Query 005153
Match_columns 711
No_of_seqs 150 out of 179
Neff 6.8
Searched_HMMs 46136
Date Thu Mar 28 18:55:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005153.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005153hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07575 Nucleopor_Nup85: Nup8 100.0 4E-111 8E-116 969.6 24.6 562 67-673 2-565 (566)
2 KOG2271 Nuclear pore complex c 100.0 2E-102 5E-107 858.7 52.4 644 20-710 7-676 (678)
3 PF12110 Nup96: Nuclear protei 97.9 0.00034 7.5E-09 74.9 16.4 216 230-500 4-257 (290)
4 PF04121 Nup84_Nup100: Nuclear 97.7 0.00074 1.6E-08 80.8 15.9 304 225-568 133-506 (697)
5 KOG1964 Nuclear pore complex, 96.6 1.1 2.4E-05 52.5 26.0 297 226-568 221-582 (800)
6 KOG2168 Cullins [Cell cycle co 95.9 5.8 0.00013 47.8 31.1 359 226-630 326-735 (835)
7 PF04097 Nic96: Nup93/Nic96; 94.0 5 0.00011 47.7 20.9 424 224-696 110-595 (613)
8 smart00299 CLH Clathrin heavy 68.8 24 0.00051 32.9 8.1 58 500-557 68-132 (140)
9 COG2909 MalT ATP-dependent tra 59.2 30 0.00064 42.2 8.0 78 483-560 298-386 (894)
10 KOG2114 Vacuolar assembly/sort 59.1 24 0.00052 42.7 7.1 62 486-548 447-517 (933)
11 PF04190 DUF410: Protein of un 55.4 26 0.00056 37.0 6.2 93 449-555 29-124 (260)
12 PF11237 DUF3038: Protein of u 54.1 61 0.0013 32.1 8.0 40 481-520 1-40 (171)
13 KOG0307 Vesicle coat complex C 53.9 3.1E+02 0.0067 34.5 15.3 131 393-555 489-622 (1049)
14 PF10602 RPN7: 26S proteasome 46.1 1.7E+02 0.0036 29.0 9.9 58 505-562 20-78 (177)
15 PF00637 Clathrin: Region in C 40.1 3.7 8.1E-05 38.5 -2.8 69 487-558 59-133 (143)
16 KOG2114 Vacuolar assembly/sort 38.2 63 0.0014 39.3 6.2 56 507-562 353-409 (933)
17 PF08631 SPO22: Meiosis protei 36.6 5.3E+02 0.012 27.2 15.8 28 523-550 37-65 (278)
18 PF07719 TPR_2: Tetratricopept 36.0 51 0.0011 22.2 3.3 26 522-547 2-27 (34)
19 PF07035 Mic1: Colon cancer-as 35.1 1.8E+02 0.0039 28.7 8.0 109 455-567 11-133 (167)
20 PF04053 Coatomer_WDAD: Coatom 34.4 1.6E+02 0.0034 33.7 8.6 48 504-555 334-381 (443)
21 KOG0276 Vesicle coat complex C 27.2 78 0.0017 37.2 4.5 131 420-553 551-698 (794)
22 KOG3617 WD40 and TPR repeat-co 26.8 2.4E+02 0.0051 34.8 8.3 31 498-528 989-1020(1416)
23 KOG4063 Major epididymal secre 26.0 40 0.00087 32.6 1.7 64 3-75 79-143 (158)
24 PF12931 Sec16_C: Sec23-bindin 25.7 3.1E+02 0.0067 29.3 8.6 40 329-368 60-114 (284)
25 PF13374 TPR_10: Tetratricopep 23.8 1E+02 0.0023 21.5 3.3 26 523-548 4-29 (42)
26 PF12816 Vps8: Golgi CORVET co 22.2 75 0.0016 32.1 2.9 47 472-519 23-70 (196)
27 KOG0276 Vesicle coat complex C 21.6 2.7E+02 0.0058 33.1 7.3 74 486-562 602-678 (794)
No 1
>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human. Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.
Probab=100.00 E-value=3.5e-111 Score=969.61 Aligned_cols=562 Identities=30% Similarity=0.490 Sum_probs=342.5
Q ss_pred EEEEEcCCCCCCCchHHHHHHhhcchhhHhhhhhhhcccccccccCCCCCCcHHHHHHHHHHHHHHHHHhcccccccccc
Q 005153 67 VEVRLDGRDGEISDAQWRRIAYGSVSPFALLQSRKNSFASLSKISSTTSPFDAEWWEYVLEYSKDISSLLGNQTSTTQSL 146 (711)
Q Consensus 67 ~~v~~~~~~~~~~~~~~R~L~~es~~~F~~lQ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~i~~~l~~~~~~~~~~ 146 (711)
|.||.++.+.++++|++|+||+|||+||++||+.++.....++++.. -.+++++++++||++|++|++++++.+++.
T Consensus 2 ~~~~~~~~~~~~~s~~~R~lv~es~~iF~~LQ~~~~~~~~~~~~~~~---~~~e~~~~s~~yrs~i~~~~~~~~~~~~~~ 78 (566)
T PF07575_consen 2 VKLYPVREDRIDDSPELRKLVNESFEIFASLQKDRQFSVPTDGMIKS---SSAEYVKISRAYRSIIRACLENLESIKEPI 78 (566)
T ss_dssp -EEBEE--TT---SHHHHHHHHHHHHHHHHGGGGGS---------TT---HHHHHHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred ceEEecCCCcccCCHHHHHHHHHHHHHHHHHHHhhcccccccccccc---chHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 57899999999999999999999999999999987543222221111 124888999999999999999999854455
Q ss_pred cCChhhhhccCCchhhHHHHHHHHHHHhcccCCCCcchHHHHHHHHhhcccCCchhhhhhhhhhhhHHhhhhccCCCCC-
Q 005153 147 IEDPKEVLKKDPEPSNLKAAWELMESFYADKLSQAWLPERLVDWLADYDSLFSSTQETVHSKLVDFQKDLVSLQVIEDE- 225 (711)
Q Consensus 147 ~~~~~~~~~~~~~~~~~~~iW~L~Eily~~~~~~~~v~~~LldWvn~~d~~~~~~~e~~~~~l~~~~~ev~~~~~p~~~- 225 (711)
.+++.++.+..++++++++|||||||||+++.+++++|++|++|+|++|.. |.++. +++++....|.+|
T Consensus 79 ~~~~~~~~~~~~~~~~~~~iw~L~eil~~~~~~~~~v~~~Ll~WvNr~~~~--~~~~~--------~~~vl~~~~p~~~~ 148 (566)
T PF07575_consen 79 IEDEEELEEQLEILYCLEAIWHLCEILYVDSQPRGPVPEQLLDWVNRFHFP--PSEEL--------AEEVLSSEPPYEHD 148 (566)
T ss_dssp THHHHHHHHHHHHHHHHHHHHSSSTT-S-TTTTHHHHHHHHHHHHHTTS----SHHHH--------HTTSCSS-HSCSGS
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHhhccCcccCCchHHHHHHHHHHhCCC--CchhH--------HHHHhccCCCCccc
Confidence 566666767788999999999999999999988899999999999999865 45442 2577775557777
Q ss_pred cchHHHHHHHHhcCcHHHHHHHHHhccCCccccccCccchhHHHHHHHHHHHhCCCCCccccccccccccCChhHHHHHH
Q 005153 226 PKYWEVMSSALAVGWLDIVVKLLRLHGSYQLDQLGNRETENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFMKAW 305 (711)
Q Consensus 226 ~~FW~~v~~lvlrG~~~~A~~lL~~hs~~~~d~l~~~~~~~~l~~~~~~LL~~mP~~~~~~~~g~~g~~~~s~~ef~~~w 305 (711)
|+||++|+++|+||++++|+++|+.|++++.+ ..+++++++++||++||+++++++ .+.++|..+|
T Consensus 149 p~FW~~v~~lvlrG~~~~a~~lL~~~s~~~~~------~~~~~~~~~~~LL~~~P~~~~~~~--------~s~~~f~~~~ 214 (566)
T PF07575_consen 149 PDFWDYVQRLVLRGLFDQARQLLRLHSSYQSY------SLQSAFEALIQLLSSMPRYRPNSG--------QSESEFSSQW 214 (566)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHH-TTTTTTTH------HHHHHHHHHHHHHTT--------------------SS-HHHH
T ss_pred hhHHHHHHHHHHcCCHHHHHHHHHhcccccch------hHHHHHHHHHHHHHhCCCccccch--------hhhHHHHHHH
Confidence 99999999999999999999999999998642 356899999999999999997652 4889999999
Q ss_pred HHHHHHHHHhhccchhhhccccccHHhHHHHHHHhcCCchHHHhhhccHHHHHHHhhheecCCccccchHHHHHHHHHHh
Q 005153 306 EKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLTCHWMELYIAHFLYIRPFTVGLESMYGLAQKCIQL 385 (711)
Q Consensus 306 ~~W~~~~~~L~~~~f~~~~~~~~~~~~L~~ll~IL~Gd~~~i~~~~~~WyE~l~a~lly~~P~~~~~e~l~~~a~~~~~~ 385 (711)
++||.+|+++... +.++....++++|++|++||+||+++|+++|+||||+++|+++|++|++++.+.++++++.|++.
