Query 013029
Match_columns 451
No_of_seqs 142 out of 1279
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 08:48:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013029.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013029hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0938 Adaptor complexes medi 100.0 3E-103 6E-108 736.4 39.1 436 1-450 1-446 (446)
2 KOG0937 Adaptor complexes medi 100.0 5E-87 1.1E-91 655.1 40.8 421 2-451 1-424 (424)
3 KOG2740 Clathrin-associated pr 100.0 2.5E-74 5.5E-79 546.2 32.8 411 1-451 1-418 (418)
4 PF00928 Adap_comp_sub: Adapto 100.0 2.6E-58 5.6E-63 446.8 32.3 259 175-451 2-262 (262)
5 KOG2635 Medium subunit of clat 100.0 1.7E-41 3.7E-46 329.5 32.8 404 2-449 3-511 (512)
6 KOG2677 Stoned B synaptic vesi 100.0 7.4E-37 1.6E-41 307.3 6.5 256 179-443 582-884 (922)
7 PF01217 Clat_adaptor_s: Clath 99.9 3.3E-27 7.1E-32 207.5 16.0 138 1-139 1-138 (141)
8 COG5030 APS2 Clathrin adaptor 99.8 2.8E-19 6.1E-24 149.0 12.3 130 1-134 1-133 (152)
9 KOG3343 Vesicle coat complex C 99.8 4.6E-18 9.9E-23 144.9 12.6 139 2-143 9-150 (175)
10 KOG0934 Clathrin adaptor compl 99.7 1.4E-17 3E-22 138.9 5.4 127 1-131 1-130 (145)
11 KOG0936 Clathrin adaptor compl 99.7 3.2E-16 6.9E-21 132.4 11.2 133 1-137 1-142 (182)
12 KOG0935 Clathrin adaptor compl 99.7 2E-16 4.4E-21 128.4 9.4 132 1-135 1-135 (143)
13 COG5541 RET3 Vesicle coat comp 99.3 5.5E-12 1.2E-16 107.4 8.7 139 2-143 8-157 (187)
14 PF10291 muHD: Muniscin C-term 99.1 1.7E-08 3.7E-13 97.2 22.4 229 186-449 3-256 (257)
15 PF03164 Mon1: Trafficking pro 94.5 0.29 6.3E-06 50.7 10.6 92 3-96 12-103 (415)
16 PF15001 AP-5_subunit_s1: AP-5 92.8 0.81 1.8E-05 41.8 9.1 78 56-133 104-182 (189)
17 KOG0997 Uncharacterized conser 92.5 0.65 1.4E-05 47.9 8.9 100 3-110 118-226 (523)
18 PF08923 MAPKK1_Int: Mitogen-a 92.2 2.5 5.3E-05 35.8 10.7 92 2-94 17-114 (119)
19 PF13774 Longin: Regulated-SNA 86.8 5.1 0.00011 31.3 8.1 49 49-97 17-65 (83)
20 COG5122 TRS23 Transport protei 82.8 26 0.00057 29.1 10.9 87 2-96 3-106 (134)
21 PF04099 Sybindin: Sybindin-li 81.9 33 0.00071 29.9 11.8 94 2-96 1-115 (142)
22 KOG0781 Signal recognition par 81.3 20 0.00043 37.5 11.5 112 1-116 1-115 (587)
23 KOG3369 Transport protein part 77.9 35 0.00077 30.6 10.5 45 50-96 125-170 (199)
24 KOG0859 Synaptobrevin/VAMP-lik 70.3 90 0.002 28.8 12.1 88 6-98 5-93 (217)
25 PF03504 Chlam_OMP6: Chlamydia 59.3 86 0.0019 24.6 9.5 43 329-379 43-85 (95)
26 PF09201 SRX: SRX; InterPro: 55.4 1.3E+02 0.0029 26.1 9.1 74 1-74 1-86 (148)
27 PF13598 DUF4139: Domain of un 50.6 1.7E+02 0.0036 28.8 10.9 109 269-389 194-313 (317)
28 KOG3368 Transport protein part 49.7 1.7E+02 0.0037 25.2 8.8 93 2-96 3-109 (140)
29 KOG0647 mRNA export protein (c 27.9 1.3E+02 0.0028 29.7 5.5 89 192-292 202-291 (347)
30 PF07151 DUF1391: Protein of u 26.8 65 0.0014 21.9 2.3 17 278-294 16-32 (49)
31 PF00235 Profilin: Profilin; 25.8 3.8E+02 0.0082 22.0 8.3 32 61-92 90-121 (121)
32 KOG0862 Synaptobrevin/VAMP-lik 23.0 6.3E+02 0.014 23.7 10.1 48 50-97 53-100 (216)
33 PF09972 DUF2207: Predicted me 22.4 2.7E+02 0.0057 29.1 7.3 60 328-387 129-188 (511)
34 KOG1766 Enhancer of rudimentar 21.3 1E+02 0.0023 24.8 2.9 41 81-121 25-67 (104)
No 1
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.7e-103 Score=736.39 Aligned_cols=436 Identities=33% Similarity=0.628 Sum_probs=386.6
Q ss_pred CeEEEEEEeCCCCEEEEEeccCCCCcchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHHH
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPSL 80 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~~~~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~ 80 (451)
||+++||+|.+|++|+.|.||++..++..|+|+-+++.. ....+|+..+++++|+|++.++||++++|++|.|.+.
T Consensus 1 misglfi~n~rGevlink~fr~dlkrs~~diFRv~vi~n----~d~r~PV~~igsttf~~~r~~nl~lvaitksN~Nva~ 76 (446)
T KOG0938|consen 1 MISGLFIYNLRGEVLINKTFRDDLKRSIVDIFRVQVINN----LDVRSPVLTIGSTTFHHIRSSNLWLVAITKSNANVAA 76 (446)
T ss_pred CcceEEEEeccCcEEEehhhhhhhhhhHHHHHHHhhhhc----cccCCCeeEecceeEEEEeeccEEEEEEecCCCchhh
Confidence 999999999999999999999999999999999999872 4678899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeeecCceeccccccCCCCCceeee-c
Q 013029 81 VLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVFNEPIVVDAVRLQPLSPAAIFM-Q 159 (451)
Q Consensus 81 ~~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~~~~~~~~~~~~~~~~~~~~~~-~ 159 (451)
+++||..+.+++..|||.++|+.|++||.+|||+||||+|+||||+|++++|+.++..++...+...+ .++.-+. |
T Consensus 77 v~eFl~kl~avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~~al~~~is~~~Vrs~g~~l---s~k~s~~sq 153 (446)
T KOG0938|consen 77 VFEFLYKLDAVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEPNALKAQISQKGVRSMGGVL---SSKSSPTSQ 153 (446)
T ss_pred HHHHHHHHHHHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCChhHHHhhhhhhhhhcccccc---CCcCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999987765432211 0000000 0
Q ss_pred ccccCCCcccccccccCCCCC--cccceEEEEEEEeEEEEEcCCccEEEEEEEEEEEEEEeecCCceeEEEeccccccc-
Q 013029 160 GTKRMPGTAVTKSVVANEPGG--RKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIG- 236 (451)
Q Consensus 160 ~~~~~~s~a~~~~~~~~~~~~--~~~nEi~vdV~E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~ln~~~~~~- 236 (451)
.... -+...++++ +||++| |+|||+|+||+|++|.+++++|++++++|+|.|.|+++|||||+|+++|||...++
T Consensus 154 ~~~~-~ssqv~G~i-~WRr~Gi~ykknevfldvvErvNlLmS~~GnVLrs~VsG~V~mk~~LSGmPeckfGlNDkl~~e~ 231 (446)
T KOG0938|consen 154 ATEL-RSSQVTGKI-GWRREGIKYKKNEVFLDVVERVNLLMSSDGNVLRSDVSGTVDMKTHLSGMPECKFGLNDKLGMES 231 (446)
T ss_pred cccc-ccccccccc-ccccccceeccceeEeEehheeeeEEcCCCCEEEeecccEEEEEEeccCCcccccccCcccceee
Confidence 0000 011122344 477755 79999999999999999999999999999999999999999999999999998877
Q ss_pred cCCCcccc-----ccCCCCCCcEEeeccccccccCCCCccCCccEEEeCCCCeEEEEEEeecCCCCCCeEEEEEEEEcCc
Q 013029 237 KGGRSIYD-----YRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFRINTLVEEAGA 311 (451)
Q Consensus 237 ~~~~~~~~-----~~~~~~~~~~~l~d~~fH~cV~~~~~~~~~~i~F~PPdG~F~Lm~Yr~~~~~~~P~~v~~~~~~~~~ 311 (451)
++++.+.+ ..+.++...+.|+||+||+||++++|++++.|+|+||||+|+||+||+..++.+||++.|.++..|.
