Query 011083
Match_columns 494
No_of_seqs 124 out of 166
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 07:55:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011083.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011083hhsearch_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 2E-91 4.4E-96 762.7 23.4 421 4-456 143-565 (566)
2 KOG2271 Nuclear pore complex c 100.0 1.5E-77 3.3E-82 628.5 39.7 464 1-493 196-676 (678)
3 PF12110 Nup96: Nuclear protei 98.1 0.0001 2.2E-09 74.6 16.0 234 13-301 4-275 (290)
4 PF04121 Nup84_Nup100: Nuclear 97.8 0.00085 1.8E-08 75.9 18.2 300 10-351 135-506 (697)
5 KOG1964 Nuclear pore complex, 96.9 0.96 2.1E-05 50.2 29.1 298 10-351 222-582 (800)
6 KOG2168 Cullins [Cell cycle co 94.9 9.1 0.0002 43.7 31.8 356 10-412 327-734 (835)
7 PF04097 Nic96: Nup93/Nic96; 93.2 10 0.00022 42.5 20.5 367 6-418 109-535 (613)
8 smart00299 CLH Clathrin heavy 76.1 7 0.00015 34.3 6.0 59 283-341 68-133 (140)
9 COG2909 MalT ATP-dependent tra 73.3 18 0.00038 41.6 9.3 79 265-343 297-386 (894)
10 KOG2114 Vacuolar assembly/sort 66.1 16 0.00034 41.8 6.9 71 260-331 436-517 (933)
11 PF04190 DUF410: Protein of un 64.6 23 0.00049 35.2 7.2 93 232-338 29-124 (260)
12 KOG0307 Vesicle coat complex C 55.7 1.6E+02 0.0035 34.8 12.8 132 176-338 489-622 (1049)
13 PF10602 RPN7: 26S proteasome 54.1 78 0.0017 29.4 8.5 58 288-345 20-78 (177)
14 PF11237 DUF3038: Protein of u 53.5 46 0.001 31.0 6.7 39 264-302 1-39 (171)
15 PF00637 Clathrin: Region in C 50.6 2.4 5.2E-05 37.4 -2.2 71 270-343 59-135 (143)
16 KOG2114 Vacuolar assembly/sort 48.1 29 0.00064 39.7 5.3 55 290-344 353-408 (933)
17 PF08631 SPO22: Meiosis protei 46.1 2.1E+02 0.0045 28.4 10.8 29 305-333 36-65 (278)
18 PF07719 TPR_2: Tetratricopept 45.7 30 0.00065 21.8 3.2 26 305-330 2-27 (34)
19 PF04053 Coatomer_WDAD: Coatom 44.2 1E+02 0.0022 33.3 8.5 47 288-338 335-381 (443)
20 PF12931 Sec16_C: Sec23-bindin 39.3 1.6E+02 0.0035 29.6 8.7 40 112-151 60-114 (284)
21 KOG0276 Vesicle coat complex C 33.3 66 0.0014 35.8 5.0 131 203-336 551-698 (794)
22 PF12816 Vps8: Golgi CORVET co 33.1 42 0.0009 31.9 3.2 47 255-302 23-70 (196)
23 PF07035 Mic1: Colon cancer-as 30.4 2.7E+02 0.0059 25.8 7.9 108 239-350 12-133 (167)
24 PF13374 TPR_10: Tetratricopep 29.8 72 0.0016 20.9 3.2 27 305-331 3-29 (42)
25 PF13424 TPR_12: Tetratricopep 28.2 1.4E+02 0.0031 22.7 5.1 48 285-332 26-74 (78)
26 PF13181 TPR_8: Tetratricopept 27.0 97 0.0021 19.5 3.3 28 305-332 2-29 (34)
27 PF00515 TPR_1: Tetratricopept 24.8 1.1E+02 0.0023 19.4 3.2 26 305-330 2-27 (34)
28 smart00028 TPR Tetratricopepti 23.2 1E+02 0.0022 17.5 2.7 25 306-330 3-27 (34)
29 KOG2041 WD40 repeat protein [G 22.2 4.4E+02 0.0096 30.2 8.8 51 288-339 895-945 (1189)
30 PF15182 OTOS: Otospiralin 21.9 90 0.0019 24.1 2.5 26 5-32 21-46 (69)
31 smart00299 CLH Clathrin heavy 21.4 2.3E+02 0.005 24.5 5.6 64 238-307 69-132 (140)
32 PF08437 Glyco_transf_8C: Glyc 20.3 1.1E+02 0.0024 23.0 2.8 28 302-329 25-52 (57)
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=2e-91 Score=762.74 Aligned_cols=421 Identities=31% Similarity=0.527 Sum_probs=239.6
Q ss_pred ccCCC-CCchHhHHHHHHHhhcchHHHHHHHhhccCcchhhhhhhhhHHHHHHHHHHHhCCCCCcccccccccccccchh
Q 011083 4 SLFNN-QEYWSLSERITCLLFHLILFYDRMLYSFISYSLVVIDQTENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKP 82 (494)
Q Consensus 4 ~~~~h-p~fW~~v~~l~~vlrG~~~~a~~lL~~h~~~~~~~~~~~~~~~~~~~~~lL~~~P~~~~~~~~~~~g~~~~~~~ 82 (494)
++++| |+||++|+++ |+||++++|+++|+.|+++... +.+++++.+++||++||+++++++ .+.+
T Consensus 143 ~p~~~~p~FW~~v~~l--vlrG~~~~a~~lL~~~s~~~~~----~~~~~~~~~~~LL~~~P~~~~~~~--------~s~~ 208 (566)
T PF07575_consen 143 PPYEHDPDFWDYVQRL--VLRGLFDQARQLLRLHSSYQSY----SLQSAFEALIQLLSSMPRYRPNSG--------QSES 208 (566)
T ss_dssp HSCSGSHHHHHHHHHH--HHTT-HHHHHHHH-TTTTTTTH----HHHHHHHHHHHHHTT--------------------S
T ss_pred CCCccchhHHHHHHHH--HHcCCHHHHHHHHHhcccccch----hHHHHHHHHHHHHHhCCCccccch--------hhhH
Confidence 46777 9999999999 9999999999999889988753 246899999999999999997653 4889
Q ss_pred HHHHHHHHHHHHHHhhhcccchhhhccccchHhHHHHHHHHcCCchHHhhhhchHHHHHHHHhhhccCCccccchHHHHH
Q 011083 83 DFMKAWEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLTCHWMELYIAHFLYIRPFTVGLESMYGLA 162 (494)
Q Consensus 83 eF~~~w~~W~~~~~~L~~~~~~~~~~~~~~~~~l~~l~~IL~G~~~~i~~~~~~WyE~~~a~~ly~~P~~~~~e~l~~~~ 162 (494)
+|..+|++||.+|+++... +.++..+.++++|+++++||+||+++|+++|+||||+++|+++|++|++++.|.+++++
T Consensus 209 ~f~~~~~~W~~~~~~l~~~--~~~~~~~~~~~~L~~l~~Il~G~~~~i~~~~~~WyE~~~a~~ly~~P~~~~~e~l~~~a 286 (566)
T PF07575_consen 209 EFSSQWREWKSECRRLRSS--SLQDGPFEIRENLEDLLKILLGDEDTILEYSQDWYEALVALLLYVDPTCKPFELLHEYA 286 (566)
T ss_dssp S-HHHHHHHHHHHHHHHHH--S---S-HHHHHHHHHHHHHHHT-HHHHHHT-SSHHHHHHHHHHHT------TTTHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH--hhccCchhhHHHHHHHHHHHCCCHHHHHHHhCcHHHHHHHhheeeCCCcchhhhHHHHH
Confidence 9999999999999986544 34445567899999999999999999999999999999999999999999986699999
Q ss_pred HHHHHhCCCCcCChhHHHHHHHHcCCHHHHHHHHhhccCc-chHHHHHHHHHcCCCcccchhhhhcccCCCCchhHHHHH
Q 011083 163 QKCIQLKPMAASHRLMGLLIGILGENIEVVLAECSKGFGP-WMVTHAIEVLTAGSHQADTLLHEERDNLGGISMEELHRL 241 (494)
Q Consensus 163 ~~~~~~~p~~~~~~ld~~~~~i~~~d~~~vl~~~~~~~d~-W~aaHl~dLL~~~g~~~~~~l~~~~~~~~~~~lre~~ll 241 (494)
+.|++.+|+++++++|+++.+||+||+.+||+.|+..+|+ ||+||++|||+++|.+. ...+.+.++.++|||+++
T Consensus 287 ~~~~~~~~~~~~~~~e~~~~~i~~~d~~~vL~~~~~~~~~~w~aahladLl~~~g~L~----~~~~~~~~~~~lre~~ll 362 (566)
T PF07575_consen 287 QSCLEEFPPDSTNPLEQILLAIFEGDIESVLKEISSLFDDWWFAAHLADLLEHKGLLE----DSEQEDFGGSSLREYLLL 362 (566)
T ss_dssp HHHHHHS---TTSTTHHHHHHHHTS--GGGHHHHHHH--HHHHHHHHHHHHHHTTSS------SS-----TS-HHHHHHH
T ss_pred HHHHhcCCCCCCCHHHHHHHHHHccCHHHHHHHHHHHccchhHHHHHHHHHHhcCccc----cccccccccccHHHHHHH
Confidence 9999999999999999999999999999999999877765 99999999999999632 123333435899999999
Q ss_pred HHHHHHccCCCchhhhhHHHHhchHhhHHHHHHhhccCCCCcHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhcCcch
