-..+.+...+...|. ..++.++.+++..+.+-+.+.....-.-.-.+
T Consensus 43 lf~~L~~~~~e~v~~~~~iL~~~l~~~--~~~~l~~~~~~~L~~gL~-h~~~~Vr~l~l~~l~~~~~~~~~~~~~~~~~~ 119 (503)
T PF10508_consen 43 LFDCLNTSNREQVELICDILKRLLSAL--SPDSLLPQYQPFLQRGLT-HPSPKVRRLALKQLGRIARHSEGAAQLLVDNE 119 (503)
T ss_pred HHHHHhhcChHHHHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHhcCCHHHHHHhcCcc
Confidence 555555556667888888999998742 222227888888999999 67899999999987665543321111122234
Q ss_pred HHHHHHHHhHhcCchHHHHHHHHHHHHHHHHhHhhhccccccccccchHHHHH-HhhhccccCCCCCCccCccCCcchhh
Q 001890 159 LIPKLCQLAQEMGNDERALRLRSAGLQVLAYMVKFMGEQSHMSMDFDKIISVT-LENFVDLQMKPANGKEGRQHSQSEDQ 237 (1000)
Q Consensus 159 fV~~f~~ma~~~~~de~~~rlR~AGLqAL~~vV~~~~e~shis~q~D~IVpvI-LeNl~~~~~~~~d~~~~~~~~~~~~~ 237 (1000)
+++.....- ++++ ...-.+.+++|+.+.... ..++.+++.- +..
T Consensus 120 l~~~i~~~L---~~~d--~~Va~~A~~~L~~l~~~~-------~~~~~l~~~~~~~~----------------------- 164 (503)
T PF10508_consen 120 LLPLIIQCL---RDPD--LSVAKAAIKALKKLASHP-------EGLEQLFDSNLLSK----------------------- 164 (503)
T ss_pred HHHHHHHHH---cCCc--HHHHHHHHHHHHHHhCCc-------hhHHHHhCcchHHH-----------------------
Confidence 444433322 2211 344556677777666422 1122221100 111
Q ss_pred hhhhhcccccCCCCCCcccccccccccCCCCCCCCCCCCCCCChHHHHHHHHHHHHHhhhhcch-HHH--Hhhhhhhhcc
Q 001890 238 WVQGLQNEEDNDSSFPDMSKKVSSLKDSMINPGPDPTMDTSKSPSYWSRVCLDNMARLAKETTT-VRR--VLEPLFQIFD 314 (1000)
Q Consensus 238 ~v~e~~~~E~~~~~~~~~~~r~ps~~~~~~~~~~~~~~e~~e~p~vlA~~CLr~l~~~A~e~tt-vr~--VLepvf~~lD 314 (1000)
+..+.... .+..+.=...++=++++...+..+ +.. +++.++..++
T Consensus 165 -L~~l~~~~-------------------------------~~~vR~Rv~el~v~i~~~S~~~~~~~~~sgll~~ll~eL~ 212 (503)
T PF10508_consen 165 -LKSLMSQS-------------------------------SDIVRCRVYELLVEIASHSPEAAEAVVNSGLLDLLLKELD 212 (503)
T ss_pred -HHHHHhcc-------------------------------CHHHHHHHHHHHHHHHhcCHHHHHHHHhccHHHHHHHHhc
Confidence 11111000 001111122334444443333222 222 7888888888
Q ss_pred CCCCCCCCcchHHHHHHHHHHHHhhcCCC-cch----HHHHHHHhhhccCCCCCc-hhh---hhHHHHHHHHHHhccccc
Q 001890 315 AENHWSTETGVACSVLLYLQSLLEESGEN-SHL----LLCNLVKHLDHKSVAKQP-LAQ---TNIVDIATKLAQNAKLLA 385 (1000)
Q Consensus 315 ~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~-~~l----vLs~Lv~HLd~k~v~~~p-~~q---~~IV~Vlt~La~~~~~~~ 385 (1000)
+.. -=+-..++.++-.+.+ ...+ .|+ ++..+++-|.+. ..+| .-. .+++.....++.. .
T Consensus 213 ~dD-----iLvqlnalell~~La~-~~~g~~yL~~~gi~~~L~~~l~~~--~~dp~~~~~~l~g~~~f~g~la~~----~ 280 (503)
T PF10508_consen 213 SDD-----ILVQLNALELLSELAE-TPHGLQYLEQQGIFDKLSNLLQDS--EEDPRLSSLLLPGRMKFFGNLARV----S 280 (503)
T ss_pred Ccc-----HHHHHHHHHHHHHHHc-ChhHHHHHHhCCHHHHHHHHHhcc--ccCCcccchhhhhHHHHHHHHHhc----C
Confidence 743 1123344444444443 2222 233 333344444442 3355 111 1333222233332 2
Q ss_pred chhHHHHHHHHHHHHHHhhcccccCCCCCCccccchHHHHHHHHHHHHHhhcccCCCchH--------HHHHHHHHhhcC
Q 001890 386 SVAIIGTINDLIKHLRKCLQNSVELSSSGDGMAKTNADLQYSLENCISWLSKKVGDVGPI--------LDVMAGVLENMS 457 (1000)
Q Consensus 386 svsvidvlsdLlrHLRkslq~s~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA~hV~da~qI--------~DMmavmLenis 457 (1000)
...++..+..++..|...++.. ....+..-.+++|.+|..+--.+-+ .-+|..+...++
T Consensus 281 ~~~v~~~~p~~~~~l~~~~~s~-------------d~~~~~~A~dtlg~igst~~G~~~L~~~~~~~~~~~l~~~~~~~~ 347 (503)
T PF10508_consen 281 PQEVLELYPAFLERLFSMLESQ-------------DPTIREVAFDTLGQIGSTVEGKQLLLQKQGPAMKHVLKAIGDAIK 347 (503)
T ss_pred hHHHHHHHHHHHHHHHHHhCCC-------------ChhHHHHHHHHHHHHhCCHHHHHHHHhhcchHHHHHHHHHHHHhc
Confidence 2244666677777776544331 3556677889999999887333332 223333333333
Q ss_pred CCccchhhhHHHHHHHHHHHhhcCCcc-cccccCcHHHHH---------HHHHHhcCCCchhhHHHHHHHHHhhcC
Q 001890 458 NNTVVARTTISAVHRTAQIISTIPNIS-YRNKAFPEALFH---------QLLLAMAHPDHETRVGAHTVLSVVLMP 523 (1000)
Q Consensus 458 ~~~~~ar~tvsa~y~ta~i~a~~pn~s-y~~kaFP~all~---------qLL~am~~pD~e~Rl~a~~If~~lL~p 523 (1000)
+.+.. .++.+..-.+.|+.+-+.-. -+-...-+.+|+ -++...--|.||+|..+.++|..|-.+
T Consensus 348 ~~~~~--lk~r~l~al~~il~~~~~~~~~~i~~~~~~w~~~~~~~~~~~~l~~~~~qPF~elr~a~~~~l~~l~~~ 421 (503)
T PF10508_consen 348 SGSTE--LKLRALHALASILTSGTDRQDNDILSITESWYESLSGSPLSNLLMSLLKQPFPELRCAAYRLLQALAAQ 421 (503)
T ss_pred CCchH--HHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHhcCCchHHHHHHHhcCCchHHHHHHHHHHHHHhcC
Confidence 32211 22333333344443222100 000011122222 233455678899999999999999887
No 9
>KOG1877 consensus Putative transmembrane protein cmp44E [General function prediction only]
Probab=80.95 E-value=5.9 Score=50.20 Aligned_cols=50 Identities=12% Similarity=0.191 Sum_probs=39.8
Q ss_pred CCCCccchHHHH--HHHHhhhccccc---ccccCCCCChhHHHHHHHHHhhhcccc
Q 001890 866 NTLDILSVNELL--DSVLETARQVAS---YPVVSTTVPYDQMKSQCEALVTGKQQK 916 (1000)
Q Consensus 866 ~~~~~l~v~qll--esv~e~a~qv~~---~~vs~~~~py~~m~~qCEal~~gkqqK 916 (1000)
.++..+|++|+- |.++++.+|... .++...|.||+++..+| +-..+.-+|
T Consensus 730 ~~~~~vs~~~~~~~e~~~~~~~q~~~~~~~s~~~s~~~~~~~~~r~-~s~~~~~~d 784 (819)
T KOG1877|consen 730 SNPPEVSIDQMDAHEATLSGKQQKRSRSLTSSTFSPSPFDEFLART-TSGENLNED 784 (819)
T ss_pred CCcccCCHHHHhhHHHHhhhhhhhccccccccccCcCchHHHHhhc-cCCCCchhh
Confidence 557899999998 889999999877 77777889999999999 333334444
No 10
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=80.49 E-value=3.5 Score=39.26 Aligned_cols=37 Identities=32% Similarity=0.434 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhHhhhccccccccccchHHHHHHhhhcc
Q 001890 179 LRSAGLQVLAYMVKFMGEQSHMSMDFDKIISVTLENFVD 217 (1000)
Q Consensus 179 lR~AGLqAL~~vV~~~~e~shis~q~D~IVpvILeNl~~ 217 (1000)
-|.+||-||+++.-..+ .++...+++|+|.||.++.+
T Consensus 2 ~R~ggli~Laa~ai~l~--~~~~~~l~~Il~pVL~~~~D 38 (97)
T PF12755_consen 2 YRKGGLIGLAAVAIALG--KDISKYLDEILPPVLKCFDD 38 (97)
T ss_pred chhHHHHHHHHHHHHch--HhHHHHHHHHHHHHHHHcCC
Confidence 48999999999976554 34788899999999988874
No 11
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=74.54 E-value=92 Score=40.64 Aligned_cols=113 Identities=12% Similarity=0.205 Sum_probs=68.2
Q ss_pred CChhhhHHHHHHHHHHHHhhhcCCceeeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehh-HhHHHHHH
Q 001890 66 LRIPKITTLLEQRCYKDLRNENFGSVKVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILG-CGTLVNFI 144 (1000)
Q Consensus 66 ~KL~KIg~yLekR~~kDl~r~r~G~V~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a-~~tf~~F~ 144 (1000)
.-++||...+.+=|.++ ....-.-=.-.+|++..++..|+.++.-|.+.+++.+-.-+. -+|++.--. =..=..|.
T Consensus 250 ~h~~~ivp~v~~y~~~~-e~~dDELrE~~lQale~fl~rcp~ei~p~~pei~~l~l~yis--YDPNy~yd~~eDed~~~~ 326 (1233)
T KOG1824|consen 250 SHLDKIVPLVADYCNKI-EEDDDELREYCLQALESFLRRCPKEILPHVPEIINLCLSYIS--YDPNYNYDTEEDEDAMFL 326 (1233)
T ss_pred cccchhhHHHHHHhccc-ccCcHHHHHHHHHHHHHHHHhChhhhcccchHHHHHHHHHhc--cCCCCCCCCccchhhhhh
Confidence 34677777777777544 000000112578999999999999999999998777666555 244332111 11222334
Q ss_pred hcCCchhhHHhhhhHHHHHHHHhHhcCchHHHHHHHHHHHHHHHHhHhhh
Q 001890 145 DSQTDGTYMFNLEGLIPKLCQLAQEMGNDERALRLRSAGLQVLAYMVKFM 194 (1000)
Q Consensus 145 ~~q~D~~y~~~ye~fV~~f~~ma~~~~~de~~~rlR~AGLqAL~~vV~~~ 194 (1000)
.-.+|.+|-..|. .+|+..=+.|-|+.++|.+|+.+-
T Consensus 327 ed~eDde~~deYs-------------DDeD~SWkVRRaAaKcl~a~IsSR 363 (1233)
T KOG1824|consen 327 EDEEDDEQDDEYS-------------DDEDMSWKVRRAAAKCLEAVISSR 363 (1233)
T ss_pred hccccchhccccc-------------cccchhHHHHHHHHHHHHHHHhcc
Confidence 3334434322221 234566778999999999999763
No 12
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=57.55 E-value=2.6e+02 Score=35.96 Aligned_cols=320 Identities=16% Similarity=0.184 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHhhhc------CCcee--------------------------------eHHHHHHHHHHhccccc
Q 001890 68 IPKITTLLEQRCYKDLRNEN------FGSVK--------------------------------VVVCIYKKFLSSCKEQM 109 (1000)
Q Consensus 68 L~KIg~yLekR~~kDl~r~r------~G~V~--------------------------------V~l~i~~~Ll~~C~~~l 109 (1000)
+|-|=.|+|+.+.++=||.| ||.|. -+-..+-++...|+ ..