T Consensus 232 kq~esks~~~n~~~~sks~~g~v~leDc~FHqCV~L~kFn~eh~IsFvPPDGe~ELMkYr~~enInlPFrV~PiV~el~r 311 (446)
T KOG0938|consen 232 KQSESKSDFGNKNFPSKSGKGSVLLEDCTFHQCVRLDKFNSEHIISFVPPDGEFELMKYRVTENINLPFRVTPIVTELGR 311 (446)
T ss_pred ccccccccccccCCCcccCCceEEeeccchheeeccccccccceEEEeCCCCceEeEeeeeccCcccceEeeeheecccc
Confidence 33333332 1233455569999999999999999999999999999999999999999999999999999999998
Q ss_pred eEEEEEEEEeeecCCcceeeeEEEEecCCCCceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecCCceeEEEEEEEecc
Q 013029 312 LKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQ 391 (451)
Q Consensus 312 ~~~e~~l~l~~~~~~~~~~~~v~i~iplP~~~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~~~~~~l~~~~~~~~ 391 (451)
.++||.+.+++.|++++.+.+|+++||+|+++..+.+.++.|. |+|.+++++++|+|++++|.+|.+|+|++++.+
T Consensus 312 ~kie~ri~iks~f~~kl~a~~v~~rIPvP~ntv~~n~~v~~Gk----aky~psen~ivWki~kf~G~tE~tlsAevels~ 387 (446)
T KOG0938|consen 312 TKIEYRITIKSLFPPKLLAKDVVVRIPVPPNTVKCNISVSNGK----AKYVPSENAIVWKINKFNGLTESTLSAEVELSD 387 (446)
T ss_pred eeEEEEEEEeccCCchhhhcceEEEecCCCccccceeEEecCc----cccCcccceEEEEecccCCcccceeEEEEEecc
Confidence 9999999999999999999999999999999999999999998 999999999999999999999999999999987
Q ss_pred CC-CCCCCCccCceEEEEeeCcccccccEEEEEEEeecCCCCCcccceEEEEecCcEEEe
Q 013029 392 ES-HGNITKEVGPVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPYRWVRYVTQANSYVAR 450 (451)
Q Consensus 392 ~~-~~~~~~~~~pi~v~F~ip~~t~SGl~V~~l~v~~~~~~~~~~k~vrY~t~sg~Y~~R 450 (451)
.. +...|. .+||+++|++|||+.|||.|++|+|.+...+|+..|||||+|+||+|++|
T Consensus 388 Tt~nkq~Wt-rPPIsleFeV~MFt~SGL~VrylkV~e~~Sk~~~vkWVrYitkaGsyEiR 446 (446)
T KOG0938|consen 388 TTQNKQQWT-RPPISLEFEVPMFTNSGLVVRYLKVSEKDSKHRAVKWVRYITKAGSYEIR 446 (446)
T ss_pred Ccccccccc-CCCceeEEeeeeecCCceEEEEEEEecccCCCceEEEEEEecccceeeeC
Confidence 65 455564 89999999999999999999999999976669999999999999999998
No 2
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=5e-87 Score=655.12 Aligned_cols=421 Identities=42% Similarity=0.732 Sum_probs=378.0
Q ss_pred eEEEEEEeCCCCEEEEEeccCCCCcchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHHHH
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPSLV 81 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~~~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~~ 81 (451)
++|+||+|.+|++|++|.||++.+.+..+.|+++++... .....+|++..+|..|+|.+++++|+++.++.|.+++.+
T Consensus 1 ~sa~fild~~G~~lisr~yr~dv~~s~~~~F~~~l~~~e--~~~~~~p~l~~~g~~~~~ik~s~lylv~~~~~n~~a~~v 78 (424)
T KOG0937|consen 1 ASAVFILDHKGEVLISRDYRGDVPMSSTEKFFRKLFEKE--EGDESPPFLVHDGSRFIHIKHSNLYLVAGTRPNVSAALV 78 (424)
T ss_pred CceEEEEcCCCcEeEeecccccCChhhhhhHHHHHhhhc--ccCCCCCeEEeCCceEEEEeecceEEEEEeccCCCHHHH
Confidence 589999999999999999999998999999998776532 246788999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeeecCceeccccccCCCCCceeeeccc
Q 013029 82 LELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVFNEPIVVDAVRLQPLSPAAIFMQGT 161 (451)
Q Consensus 82 ~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (451)
++||+++++++.+||+.+.|+.+++||.++||+|||++||||||.|+...|++|+++++......
T Consensus 79 ~~~l~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGypQ~t~s~iL~~yi~~~~~~l~~~--------------- 143 (424)
T KOG0937|consen 79 LSFLYAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYPQTTDSEILKNYITQKANRLQDA--------------- 143 (424)
T ss_pred HHHHHHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCcccchHHHHHHHhcccccceeec---------------
Confidence 99999999999999999999999999999999999999999999999999999999985432111
Q ss_pred ccCCCcccccccccCCC--CCcccceEEEEEEEeEEEEEcCCccEEEEEEEEEEEEEEeecCCceeEEEeccccccccCC
Q 013029 162 KRMPGTAVTKSVVANEP--GGRKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGG 239 (451)
Q Consensus 162 ~~~~s~a~~~~~~~~~~--~~~~~nEi~vdV~E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~ 239 (451)
+.+|+.|.+..+. ||+ ..|+|||+|+||+|+++++++++|.++.++|.|+|+|||+|+|||+|+|+||+....+..+
T Consensus 144 ~~~~p~avtnavs-Wrs~gi~~~KnevflDViE~Vs~l~~~~G~vl~s~i~G~I~~k~~LsGmPelrl~ln~~~~~~~~~ 222 (424)
T KOG0937|consen 144 QPRPPLAVTNAVS-WRSEGIYYGKNEVFLDVIESVSLLYDSNGIVLLSEIVGTIKLKCYLSGMPELRLGLNDKVLFDKQG 222 (424)
T ss_pred CCCCCccccccee-ecccccccccceEEEEhhhhhhHhhhcCCcEEEeeeeeEEEEEEEcCCCceeeeecCccccccccc
Confidence 1123444444444 665 4469999999999999999999999999999999999999999999999999987765543
Q ss_pred CccccccCCCCCCcEEeeccccccccCCCCccCCccEEEeCCCCeEEEEEEeecCCCCCCeEEEEEEEEcCceEEEEEEE
Q 013029 240 RSIYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFRINTLVEEAGALKAEVIIK 319 (451)
Q Consensus 240 ~~~~~~~~~~~~~~~~l~d~~fH~cV~~~~~~~~~~i~F~PPdG~F~Lm~Yr~~~~~~~P~~v~~~~~~~~~~~~e~~l~ 319 (451)
. .+.+..+.++|++||+||++++|+.+|.|+|+||||+|+||+||++...+|++.+....+.++..++++.++
T Consensus 223 ~-------~~~s~~v~ledi~fh~~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~vkPli~~~~~~~~~~~~ri~i~~K 295 (424)
T KOG0937|consen 223 P-------RSKSKGVELEDIKFHECVRLSRFDNDRTISFIPPDGEFELMRYRLSTHVKPLIWFYQLIEEHSRSRIEVMVK 295 (424)
T ss_pred c-------cccCcceEeeecccceeechhhccCCceEEecCCCCceEEEEEEecCCCCCeEEeeeeeeeccceeEEEEEe
Confidence 1 222367899999999999999999999999999999999999999998887777776666677889999999
Q ss_pred EeeecCCcceeeeEEEEecCCCCceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecCCceeEEEEEEEeccCCCCCC-C
Q 013029 320 ISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNI-T 398 (451)
Q Consensus 320 l~~~~~~~~~~~~v~i~iplP~~~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~~~~~~l~~~~~~~~~~~~~~-~ 398 (451)
++++|+.+..+++|+|+||+|..++++.++++.|+ ++|.+++++++|+|++++|+.+.++++++.+++...+.+ +
T Consensus 296 ~~~~fk~~~~a~~v~I~iP~P~~a~~~~fk~s~G~----~~~~~e~~~l~W~I~~~~gg~e~~~r~~~~lp~~~~e~~~~ 371 (424)
T KOG0937|consen 296 LREQFKSRSSANNVEICIPVPDDASSPSFKTSLGS----AKYDPEKSALRWTIKKFVGGKEYSLRARMDLPSEEHEEQCT 371 (424)
T ss_pred chhhcCCccccceEEEEeeCCCccccceEeccCCc----eeeecccceEEEEeccccCCceEEEEEeecCCccccCCCCc
Confidence 99999999999999999999999999999999998 999999999999999999999999999999998766553 4
Q ss_pred CccCceEEEEeeCcccccccEEEEEEEeecCCCCCcccceEEEEecCcEEEeC
Q 013029 399 KEVGPVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPYRWVRYVTQANSYVARI 451 (451)
Q Consensus 399 ~~~~pi~v~F~ip~~t~SGl~V~~l~v~~~~~~~~~~k~vrY~t~sg~Y~~R~ 451 (451)
...+||+|+|+||+||.||++|+++++.+...+|++.+||||.|+||.|++|.