Q 011083 242 VYAQVLSSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKG 321 (494)
Q Consensus 242 ~YA~~L~s~~~LW~vai~YL~~c~~~g~~~i~~lL~r~P~~s~~~~~k~l~iC~~~~L~~~a~~I~k~~g~~~~~~g~~g 321 (494)
+||++|++|++|||||++||++||++|+.+|+++|+|+|++||++++|++++|+++||++++++|||++|++++++|+||
T Consensus 363 ~YA~~L~s~~~lW~vai~yL~~c~~~g~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~~~~~~~g 442 (566)
T PF07575_consen 363 EYASSLMSHHSLWQVAIGYLSSCPDEGRERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRLLKEGRYG 442 (566)
T ss_dssp HHHHHHHT-TTTHHHHHHHHHS-SSS-HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhcCcchHHHHHHHHHHCChhhHHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHhccCCcchhhchHHHHHhhCCCCCCCCcchhhHhHHHHHHHHhhhccCCchHHH
Q 011083 322 SGVYWLQQARDEARLNRIAQQMFDSVGRSISDENFRQWEGLIQLLGSEPKTAGGLEFLHNYRDFKKSLLQIRDGKTTDAA 401 (494)
Q Consensus 322 ~Al~w~~ra~D~~~v~~iad~ll~~y~~~~s~~~~~~~~~ll~~l~~~~~~~~~L~fL~~Y~~f~~~~~~~~~~~~~~~~ 401 (494)
+||.|++||||...|++|+|.+|++|+.+| ++. .+++|+++++++..+++|+||++|++||++|++ |+ +
T Consensus 443 ~AL~~~~ra~d~~~v~~i~~~ll~~~~~~~--~~~--~~~ll~~i~~~~~~~~~L~fla~yreF~~~~~~---~~----~ 511 (566)
T PF07575_consen 443 EALSWFIRAGDYSLVTRIADRLLEEYCNNG--EPL--DDDLLDNIGSPMLLSQRLSFLAKYREFYELYDE---GD----F 511 (566)
T ss_dssp HHHHHHH-------------------------------------------------------------------------
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHhcCC--Ccc--cHHHHHHhcchhhhhhhhHHHHHHHHHHHHHhh---hh----H
Confidence 999999999999999999999999999885 333 258999999999999999999999999999966 44 4
Q ss_pred HHHHHHHHHhhcCCCCCccchHHhHHHHHhhhccCCCCcccHHHHHHHHHHHHHH
Q 011083 402 RQAVESLISLMKNPCTPQRFWLPLLHDSLKLLNWEERPLLNVLQTNLLLNKLQEL 456 (494)
Q Consensus 402 ~~Aa~~Lv~Ll~~~~~Pk~fw~~LL~dalpLLe~~~~~~fs~~~t~~Ll~~LEe~ 456 (494)
++|+++||+||+++++||+||++||+|++|||+.++ ++|+++|||+||+|||++
T Consensus 512 ~~Aa~~Lv~Ll~~~~~Pk~f~~~LL~d~lplL~~~~-~~f~~~~~~~ll~~Le~~ 565 (566)
T PF07575_consen 512 REAASLLVSLLKSPIAPKSFWPLLLCDALPLLESDE-VIFSSSDTYELLRCLEEL 565 (566)
T ss_dssp -------------------------------------------------------
T ss_pred HHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHhCCCC-CccCHHHHHHHHHHHHHh
Confidence 569999999999999999999999999999999976 889999999999999985
No 2
>KOG2271 consensus Nuclear pore complex component (sc Nup85) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-77 Score=628.50 Aligned_cols=464 Identities=23% Similarity=0.342 Sum_probs=397.7
Q ss_pred CccccCCCCCchHhHHHHHHHhhcchHHHHHHHhhccCcchhhhhhhhhHHHHHHHHHHHhCCCCCcccccccccccccc
Q 011083 1 MVLSLFNNQEYWSLSERITCLLFHLILFYDRMLYSFISYSLVVIDQTENGLVEAVAVLISKMPRMRPELEAGKLGECFKA 80 (494)
Q Consensus 1 ~~~~~~~hp~fW~~v~~l~~vlrG~~~~a~~lL~~h~~~~~~~~~~~~~~~~~~~~~lL~~~P~~~~~~~~~~~g~~~~~ 80 (494)
++..+.+|+.||++|+.+ |+||++++|+.+|..+...... ...+...+.+++++||.++++. .+
T Consensus 196 ~~~~~t~~d~fW~~v~~l--~l~G~ld~~i~~l~~~~~~~~~-----s~~~~v~~~~i~~s~pl~~~g~---------~~ 259 (678)
T KOG2271|consen 196 SVEDATEHDEFWKLVNSL--LLRGLLDQVISCLERSGLAPCL-----SFLCAVELLDILRSMPLLQQGP---------KD 259 (678)
T ss_pred cccCCCCCchHHHHHHHH--HHhhHHHHHHHHHHhcCCCccc-----hhHHHHHHHHHhCccccccccc---------hh
Confidence 356789999999999999 9999999999999955533322 2223478999999999998642 25
Q ss_pred hhHHHHHHHHHHHHHHhhhcccchhhhccccchHhHHHHHHHHcCCchHHhhhhchHHHHHHHHhhhccCCccccchHHH
Q 011083 81 KPDFMKAWEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLTCHWMELYIAHFLYIRPFTVGLESMYG 160 (494)
Q Consensus 81 ~~eF~~~w~~W~~~~~~L~~~~~~~~~~~~~~~~~l~~l~~IL~G~~~~i~~~~~~WyE~~~a~~ly~~P~~~~~e~l~~ 160 (494)
..+|...|+.|+.++.+ ..++.++.+++++++|+.+++||.||+++|+++++||||++++++||++|++++.+.+++
T Consensus 260 ls~t~~~Wk~w~~kle~---~~~~~qd~~~~t~~~le~lLkil~Gn~~~l~~~~~~Wye~f~~~lLy~~P~~k~~~~l~~ 336 (678)
T KOG2271|consen 260 LSETERRWKNWHLKLER---AGSKAQDISFETRDYLEDLLKILLGNERKLLAYSRTWYEYFVGFLLYYNPFLKPSDELIS 336 (678)
T ss_pred HHHHHHHHHHHHHHHHh---hhhhhccccccchhhHHHHHHHHcCCHHHHHHHhhhHHHHHHHHHHhcCcccCCCHHHHH
Confidence 67777777777776644 366788888999999999999999999999999999999999999999999999977999
Q ss_pred HHHHHHH----hCCCCcCChhHHHHHHHHcCCHHHHHHHHhhccCcchHHHHHHHHHcCCCcccchhhh-hcccCCCCch
Q 011083 161 LAQKCIQ----LKPMAASHRLMGLLIGILGENIEVVLAECSKGFGPWMVTHAIEVLTAGSHQADTLLHE-ERDNLGGISM 235 (494)
Q Consensus 161 ~~~~~~~----~~p~~~~~~ld~~~~~i~~~d~~~vl~~~~~~~d~W~aaHl~dLL~~~g~~~~~~l~~-~~~~~~~~~l 235 (494)
++++|.. .+|++++.++++++..+|+.|...+++.++..-+.||++|++||+.+.|... .+..+ ++.+..+..|
T Consensus 337 la~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~ik~~~~~~~~wl~~Hl~DLl~~s~h~~-~l~~~~ee~~i~~~nM 415 (678)
T KOG2271|consen 337 LAQECLTLDIFLGPENECVDLERILLPLLESDDSCVIKFLAMLENKWLAVHLFDLLKNSDHCS-NLDSEMEENLISGRNM 415 (678)
T ss_pred HHHHHhhhhhhcCCcccchhHHHHHHHHhccChHhHHHHHHhhhcchHHHHHHHHHhcccchh-hhchhhhhhccchHhH
Confidence 9999988 4688999999999999999999999999964425699999999994433211 12221 3445567789
Q ss_pred hHHHHHHHHHHHccCCCchhhhhHHHHhchHhhHHHHHHhhccCCCCcHHHHHHHHHHHHhcC-CchHHHHHHH-HHHHH
Q 011083 236 EELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQPVDHNQLLLKNLEICRLYE-LDSVSSNIMK-IAGMY 313 (494)
Q Consensus 236 re~~ll~YA~~L~s~~~LW~vai~YL~~c~~~g~~~i~~lL~r~P~~s~~~~~k~l~iC~~~~-L~~~a~~I~k-~~g~~ 313 (494)
|||++++||+.|++|+.|||+|++||++|++.|+.+|+.+|||+|+++|++++|+|++|+++| +.+++..+|+ +++++
T Consensus 416 re~~lleYas~L~sh~~lWqig~~Yl~~c~~~G~~~iellipripl~~~~~aek~L~lc~q~~~l~~~r~~~c~~v~a~~ 495 (678)
T KOG2271|consen 416 REYHLLEYASVLCSHKNLWQIGIGYLACCATEGLMRIELLIPRIPLVDNDMAEKLLSLCEQRGTLEDARMLSCKNVLAIR 495 (678)
T ss_pred HHHHHHHHHHHHHccchhhhHhHHHHHHhHhhhHHHHHHhcCCCCCCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999 5555559999 99999
Q ss_pred HHhcCcch-HHHHHHHHcCCHHHHHHHH-HHHHHHHhccCCcchhhchHHHHHhhCCCCCCCCcch-hhHhHHHHHHHHh
Q 011083 314 NWKHGKKG-SGVYWLQQARDEARLNRIA-QQMFDSVGRSISDENFRQWEGLIQLLGSEPKTAGGLE-FLHNYRDFKKSLL 390 (494)
Q Consensus 314 ~~~~g~~g-~Al~w~~ra~D~~~v~~ia-d~ll~~y~~~~s~~~~~~~~~ll~~l~~~~~~~~~L~-fL~~Y~~f~~~~~ 390 (494)
.+++|+|| ++++|..++++....+.++ |.++..|.+. .|+.+ +.++.+.+.+++++|+|+ ||++|++||+||.