T Consensus 362 v~~Vl~Fiee~i~~pdwr~reaavmAFGSIl~gp~~~~Lt~iV~qalp~ii~lm~D~sl~VkdTaAwtlgrI~d~l~-e~ 440 (859)
T KOG1241|consen 362 VPHVLPFIEENIQNPDWRNREAAVMAFGSILEGPEPDKLTPIVIQALPSIINLMSDPSLWVKDTAAWTLGRIADFLP-EA 440 (859)
T ss_pred hhhhHHHHHHhcCCcchhhhhHHHHHHHhhhcCCchhhhhHHHhhhhHHHHHHhcCchhhhcchHHHHHHHHHhhch-hh
Q ss_pred CcchhhHHHHHHHHHhccCCcceeeh--hHhHHHHHHhc---------CCchhhHHhhhhHHHHHHHHhHhcCchHHHHH
Q 001890 110 PLFASSLLGIIRTLLEQTRQEEMQIL--GCGTLVNFIDS---------QTDGTYMFNLEGLIPKLCQLAQEMGNDERALR 178 (1000)
Q Consensus 110 ~LFa~s~L~Ii~~LL~qs~~~~l~i~--a~~tf~~F~~~---------q~D~~y~~~ye~fV~~f~~ma~~~~~de~~~r 178 (1000)
-.=....-.++.-|++ .-++++++. .|..|..|+.. |.|..+ ..|+.+|..+..-+. ..|-...+
T Consensus 441 ~~n~~~l~~~l~~l~~-gL~DePrva~N~CWAf~~Laea~~eA~~s~~qt~~~t-~~y~~ii~~Ll~~td--r~dgnqsN 516 (859)
T KOG1241|consen 441 IINQELLQSKLSALLE-GLNDEPRVASNVCWAFISLAEAAYEAAVSNGQTDPAT-PFYEAIIGSLLKVTD--RADGNQSN 516 (859)
T ss_pred cccHhhhhHHHHHHHH-HhhhCchHHHHHHHHHHHHHHHHHHhccCCCCCCccc-hhHHHHHHHHHhhcc--ccccchhh
Q ss_pred HHHHHHHHHHHhHhhhccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhhhhhhcccccCCCCCCccccc
Q 001890 179 LRSAGLQVLAYMVKFMGEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQWVQGLQNEEDNDSSFPDMSKK 258 (1000)
Q Consensus 179 lR~AGLqAL~~vV~~~~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e~~~~E~~~~~~~~~~~r 258 (1000)
+|.|+-.||.-+|... ...-..-.-++.+++++-+. +-+++-.-+..
T Consensus 517 LR~AAYeALmElIk~s--t~~vy~~v~~~~l~il~kl~--------------------q~i~~~~l~~~----------- 563 (859)
T KOG1241|consen 517 LRSAAYEALMELIKNS--TDDVYPMVQKLTLVILEKLD--------------------QTISSQILSLA----------- 563 (859)
T ss_pred HHHHHHHHHHHHHHcC--cHHHHHHHHHHHHHHHHHHH--------------------HHHHHHhccHh-----------
Q ss_pred ccccccCCCCCCCCCCCCCCCChHHHHHHHHHHHHHhhhh--cchHHHHhhhhhhhccCCCCCCCCcchHHHHHHHHHHH
Q 001890 259 VSSLKDSMINPGPDPTMDTSKSPSYWSRVCLDNMARLAKE--TTTVRRVLEPLFQIFDAENHWSTETGVACSVLLYLQSL 336 (1000)
Q Consensus 259 ~ps~~~~~~~~~~~~~~e~~e~p~vlA~~CLr~l~~~A~e--~ttvr~VLepvf~~lD~~~~Wsp~~gfAi~vf~~iq~l 336 (1000)
|.+.-.+.-.+--.||..+.+.... ..-.-.++.-+++-|...+.=.. ..=|+--...+++.
T Consensus 564 ---------------dr~q~~eLQs~Lc~~Lq~i~rk~~~~~~~~~d~iM~lflri~~s~~s~~v-~e~a~laV~tl~~~ 627 (859)
T KOG1241|consen 564 ---------------DRAQLNELQSLLCNTLQSIIRKVGSDIREVSDQIMGLFLRIFESKRSAVV-HEEAFLAVSTLAES 627 (859)
T ss_pred ---------------hHHHHHHHHHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHcCCccccc-hHHHHHHHHHHHHH
Q ss_pred Hhhc-CCCcchHHHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhhcccccCCCCCC
Q 001890 337 LEES-GENSHLLLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLRKCLQNSVELSSSGD 415 (1000)
Q Consensus 337 ~e~~-~Q~~~lvLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRkslq~s~~~s~~g~ 415 (1000)
+... .+|--.+.-.|..-|.+ -.+..+=...|.+..-|++.-...+ +-.-..++..|-++++.+.
T Consensus 628 Lg~~F~kym~~f~pyL~~gL~n---~~e~qVc~~aVglVgdl~raL~~~i----~py~d~~mt~Lvq~Lss~~------- 693 (859)
T KOG1241|consen 628 LGKGFAKYMPAFKPYLLMGLSN---FQEYQVCAAAVGLVGDLARALEDDI----LPYCDELMTVLVQCLSSPN------- 693 (859)
T ss_pred HhHhHHHHHHHHHHHHHHHhhc---chHHHHHHHHHHHHHHHHHHHHhhh----hhHHHHHHHHHHHHccCcc-------
Q ss_pred ccccchHHHHHHHHHHHHHhhccc-CCCchHHHHHHHHHhhcCCC
Q 001890 416 GMAKTNADLQYSLENCISWLSKKV-GDVGPILDVMAGVLENMSNN 459 (1000)
Q Consensus 416 ~~~~~~~~Lq~aL~~CIg~LA~hV-~da~qI~DMmavmLenis~~ 459 (1000)
..+.+-++|.-|-|++|-.+ .+-++-++|+-.+|...+++
T Consensus 694 ----~hR~vKP~IlS~FgDIAlaIg~~F~~Yl~~vm~llq~as~~ 734 (859)
T KOG1241|consen 694 ----LHRNVKPAILSVFGDIALAIGADFEPYLEMVMPLLQQASSV 734 (859)
T ss_pred ----ccccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhc
No 13
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=57.42 E-value=1.3e+02 Score=31.77 Aligned_cols=96 Identities=17% Similarity=0.209 Sum_probs=53.0
Q ss_pred hHHHHHHHHHHHHHhhcccCCCchH-HHHHHHHHhhcCCCccchhhhHHHHHHHHHHHhhcC-Ccc-cccccCcHHHHHH
Q 001890 421 NADLQYSLENCISWLSKKVGDVGPI-LDVMAGVLENMSNNTVVARTTISAVHRTAQIISTIP-NIS-YRNKAFPEALFHQ 497 (1000)
Q Consensus 421 ~~~Lq~aL~~CIg~LA~hV~da~qI-~DMmavmLenis~~~~~ar~tvsa~y~ta~i~a~~p-n~s-y~~kaFP~all~q 497 (1000)
++-+.++..+||..+..++++..++ ..++... +.+.....|...... ...++...+ +.. +....+-+.+...
T Consensus 107 ~~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~---~~~Kn~~vR~~~~~~--l~~~l~~~~~~~~~l~~~~~~~~l~~~ 181 (228)
T PF12348_consen 107 KKFIREAANNALDAIIESCSYSPKILLEILSQG---LKSKNPQVREECAEW--LAIILEKWGSDSSVLQKSAFLKQLVKA 181 (228)
T ss_dssp -HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHH---TT-S-HHHHHHHHHH--HHHHHTT-----GGG--HHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHH---HhCCCHHHHHHHHHH--HHHHHHHccchHhhhcccchHHHHHHH
Confidence 5779999999999999999866665 4444443 232222334322221 123443344 111 1111122445555
Q ss_pred HHHHhcCCCchhhHHHHHHHHHhh
Q 001890 498 LLLAMAHPDHETRVGAHTVLSVVL 521 (1000)
Q Consensus 498 LL~am~~pD~e~Rl~a~~If~~lL 521 (1000)
+-..+-.+|+++|-.|.+.|..+.
T Consensus 182 l~~~l~D~~~~VR~~Ar~~~~~l~ 205 (228)
T PF12348_consen 182 LVKLLSDADPEVREAARECLWALY 205 (228)
T ss_dssp HHHHHTSS-HHHHHHHHHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHHHHHHHHH
Confidence 667889999999999999999884
No 14
>PF08161 NUC173: NUC173 domain; InterPro: IPR012978 This is the central domain of a novel family of hypothetical nucleolar proteins [].
Probab=50.83 E-value=1.6e+02 Score=31.66 Aligned_cols=175 Identities=17% Similarity=0.156 Sum_probs=92.8
Q ss_pred HHHHHHHHHHhhcCCCcchHHHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhhccc
Q 001890 328 SVLLYLQSLLEESGENSHLLLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLRKCLQNS 407 (1000)
Q Consensus 328 ~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRkslq~s 407 (1000)
.||..+..+.++=|...+-.+.-+++.|..-....+-..+..+-+++.+..+ ..|+ +.| + +.+...
T Consensus 19 ~vl~v~s~lf~~lg~~~~~~l~~~L~~l~~lr~~~~f~~~~~~e~~lgaAi~----amGp---e~v---L----~~lPLn 84 (198)
T PF08161_consen 19 EVLNVLSALFEKLGERSSPLLKPILKTLGDLRESEDFSFRKELEQVLGAAIR----AMGP---EQV---L----SILPLN 84 (198)
T ss_pred HHHHHHHHHHHHHhhhccHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHH----HCCH---HHH---H----HHCCCC
Confidence 4455554444554555667777777777542222233445555555544333 2333 111 2 233333
Q ss_pred ccCCCCCCccccchHHHHHHHHHHHHHhhccc-CCCchHHHHHHHHHhhcCCCccchhhhHHHHHHH--HHHHhhcCCcc
Q 001890 408 VELSSSGDGMAKTNADLQYSLENCISWLSKKV-GDVGPILDVMAGVLENMSNNTVVARTTISAVHRT--AQIISTIPNIS 484 (1000)
Q Consensus 408 ~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA~hV-~da~qI~DMmavmLenis~~~~~ar~tvsa~y~t--a~i~a~~pn~s 484 (1000)
.+..+... ..|.=|.+.|.+++.. +++ ++..-++-|...+-.+..+.-...++.-+.+|.| .|+-+.+|+..
T Consensus 85 l~~~~~~~---~~raWLLPlLr~~i~~--~~L~fF~~~~lPla~~~~~~~~~~~~~~~~~~ak~~~~l~~QlWslLP~FC 159 (198)
T PF08161_consen 85 LDNADDSQ---PGRAWLLPLLRDHIRN--ASLSFFVEEFLPLARRLRQKAQKASEAGKSVEAKIYETLVQQLWSLLPGFC 159 (198)
T ss_pred ccCCCcCC---cccchhHHHHHHhccC--CChHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHhHHhc
Confidence 32211111 1234466667666432 233 2333333333333222222111223444445554 58888899977
Q ss_pred cccccCcHHH--HHHHHHHhcCCCchhhHHHHHHHHHhh
Q 001890 485 YRNKAFPEAL--FHQLLLAMAHPDHETRVGAHTVLSVVL 521 (1000)
Q Consensus 485 y~~kaFP~al--l~qLL~am~~pD~e~Rl~a~~If~~lL 521 (1000)
..++-.+++| |-.+|..++...++.|....+-|..|+
T Consensus 160 ~~P~D~~~~F~~~a~~L~~~L~~~~~LR~~Ic~aL~~Lv 198 (198)
T PF08161_consen 160 NYPTDLAESFPSFAKLLGNALYDQPDLRPIICQALRRLV 198 (198)
T ss_pred CCcccHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHC
Confidence 7777777777 556788888889999999988887764
No 15
>smart00638 LPD_N Lipoprotein N-terminal Domain.
Probab=49.79 E-value=4e+02 Score=32.69 Aligned_cols=50 Identities=20% Similarity=0.185 Sum_probs=30.6
Q ss_pred CCccchhhhHHHHHHHHHHHhhcCCcccccccCcHHHHHHHHHHh--cCCCchhhHHHHHHH
Q 001890 458 NNTVVARTTISAVHRTAQIISTIPNISYRNKAFPEALFHQLLLAM--AHPDHETRVGAHTVL 517 (1000)
Q Consensus 458 ~~~~~ar~tvsa~y~ta~i~a~~pn~sy~~kaFP~all~qLL~am--~~pD~e~Rl~a~~If 517 (1000)
..+..-+..+.+++..-.++ +..|...-.-|+... ...++|+|+.|-.++
T Consensus 489 ~~~~~~~iR~~Av~Alr~~a----------~~~p~~v~~~l~~i~~n~~e~~EvRiaA~~~l 540 (574)
T smart00638 489 AEPLSTFIRLAAILALRNLA----------KRDPRKVQEVLLPIYLNRAEPPEVRMAAVLVL 540 (574)
T ss_pred CCCCCHHHHHHHHHHHHHHH----------HhCchHHHHHHHHHHcCCCCChHHHHHHHHHH
Confidence 33344456666777666665 445665555455533 457899999986554
No 16
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis]
Probab=48.79 E-value=6.4e+02 Score=31.62 Aligned_cols=206 Identities=17% Similarity=0.168 Sum_probs=108.2
Q ss_pred HHHHHHHHHHHhhhhcchHHHHhhhhhhhccCCCCCCCCcchHHHHHHHHHHHHhhcCCCcchHHHHHHHhhhccCCCCC
Q 001890 284 WSRVCLDNMARLAKETTTVRRVLEPLFQIFDAENHWSTETGVACSVLLYLQSLLEESGENSHLLLCNLVKHLDHKSVAKQ 363 (1000)
Q Consensus 284 lA~~CLr~l~~~A~e~ttvr~VLepvf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~v~~~ 363 (1000)
-|..+.+.+.+.-. ...++.+|-+++.-++.. .|.. +--++.++..|.+.. +-|..+. +..++.-|..---.+.