T Consensus 372 ~~~~pi~v~FeIp~~T~SgiqVrylki~ep~~~y~s~~WVRy~T~s~~Y~~r~ 424 (424)
T KOG0937|consen 372 EGLGPIKVKFEIPYFTVSGIQVRYLKIIEPKSQYQSLPWVRYNTQSGPYEIRV 424 (424)
T ss_pred ccCCceEEEEEecccccCCeEEEEEEecccccCCCccceEEEEccCCceEeeC
Confidence 56899999999999999999999999999766799999999999999999995
No 3
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.5e-74 Score=546.19 Aligned_cols=411 Identities=26% Similarity=0.443 Sum_probs=350.3
Q ss_pred CeEEEEEEeCCCCEEEEEeccC-CCCcchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHH
Q 013029 1 MISQFFVLSQRGDNIVFRDYRG-EVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPS 79 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~-~~~~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~ 79 (451)
||.++|++|.+|++++++..++ ...|+..+.|+...... ....+.+|++..+.+.++.+-+++++|++++..+..|+
T Consensus 1 mi~siflidtsg~l~lek~~~g~t~~rsic~~f~e~~~~~--~~~e~~ppvi~~p~hylfsv~~~~i~~~~~st~e~pPL 78 (418)
T KOG2740|consen 1 MILSIFLIDTSGDLLLEKHLKGSTVVRSICDYFFEDQSSD--DDLEHVPPVISTPHHYLFSVYRDLIFFCAVSTVETPPL 78 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCCceeeeehHHHHHHhhhhc--cccccCCceecCCceeeeeeeccCcEEEEEEeccCCCh
Confidence 9999999999999999999994 55677778887775542 22356677888888888888899999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeeecCceeccccccCCCCCceeeec
Q 013029 80 LVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVFNEPIVVDAVRLQPLSPAAIFMQ 159 (451)
Q Consensus 80 ~~~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~~~~~~~~~~~~~~~~~~~~~~~ 159 (451)
++++||+++++++++|||.++|.+|++|+..||+|||||+|+|+|..||+|.||++|+.++...+.... .++ ..+
T Consensus 79 ~~iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~NiLke~i~pps~l~~~~~s----vTg-~~n 153 (418)
T KOG2740|consen 79 MVIEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEPNILKELIPPPSFLSKKFNS----VTG-NSN 153 (418)
T ss_pred hHHHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccChhHHHhhcCChHHHHHHHhh----hhc-ccc
Confidence 999999999999999999999999999999999999999999999999999999999988776422110 011 011
Q ss_pred ccccCCCcccccccccCCC--CCcccceEEEEEEEeEEEEEcCCccEEEEEEEEEEEEEEeecCCceeEEEecccccccc
Q 013029 160 GTKRMPGTAVTKSVVANEP--GGRKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGK 237 (451)
Q Consensus 160 ~~~~~~s~a~~~~~~~~~~--~~~~~nEi~vdV~E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~ln~~~~~~~ 237 (451)
.....|+.+ .+..+||+ .+|.+||.||||+|+++|+++++|..+.++|.|.|.|+|+|+|||++.|.|+.
T Consensus 154 ~~~~lPtg~--~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~k~gslv~~eI~g~vd~~~qLsgmPdltlsl~n------ 225 (418)
T KOG2740|consen 154 VSDTLPTGA--LSNVPWRTAGVKYTNNEAYVDVLEEIDAIVDKKGSLVFGEIQGIVDVCSQLSGMPDLTLSLNN------ 225 (418)
T ss_pred ccccCCCcc--cccccccccCcccccchhhhhhhheeheEecCCCCEEEEEEEEEEEEEEeecCCCceEEEccC------
Confidence 233455433 45667887 56899999999999999999999999999999999999999999999999985
Q ss_pred CCCccccccCCCCCCcEEeeccccccccCCCCccCCccEEEeCCCCeEEEEEEeecC--CCCCCeEEEEEEEEcCc--eE
Q 013029 238 GGRSIYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQ--EFKPPFRINTLVEEAGA--LK 313 (451)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~l~d~~fH~cV~~~~~~~~~~i~F~PPdG~F~Lm~Yr~~~--~~~~P~~v~~~~~~~~~--~~ 313 (451)
+..|+|++|||||++.+|++++.|+|+||||+|+||+||++. ...+|..++++.+..+. ++
T Consensus 226 ---------------p~~L~dvsfHpcVr~krwe~~~~lsFIPPDGkFrLlsy~v~~~~~v~~pvyv~~~i~l~~~~~~r 290 (418)
T KOG2740|consen 226 ---------------PRLLGDVSFHPCVRYKRWESHSVLSFIPPDGKFRLLSYRVDAQNQVAIPVYVKNSISLDSNHQGR 290 (418)
T ss_pred ---------------ccccCCcccccceeecccccccceEEcCCCCcEEEEEEEEehhhccccceEEeeeeccCCCceEE
Confidence 347899999999999999999999999999999999999984 67799999998876432 34
Q ss_pred EEEEEEEeeecCCcceeeeEEEEecCCCCceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecCCceeEEEEEEEeccCC
Q 013029 314 AEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQES 393 (451)
Q Consensus 314 ~e~~l~l~~~~~~~~~~~~v~i~iplP~~~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~~~~~~l~~~~~~~~~~ 393 (451)
+++.+..+...+ ...+-+.|++..|......+....+|+ ..++...+.+-|.++++..++-++|+|++++.++.
T Consensus 291 i~~tvg~~~~~g--K~ie~itVt~~~pn~i~~~~k~~~~g~----~~~~~~~k~l~W~~~~i~tg~lp~Lkg~~~~e~~~ 364 (418)
T KOG2740|consen 291 ISLTVGPKKKMG--KTIELITVTVQDPNEIAYASKILTHGT----FTNSIIMKQLTWTFGSIATGKLPVLKGTINLEPGF 364 (418)
T ss_pred EEEecccccccc--ceeEeEEEEecCccceeeeecccccce----eEeecccceeEEEeecccCCcccccccccccCCCC
Confidence 444444443332 356788999999999988888888888 99999999999999999988899999999998654
Q ss_pred CCCCCCccCceEEEEeeCcccccccEEEEEEEeecCCCCCcccceEEEEecCcEEEeC
Q 013029 394 HGNITKEVGPVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPYRWVRYVTQANSYVARI 451 (451)
Q Consensus 394 ~~~~~~~~~pi~v~F~ip~~t~SGl~V~~l~v~~~~~~~~~~k~vrY~t~sg~Y~~R~ 451 (451)
.. ..+++.++++|.+.+.++||++|+.|++.+. .|+|||||||.|++|.+++|+
T Consensus 365 sk--~~~l~t~~Lqykiqg~alsglkVe~Ldm~~~--~~k~yKGvKy~t~agnfqvR~ 418 (418)
T KOG2740|consen 365 SK--KVDLPTLSLQYKIQGQALSGLKVERLDMYGE--PYKPYKGVKYKTKAGNFQVRL 418 (418)
T ss_pred Cc--cccCcccceeeeeeeeeccceEEEeeeecCC--CCccccceEEEEeeeeEEEeC
Confidence 43 3458999999999999999999999999987 599999999999999999996
No 4
>PF00928 Adap_comp_sub: Adaptor complexes medium subunit family; InterPro: IPR008968 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. AP (adaptor protein) complexes are found in coated vesicles and clathrin-coated pits. AP complexes connect cargo proteins and lipids to clathrin at vesicle budding sites, as well as binding accessory proteins that regulate coat assembly and disassembly (such as AP180, epsins and auxilin). There are different AP complexes in mammals. AP1 is responsible for the transport of lysosomal hydrolases between the TGN and endosomes []. AP2 associates with the plasma membrane and is responsible for endocytosis []. AP3 is responsible for protein trafficking to lysosomes and other related organelles []. AP4 is less well characterised. AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). For example, in AP1 these subunits are gamma-1-adaptin, beta-1-adaptin, mu-1 and sigma-1, while in AP2 they are alpha-adaptin, beta-2-adaptin, mu-2 and sigma-2. Each subunit has a specific function. Adaptins recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal ear (appendage) domains. Mu recognises tyrosine-based sorting signals within the cytoplasmic domains of transmembrane cargo proteins []. One function of clathrin and AP2 complex-mediated endocytosis is to regulate the number of GABA(A) receptors available at the cell surface []. This entry represents the C-terminal domain of the mu subunit from various clathrin adaptors (AP1, AP2 and AP3) []. The C-teminal domain has an immunoglobulin-like beta-sandwich fold consisting of 9 strands in 2 sheets with a Greek key topology, similar to that found in cytochrome f and certain transcription factors []. The mu subunit regulates the coupling of clathrin lattices with particular membrane proteins by self-phosphorylation via a mechanism that is still unclear []. The mu subunit possesses a highly conserved N-terminal domain of around 230 amino acids, which may be the region of interaction with other AP proteins; a linker region of between 10 and 42 amino acids; and a less well-conserved C-terminal domain of around 190 amino acids, which may be the site of specific interaction with the protein being transported in the vesicle []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030131 clathrin adaptor complex; PDB: 1H6E_A 3L81_A 1W63_V 4EMZ_A 4EN2_A 2VGL_M 3ML6_F 2PR9_A 2JKT_M 1I31_A ....