T Consensus 496 ~~~~~~yges~laW~~~~~~~~~~~~~~~d~l~~~~sk~---~~~~d-~~li~~~~~~~~~tprL~sfl~~y~ef~q~y~ 571 (678)
T KOG2271|consen 496 LFDNGHYGESLLAWALRAKSCALGTKTSDDFLLAIYSKN---SPAKD-DVLIPNDGLAMVATPRLVSFLSPYAEFHQFYE 571 (678)
T ss_pred HHhcCcccHHHHHHHHHhhhhhhhhhhhhhhHhhhhhcc---cchhh-hhhhhccCcchhcchHHHHHHHHHHHHHHHHH
Confidence 99999999 9999999999999999999 8888888886 44444 689999999999999997 9999999999998
Q ss_pred hhccCCchHHHHHHHHHHHHhhcCCCCCccchHHhHHHHHhhhccCCCCcccHHHHHHHHHHHHHHHHhccCCCCc--CC
Q 011083 391 QIRDGKTTDAARQAVESLISLMKNPCTPQRFWLPLLHDSLKLLNWEERPLLNVLQTNLLLNKLQELSIARLRPDFI--EA 468 (494)
Q Consensus 391 ~~~~~~~~~~~~~Aa~~Lv~Ll~~~~~Pk~fw~~LL~dalpLLe~~~~~~fs~~~t~~Ll~~LEe~~~~~~~~~~~--~~ 468 (494)
.++..++. |+++||.||+++++|+.||+.|+.+..|+|++++..+|+.+.++++++++|++.....+.+.. ++
T Consensus 572 ~~d~~d~~-----a~~lLi~Lies~~~P~~~~~~Ll~~l~p~l~~~~~~~fs~e~~~sl~~~~~~~~~~~~r~~~~~~et 646 (678)
T KOG2271|consen 572 LRDFLDWG-----ASELLINLIESPDAPRSYLPLLLADLYPILESPDKIIFSKETVASLSHVYETLTDDAHRKSDSDTET 646 (678)
T ss_pred Hhhhcchh-----HHHHHHHHhhcccchHHHHHHHHHHHHHHHcCCccchhhHHHHHHHHHHHHHhhhhcccccccchhh
Confidence 86444432 899999999999999999999999999999999779999999999999999988766553222 22
Q ss_pred C-----CccchHHHHHHHHHHHHHHhhhhc
Q 011083 469 D-----LPPHALSSVRLALATNLGRTTLEE 493 (494)
Q Consensus 469 ~-----~~~~~l~~~RlaLarnlara~~~e 493 (494)
- ...-...++|+++|||||++++.|
T Consensus 647 v~~~d~~~~s~~~~L~la~a~~la~sl~~~ 676 (678)
T KOG2271|consen 647 VKKDDVLLLSSMARLSLAIAKNLAFSLIQE 676 (678)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 1 123457789999999999999886
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=98.10 E-value=0.0001 Score=74.55 Aligned_cols=234 Identities=17% Similarity=0.113 Sum_probs=133.3
Q ss_pred HhHHHHHHHhhcchHHHHHHHhhccCcchhhhhhhhhHHHHHHHHHHHhCCCCCcccccccccccccchhHHHHHHHHHH
Q 011083 13 SLSERITCLLFHLILFYDRMLYSFISYSLVVIDQTENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFMKAWEKWR 92 (494)
Q Consensus 13 ~~v~~l~~vlrG~~~~a~~lL~~h~~~~~~~~~~~~~~~~~~~~~lL~~~P~~~~~~~~~~~g~~~~~~~eF~~~w~~W~ 92 (494)
+.|..+ ++.|++.+|.++.-.+.++.+. .||..+ ...+ ........+...|+
T Consensus 4 e~if~~--L~~~~i~~A~~~A~~~~n~~LA--------------~Llsq~-~~~~-----------~~r~~~~~QL~~W~ 55 (290)
T PF12110_consen 4 EKIFLL--LSGHDIEEACELAIDSGNPHLA--------------TLLSQI-GGDP-----------AVRSLAKQQLEDWR 55 (290)
T ss_dssp HHHHHH--HHTT-HHHHHHHHHHTT-HHHH--------------HHHHHT-S--H-----------HHHHHHHHHHHHTT
T ss_pred HHHHHH--HHCCCHHHHHHHHHHCCCchHH--------------HHHHHh-cCCH-----------HHHHHHHHHHHHHH
Confidence 345666 9999999999998855544322 445444 1111 13445555677777
Q ss_pred HHHHhhhcccchhhhccccchHhHHHHHHHHcCCchHHhhhh-------chHHHHHHHHhhhccCCccccchHHHHHHHH
Q 011083 93 AQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLT-------CHWMELYIAHFLYIRPFTVGLESMYGLAQKC 165 (494)
Q Consensus 93 ~~~~~L~~~~~~~~~~~~~~~~~l~~l~~IL~G~~~~i~~~~-------~~WyE~~~a~~ly~~P~~~~~e~l~~~~~~~ 165 (494)
.. +. ...+.+.++.|+++|+|+........ =+|...++.++.|..|.... +.+.++.-
T Consensus 56 ~~------~~------~~~I~~~~~~iY~LLAG~~~~~~~~~~~~~~~~LdW~~~lgl~lwY~~~~~~s---l~~~v~~y 120 (290)
T PF12110_consen 56 ES------GA------DSFIDEPRRKIYELLAGNVFWSSGNKGINICEGLDWKRALGLHLWYGDPPDAS---LEDAVQSY 120 (290)
T ss_dssp SS------SS--------SS-HHHHHHHHHHHS-SSSSTT-SGGG-GGTS-HHHHHHHHHHTTTTSSS----HHHHHHHH
T ss_pred hC------CC------CeecCHHHHHHHHHhcCCCcccccccccccCCCCCHHHHHHHHHhCCCCCCCC---HHHHHHHH
Confidence 32 21 12356889999999999988765442 59999999999999887544 33333333
Q ss_pred HHhCCC-------------------CcCChhHHHH---HHHH---cCCHHHHHHHHhh---ccCcchHHHHHHHHHcCCC
Q 011083 166 IQLKPM-------------------AASHRLMGLL---IGIL---GENIEVVLAECSK---GFGPWMVTHAIEVLTAGSH 217 (494)
Q Consensus 166 ~~~~p~-------------------~~~~~ld~~~---~~i~---~~d~~~vl~~~~~---~~d~W~aaHl~dLL~~~g~ 217 (494)
.+.+.. +...+...++ +.++ ..++..++.-++. .+|.-++=|+..+|...|.
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 333211 1112223443 3344 2567788876643 3466788889999999874
Q ss_pred cccchhhhhcccCCCCchhHHHHHHHHHHHccCCCchhhhhHHHHhchHhh--HHHHHHhhcc-CCCCcHHHHHHHHHHH
Q 011083 218 QADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQG--MGLLEMLLYK-QPVDHNQLLLKNLEIC 294 (494)
Q Consensus 218 ~~~~~l~~~~~~~~~~~lre~~ll~YA~~L~s~~~LW~vai~YL~~c~~~g--~~~i~~lL~r-~P~~s~~~~~k~l~iC 294 (494)
.. . .....+.+.++||.+| ...++|+-|+=.+.+.++.. ...|.++|.| ++.-+++.-.+-..+.
T Consensus 201 ~~----------~-~~~~~d~lt~~fa~QL-e~~glw~~AlfVllhl~d~~~r~~~ir~ll~r~~~~~~~~~~~~~~~l~ 268 (290)
T PF12110_consen 201 RH----------D-SEDRADQLTLSFASQL-ESLGLWEWALFVLLHLSDDSSREQAIRELLARHIPELSSDDDEKEKFLL 268 (290)
T ss_dssp S--------------HHHHHHHHHHHHHHH-HHTT-HHHHHHHHHT-S-HHHHHHHHHHHHHHCTGGGST---TTTSHHH
T ss_pred Cc----------c-CccHHHHHHHHHHHHH-HhCCccHHHHHHHhcCCCHHHHHHHHHHHHHHhcccccccchhhHHHHH
Confidence 11 1 1235689999999999 55679999999999875544 6777777776 4433332212222334
Q ss_pred HhcCCch
Q 011083 295 RLYELDS 301 (494)
Q Consensus 295 ~~~~L~~ 301 (494)
.+++.|.
T Consensus 269 ~~L~IP~ 275 (290)
T PF12110_consen 269 EKLKIPE 275 (290)
T ss_dssp HHTT--H
T ss_pred HHcCcCH
Confidence 4555554
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=97.80 E-value=0.00085 Score=75.90 Aligned_cols=300 Identities=13% Similarity=0.094 Sum_probs=141.1
Q ss_pred CchHhHHHHHHHhhcchHHHHHHHhhccCcchhhhhhhhhHHHHHHHHHHHhCCCCCcccccc-ccc-ccccchhHHHHH
Q 011083 10 EYWSLSERITCLLFHLILFYDRMLYSFISYSLVVIDQTENGLVEAVAVLISKMPRMRPELEAG-KLG-ECFKAKPDFMKA 87 (494)
Q Consensus 10 ~fW~~v~~l~~vlrG~~~~a~~lL~~h~~~~~~~~~~~~~~~~~~~~~lL~~~P~~~~~~~~~-~~g-~~~~~~~eF~~~ 87 (494)
.||.+++.+ |.+|++++|+++-+..+ +... ...|.-++.+....-++ ... ..-..+. ..
T Consensus 135 ~~~~~i~~l--lR~G~~~eA~~lc~~~g--q~wr------------AasL~G~~~~~dp~~~~~~~~~~~~~~G~---~~ 195 (697)
T PF04121_consen 135 ALLKYIFEL--LRAGRIEEAQELCRERG--QPWR------------AASLCGWQLYHDPNLDPELSDEDERMEGN---RS 195 (697)
T ss_dssp HHHHHHHHH--HHTT-HHHHHHHHHHTT---HHH------------HHHHHTTSB-B-TTTSGGGTTT-SS-BSB---TT
T ss_pred HHHHHHHHH--HHCCCHHHHHHHHHHCC--CHHH------------HHHHcCccccCCcccccccccccccccCC---hh
Confidence 689999999 99999999999988444 2211 12222343332110000 000 0000111 13
Q ss_pred HHHHHHHHHhhhcccchhhhccccchHhHHHHHHHHcCCchHHhhhh-chHHHHHHHHhhhcc------------CCcc-
Q 011083 88 WEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLT-CHWMELYIAHFLYIR------------PFTV- 153 (494)
Q Consensus 88 w~~W~~~~~~L~~~~~~~~~~~~~~~~~l~~l~~IL~G~~~~i~~~~-~~WyE~~~a~~ly~~------------P~~~- 153 (494)
..-||..|-++.... .+.+.=+-|+..|+||-+.....| .+|-+.+-+++==.. |...