T Consensus 215 ~~W~~~~~~l~~~--~~~~~~~~~~~~L~~l~~Il~G~~~~i~~~~~~WyE~~~a~~ly~~P~~~~~e~l~~~a~~~~~~ 292 (566)
T PF07575_consen 215 REWKSECRRLRSS--SLQDGPFEIRENLEDLLKILLGDEDTILEYSQDWYEALVALLLYVDPTCKPFELLHEYAQSCLEE 292 (566)
T ss_dssp HHHHHHHHHHHHH--S---S-HHHHHHHHHHHHHHHT-HHHHHHT-SSHHHHHHHHHHHT------TTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH--hhccCchhhHHHHHHHHHHHCCCHHHHHHHhCcHHHHHHHhheeeCCCcchhhhHHHHHHHHHhc
Confidence 9999999987544 34555567899999999999999999999999999999999999999999887689999999999
Q ss_pred CCCCcCCchHHHHHHHHccCHHHHHHHHhhccC-cchHHHHHHHHHcCCCcccchhhhcccCCCCCchhHHHHHHHHHHH
Q 005153 386 KPMAASHRLMGLLIGILGENIEVVLAECSKGFG-PWMVTHAIEVLTAGSHQADTLLHEERDNLGGISMEELHRLVYAQVL 464 (711)
Q Consensus 386 ~~~~~~~~ld~il~~ile~d~~~vL~~~~~~ld-~W~aAHl~dLL~~~g~l~~~ll~~~~~~~~~~~lre~~Ll~YA~~L 464 (711)
+|++.++++|+++.+||+||+.+||+.|+..+| +||+||++|||+++|.+.+ ..+.++++.+|||+++++||++|
T Consensus 293 ~~~~~~~~~e~~~~~i~~~d~~~vL~~~~~~~~~~w~aahladLl~~~g~L~~----~~~~~~~~~~lre~~ll~YA~~L 368 (566)
T PF07575_consen 293 FPPDSTNPLEQILLAIFEGDIESVLKEISSLFDDWWFAAHLADLLEHKGLLED----SEQEDFGGSSLREYLLLEYASSL 368 (566)
T ss_dssp S---TTSTTHHHHHHHHTS--GGGHHHHHHH--HHHHHHHHHHHHHHTTSS------SS-----TS-HHHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHccCHHHHHHHHHHHccchhHHHHHHHHHHhcCcccc----ccccccccccHHHHHHHHHHHHH
Confidence 999999999999999999999999999987766 5999999999999997442 23344545899999999999999
Q ss_pred ccCCCcchhhhHHHhhchHhhHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhcCCchHHHHHH
Q 005153 465 SSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWL 544 (711)
Q Consensus 465 ~s~~~LW~vai~YL~~c~~~G~~~i~~lL~r~Pl~te~~~~k~l~iC~~~~L~~va~~I~k~~g~~~~~~g~~g~AL~w~ 544 (711)
++|++|||||++||++|+++|+.+|+++|+|+|++||++++|++++|+++||++++++|||++|++++++|+||+||.|+
T Consensus 369 ~s~~~lW~vai~yL~~c~~~g~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~~~~~~~g~AL~~~ 448 (566)
T PF07575_consen 369 MSHHSLWQVAIGYLSSCPDEGRERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRLLKEGRYGEALSWF 448 (566)
T ss_dssp HT-TTTHHHHHHHHHS-SSS-HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcCcchHHHHHHHHHHCChhhHHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCChHHHHHHHHHHHHHHhccCCcchhhhhHHHHHhcCCCccccCcchhhhhHHHHHHHHHhhhcCCchHHHHHHHHH
Q 005153 545 QQARDEARLNRIAQQMFDSVGRSISDENFRQWEGLIQLLGSEPKTAGGLEFLHNYRDFKKSLLQIRDGKTTDAARQAVES 624 (711)
Q Consensus 545 ~rA~D~~~v~~iad~ll~~y~~~~s~~~~~~~~dll~~l~~~~~~s~~L~FL~kY~eF~~~~~~~~~~~~~~~~r~Aa~~ 624 (711)
+||||...|++|+|++|++|+.++ ++. +.++|+++++.+.++++|+||+|||+||++|++ + ++++||++
T Consensus 449 ~ra~d~~~v~~i~~~ll~~~~~~~--~~~--~~~ll~~i~~~~~~~~~L~fla~yreF~~~~~~---~----~~~~Aa~~ 517 (566)
T PF07575_consen 449 IRAGDYSLVTRIADRLLEEYCNNG--EPL--DDDLLDNIGSPMLLSQRLSFLAKYREFYELYDE---G----DFREAASL 517 (566)
T ss_dssp H-------------------------------------------------------------------------------
T ss_pred HHCCCHHHHHHHHHHHHHHHhcCC--Ccc--cHHHHHHhcchhhhhhhhHHHHHHHHHHHHHhh---h----hHHHHHHH
Confidence 999999999999999999999874 222 369999999999999999999999999999955 4 56689999
Q ss_pred HHHhhcCCCCchhcHHHHHHHHHhhccCCCCCcccHHHHHHHHHHHHHH
Q 005153 625 LISLMKNPCTPQRFWLPLLHDSLKLLNWEERPLLNVLQTNLLLNKLQEL 673 (711)
Q Consensus 625 Lv~Ll~s~~~Pk~fw~~LL~dalpLLe~~~~~~fs~~qt~~LL~~LEel 673 (711)
||+||+++++||+||+.||.|++|||++++ ++|+++|||+||+|||++
T Consensus 518 Lv~Ll~~~~~Pk~f~~~LL~d~lplL~~~~-~~f~~~~~~~ll~~Le~~ 565 (566)
T PF07575_consen 518 LVSLLKSPIAPKSFWPLLLCDALPLLESDE-VIFSSSDTYELLRCLEEL 565 (566)
T ss_dssp -------------------------------------------------
T ss_pred HHHHHCCCCCcHHHHHHHHHHHHHHhCCCC-CccCHHHHHHHHHHHHHh
Confidence 999999999999999999999999999976 789999999999999985
No 2
>KOG2271 consensus Nuclear pore complex component (sc Nup85) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.4e-102 Score=858.71 Aligned_cols=644 Identities=24% Similarity=0.345 Sum_probs=544.1
Q ss_pred CeeeecccccCCCc-cceeeeecCCCeeEEEeccCCCCC---CCCCCCC-ceEEEEEcCCCCCCCc-hHHHHHHhhcchh
Q 005153 20 PVVYPLRHGLKPPI-SRLGISWSRGNSLRVTVFRQPSED---SENEVGG-KAVEVRLDGRDGEISD-AQWRRIAYGSVSP 93 (711)
Q Consensus 20 ~~~~~~~~~~~~~~-~~~~~~w~~g~~l~~~~~~~~~~~---~~~~~~~-~~~~v~~~~~~~~~~~-~~~R~L~~es~~~ 93 (711)
.+-+||-||++.|+ ++++++|++|+.++|+..+.|... ..++.++ .+|.|++.+.+.++++ |.||+|++|+|++
T Consensus 7 ~~~~~l~~~~~a~~~n~~~~~w~~G~~v~~s~~~~~~~~~~~e~~en~~k~pvlv~l~~q~~ef~t~p~Lr~l~~e~~~~ 86 (678)
T KOG2271|consen 7 VVQFPLLDDLNAPLSNNKTDDWEPGKRVAVSGARLPMFVNRDEKDENVGKMPVLVELSSQNMEFSTAPRLRRLLAESHSL 86 (678)
T ss_pred CceeeccccccccccCCccccccCCceeeeeccccccccccCccccccCCCceeEEeccccceecccHHHHHHHHHHHHH
Confidence 46799999999999 999999999999999999854443 3333444 5889999999999999 9999999999999
Q ss_pred hHhhhhhhhcccccccccCCCCCCcHHHHHHHHHHHHHHHHHhcccccccccccCChhhhhccCCchhhHHHHHHH-HHH
Q 005153 94 FALLQSRKNSFASLSKISSTTSPFDAEWWEYVLEYSKDISSLLGNQTSTTQSLIEDPKEVLKKDPEPSNLKAAWEL-MES 172 (711)
Q Consensus 94 F~~lQ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iW~L-~Ei 172 (711)
|+.||+......+.+++.++.+.|+..++.+..++.+++.+..-+......+..+|+.+ .|+.++++|++ |||
T Consensus 87 F~~lQ~~~~~i~~~~~~~~~S~~Yrsi~~~~~~~~~q~~~~l~~~~~~~~~~~~~~~v~------v~~~~E~~W~~~~~i 160 (678)
T KOG2271|consen 87 FEILQLGDSPITNVPTLVVVSSNYRSIHRACVEKASQAIKSLESETFEGRVKLQSDRVS------VFYELESLWFLLCEI 160 (678)
T ss_pred HHHHHccCCcCCCcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhcccccchhhcccHHH------HHHHHHHHHHHhhee
Confidence 99999776666556665666666666666666666666555443333322334444444 45699999999 999
Q ss_pred HhcccCCCCcchHHHHHHHHhhcccCCchhhhhhhhhhhhHHhhhhccCCCCCcchHHHHHHHHhcCcHHHHHHHHHhcc
Q 005153 173 FYADKLSQAWLPERLVDWLADYDSLFSSTQETVHSKLVDFQKDLVSLQVIEDEPKYWEVMSSALAVGWLDIVVKLLRLHG 252 (711)
Q Consensus 173 ly~~~~~~~~v~~~LldWvn~~d~~~~~~~e~~~~~l~~~~~ev~~~~~p~~~~~FW~~v~~lvlrG~~~~A~~lL~~hs 252 (711)
+|++++|++.+.++|++|+|.+++. |..+. .+.++.-+.|.+|+.||++|+++++||++++|+.+|.+.+
T Consensus 161 lfi~s~~~~~~~~~lldW~n~~~~~--~d~~~--------~~~l~~~~~~t~~d~fW~~v~~l~l~G~ld~~i~~l~~~~ 230 (678)
T KOG2271|consen 161 LFIDSSPASELIESLLDWANRSDPE--PDEEY--------IEVLFSVEDATEHDEFWKLVNSLLLRGLLDQVISCLERSG 230 (678)
T ss_pred eeccCcchhhhhHHHHHHHHhccCC--cchhh--------hHHHhcccCCCCCchHHHHHHHHHHhhHHHHHHHHHHhcC
Confidence 9999988899999999999999976 44433 2566777999999999999999999999999999999876
Q ss_pred CCccccccCccchhHHHHHHHHHHHhCCCCCccccccccccccCChhHHHHHHHHHHHHHHHhhccchhhhccccccHHh
Q 005153 253 SYQLDQLGNRETENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFMKAWEKWRAQIAKLECSTFWIQCAHRQTQEG 332 (711)
Q Consensus 253 ~~~~d~l~~~~~~~~l~~~~~~LL~~mP~~~~~~~~g~~g~~~~s~~ef~~~w~~W~~~~~~L~~~~f~~~~~~~~~~~~ 332 (711)
....+ ...+...+.+++++||.++.+. .+..+|..+|+.|+.++.+. .+|.++.+.+++++
T Consensus 231 ~~~~~-------s~~~~v~~~~i~~s~pl~~~g~---------~~ls~t~~~Wk~w~~kle~~---~~~~qd~~~~t~~~ 291 (678)
T KOG2271|consen 231 LAPCL-------SFLCAVELLDILRSMPLLQQGP---------KDLSETERRWKNWHLKLERA---GSKAQDISFETRDY 291 (678)
T ss_pred CCccc-------hhHHHHHHHHHhCccccccccc---------hhHHHHHHHHHHHHHHHHhh---hhhhccccccchhh
Confidence 66321 2233478999999999998754 37889999999999886654 67788888899999
Q ss_pred HHHHHHHhcCCchHHHhhhccHHHHHHHhhheecCCccccchHHHHHHHHHH----hCCCCcCCchHHHHHHHHccCHHH
Q 005153 333 LRNMLQIMLGNTNNLCTLTCHWMELYIAHFLYIRPFTVGLESMYGLAQKCIQ----LKPMAASHRLMGLLIGILGENIEV 408 (711)
Q Consensus 333 L~~ll~IL~Gd~~~i~~~~~~WyE~l~a~lly~~P~~~~~e~l~~~a~~~~~----~~~~~~~~~ld~il~~ile~d~~~ 408 (711)
|+.+++||.||+++|+.+++||||+|++++||++|++++.+++++++++|.. .+|.+++.++++++..+|+.|...