Probab=100.00 E-value=2.6e-58 Score=446.85 Aligned_cols=259 Identities=39% Similarity=0.732 Sum_probs=217.2
Q ss_pred cCCCCC--cccceEEEEEEEeEEEEEcCCccEEEEEEEEEEEEEEeecCCceeEEEeccccccccCCCccccccCCCCCC
Q 013029 175 ANEPGG--RKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRSIYDYRSSTGSG 252 (451)
Q Consensus 175 ~~~~~~--~~~nEi~vdV~E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~~~~~ 252 (451)
+||+.+ |++|||||||.|+|+++++++|.++.++|.|+|.|+|+|+|+|+|+|+||++... ..+
T Consensus 2 ~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~--------------~~~ 67 (262)
T PF00928_consen 2 PWRPSGIKYKKNEIFVDVVEKISAVLDRDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVV--------------SKN 67 (262)
T ss_dssp TTS-STB--SSEEEEEEEEEEEEEEEETTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCC--------------TSS
T ss_pred CcccCCcccccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCcccc--------------ccC
Confidence 477744 6999999999999999999999999999999999999999999999999986432 135
Q ss_pred cEEeeccccccccCCCCccCCccEEEeCCCCeEEEEEEeecCCCCCCeEEEEEEEEcCceEEEEEEEEeeecCCcceeee
Q 013029 253 AVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFRINTLVEEAGALKAEVIIKISAEFSASITANT 332 (451)
Q Consensus 253 ~~~l~d~~fH~cV~~~~~~~~~~i~F~PPdG~F~Lm~Yr~~~~~~~P~~v~~~~~~~~~~~~e~~l~l~~~~~~~~~~~~ 332 (451)
++.++|++|||||++++|++++.|+|+||||+|+||+||++.+..+||.+.+++.+.+.+++++.++++++++....+++
T Consensus 68 ~~~l~~~~fH~cV~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~~~~~~~~v~i~~~~~~~~~~~~~~ 147 (262)
T PF00928_consen 68 GIKLDDVSFHPCVDLSKFESDRVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSEKSSGRFEVTIELESNFPNKISLEN 147 (262)
T ss_dssp SBEESEEEEETTEECCCCCSHTEEEE---SEEEEEEEEEEESSS--SEEEEEEEEEETTTEEEEEEEEEE-S-TTSEEEE
T ss_pred ceeeeceeeccccCccccccccceecCCCCceEEEEEEEccCCCCCCcEEEEEeccCCCceEEEEEEecccCCCCceece
Confidence 67899999999999999999999999999999999999999889999999999988667799999999999988889999
Q ss_pred EEEEecCCCCceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecCCceeEEEEEEEeccCCCCCCCCccCceEEEEeeCc
Q 013029 333 IVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITKEVGPVNMTFTIPM 412 (451)
Q Consensus 333 v~i~iplP~~~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~pi~v~F~ip~ 412 (451)
|.|+||+|.++..++++.+.|+ ++|+..+++++|+|++++++++++++|++++...........++||+|+|++|+
T Consensus 148 v~I~iplP~~~~~~~~~~~~G~----~~~~~~~~~l~W~I~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~pi~v~F~~~~ 223 (262)
T PF00928_consen 148 VVIRIPLPPGTSSPSIESSDGS----AEYDEEENALVWKIKKLPGGSESTLSGTLEFSSPSSVPSDWSFFPISVEFTIPG 223 (262)
T ss_dssp EEEEEE--TTEEEEEEEESSSE----EEEETGCTEEEEEEEEEETSEEEEEEEEEEEEEECCSS-S-----EEEEEEEST
T ss_pred EEEEeecCCccccceeeecCce----EEEEccCCEEEEEECCccCcccccEEEEEEecCCCcccccccceeEEEEEEeCC
Confidence 9999999999999999998887 999999999999999999999999999999987654332225889999999999
Q ss_pred ccccccEEEEEEEeecCCCCCcccceEEEEecCcEEEeC
Q 013029 413 YNASKLQVKYLQIAKKSSTYNPYRWVRYVTQANSYVARI 451 (451)
Q Consensus 413 ~t~SGl~V~~l~v~~~~~~~~~~k~vrY~t~sg~Y~~R~ 451 (451)
+++||++|++++|.+...+|+|+|||||.|+||+|+||+
T Consensus 224 ~~~Sgl~V~~l~v~~~~~~~~~~k~vky~t~s~~Y~iR~ 262 (262)
T PF00928_consen 224 YTLSGLKVRSLDVVNEDENYKPYKWVKYVTKSGSYEIRT 262 (262)
T ss_dssp SETTT-EEEEEEEE-SSCGGGSEEEEEEEEEEEEEEE--
T ss_pred cccCCCEEEEEEeEecCCCCCCcccEEEEEEcCcEEEcC
Confidence 999999999999999655699999999999999999996
No 5
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.7e-41 Score=329.51 Aligned_cols=404 Identities=21% Similarity=0.301 Sum_probs=308.9
Q ss_pred eEEEEEEeCCCCEEEEEeccCCCCcchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHHHH
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPSLV 81 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~~~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~~ 81 (451)
+-+.-|++..|+.+++|+|+ +.+|.++|.+...+..... ..+++++++.+.++|+|++.+++|+|++|..+.|++.+
T Consensus 3 vlaa~i~t~~Gk~ivsRqf~-~Msr~RIEgLl~aFpkLv~--~~~qhT~vEt~~VRYVYqP~d~lY~vLITtk~SNIleD 79 (512)
T KOG2635|consen 3 VLAASINTKTGKAIVSRQFR-EMSRSRIEGLLAAFPKLVS--AGKQHTFVETDSVRYVYQPLDNLYIVLITTKQSNILED 79 (512)
T ss_pred EEEEEEeecCCceeeehHhH-hhhHHHHHHHHHHhHHhhc--cCCCccEEecccEEEEEEecccEEEEEEeccccchhhH
Confidence 44677899999999999999 5688887755444433221 36899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeeecCceeccccc--------------
Q 013029 82 LELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVFNEPIVVDAVR-------------- 147 (451)
Q Consensus 82 ~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~~~~~~~~~~~-------------- 147 (451)
+++|+.|.+++.+||..++|..|.+|.+.+...|||++..||..+.+..++|.|..|+|++++...
T Consensus 80 l~TL~Lfskvipey~~slde~eI~~~~FelifAFDEivsLGyre~v~laQikty~eMdSHEEKi~e~v~~nke~ea~q~m 159 (512)
T KOG2635|consen 80 LETLRLFSKVIPEYCSSLDEKEILENAFELIFAFDEIVSLGYRENVNLAQIKTYLEMDSHEEKIHELVMRNKEREAKQEM 159 (512)
T ss_pred HHHHHHHHHhchhhhhhhhHHHHHHhhhhhhhccchhhhhcccccccHHHhhhhhccccHHHHHHHHHHHhhhHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999887521
Q ss_pred ------c--------CC----------CCCcee-----ee---------ccc--------ccCCCcccc-----------
Q 013029 148 ------L--------QP----------LSPAAI-----FM---------QGT--------KRMPGTAVT----------- 170 (451)
Q Consensus 148 ------~--------~~----------~~~~~~-----~~---------~~~--------~~~~s~a~~----------- 170 (451)
+ .. +++.++ +. +.. ...|+.+..
T Consensus 160 krKaKElqr~r~ea~rrgg~~~~~~~~~~s~g~~~~s~~~~~~~~~~~~~~~~~~sa~~~~s~pak~mklG~k~~~s~~~ 239 (512)
T KOG2635|consen 160 KRKAKELQRARKEAERRGGSLNPGFDAIGSSGYSSVSTTNAINRVESIAQKPKQQSAAKASSAPAKAMKLGKKTKNSDTF 239 (512)
T ss_pred HHHHHHHHHHHHhhhccccccCCCccccccccccCCcccchhhccccccccccccccccCCCCCchhhhhcccccchhhH
Confidence 0 00 000000 00 000 000000000
Q ss_pred ---------------cccc---cCC----CCCcccceEEEEEEEeEEEEEcCCccEEEEEEEEEEEEEEeecCCceeEEE
Q 013029 171 ---------------KSVV---ANE----PGGRKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLA 228 (451)
Q Consensus 171 ---------------~~~~---~~~----~~~~~~nEi~vdV~E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~ 228 (451)
.+.. ... .....+|.+++.+.|+|++.+++||.+.+.++.|.+.++....--.++.|.