T Consensus 196 r~LWk~~c~~ls~~~--------~~~~yEraiY~~L~G~~~~~l~~~~~sWeD~lwa~~n~~l~~~~d~~l~~~~~~~~~ 267 (697)
T PF04121_consen 196 RALWKRACYKLSQNP--------NLDPYERAIYGALSGDLSSVLPVCSSSWEDYLWAYLNALLESRVDQELRSHCPKSSE 267 (697)
T ss_dssp HHHHHHHHHHHHHTS--------SS-HHHHHHHHHHHTS---HHHHTT-SHHHHHHHHHHHHHHHHHHHHHHHTTSS-GG
T ss_pred HHHHHHHHHHHHhCC--------CCCHHHHHHHHHHhcccHhhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHhCCCCch
Confidence 788999997763322 244788999999999999999999 999999877641110 1111
Q ss_pred ---ccc--------hHHHHHHHHHH----hCCCCcCChhHHHHHHHHcCCHHHHHHHHhhcc---------------Cc-
Q 011083 154 ---GLE--------SMYGLAQKCIQ----LKPMAASHRLMGLLIGILGENIEVVLAECSKGF---------------GP- 202 (494)
Q Consensus 154 ---~~e--------~l~~~~~~~~~----~~p~~~~~~ld~~~~~i~~~d~~~vl~~~~~~~---------------d~- 202 (494)
... ++..+++.-.. ..+....+|+-.+..+||-+++..++..+...+ ++
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 000 13333322201 111123356677889999999999999875554 11
Q ss_pred --chHHHHHHHHHcCCCcccchhhhhcccCCCCchhHHHHHHHHHHHccCCCchhhhhHHHHhc-hHhhHHHHHHhhccC
Q 011083 203 --WMVTHAIEVLTAGSHQADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSC-IKQGMGLLEMLLYKQ 279 (494)
Q Consensus 203 --W~aaHl~dLL~~~g~~~~~~l~~~~~~~~~~~lre~~ll~YA~~L~s~~~LW~vai~YL~~c-~~~g~~~i~~lL~r~ 279 (494)
=|.||+.=++...|. ... . ...-++-.|..|...|.... +..+-.=|.+.- ++......+.+|..+
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 256666655554442 000 0 11113348999999998875 678888888765 457788999999987
Q ss_pred CCCcHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----------------------cCcchHHHHHHHHcCCHHHHH
Q 011083 280 PVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMYNWK----------------------HGKKGSGVYWLQQARDEARLN 337 (494)
Q Consensus 280 P~~s~~~~~k~l~iC~~~~L~~~a~~I~k~~g~~~~~----------------------~g~~g~Al~w~~ra~D~~~v~ 337 (494)
. +...=.+.+++++++||+- ..|+|....+.+. ..+...|+.|+.-.+.+...=
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 5 2223356999999999973 2333332222211 225677888884443444333
Q ss_pred HHHHHHHHHHhccC
Q 011083 338 RIAQQMFDSVGRSI 351 (494)
Q Consensus 338 ~iad~ll~~y~~~~ 351 (494)
..+..++..+..+|
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 44566777766664
No 5
>KOG1964 consensus Nuclear pore complex, rNup107 component (sc Nup84) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=96.93 E-value=0.96 Score=50.16 Aligned_cols=298 Identities=13% Similarity=0.042 Sum_probs=172.9
Q ss_pred CchHhHHHHHHHhhcchHHHHHHHhhccCcchhhhhhhhhHHHHHHHHHHHhCCCCCcccccccccccccchhHHHHHHH
Q 011083 10 EYWSLSERITCLLFHLILFYDRMLYSFISYSLVVIDQTENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFMKAWE 89 (494)
Q Consensus 10 ~fW~~v~~l~~vlrG~~~~a~~lL~~h~~~~~~~~~~~~~~~~~~~~~lL~~~P~~~~~~~~~~~g~~~~~~~eF~~~w~ 89 (494)
.|.++++.+ +--|.+++|.++=+..+ +.. ..+.-.-+.+.+ =|...- +-. .+..++....+
T Consensus 222 ~~~k~~F~L--IRaG~~deal~Lck~~G--~~w------r~A~LqG~~~y~-dPnl~i-------~~E-~~~~eGn~~k~ 282 (800)
T KOG1964|consen 222 RFFKYIFEL--IRAGETDEALELCKRLG--NGW------RAAILQGISEYR-DPNLDI-------PLE-ASPQEGNKYKR 282 (800)
T ss_pred HHHHHHHHH--HHccchHHHHHHHHHhC--cHH------HHHHHHHHHHhh-CCCccc-------hhh-hCcccCCcHHH
Confidence 588999998 99999999999977433 211 011111111211 231110 001 25566677899
Q ss_pred HHHHHHHhhhcccchhhhccccchHhHHHHHHHHcCCchHHhhhhch-HHHHHHHHhhhc-----------cCCccccc-
Q 011083 90 KWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTNNLCTLTCH-WMELYIAHFLYI-----------RPFTVGLE- 156 (494)
Q Consensus 90 ~W~~~~~~L~~~~~~~~~~~~~~~~~l~~l~~IL~G~~~~i~~~~~~-WyE~~~a~~ly~-----------~P~~~~~e- 156 (494)
-||..|-.+..... ..+.=+-++..|+|+-..+.-.|.+ |-+.+=|++==. .|-....+
T Consensus 283 lwrrs~~~ltq~k~--------~d~YeRA~y~~lSG~l~nl~~l~~s~Wed~vWAy~n~~v~~~ie~~l~~a~~~~tq~~ 354 (800)
T KOG1964|consen 283 LWRRSCYQLTQEKS--------QDSYERAIYGALSGILGNLLPLLKSGWEDKVWAYLNSMVQARIEAYLGAAPLNETQET 354 (800)
T ss_pred HHHHHHHHHHHhhc--------cChHHHHHHHHHhccccchhhHHhcchHHHHHHHHHHHHHHHHHHHHhhccccccCCC
Confidence 99999976643221 2356678999999999998877766 988877764210 01000000
Q ss_pred -------------hHHHHHHHHHHhCCCCcCChhHHHHHHHHcCCHHHHHHHHhhccC---c--------chHHHHHHHH
Q 011083 157 -------------SMYGLAQKCIQLKPMAASHRLMGLLIGILGENIEVVLAECSKGFG---P--------WMVTHAIEVL 212 (494)
Q Consensus 157 -------------~l~~~~~~~~~~~p~~~~~~ld~~~~~i~~~d~~~vl~~~~~~~d---~--------W~aaHl~dLL 212 (494)
-+.++-....+..+.-..++++.+...++.+++..++....+.+. + =+.+|++-.+
T Consensus 355 p~~~~~~~lT~e~ifeEL~~~~~a~v~~ea~~~i~ilq~~lIld~~~~li~s~~~~l~~~~ng~~~p~lLRimtHlvlfl 434 (800)
T KOG1964|consen 355 PSDLFNGPLTSELIFEELRNEADARVEEEAQHPIDILQNHLILDLIKELIESVVEWLEKDRNGQVPPHLLRIMTHLVLFL 434 (800)
T ss_pred hhhhcCCcCcHHHHHHHHHHHhhhcchhhhhchHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHHHHHH
Confidence 123333333333444445678889999999999988887766441 1 2566666666
Q ss_pred HcCCCcccchhhhhcccCCCCchhHHHHHHHHHHHccCCCchhhhhHHHHhchHhh-HHHHHHhhccCCCCcHHHHHHHH
Q 011083 213 TAGSHQADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQG-MGLLEMLLYKQPVDHNQLLLKNL 291 (494)
Q Consensus 213 ~~~g~~~~~~l~~~~~~~~~~~lre~~ll~YA~~L~s~~~LW~vai~YL~~c~~~g-~~~i~~lL~r~P~~s~~~~~k~l 291 (494)
...|. .. ...-.+-.+..|-+-|.... .-++..=|-.+-|+.- ....+.+|..+. +++.=++.+
T Consensus 435 ~~~G~---------~~---~E~~s~~II~~YieLL~~~g-~~~lia~Yt~~L~e~l~l~~ys~fL~sVd--e~e~R~~~l 499 (800)
T KOG1964|consen 435 RISGL---------EV---NEDGSAKIILTYIELLARSG-HKNLIAFYTRFLPEDLQLEAYSRFLESVD--EDEEREIQL 499 (800)
T ss_pred HHhCC---------Cc---cccchHHHHHHHHHHHHhcC-CcchhHHHHHhCCchhhHHHHHHHHHHcC--ChhHHHHHH
Confidence 66662 11 22337789999999888733 3344444444444332 566777777664 344445688
Q ss_pred HHHHhcCCchHHHHHHHHHHHHHHhc----C--------------------cchHHHHHHHHc-CCHHHHHHHHHHHHHH
Q 011083 292 EICRLYELDSVSSNIMKIAGMYNWKH----G--------------------KKGSGVYWLQQA-RDEARLNRIAQQMFDS 346 (494)
Q Consensus 292 ~iC~~~~L~~~a~~I~k~~g~~~~~~----g--------------------~~g~Al~w~~ra-~D~~~v~~iad~ll~~ 346 (494)
+.+.+.+|+- ..|+++.-++-.++ | +..+++.|.++. .-..-+-+-+..+...
T Consensus 500 e~akq~~LDv--~~ia~~~ve~Ir~e~~~~~E~~~~d~~~~l~sgv~~~d~~~I~~leWLv~~p~q~~e~l~s~nai~Rk 577 (800)
T KOG1964|consen 500 ELAKQADLDV--GRIARTTVENIRKEDKTVGEESHIDHWPWLLSGVEEIDLALIEELEWLVRKPMQRTEALESANAIIRK 577 (800)
T ss_pred HHHHHcCCCH--HHHHHHHHHHHHHhccCccccccccchHHHhcccCHHHHHHHHHHHHHHhhHHHhhHHHHHHHHHHHH
Confidence 9999999953 33444443333322 1 345678888876 2222222333355556
Q ss_pred HhccC
Q 011083 347 VGRSI 351 (494)
Q Consensus 347 y~~~~ 351 (494)
|..+|
T Consensus 578 fL~~~ 582 (800)
T KOG1964|consen 578 FLASG 582 (800)
T ss_pred HHhcc
Confidence 65554
No 6
>KOG2168 consensus Cullins [Cell cycle control, cell division, chromosome partitioning]
Probab=94.89 E-value=9.1 Score=43.67 Aligned_cols=356 Identities=12% Similarity=0.044 Sum_probs=195.1
Q ss_pred CchHhHHHHHHHhhcchHHHHHHHhhccCcchhhhhhhhhHHHHHHHHHHHhC-CCCCcccccccccccccchhHHHHHH
Q 011083 10 EYWSLSERITCLLFHLILFYDRMLYSFISYSLVVIDQTENGLVEAVAVLISKM-PRMRPELEAGKLGECFKAKPDFMKAW 88 (494)
Q Consensus 10 ~fW~~v~~l~~vlrG~~~~a~~lL~~h~~~~~~~~~~~~~~~~~~~~~lL~~~-P~~~~~~~~~~~g~~~~~~~eF~~~w 88 (494)
.=|+.|+-+ +=+|.++.|.+.++...++ ++.+.++...+ -.+... .. -..+.+ ..