T Consensus 292 le~lLkil~Gn~~~l~~~~~~Wye~f~~~lLy~~P~~k~~~~l~~la~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 371 (678)
T KOG2271|consen 292 LEDLLKILLGNERKLLAYSRTWYEYFVGFLLYYNPFLKPSDELISLAQECLTLDIFLGPENECVDLERILLPLLESDDSC 371 (678)
T ss_pred HHHHHHHHcCCHHHHHHHhhhHHHHHHHHHHhcCcccCCCHHHHHHHHHHhhhhhhcCCcccchhHHHHHHHHhccChHh
Confidence 9999999999999999999999999999999999999999879999999988 467888999999999999999999
Q ss_pred HHHHHhhccCcchHHHHHHHH---HcCCCcccchhhhcccCCCCCchhHHHHHHHHHHHccCCCcchhhhHHHhhchHhh
Q 005153 409 VLAECSKGFGPWMVTHAIEVL---TAGSHQADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQG 485 (711)
Q Consensus 409 vL~~~~~~ld~W~aAHl~dLL---~~~g~l~~~ll~~~~~~~~~~~lre~~Ll~YA~~L~s~~~LW~vai~YL~~c~~~G 485 (711)
+++.++..-++||++|++||+ +|+|. ..-+.++.++++.+|||+++++||+.|++|+.|||+|++||++|++.|
T Consensus 372 ~ik~~~~~~~~wl~~Hl~DLl~~s~h~~~---l~~~~ee~~i~~~nMre~~lleYas~L~sh~~lWqig~~Yl~~c~~~G 448 (678)
T KOG2271|consen 372 VIKFLAMLENKWLAVHLFDLLKNSDHCSN---LDSEMEENLISGRNMREYHLLEYASVLCSHKNLWQIGIGYLACCATEG 448 (678)
T ss_pred HHHHHHhhhcchHHHHHHHHHhcccchhh---hchhhhhhccchHhHHHHHHHHHHHHHHccchhhhHhHHHHHHhHhhh
Confidence 999996442579999999999 55542 111224556778889999999999999999999999999999999999
Q ss_pred HHHHHHhhccCCCCCHHHHHHHHHHHHhcCCchHHH-HHHH-HHHHHHHhcCCch-HHHHHHHHcCChHHHHHHH-HHHH
Q 005153 486 MGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSS-NIMK-IAGMYNWKHGKKG-SGVYWLQQARDEARLNRIA-QQMF 561 (711)
Q Consensus 486 ~~~i~~lL~r~Pl~te~~~~k~l~iC~~~~L~~va~-~I~k-~~g~~~~~~g~~g-~AL~w~~rA~D~~~v~~ia-d~ll 561 (711)
+.+|+.+|+|+|++||++++|+|+||+++|+...+| .+|+ +++++.+++|+|| ++++|+.++++....+.++ |.++
T Consensus 449 ~~~iellipripl~~~~~aek~L~lc~q~~~l~~~r~~~c~~v~a~~~~~~~~yges~laW~~~~~~~~~~~~~~~d~l~ 528 (678)
T KOG2271|consen 449 LMRIELLIPRIPLVDNDMAEKLLSLCEQRGTLEDARMLSCKNVLAIRLFDNGHYGESLLAWALRAKSCALGTKTSDDFLL 528 (678)
T ss_pred HHHHHHhcCCCCCCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHhhhhhhhhhhhhhhHh
Confidence 999999999999999999999999999999555555 9999 9999999999999 9999999999999999999 8888
Q ss_pred HHHhccCCcchhhhhHHHHHhcCCCccccCcch-hhhhHHHHHHHHHhhhcCCchHHHHHHHHHHHHhhcCCCCchhcHH
Q 005153 562 DSVGRSISDENFRQWEGLIQLLGSEPKTAGGLE-FLHNYRDFKKSLLQIRDGKTTDAARQAVESLISLMKNPCTPQRFWL 640 (711)
Q Consensus 562 ~~y~~~~s~~~~~~~~dll~~l~~~~~~s~~L~-FL~kY~eF~~~~~~~~~~~~~~~~r~Aa~~Lv~Ll~s~~~Pk~fw~ 640 (711)
.+|++. .++.+ ++++.+.+.+++..|+|+ ||++|++||++|.-+ ++.+.- |+++||.||+|+++|++||+
T Consensus 529 ~~~sk~---~~~~d-~~li~~~~~~~~~tprL~sfl~~y~ef~q~y~~~---d~~d~~--a~~lLi~Lies~~~P~~~~~ 599 (678)
T KOG2271|consen 529 AIYSKN---SPAKD-DVLIPNDGLAMVATPRLVSFLSPYAEFHQFYELR---DFLDWG--ASELLINLIESPDAPRSYLP 599 (678)
T ss_pred hhhhcc---cchhh-hhhhhccCcchhcchHHHHHHHHHHHHHHHHHHh---hhcchh--HHHHHHHHhhcccchHHHHH
Confidence 888885 34333 789999999999999997 999999999999765 332211 89999999999999999999
Q ss_pred HHHHHHHhhccCCCCCcccHHHHHHHHHHHHHHHhhhcC--CCCcCC----C-CccchHHHHHHHHHHHHHHhhhhc
Q 005153 641 PLLHDSLKLLNWEERPLLNVLQTNLLLNKLQELSIARLR--PDFIEA----D-LPPHALSSVRLALATNLGRTTLEE 710 (711)
Q Consensus 641 ~LL~dalpLLe~~~~~~fs~~qt~~LL~~LEel~~~~~~--~~~~~~----~-~~~~~l~~vRlaLArnLara~l~e 710 (711)
.||.+..|+|++++..+|+.+.++++++++|+++....+ .+.+++ + .-.....++|+++|||||+++++|
T Consensus 600 ~Ll~~l~p~l~~~~~~~fs~e~~~sl~~~~~~~~~~~~r~~~~~~etv~~~d~~~~s~~~~L~la~a~~la~sl~~~ 676 (678)
T KOG2271|consen 600 LLLADLYPILESPDKIIFSKETVASLSHVYETLTDDAHRKSDSDTETVKKDDVLLLSSMARLSLAIAKNLAFSLIQE 676 (678)
T ss_pred HHHHHHHHHHcCCccchhhHHHHHHHHHHHHHhhhhcccccccchhhccchHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 999999999999977999999999999999999887765 223333 1 234567889999999999999987
No 3
>PF12110 Nup96: Nuclear protein 96; InterPro: IPR021967 Nup96 (often known by the name of its yeast homologue Nup145C) is part of the Nup84 heptameric complex in the nuclear pore complex. Nup96 complexes with Sec13 in the middle of the heptamer. The function of the heptamer is to coat the curvature of the nuclear pore complex between the inner and outer nuclear membranes. Nup96 is predicted to be an alpha helical solenoid. The interaction between Nup96 and Sec13 is the point of curvature in the heptameric complex [], [].; PDB: 3BG1_C 3BG0_F 3IKO_B.
Probab=97.90 E-value=0.00034 Score=74.88 Aligned_cols=216 Identities=20% Similarity=0.180 Sum_probs=131.0
Q ss_pred HHHHHHHhcCcHHHHHHHHHhccCCccccccCccchhHHHHHHHHHHHhCCCCCccccccccccccCChhHHHHHHHHHH
Q 005153 230 EVMSSALAVGWLDIVVKLLRLHGSYQLDQLGNRETENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFMKAWEKWR 309 (711)
Q Consensus 230 ~~v~~lvlrG~~~~A~~lL~~hs~~~~d~l~~~~~~~~l~~~~~~LL~~mP~~~~~~~~g~~g~~~~s~~ef~~~w~~W~ 309 (711)
+.|..+++.|++++|+++.-.++.+ -+..||..+ .-.+ ........+...|+
T Consensus 4 e~if~~L~~~~i~~A~~~A~~~~n~----------------~LA~Llsq~-~~~~-----------~~r~~~~~QL~~W~ 55 (290)
T PF12110_consen 4 EKIFLLLSGHDIEEACELAIDSGNP----------------HLATLLSQI-GGDP-----------AVRSLAKQQLEDWR 55 (290)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHTT-H----------------HHHHHHHHT-S--H-----------HHHHHHHHHHHHTT
T ss_pred HHHHHHHHCCCHHHHHHHHHHCCCc----------------hHHHHHHHh-cCCH-----------HHHHHHHHHHHHHH
Confidence 4578899999999999999977554 334555555 2211 13455556677777
Q ss_pred HHHHHhhccchhhhccccccHHhHHHHHHHhcCCchHHHhhh-------ccHHHHHHHhhheecCCccccchHHHHHHHH
Q 005153 310 AQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLT-------CHWMELYIAHFLYIRPFTVGLESMYGLAQKC 382 (711)
Q Consensus 310 ~~~~~L~~~~f~~~~~~~~~~~~L~~ll~IL~Gd~~~i~~~~-------~~WyE~l~a~lly~~P~~~~~e~l~~~a~~~ 382 (711)
+. + -...+.+.+..|+++|+|+........ =+|...|..++.|..|..... .+.++..
T Consensus 56 ~~------~------~~~~I~~~~~~iY~LLAG~~~~~~~~~~~~~~~~LdW~~~lgl~lwY~~~~~~sl---~~~v~~y 120 (290)
T PF12110_consen 56 ES------G------ADSFIDEPRRKIYELLAGNVFWSSGNKGINICEGLDWKRALGLHLWYGDPPDASL---EDAVQSY 120 (290)
T ss_dssp SS------S------S--SS-HHHHHHHHHHHS-SSSSTT-SGGG-GGTS-HHHHHHHHHHTTTTSSS-H---HHHHHHH
T ss_pred hC------C------CCeecCHHHHHHHHHhcCCCcccccccccccCCCCCHHHHHHHHHhCCCCCCCCH---HHHHHHH
Confidence 22 1 012366889999999999988765442 499999999999999875543 3333332
Q ss_pred HHhCCC-------------------CcCCchHHHHH---HHH---ccCHHHHHHHHhh---ccCcchHHHHHHHHHcCCC
Q 005153 383 IQLKPM-------------------AASHRLMGLLI---GIL---GENIEVVLAECSK---GFGPWMVTHAIEVLTAGSH 434 (711)
Q Consensus 383 ~~~~~~-------------------~~~~~ld~il~---~il---e~d~~~vL~~~~~---~ld~W~aAHl~dLL~~~g~ 434 (711)
.+.+.. +...+..+++. .++ ..++..++.-++. .+|.-++=|+.-+|...|.
T Consensus 121 ~~~~~~~~~~~P~P~y~~~~~~~~~~~~~~~~D~~~~LLkly~~~~~~l~~~L~p~~~s~~~lD~~l~W~l~~~L~~~~~ 200 (290)
T PF12110_consen 121 EEAFSKGEAAPPLPPYAERNSSWDDSNSEPREDLLYHLLKLYADRSHSLEQVLNPLSSSPSPLDYRLSWHLYQVLRALGY 200 (290)
T ss_dssp HHHS--------------------------TT-HHHHHHHHH-HSGTTHHHHHHHHHTT-SSS-HHHHHHHHHHHHTTSS
T ss_pred HHHHHhhhccchhhhhhhcccccccccCCCCcCHHHHHHHhhcCCCCCHHHHhChhccCCCccCChhHhHHHHHHHHcCC
Confidence 222211 11122344433 333 2667788876643 3566777789999999874
Q ss_pred cccchhhhcccCCCCCchhHHHHHHHHHHHccCCCcchhhhHHHhhchHhh--HHHHHHhhcc-CCCCC
Q 005153 435 QADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQG--MGLLEMLLYK-QPVDH 500 (711)
Q Consensus 435 l~~~ll~~~~~~~~~~~lre~~Ll~YA~~L~s~~~LW~vai~YL~~c~~~G--~~~i~~lL~r-~Pl~t 500 (711)
... .....+.+.+.||..| ...++|+-|+=.+.+-++.. ...|.++|.| ++.-+
T Consensus 201 ~~~-----------~~~~~d~lt~~fa~QL-e~~glw~~AlfVllhl~d~~~r~~~ir~ll~r~~~~~~ 257 (290)
T PF12110_consen 201 RHD-----------SEDRADQLTLSFASQL-ESLGLWEWALFVLLHLSDDSSREQAIRELLARHIPELS 257 (290)
T ss_dssp S--------------HHHHHHHHHHHHHHH-HHTT-HHHHHHHHHT-S-HHHHHHHHHHHHHHCTGGGS
T ss_pred Ccc-----------CccHHHHHHHHHHHHH-HhCCccHHHHHHHhcCCCHHHHHHHHHHHHHHhccccc
Confidence 111 1135699999999999 57899999999999855433 6677777776 44433
No 4
>PF04121 Nup84_Nup100: Nuclear pore protein 84 / 107 ; InterPro: IPR007252 Nup84p forms a complex with five proteins, including Nup120p, Nup85p, Sec13p, and a Sec13p homolog. This Nup84p complex in conjunction with Sec13-type proteins is required for correct nuclear pore biogenesis [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 3CQC_A 3CQG_A 3I4R_A 3IKO_I 3JRO_C.
Probab=97.67 E-value=0.00074 Score=80.84 Aligned_cols=304 Identities=14% Similarity=0.134 Sum_probs=142.3
Q ss_pred CcchHHHHHHHHhcCcHHHHHHHHHhccCCccccccCccchhHHHHHHHHHHHhCCCCCccccccccccccCChhHHHHH
Q 005153 225 EPKYWEVMSSALAVGWLDIVVKLLRLHGSYQLDQLGNRETENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFMKA 304 (711)
Q Consensus 225 ~~~FW~~v~~lvlrG~~~~A~~lL~~hs~~~~d~l~~~~~~~~l~~~~~~LL~~mP~~~~~~~~g~~g~~~~s~~ef~~~ 304 (711)
+..||.+++.+|.+|++++|+++-+..+.+= ....|.-++.+.....++.....+ ...+-...