T Consensus 240 ~d~Lk~ege~ia~~~s~~g~~s~aap~~~~p~v~~e~v~i~ieEkln~~~~RDGgi~s~E~qG~lsLrI~d~e~~~i~lk 319 (512)
T KOG2635|consen 240 VDKLKGEGERIAGASSAIGSASSAAPPPTAPDVPEESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSLRIKDEEYGDIELK 319 (512)
T ss_pred HHHhhccccccccccccccccccCCCCCCCCCCccceEEEEEeeeEeEEEcccCCccceeeeeeEEEEEccccccceEEE
Confidence 0000 000 022456679999999999999999999999999999999998888899999
Q ss_pred eccccccccCCCccccccCCCCCCcEEeeccccccccCCCCccCCccEEEeCCCCeEE------EEEEeecC--CCCCCe
Q 013029 229 LNDDLLIGKGGRSIYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFP------VMNYRMTQ--EFKPPF 300 (451)
Q Consensus 229 ln~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~fH~cV~~~~~~~~~~i~F~PPdG~F~------Lm~Yr~~~--~~~~P~ 300 (451)
|++... .+ -++++||++|++.|.+++.|...+|+..|+ |++||... +..+|+
T Consensus 320 l~n~~~-----------------~g---~q~ktHPNlDK~~f~s~s~iglk~~~K~FPvn~~VGvLkWR~~~~des~iPl 379 (512)
T KOG2635|consen 320 LANGRD-----------------KG---TQLKTHPNLDKKVFLSSSLIGLKRPEKPFPVNSDVGVLKWRMVDEDESEIPL 379 (512)
T ss_pred EcCCCC-----------------cc---eeeeeCCCcchhhhccccccccccCCCCCCcCCcceEEEEeecccccccCce
Confidence 976211 12 378999999999999999999999999997 89999875 778999
Q ss_pred EEEEEEEEcCc---eEEEEEEEEeeecCCcceeeeEEEEecCCCCceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecC
Q 013029 301 RINTLVEEAGA---LKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVG 377 (451)
Q Consensus 301 ~v~~~~~~~~~---~~~e~~l~l~~~~~~~~~~~~v~i~iplP~~~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~ 377 (451)
+++||.++.|. ..+||++... ..++||.|.||+|.++ .+++....|. +.|+..++.+.|.|+.+..
T Consensus 380 TincWPSes~~g~dV~iEYe~~~~------~eL~dV~i~iPlP~~i-apsv~~~Dge----~~~~~~~~~leW~I~~Ia~ 448 (512)
T KOG2635|consen 380 TINCWPSESGNGYDVNIEYEAVLE------CELNDVIITIPLPANI-APSVGECDGE----YRYDERKNVLEWSIGVIAK 448 (512)
T ss_pred EEEeccccCCCCeEEEEEEeehhc------ccccceEEEeeccccc-CCccceecce----EEeccccceeEEEeeeecc
Confidence 99999887653 2455655332 3567999999999987 6777666666 9999999999999999943
Q ss_pred CceeEEEEEEEeccCCCCCCCCccCceEEEEeeCcccccccEEEEEEEeecCCCCCcccc-eEEEEecCcEEE
Q 013029 378 GSEHTLRAKLTFSQESHGNITKEVGPVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPYRW-VRYVTQANSYVA 449 (451)
Q Consensus 378 ~~~~~l~~~~~~~~~~~~~~~~~~~pi~v~F~ip~~t~SGl~V~~l~v~~~~~~~~~~k~-vrY~t~sg~Y~~ 449 (451)
+ .+.+.+|..+.. .++.++|++|.|+.. .+++|+.|.++..... ..|.+. ++-.-.+..|++
T Consensus 449 N--~SGslEFs~~~~----~~~~fFPl~VsF~s~-~~ftgl~vqkVv~~~~---~~~~~y~~~t~f~~dky~V 511 (512)
T KOG2635|consen 449 N--FSGSLEFSCPAS----DPDGFFPLSVSFTSD-TVFTGLFVQKVVRNDG---HAPVRYSVETTFEVDKYEV 511 (512)
T ss_pred C--CCCcEEEeecCC----CCCceeeEEEEEEec-ccccceEEEEEEEcCC---CCCceeEEEEEEEeeeeEe
Confidence 3 344444444332 256799999999999 5999999999765543 123222 344444667765
No 6
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=7.4e-37 Score=307.33 Aligned_cols=256 Identities=26% Similarity=0.436 Sum_probs=218.5
Q ss_pred CCcccceEEEEEEEeEEEEEcCCccEEEEEEEEEEEEEEeecCCceeEEEeccccccccCCCccccccCCCCCCcEEeec
Q 013029 179 GGRKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRSIYDYRSSTGSGAVVLDD 258 (451)
Q Consensus 179 ~~~~~nEi~vdV~E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~~~~~~~~l~d 258 (451)
.+|..+||.|||.+..+++++++|.++...|.-+|.|.|||+|.|+|.|+|||....|++-....|++++....||+|.+
T Consensus 582 ~nY~e~EI~v~~~Defsg~V~Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t~kwI~~~~ 661 (922)
T KOG2677|consen 582 SNYLEEEITVDVRDEFSGIVSKEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTTTKWIKLHE 661 (922)
T ss_pred cccccceeEEEEEeccceeecccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEeccccccccccceeeee
Confidence 47899999999999999999999999999999999999999999999999999988777666666899999999999999
Q ss_pred cccccccCCCCccCCccEEEeCCCC-eEEEEEEeec-CCCCCCeEEEEEEEEcCceEEEEEE--EEeeec------CCcc
Q 013029 259 CNFHESVRLDSFDVDRTLSLVPPDG-EFPVMNYRMT-QEFKPPFRINTLVEEAGALKAEVII--KISAEF------SASI 328 (451)
Q Consensus 259 ~~fH~cV~~~~~~~~~~i~F~PPdG-~F~Lm~Yr~~-~~~~~P~~v~~~~~~~~~~~~e~~l--~l~~~~------~~~~ 328 (451)
|.||.||+.+.|+++|+|.|.|||| .|+|||||+. ....+||.++..+...|. .+|+.. ++.+++ ...+
T Consensus 662 ~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftlks~~~V~Ga-~VEvq~~~~mat~~qr~rd~~~~v 740 (922)
T KOG2677|consen 662 CRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTLKSATSVNGA-EVEVQSWLRMATGFQRNRDPLTQV 740 (922)
T ss_pred eeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceeeeeeeeeccc-eeehHHHHHHHhhhhhccCccccC
Confidence 9999999999999999999999999 9999999997 355899999998887774 455432 223333 2346
Q ss_pred eeeeEEEEecCCCCceeE--------------------------------EEEEcCCCCcceEEEeCCCcEEEEEeCeec
Q 013029 329 TANTIVVEMPLPKYTTRV--------------------------------SFGLEPGAVGQRTDFKEANRRLEWGLKKIV 376 (451)
Q Consensus 329 ~~~~v~i~iplP~~~~~~--------------------------------~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~ 376 (451)
.|+||.|++|+|..|... .+++..|+ ++|++..+.|+|+|++++
T Consensus 741 pCenI~IrfPVPs~WIk~fr~e~~~g~kSlkaK~nR~a~~gsl~~~~sepvi~vt~G~----AKYEhay~siVWrI~RLP 816 (922)
T KOG2677|consen 741 PCENIMIRFPVPSEWIKNFRRESVLGEKSLKAKVNRGASFGSLSVSGSEPVIRVTLGT----AKYEHAYNSIVWRINRLP 816 (922)
T ss_pred cccceeEeccCcHHHHHHHHHHhhhccchhhhhhcccccccchhhccCCceEEEeecc----hhhHHhhhhheeecccCC
Confidence 899999999999977411 13445566 999999999999999998
Q ss_pred CCc-----eeEEEEEEEeccCCCCCCCCccCceEEEEeeCcccccccEEEEEEEeecCCCCCcccceEEEEe
Q 013029 377 GGS-----EHTLRAKLTFSQESHGNITKEVGPVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPYRWVRYVTQ 443 (451)
Q Consensus 377 ~~~-----~~~l~~~~~~~~~~~~~~~~~~~pi~v~F~ip~~t~SGl~V~~l~v~~~~~~~~~~k~vrY~t~ 443 (451)
.+. .+.|.|.++|+++...+. +-.+.++|+|.+|..++|...||+|.|+.+ -.+.|||+|...