T Consensus 327 P~W~~vyy~--lR~G~lk~A~~~l~e~~~~------------~~~l~~~f~~y~~A~~~~-~~------~~le~q---lr 382 (835)
T KOG2168|consen 327 PLWPLVYYL--LRCGDLKAASQFLNENKDF------------FEKLAELFPTYFNAYAKN-LS------SKLEKQ---LR 382 (835)
T ss_pred cchHHHHHH--HhhhhHHHHHHHHHHhhhh------------HHHHHHHHHHHHHhhhcC-CC------ccccHH---HH
Confidence 469999998 9999999999999954422 32333333332 111100 00 012222 23
Q ss_pred HHHHHHHHhhhcccchhhhccccchHhHHHHHHHHcC-----CchHHhhhhchHHHHHHHHhhhccC-----CccccchH
Q 011083 89 EKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLG-----NTNNLCTLTCHWMELYIAHFLYIRP-----FTVGLESM 158 (494)
Q Consensus 89 ~~W~~~~~~L~~~~~~~~~~~~~~~~~l~~l~~IL~G-----~~~~i~~~~~~WyE~~~a~~ly~~P-----~~~~~e~l 158 (494)
-+|+++. | ...+++.=+-+++||.| +-.+++...+||.=+=...+-..+- +.+. .+
T Consensus 383 l~~~~~l-----~-------~~~~DpyK~AvY~iig~cd~~~~~~ev~~tiED~LW~kL~~ir~~~~~sds~~~~~--~~ 448 (835)
T KOG2168|consen 383 LRLRSEL-----G-------RNSTDPYKLAVYKIIGGCDLRRDLPEVADTIEDFLWFKLSLIRVDDQGSDSPTDEL--FL 448 (835)
T ss_pred HHHHHHh-----c-------cccCChHHHHHHHHHhcCccccccHHHHhHHHHHHHHHHHheeecCCCCcchHHhh--hh
Confidence 3344332 1 11255788899999999 4455777777754332222222221 1111 14
Q ss_pred HHHHHHHHHhCCCCc-----CChhHHHHHHHHcCCHHHHHHHHhhccCc-chHHHHHHHHHcCCCcccchhh-h----hc
Q 011083 159 YGLAQKCIQLKPMAA-----SHRLMGLLIGILGENIEVVLAECSKGFGP-WMVTHAIEVLTAGSHQADTLLH-E----ER 227 (494)
Q Consensus 159 ~~~~~~~~~~~p~~~-----~~~ld~~~~~i~~~d~~~vl~~~~~~~d~-W~aaHl~dLL~~~g~~~~~~l~-~----~~ 227 (494)
.++.+..+..++++- .++.==...=.+.|-.+.+|..+...... .=|+|+|-.|...|++...--. . ..
T Consensus 449 ~~~~~~il~~YG~sYFt~ng~~p~~Yf~~LlLsgqfe~AI~fL~~~~~~~~dAVH~AI~l~~lglL~~~~s~~~~ll~~d 528 (835)
T KOG2168|consen 449 LEDQKDILEAYGESYFTNNGSQPLLYFQVLLLSGQFERAIEFLHREEPNRIDAVHVAIALAELGLLRTSSSTSQELLSID 528 (835)
T ss_pred HHHHHHHHHHhHHHhhccCCCChHHHHHHHHHHHhHHHHHHHHHhhcCCcchhHHHHHHHHHhhhhccCCCCCCcccccC
Confidence 556667777776531 12211112224466677778777443333 5899999888777753211000 0 01
Q ss_pred ccCCCCc--h-hHHHHHHHHHHHccCCCchhhhhHHHHh--c--hHhhHHHHHHhhccCCCCcHHHHHHHHH--------
Q 011083 228 DNLGGIS--M-EELHRLVYAQVLSSHPLTWQIAPIYLTS--C--IKQGMGLLEMLLYKQPVDHNQLLLKNLE-------- 292 (494)
Q Consensus 228 ~~~~~~~--l-re~~ll~YA~~L~s~~~LW~vai~YL~~--c--~~~g~~~i~~lL~r~P~~s~~~~~k~l~-------- 292 (494)
.+..... + --.++..|-..... .-=++|.+|+.. | ...|+......+-.+-++|++....++-
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 PNDPPKSRRLNFARLIIAYTKSFEY--TDTRVALQYYYLLRLNKDPQGSNLFLKCVCELVLETEEEFDLILGKIKPDGSR 606 (835)
T ss_pred CCCCcccccccHHHHHHHHHHHHHh--ccchhhhheeeeecccCChhHHHHHHHHHHHHHHhccccHHHHhcccCCCCCC
Confidence 1222222 2 24566667666333 223677777653 4 3455543333333333444444444442
Q ss_pred ----HHHhcCCchHHHHHHHHHHHHHHhcCcchHHHHHHHHcCCHHHHHHHHHHHHHHHhccCCc-chhh-chHHHHHhh
Q 011083 293 ----ICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNRIAQQMFDSVGRSISD-ENFR-QWEGLIQLL 366 (494)
Q Consensus 293 ----iC~~~~L~~~a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D~~~v~~iad~ll~~y~~~~s~-~~~~-~~~~ll~~l 366 (494)
+-+-..+.+--++|.-..|.++-..|+|+.|+--+-+|||++.+-.+.+..|...+.+... .+.. .+.+++.++
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 2222223345677888899999999999999999999999999999999988776554200 1111 122333332
Q ss_pred -------CCC--CCCCCcchhhHhHHHHHHHHhhhccCCchHHHHHHHHHHHHhh
Q 011083 367 -------GSE--PKTAGGLEFLHNYRDFKKSLLQIRDGKTTDAARQAVESLISLM 412 (494)
Q Consensus 367 -------~~~--~~~~~~L~fL~~Y~~f~~~~~~~~~~~~~~~~~~Aa~~Lv~Ll 412 (494)
+.. ...-.++.-|-+|..|.+.|.. |++. +|.+.|-+|.
T Consensus 687 ~~~y~~~~~~~~~~~~~t~~lLl~~~~~f~~y~~---~~~e----~aL~~le~l~ 734 (835)
T KOG2168|consen 687 NDIYESNKGDSAKVVVKTLSLLLDLVSFFDLYHN---GEWE----EALSILEHLD 734 (835)
T ss_pred HHHHHhccCcchhhHHHHHHHHHHHHHHHHHHhh---hHHH----HHHHHHHHHh
Confidence 111 1111145669999999999955 5554 4777776664
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=93.16 E-value=10 Score=42.52 Aligned_cols=367 Identities=11% Similarity=0.081 Sum_probs=178.6
Q ss_pred CCCCCchHhHHHHHHHhhcchHHHHHHHhhccCcchhhhhhhhhHHHHHHHHHHHhCCCCCcccccccccccccchhHHH
Q 011083 6 FNNQEYWSLSERITCLLFHLILFYDRMLYSFISYSLVVIDQTENGLVEAVAVLISKMPRMRPELEAGKLGECFKAKPDFM 85 (494)
Q Consensus 6 ~~hp~fW~~v~~l~~vlrG~~~~a~~lL~~h~~~~~~~~~~~~~~~~~~~~~lL~~~P~~~~~~~~~~~g~~~~~~~eF~ 85 (494)
.+...-|..|+-| +=.|..++|.+....+.+.... .-+.+...++.+-..... .... .....
T Consensus 109 ~~~~p~Wa~Iyy~--LR~G~~~~A~~~~~~~~~~~~~--------~~~~f~~~l~~~~~s~~~----~l~~--~~~~~-- 170 (613)
T PF04097_consen 109 VNGDPIWALIYYC--LRCGDYDEALEVANENRNQFQK--------IERSFPTYLKAYASSPDR----RLPP--ELRDK-- 170 (613)
T ss_dssp ETTEEHHHHHHHH--HTTT-HHHHHHHHHHTGGGS-T--------TTTHHHHHHHHCTTTTSS-------T--CCCHH--
T ss_pred CCCCccHHHHHHH--HhcCCHHHHHHHHHHhhhhhcc--------hhHHHHHHHHHHHhCCCC----CCCH--HHHHH--
Confidence 3555689999998 8889999999999433322211 112334445544322110 0000 01111
Q ss_pred HHHHHHHHHHHhhhcccchhhhccccchHhHHHHHHHHcCCch------HHhhhhchHHHHHHHHhhhccCCcc----cc
Q 011083 86 KAWEKWRAQIAKLECSTFWIQCAHRQTQEGLRNMLQIMLGNTN------NLCTLTCHWMELYIAHFLYIRPFTV----GL 155 (494)
Q Consensus 86 ~~w~~W~~~~~~L~~~~~~~~~~~~~~~~~l~~l~~IL~G~~~------~i~~~~~~WyE~~~a~~ly~~P~~~----~~ 155 (494)
-..+|+..++.... .++.=.-+++||.+-+- .|+...+||.=+=....--..+... .+
T Consensus 171 -l~~ey~~~~r~~~~-----------~DpyK~AvY~ilg~cD~~~~~~~~V~~tiED~LW~~L~~vr~~~~~~~~~~e~~ 238 (613)
T PF04097_consen 171 -LKLEYNQRIRNSTD-----------GDPYKRAVYKILGRCDLSRRHLPEVARTIEDWLWLQLSLVREDERSSSSAYERY 238 (613)
T ss_dssp -HHHHHHHHTTT-TT-----------S-HHHHHHHHHHHT--CCC-S-TTC--SHHHHHHHHHHH---TTSSSSSSS---
T ss_pred -HHHHHHHHhcCCCC-----------CChHHHHHHHHHhcCCccccchHHHhCcHHHHHHHHHHhhccCCCccccccccc
Confidence 12334433321110 03556677788754333 3455567765333333333333222 22
Q ss_pred chHHHHHHHHHHhCCCCc----CChhHHHHHHHHcCCHHHHHHHHhh-ccCcchHHHHHHHHHcCCCcccchhhhhccc-
Q 011083 156 ESMYGLAQKCIQLKPMAA----SHRLMGLLIGILGENIEVVLAECSK-GFGPWMVTHAIEVLTAGSHQADTLLHEERDN- 229 (494)
Q Consensus 156 e~l~~~~~~~~~~~p~~~----~~~ld~~~~~i~~~d~~~vl~~~~~-~~d~W~aaHl~dLL~~~g~~~~~~l~~~~~~- 229 (494)
.+.++-+... .+|+.. .+++-=.-.=++.|-.+.+|..+.. ....-=++|+|=.|+..|++.. -.....+
T Consensus 239 -~L~~LQ~~i~-~~Ge~~F~~~~~p~~Yf~~LlLtgqFE~AI~~L~~~~~~~~dAVH~AIaL~~~gLL~~--~~~~~~~l 314 (613)
T PF04097_consen 239 -TLEDLQKLIL-KYGESHFNAGSNPLLYFQVLLLTGQFEAAIEFLYRNEFNRVDAVHFAIALAYYGLLRV--SDSSSAPL 314 (613)
T ss_dssp --HHHHHHHHH-HH-GGGCTT------HHHHHHHTT-HHHHHHHHHT--T-HHHHHHHHHHHHHTT--------------
T ss_pred -cHHHHHHHHH-HhchhhcccchhHHHHHHHHHHHhhHHHHHHHHHhhccCcccHHHHHHHHHHcCCCCC--CCccccce
Confidence 2444333333 544322 2233223344678999999999964 2345779999999999885321 0000000
Q ss_pred --CCCC---ch-hHHHHHHHHHHHccCCCchhhhhHHHHh-chH---hhHHHHHHhhccCCCCcH---------------
Q 011083 230 --LGGI---SM-EELHRLVYAQVLSSHPLTWQIAPIYLTS-CIK---QGMGLLEMLLYKQPVDHN--------------- 284 (494)
Q Consensus 230 --~~~~---~l-re~~ll~YA~~L~s~~~LW~vai~YL~~-c~~---~g~~~i~~lL~r~P~~s~--------------- 284 (494)
.... .+ =--+|..|....- .+==+.|++|+.. |.. .|...-.+.+.++=++|.