T Consensus 133 e~~~~~~i~~llR~G~~~eA~~lc~~~gq~w----------------rAasL~G~~~~~dp~~~~~~~~~~-~~~~G~~~ 195 (697)
T PF04121_consen 133 ERALLKYIFELLRAGRIEEAQELCRERGQPW----------------RAASLCGWQLYHDPNLDPELSDED-ERMEGNRS 195 (697)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHTT-HH----------------HHHHHHTTSB-B-TTTSGGGTTT--SS-BSBTT
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHCCCHH----------------HHHHHcCccccCCccccccccccc-ccccCChh
Confidence 4589999999999999999999999765431 112232343332111000000000 00111124
Q ss_pred HHHHHHHHHHhhccchhhhccccccHHhHHHHHHHhcCCchHHHhhh-ccHHHHHHHhhhee------------cCCcc-
Q 005153 305 WEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLT-CHWMELYIAHFLYI------------RPFTV- 370 (711)
Q Consensus 305 w~~W~~~~~~L~~~~f~~~~~~~~~~~~L~~ll~IL~Gd~~~i~~~~-~~WyE~l~a~lly~------------~P~~~- 370 (711)
..-||..|-++..... +.+.=+-|+..|+||-+.....| .+|-+.+-+++==. .|...
T Consensus 196 r~LWk~~c~~ls~~~~--------~~~yEraiY~~L~G~~~~~l~~~~~sWeD~lwa~~n~~l~~~~d~~l~~~~~~~~~ 267 (697)
T PF04121_consen 196 RALWKRACYKLSQNPN--------LDPYERAIYGALSGDLSSVLPVCSSSWEDYLWAYLNALLESRVDQELRSHCPKSSE 267 (697)
T ss_dssp HHHHHHHHHHHHHTSS--------S-HHHHHHHHHHHTS---HHHHTT-SHHHHHHHHHHHHHHHHHHHHHHHTTSS-GG
T ss_pred HHHHHHHHHHHHhCCC--------CCHHHHHHHHHHhcccHhhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhCCCCch
Confidence 7789999987743221 34667999999999999999999 99999987764210 01111
Q ss_pred -----cc------chHHHHHHHH----HHhCCCCcCCchHHHHHHHHccCHHHHHHHHhhcc---------------Cc-
Q 005153 371 -----GL------ESMYGLAQKC----IQLKPMAASHRLMGLLIGILGENIEVVLAECSKGF---------------GP- 419 (711)
Q Consensus 371 -----~~------e~l~~~a~~~----~~~~~~~~~~~ld~il~~ile~d~~~vL~~~~~~l---------------d~- 419 (711)
+. .++..+++.- -...+....+|.-.+..+||.+++..++..+...+ ++
T Consensus 268 ~~~~lP~~~~~~~~~~~~il~~L~~~~~~~~~~ea~~p~r~iq~~ii~~~i~~ll~~~~~~L~~~~~~~~~~~~~~~~~~ 347 (697)
T PF04121_consen 268 ELLPLPSPQWNQERSLESILNELSSSSNERVREEARNPYRVIQAAIILNDIDSLLESFAEWLSDAAKGSEDSNDLLEDPH 347 (697)
T ss_dssp G-S------------HHHHHHHH----HHHSHHHHHSTTHHHHHHHHCS-HHHHHHHHHHCTHH-----------TTSHH
T ss_pred hhccCCchhhhhcccHHHHHHHHHhccchhHHHHhhChHHHHHHHHHHccHHHHHHHHHHHHHhhcccccccccccccHh
Confidence 00 0122333221 01112223456778889999999999998764433 11
Q ss_pred --chHHHHHHHHHcCCCcccchhhhcccCCCCCchhHHHHHHHHHHHccCCCcchhhhHHHhh-chHhhHHHHHHhhccC
Q 005153 420 --WMVTHAIEVLTAGSHQADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTS-CIKQGMGLLEMLLYKQ 496 (711)
Q Consensus 420 --W~aAHl~dLL~~~g~l~~~ll~~~~~~~~~~~lre~~Ll~YA~~L~s~~~LW~vai~YL~~-c~~~G~~~i~~lL~r~ 496 (711)
=|.||++=+|...|. ... . ...-.+-.|..|.+.|..+. +..+-.=|.+. .++......+.+|..+
T Consensus 348 ~LRf~aHl~L~lr~l~~--------~~~-~-~~~~~~~II~~Yi~~L~~~~-~~~LIplY~S~L~~~~~~e~ys~~L~~i 416 (697)
T PF04121_consen 348 LLRFLAHLILFLRSLGP--------SDQ-E-DDSDKENIITAYISYLRSAG-LYELIPLYASFLPEERAIEVYSRFLISI 416 (697)
T ss_dssp HHHHHHHHHHHHHHHST---------TS-S--HHHHHHHHHHHHHHHHHTT--GGGHHHHHTTGGGGGG-----------
T ss_pred HHHHHHHHHHHHHHhcC--------cCc-c-chhHHHHHHHHHHHHHHHCC-CcccHHHHHccCCHHHHHHHHHHHHHhc
Confidence 256666644444432 000 0 01113448999999998764 67888888886 4567888999999887
Q ss_pred CCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----------------------hcCCchHHHHHHHHcCChHHHH
Q 005153 497 PVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMYNW----------------------KHGKKGSGVYWLQQARDEARLN 554 (711)
Q Consensus 497 Pl~te~~~~k~l~iC~~~~L~~va~~I~k~~g~~~~----------------------~~g~~g~AL~w~~rA~D~~~v~ 554 (711)
. +...=.+.|++++++||+- ..|+|....+.+ ...+...|+.|+.-.+.+..+=
T Consensus 417 ~--d~~~R~~~L~la~~~gld~--~~i~k~~v~~v~~~~~~~~~~~~~~~~~~~~vs~~D~~lI~sleWL~~~~~~~eAl 492 (697)
T PF04121_consen 417 T--DPEEREKQLELAKKLGLDV--SAILKRTVERVFEDTESKYPPENDISVDDDEVSEEDERLIRSLEWLFDPEQYPEAL 492 (697)
T ss_dssp ----------------------------------------------------------HHHHHHHHHHHHHSGGGHHHHH
T ss_pred C--ChHHHHHHHHHHHHcCCCH--HHHHHHHHHHHHhccccccccCccccccCCCCCHHHHHHHHHHHHHcCcccHHHHH
Confidence 4 2223356899999999973 333333333222 1125677888883333332222
Q ss_pred HHHHHHHHHHhccC
Q 005153 555 RIAQQMFDSVGRSI 568 (711)
Q Consensus 555 ~iad~ll~~y~~~~ 568 (711)
..+..++..+...|
T Consensus 493 ~~~n~l~R~FL~~g 506 (697)
T PF04121_consen 493 KQANALYRRFLLNG 506 (697)
T ss_dssp HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHcC
Confidence 33456666666554
No 5
>KOG1964 consensus Nuclear pore complex, rNup107 component (sc Nup84) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=96.56 E-value=1.1 Score=52.46 Aligned_cols=297 Identities=16% Similarity=0.132 Sum_probs=172.6
Q ss_pred cchHHHHHHHHhcCcHHHHHHHHHhccCCccccccCccchhHHHHHHHHHHHhC--CCCCccccccccccccCChhHHHH
Q 005153 226 PKYWEVMSSALAVGWLDIVVKLLRLHGSYQLDQLGNRETENGLVEAVAVLISKM--PRMRPELEAGKLGECFKAKPDFMK 303 (711)
Q Consensus 226 ~~FW~~v~~lvlrG~~~~A~~lL~~hs~~~~d~l~~~~~~~~l~~~~~~LL~~m--P~~~~~~~~g~~g~~~~s~~ef~~ 303 (711)
-.|-++++.|+.-|.+++|.++=+..+..- ..++-+..+.+ |...... . .+..++..
T Consensus 221 ~~~~k~~F~LIRaG~~deal~Lck~~G~~w-------------r~A~LqG~~~y~dPnl~i~~-------E-~~~~eGn~ 279 (800)
T KOG1964|consen 221 QRFFKYIFELIRAGETDEALELCKRLGNGW-------------RAAILQGISEYRDPNLDIPL-------E-ASPQEGNK 279 (800)
T ss_pred HHHHHHHHHHHHccchHHHHHHHHHhCcHH-------------HHHHHHHHHHhhCCCccchh-------h-hCcccCCc
Confidence 369999999999999999999988654331 11111222111 3222111 0 37788888
Q ss_pred HHHHHHHHHHHhhccchhhhccccccHHhHHHHHHHhcCCchHHHhhhcc-HHHHHHHhhhe-----------ecCCccc
Q 005153 304 AWEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLTCH-WMELYIAHFLY-----------IRPFTVG 371 (711)
Q Consensus 304 ~w~~W~~~~~~L~~~~f~~~~~~~~~~~~L~~ll~IL~Gd~~~i~~~~~~-WyE~l~a~lly-----------~~P~~~~ 371 (711)
+.+-||..|-.|..... ..+.=+-++..|+|+-..+.-.|.+ |-+.+=|++=- ..|....
T Consensus 280 ~k~lwrrs~~~ltq~k~--------~d~YeRA~y~~lSG~l~nl~~l~~s~Wed~vWAy~n~~v~~~ie~~l~~a~~~~t 351 (800)
T KOG1964|consen 280 YKRLWRRSCYQLTQEKS--------QDSYERAIYGALSGILGNLLPLLKSGWEDKVWAYLNSMVQARIEAYLGAAPLNET 351 (800)
T ss_pred HHHHHHHHHHHHHHhhc--------cChHHHHHHHHHhccccchhhHHhcchHHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence 99999999976643222 2244588999999999998887766 99888776421 1111111
Q ss_pred cc----------h----HHHHHHHHHHhCCCCcCCchHHHHHHHHccCHHHHHHHHhhcc--C-c--------chHHHHH
Q 005153 372 LE----------S----MYGLAQKCIQLKPMAASHRLMGLLIGILGENIEVVLAECSKGF--G-P--------WMVTHAI 426 (711)
Q Consensus 372 ~e----------~----l~~~a~~~~~~~~~~~~~~ld~il~~ile~d~~~vL~~~~~~l--d-~--------W~aAHl~ 426 (711)
.+ . +.++-.......+.-..++++.+...++.+++..++....+.+ | + =+.+|++
T Consensus 352 q~~p~~~~~~~lT~e~ifeEL~~~~~a~v~~ea~~~i~ilq~~lIld~~~~li~s~~~~l~~~~ng~~~p~lLRimtHlv 431 (800)
T KOG1964|consen 352 QETPSDLFNGPLTSELIFEELRNEADARVEEEAQHPIDILQNHLILDLIKELIESVVEWLEKDRNGQVPPHLLRIMTHLV 431 (800)
T ss_pred CCChhhhcCCcCcHHHHHHHHHHHhhhcchhhhhchHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHHH
Confidence 10 0 1222222222233334566888888999999888887665433 1 1 2556666
Q ss_pred HHHHcCCCcccchhhhcccCCCCCchhHHHHHHHHHHHccCCCcchhhhHHHhhchHh-hHHHHHHhhccCCCCCHHHHH
Q 005153 427 EVLTAGSHQADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQ-GMGLLEMLLYKQPVDHNQLLL 505 (711)
Q Consensus 427 dLL~~~g~l~~~ll~~~~~~~~~~~lre~~Ll~YA~~L~s~~~LW~vai~YL~~c~~~-G~~~i~~lL~r~Pl~te~~~~ 505 (711)
=.+...|. .. ...-.+-.+..|-+-|.... .-++..=|-.+-|+. -....+.+|..+ ++++.=+
T Consensus 432 lfl~~~G~---------~~---~E~~s~~II~~YieLL~~~g-~~~lia~Yt~~L~e~l~l~~ys~fL~sV--de~e~R~ 496 (800)
T KOG1964|consen 432 LFLRISGL---------EV---NEDGSAKIILTYIELLARSG-HKNLIAFYTRFLPEDLQLEAYSRFLESV--DEDEERE 496 (800)
T ss_pred HHHHHhCC---------Cc---cccchHHHHHHHHHHHHhcC-CcchhHHHHHhCCchhhHHHHHHHHHHc--CChhHHH
Confidence 66666652 11 12337789999999888632 445555555554432 245566666544 3444455
Q ss_pred HHHHHHHhcCCchHHHHHHHHHHHHHHhc----C--------------------CchHHHHHHHHc-CChHHHHHHHHHH
Q 005153 506 KNLEICRLYELDSVSSNIMKIAGMYNWKH----G--------------------KKGSGVYWLQQA-RDEARLNRIAQQM 560 (711)
Q Consensus 506 k~l~iC~~~~L~~va~~I~k~~g~~~~~~----g--------------------~~g~AL~w~~rA-~D~~~v~~iad~l 560 (711)
+.++.+++.+|+ +++ |+++.-++-.++ | +...++.|.++. .-..-+-+-++.+
T Consensus 497 ~~le~akq~~LD-v~~-ia~~~ve~Ir~e~~~~~E~~~~d~~~~l~sgv~~~d~~~I~~leWLv~~p~q~~e~l~s~nai 574 (800)
T KOG1964|consen 497 IQLELAKQADLD-VGR-IARTTVENIRKEDKTVGEESHIDHWPWLLSGVEEIDLALIEELEWLVRKPMQRTEALESANAI 574 (800)
T ss_pred HHHHHHHHcCCC-HHH-HHHHHHHHHHHhccCccccccccchHHHhcccCHHHHHHHHHHHHHHhhHHHhhHHHHHHHHH
Confidence 689999999995 333 333333322221 1 345678888876 2222222333355
Q ss_pred HHHHhccC
Q 005153 561 FDSVGRSI 568 (711)
Q Consensus 561 l~~y~~~~ 568 (711)
...|..++
T Consensus 575 ~RkfL~~~ 582 (800)
T KOG1964|consen 575 IRKFLASG 582 (800)
T ss_pred HHHHHhcc
Confidence 55555554
No 6
>KOG2168 consensus Cullins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.91 E-value=5.8 Score=47.76 Aligned_cols=359 Identities=13% Similarity=0.076 Sum_probs=193.9
Q ss_pred cchHHHHHHHHhcCcHHHHHHHHHhccCCccccccCccchhHHHHHHHHHHHhC-CCCCccccccccccccCChhHHHHH
Q 005153 226 PKYWEVMSSALAVGWLDIVVKLLRLHGSYQLDQLGNRETENGLVEAVAVLISKM-PRMRPELEAGKLGECFKAKPDFMKA 304 (711)
Q Consensus 226 ~~FW~~v~~lvlrG~~~~A~~lL~~hs~~~~d~l~~~~~~~~l~~~~~~LL~~m-P~~~~~~~~g~~g~~~~s~~ef~~~ 304 (711)
-.-|+.|+-++=+|.++.|.+.|+..+.+ ++.+.++...+ -.+.... .+ ..+.+...