T Consensus 817 dKnsa~~hpHcl~c~lELgSd~evPs-~f~p~~~V~FsmP~t~aS~t~VRSisVE~~---~~v~K~V~y~A~ 884 (922)
T KOG2677|consen 817 DKNSASGHPHCLFCHLELGSDREVPS-RFAPHVNVEFSMPTTSASKTSVRSISVEDK---TDVRKWVNYSAH 884 (922)
T ss_pred ccccccCCCeeEEEEEeccccccCch-hhccccceeeeccccccccceeeeeecccc---ccHHHHHhhhhh
Confidence 643 689999999998765433 346779999999999999999999999875 569999999754
No 7
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=99.95 E-value=3.3e-27 Score=207.53 Aligned_cols=138 Identities=30% Similarity=0.482 Sum_probs=116.0
Q ss_pred CeEEEEEEeCCCCEEEEEeccCCCCcchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHHH
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPSL 80 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~~~~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~ 80 (451)
||+|++|+|++|+++++|+|++. +......+++.+......+....+|++.+++.+++|++.++|||+++++.++|++.
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNel~ 79 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRDV-SEEERQKLFEKFIKKKSSRNSKQSPIFEHDNYRIVYKRYSDLYFVVVGDENENELL 79 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESSTS-TSHHHHHHHHHHHHHHHTSSSSSTSEEEETTEEEEEEEETTEEEEEEESSTSBHHH
T ss_pred CEEEEEEEcCCCCEEEehhcCCc-cHHHHHHHHHHHHHHHHhcccccceeeecccceeeeEeeccEEEEEEeecccchHH
Confidence 99999999999999999999654 33333333333332221223456999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeeecC
Q 013029 81 VLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVFNE 139 (451)
Q Consensus 81 ~~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~~~ 139 (451)
++++|+++.++|++|||.++|..|++||+.+|++||||+|+|+|++||++.|...+.+.
T Consensus 80 ~~e~l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~~~I~~~v~~~ 138 (141)
T PF01217_consen 80 LLEFLHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDPNVILKRVTMQ 138 (141)
T ss_dssp HHHHHHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--THHHHHHHHHHC
T ss_pred HHHHHHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999998887653
No 8
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=99.81 E-value=2.8e-19 Score=148.99 Aligned_cols=130 Identities=18% Similarity=0.254 Sum_probs=114.8
Q ss_pred CeEEEEEEeCCCCEEEEEeccCCCCcc---hHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCC
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGEVQKG---SAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVS 77 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~~~~~---~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n 77 (451)
||++++|+|++|++++.|||.+..... .+......+..+ ..+++.+++..+.+.+|+++++|||+++.+.+.|
T Consensus 1 ~i~~vli~nrqgk~RL~K~yt~~~~~e~~kli~~i~~lIs~R----~~ke~N~~e~k~~kiVYrrYA~LyF~f~Vd~~dn 76 (152)
T COG5030 1 MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISAR----KPKESNFIEGKNEKIVYRRYATLYFVFGVDNDDN 76 (152)
T ss_pred CeEEEEEEcCCCceeeeEeeccCCcHHHHHHHHHHHHHHHcC----CchhcccccccCcEEEeeecCcEEEEEEEcCCCC
Confidence 899999999999999999997643321 134555566553 2468899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhhe
Q 013029 78 PSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKS 134 (451)
Q Consensus 78 ~~~~~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~ 134 (451)
++.+++++|.|+++|+.|||+++|..+..||-.+|.+||||+-+|..++++++.+-.
T Consensus 77 El~iL~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl~ 133 (152)
T COG5030 77 ELIILELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVLE 133 (152)
T ss_pred cchHHHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHHH
Confidence 999999999999999999999999999999999999999999999999999987643
No 9
>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.77 E-value=4.6e-18 Score=144.93 Aligned_cols=139 Identities=17% Similarity=0.250 Sum_probs=124.8
Q ss_pred eEEEEEEeCCCCEEEEEeccCCCCcch--HHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHH
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEVQKGS--AEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPS 79 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~~~~~--~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~ 79 (451)
+++++|+|++|+++++|||.++.+... ..+|.+.+.+. + .+.+..|..++|...+|...-||+|+++...++|++
T Consensus 9 vk~iliLD~~G~Ri~aKYY~~~~~s~vkeqkaFEK~lF~K--T-~kt~~eI~~ldg~~vvYk~~~Dl~fyv~G~~~ENEl 85 (175)
T KOG3343|consen 9 VKAILILDSDGKRILAKYYDDPHPSTVKEQKAFEKNLFSK--T-SKTESEILLLDGNTVVYKSVIDLHFYVVGSEEENEL 85 (175)
T ss_pred hheEEEEcCCCCEeeeeecCCCcchhHHHHHHHHHHHhcc--c-ccccceeEEecCcEEEEEecccEEEEEecCcchhHH
Confidence 579999999999999999998877634 44788888763 2 257778999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHh-cccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeeecCceec
Q 013029 80 LVLELLQRIARVIKDYL-GVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVFNEPIVV 143 (451)
Q Consensus 80 ~~~~~L~~~~~~l~~y~-~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~~~~~~~ 143 (451)
+..+.|+.+.+++.-.| .++....+.+|++++...+||+||+|.+++||++++...+..++..+
T Consensus 86 ~L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp~~ia~rv~~~~~~~ 150 (175)
T KOG3343|consen 86 MLMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDPNQIAQRVALRPTDE 150 (175)
T ss_pred HHHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCHHHHHHHhccCCCCc
Confidence 99999999999999999 47888999999999999999999999999999999999998877654
No 10
>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.70 E-value=1.4e-17 Score=138.86 Aligned_cols=127 Identities=21% Similarity=0.275 Sum_probs=109.5
Q ss_pred CeEEEEEEeCCCCEEEEEeccCCCCc--chHH-HHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCC
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGEVQK--GSAE-IFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVS 77 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~~~~--~~~e-~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n 77 (451)
||.+++.++++|+.+++|||...... ..++ ...+.++.+ ..+++.+++..+...+|+++++|||++....+.|
T Consensus 1 mi~f~LlvsrQGk~rL~k~y~~~~~~er~~i~re~i~~~Lar----~pk~csfie~kd~kvVyrryasl~f~~~v~~~dN 76 (145)
T KOG0934|consen 1 MIKFFLLVSRQGKTRLQKWYEALSIKERKKIERELIKSVLAR----KPKMCSFIEYKDEKVVYRRYASLFFCVGVEDNDN 76 (145)
T ss_pred CeEEEEEEeccCceehhHHHhhhcHHHHHHHHHHHHHHHHhC----CcccccchhccCceehhhhhhhEEEEEEEecCCc
Confidence 89999999999999999999764332 2222 233333332 3578899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHh
Q 013029 78 PSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEV 131 (451)
Q Consensus 78 ~~~~~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~ 131 (451)
++.++|++|+++++|+.|||+++|..|..||..+|.+|||++-.|-.+++..+.
T Consensus 77 EL~~LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~~ 130 (145)
T KOG0934|consen 77 ELAILEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKND 130 (145)
T ss_pred hhhHHHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhccc
Confidence 999999999999999999999999999999999999999999999888877654
No 11
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.68 E-value=3.2e-16 Score=132.43 Aligned_cols=133 Identities=17% Similarity=0.166 Sum_probs=112.1
Q ss_pred CeEEEEEEeCCCCEEEEEeccCCCC---cchHHHHHHHhcccccCCCCCCCCEEEe------CCEEEEEEEeCCEEEEEE
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGEVQ---KGSAEIFFRKVKFWKDDGEEEAPPVFNV------DGVNYFHVKVVGLLFVAT 71 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~~~---~~~~e~f~~~~~~~~~~~~~~~~pi~~~------~~~~~~~~~~~~l~~v~~ 71 (451)
||+|++|+|.+|+|++.|.|....- ...+...+..+..+ ....+.+++. .+.+.+|+++..|||+.+
T Consensus 1 MI~AvlifNn~gkPRL~KFY~p~~~~~Qq~lir~vf~lvs~R----~~n~~nFLe~~~l~g~~d~rlIYrhYATLYFvfv 76 (182)
T KOG0936|consen 1 MIKAVLIFNNKGKPRLVKFYTPVDEEKQQQLIREVFHLVSKR----PDNVCNFLEGNSLIGGSDNRLIYRHYATLYFVFV 76 (182)
T ss_pred CeeEEEEecCCCCcceeeecCcCChHHHHHHHHHHHHHHHcC----CchHhhhhccccccCCccceeehheeeeEEEEEE
Confidence 9999999999999999999986422 11233444455442 2455566653 368899999999999999
Q ss_pred eccCCCHHHHHHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeee
Q 013029 72 TRVNVSPSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVF 137 (451)
Q Consensus 72 ~~~~~n~~~~~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~ 137 (451)
.++.++++.++++++.|++.|+..|.+++|.++..|+..++.+|+|++.+|.+.+|+.|.+..-+.