T Consensus 315 ls~~~~~~~~ln~arLI~~Y~~~F~--~td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r 392 (613)
T PF04097_consen 315 LSVDPGDPPPLNFARLIGQYTRSFE--ITDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDLLLGDINPDGSR 392 (613)
T ss_dssp ------------HHHHHHHHHHTTT--TT-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-E
T ss_pred eeecCCCCCCcCHHHHHHHHHHHHh--ccCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHHHCCCCCCCCcc
Confidence 0000 00 0124555555332 2234789999974 422 333333333333333222
Q ss_pred --HHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhcCcchHHHHHHHHcCCHHHHHHHHHHHHHHHhccCCc----chh-h
Q 011083 285 --QLLLKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNRIAQQMFDSVGRSISD----ENF-R 357 (494)
Q Consensus 285 --~~~~k~l~iC~~~~L~~~a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D~~~v~~iad~ll~~y~~~~s~----~~~-~ 357 (494)
--+++=+.+-.-.+.++..++|....|.++-.+|++..|+.-+..|++.+.|=.+.+..|.+.+...+. ... .
T Consensus 393 ~~G~i~~~~~Li~~~~~~~~~~~i~~~~A~~~e~~g~~~dAi~Ly~La~~~d~vl~lln~~Ls~~l~~~~~~~~~~s~~~ 472 (613)
T PF04097_consen 393 TPGLIERRLSLIKFDDDEDFLREIIEQAAREAEERGRFEDAILLYHLAEEYDKVLSLLNRLLSQVLSQPSSSSLSDSERE 472 (613)
T ss_dssp EE-HHHHTGGGGT-SSSSHHHHHHHHHHHHHHHHCT-HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHCSSTSSSSSTTTT
T ss_pred ccceeeccccccCCCCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCccccccccchhh
Confidence 122221122222344677999999999999999999999999999999999999999999887665322 011 1
Q ss_pred ch----HHHHHhhCCCCC----CCC----cchhhHhHHHHHHHHhhhccCCchHHHHHHHHHHHHhhcCCCCC
Q 011083 358 QW----EGLIQLLGSEPK----TAG----GLEFLHNYRDFKKSLLQIRDGKTTDAARQAVESLISLMKNPCTP 418 (494)
Q Consensus 358 ~~----~~ll~~l~~~~~----~~~----~L~fL~~Y~~f~~~~~~~~~~~~~~~~~~Aa~~Lv~Ll~~~~~P 418 (494)
++ ..+++....... .+. .+.-|-+-.+|+.+|.. |++.. |.+.+-.| ++.|
T Consensus 473 ~l~~la~~i~~~y~~~~~~~~~~~~~~~~t~~~Ll~L~~ff~~~~~---g~~~~----AL~~i~~L---~liP 535 (613)
T PF04097_consen 473 RLIELAKEILERYKSNPHISSKVSRKNRETFQLLLDLAEFFDLYHA---GQYEQ----ALDIIEKL---DLIP 535 (613)
T ss_dssp SHHHHHHHHHHHHTTSHHHHTTS-HHHHHHHHHHHHHHHHHHHHHT---T-HHH----HHHHHHHT---T-S-
T ss_pred hHHHHHHHHHHHHHhCcchHhhccHHHHHHHHHHHHHHHHHHHHHc---CCHHH----HHHHHHhC---CCCC
Confidence 11 233333333211 111 23448888888888855 66653 55554444 6777
No 8
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=76.12 E-value=7 Score=34.35 Aligned_cols=59 Identities=12% Similarity=0.205 Sum_probs=40.3
Q ss_pred cHHHHHHHHHHHHhcCCchHHHHHHHHHHHH------HHhc-CcchHHHHHHHHcCCHHHHHHHHH
Q 011083 283 HNQLLLKNLEICRLYELDSVSSNIMKIAGMY------NWKH-GKKGSGVYWLQQARDEARLNRIAQ 341 (494)
Q Consensus 283 s~~~~~k~l~iC~~~~L~~~a~~I~k~~g~~------~~~~-g~~g~Al~w~~ra~D~~~v~~iad 341 (494)
+.-++++++++|.+.++.+.+--+++..|+. .+.+ +++..|+.++.+.+|...-..++.
T Consensus 68 ~~yd~~~~~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~~~~lw~~~~~ 133 (140)
T smart00299 68 NHYDIEKVGKLCEKAKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQNNPELWAEVLK 133 (140)
T ss_pred ccCCHHHHHHHHHHcCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCCCHHHHHHHHH
Confidence 3457888999999999999998888776542 2223 566666666666666554444443
No 9
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=73.27 E-value=18 Score=41.62 Aligned_cols=79 Identities=20% Similarity=0.191 Sum_probs=66.3
Q ss_pred hHhhHHHHHHhhcc----CCCCcHH------HH-HHHHHHHHhcCCchHHHHHHHHHHHHHHhcCcchHHHHHHHHcCCH
Q 011083 265 IKQGMGLLEMLLYK----QPVDHNQ------LL-LKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDE 333 (494)
Q Consensus 265 ~~~g~~~i~~lL~r----~P~~s~~------~~-~k~l~iC~~~~L~~~a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D~ 333 (494)
..+|.++++++..+ +|++.++ -+ -..+.---+++.+...+.+.+.++.-+..+|..-+|+..+.+|||+
T Consensus 297 ~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~~~~~~~~lH~~Aa~w~~~~g~~~eAI~hAlaA~d~ 376 (894)
T COG2909 297 EENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRELAARLKELHRAAAEWFAEHGLPSEAIDHALAAGDP 376 (894)
T ss_pred CCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhccccCCchhHHHHHHHHHHHhCCChHHHHHHHHhCCCH
Confidence 35889999999988 4666554 22 3377777788889999999999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 011083 334 ARLNRIAQQM 343 (494)
Q Consensus 334 ~~v~~iad~l 343 (494)
.....+.+..
T Consensus 377 ~~aa~lle~~ 386 (894)
T COG2909 377 EMAADLLEQL 386 (894)
T ss_pred HHHHHHHHhh
Confidence 9988887665
No 10
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=66.14 E-value=16 Score=41.77 Aligned_cols=71 Identities=13% Similarity=0.105 Sum_probs=55.1
Q ss_pred HHHhc--hHhhHHHHHHhhccCCCCcHH--HHHHHHHHHHhcCCchHHHHHHHHHHHHHH-------hcCcchHHHHHHH
Q 011083 260 YLTSC--IKQGMGLLEMLLYKQPVDHNQ--LLLKNLEICRLYELDSVSSNIMKIAGMYNW-------KHGKKGSGVYWLQ 328 (494)
Q Consensus 260 YL~~c--~~~g~~~i~~lL~r~P~~s~~--~~~k~l~iC~~~~L~~~a~~I~k~~g~~~~-------~~g~~g~Al~w~~ 328 (494)
.|-.| .-.-...|.+++.+.| ..+. +++-++++|++++.-+.|.-+++.+++.-+ ..|+|-+|+.|..
T Consensus 436 lLLncYiKlkd~~kL~efI~~~~-~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~he~vl~ille~~~ny~eAl~yi~ 514 (933)
T KOG2114|consen 436 LLLNCYIKLKDVEKLTEFISKCD-KGEWFFDVETALEILRKSNYLDEAELLATKFKKHEWVLDILLEDLHNYEEALRYIS 514 (933)
T ss_pred HHHHHHHHhcchHHHHHHHhcCC-CcceeeeHHHHHHHHHHhChHHHHHHHHHHhccCHHHHHHHHHHhcCHHHHHHHHh
Confidence 34444 2344678999999999 4443 578899999999999999999999998433 2579999999987
Q ss_pred HcC
Q 011083 329 QAR 331 (494)
Q Consensus 329 ra~ 331 (494)
+.-
T Consensus 515 slp 517 (933)
T KOG2114|consen 515 SLP 517 (933)
T ss_pred cCC
Confidence 763
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=64.57 E-value=23 Score=35.24 Aligned_cols=93 Identities=12% Similarity=0.143 Sum_probs=61.0
Q ss_pred CCchhHHHHHHHHHHHccCCCchhhhhHHHHhchHhhHHHHHHhhccCCCCcH---HHHHHHHHHHHhcCCchHHHHHHH
Q 011083 232 GISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQPVDHN---QLLLKNLEICRLYELDSVSSNIMK 308 (494)
Q Consensus 232 ~~~lre~~ll~YA~~L~s~~~LW~vai~YL~~c~~~g~~~i~~lL~r~P~~s~---~~~~k~l~iC~~~~L~~~a~~I~k 308 (494)
+..|.-+++-.|-..- ..|.+..+.++.+++..+|-++. +=+.+++.+.+.-+-+.=--.+..
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 5677777777776610 01345567899999999886542 223446666622222233457999
Q ss_pred HHHHHHHhcCcchHHHHHHHHcCCHHHHHH
Q 011083 309 IAGMYNWKHGKKGSGVYWLQQARDEARLNR 338 (494)
Q Consensus 309 ~~g~~~~~~g~~g~Al~w~~ra~D~~~v~~ 338 (494)
++|...+++|+|.+|-.+++.+.|......
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 999999999999999999999999988765
No 12
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.74 E-value=1.6e+02 Score=34.82 Aligned_cols=132 Identities=14% Similarity=0.121 Sum_probs=78.6
Q ss_pred hhHH-HHHHHHcCCHHHHHHHHhhccCcchHHHHHHHHHcCCCcccchhhhhcccCCCCchhHHHHHHHHHHHccCCCch
Q 011083 176 RLMG-LLIGILGENIEVVLAECSKGFGPWMVTHAIEVLTAGSHQADTLLHEERDNLGGISMEELHRLVYAQVLSSHPLTW 254 (494)
Q Consensus 176 ~ld~-~~~~i~~~d~~~vl~~~~~~~d~W~aaHl~dLL~~~g~~~~~~l~~~~~~~~~~~lre~~ll~YA~~L~s~~~LW 254 (494)
..|. |..+++.||+..+++.|. -.+|++.-+ ++.+.| +..+.+....+|....=+.