T Consensus 235 Aa~~a~kai~~~~~-~~aVK~llpsll~~l~~~-kWrt-K~aslellg~m~~~a--p~qLs~~-lp~iiP~lsevl~DT~ 308 (569)
T KOG1242|consen 235 AAVEAAKAIMRCLS-AYAVKLLLPSLLGSLLEA-KWRT-KMASLELLGAMADCA--PKQLSLC-LPDLIPVLSEVLWDTK 308 (569)
T ss_pred HHHHHHHHHHHhcC-cchhhHhhhhhHHHHHHH-hhhh-HHHHHHHHHHHHHhc--hHHHHHH-HhHhhHHHHHHHccCC
Confidence 46667777765544 666888888877755444 8999 777888888887754 3444332 3333444422111234
Q ss_pred chhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhhcccccCCCCCCccccchHHHHHHHHHHHHHhhcc--c-C
Q 001890 364 PLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLRKCLQNSVELSSSGDGMAKTNADLQYSLENCISWLSKK--V-G 440 (1000)
Q Consensus 364 p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRkslq~s~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA~h--V-~ 440 (1000)
|.+|-.=++.+..+.+ ++| -.++.+++.+.+++=++.. ..+++|+-.|+.+ | +
T Consensus 309 ~evr~a~~~~l~~~~s---------vid-N~dI~~~ip~Lld~l~dp~--------------~~~~e~~~~L~~ttFV~~ 364 (569)
T KOG1242|consen 309 PEVRKAGIETLLKFGS---------VID-NPDIQKIIPTLLDALADPS--------------CYTPECLDSLGATTFVAE 364 (569)
T ss_pred HHHHHHHHHHHHHHHH---------hhc-cHHHHHHHHHHHHHhcCcc--------------cchHHHHHhhcceeeeee
Confidence 6665544444433322 122 1335677777776644321 1245666665433 2 2
Q ss_pred CCchHHHHHHHHHhhcCCC--ccchhhhHHHHHHHHHHHhhcCCcccccccCcHHHHHHHHHHhcCCCchhhHHHHHHHH
Q 001890 441 DVGPILDVMAGVLENMSNN--TVVARTTISAVHRTAQIISTIPNISYRNKAFPEALFHQLLLAMAHPDHETRVGAHTVLS 518 (1000)
Q Consensus 441 da~qI~DMmavmLenis~~--~~~ar~tvsa~y~ta~i~a~~pn~sy~~kaFP~all~qLL~am~~pD~e~Rl~a~~If~ 518 (1000)
=..|.+++|--+|.|=-.- +-.=|.++. ..-++..-+++-.-- ..|-..|+.-|=..+.-|+||+|-.+.+-+-
T Consensus 365 V~~psLalmvpiL~R~l~eRst~~kr~t~~---IidNm~~LveDp~~l-apfl~~Llp~lk~~~~d~~PEvR~vaarAL~ 440 (569)
T KOG1242|consen 365 VDAPSLALMVPILKRGLAERSTSIKRKTAI---IIDNMCKLVEDPKDL-APFLPSLLPGLKENLDDAVPEVRAVAARALG 440 (569)
T ss_pred ecchhHHHHHHHHHHHHhhccchhhhhHHH---HHHHHHHhhcCHHHH-hhhHHHHhhHHHHHhcCCChhHHHHHHHHHH
Confidence 2236666666664321100 000022111 122333233221000 1133334444667889999999999999998
Q ss_pred HhhcC
Q 001890 519 VVLMP 523 (1000)
Q Consensus 519 ~lL~p 523 (1000)
+++-+
T Consensus 441 ~l~e~ 445 (569)
T KOG1242|consen 441 ALLER 445 (569)
T ss_pred HHHHH
Confidence 88877
No 17
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=47.33 E-value=3.8e+02 Score=32.32 Aligned_cols=123 Identities=11% Similarity=0.111 Sum_probs=76.7
Q ss_pred chHHHHHHHHHHHHhhcCCCcchHHHHHHHhh--hccCCCCCchhhhhHHHHHHHHHHhc--ccccchhHHHHHHHHHHH
Q 001890 324 GVACSVLLYLQSLLEESGENSHLLLCNLVKHL--DHKSVAKQPLAQTNIVDIATKLAQNA--KLLASVAIIGTINDLIKH 399 (1000)
Q Consensus 324 gfAi~vf~~iq~l~e~~~Q~~~lvLs~Lv~HL--d~k~v~~~p~~q~~IV~Vlt~La~~~--~~~~svsvidvlsdLlrH 399 (1000)
+-++.+++.+. ..+..|..+.+|.+-| ....-..++.+-.|-|.++..++.+. ...+.+..-- ..++..
T Consensus 233 ~~~w~~m~nL~-----~S~~g~~~i~~L~~iL~~~~~~~~~~~~~lRGAv~~l~~ll~~~~~~~~~~l~~~~--~~vl~s 305 (464)
T PF11864_consen 233 KPSWRTMRNLL-----KSHLGHSAIRTLCDILRSPDPQNKRDINVLRGAVFFLRMLLWGSGEQGYPSLPFSP--SSVLPS 305 (464)
T ss_pred hhHHHHHHHHH-----cCccHHHHHHHHHHHHcccCccccccHHHHhhHHHHHHHHHhccccCCcceecccH--HHHHHH
Confidence 44555555544 3557799999999999 33222344555557788887666554 3444442222 235555
Q ss_pred HHHhhcccccCCCCCCccccchHHHHHHHHHHH-HHhhccc--CCCchHHHHHHHHHhhcCCCccc
Q 001890 400 LRKCLQNSVELSSSGDGMAKTNADLQYSLENCI-SWLSKKV--GDVGPILDVMAGVLENMSNNTVV 462 (1000)
Q Consensus 400 LRkslq~s~~~s~~g~~~~~~~~~Lq~aL~~CI-g~LA~hV--~da~qI~DMmavmLenis~~~~~ 462 (1000)
|+..++...+ . ..-+....+...+ ++++..+ .+.+.+.|++..++.++.+.+..
T Consensus 306 l~~al~~~~~-------~--v~~eIl~~i~~ll~~~~~~~l~~~~W~~~~~i~~~~~~~~~~~~~~ 362 (464)
T PF11864_consen 306 LLNALKSNSP-------R--VDYEILLLINRLLDGKYGRELSEEDWDIILDIIEEIFDKIQPFDSW 362 (464)
T ss_pred HHHHHhCCCC-------e--ehHHHHHHHHHHHhHhhhhhhcccCchHHHHHHHHHHhhccccccc
Confidence 6666654321 1 1445566677777 8888754 78899999999988888765543
No 18
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=42.67 E-value=6.8e+02 Score=30.18 Aligned_cols=364 Identities=16% Similarity=0.125 Sum_probs=177.1
Q ss_pred hHHHHHHhhCCCChhhhHHHHHHHHHHHHhhhcCC-ceeeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccC-----
Q 001890 55 GKLCEYASKNPLRIPKITTLLEQRCYKDLRNENFG-SVKVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTR----- 128 (1000)
Q Consensus 55 sKL~~Ya~s~P~KL~KIg~yLekR~~kDl~r~r~G-~V~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~----- 128 (1000)
-+|+-.+.++.... +.-+-...++++.....- ..---++++..|-..- +++..|-..+...+..-|++.-
T Consensus 50 ~~ll~~~i~~~~~~---~~~~R~~fF~~I~~~~~~~d~~~~l~aL~~LT~~G-rdi~~~~~~i~~~L~~wl~~~~~~~~~ 125 (464)
T PF11864_consen 50 LELLIACIKRQDSS---SGLMRAEFFRDISDPSNDDDFDLRLEALIALTDNG-RDIDFFEYEIGPFLLSWLEPSYQAARS 125 (464)
T ss_pred HHHHHHHHHccccc---cHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHcCC-cCchhcccchHHHHHHHHHHHHHHHHH
Confidence 34555555555442 112224455566433222 2235567777777654 4667777777766666554211
Q ss_pred --------------Cc---ceeehhHhHHHHHHhc-------CCchhhHHhhhhHHHHHHHHhHhcCc-hHHHHHHHHHH
Q 001890 129 --------------QE---EMQILGCGTLVNFIDS-------QTDGTYMFNLEGLIPKLCQLAQEMGN-DERALRLRSAG 183 (1000)
Q Consensus 129 --------------~~---~l~i~a~~tf~~F~~~-------q~D~~y~~~ye~fV~~f~~ma~~~~~-de~~~rlR~AG 183 (1000)
.. +-..-....|+.|..+ ..|. .....+|...|.+|..+.. ++. .++
T Consensus 126 ~r~~~~~~~~~~~~~~~~~~~~~~~l~~ll~~l~nviKfn~~~l~e---~~i~~lv~~i~~iC~~Ts~~~di-----~~~ 197 (464)
T PF11864_consen 126 ARRKAKKSSSSKSKGLSNLDNEESNLSDLLQFLVNVIKFNFNYLDE---DEISSLVDQICTICKSTSSEDDI-----EAC 197 (464)
T ss_pred HHHHhhccccccccccccccchhhhHHHHHHHHHHHHhcCCCCCCH---HHHHHHHHHHHHHHhccCcHHHH-----HHH
Confidence 00 0122233445555532 1122 3356789999999976653 333 457
Q ss_pred HHHHHHhHhhhccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhhhhhhcccccCCCCCCcccccccccc
Q 001890 184 LQVLAYMVKFMGEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQWVQGLQNEEDNDSSFPDMSKKVSSLK 263 (1000)
Q Consensus 184 LqAL~~vV~~~~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e~~~~E~~~~~~~~~~~r~ps~~ 263 (1000)
|.-|.++|.+-.-+. .-.+.+++-+..-- +
T Consensus 198 L~vldaii~y~~iP~-------~sl~~~i~vLCsi~---~---------------------------------------- 227 (464)
T PF11864_consen 198 LSVLDAIITYGDIPS-------ESLSPCIEVLCSIV---N---------------------------------------- 227 (464)
T ss_pred HHHHHHHHHcCcCCh-------HHHHHHHHHHhhHh---c----------------------------------------
Confidence 999999998643111 11233333333100 0
Q ss_pred cCCCCCCCCCCCCCCCChHHHHHHHHHHHHHhhhhcchHHHHhhhhhhhc--cCCCCCCCCc--chHHHHHHHHHHHHhh
Q 001890 264 DSMINPGPDPTMDTSKSPSYWSRVCLDNMARLAKETTTVRRVLEPLFQIF--DAENHWSTET--GVACSVLLYLQSLLEE 339 (1000)
Q Consensus 264 ~~~~~~~~~~~~e~~e~p~vlA~~CLr~l~~~A~e~ttvr~VLepvf~~l--D~~~~Wsp~~--gfAi~vf~~iq~l~e~ 339 (1000)
. .+-..-+-.+++||++--. + ...+..+...+ +........+ .=|+.+++.+. ..
T Consensus 228 ---------~-----~~l~~~~w~~m~nL~~S~~-g---~~~i~~L~~iL~~~~~~~~~~~~~lRGAv~~l~~ll---~~ 286 (464)
T PF11864_consen 228 ---------S-----VSLCKPSWRTMRNLLKSHL-G---HSAIRTLCDILRSPDPQNKRDINVLRGAVFFLRMLL---WG 286 (464)
T ss_pred ---------c-----cccchhHHHHHHHHHcCcc-H---HHHHHHHHHHHcccCccccccHHHHhhHHHHHHHHH---hc
Confidence 0 0111124457888874111 1 22333333333 2222222211 11555555443 34
Q ss_pred cCCCcch--------HHHHHHHhhhccCCCCCchhhhhHHHHHHHHHH-hcccccchhHHHHHHHHHHHHHHhhcccccC
Q 001890 340 SGENSHL--------LLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQ-NAKLLASVAIIGTINDLIKHLRKCLQNSVEL 410 (1000)
Q Consensus 340 ~~Q~~~l--------vLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~-~~~~~~svsvidvlsdLlrHLRkslq~s~~~ 410 (1000)
.+|+++. ++..+..-|.. +++.+-..|+..+..+.. .-.....-..-+.+.+++.++-..++.....
T Consensus 287 ~~~~~~~~l~~~~~~vl~sl~~al~~----~~~~v~~eIl~~i~~ll~~~~~~~l~~~~W~~~~~i~~~~~~~~~~~~~~ 362 (464)
T PF11864_consen 287 SGEQGYPSLPFSPSSVLPSLLNALKS----NSPRVDYEILLLINRLLDGKYGRELSEEDWDIILDIIEEIFDKIQPFDSW 362 (464)
T ss_pred cccCCcceecccHHHHHHHHHHHHhC----CCCeehHHHHHHHHHHHhHhhhhhhcccCchHHHHHHHHHHhhccccccc
Confidence 5556552 44444444443 246677788888887773 2222222223445556666544444332211
Q ss_pred CCCCCccccchHHHHHHHHHHHHHhhcccCCCchHHHHHHHHHhhcCCCccchhhhHHHHHHHHHHHhhcCCcccccccC
Q 001890 411 SSSGDGMAKTNADLQYSLENCISWLSKKVGDVGPILDVMAGVLENMSNNTVVARTTISAVHRTAQIISTIPNISYRNKAF 490 (1000)
Q Consensus 411 s~~g~~~~~~~~~Lq~aL~~CIg~LA~hV~da~qI~DMmavmLenis~~~~~ar~tvsa~y~ta~i~a~~pn~sy~~kaF 490 (1000)
.+..... ..-......+...|.+|=..-.+.||..+++..+.......|.-+...+- |...+.. ...
T Consensus 363 ~~~~~~~-~~~~~~~~~l~~~ie~L~~~~~~~g~~~~~~~f~~~~~~~lp~s~~~~vl--~~~~~~~----------~Ps 429 (464)
T PF11864_consen 363 YSNSSSL-DQLSSNLHSLLSSIESLYEQHDFNGPKDKLFNFFERVHSYLPDSSALLVL--FYEERSC----------SPS 429 (464)
T ss_pred cccccch-HHHHHHHHHHHHHHHHHHhCCCcCccHHHHHHHHHHHhccCCHHHHHHHH--HHHhccc----------CCC
Confidence 1110000 11233445555667777666566668888888887777766643322222 5555554 112
Q ss_pred cHHHHHH---HHHHh--cCCCchhhHHHHHHHH
Q 001890 491 PEALFHQ---LLLAM--AHPDHETRVGAHTVLS 518 (1000)
Q Consensus 491 P~all~q---LL~am--~~pD~e~Rl~a~~If~ 518 (1000)
.+.+.+- |+... -..++++|+-|.+++.