T Consensus 77 vD~sEsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~ 142 (182)
T KOG0936|consen 77 VDSSESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVD 142 (182)
T ss_pred EcCCcchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999998755543
No 12
>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.68 E-value=2e-16 Score=128.36 Aligned_cols=132 Identities=20% Similarity=0.192 Sum_probs=107.5
Q ss_pred CeEEEEEEeCCCCEEEEEeccCCCC--cch-HHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCC
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGEVQ--KGS-AEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVS 77 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~~~--~~~-~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n 77 (451)
||..|+|.|++|+.+++|||.+... +.. ++...+.+..+. .+.+.-+........+++++++|||+...+...|
T Consensus 1 mi~FILiqNr~Gk~RLak~yv~~dd~ek~~~~~~vh~lvs~Rd---~K~~~~~~~~~~~~~~~rryagLyf~~~vd~tDn 77 (143)
T KOG0935|consen 1 MIRFILIQNRAGKTRLAKWYVQFDDDEKQKLIEEVHALVTVRD---AKHTNFVEFRNFKIIYRRRYAGLYFCICVDVTDN 77 (143)
T ss_pred CeEEEEEEccccceeheeeeeccCchHHHHHHHHHHHHHhhcc---chhhhheeeeeceEEEEEeeCCEEEEEEEecCCc
Confidence 9999999999999999999976432 222 445566665421 2333334444555556678999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhhee
Q 013029 78 PSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSY 135 (451)
Q Consensus 78 ~~~~~~~L~~~~~~l~~y~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~ 135 (451)
.+..++.+|.|+++|.+||++++|..+..||-.||.++|||+-+|..++|+...+-+.
T Consensus 78 elayLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vler 135 (143)
T KOG0935|consen 78 ELAYLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVLER 135 (143)
T ss_pred hHHHHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999998765443
No 13
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.33 E-value=5.5e-12 Score=107.39 Aligned_cols=139 Identities=13% Similarity=0.210 Sum_probs=118.5
Q ss_pred eEEEEEEeCCCCEEEEEeccCCCCcc----------hHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEE
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEVQKG----------SAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVAT 71 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~~~~----------~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~ 71 (451)
+.|++|+|++|++|..|||.+..... ....|.+++... + .+.+..|...++...++.+..|+.|+.+
T Consensus 8 v~a~LilDsqGeriy~kyy~pph~~eg~~~vFnsvkkekefek~l~eK--t-~k~~~~Il~f~d~lV~~k~~~dv~~yiv 84 (187)
T COG5541 8 VEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEK--T-AKDRESILMFYDRLVMCKRLDDVLLYIV 84 (187)
T ss_pred eeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHH--h-hcCccceeeEcceeeeeeeehhEEEEEe
Confidence 67999999999999999998653321 124677777652 2 2677789999999999999999999999
Q ss_pred eccCCCHHHHHHHHHHHHHHHHHHhcc-cCHHHHHhhHHHHHHHHHHhhcCCeeeeechHhhheeeecCceec
Q 013029 72 TRVNVSPSLVLELLQRIARVIKDYLGV-LNEDSLRKNFVLVYELLDEVIDFGYVQTTSTEVLKSYVFNEPIVV 143 (451)
Q Consensus 72 ~~~~~n~~~~~~~L~~~~~~l~~y~~~-l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~v~~~~~~~ 143 (451)
..-++|+.++-+.+..|..+|.-.+.. .++..+.+||+.+..+.||.||.|.+.+|+++.+.+.|+.++..+
T Consensus 85 ~~meeNE~~l~q~f~~ir~Al~li~k~~~dkr~v~enYDqivl~vdEtid~Gvilet~s~~ia~rv~K~p~~E 157 (187)
T COG5541 85 SPMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPKPPNFE 157 (187)
T ss_pred cccccccHHHHHHHHHHHHHHHHHHcCCcchhhHHhhhceEEEeeehhcccceEeecChHHHHHhCCCCCCcc
Confidence 999999999999999999999998864 566679999999999999999999999999999999998766543
No 14
>PF10291 muHD: Muniscin C-terminal mu homology domain; InterPro: IPR018808 The muniscins are a family of endocytic adaptors that is conserved from yeast to humans.This C-terminal domain is structurally similar to mu homology domains, and is the region of the muniscin proteins involved in the interactions with the endocytic adaptor-scaffold proteins Ede1-eps15. This interaction influences muniscin localisation. The muniscins provide a combined adaptor-membrane-tubulation activity that is important for regulating endocytosis.; PDB: 3G9H_A.
Probab=99.12 E-value=1.7e-08 Score=97.19 Aligned_cols=229 Identities=16% Similarity=0.247 Sum_probs=124.1
Q ss_pred EEEEEEEeEEEEEcCCccEEEEEEEEEEEEEEeecC------CceeEEEeccccccccCCCccccccCCCCCCcEEeecc
Q 013029 186 IFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTG------NPEIRLALNDDLLIGKGGRSIYDYRSSTGSGAVVLDDC 259 (451)
Q Consensus 186 i~vdV~E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG------~P~~~l~ln~~~~~~~~~~~~~~~~~~~~~~~~~l~d~ 259 (451)
+-..|.|.|||.+. +|.+.+..|.|+|.+.---+- .+.+.+.|+....+ +.+
T Consensus 3 l~asi~E~VnA~Fk-~g~~~~v~v~GEv~ls~~~~~~~~~~~~~~l~~rl~n~~~l---------------------e~i 60 (257)
T PF10291_consen 3 LNASITETVNAYFK-GGQLSKVKVTGEVALSYPAGISSSLTSPPPLSFRLNNFSRL---------------------EKI 60 (257)
T ss_dssp EEEEEEEEEEEEEE-TTEEEEEEEEEEEEEEEE--SSS-----SEEEEEEETGGGE---------------------EEE
T ss_pred eeEEEEEEEEEEEE-CCcEEEEEEEEEEEEecCCChhhcccCCCcEEEEEcCcchh---------------------cee
Confidence 45679999999997 789999999999988643322 34567777654322 221
Q ss_pred ccccccCCCCccCCccEEEeCC--CCeE--EEEEEeecC-C---CCCCeEEEEEEEEc-CceEEEEEEEEee-ecCCcce
Q 013029 260 NFHESVRLDSFDVDRTLSLVPP--DGEF--PVMNYRMTQ-E---FKPPFRINTLVEEA-GALKAEVIIKISA-EFSASIT 329 (451)
Q Consensus 260 ~fH~cV~~~~~~~~~~i~F~PP--dG~F--~Lm~Yr~~~-~---~~~P~~v~~~~~~~-~~~~~e~~l~l~~-~~~~~~~ 329 (451)
.-.+..=...-.++....|-++ .... ..|+|++.. . ...|+.+.+..... ++..+-+..++.. .+.....
T Consensus 61 ~pN~~~v~~~~~~~~~f~~n~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e~~~tsl~l~Y~~Np~~~~~~~~ 140 (257)
T PF10291_consen 61 APNPQFVSSSSQSDGEFWLNMSALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCEPSQTSLILDYKLNPDAFASPVP 140 (257)
T ss_dssp EE-TTTE--EEEETTEEEE-TTTTBT-E-EEEEEEEEES--------SEEEEEEEEE-SSEEEEEEEEEE-TTT--E-EE
T ss_pred ecCHhHeecCCCCCCcEEEehHHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeCCceEEEEEEEEeChhhccccce
Confidence 1111110000011223445443 2233 569999985 2 67899999877653 3222333333333 3344467
Q ss_pred eeeEEEEecCCCC-ceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeec--CCce-eEEEEEEEeccCCCCCCCCccCceE
Q 013029 330 ANTIVVEMPLPKY-TTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIV--GGSE-HTLRAKLTFSQESHGNITKEVGPVN 405 (451)
Q Consensus 330 ~~~v~i~iplP~~-~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~--~~~~-~~l~~~~~~~~~~~~~~~~~~~pi~ 405 (451)
++||.|.+++..+ ++++...+. |+ |..+++.+.|+|+.+. ++.+ ..|.|.|....... .-.+|.
T Consensus 141 L~nv~~~v~l~g~~~ts~~skP~-g~------~~~e~~ri~Wrl~el~~~~~~~~~kL~ARf~~~~~~~-----~p~~v~ 208 (257)
T PF10291_consen 141 LENVVFSVPLDGGRATSAQSKPQ-GT------WNKEKNRITWRLPELSLTSEGEGGKLIARFMTSGGPS-----RPGGVE 208 (257)
T ss_dssp EEEEEEEEEB-SS-EEEEEESSS---------B-SSS-EEEEE-SSEEEETT---EEEEEEEEESS---------SS-EE
T ss_pred eeeEEEEEEcCCccccccccCCC-cc------ccCCCcEEEEECCcccccCCCCCceEEEEEECCCCCC-----CCceEE
Confidence 8999999999988 666655443 44 7799999999999864 3323 78999998765421 357899
Q ss_pred EEEeeC-cccccccEEEEEEEeec----CCCCCcccceEEEEecCcEEE
Q 013029 406 MTFTIP-MYNASKLQVKYLQIAKK----SSTYNPYRWVRYVTQANSYVA 449 (451)
Q Consensus 406 v~F~ip-~~t~SGl~V~~l~v~~~----~~~~~~~k~vrY~t~sg~Y~~ 449 (451)
++|++. +-+.||+.|.-+.-.++ +..|+.. =++....||.|..