T Consensus 326 ~P~W~~vyy~lR~G~lk~A~~~l~e~~~~--------------~~~l~~~f~~y~~A~~~~~-~~------~le~qlrl- 383 (835)
T KOG2168|consen 326 VPLWPLVYYLLRCGDLKAASQFLNENKDF--------------FEKLAELFPTYFNAYAKNL-SS------KLEKQLRL- 383 (835)
T ss_pred ccchHHHHHHHhhhhHHHHHHHHHHhhhh--------------HHHHHHHHHHHHHhhhcCC-Cc------cccHHHHH-
Confidence 35699999999999999999999977554 33444444332 1111100 00 12333222
Q ss_pred HHHHHHHHHHhhccchhhhccccccHHhHHHHHHHhcC-----CchHHHhhhccHHHHHHHhhheecC-Ccc-ccc-hHH
Q 005153 305 WEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLG-----NTNNLCTLTCHWMELYIAHFLYIRP-FTV-GLE-SMY 376 (711)
Q Consensus 305 w~~W~~~~~~L~~~~f~~~~~~~~~~~~L~~ll~IL~G-----d~~~i~~~~~~WyE~l~a~lly~~P-~~~-~~e-~l~ 376 (711)
+|+.+ +- -..+++.=.-+++||.| +-.+++...+||.=+=...+-...- +.. ..+ .+.
T Consensus 384 --~~~~~---l~---------~~~~DpyK~AvY~iig~cd~~~~~~ev~~tiED~LW~kL~~ir~~~~~sds~~~~~~~~ 449 (835)
T KOG2168|consen 384 --RLRSE---LG---------RNSTDPYKLAVYKIIGGCDLRRDLPEVADTIEDFLWFKLSLIRVDDQGSDSPTDELFLL 449 (835)
T ss_pred --HHHHH---hc---------cccCChHHHHHHHHHhcCccccccHHHHhHHHHHHHHHHHheeecCCCCcchHHhhhhH
Confidence 34433 20 01245777889999999 3444667777754322222222111 111 011 134
Q ss_pred HHHHHHHHhCCCC-----cCCchHHHHHHHHccCHHHHHHHHhhccC-cchHHHHHHHHHcCCCcccchhhhc------c
Q 005153 377 GLAQKCIQLKPMA-----ASHRLMGLLIGILGENIEVVLAECSKGFG-PWMVTHAIEVLTAGSHQADTLLHEE------R 444 (711)
Q Consensus 377 ~~a~~~~~~~~~~-----~~~~ld~il~~ile~d~~~vL~~~~~~ld-~W~aAHl~dLL~~~g~l~~~ll~~~------~ 444 (711)
++.+..+..++++ ...|.-=...=.+.|-.+.+|..+..... ..=|+|+|=.|...|++...- +.. .
T Consensus 450 ~~~~~il~~YG~sYFt~ng~~p~~Yf~~LlLsgqfe~AI~fL~~~~~~~~dAVH~AI~l~~lglL~~~~-s~~~~ll~~d 528 (835)
T KOG2168|consen 450 EDQKDILEAYGESYFTNNGSQPLLYFQVLLLSGQFERAIEFLHREEPNRIDAVHVAIALAELGLLRTSS-STSQELLSID 528 (835)
T ss_pred HHHHHHHHHhHHHhhccCCCChHHHHHHHHHHHhHHHHHHHHHhhcCCcchhHHHHHHHHHhhhhccCC-CCCCcccccC
Confidence 5556666666543 12232112222345666677776643332 357889998887777543221 011 1
Q ss_pred cCCCCCc--h-hHHHHHHHHHHHccCCCcchhhhHHHhh--ch--HhhHHHHHHhhccCCCCCHHHHHHHHH--------
Q 005153 445 DNLGGIS--M-EELHRLVYAQVLSSHPLTWQIAPIYLTS--CI--KQGMGLLEMLLYKQPVDHNQLLLKNLE-------- 509 (711)
Q Consensus 445 ~~~~~~~--l-re~~Ll~YA~~L~s~~~LW~vai~YL~~--c~--~~G~~~i~~lL~r~Pl~te~~~~k~l~-------- 509 (711)
.+..... + --.++..|-+... ..-=++|.+|+-. |- ..|.......+-.+-+.|++....++-
T Consensus 529 ~~d~~k~~~lnf~rLi~~Ytk~fe--~~d~~~al~y~~~lr~~~d~q~~~l~l~~v~~lVl~t~~~f~~iLG~i~~dG~r 606 (835)
T KOG2168|consen 529 PNDPPKSRRLNFARLIIAYTKSFE--YTDTRVALQYYYLLRLNKDPQGSNLFLKCVCELVLETEEEFDLILGKIKPDGSR 606 (835)
T ss_pred CCCCcccccccHHHHHHHHHHHHH--hccchhhhheeeeecccCChhHHHHHHHHHHHHHHhccccHHHHhcccCCCCCC
Confidence 1121111 2 2345556655532 2233566666653 42 355544444444444455444444442
Q ss_pred ----HHHhcCCchHHHHHHHHHHHHHHhcCCchHHHHHHHHcCChHHHHHHHHHHHHHHhccCC-cchhh-hhHHHHHhc
Q 005153 510 ----ICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNRIAQQMFDSVGRSIS-DENFR-QWEGLIQLL 583 (711)
Q Consensus 510 ----iC~~~~L~~va~~I~k~~g~~~~~~g~~g~AL~w~~rA~D~~~v~~iad~ll~~y~~~~s-~~~~~-~~~dll~~l 583 (711)
+-+-..+.+--++|.-..|.++-..|+|+.|+--+-+|||++.+=.+.+..|.+.+-+.. +.++. .+.+++.++
T Consensus 607 ~~G~l~~f~~~~~~~~~i~~~vA~~a~~~G~~~~sI~LY~lag~yd~al~link~LS~~l~~~~~~~~n~erl~~La~~~ 686 (835)
T KOG2168|consen 607 EPGLLDEFLPLIEDLQKIILEVASEADEDGLFEDAILLYHLAGDYDKALELINKLLSQVLHSPTLGQSNKERLGDLALSM 686 (835)
T ss_pred CcchHhhhccchhhHHHHHHHHHHHHHhcCCHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccCCcchhhHHHHHHHH
Confidence 111122234566778889999999999999999999999999999999888877655421 11111 112333322
Q ss_pred -------CC--CccccCcchhhhhHHHHHHHHHhhhcCCchHHHHHHHHHHHHhhc
Q 005153 584 -------GS--EPKTAGGLEFLHNYRDFKKSLLQIRDGKTTDAARQAVESLISLMK 630 (711)
Q Consensus 584 -------~~--~~~~s~~L~FL~kY~eF~~~~~~~~~~~~~~~~r~Aa~~Lv~Ll~ 630 (711)
+. +...-..+.-|-+|..|++.|.+ | .+.+|.+.|-+|--
T Consensus 687 ~~~y~~~~~~~~~~~~~t~~lLl~~~~~f~~y~~---~----~~e~aL~~le~l~L 735 (835)
T KOG2168|consen 687 NDIYESNKGDSAKVVVKTLSLLLDLVSFFDLYHN---G----EWEEALSILEHLDL 735 (835)
T ss_pred HHHHHhccCcchhhHHHHHHHHHHHHHHHHHHhh---h----HHHHHHHHHHHHhc
Confidence 11 11111245668999999999954 5 44567777766654
No 7
>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex. It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.
Probab=93.97 E-value=5 Score=47.69 Aligned_cols=424 Identities=12% Similarity=0.094 Sum_probs=200.0
Q ss_pred CCcchHHHHHHHHhcCcHHHHHHHHHhccCCccccccCccchhHHHHHHHHHHHhCCCCCccccccccccccCChhHHHH
Q 005153 224 DEPKYWEVMSSALAVGWLDIVVKLLRLHGSYQLDQLGNRETENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFMK 303 (711)
Q Consensus 224 ~~~~FW~~v~~lvlrG~~~~A~~lL~~hs~~~~d~l~~~~~~~~l~~~~~~LL~~mP~~~~~~~~g~~g~~~~s~~ef~~ 303 (711)
....-|..|+=|+=.|..++|.+....+..... . .-..+...++.+-.... +.... .....+
T Consensus 110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~~~----~------~~~~f~~~l~~~~~s~~----~~l~~--~~~~~l-- 171 (613)
T PF04097_consen 110 NGDPIWALIYYCLRCGDYDEALEVANENRNQFQ----K------IERSFPTYLKAYASSPD----RRLPP--ELRDKL-- 171 (613)
T ss_dssp TTEEHHHHHHHHHTTT-HHHHHHHHHHTGGGS-----T------TTTHHHHHHHHCTTTTS----S---T--CCCHHH--
T ss_pred CCCccHHHHHHHHhcCCHHHHHHHHHHhhhhhc----c------hhHHHHHHHHHHHhCCC----CCCCH--HHHHHH--
Confidence 455789999999999999999999954432211 0 11234445555432211 00000 122221
Q ss_pred HHHHHHHHHHHhhccchhhhccccccHHhHHHHHHHhcCCch------HHHhhhccHHHHHHHhhheecCCcc----ccc
Q 005153 304 AWEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTN------NLCTLTCHWMELYIAHFLYIRPFTV----GLE 373 (711)
Q Consensus 304 ~w~~W~~~~~~L~~~~f~~~~~~~~~~~~L~~ll~IL~Gd~~------~i~~~~~~WyE~l~a~lly~~P~~~----~~e 373 (711)
..+|+..++.... .++.=.-+++||.+-+- .|+...+||.=+=....--..+... ..