T Consensus 430 ~~~W~~n~~~ll~~F~~~~~~~~vRi~aL~~l~ 462 (464)
T PF11864_consen 430 NPDWLDNLQKLLDRFYNRDRRSEVRIKALDVLE 462 (464)
T ss_pred ChHHHHHHHHHHHHHhCCCCCchHHHHHHHHHh
Confidence 2222332 33322 3568899999998875
No 19
>PF08623 TIP120: TATA-binding protein interacting (TIP20); InterPro: IPR013932 TIP120 (also known as cullin-associated and neddylation-dissociated protein 1) is a TATA binding protein interacting protein that enhances transcription []. ; PDB: 4A0C_A 1U6G_C.
Probab=39.97 E-value=1.3e+02 Score=31.76 Aligned_cols=95 Identities=14% Similarity=0.175 Sum_probs=66.3
Q ss_pred eHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHHHHhHhcC-
Q 001890 93 VVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLCQLAQEMG- 171 (1000)
Q Consensus 93 V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~~ma~~~~- 171 (1000)
-+-+.+..||..|...++ ...|+..|..=|. .+.|++++++..+.+++.... ..-.++++.++..|-......-
T Consensus 46 ~ayE~lytlLd~~~~~~~--~~~~~~~v~~GL~--D~~DIk~L~~~~l~kl~~~~p-~~v~~~Ld~l~~~l~~~L~~k~k 120 (169)
T PF08623_consen 46 AAYECLYTLLDTCLSRID--ISEFLDRVEAGLK--DEHDIKMLCHLMLSKLAQLAP-EEVLQRLDSLVEPLRKTLSKKLK 120 (169)
T ss_dssp HHHHHHHHHHHSTCSSS---HHHHHHHHHHTTS--S-HHHHHHHHHHHHHHHHS-H-HHHHHCCTTTHHHHHHHHH----
T ss_pred HHHHHHHHHHHHHHHhCC--HHHHHHHHHhhcC--CcHHHHHHHHHHHHHHHHhCH-HHHHHHHHHHHHHHHHHhhccCC
Confidence 456788999999998888 4455666655555 388999999999999986542 3555679999999988875432
Q ss_pred c------hHHHHHHHHHHHHHHHHhHh
Q 001890 172 N------DERALRLRSAGLQVLAYMVK 192 (1000)
Q Consensus 172 ~------de~~~rlR~AGLqAL~~vV~ 192 (1000)
+ -|...-+--+.|+++.++-.
T Consensus 121 ~~AvkQE~Ek~~E~~rs~lr~~~~l~~ 147 (169)
T PF08623_consen 121 ENAVKQEIEKQQELIRSVLRAVKALNS 147 (169)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHHHHH-H
T ss_pred CCcccccHHHHHHHHHHHHHHHHHHHH
Confidence 1 15666777788888887733
No 20
>COG5215 KAP95 Karyopherin (importin) beta [Intracellular trafficking and secretion]
Probab=39.03 E-value=5.1e+02 Score=32.63 Aligned_cols=143 Identities=15% Similarity=0.075 Sum_probs=80.4
Q ss_pred CCChhhhhHHHHHHhhCCCCh-hhhHHHHHHHHHHHHhhhc------CCcee----------eHHHHHHHHHHhcccccC
Q 001890 48 EPNDRKIGKLCEYASKNPLRI-PKITTLLEQRCYKDLRNEN------FGSVK----------VVVCIYKKFLSSCKEQMP 110 (1000)
Q Consensus 48 ~Pn~~~lsKL~~Ya~s~P~KL-~KIg~yLekR~~kDl~r~r------~G~V~----------V~l~i~~~Ll~~C~~~l~ 110 (1000)
.|....-+=|--||.-.-.|| .-|=.|.|+-+..|-|+.| ||+|. ++-+++.-++..=- |--
T Consensus 343 n~smaA~sCLqlfaq~~gd~i~~pVl~FvEqni~~~~w~nreaavmAfGSvm~gp~~~~lT~~V~qalp~i~n~m~-D~~ 421 (858)
T COG5215 343 NPSMAASSCLQLFAQLKGDKIMRPVLGFVEQNIRSESWANREAAVMAFGSVMHGPCEDCLTKIVPQALPGIENEMS-DSC 421 (858)
T ss_pred chhhhHHHHHHHHHHHhhhHhHHHHHHHHHHhccCchhhhHHHHHHHhhhhhcCccHHHHHhhHHhhhHHHHHhcc-cce
Confidence 455666677888888666554 2388999999999999987 66664 44444444443222 333
Q ss_pred cchhhHH-----H-----------------HHHHHHhc-cCCcceeehhHhHHHHHHhcC--Cc----hhhHHhhhhHHH
Q 001890 111 LFASSLL-----G-----------------IIRTLLEQ-TRQEEMQILGCGTLVNFIDSQ--TD----GTYMFNLEGLIP 161 (1000)
Q Consensus 111 LFa~s~L-----~-----------------Ii~~LL~q-s~~~~l~i~a~~tf~~F~~~q--~D----~~y~~~ye~fV~ 161 (1000)
||+.+.- . ++...|.- ..+|...+--|.+|..|+.+- ++ .-..+.|..+|.
T Consensus 422 l~vk~ttAwc~g~iad~va~~i~p~~Hl~~~vsa~liGl~D~p~~~~ncsw~~~nlv~h~a~a~~~~~S~l~~fY~ai~~ 501 (858)
T COG5215 422 LWVKSTTAWCFGAIADHVAMIISPCGHLVLEVSASLIGLMDCPFRSINCSWRKENLVDHIAKAVREVESFLAKFYLAILN 501 (858)
T ss_pred eehhhHHHHHHHHHHHHHHHhcCccccccHHHHHHHhhhhccchHHhhhHHHHHhHHHhhhhhhccccchhHHHHHHHHH
Confidence 4433321 1 11111110 001111111224566665542 12 223366777776
Q ss_pred HHHHHhHhcCchHHHHHHHHHHHHHHHHhHhhh
Q 001890 162 KLCQLAQEMGNDERALRLRSAGLQVLAYMVKFM 194 (1000)
Q Consensus 162 ~f~~ma~~~~~de~~~rlR~AGLqAL~~vV~~~ 194 (1000)
-+..-+.-.+++ ...|.+|..||.-+|.+.
T Consensus 502 ~Lv~~t~~~~Ne---~n~R~s~fsaLgtli~~~ 531 (858)
T COG5215 502 ALVKGTELALNE---SNLRVSLFSALGTLILIC 531 (858)
T ss_pred HHHHHHHhhccc---hhHHHHHHHHHHHHHhhc
Confidence 666555333333 789999999999998775
No 21
>PF05804 KAP: Kinesin-associated protein (KAP)
Probab=37.35 E-value=4e+02 Score=34.22 Aligned_cols=91 Identities=13% Similarity=0.246 Sum_probs=58.8
Q ss_pred HHHHHHhhhcCCceeeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCc-hhhHHhh
Q 001890 78 RCYKDLRNENFGSVKVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTD-GTYMFNL 156 (1000)
Q Consensus 78 R~~kDl~r~r~G~V~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D-~~y~~~y 156 (1000)
|-++-+-+++-....|++.++-.|-+..+-.....-...+.++-.+|+ +.+.++.+++.. |..=..+..+ .+-+..
T Consensus 253 kk~~~l~~kQeqLlrv~~~lLlNLAed~~ve~kM~~~~iV~~Lv~~Ld-r~n~ellil~v~-fLkkLSi~~ENK~~m~~- 329 (708)
T PF05804_consen 253 KKLQTLIRKQEQLLRVAFYLLLNLAEDPRVELKMVNKGIVSLLVKCLD-RENEELLILAVT-FLKKLSIFKENKDEMAE- 329 (708)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHhcCCHHHHHHHHc-CCCHHHHHHHHH-HHHHHcCCHHHHHHHHH-
Confidence 445556666777778888888777777666666667778888888898 667776665544 4333333222 244432
Q ss_pred hhHHHHHHHHhHhcC
Q 001890 157 EGLIPKLCQLAQEMG 171 (1000)
Q Consensus 157 e~fV~~f~~ma~~~~ 171 (1000)
.++|++++.+-....
T Consensus 330 ~giV~kL~kLl~s~~ 344 (708)
T PF05804_consen 330 SGIVEKLLKLLPSEN 344 (708)
T ss_pred cCCHHHHHHHhcCCC
Confidence 368888888876544
No 22
>PF10350 DUF2428: Putative death-receptor fusion protein (DUF2428); InterPro: IPR019442 This domain is found in a family of proteins of unknown function that are conserved from plants to humans. Several of these proteins have been annotated as being HEAT repeat-containing proteins while others are designated as death-receptor interacting proteins, but neither of these has yet been confirmed. Aberrations in the genes encoding these proteins have been observed in benign thyroid adenomas [].
Probab=36.43 E-value=2.1e+02 Score=31.63 Aligned_cols=41 Identities=17% Similarity=0.260 Sum_probs=28.6
Q ss_pred CChHHHHHHHHHHHHHhhhhcch----HHHHhhhhhhhccCCCCCC
Q 001890 279 KSPSYWSRVCLDNMARLAKETTT----VRRVLEPLFQIFDAENHWS 320 (1000)
Q Consensus 279 e~p~vlA~~CLr~l~~~A~e~tt----vr~VLepvf~~lD~~~~Ws 320 (1000)
..|.+-|..|||.||+-++-+.. +.+.+.--++.|++.. |+
T Consensus 211 d~~qVHAlNiLr~if~ds~L~~~~~~yi~~~l~lai~~f~s~~-Wa 255 (255)
T PF10350_consen 211 DLPQVHALNILRAIFRDSKLSEDVSPYIEDALILAIKGFSSPD-WA 255 (255)
T ss_pred chHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhCCCcc-CC
Confidence 47999999999999975553222 4455555677787755 64
No 23
>PF02444 HEV_ORF1: Hepatitis E virus ORF-2 (Putative capsid protein); InterPro: IPR003384 The Hepatitis E virus(HEV) genome is a single-stranded, positive-sense RNA molecule of approximately 7.5 kb []. Three open reading frames (ORF) were identified within the HEV genome: ORF1 encodes nonstructural proteins, ORF2 encodes the putative structural protein(s), and ORF3 encodes a protein of unknown function. ORF2 contains a consensus signal peptide sequence at its amino terminus and a capsid-like region with a high content of basic amino acids similar to that seen with other virus capsid proteins [].; GO: 0030430 host cell cytoplasm
Probab=32.60 E-value=17 Score=34.92 Aligned_cols=13 Identities=46% Similarity=1.081 Sum_probs=8.9
Q ss_pred cccccCCCccccc
Q 001890 15 LCFFCPSMRARSR 27 (1000)
Q Consensus 15 ~C~cCpalR~rsr 27 (1000)
.|.|||.-||-||
T Consensus 18 fclccprhrp~sr 30 (114)
T PF02444_consen 18 FCLCCPRHRPVSR 30 (114)
T ss_pred eeeecCCCCcHHH
Confidence 3888997777443
No 24
>PF08506 Cse1: Cse1; InterPro: IPR013713 The exchange of macromolecules between the nucleus and cytoplasm takes place through nuclear pore complexes within the nuclear membrane. Active transport of large molecules through these pore complexes require carrier proteins, called karyopherins (importins and exportins), which shuttle between the two compartments. This domain is found in exportin Cse1 (also known as importin-alpha re-exporter). Exportin Cse1 mediates nuclear transport of importin-alpha back into the cytosol, where importin-alpha functions as a transporter of proteins carrying nuclear localisation signals (NLS) from the cytoplasm into the nucleus [, , ]. This domain contains HEAT repeats. More information about these proteins can be found at Protein of the Month: Importins [].; GO: 0006886 intracellular protein transport; PDB: 1Z3H_B 1WA5_C.