T Consensus 489 d~d~~Is~alitgd~~~aV~~cl--~~~~~a~Al--iiA~~g---------------g~el~~~t~~~Y~~k~~~k---- 545 (1049)
T KOG0307|consen 489 DIDGLISEALITGDFKSAVELCL--EANKMADAL--IIAHAG---------------GTELLESTRDKYLAKSNSK---- 545 (1049)
T ss_pred cHHHHHHHHHHhccHHHHHHHHH--hhhHHHHHH--HHHhcC---------------CHHHHHHHHHHHHHHhCCh----
Confidence 4554 458999999999999993 355665422 223322 2223344444443322221
Q ss_pred hhhhHHHHhchHhhHHHHHHhhccCCCCcHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhcC-cchHHHHHHHHcCCH
Q 011083 255 QIAPIYLTSCIKQGMGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMYNWKHG-KKGSGVYWLQQARDE 333 (494)
Q Consensus 255 ~vai~YL~~c~~~g~~~i~~lL~r~P~~s~~~~~k~l~iC~~~~L~~~a~~I~k~~g~~~~~~g-~~g~Al~w~~ra~D~ 333 (494)
+.-|.+|-. ..-+..+.+.-++...+.+.. .||.-.+ .+...++|-++|.|+...| ..-.|+.+|+=+|..
T Consensus 546 ---~s~li~a~v--~~d~~~~ve~~~~k~Wke~la--~i~t~~~-~~~~~elc~~Lg~rl~~~g~~~~~a~lcYi~agsv 617 (1049)
T KOG0307|consen 546 ---LSRLIYAMV--NRDLDDYVETCEVKQWKETLA--AICTYAQ-TDEFSELCDMLGDRLENAGDLTSAAILCYICAGSV 617 (1049)
T ss_pred ---HHHHHHHHH--hhhHHHHHhhcchhhHHHHHH--HHHHhcc-hhhHHHHHHHHHHHHhhccchhhhhhHHhhhccCh
Confidence 112223321 112444555556666555554 2333322 2788999999999999999 788899999999998
Q ss_pred HHHHH
Q 011083 334 ARLNR 338 (494)
Q Consensus 334 ~~v~~ 338 (494)
.++-.
T Consensus 618 ~k~v~ 622 (1049)
T KOG0307|consen 618 DKLVE 622 (1049)
T ss_pred hhhHH
Confidence 87543
No 13
>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=54.05 E-value=78 Score=29.45 Aligned_cols=58 Identities=10% Similarity=-0.053 Sum_probs=45.9
Q ss_pred HHHHHHHHhcCCchHHHHHHHHHHHHHHhcCcchHHHHHHHHcCCHH-HHHHHHHHHHH
Q 011083 288 LKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEA-RLNRIAQQMFD 345 (494)
Q Consensus 288 ~k~l~iC~~~~L~~~a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D~~-~v~~iad~ll~ 345 (494)
+.=+.-.++..-.+..+....-.|....+-|++.+|+.++.|+.|.. ..+.+.|+.|.
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 33455555655566678888999999999999999999999999986 46777777664
No 14
>PF11237 DUF3038: Protein of unknown function (DUF3038); InterPro: IPR021399 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=53.47 E-value=46 Score=30.98 Aligned_cols=39 Identities=18% Similarity=0.138 Sum_probs=30.5
Q ss_pred chHhhHHHHHHhhccCCCCcHHHHHHHHHHHHhcCCchH
Q 011083 264 CIKQGMGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSV 302 (494)
Q Consensus 264 c~~~g~~~i~~lL~r~P~~s~~~~~k~l~iC~~~~L~~~ 302 (494)
|+.+++..++.+|.-+..=+.-.-|-++..|.+.||..+
T Consensus 1 ~~~~~~~~LDLlLLAlEaL~~~gsEaml~~a~~L~L~~~ 39 (171)
T PF11237_consen 1 CLRRIREQLDLLLLALEALDLNGSEAMLWAAQQLGLQSI 39 (171)
T ss_pred CchHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHcCCccc
Confidence 888999999998877653333355679999999999886
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=50.55 E-value=2.4 Score=37.42 Aligned_cols=71 Identities=15% Similarity=0.111 Sum_probs=52.9
Q ss_pred HHHHHhhccCCCCcHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH------hcCcchHHHHHHHHcCCHHHHHHHHHHH
Q 011083 270 GLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSSNIMKIAGMYNW------KHGKKGSGVYWLQQARDEARLNRIAQQM 343 (494)
Q Consensus 270 ~~i~~lL~r~P~~s~~~~~k~l~iC~~~~L~~~a~~I~k~~g~~~~------~~g~~g~Al~w~~ra~D~~~v~~iad~l 343 (494)
..+..+|... ++-++.+++++|.++|+.+.+.-++..+|+..- ..+.+-.|+.++.+.+|......+.+..
T Consensus 59 ~~l~~~L~~~---~~yd~~~~~~~c~~~~l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~ 135 (143)
T PF00637_consen 59 EKLLEFLKTS---NNYDLDKALRLCEKHGLYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYC 135 (143)
T ss_dssp CHHHHTTTSS---SSS-CTHHHHHHHTTTSHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHH
T ss_pred hHHHHHcccc---cccCHHHHHHHHHhcchHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHH
Confidence 5566666632 224778899999999999999999999887654 4478999999999999966555544433
No 16
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.13 E-value=29 Score=39.68 Aligned_cols=55 Identities=11% Similarity=0.173 Sum_probs=46.0
Q ss_pred HHHHHHhcCCch-HHHHHHHHHHHHHHhcCcchHHHHHHHHcCCHHHHHHHHHHHH
Q 011083 290 NLEICRLYELDS-VSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNRIAQQMF 344 (494)
Q Consensus 290 ~l~iC~~~~L~~-~a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D~~~v~~iad~ll 344 (494)
++.+++..+++. ..++|.+.+|..+.++|++-+|+.|++++=+.--...|...++
T Consensus 353 Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s~Vi~kfL 408 (933)
T KOG2114|consen 353 AINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPSEVIKKFL 408 (933)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChHHHHHHhc
Confidence 568999999987 5778999999999999999999999999976666665554443
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=46.14 E-value=2.1e+02 Score=28.44 Aligned_cols=29 Identities=28% Similarity=0.269 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhcC-cchHHHHHHHHcCCH
Q 011083 305 NIMKIAGMYNWKHG-KKGSGVYWLQQARDE 333 (494)
Q Consensus 305 ~I~k~~g~~~~~~g-~~g~Al~w~~ra~D~ 333 (494)
.+|...|...++++ ++.+|+.|+.||.|.
T Consensus 36 ~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~ 65 (278)
T PF08631_consen 36 RVCYNIGKSLLSKKDKYEEAVKWLQRAYDI 65 (278)
T ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 46677899999999 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=45.66 E-value=30 Score=21.82 Aligned_cols=26 Identities=12% Similarity=0.234 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhcCcchHHHHHHHHc
Q 011083 305 NIMKIAGMYNWKHGKKGSGVYWLQQA 330 (494)
Q Consensus 305 ~I~k~~g~~~~~~g~~g~Al~w~~ra 330 (494)
+++..+|.-..+.|++.+|+.++-++
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 46778899999999999999999876
No 19
>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=44.25 E-value=1e+02 Score=33.28 Aligned_cols=47 Identities=21% Similarity=0.124 Sum_probs=35.7
Q ss_pred HHHHHHHHhcCCchHHHHHHHHHHHHHHhcCcchHHHHHHHHcCCHHHHHH
Q 011083 288 LKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNR 338 (494)
Q Consensus 288 ~k~l~iC~~~~L~~~a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D~~~v~~ 338 (494)
+-++++|.+.. .....|.+|..++++|++-.|-.++.|++|...+.-
T Consensus 335 ~~A~~~a~~~~----~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d~~~L~l 381 (443)
T PF04053_consen 335 DIALEIAKELD----DPEKWKQLGDEALRQGNIELAEECYQKAKDFSGLLL 381 (443)
T ss_dssp HHHHHHCCCCS----THHHHHHHHHHHHHTTBHHHHHHHHHHCT-HHHHHH
T ss_pred HHHHHHHHhcC----cHHHHHHHHHHHHHcCCHHHHHHHHHhhcCccccHH
Confidence 33444444433 344789999999999999999999999999998653
No 20
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=39.26 E-value=1.6e+02 Score=29.55 Aligned_cols=40 Identities=23% Similarity=0.291 Sum_probs=28.2
Q ss_pred chHhHHHHHHHHcCCchHHhh-h--------------hchHHHHHHHHhhhccCC
Q 011083 112 TQEGLRNMLQIMLGNTNNLCT-L--------------TCHWMELYIAHFLYIRPF 151 (494)
Q Consensus 112 ~~~~l~~l~~IL~G~~~~i~~-~--------------~~~WyE~~~a~~ly~~P~ 151 (494)
..+.|+.+++++.|+...... . ..+|+|.+...+-+..|.
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 337999999999987765
No 21
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.29 E-value=66 Score=35.76 Aligned_cols=131 Identities=16% Similarity=0.108 Sum_probs=78.0
Q ss_pred chHHHHHHHHHcCCCcccc---hhhhhcccCCCCchhHHHHHHHHHHHccCCCchhhhhHHHHhchHhhHHHHHHhhccC
Q 011083 203 WMVTHAIEVLTAGSHQADT---LLHEERDNLGGISMEELHRLVYAQVLSSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQ 279 (494)
Q Consensus 203 W~aaHl~dLL~~~g~~~~~---~l~~~~~~~~~~~lre~~ll~YA~~L~s~~~LW~vai~YL~~c~~~g~~~i~~lL~r~ 279 (494)
-..+|+...++-.|+..+. |+.+...+..+-++ ..=+++|-...|.. =-..|.+.|..-|..-+.++..+|++.
T Consensus 551 ~~v~h~~~~mylLgy~~~~~rvYL~Dke~nVi~y~l-~l~vleyqt~vmrr--d~~~a~~vLp~I~k~~rt~va~Fle~~ 627 (794)
T KOG0276|consen 551 YTVAHLDRIMYLLGYVANDNRVYLHDKELNVISYKI-LLEVLEYQTLVLRR--DLEVADGVLPTIPKEIRTKVAHFLESQ 627 (794)
T ss_pred EEEEEeccchhheeeeecCCEEEEeecccceEeEee-ehHHHHHHHHhhhc--cccccccccccCchhhhhhHHhHhhhc
Confidence 4567777777776653321 12111112111111 12255665544442 245667777766788899999999986
Q ss_pred CCCcHH-----HHHHHHHHHHhcCCchHHHH---------HHHHHHHHHHhcCcchHHHHHHHHcCCHHHH
Q 011083 280 PVDHNQ-----LLLKNLEICRLYELDSVSSN---------IMKIAGMYNWKHGKKGSGVYWLQQARDEARL 336 (494)
Q Consensus 280 P~~s~~-----~~~k~l~iC~~~~L~~~a~~---------I~k~~g~~~~~~g~~g~Al~w~~ra~D~~~v 336 (494)
-+.... +-+.=-+++-+.|--++|.. =.|.+|.-+++.|++..|-.++.||+|+..+
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 643221 11111233334444444444 4678999999999999999999999998764
No 22
>PF12816 Vps8: Golgi CORVET complex core vacuolar protein 8
Probab=33.06 E-value=42 Score=31.92 Aligned_cols=47 Identities=13% Similarity=0.202 Sum_probs=35.2
Q ss_pred hhhhHHHHhchHhh-HHHHHHhhccCCCCcHHHHHHHHHHHHhcCCchH
Q 011083 255 QIAPIYLTSCIKQG-MGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSV 302 (494)
Q Consensus 255 ~vai~YL~~c~~~g-~~~i~~lL~r~P~~s~~~~~k~l~iC~~~~L~~~ 302 (494)
+|.-+++.++.+.| ..+++++|-++...+= +++.++++|+++||-+.