T Consensus 172 -~~ey~~~~r~~~~-----------~DpyK~AvY~ilg~cD~~~~~~~~V~~tiED~LW~~L~~vr~~~~~~~~~~e~~- 238 (613)
T PF04097_consen 172 -KLEYNQRIRNSTD-----------GDPYKRAVYKILGRCDLSRRHLPEVARTIEDWLWLQLSLVREDERSSSSAYERY- 238 (613)
T ss_dssp -HHHHHHHTTT-TT-----------S-HHHHHHHHHHHT--CCC-S-TTC--SHHHHHHHHHHH---TTSSSSSSS----
T ss_pred -HHHHHHHhcCCCC-----------CChHHHHHHHHHhcCCccccchHHHhCcHHHHHHHHHHhhccCCCccccccccc-
Confidence 2344433221110 03555677888854433 3455567765322222222332221 12
Q ss_pred hHHHHHHHHHHhCCCC----cCCchHHHHHHHHccCHHHHHHHHhh-ccCcchHHHHHHHHHcCCCcccchhhhcccCCC
Q 005153 374 SMYGLAQKCIQLKPMA----ASHRLMGLLIGILGENIEVVLAECSK-GFGPWMVTHAIEVLTAGSHQADTLLHEERDNLG 448 (711)
Q Consensus 374 ~l~~~a~~~~~~~~~~----~~~~ld~il~~ile~d~~~vL~~~~~-~ld~W~aAHl~dLL~~~g~l~~~ll~~~~~~~~ 448 (711)
.+..+-+ .+..+++. ..+++-=.-.=++.|-.+.+|..+.. ....-=++|+|=.|+..|++...- ....+...
T Consensus 239 ~L~~LQ~-~i~~~Ge~~F~~~~~p~~Yf~~LlLtgqFE~AI~~L~~~~~~~~dAVH~AIaL~~~gLL~~~~-~~~~~lls 316 (613)
T PF04097_consen 239 TLEDLQK-LILKYGESHFNAGSNPLLYFQVLLLTGQFEAAIEFLYRNEFNRVDAVHFAIALAYYGLLRVSD-SSSAPLLS 316 (613)
T ss_dssp -HHHHHH-HHHHH-GGGCTT------HHHHHHHTT-HHHHHHHHHT--T-HHHHHHHHHHHHHTT---------------
T ss_pred cHHHHHH-HHHHhchhhcccchhHHHHHHHHHHHhhHHHHHHHHHhhccCcccHHHHHHHHHHcCCCCCCC-ccccceee
Confidence 1444333 33344432 22333333444678999999998854 234567889999999988633210 00000000
Q ss_pred --CC---ch-hHHHHHHHHHHHccCCCcchhhhHHHhh-chH---hhHHHHHHhhccCCCCCHH----------------
Q 005153 449 --GI---SM-EELHRLVYAQVLSSHPLTWQIAPIYLTS-CIK---QGMGLLEMLLYKQPVDHNQ---------------- 502 (711)
Q Consensus 449 --~~---~l-re~~Ll~YA~~L~s~~~LW~vai~YL~~-c~~---~G~~~i~~lL~r~Pl~te~---------------- 502 (711)
.. .+ ==-+|..|....- .+==+.|++|+.. |-. .|...-.+.+..+-++|.+
T Consensus 317 ~~~~~~~~ln~arLI~~Y~~~F~--~td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r~~ 394 (613)
T PF04097_consen 317 VDPGDPPPLNFARLIGQYTRSFE--ITDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDLLLGDINPDGSRTP 394 (613)
T ss_dssp ----------HHHHHHHHHHTTT--TT-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-EEE
T ss_pred ecCCCCCCcCHHHHHHHHHHHHh--ccCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHHHCCCCCCCCcccc
Confidence 00 00 0124555555332 3334679999985 432 3434444444433332221
Q ss_pred -HHHHHHHHHHhcCCchHHHHHHHHHHHHHHhcCCchHHHHHHHHcCChHHHHHHHHHHHHHHhccCCc--------chh
Q 005153 503 -LLLKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNRIAQQMFDSVGRSISD--------ENF 573 (711)
Q Consensus 503 -~~~k~l~iC~~~~L~~va~~I~k~~g~~~~~~g~~g~AL~w~~rA~D~~~v~~iad~ll~~y~~~~s~--------~~~ 573 (711)
-+++=+.+-.-...++..++|....|.++-.+|++..|+.-+..|++.+.|=.+.+..|.+.+...+. +.+
T Consensus 395 G~i~~~~~Li~~~~~~~~~~~i~~~~A~~~e~~g~~~dAi~Ly~La~~~d~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l 474 (613)
T PF04097_consen 395 GLIERRLSLIKFDDDEDFLREIIEQAAREAEERGRFEDAILLYHLAEEYDKVLSLLNRLLSQVLSQPSSSSLSDSERERL 474 (613)
T ss_dssp -HHHHTGGGGT-SSSSHHHHHHHHHHHHHHHHCT-HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHCSSTSSSSSTTTTSH
T ss_pred ceeeccccccCCCCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCccccccccchhhhH
Confidence 13332222222344677999999999999999999999999999999999999999988877665332 111
Q ss_pred hhh-HHHHHhcCCCcc----cc----CcchhhhhHHHHHHHHHhhhcCCchHHHHHHHHHHHHhhcCCCCchhcHHHHHH
Q 005153 574 RQW-EGLIQLLGSEPK----TA----GGLEFLHNYRDFKKSLLQIRDGKTTDAARQAVESLISLMKNPCTPQRFWLPLLH 644 (711)
Q Consensus 574 ~~~-~dll~~l~~~~~----~s----~~L~FL~kY~eF~~~~~~~~~~~~~~~~r~Aa~~Lv~Ll~s~~~Pk~fw~~LL~ 644 (711)
... ..+++....... .+ ..+.-|-+-.+|+.+|. .|++. +|.+.+- +-++.|...-- .-
T Consensus 475 ~~la~~i~~~y~~~~~~~~~~~~~~~~t~~~Ll~L~~ff~~~~---~g~~~----~AL~~i~---~L~liP~~~~~--V~ 542 (613)
T PF04097_consen 475 IELAKEILERYKSNPHISSKVSRKNRETFQLLLDLAEFFDLYH---AGQYE----QALDIIE---KLDLIPLDPSE--VR 542 (613)
T ss_dssp HHHHHHHHHHHTTSHHHHTTS-HHHHHHHHHHHHHHHHHHHHH---TT-HH----HHHHHHH---HTT-S-S-HHH--HH
T ss_pred HHHHHHHHHHHHhCcchHhhccHHHHHHHHHHHHHHHHHHHHH---cCCHH----HHHHHHH---hCCCCCCCHHH--HH
Confidence 110 123332222211 11 22444888889999994 46554 4544443 34577732211 22
Q ss_pred HHHhhccCCCC---CcccHHHHHHHHHHHHHHHhhhcCCCCcCCCCccchHHHHH
Q 005153 645 DSLKLLNWEER---PLLNVLQTNLLLNKLQELSIARLRPDFIEADLPPHALSSVR 696 (711)
Q Consensus 645 dalpLLe~~~~---~~fs~~qt~~LL~~LEel~~~~~~~~~~~~~~~~~~l~~vR 696 (711)
...--+..-+. ..+ .+=....|.||-++........++.... .+.+..+|
T Consensus 543 ~~a~~f~~l~~~V~~~l-p~lLl~~M~~l~~~~~~~~~~~~~~~~~-~~~l~~lr 595 (613)
T PF04097_consen 543 RCAENFRQLDDEVRRNL-PDLLLAAMDCLSRLYQRLKTSSYGSSSR-QQQLDELR 595 (613)
T ss_dssp HHHHCGCCS-HHHHTTH-HHHHHHHHHHHHHHHHHHHSTT---TTH-HHHHHHHH
T ss_pred HHHHHHhcCCHHHHHHH-HHHHHHHHHHHHHHHHHHhcCCCCCccc-HHHHHHHH
Confidence 22223322111 122 2335667888877666544333322211 44444444
No 8
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=68.83 E-value=24 Score=32.92 Aligned_cols=58 Identities=12% Similarity=0.200 Sum_probs=39.0
Q ss_pred CHHHHHHHHHHHHhcCCchHHHHHHHHHHHH------HHhc-CCchHHHHHHHHcCChHHHHHHH
Q 005153 500 HNQLLLKNLEICRLYELDSVSSNIMKIAGMY------NWKH-GKKGSGVYWLQQARDEARLNRIA 557 (711)
Q Consensus 500 te~~~~k~l~iC~~~~L~~va~~I~k~~g~~------~~~~-g~~g~AL~w~~rA~D~~~v~~ia 557 (711)
+.-++++++++|.+.++.+.+--+++..|+. ++.+ +++..|+.++.+.+|...-..++
T Consensus 68 ~~yd~~~~~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~~~~lw~~~~ 132 (140)
T smart00299 68 NHYDIEKVGKLCEKAKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQNNPELWAEVL 132 (140)
T ss_pred ccCCHHHHHHHHHHcCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCCCHHHHHHHH
Confidence 4457889999999999999888888766542 2233 45666666666655555444433
No 9
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=59.17 E-value=30 Score=42.20 Aligned_cols=78 Identities=21% Similarity=0.221 Sum_probs=65.3
Q ss_pred HhhHHHHHHhhcc----CCCCCHH-------HHHHHHHHHHhcCCchHHHHHHHHHHHHHHhcCCchHHHHHHHHcCChH
Q 005153 483 KQGMGLLEMLLYK----QPVDHNQ-------LLLKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEA 551 (711)
Q Consensus 483 ~~G~~~i~~lL~r----~Pl~te~-------~~~k~l~iC~~~~L~~va~~I~k~~g~~~~~~g~~g~AL~w~~rA~D~~ 551 (711)
++|..+|+++..+ +|++++. -.-..+.---+++.+...+.+-+.++.-+..+|...+|+..+.+|+|+.
T Consensus 298 ~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~~~~~~~~lH~~Aa~w~~~~g~~~eAI~hAlaA~d~~ 377 (894)
T COG2909 298 ENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRELAARLKELHRAAAEWFAEHGLPSEAIDHALAAGDPE 377 (894)
T ss_pred CcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhccccCCchhHHHHHHHHHHHhCCChHHHHHHHHhCCCHH
Confidence 5889999999987 4666655 2333677777788899999999999999999999999999999999999
Q ss_pred HHHHHHHHH
Q 005153 552 RLNRIAQQM 560 (711)
Q Consensus 552 ~v~~iad~l 560 (711)
.+..+.++.
T Consensus 378 ~aa~lle~~ 386 (894)
T COG2909 378 MAADLLEQL 386 (894)
T ss_pred HHHHHHHhh
Confidence 988776554
No 10
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.11 E-value=24 Score=42.65 Aligned_cols=62 Identities=11% Similarity=0.053 Sum_probs=50.3
Q ss_pred HHHHHHhhccCCCCCHH--HHHHHHHHHHhcCCchHHHHHHHHHHHHHH-------hcCCchHHHHHHHHcC
Q 005153 486 MGLLEMLLYKQPVDHNQ--LLLKNLEICRLYELDSVSSNIMKIAGMYNW-------KHGKKGSGVYWLQQAR 548 (711)
Q Consensus 486 ~~~i~~lL~r~Pl~te~--~~~k~l~iC~~~~L~~va~~I~k~~g~~~~-------~~g~~g~AL~w~~rA~ 548 (711)
...|.+++.+.+ ..+. +++-+++||++++..+.|.-+++..++.-+ ..|+|-+|+.|....-
T Consensus 447 ~~kL~efI~~~~-~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~he~vl~ille~~~ny~eAl~yi~slp 517 (933)
T KOG2114|consen 447 VEKLTEFISKCD-KGEWFFDVETALEILRKSNYLDEAELLATKFKKHEWVLDILLEDLHNYEEALRYISSLP 517 (933)
T ss_pred hHHHHHHHhcCC-CcceeeeHHHHHHHHHHhChHHHHHHHHHHhccCHHHHHHHHHHhcCHHHHHHHHhcCC
Confidence 667889999888 3333 588899999999999999999999988332 3479999999987664
No 11
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=55.41 E-value=26 Score=37.02 Aligned_cols=93 Identities=12% Similarity=0.144 Sum_probs=60.3
Q ss_pred CCchhHHHHHHHHHHHccCCCcchhhhHHHhhchHhhHHHHHHhhccCCCCCHH---HHHHHHHHHHhcCCchHHHHHHH
Q 005153 449 GISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQPVDHNQ---LLLKNLEICRLYELDSVSSNIMK 525 (711)
Q Consensus 449 ~~~lre~~Ll~YA~~L~s~~~LW~vai~YL~~c~~~G~~~i~~lL~r~Pl~te~---~~~k~l~iC~~~~L~~va~~I~k 525 (711)
+..|.-+++-.|-..- ..|.+..+.++.+++..+|-++.. =+.+++...+.-+-+.=--.+..