Probab=32.15 E-value=3.1e+02 Score=32.33 Aligned_cols=122 Identities=17% Similarity=0.287 Sum_probs=56.6
Q ss_pred CCCCChHHHHHHHHHHHHHh-hhhcc-hHHHHhhhhhhhc--cCCCCCCCCcchHHHHHHHHHHHHhh--cC--C-Ccch
Q 001890 276 DTSKSPSYWSRVCLDNMARL-AKETT-TVRRVLEPLFQIF--DAENHWSTETGVACSVLLYLQSLLEE--SG--E-NSHL 346 (1000)
Q Consensus 276 e~~e~p~vlA~~CLr~l~~~-A~e~t-tvr~VLepvf~~l--D~~~~Wsp~~gfAi~vf~~iq~l~e~--~~--Q-~~~l 346 (1000)
.+..+|+.-|..+||.+.+. .+..+ .+-..+..++.-. +..+.|-. +.-|+..+..+..-... .| + +..+
T Consensus 222 sd~~TrR~AA~dfl~~L~~~~~~~v~~i~~~~i~~~l~~y~~~~~~~w~~-KD~Al~Li~ala~k~~t~~~Gvt~~~~~v 300 (370)
T PF08506_consen 222 SDSDTRRRAACDFLRSLCKKFEKQVTSILMQYIQQLLQQYASNPSNNWRS-KDGALYLIGALASKGSTTKSGVTQTNELV 300 (370)
T ss_dssp S---SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TTT-HHH-HHHHHHHHHHHHBSS--BTTB-S-B-TTS
T ss_pred cccCCcHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCcccHHH-HHHHHHHHHHHHhhhccccCCcccccccc
Confidence 34568999999999999854 22122 2344455544422 33456765 55577766665432110 00 0 1111
Q ss_pred -HHHHHHHhhh---ccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHH
Q 001890 347 -LLCNLVKHLD---HKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLR 401 (1000)
Q Consensus 347 -vLs~Lv~HLd---~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLR 401 (1000)
|..-...|.- ..+....|-+++..+..+..-..+ .+.--.++++..|++||+
T Consensus 301 ~v~~Ff~~~v~peL~~~~~~~piLka~aik~~~~Fr~~---l~~~~l~~~~~~l~~~L~ 356 (370)
T PF08506_consen 301 DVVDFFSQHVLPELQPDVNSHPILKADAIKFLYTFRNQ---LPKEQLLQIFPLLVNHLQ 356 (370)
T ss_dssp -HHHHHHHHTCHHHH-SS-S-HHHHHHHHHHHHHHGGG---S-HHHHHHHHHHHHHHTT
T ss_pred cHHHHHHHHhHHHhcccCCCCcchHHHHHHHHHHHHhh---CCHHHHHHHHHHHHHHhC
Confidence 2333333331 123344677787777666443332 333334555555555553
No 25
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=31.45 E-value=2.2e+02 Score=29.48 Aligned_cols=109 Identities=20% Similarity=0.176 Sum_probs=67.8
Q ss_pred HHHHHHhhhcCCceeeHHHHHHHHHHhc-ccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHH-HhcCCchhhHHh
Q 001890 78 RCYKDLRNENFGSVKVVVCIYKKFLSSC-KEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNF-IDSQTDGTYMFN 155 (1000)
Q Consensus 78 R~~kDl~r~r~G~V~V~l~i~~~Ll~~C-~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F-~~~q~D~~y~~~ 155 (1000)
|+.+=++.+...+--.++.+++.+++.| .+-+---....++.+-.+|++...+.....++.++.+. .....-++..|+
T Consensus 29 ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~~~~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~~~~~~p~l~Re 108 (165)
T PF08167_consen 29 RINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSHGSQWLRALLSILEKPDPPSVLEAAIITLTRLFDLIRGKPTLTRE 108 (165)
T ss_pred HHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcCCCchHHH
Confidence 3344444444444457899999999999 44455566778888888888655556666777887773 333433565554
Q ss_pred h-----hhHHHHHHHHhHhcCchHHHHHHHHHHHHHHHHhHhh
Q 001890 156 L-----EGLIPKLCQLAQEMGNDERALRLRSAGLQVLAYMVKF 193 (1000)
Q Consensus 156 y-----e~fV~~f~~ma~~~~~de~~~rlR~AGLqAL~~vV~~ 193 (1000)
. -.||+.+.++.+. .......|.+|+..+..
T Consensus 109 i~tp~l~~~i~~ll~l~~~-------~~~~~~~l~~L~~ll~~ 144 (165)
T PF08167_consen 109 IATPNLPKFIQSLLQLLQD-------SSCPETALDALATLLPH 144 (165)
T ss_pred HhhccHHHHHHHHHHHHhc-------cccHHHHHHHHHHHHHH
Confidence 3 4444444444432 34455678888887764
No 26
>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription. The three structural domains of TFIIS are conserved from yeast to human. The 80 or so N-terminal residues form a protein interaction domain containing a conserved motif, which has been called the LW motif because of the invariant leucine and tryptophan residues it contains. Although the N-terminal domain is not needed for transcriptional activity, a similar sequence has been identified in other transcription factors and proteins that are predominantly nuclear localized [, ]: MED26 (also known as CRSP70 and ARC70), a subunit of the Mediator complex, which is required for the activity of the enhancer-binding protein Sp1. Elongin A, a subunit of a transcription elongation factor previously known as SIII. It increases the rate of transcription by suppressing transient pausing of the elongation complex. PPP1R10, a nuclear regulatory subunit of protein phosphatase 1 that was previously known as p99, FB19 or PNUTS. PIBP, a small hypothetical protein that could be a phosphoinositide binding protein. IWS1, which is thought to function in both transcription initiation and elongation. The TFIIS N-terminal domain is a compact four-helix bundle. The hydrophobic core residues of helices 2, 3, and 4 are well conserved among TFIIS domains, although helix 1 is less conserved []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 1EO0_A 3OAK_A 3NFQ_B 3O8Z_A 1WJT_A 2XPL_A 2XPO_A 2XPP_A 2XPN_A.
Probab=30.54 E-value=65 Score=26.97 Aligned_cols=45 Identities=24% Similarity=0.333 Sum_probs=38.7
Q ss_pred HHHHhhhhccchhhHHHHHHHHHHHHhcCC-CHHHHHHHHHHHccC
Q 001890 758 AMKSLAAIELDDRHLKETVISHFMTKFEKL-SEDELSDMKKQLLLG 802 (1000)
Q Consensus 758 Al~~Ls~i~~~~~~~~e~~~~~~~~~~~~~-~e~e~~~i~~qll~~ 802 (1000)
+|+.|..+.++.+.++++-|..+++.|.+- .+.+...+.++|++.
T Consensus 2 iL~~L~~l~it~~~L~~T~IGk~V~~l~k~~~~~~i~~~A~~Li~~ 47 (53)
T PF08711_consen 2 ILKVLEKLPITVELLKSTGIGKAVNKLRKHSENPEIRKLAKELIKK 47 (53)
T ss_dssp HHHHHHCSS-SHHHHHHHSHHHHHHHHHHCTS-HHHHHHHHHHHHH
T ss_pred HHHHhhcCCCCHHHHHhCChhHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 688999999999999999999999999998 778899988888753
No 27
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=29.98 E-value=87 Score=31.41 Aligned_cols=110 Identities=10% Similarity=0.214 Sum_probs=66.3
Q ss_pred hhhhhhccccCCCCCCCCChhhhhHHHHHHhhCCCChhhhHHHHHHHHHHHHhhhcCCceeeHHHHHHHHHHhcccccC-
Q 001890 32 RYKKMLADIFPRNQDAEPNDRKIGKLCEYASKNPLRIPKITTLLEQRCYKDLRNENFGSVKVVVCIYKKFLSSCKEQMP- 110 (1000)
Q Consensus 32 RykkLV~~iyP~~p~~~Pn~~~lsKL~~Ya~s~P~KL~KIg~yLekR~~kDl~r~r~G~V~V~l~i~~~Ll~~C~~~l~- 110 (1000)
-+..+|++.--... ..|+-.-+-.+|+.+.+++.--.-+.+-|.||+.. .+-.-+.-+|.+++.|+..|...+.
T Consensus 5 ~~~~li~kATs~~~-~~~Dw~~~l~icD~i~~~~~~~kea~~~l~krl~~----~~~~vq~~aL~lld~lvkNcg~~f~~ 79 (140)
T PF00790_consen 5 SITELIEKATSESL-PSPDWSLILEICDLINSSPDGAKEAARALRKRLKH----GNPNVQLLALTLLDALVKNCGPRFHR 79 (140)
T ss_dssp HHHHHHHHHT-TTS-SS--HHHHHHHHHHHHTSTTHHHHHHHHHHHHHTT----SSHHHHHHHHHHHHHHHHHSHHHHHH
T ss_pred hHHHHHHHHhCcCC-CCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhC----CCHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 45556665543322 24466677789999999966555555666666544 2222223567778999999976633
Q ss_pred -cchhhHHHHHHHHHhccCCcc---eeehhHhHHHHHHhc
Q 001890 111 -LFASSLLGIIRTLLEQTRQEE---MQILGCGTLVNFIDS 146 (1000)
Q Consensus 111 -LFa~s~L~Ii~~LL~qs~~~~---l~i~a~~tf~~F~~~ 146 (1000)
+-...|++-+..|+..+.... .+.-....+..|...
T Consensus 80 ev~~~~fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W~~~ 119 (140)
T PF00790_consen 80 EVASKEFLDELVKLIKSKKTDPETPVKEKILELLQEWAEA 119 (140)
T ss_dssp HHTSHHHHHHHHHHHHHTTTHHHSHHHHHHHHHHHHHHHH
T ss_pred HHhHHHHHHHHHHHHccCCCCchhHHHHHHHHHHHHHHHH
Confidence 335667877777777344443 455666677777653
No 28
>KOG1062 consensus Vesicle coat complex AP-1, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.35 E-value=1.5e+03 Score=29.78 Aligned_cols=98 Identities=13% Similarity=0.273 Sum_probs=62.4
Q ss_pred ChhhhHHHHHHHHHHHHhhhcCCceeeHHHHHHHHHHhcccccCcc---hhhHHHHHHHHHhccCCcceeehhHh-HH--
Q 001890 67 RIPKITTLLEQRCYKDLRNENFGSVKVVVCIYKKFLSSCKEQMPLF---ASSLLGIIRTLLEQTRQEEMQILGCG-TL-- 140 (1000)
Q Consensus 67 KL~KIg~yLekR~~kDl~r~r~G~V~V~l~i~~~Ll~~C~~~l~LF---a~s~L~Ii~~LL~qs~~~~l~i~a~~-tf-- 140 (1000)
|.|-.-+-+--.+.+=|.-++.|=.--+++++-.++...++.+..| +++|..|++.+-.-.-.++.-+.|.. -|
T Consensus 172 K~P~l~e~f~~~~~~lL~ek~hGVL~~~l~l~~e~c~~~~~~l~~fr~l~~~lV~iLk~l~~~~yspeydv~gi~dPFLQ 251 (866)
T KOG1062|consen 172 KVPDLVEHFVIAFRKLLCEKHHGVLIAGLHLITELCKISPDALSYFRDLVPSLVKILKQLTNSGYSPEYDVHGISDPFLQ 251 (866)
T ss_pred cCchHHHHhhHHHHHHHhhcCCceeeeHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHhcCCCCCccCccCCCchHHH
Confidence 4444444445556666666778888888999888888777777777 88999999998883336666555543 23
Q ss_pred ---HHHHh--cCCchhhHHhhhhHHHHHH
Q 001890 141 ---VNFID--SQTDGTYMFNLEGLIPKLC 164 (1000)
Q Consensus 141 ---~~F~~--~q~D~~y~~~ye~fV~~f~ 164 (1000)
.++.. .|.|.++......++...+
T Consensus 252 i~iLrlLriLGq~d~daSd~M~DiLaqva 280 (866)
T KOG1062|consen 252 IRILRLLRILGQNDADASDLMNDILAQVA 280 (866)
T ss_pred HHHHHHHHHhcCCCccHHHHHHHHHHHHH
Confidence 22322 3677766544444443333
No 29
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=27.77 E-value=1.2e+03 Score=28.51 Aligned_cols=191 Identities=16% Similarity=0.199 Sum_probs=100.1
Q ss_pred HhhhhhhhccCCCCCCCCcchHHHHHHHHHHHHhhcCCCcchH-HHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhccc
Q 001890 305 VLEPLFQIFDAENHWSTETGVACSVLLYLQSLLEESGENSHLL-LCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKL 383 (1000)
Q Consensus 305 VLepvf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~~~lv-Ls~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~ 383 (1000)
++..|+..+...+ .+.|-...+.+..+...+. +--.| -..++.+|..-....+..+|..+.+++..+++.+
T Consensus 120 l~~~i~~~L~~~d-----~~Va~~A~~~L~~l~~~~~-~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S-- 191 (503)
T PF10508_consen 120 LLPLIIQCLRDPD-----LSVAKAAIKALKKLASHPE-GLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHS-- 191 (503)
T ss_pred HHHHHHHHHcCCc-----HHHHHHHHHHHHHHhCCch-hHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcC--
Confidence 4444555555444 3555555555555443222 11112 1122455533111114677888888887776532
Q ss_pred ccchhHHHHHHHHHHHHHHhhcccccCCCCCCccccchHHHHHHHHHHHHHhhcccCCCc-----hHHHHHHHHHhhcCC
Q 001890 384 LASVAIIGTINDLIKHLRKCLQNSVELSSSGDGMAKTNADLQYSLENCISWLSKKVGDVG-----PILDVMAGVLENMSN 458 (1000)
Q Consensus 384 ~~svsvidvlsdLlrHLRkslq~s~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA~hV~da~-----qI~DMmavmLenis~ 458 (1000)
+-..-.-+-++++..+-+.+... -.-+|-...+++.+||.+=.-++ -|.+-+..++.+...
T Consensus 192 -~~~~~~~~~sgll~~ll~eL~~d-------------DiLvqlnalell~~La~~~~g~~yL~~~gi~~~L~~~l~~~~~ 257 (503)
T PF10508_consen 192 -PEAAEAVVNSGLLDLLLKELDSD-------------DILVQLNALELLSELAETPHGLQYLEQQGIFDKLSNLLQDSEE 257 (503)
T ss_pred -HHHHHHHHhccHHHHHHHHhcCc-------------cHHHHHHHHHHHHHHHcChhHHHHHHhCCHHHHHHHHHhcccc
Confidence 22211222234777766666431 25577788999999988432222 245555555666565
Q ss_pred Cc-cchhhhHHHHHHHHHHHhhcCCcccccccCcHHHHHHHHHHhcCCCchhhHHHHHHHHHh
Q 001890 459 NT-VVARTTISAVHRTAQIISTIPNISYRNKAFPEALFHQLLLAMAHPDHETRVGAHTVLSVV 520 (1000)
Q Consensus 459 ~~-~~ar~tvsa~y~ta~i~a~~pn~sy~~kaFP~all~qLL~am~~pD~e~Rl~a~~If~~l 520 (1000)
.| ..+-...|.+--.+++...-|. .--..|| +|++-|...+--.|+..|..|..-|..+
T Consensus 258 dp~~~~~~l~g~~~f~g~la~~~~~--~v~~~~p-~~~~~l~~~~~s~d~~~~~~A~dtlg~i 317 (503)
T PF10508_consen 258 DPRLSSLLLPGRMKFFGNLARVSPQ--EVLELYP-AFLERLFSMLESQDPTIREVAFDTLGQI 317 (503)
T ss_pred CCcccchhhhhHHHHHHHHHhcChH--HHHHHHH-HHHHHHHHHhCCCChhHHHHHHHHHHHH
Confidence 56 2221223332223344422111 0013455 4666666677789999999999988876
No 30
>PF10165 Ric8: Guanine nucleotide exchange factor synembryn; InterPro: IPR019318 Ric8 is involved in the EGL-30 neurotransmitter signalling pathway []. It is a guanine nucleotide exchange factor [] that regulates neurotransmitter secretion.