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 33344455555555 6899999999997654 67889999999999773
No 23
>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=30.37 E-value=2.7e+02 Score=25.81 Aligned_cols=108 Identities=16% Similarity=0.180 Sum_probs=63.2
Q ss_pred HHHHHHHHHcc-----CCCchhhhhHHHHhchHhhHHHHHHhhccCCC-CcHHHHHHHHHHHHhc-CCchHHHHHHHHHH
Q 011083 239 HRLVYAQVLSS-----HPLTWQIAPIYLTSCIKQGMGLLEMLLYKQPV-DHNQLLLKNLEICRLY-ELDSVSSNIMKIAG 311 (494)
Q Consensus 239 ~ll~YA~~L~s-----~~~LW~vai~YL~~c~~~g~~~i~~lL~r~P~-~s~~~~~k~l~iC~~~-~L~~~a~~I~k~~g 311 (494)
.+++|-.+|.. ++.++.+-|+-|...+. -..+..+|..-.+ +|..-|..+++.-.++ ..-+.+-.+.+.++
T Consensus 12 vllEYirSl~~~~i~~~~~L~~lli~lLi~~~~--~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~ 89 (167)
T PF07035_consen 12 VLLEYIRSLNQHNIPVQHELYELLIDLLIRNGQ--FSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG 89 (167)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC--HHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence 46778887766 34567777776665443 4567777765444 6677777777764432 11123334455555
Q ss_pred -------HHHHhcCcchHHHHHHHHcCCHHHHHHHHHHHHHHHhcc
Q 011083 312 -------MYNWKHGKKGSGVYWLQQARDEARLNRIAQQMFDSVGRS 350 (494)
Q Consensus 312 -------~~~~~~g~~g~Al~w~~ra~D~~~v~~iad~ll~~y~~~ 350 (494)
.-++.+|++.+|+-++-+.+....+ -+..+++.-.++
T Consensus 90 ~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~--~~~~fLeAA~~~ 133 (167)
T PF07035_consen 90 TAYEEIIEVLLSKGQVLEALRYARQYHKVDSV--PARKFLEAAANS 133 (167)
T ss_pred hhHHHHHHHHHhCCCHHHHHHHHHHcCCcccC--CHHHHHHHHHHc
Confidence 4577888888888888765543332 123445444333
No 24
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=29.82 E-value=72 Score=20.85 Aligned_cols=27 Identities=11% Similarity=0.085 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhcCcchHHHHHHHHcC
Q 011083 305 NIMKIAGMYNWKHGKKGSGVYWLQQAR 331 (494)
Q Consensus 305 ~I~k~~g~~~~~~g~~g~Al~w~~ra~ 331 (494)
..+..+|.-....|++.+|+.++.++-
T Consensus 3 ~~~~~la~~~~~~g~~~~A~~~~~~al 29 (42)
T PF13374_consen 3 SALNNLANAYRAQGRYEEALELLEEAL 29 (42)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence 355677888888999999999988763
No 25
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=28.17 E-value=1.4e+02 Score=22.72 Aligned_cols=48 Identities=21% Similarity=0.249 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHhcCCchH-HHHHHHHHHHHHHhcCcchHHHHHHHHcCC
Q 011083 285 QLLLKNLEICRLYELDSV-SSNIMKIAGMYNWKHGKKGSGVYWLQQARD 332 (494)
Q Consensus 285 ~~~~k~l~iC~~~~L~~~-a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D 332 (494)
+-.+|++++++..|=... .-.++..+|.-....|++-+|+.++-+|-+
T Consensus 26 ~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 26 DYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 345778888888876553 356677888888999999999999988754
No 26
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=27.03 E-value=97 Score=19.47 Aligned_cols=28 Identities=11% Similarity=0.102 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHhcCcchHHHHHHHHcCC
Q 011083 305 NIMKIAGMYNWKHGKKGSGVYWLQQARD 332 (494)
Q Consensus 305 ~I~k~~g~~~~~~g~~g~Al~w~~ra~D 332 (494)
.++-.+|.-..+.|++.+|+.++-+|-+
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~ 29 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 4678889999999999999999988743
No 27
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 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. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=24.79 E-value=1.1e+02 Score=19.35 Aligned_cols=26 Identities=15% Similarity=0.162 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHhcCcchHHHHHHHHc
Q 011083 305 NIMKIAGMYNWKHGKKGSGVYWLQQA 330 (494)
Q Consensus 305 ~I~k~~g~~~~~~g~~g~Al~w~~ra 330 (494)
.++-..|.-....|++.+|+..+-||
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~a 27 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRA 27 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHH
Confidence 45677888899999999999999876
No 28
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=23.18 E-value=1e+02 Score=17.54 Aligned_cols=25 Identities=16% Similarity=0.161 Sum_probs=19.3
Q ss_pred HHHHHHHHHHhcCcchHHHHHHHHc
Q 011083 306 IMKIAGMYNWKHGKKGSGVYWLQQA 330 (494)
Q Consensus 306 I~k~~g~~~~~~g~~g~Al~w~~ra 330 (494)
++..+|.-....|++..|+.++.++
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~ 27 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKA 27 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 4556777888888999999888655
No 29
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=22.18 E-value=4.4e+02 Score=30.20 Aligned_cols=51 Identities=16% Similarity=0.133 Sum_probs=40.3
Q ss_pred HHHHHHHHhcCCchHHHHHHHHHHHHHHhcCcchHHHHHHHHcCCHHHHHHH
Q 011083 288 LKNLEICRLYELDSVSSNIMKIAGMYNWKHGKKGSGVYWLQQARDEARLNRI 339 (494)
Q Consensus 288 ~k~l~iC~~~~L~~~a~~I~k~~g~~~~~~g~~g~Al~w~~ra~D~~~v~~i 339 (494)
-+.++++..+.|+++..-|+|..+ +++++++.-+|+...-+||-.-...++
T Consensus 895 ~~avelaq~~~l~qv~tliak~aa-qll~~~~~~eaIe~~Rka~~~~daarl 945 (1189)
T KOG2041|consen 895 GEAVELAQRFQLPQVQTLIAKQAA-QLLADANHMEAIEKDRKAGRHLDAARL 945 (1189)
T ss_pred HHHHHHHHhccchhHHHHHHHHHH-HHHhhcchHHHHHHhhhcccchhHHHH
Confidence 347788999999999999988665 578899999999999999754443333
No 30
>PF15182 OTOS: Otospiralin
Probab=21.87 E-value=90 Score=24.07 Aligned_cols=26 Identities=15% Similarity=0.336 Sum_probs=18.8
Q ss_pred cCCCCCchHhHHHHHHHhhcchHHHHHH
Q 011083 5 LFNNQEYWSLSERITCLLFHLILFYDRM 32 (494)
Q Consensus 5 ~~~hp~fW~~v~~l~~vlrG~~~~a~~l 32 (494)
+|...+||++|.-. =..|-..+--++
T Consensus 21 PfstsDFW~YveyF--rtlGAY~~indm 46 (69)
T PF15182_consen 21 PFSTSDFWNYVEYF--RTLGAYNQINDM 46 (69)
T ss_pred CccchHHHHHHHHH--HHhccHHHHHHH
Confidence 67788999999887 666666554444
No 31
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=21.35 E-value=2.3e+02 Score=24.48 Aligned_cols=64 Identities=8% Similarity=-0.088 Sum_probs=45.7
Q ss_pred HHHHHHHHHHccCCCchhhhhHHHHhchHhhHHHHHHhhccCCCCcHHHHHHHHHHHHhcCCchHHHHHH
Q 011083 238 LHRLVYAQVLSSHPLTWQIAPIYLTSCIKQGMGLLEMLLYKQPVDHNQLLLKNLEICRLYELDSVSSNIM 307 (494)
Q Consensus 238 ~~ll~YA~~L~s~~~LW~vai~YL~~c~~~g~~~i~~lL~r~P~~s~~~~~k~l~iC~~~~L~~~a~~I~ 307 (494)
.+=.+.|-.+|...++|+.++-.+...+ .-..+++.++.+. .+.+++++.|.+.+-++....+.
T Consensus 69 ~yd~~~~~~~c~~~~l~~~~~~l~~k~~-~~~~Al~~~l~~~-----~d~~~a~~~~~~~~~~~lw~~~~ 132 (140)
T smart00299 69 HYDIEKVGKLCEKAKLYEEAVELYKKDG-NFKDAIVTLIEHL-----GNYEKAIEYFVKQNNPELWAEVL 132 (140)
T ss_pred cCCHHHHHHHHHHcCcHHHHHHHHHhhc-CHHHHHHHHHHcc-----cCHHHHHHHHHhCCCHHHHHHHH
Confidence 4447889999999999997777766543 3455888888765 35677888888877666555544
No 32
>PF08437 Glyco_transf_8C: Glycosyl transferase family 8 C-terminal; InterPro: IPR013645 This domain is found at the C terminus of bacterial glucosyltransferase and galactosyltransferase proteins. ; GO: 0008918 lipopolysaccharide 3-alpha-galactosyltransferase activity, 0009103 lipopolysaccharide biosynthetic process
Probab=20.32 E-value=1.1e+02 Score=23.00 Aligned_cols=28 Identities=25% Similarity=0.389 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHhcCcchHHHHHHHH
Q 011083 302 VSSNIMKIAGMYNWKHGKKGSGVYWLQQ 329 (494)
Q Consensus 302 ~a~~I~k~~g~~~~~~g~~g~Al~w~~r 329 (494)
+-..=.|..+++++.+|+|.+++.|+++
T Consensus 25 ~~~~e~r~~~Kh~~~q~ky~~~i~~~i~ 52 (57)
T PF08437_consen 25 KNSKELRYKAKHLFKQGKYISGIKWYIK 52 (57)
T ss_pred CChHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence 3445568889999999999999999875
Done!