T Consensus 29 g~DL~~lliev~~~~~--------------~~~~~~~~~rl~~l~~~~~~~~p~r~~fi~~ai~WS~~~~~~~Gdp~LH~ 94 (260)
T PF04190_consen 29 GADLALLLIEVYEKSE--------------DPVDEESIARLIELISLFPPEEPERKKFIKAAIKWSKFGSYKFGDPELHH 94 (260)
T ss_dssp HHHHHHHHHHHHHHTT-----------------SHHHHHHHHHHHHHS-TT-TTHHHHHHHHHHHHHTSS-TT--HHHHH
T ss_pred HHHHHHHHHHHHHHcC--------------CCCCHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHccCCCCCCCHHHHH
Confidence 4566666666666610 014556678999999998876533 24445666622222223457999
Q ss_pred HHHHHHHhcCCchHHHHHHHHcCChHHHHH
Q 005153 526 IAGMYNWKHGKKGSGVYWLQQARDEARLNR 555 (711)
Q Consensus 526 ~~g~~~~~~g~~g~AL~w~~rA~D~~~v~~ 555 (711)
++|...+++|+|.+|-.+++.+.|......
T Consensus 95 ~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~~ 124 (260)
T PF04190_consen 95 LLAEKLWKEGNYYEAERHFLLGTDPSAFAY 124 (260)
T ss_dssp HHHHHHHHTT-HHHHHHHHHTS-HHHHHHH
T ss_pred HHHHHHHhhccHHHHHHHHHhcCChhHHHH
Confidence 999999999999999999999999988665
No 12
>PF11237 DUF3038: Protein of unknown function (DUF3038); InterPro: IPR021399 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=54.08 E-value=61 Score=32.11 Aligned_cols=40 Identities=18% Similarity=0.120 Sum_probs=31.4
Q ss_pred chHhhHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCchHH
Q 005153 481 CIKQGMGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVS 520 (711)
Q Consensus 481 c~~~G~~~i~~lL~r~Pl~te~~~~k~l~iC~~~~L~~va 520 (711)
|+..++..++.+|.-+.-=+.-.-|-++..|.+.||..+-
T Consensus 1 ~~~~~~~~LDLlLLAlEaL~~~gsEaml~~a~~L~L~~~~ 40 (171)
T PF11237_consen 1 CLRRIREQLDLLLLALEALDLNGSEAMLWAAQQLGLQSII 40 (171)
T ss_pred CchHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHcCCcccc
Confidence 8889999999998765443444567789999999999863
No 13
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.90 E-value=3.1e+02 Score=34.55 Aligned_cols=131 Identities=14% Similarity=0.090 Sum_probs=79.1
Q ss_pred chHH-HHHHHHccCHHHHHHHHhhccCcchHHHHHHHHHcCCCcccchhhhcccCCCCCchhHHHHHHHHHHHccCCCcc
Q 005153 393 RLMG-LLIGILGENIEVVLAECSKGFGPWMVTHAIEVLTAGSHQADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTW 471 (711)
Q Consensus 393 ~ld~-il~~ile~d~~~vL~~~~~~ld~W~aAHl~dLL~~~g~l~~~ll~~~~~~~~~~~lre~~Ll~YA~~L~s~~~LW 471 (711)
+.|. |..+++.||+..+++.|. -.+|++.-+. +.+.| +..+.+....+|....-+.
T Consensus 489 d~d~~Is~alitgd~~~aV~~cl--~~~~~a~Ali--iA~~g---------------g~el~~~t~~~Y~~k~~~k---- 545 (1049)
T KOG0307|consen 489 DIDGLISEALITGDFKSAVELCL--EANKMADALI--IAHAG---------------GTELLESTRDKYLAKSNSK---- 545 (1049)
T ss_pred cHHHHHHHHHHhccHHHHHHHHH--hhhHHHHHHH--HHhcC---------------CHHHHHHHHHHHHHHhCCh----
Confidence 3554 458899999999999993 2456654322 22222 2223444444444333221
Q ss_pred hhhhHHHhhchHhhHHHHHHhhccCCCCCHHHHHHH-HHHHHhcCCchHHHHHHHHHHHHHHhcC-CchHHHHHHHHcCC
Q 005153 472 QIAPIYLTSCIKQGMGLLEMLLYKQPVDHNQLLLKN-LEICRLYELDSVSSNIMKIAGMYNWKHG-KKGSGVYWLQQARD 549 (711)
Q Consensus 472 ~vai~YL~~c~~~G~~~i~~lL~r~Pl~te~~~~k~-l~iC~~~~L~~va~~I~k~~g~~~~~~g-~~g~AL~w~~rA~D 549 (711)
+.-|.+|-.. .-+..+++.-++...+.+... .++... +...++|-++|.|+...| ..-.|+.+++=+|.
T Consensus 546 ---~s~li~a~v~--~d~~~~ve~~~~k~Wke~la~i~t~~~~----~~~~elc~~Lg~rl~~~g~~~~~a~lcYi~ags 616 (1049)
T KOG0307|consen 546 ---LSRLIYAMVN--RDLDDYVETCEVKQWKETLAAICTYAQT----DEFSELCDMLGDRLENAGDLTSAAILCYICAGS 616 (1049)
T ss_pred ---HHHHHHHHHh--hhHHHHHhhcchhhHHHHHHHHHHhcch----hhHHHHHHHHHHHHhhccchhhhhhHHhhhccC
Confidence 1122233211 124455556666665566553 333332 788999999999999999 77889999999999
Q ss_pred hHHHHH
Q 005153 550 EARLNR 555 (711)
Q Consensus 550 ~~~v~~ 555 (711)
.+++-.
T Consensus 617 v~k~v~ 622 (1049)
T KOG0307|consen 617 VDKLVE 622 (1049)
T ss_pred hhhhHH
Confidence 877544
No 14
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=46.14 E-value=1.7e+02 Score=29.00 Aligned_cols=58 Identities=10% Similarity=-0.053 Sum_probs=46.1
Q ss_pred HHHHHHHHhcCCchHHHHHHHHHHHHHHhcCCchHHHHHHHHcCChH-HHHHHHHHHHH
Q 005153 505 LKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEA-RLNRIAQQMFD 562 (711)
Q Consensus 505 ~k~l~iC~~~~L~~va~~I~k~~g~~~~~~g~~g~AL~w~~rA~D~~-~v~~iad~ll~ 562 (711)
+.=+.-.++..-.+..+....-.|....+-|++.+|+.++.|+.|.. ..+.+.|..|.
T Consensus 20 e~elk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~ 78 (177)
T PF10602_consen 20 EAELKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLN 78 (177)
T ss_pred HHHHHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHH
Confidence 33455666666666778888899999999999999999999999986 46667777664
No 15
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=40.06 E-value=3.7 Score=38.48 Aligned_cols=69 Identities=16% Similarity=0.128 Sum_probs=51.9
Q ss_pred HHHHHhhccCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH------hcCCchHHHHHHHHcCChHHHHHHHH
Q 005153 487 GLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMYNW------KHGKKGSGVYWLQQARDEARLNRIAQ 558 (711)
Q Consensus 487 ~~i~~lL~r~Pl~te~~~~k~l~iC~~~~L~~va~~I~k~~g~~~~------~~g~~g~AL~w~~rA~D~~~v~~iad 558 (711)
..+..+|.. .++-++.+++++|.++||.+.+.-++..+|+..- ..+.+-.|+.++.+.+|......+.+
T Consensus 59 ~~l~~~L~~---~~~yd~~~~~~~c~~~~l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~ 133 (143)
T PF00637_consen 59 EKLLEFLKT---SNNYDLDKALRLCEKHGLYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLK 133 (143)
T ss_dssp CHHHHTTTS---SSSS-CTHHHHHHHTTTSHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHH
T ss_pred hHHHHHccc---ccccCHHHHHHHHHhcchHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHH
Confidence 556666652 2235788899999999999999999998876544 44789999999999999666655443
No 16
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.24 E-value=63 Score=39.29 Aligned_cols=56 Identities=13% Similarity=0.198 Sum_probs=47.2
Q ss_pred HHHHHHhcCCch-HHHHHHHHHHHHHHhcCCchHHHHHHHHcCChHHHHHHHHHHHH
Q 005153 507 NLEICRLYELDS-VSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNRIAQQMFD 562 (711)
Q Consensus 507 ~l~iC~~~~L~~-va~~I~k~~g~~~~~~g~~g~AL~w~~rA~D~~~v~~iad~ll~ 562 (711)
++.+++..+++. ..++|++.+|..+.++|++.+|+.|++++=+.--...|...+|+
T Consensus 353 Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s~Vi~kfLd 409 (933)
T KOG2114|consen 353 AINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPSEVIKKFLD 409 (933)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChHHHHHHhcC
Confidence 577888888876 57789999999999999999999999999877777766655553
No 17
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=36.61 E-value=5.3e+02 Score=27.16 Aligned_cols=28 Identities=29% Similarity=0.275 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhcC-CchHHHHHHHHcCCh
Q 005153 523 IMKIAGMYNWKHG-KKGSGVYWLQQARDE 550 (711)
Q Consensus 523 I~k~~g~~~~~~g-~~g~AL~w~~rA~D~ 550 (711)
+|...|...++++ ++..|+.|+.||.|.