Probab=26.70 E-value=1.2e+03 Score=28.15 Aligned_cols=32 Identities=25% Similarity=0.320 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhcCCCchhhHHHHHHHHHhhcC
Q 001890 492 EALFHQLLLAMAHPDHETRVGAHTVLSVVLMP 523 (1000)
Q Consensus 492 ~all~qLL~am~~pD~e~Rl~a~~If~~lL~p 523 (1000)
++|..-|++-|.+|++.+|-.+-+.|-.|=+.
T Consensus 307 ~tL~~rLlrLmt~~~~~~k~~vaellf~Lc~~ 338 (446)
T PF10165_consen 307 DTLRSRLLRLMTSPDPQLKDAVAELLFVLCKE 338 (446)
T ss_pred cchHHHHHHHhCCCCchHHHHHHHHHHHHHhh
Confidence 56777899999999999999999999998554
No 31
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=26.01 E-value=72 Score=35.58 Aligned_cols=69 Identities=17% Similarity=0.291 Sum_probs=48.2
Q ss_pred HHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHHHHhHhcCchHHHHHHHHHHHHHHHHhH
Q 001890 116 LLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLCQLAQEMGNDERALRLRSAGLQVLAYMV 191 (1000)
Q Consensus 116 ~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~~ma~~~~~de~~~rlR~AGLqAL~~vV 191 (1000)
.+.+|..+|. +.++..++-|..++..++...+.+.- .+.+|++.|+......-+ .....+||++|..|-
T Consensus 55 gi~lI~~lL~-~p~~~vr~~AL~aL~Nls~~~en~~~---Ik~~i~~Vc~~~~s~~ln---s~~Q~agLrlL~nLt 123 (254)
T PF04826_consen 55 GISLIGSLLN-DPNPSVREKALNALNNLSVNDENQEQ---IKMYIPQVCEETVSSPLN---SEVQLAGLRLLTNLT 123 (254)
T ss_pred CHHHHHHHcC-CCChHHHHHHHHHHHhcCCChhhHHH---HHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHccC
Confidence 4678999999 78999998888888777654444444 444577777766543322 234479999999984
No 32
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=25.92 E-value=1.3e+02 Score=29.07 Aligned_cols=59 Identities=10% Similarity=0.124 Sum_probs=49.2
Q ss_pred eeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhH
Q 001890 92 KVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYM 153 (1000)
Q Consensus 92 ~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~ 153 (1000)
+-++..+..||.-|+..+.-|++.+...+++.|+ .++++..++.+.-.|+..=++.+.-
T Consensus 33 ~~~l~si~~lI~~~~~~i~~~~pQI~a~L~sal~---~~~l~~~al~~W~~fi~~L~~~~l~ 91 (107)
T PF08064_consen 33 KRALRSIEELIKLGGSHISSARPQIMACLQSALE---IPELREEALSCWNCFIKTLDEEDLG 91 (107)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhC---ChhhHHHHHHHHHHHHHHCCHHHHH
Confidence 3578889999999999999999999999999988 4499999999999998765544443
No 33
>PF04821 TIMELESS: Timeless protein; InterPro: IPR006906 The timeless gene in Drosophila melanogaster (Fruit fly) and its homologues in a number of other insects and mammals (including human) are involved in circadian rhythm control []. This family includes related proteins from a number of fungal species and from Arabidopsis thaliana.
Probab=25.79 E-value=6.8e+02 Score=28.01 Aligned_cols=181 Identities=17% Similarity=0.222 Sum_probs=87.9
Q ss_pred HHHHHHHHHHHhhhh---cc-hHHHHh----------hhhhhhccCCCCCCCCcchHHHHHHHHHHHHhhcCCCcchHHH
Q 001890 284 WSRVCLDNMARLAKE---TT-TVRRVL----------EPLFQIFDAENHWSTETGVACSVLLYLQSLLEESGENSHLLLC 349 (1000)
Q Consensus 284 lA~~CLr~l~~~A~e---~t-tvr~VL----------epvf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~~~lvLs 349 (1000)
-+..||+.|.+.-+. .. .+++.+ -|++.+.+. +...+..|++.+..+. +|.
T Consensus 10 dcl~~LkdL~r~lr~dd~~~~~v~r~lg~~~iv~~DLiPiL~~~~~------~~~l~~~~l~LLV~LT-~P~-------- 74 (266)
T PF04821_consen 10 DCLECLKDLKRFLRRDDEDQRDVRRQLGEWNIVQKDLIPILISYKD------DDKLFLACLRLLVNLT-WPI-------- 74 (266)
T ss_pred hHHHHHHHHHHHHHHhCcchHHHHHHHHHhchhhhhHHHHHHhccC------chHHHHHHHHHHHHhC-CCH--------
Confidence 367889888764331 22 344433 444444332 4567888888887653 332
Q ss_pred HHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhhcccccCCCCCCccccchHHHHHHHH
Q 001890 350 NLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTINDLIKHLRKCLQNSVELSSSGDGMAKTNADLQYSLE 429 (1000)
Q Consensus 350 ~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRkslq~s~~~s~~g~~~~~~~~~Lq~aL~ 429 (1000)
+-+.. ...++...+..+.++.-.+..--..-.. =+++..+++||...+..+...-+. ++
T Consensus 75 ---~~~~~-~~~~~~~~~~~~~~l~~~l~~yK~afl~---~~~l~~~~~~l~~~l~~~~~~rt~-------~d------- 133 (266)
T PF04821_consen 75 ---ELLVE-SQPKDKNQRRNIPELLKYLQSYKEAFLD---PRVLKALIRLLLPPLEKDWEDRTE-------RD------- 133 (266)
T ss_pred ---HHhcc-CCCCChHHHHHHHHHHHHHHHHHHHHcc---cHHHHHHHHHHhHHhhcccccCCH-------HH-------
Confidence 22211 1122444455555544433321111111 257777888888888664322111 11
Q ss_pred HHHHHhhcccCCCchHHHHHHHHHhhcCCCccchhhhHHHHHHH---HHHHhhcCCccccccc-CcHHHHHHHHHHhcCC
Q 001890 430 NCISWLSKKVGDVGPILDVMAGVLENMSNNTVVARTTISAVHRT---AQIISTIPNISYRNKA-FPEALFHQLLLAMAHP 505 (1000)
Q Consensus 430 ~CIg~LA~hV~da~qI~DMmavmLenis~~~~~ar~tvsa~y~t---a~i~a~~pn~sy~~ka-FP~all~qLL~am~~p 505 (1000)
..|..++...+.||=.+|-.........+.+ -+++ .+ |=+.+++-||..+-++
T Consensus 134 -------------~~ii~lvL~LiRNlL~Ip~~~~~~~~~~~~~~~~d~li----------~~l~~~~v~~lLL~l~s~~ 190 (266)
T PF04821_consen 134 -------------NLIIELVLTLIRNLLAIPDPPSASKRSDEDSSLHDQLI----------WALFESGVLDLLLTLASSP 190 (266)
T ss_pred -------------HHHHHHHHHHHHHHhcCCCCcccccccchhHHHHHHHH----------HHHHHcCHHHHHHHHHhCc
Confidence 1234444555666665543322222111111 1222 11 2233444455555555
Q ss_pred -CchhhHHHHHHHHHhhcC
Q 001890 506 -DHETRVGAHTVLSVVLMP 523 (1000)
Q Consensus 506 -D~e~Rl~a~~If~~lL~p 523 (1000)
..+=.+...+||+-++..
T Consensus 191 ~~~~f~~~lLEIi~ll~k~ 209 (266)
T PF04821_consen 191 QESDFNLLLLEIIYLLFKG 209 (266)
T ss_pred cccchhhHHHHHHHHHHcC
Confidence 344556888999999876
No 34
>PTZ00429 beta-adaptin; Provisional
Probab=25.75 E-value=1.6e+03 Score=29.26 Aligned_cols=342 Identities=10% Similarity=0.107 Sum_probs=175.3
Q ss_pred hhhhhHHHHHHhhCCCChhhhHHHHHHHHHHHHhhhcCCceeeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCc
Q 001890 51 DRKIGKLCEYASKNPLRIPKITTLLEQRCYKDLRNENFGSVKVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQE 130 (1000)
Q Consensus 51 ~~~lsKL~~Ya~s~P~KL~KIg~yLekR~~kDl~r~r~G~V~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~ 130 (1000)
.+.+.-|.+-...+|.++...-.++.+ +..-+.. -+----+.|++-|..-.+.+ .-.+..++.-+...|. +.++
T Consensus 197 ~nAl~aL~eI~~~~~~~l~l~~~~~~~-Ll~~L~e---~~EW~Qi~IL~lL~~y~P~~-~~e~~~il~~l~~~Lq-~~N~ 270 (746)
T PTZ00429 197 SNAAAIVCEVNDYGSEKIESSNEWVNR-LVYHLPE---CNEWGQLYILELLAAQRPSD-KESAETLLTRVLPRMS-HQNP 270 (746)
T ss_pred HHHHHHHHHHHHhCchhhHHHHHHHHH-HHHHhhc---CChHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHHHhc-CCCH
Confidence 344555556666677766544444422 2222211 01111224666665433332 1123344444555555 5666
Q ss_pred ceeehhHhHHHHHHhcCCchhhHHhh-hhHHHHHHHHhHhcCchHHHHHHHHHHHHHHHHhHhhhccccccccccchHHH
Q 001890 131 EMQILGCGTLVNFIDSQTDGTYMFNL-EGLIPKLCQLAQEMGNDERALRLRSAGLQVLAYMVKFMGEQSHMSMDFDKIIS 209 (1000)
Q Consensus 131 ~l~i~a~~tf~~F~~~q~D~~y~~~y-e~fV~~f~~ma~~~~~de~~~rlR~AGLqAL~~vV~~~~e~shis~q~D~IVp 209 (1000)
.....++.+|..+.... +.+.+.++ ..+...+..+. .++ ..+|.++|+.|.-++..- |
T Consensus 271 AVVl~Aik~il~l~~~~-~~~~~~~~~~rl~~pLv~L~--ss~----~eiqyvaLr~I~~i~~~~--------------P 329 (746)
T PTZ00429 271 AVVMGAIKVVANLASRC-SQELIERCTVRVNTALLTLS--RRD----AETQYIVCKNIHALLVIF--------------P 329 (746)
T ss_pred HHHHHHHHHHHHhcCcC-CHHHHHHHHHHHHHHHHHhh--CCC----ccHHHHHHHHHHHHHHHC--------------H
Confidence 66666777787776433 23333332 22333344442 122 357888888887777531 4
Q ss_pred HHHhhhccccCCCCCCccCccCCcchhhhhhhhcccccCCCCCCcccccccccccCCCCCCCCCCCCCCCChHHHHHHHH
Q 001890 210 VTLENFVDLQMKPANGKEGRQHSQSEDQWVQGLQNEEDNDSSFPDMSKKVSSLKDSMINPGPDPTMDTSKSPSYWSRVCL 289 (1000)
Q Consensus 210 vILeNl~~~~~~~~d~~~~~~~~~~~~~~v~e~~~~E~~~~~~~~~~~r~ps~~~~~~~~~~~~~~e~~e~p~vlA~~CL 289 (1000)
.++.+.. +.|. . .-.||-+....=|
T Consensus 330 ~lf~~~~-----------------------~~Ff------------~--------------------~~~Dp~yIK~~KL 354 (746)
T PTZ00429 330 NLLRTNL-----------------------DSFY------------V--------------------RYSDPPFVKLEKL 354 (746)
T ss_pred HHHHHHH-----------------------Hhhh------------c--------------------ccCCcHHHHHHHH
Confidence 4443321 0110 0 0124555555556
Q ss_pred HHHHHhhhhcchHHHHhhhhhhhccCCCCCCCCcchHHHHHHHHHHHHhhcCCCcchHHHHHHHhhhccCCCCCchhhhh
Q 001890 290 DNMARLAKETTTVRRVLEPLFQIFDAENHWSTETGVACSVLLYLQSLLEESGENSHLLLCNLVKHLDHKSVAKQPLAQTN 369 (1000)
Q Consensus 290 r~l~~~A~e~ttvr~VLepvf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~v~~~p~~q~~ 369 (1000)
.=|..++. .+|+..|++-+..|...-+ ..|+....+.|-.+..+-....--++..|++.|..+ ......
T Consensus 355 eIL~~Lan-e~Nv~~IL~EL~eYa~d~D-----~ef~r~aIrAIg~lA~k~~~~a~~cV~~Ll~ll~~~-----~~~v~e 423 (746)
T PTZ00429 355 RLLLKLVT-PSVAPEILKELAEYASGVD-----MVFVVEVVRAIASLAIKVDSVAPDCANLLLQIVDRR-----PELLPQ 423 (746)
T ss_pred HHHHHHcC-cccHHHHHHHHHHHhhcCC-----HHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcCC-----chhHHH
Confidence 66666777 8889999999998886332 468888888776665443333445555666555442 112223
Q ss_pred HHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhhcccccCCCCCCccccchHHHHHHHHHHHHHhhcccCCCchHHHHH
Q 001890 370 IVDIATKLAQNAKLLASVAIIGTINDLIKHLRKCLQNSVELSSSGDGMAKTNADLQYSLENCISWLSKKVGDVGPILDVM 449 (1000)
Q Consensus 370 IV~Vlt~La~~~~~~~svsvidvlsdLlrHLRkslq~s~~~s~~g~~~~~~~~~Lq~aL~~CIg~LA~hV~da~qI~DMm 449 (1000)
.|.|+..|.+. -|... ++..|++++ +.. . -.+.+-..+++=.||+++..++++ .+.+
T Consensus 424 ~i~vik~Ilrk---yP~~~---il~~L~~~~----~~~--~--------i~e~~AKaaiiWILGEy~~~I~~a---~~~L 480 (746)
T PTZ00429 424 VVTAAKDIVRK---YPELL---MLDTLVTDY----GAD--E--------VVEEEAKVSLLWMLGEYCDFIENG---KDII 480 (746)
T ss_pred HHHHHHHHHHH---CccHH---HHHHHHHhh----ccc--c--------cccHHHHHHHHHHHHhhHhhHhhH---HHHH
Confidence 33333334332 12211 233333321 100 0 014556678888999999999875 4566
Q ss_pred HHHHhhcCCCccchhhhHHHHHHHHHHHhhcCCcccccccCc---HHHHHHHHHHh--cCCCchhhHHHHHHHHHh
Q 001890 450 AGVLENMSNNTVVARTTISAVHRTAQIISTIPNISYRNKAFP---EALFHQLLLAM--AHPDHETRVGAHTVLSVV 520 (1000)
Q Consensus 450 avmLenis~~~~~ar~tvsa~y~ta~i~a~~pn~sy~~kaFP---~all~qLL~am--~~pD~e~Rl~a~~If~~l 520 (1000)
..++.++..-+...|++ .+.-++.+... .| ..++..+|... -..|+++|=-|.-.+..|
T Consensus 481 ~~~i~~f~~E~~~Vqlq--lLta~vKlfl~----------~p~~~~~~l~~vL~~~t~~~~d~DVRDRA~~Y~rLL 544 (746)
T PTZ00429 481 QRFIDTIMEHEQRVQLA--ILSAAVKMFLR----------DPQGMEPQLNRVLETVTTHSDDPDVRDRAFAYWRLL 544 (746)
T ss_pred HHHHhhhccCCHHHHHH--HHHHHHHHHhc----------CcHHHHHHHHHHHHHHHhcCCChhHHHHHHHHHHHH
Confidence 66666666555444533 12222333311 23 24566666433 347788988877665544
No 35
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=24.27 E-value=1.3e+02 Score=35.52 Aligned_cols=119 Identities=16% Similarity=0.232 Sum_probs=76.8
Q ss_pred hcCCceeeHHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhc---------CCch--hh-H
Q 001890 86 ENFGSVKVVVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDS---------QTDG--TY-M 153 (1000)
Q Consensus 86 ~r~G~V~V~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~---------q~D~--~y-~ 153 (1000)
.+.+.+.+-+-|.++|+..=+.. +..++.-+-.+|+ ++++...++..|.-+..- ..+. =| +
T Consensus 246 ~~~~~~~~~~Wi~KaLv~R~~~~----~~~~~~~L~~lL~---~~~~g~~aA~~f~il~~d~~~~l~~~~~a~vklLykQ 318 (415)
T PF12460_consen 246 LRPQALEILIWITKALVMRGHPL----ATELLDKLLELLS---SPELGQQAAKAFGILLSDSDDVLNKENHANVKLLYKQ 318 (415)
T ss_pred hhHHHHHHHHHHHHHHHHcCCch----HHHHHHHHHHHhC---ChhhHHHHHHHHhhHhcCcHHhcCccccchhhhHHhH
Confidence 34556667777889998854422 2333333333555 366666677777554432 1111 11 2
Q ss_pred HhhhhHHHHHHHHhHhcCchHHHHHHHHHHHHHHHHhHhhhccccccccccchHHHHHHhhhcc
Q 001890 154 FNLEGLIPKLCQLAQEMGNDERALRLRSAGLQVLAYMVKFMGEQSHMSMDFDKIISVTLENFVD 217 (1000)
Q Consensus 154 ~~ye~fV~~f~~ma~~~~~de~~~rlR~AGLqAL~~vV~~~~e~shis~q~D~IVpvILeNl~~ 217 (1000)
|-|..++|++.+-.++.+++ .|..-|.||.+++..+- .+-.-.++++++|.+|+.+..
T Consensus 319 R~F~~~~p~L~~~~~~~~~~-----~k~~yL~ALs~ll~~vP-~~vl~~~l~~LlPLLlqsL~~ 376 (415)
T PF12460_consen 319 RFFTQVLPKLLEGFKEADDE-----IKSNYLTALSHLLKNVP-KSVLLPELPTLLPLLLQSLSL 376 (415)
T ss_pred HHHHHHHHHHHHHHhhcChh-----hHHHHHHHHHHHHhhCC-HHHHHHHHHHHHHHHHHHhCC
Confidence 66788889998777765543 67778999999998775 444566799999999999963
No 36
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=22.96 E-value=77 Score=30.40 Aligned_cols=60 Identities=12% Similarity=0.225 Sum_probs=46.4
Q ss_pred CCCChhhhhHHHHHHhhCCCChhhhHHHHHHHHHHHHhhhcCCceeeHHHHHHHHHHhcccccC
Q 001890 47 AEPNDRKIGKLCEYASKNPLRIPKITTLLEQRCYKDLRNENFGSVKVVVCIYKKFLSSCKEQMP 110 (1000)
Q Consensus 47 ~~Pn~~~lsKL~~Ya~s~P~KL~KIg~yLekR~~kDl~r~r~G~V~V~l~i~~~Ll~~C~~~l~ 110 (1000)
-+|+..-|-.+|..+..++.-...+.+.|.+|+..--| --+.=+|..++.|+..|.+...
T Consensus 14 ~~p~~~~i~~i~d~~~~~~~~~~~~~~~l~kRl~~~~~----~~~lkaL~lLe~lvkN~g~~f~ 73 (115)
T cd00197 14 MGPDWPLIMEICDLINETNVGPKEAVDAIKKRINNKNP----HVVLKALTLLEYCVKNCGERFH 73 (115)
T ss_pred CCCCHHHHHHHHHHHHCCCccHHHHHHHHHHHhcCCcH----HHHHHHHHHHHHHHHHccHHHH
Confidence 38899999999999999999999999999999964311 1233466677888888876533
No 37
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=22.93 E-value=1.2e+02 Score=27.82 Aligned_cols=93 Identities=15% Similarity=0.192 Sum_probs=55.5
Q ss_pred eHHHHHHHHHHhcccccCcchh-hHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHHHHhHhcC
Q 001890 93 VVVCIYKKFLSSCKEQMPLFAS-SLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLCQLAQEMG 171 (1000)
Q Consensus 93 V~l~i~~~Ll~~C~~~l~LFa~-s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~~ma~~~~ 171 (1000)
.++.++..+....++....|.. .++..+-.+|. ..+++++..++.++..++...........-.++++.+.+.....
T Consensus 26 ~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~-~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~- 103 (120)
T cd00020 26 EAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLK-SEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSS- 103 (120)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHh-CCCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHHHhcC-
Confidence 3444455554432333334444 67777777888 67888888888888888764432211122245788888877543
Q ss_pred chHHHHHHHHHHHHHHHHhH
Q 001890 172 NDERALRLRSAGLQVLAYMV 191 (1000)
Q Consensus 172 ~de~~~rlR~AGLqAL~~vV 191 (1000)
+ .++|..++.+|..++
T Consensus 104 -~---~~~~~~a~~~l~~l~ 119 (120)
T cd00020 104 -N---EDIQKNATGALSNLA 119 (120)
T ss_pred -C---HHHHHHHHHHHHHhh
Confidence 1 356667777766543
No 38
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=22.44 E-value=8.1e+02 Score=24.69 Aligned_cols=112 Identities=17% Similarity=0.236 Sum_probs=64.1
Q ss_pred hhhhccCCCCCCCCcchHHHHHHHHHHHHhhcCCCcchHHHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchh
Q 001890 309 LFQIFDAENHWSTETGVACSVLLYLQSLLEESGENSHLLLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVA 388 (1000)
Q Consensus 309 vf~~lD~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svs 388 (1000)
+++.--+.+-|.| +||... .|..+.-.+.+.-+-|+..|++.|.++ +|.++.-...++-.++..+. ..
T Consensus 5 ll~~ATsdd~~p~-pgy~~~---Eia~~t~~s~~~~~ei~d~L~kRL~~~----~~hVK~K~Lrilk~l~~~G~----~~ 72 (122)
T cd03572 5 LLSKATSDDDEPT-PGYLYE---EIAKLTRKSVGSCQELLEYLLKRLKRS----SPHVKLKVLKIIKHLCEKGN----SD 72 (122)
T ss_pred HHHHHhcCCCCCC-chHHHH---HHHHHHHcCHHHHHHHHHHHHHHhcCC----CCcchHHHHHHHHHHHhhCC----HH
Confidence 4444556677877 677644 444433334445567777777777774 48888887788877776531 21
Q ss_pred HHHHHHHHHHHHHHhhccccc-CCCCCCccccchHHHHHHHHHHHHHh
Q 001890 389 IIGTINDLIKHLRKCLQNSVE-LSSSGDGMAKTNADLQYSLENCISWL 435 (1000)
Q Consensus 389 vidvlsdLlrHLRkslq~s~~-~s~~g~~~~~~~~~Lq~aL~~CIg~L 435 (1000)
..-.+..-+..+|.+.++.+. +.-.|+ .+++..+.+-.+||.-+
T Consensus 73 f~~~~~~~~~~Ik~~~~f~g~~Dp~~Gd---~~~~~VR~~A~El~~~i 117 (122)
T cd03572 73 FKRELQRNSAQIRECANYKGPPDPLKGD---SLNEKVREEAQELIKAI 117 (122)
T ss_pred HHHHHHHhHHHHHHHHHcCCCCCcccCc---chhHHHHHHHHHHHHHH
Confidence 122233333446666666652 222233 34666666666666543
No 39
>PF02172 KIX: KIX domain; InterPro: IPR003101 The nuclear factor CREB activates transcription of target genes in part through direct interactions with the KIX domain of the coactivator CBP in a phosphorylation-dependent manner []. This provides a model for activator:coactivator interactions. The KIX domain of CBP also binds to transactivation domains of other nuclear factors including Myb and Jun.; GO: 0003712 transcription cofactor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2KWF_A 1KDX_A 2LQH_A 2LQI_A 1SB0_A 2AGH_B.
Probab=22.00 E-value=74 Score=29.80 Aligned_cols=29 Identities=34% Similarity=0.597 Sum_probs=23.3
Q ss_pred hhhhccccCCCCCCCCChhhhhHHHHHHh
Q 001890 34 KKMLADIFPRNQDAEPNDRKIGKLCEYAS 62 (1000)
Q Consensus 34 kkLV~~iyP~~p~~~Pn~~~lsKL~~Ya~ 62 (1000)
.|||..|||.......++..|..|+.||-
T Consensus 20 ~KLv~aI~P~pdp~a~~d~rm~~l~~yar 48 (81)
T PF02172_consen 20 HKLVQAIFPTPDPNAMNDPRMKNLIEYAR 48 (81)
T ss_dssp HHHHHHHS-SSSCCCCCSHHHHHHHHHHH
T ss_pred HHHHHhhCCCCChhhhhhHHHHHHHHHHH
Confidence 47999999996556668889999999984
No 40
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.81 E-value=3.4e+02 Score=34.79 Aligned_cols=182 Identities=19% Similarity=0.338 Sum_probs=0.0
Q ss_pred hhhhhhccccCC------CCCCCCChhhhhHHHHHHhhCCCCh----------------------------------hhh
Q 001890 32 RYKKMLADIFPR------NQDAEPNDRKIGKLCEYASKNPLRI----------------------------------PKI 71 (1000)
Q Consensus 32 RykkLV~~iyP~------~p~~~Pn~~~lsKL~~Ya~s~P~KL----------------------------------~KI 71 (1000)
||---+-.|||| +|+-+-.+...+=.|+-|.+||--- ||.
T Consensus 174 kYPeAlr~~FprL~EkLeDpDp~V~SAAV~VICELArKnPknyL~LAP~ffkllttSsNNWmLIKiiKLF~aLtplEPRL 253 (877)
T KOG1059|consen 174 KYPEALRPCFPRLVEKLEDPDPSVVSAAVSVICELARKNPQNYLQLAPLFYKLLVTSSNNWVLIKLLKLFAALTPLEPRL 253 (877)
T ss_pred hhhHhHhhhHHHHHHhccCCCchHHHHHHHHHHHHHhhCCcccccccHHHHHHHhccCCCeehHHHHHHHhhccccCchh
Q ss_pred HHHHHHHHHHHHhh------------------------hcCCceeeHHHHHHHHHHhcccccCcc---------------
Q 001890 72 TTLLEQRCYKDLRN------------------------ENFGSVKVVVCIYKKFLSSCKEQMPLF--------------- 112 (1000)
Q Consensus 72 g~yLekR~~kDl~r------------------------~r~G~V~V~l~i~~~Ll~~C~~~l~LF--------------- 112 (1000)
|+.|-..+.-=+++ .+...++.+++=++-||+.-..+|-|.