T Consensus 37 ~~yn~G~~l~~~~~~~~~a~~wL~~a~~~ 65 (278)
T PF08631_consen 37 VCYNIGKSLLSKKDKYEEAVKWLQRAYDI 65 (278)
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 5555799999999 999999999999988
No 18
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=36.02 E-value=51 Score=22.20 Aligned_cols=26 Identities=12% Similarity=0.234 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHhcCCchHHHHHHHHc
Q 005153 522 NIMKIAGMYNWKHGKKGSGVYWLQQA 547 (711)
Q Consensus 522 ~I~k~~g~~~~~~g~~g~AL~w~~rA 547 (711)
+++..+|.-..+.|++.+|+.++.++
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~a 27 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 45677899999999999999999876
No 19
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=35.15 E-value=1.8e+02 Score=28.74 Aligned_cols=109 Identities=17% Similarity=0.194 Sum_probs=69.3
Q ss_pred HHHHHHHHHHccC-----CCcchhhhHHHhhchHhhHHHHHHhhccCCC-CCHHHHHHHHHHHHhc-CCchHHHHHHHHH
Q 005153 455 LHRLVYAQVLSSH-----PLTWQIAPIYLTSCIKQGMGLLEMLLYKQPV-DHNQLLLKNLEICRLY-ELDSVSSNIMKIA 527 (711)
Q Consensus 455 ~~Ll~YA~~L~s~-----~~LW~vai~YL~~c~~~G~~~i~~lL~r~Pl-~te~~~~k~l~iC~~~-~L~~va~~I~k~~ 527 (711)
..+++|-.+|..+ +.++.+-++-|...+. -..+..+|..-.+ +|..-|..++++-.++ ..-..+-.+.+.+
T Consensus 11 ~vllEYirSl~~~~i~~~~~L~~lli~lLi~~~~--~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL 88 (167)
T PF07035_consen 11 AVLLEYIRSLNQHNIPVQHELYELLIDLLIRNGQ--FSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRL 88 (167)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC--HHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHh
Confidence 3477888888764 6778888888877664 3456667765444 5666677787774332 1122344455555
Q ss_pred H-------HHHHhcCCchHHHHHHHHcCChHHHHHHHHHHHHHHhcc
Q 005153 528 G-------MYNWKHGKKGSGVYWLQQARDEARLNRIAQQMFDSVGRS 567 (711)
Q Consensus 528 g-------~~~~~~g~~g~AL~w~~rA~D~~~v~~iad~ll~~y~~~ 567 (711)
+ .-++.+|++.+|+.++-+.+....+. +..+|+.-.++
T Consensus 89 ~~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~--~~~fLeAA~~~ 133 (167)
T PF07035_consen 89 GTAYEEIIEVLLSKGQVLEALRYARQYHKVDSVP--ARKFLEAAANS 133 (167)
T ss_pred hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCC--HHHHHHHHHHc
Confidence 5 45788999999999988766554432 34566655444
No 20
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised 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 []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=34.39 E-value=1.6e+02 Score=33.75 Aligned_cols=48 Identities=23% Similarity=0.149 Sum_probs=36.3
Q ss_pred HHHHHHHHHhcCCchHHHHHHHHHHHHHHhcCCchHHHHHHHHcCChHHHHH
Q 005153 504 LLKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNR 555 (711)
Q Consensus 504 ~~k~l~iC~~~~L~~va~~I~k~~g~~~~~~g~~g~AL~w~~rA~D~~~v~~ 555 (711)
++-++++|.+.. ...+.|.+|..++++|++-.|-.++.|++|...+.-
T Consensus 334 L~~A~~~a~~~~----~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d~~~L~l 381 (443)
T PF04053_consen 334 LDIALEIAKELD----DPEKWKQLGDEALRQGNIELAEECYQKAKDFSGLLL 381 (443)
T ss_dssp HHHHHHHCCCCS----THHHHHHHHHHHHHTTBHHHHHHHHHHCT-HHHHHH
T ss_pred HHHHHHHHHhcC----cHHHHHHHHHHHHHcCCHHHHHHHHHhhcCccccHH
Confidence 333444444433 444889999999999999999999999999998654
No 21
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.16 E-value=78 Score=37.25 Aligned_cols=131 Identities=21% Similarity=0.153 Sum_probs=78.4
Q ss_pred chHHHHHHHHHcCCCcccc---hhhhcccCCCCCchhHHHHHHHHHHHccCCCcchhhhHHHhhchHhhHHHHHHhhccC
Q 005153 420 WMVTHAIEVLTAGSHQADT---LLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQ 496 (711)
Q Consensus 420 W~aAHl~dLL~~~g~l~~~---ll~~~~~~~~~~~lre~~Ll~YA~~L~s~~~LW~vai~YL~~c~~~G~~~i~~lL~r~ 496 (711)
-..+|+..-++-.|.+.+. ++.+...+.-+-. -..-+++|-...|. .=...|.+.|..-|+.-|.++..+|++.
T Consensus 551 ~~v~h~~~~mylLgy~~~~~rvYL~Dke~nVi~y~-l~l~vleyqt~vmr--rd~~~a~~vLp~I~k~~rt~va~Fle~~ 627 (794)
T KOG0276|consen 551 YTVAHLDRIMYLLGYVANDNRVYLHDKELNVISYK-ILLEVLEYQTLVLR--RDLEVADGVLPTIPKEIRTKVAHFLESQ 627 (794)
T ss_pred EEEEEeccchhheeeeecCCEEEEeecccceEeEe-eehHHHHHHHHhhh--ccccccccccccCchhhhhhHHhHhhhc
Confidence 3456777777776654432 1222111211111 12224566544442 2245666777776788899999999986
Q ss_pred CCCC---------HH---HHHHH--HHHHHhcCCchHHHHHHHHHHHHHHhcCCchHHHHHHHHcCChHHH
Q 005153 497 PVDH---------NQ---LLLKN--LEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARL 553 (711)
Q Consensus 497 Pl~t---------e~---~~~k~--l~iC~~~~L~~va~~I~k~~g~~~~~~g~~g~AL~w~~rA~D~~~v 553 (711)
-+.. +. -+.|+ +.++.+.-.+.....=.|.+|.-+++.|++..|-.++.||+|...+
T Consensus 628 g~~e~AL~~s~D~d~rFelal~lgrl~iA~~la~e~~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~~~L 698 (794)
T KOG0276|consen 628 GMKEQALELSTDPDQRFELALKLGRLDIAFDLAVEANSEVKWRQLGDAALSAGELPLASECFLRARDLGSL 698 (794)
T ss_pred cchHhhhhcCCChhhhhhhhhhcCcHHHHHHHHHhhcchHHHHHHHHHHhhcccchhHHHHHHhhcchhhh
Confidence 5532 11 13332 3444444333344445688999999999999999999999998774
No 22
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=26.82 E-value=2.4e+02 Score=34.77 Aligned_cols=31 Identities=10% Similarity=0.301 Sum_probs=22.6
Q ss_pred CCCHHHHHH-HHHHHHhcCCchHHHHHHHHHH
Q 005153 498 VDHNQLLLK-NLEICRLYELDSVSSNIMKIAG 528 (711)
Q Consensus 498 l~te~~~~k-~l~iC~~~~L~~va~~I~k~~g 528 (711)
+-|-.++.+ .+++|++++|.+.--.+|-..|
T Consensus 989 FfTrAqafsnAIRlcKEnd~~d~L~nlal~s~ 1020 (1416)
T KOG3617|consen 989 FFTRAQAFSNAIRLCKENDMKDRLANLALMSG 1020 (1416)
T ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHHHHhhcC
Confidence 335556666 8999999999998777765543
No 23
>KOG4063 consensus Major epididymal secretory protein HE1 [Function unknown]
Probab=25.99 E-value=40 Score=32.57 Aligned_cols=64 Identities=25% Similarity=0.318 Sum_probs=42.7
Q ss_pred CCCCCCeeeeCCCCCCCCeeee-cccccCCCccceeeeecCCCeeEEEeccCCCCCCCCCCCCceEEEEEcCCC
Q 005153 3 GENQGGAIVPYSEEAKKPVVYP-LRHGLKPPISRLGISWSRGNSLRVTVFRQPSEDSENEVGGKAVEVRLDGRD 75 (711)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~w~~g~~l~~~~~~~~~~~~~~~~~~~~~~v~~~~~~ 75 (711)
|--.|++.|||-.....+.|++ |-||+.-|+. .|..-.+....+...+-++ ..-.++|++...|
T Consensus 79 g~~lg~v~vPfpl~~~dacv~~~l~~gv~CPl~-------age~ytY~~slpI~~~yP~--v~v~iew~L~D~d 143 (158)
T KOG4063|consen 79 GITLGSVPVPFPLPASDACVCGNLLHGVYCPLS-------AGEDYTYLNSLPITENYPE--VSVIIEWQLQDQD 143 (158)
T ss_pred eeecccEeecCCCCCCcccccccccccccCccc-------CCCceEEEEEeeccccCCc--eeEEEEEEEecCC
Confidence 3456789999999998888998 8899999986 5666666655544443211 1124456665544
No 24
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=25.72 E-value=3.1e+02 Score=29.28 Aligned_cols=40 Identities=23% Similarity=0.291 Sum_probs=28.2
Q ss_pred cHHhHHHHHHHhcCCchHHHh-h--------------hccHHHHHHHhhheecCC
Q 005153 329 TQEGLRNMLQIMLGNTNNLCT-L--------------TCHWMELYIAHFLYIRPF 368 (711)
Q Consensus 329 ~~~~L~~ll~IL~Gd~~~i~~-~--------------~~~WyE~l~a~lly~~P~ 368 (711)
..+.|+.+++++.|+...... . ..+|+|.+...+-+..|.
T Consensus 60 ~~~~L~~l~~v~~g~~~~~v~~l~~~~~~~~~~~~~~~~~Wre~lA~il~N~~~~ 114 (284)
T PF12931_consen 60 ITHLLRTLYQVFSGNSPEAVDELVPNSAAPPLEGEWDLDNWRETLAIILSNRTPE 114 (284)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHHHH-----HHHHHHHHHSHHHHHHHHHHTS---
T ss_pred hhHHHHHHHHHHcCCcHHHHHHhccccccccccccchhcCHHHHHHHHHhCCCcc
Confidence 346799999999999876532 1 347999999999887764
No 25
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=23.81 E-value=1e+02 Score=21.47 Aligned_cols=26 Identities=12% Similarity=0.077 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhcCCchHHHHHHHHcC
Q 005153 523 IMKIAGMYNWKHGKKGSGVYWLQQAR 548 (711)
Q Consensus 523 I~k~~g~~~~~~g~~g~AL~w~~rA~ 548 (711)
.+..+|.-....|++.+|+.++.++-
T Consensus 4 ~~~~la~~~~~~g~~~~A~~~~~~al 29 (42)
T PF13374_consen 4 ALNNLANAYRAQGRYEEALELLEEAL 29 (42)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence 45668888889999999999988763
No 26
>PF12816 Vps8: Golgi CORVET complex core vacuolar protein 8
Probab=22.20 E-value=75 Score=32.12 Aligned_cols=47 Identities=13% Similarity=0.202 Sum_probs=36.1
Q ss_pred hhhhHHHhhchHhh-HHHHHHhhccCCCCCHHHHHHHHHHHHhcCCchH
Q 005153 472 QIAPIYLTSCIKQG-MGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSV 519 (711)
Q Consensus 472 ~vai~YL~~c~~~G-~~~i~~lL~r~Pl~te~~~~k~l~iC~~~~L~~v 519 (711)
++--+++.++.+.| ..+++++|-++.+.+= +++.++++|+++||-+.
T Consensus 23 ~v~k~lv~~y~~~~~~~~lE~lI~~LD~~~L-Didq~i~lC~~~~Lyda 70 (196)
T PF12816_consen 23 EVFKALVEHYASKGRLERLEQLILHLDPSSL-DIDQVIKLCKKHGLYDA 70 (196)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHhCCHHhc-CHHHHHHHHHHCCCCCe
Confidence 44445556655555 6899999999998664 57889999999999874
No 27
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.65 E-value=2.7e+02 Score=33.11 Aligned_cols=74 Identities=9% Similarity=0.096 Sum_probs=59.1
Q ss_pred HHHHHHhhccCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHH---HHhcCCchHHHHHHHHcCChHHHHHHHHHHHH
Q 005153 486 MGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMY---NWKHGKKGSGVYWLQQARDEARLNRIAQQMFD 562 (711)
Q Consensus 486 ~~~i~~lL~r~Pl~te~~~~k~l~iC~~~~L~~va~~I~k~~g~~---~~~~g~~g~AL~w~~rA~D~~~v~~iad~ll~ 562 (711)
.+.....|+++|. +.-.|+...-+..|+.+.|-.||.=-.+| +++-||+..|..-+..+.+..+=+.+.+..+.
T Consensus 602 ~~~a~~vLp~I~k---~~rt~va~Fle~~g~~e~AL~~s~D~d~rFelal~lgrl~iA~~la~e~~s~~Kw~~Lg~~al~ 678 (794)
T KOG0276|consen 602 LEVADGVLPTIPK---EIRTKVAHFLESQGMKEQALELSTDPDQRFELALKLGRLDIAFDLAVEANSEVKWRQLGDAALS 678 (794)
T ss_pred ccccccccccCch---hhhhhHHhHhhhccchHhhhhcCCChhhhhhhhhhcCcHHHHHHHHHhhcchHHHHHHHHHHhh
Confidence 4445568889983 34566777888999999999988765555 46889999999999999999998888887775
Done!