T Consensus 254 gKKLieplt~li~sT~AmSLlYECvNTVVa~s~s~g~~d~~asiqLCvqKLr~fiedsDqNLKYlgLlam~KI~ktHp~~ 333 (877)
T KOG1059|consen 254 GKKLIEPITELMESTVAMSLLYECVNTVVAVSMSSGMSDHSASIQLCVQKLRIFIEDSDQNLKYLGLLAMSKILKTHPKA 333 (877)
T ss_pred hhhhhhHHHHHHHhhHHHHHHHHHHHHheeehhccCCCCcHHHHHHHHHHHhhhhhcCCccHHHHHHHHHHHHhhhCHHH
Q ss_pred hhhHHHHHHHHHhccCCcceeehhHhHHHHHHhc-----------------------------------CCchhhHHhhh
Q 001890 113 ASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDS-----------------------------------QTDGTYMFNLE 157 (1000)
Q Consensus 113 a~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~-----------------------------------q~D~~y~~~ye 157 (1000)
+.....+|-..|+ ..+..+|+.|...+..-++- +..-.|+.+||
T Consensus 334 Vqa~kdlIlrcL~-DkD~SIRlrALdLl~gmVskkNl~eIVk~LM~~~~~ae~t~yrdell~~II~iCS~snY~~ItdFE 412 (877)
T KOG1059|consen 334 VQAHKDLILRCLD-DKDESIRLRALDLLYGMVSKKNLMEIVKTLMKHVEKAEGTNYRDELLTRIISICSQSNYQYITDFE 412 (877)
T ss_pred HHHhHHHHHHHhc-cCCchhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhHHHHHHHHHHHHhhhhhhhhhhhHH
Q ss_pred hHHHHHHHHhHhcCch---HHHHHHHHHHHH---------------------------------HHHHhHhhhccccccc
Q 001890 158 GLIPKLCQLAQEMGND---ERALRLRSAGLQ---------------------------------VLAYMVKFMGEQSHMS 201 (1000)
Q Consensus 158 ~fV~~f~~ma~~~~~d---e~~~rlR~AGLq---------------------------------AL~~vV~~~~e~shis 201 (1000)
-.+..+.+||.-.|-+ .+..+++..|+| -|.+.+|..||.+...
T Consensus 413 WYlsVlveLa~l~~~~~G~~I~eQi~Dv~iRV~~iR~fsV~~m~~Ll~~~~~~~s~q~n~~l~eVL~AaaWi~GEyse~v 492 (877)
T KOG1059|consen 413 WYLSVLVELARLEGTRHGSLIAEQIIDVAIRVPSIRPFSVSQMSALLDDPLLAGSAQINSQLCEVLYAAAWILGEYSEFV 492 (877)
T ss_pred HHHHHHHHHHhccccchhhHHHHHHHHHheechhhhHhHHHHHHHHHhchhhccchhhccchhHHHHHHHHHHHHHHHHh
Q ss_pred cccchHHHHHHhh
Q 001890 202 MDFDKIISVTLEN 214 (1000)
Q Consensus 202 ~q~D~IVpvILeN 214 (1000)
.+-..++-++|.+
T Consensus 493 en~~~~leamlrp 505 (877)
T KOG1059|consen 493 ENPNDTLEAMLRP 505 (877)
T ss_pred hCHHHHHHHHhcC
No 41
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=21.71 E-value=1.4e+03 Score=27.08 Aligned_cols=46 Identities=20% Similarity=0.372 Sum_probs=31.6
Q ss_pred HHHHhhcCCcccccccCcH--HHHHHHHHH-hcCCCchhhHHHHHHHHHhhcC
Q 001890 474 AQIISTIPNISYRNKAFPE--ALFHQLLLA-MAHPDHETRVGAHTVLSVVLMP 523 (1000)
Q Consensus 474 a~i~a~~pn~sy~~kaFP~--all~qLL~a-m~~pD~e~Rl~a~~If~~lL~p 523 (1000)
+.+++.++.- -.||+ .+++.|+.. .-..++..|+++.+++..|+..
T Consensus 172 ~~il~~l~~~----~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~la~LvNK 220 (415)
T PF12460_consen 172 SAILCSLRKD----VSLPDLEELLQSLLNLALSSEDEFSRLAALQLLASLVNK 220 (415)
T ss_pred HHHHHcCCcc----cCccCHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHcC
Confidence 4555555532 22432 477777774 4555699999999999999877
No 42
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.97 E-value=1.3e+03 Score=29.24 Aligned_cols=190 Identities=19% Similarity=0.276 Sum_probs=0.0
Q ss_pred HHHHHH-HhHhcCchHHHHHHHHHHHHHHHHhHhhhccccccccccchHHHHHHhhhccccCCCCCCccCccCCcchhhh
Q 001890 160 IPKLCQ-LAQEMGNDERALRLRSAGLQVLAYMVKFMGEQSHMSMDFDKIISVTLENFVDLQMKPANGKEGRQHSQSEDQW 238 (1000)
Q Consensus 160 V~~f~~-ma~~~~~de~~~rlR~AGLqAL~~vV~~~~e~shis~q~D~IVpvILeNl~~~~~~~~d~~~~~~~~~~~~~~ 238 (1000)
|+|+.+ +|.+-.....+++=| .||-|+.+|.--.|-.... -+.+|||.++-...
T Consensus 40 i~k~I~~L~~d~a~s~~~n~rk-GgLiGlAA~~iaLg~~~~~--Y~~~iv~Pv~~cf~---------------------- 94 (675)
T KOG0212|consen 40 IRKVISELAGDYAYSPHANMRK-GGLIGLAAVAIALGIKDAG--YLEKIVPPVLNCFS---------------------- 94 (675)
T ss_pred HHHHHHHHHHHhccCccccccc-chHHHHHHHHHHhccccHH--HHHHhhHHHHHhcc----------------------
Q ss_pred hhhhcccccCCCCCCcccccccccccCCCCCCCCCCCCCCCChHHHHHHHHHHHHHhhhhcchHHHHhhhhhhhc-----
Q 001890 239 VQGLQNEEDNDSSFPDMSKKVSSLKDSMINPGPDPTMDTSKSPSYWSRVCLDNMARLAKETTTVRRVLEPLFQIF----- 313 (1000)
Q Consensus 239 v~e~~~~E~~~~~~~~~~~r~ps~~~~~~~~~~~~~~e~~e~p~vlA~~CLr~l~~~A~e~ttvr~VLepvf~~l----- 313 (1000)
|...-+.+.|-.-|.|+++.| .+.+-...+-+|.-+
T Consensus 95 -------------------------------------D~d~~vRyyACEsLYNiaKv~--k~~v~~~Fn~iFdvL~klsa 135 (675)
T KOG0212|consen 95 -------------------------------------DQDSQVRYYACESLYNIAKVA--KGEVLVYFNEIFDVLCKLSA 135 (675)
T ss_pred -------------------------------------CccceeeeHhHHHHHHHHHHh--ccCcccchHHHHHHHHHHhc
Q ss_pred cCCCCCCCCcchHHHHHHHHHHHHhhcCCCcchHHHHHHHhhhccCCCCCchhhhhHHHHHHHHHHhcccccchhHHHHH
Q 001890 314 DAENHWSTETGVACSVLLYLQSLLEESGENSHLLLCNLVKHLDHKSVAKQPLAQTNIVDIATKLAQNAKLLASVAIIGTI 393 (1000)
Q Consensus 314 D~~~~Wsp~~gfAi~vf~~iq~l~e~~~Q~~~lvLs~Lv~HLd~k~v~~~p~~q~~IV~Vlt~La~~~~~~~svsvidvl 393 (1000)
|..+. .+|-|--.=+.+...+ ..+..-+=|..+|--|...-...+|..|.-+|.|+..|-. -|....+.-+
T Consensus 136 Dsd~~---V~~~aeLLdRLikdIV--te~~~tFsL~~~ipLL~eriy~~n~~tR~flv~Wl~~Lds----~P~~~m~~yl 206 (675)
T KOG0212|consen 136 DSDQN---VRGGAELLDRLIKDIV--TESASTFSLPEFIPLLRERIYVINPMTRQFLVSWLYVLDS----VPDLEMISYL 206 (675)
T ss_pred CCccc---cccHHHHHHHHHHHhc--cccccccCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhc----CCcHHHHhcc
Q ss_pred HHHHHHHHHhhcccccCCCCCCccccchHHHHHHHHHHHHHh
Q 001890 394 NDLIKHLRKCLQNSVELSSSGDGMAKTNADLQYSLENCISWL 435 (1000)
Q Consensus 394 sdLlrHLRkslq~s~~~s~~g~~~~~~~~~Lq~aL~~CIg~L 435 (1000)
.+++--|-.-+.-+. .+.+..-+.|+++|
T Consensus 207 ~~~ldGLf~~LsD~s-------------~eVr~~~~t~l~~f 235 (675)
T KOG0212|consen 207 PSLLDGLFNMLSDSS-------------DEVRTLTDTLLSEF 235 (675)
T ss_pred hHHHHHHHHHhcCCc-------------HHHHHHHHHHHHHH
No 43
>KOG1047 consensus Bifunctional leukotriene A4 hydrolase/aminopeptidase LTA4H [Lipid transport and metabolism; Posttranslational modification, protein turnover, chaperones; Defense mechanisms; Amino acid transport and metabolism]
Probab=20.74 E-value=1.3e+02 Score=37.20 Aligned_cols=53 Identities=26% Similarity=0.365 Sum_probs=43.5
Q ss_pred hhccchhHHHHHHHHHHHhhccCCChhhhHHHHHHHHHHHHHHhhhccCchhhHHHHHHHHH
Q 001890 608 SFRLSSHQLSLLLSSIWVQATSTENSPANFEAMAHTYNIALLFTRSKRSSHVALIRCFQLAF 669 (1000)
Q Consensus 608 ~lrls~~q~~lLlssiw~qa~~~~N~p~n~EAi~~Tysl~lL~s~~k~s~~e~lv~~fqLaf 669 (1000)
+-+++.+|..++|..+|.+..++ |.+..||.-||++ .-+| |.|+..|.+||+.
T Consensus 494 ~~~~~~~Ql~lfL~~l~q~~~lp---~~~~~aL~~~Y~l----~~sk--NAEvr~rw~~L~v 546 (613)
T KOG1047|consen 494 IEKWSPDQLVLFLDKLLQSKPLP---PGTVKALQDTYSL----LQSK--NAEVRFRWLQLIV 546 (613)
T ss_pred HHhcChHhHHHHHHHHHhcCCCC---hHHHHHHHHHhhh----hhcc--chHHHHHHHHHHH
Confidence 34688999999999999999974 4557889999993 3344 6999999999986
No 44
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=20.44 E-value=1.6e+02 Score=28.05 Aligned_cols=73 Identities=10% Similarity=0.220 Sum_probs=52.3
Q ss_pred HHHHHHHHHHhcccccCcchhhHHHHHHHHHhccCCcceeehhHhHHHHHHhcCCchhhHHhhhhHHHHHHHHhH
Q 001890 94 VVCIYKKFLSSCKEQMPLFASSLLGIIRTLLEQTRQEEMQILGCGTLVNFIDSQTDGTYMFNLEGLIPKLCQLAQ 168 (1000)
Q Consensus 94 ~l~i~~~Ll~~C~~~l~LFa~s~L~Ii~~LL~qs~~~~l~i~a~~tf~~F~~~q~D~~y~~~ye~fV~~f~~ma~ 168 (1000)
+|-.+.+.-..++.++..+.+.++..|-..++ ..+..+|.-||+.|...+....+ +....+..+...++.++.
T Consensus 6 gli~Laa~ai~l~~~~~~~l~~Il~pVL~~~~-D~d~rVRy~AcEaL~ni~k~~~~-~~l~~f~~IF~~L~kl~~ 78 (97)
T PF12755_consen 6 GLIGLAAVAIALGKDISKYLDEILPPVLKCFD-DQDSRVRYYACEALYNISKVARG-EILPYFNEIFDALCKLSA 78 (97)
T ss_pred HHHHHHHHHHHchHhHHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHc
Confidence 45667777788888888888888877777777 67888888999999888876543 334445555555555554
No 45
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=20.12 E-value=2e+02 Score=28.91 Aligned_cols=52 Identities=15% Similarity=0.125 Sum_probs=32.9
Q ss_pred CCChhhhhHHHHHHhhCCCChhhhHHHHHHHHHHHHhhhcCCcee-eHHHHHHHHHHh
Q 001890 48 EPNDRKIGKLCEYASKNPLRIPKITTLLEQRCYKDLRNENFGSVK-VVVCIYKKFLSS 104 (1000)
Q Consensus 48 ~Pn~~~lsKL~~Ya~s~P~KL~KIg~yLekR~~kDl~r~r~G~V~-V~l~i~~~Ll~~ 104 (1000)
+|-.-.+.-+....-.++....+|..||-+|+.+. . .+|+ =+|.|++.|+..
T Consensus 16 p~pgy~~~Eia~~t~~s~~~~~ei~d~L~kRL~~~---~--~hVK~K~Lrilk~l~~~ 68 (122)
T cd03572 16 PTPGYLYEEIAKLTRKSVGSCQELLEYLLKRLKRS---S--PHVKLKVLKIIKHLCEK 68 (122)
T ss_pred CCchHHHHHHHHHHHcCHHHHHHHHHHHHHHhcCC---C--CcchHHHHHHHHHHHhh
Confidence 33334444455555568899999999999999862 2 4552 255555555544
Done!