T Consensus 209 vkF~~~~~~~~sg~~i~~~~~~~~~dp~~~~w~~~-~~~r~~~sGkY~~ 256 (257)
T PF10291_consen 209 VKFEIEGGSTLSGLGISLVYQDDEEDPPGGGWRLV-LVKRKLVSGKYIA 256 (257)
T ss_dssp EEEEE---S-SS----EEEEEESSS-TT----EE--EEEEEEEEEEEE-
T ss_pred EEEEEcCCCcccCcEEEEeecccccCCCCCcceEE-EEEEEEeeeEEec
Confidence 999999 88899999988722211 1223332 3677777899863
No 15
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=94.47 E-value=0.29 Score=50.70 Aligned_cols=92 Identities=18% Similarity=0.166 Sum_probs=59.9
Q ss_pred EEEEEEeCCCCEEEEEeccCCCCcchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHHHHH
Q 013029 3 SQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPSLVL 82 (451)
Q Consensus 3 ~~ifIl~~~G~~li~r~y~~~~~~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~~~ 82 (451)
+.+||++..|||+.+|+=. +..-...-.....+...... .++.---+..++.++++..++-||+||+++..+++..+.
T Consensus 12 kh~fIlS~AGKPIysr~G~-e~~l~~~~g~~~aiiS~~~~-~~d~l~~i~~~~~~ivfl~r~pl~lv~vS~~~e~~~~l~ 89 (415)
T PF03164_consen 12 KHFFILSSAGKPIYSRYGD-EDKLSSLMGVIQAIISFFQS-NGDELRSIRAGDHRIVFLNRGPLILVAVSKTGESESQLR 89 (415)
T ss_pred CeEEEECCCCceeEEecCC-hHHHHHHHHHHHHHHHHHHh-CCCcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHHHH
Confidence 4689999999999999832 21111111112222111100 123333567799999999999999999999988887777
Q ss_pred HHHHHHHHHHHHHh
Q 013029 83 ELLQRIARVIKDYL 96 (451)
Q Consensus 83 ~~L~~~~~~l~~y~ 96 (451)
.-|+.+...|-..+
T Consensus 90 ~qL~~ly~qils~l 103 (415)
T PF03164_consen 90 KQLDYLYSQILSIL 103 (415)
T ss_pred HHHHHHHHHHHHhc
Confidence 77777666665544
No 16
>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1
Probab=92.81 E-value=0.81 Score=41.78 Aligned_cols=78 Identities=14% Similarity=0.135 Sum_probs=67.6
Q ss_pred EEEEEEEeCCEEEEEEeccCCCHHHHHHHHHHHHHHHHHHhcccCH-HHHHhhHHHHHHHHHHhhcCCeeeeechHhhh
Q 013029 56 VNYFHVKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLGVLNE-DSLRKNFVLVYELLDEVIDFGYVQTTSTEVLK 133 (451)
Q Consensus 56 ~~~~~~~~~~l~~v~~~~~~~n~~~~~~~L~~~~~~l~~y~~~l~e-~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~ 133 (451)
...++....++-|..|+...+|.+++-.+|+.+...|.+.+..++- ..+...-+.|..+|+..+..|--.-.+-+.+|
T Consensus 104 k~vvW~~v~~l~ftLVce~hEN~lLa~~~L~~~~~~l~~~~~~l~~~~e~l~k~d~i~aiL~~fLP~GQLLFlN~~~~k 182 (189)
T PF15001_consen 104 KIVVWLGVGSLCFTLVCEPHENRLLAENTLRLFIRHLLEHLKILSQPSEVLLKSDRILAILHRFLPHGQLLFLNHRFVK 182 (189)
T ss_pred cEEEeeccCCEEEEEEecCchhHHHHHHHHHHHHHHHHHHHHHhCcHHHhhhhHHHHHHHHHHhCCCCcEEEEcHHHHH
Confidence 4567888999999999999999999999999999999999965443 66788999999999999999988877766554
No 17
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=92.53 E-value=0.65 Score=47.89 Aligned_cols=100 Identities=26% Similarity=0.331 Sum_probs=62.7
Q ss_pred EEEEEEeCCCCEEEEEeccCCCCc---chHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHH
Q 013029 3 SQFFVLSQRGDNIVFRDYRGEVQK---GSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPS 79 (451)
Q Consensus 3 ~~ifIl~~~G~~li~r~y~~~~~~---~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~ 79 (451)
+.+||+.+.|+++++|+=.++.-. +...+...-+.. ++..-.-+..+|..+++.+.+-|++||+++.+..+.
T Consensus 118 khifilseaGKPiyS~~gs~e~l~stmGv~~alISf~q~-----~~~~i~si~a~g~k~vfl~kspl~LvA~s~t~~Sa~ 192 (523)
T KOG0997|consen 118 KHIFILSEAGKPIYSRHGSDEALSSTMGVMQALISFFQV-----SGLAITSIHAFGNKLVFLQKSPLLLVAVSRTSQSAA 192 (523)
T ss_pred ceEEEEecCCCceeeecCcHHHHHHHHHHHHHHHHHHhh-----CCceEEEEEecCceEEEEecCcEEEEEEcccccCHH
Confidence 359999999999999986543221 122222211111 123334567899999999999999999999888776
Q ss_pred HHHHHHHHHHHHHHHHhcccCHHHH------HhhHHH
Q 013029 80 LVLELLQRIARVIKDYLGVLNEDSL------RKNFVL 110 (451)
Q Consensus 80 ~~~~~L~~~~~~l~~y~~~l~e~~i------~~n~~~ 110 (451)
....=|..+..-+ +..|++..+ ++|||+
T Consensus 193 qL~~qL~~ly~QI---lS~LT~~ql~~if~~r~NfDL 226 (523)
T KOG0997|consen 193 QLLQQLLLLYCQI---LSILTASQLQRIFNKRQNFDL 226 (523)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHhcccCchH
Confidence 6554444333322 223443332 577774
No 18
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.
Probab=92.18 E-value=2.5 Score=35.83 Aligned_cols=92 Identities=12% Similarity=0.143 Sum_probs=60.7
Q ss_pred eEEEEEEeCCCCEEEEEeccCCCCcchH-HH----HHHHhcc-cccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccC
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEVQKGSA-EI----FFRKVKF-WKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVN 75 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~~~~~~-e~----f~~~~~~-~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~ 75 (451)
+.+|+|-|++|=+++.-...+. +..+. .. |-....+ .|....+...-+..+++...++.....+++..+++.+
T Consensus 17 l~~I~itDrDGvpi~~v~~~~~-~~~~~~~~~~~tf~~a~~Q~~KL~lG~nk~ii~~Y~~~qvv~~~~~pl~it~ias~~ 95 (119)
T PF08923_consen 17 LQAIVITDRDGVPIAKVSSDSA-PESAMRPSLLSTFAMAIDQASKLGLGKNKSIIAYYDSYQVVQFNKLPLYITFIASSN 95 (119)
T ss_dssp EEEEEEEETTS-EEEEEE-TTS--GGGGSHHHHCCHHHHHHHHTTSSS-SEEEEEEEESSEEEEEEEETTEEEEEEEETT
T ss_pred eEEEEEECCCCcEEEEecCCCC-cchhhhhHHHHHHHHHhhcccccCCCCceEEEEEeCCEEEEEEeCCCeEEEEEecCC
Confidence 5689999999999888544332 32221 12 2222111 0111122333466789999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHH
Q 013029 76 VSPSLVLELLQRIARVIKD 94 (451)
Q Consensus 76 ~n~~~~~~~L~~~~~~l~~ 94 (451)
.|.-.++.+-+.+..+|++
T Consensus 96 aN~G~il~l~~~L~~~l~~ 114 (119)
T PF08923_consen 96 ANTGLILSLEEELAPILNE 114 (119)
T ss_dssp S-HHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHhHHHHHHHHHH
Confidence 9999999988888888875
No 19
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=86.77 E-value=5.1 Score=31.25 Aligned_cols=49 Identities=10% Similarity=0.216 Sum_probs=41.8
Q ss_pred CEEEeCCEEEEEEEeCCEEEEEEeccCCCHHHHHHHHHHHHHHHHHHhc
Q 013029 49 PVFNVDGVNYFHVKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLG 97 (451)
Q Consensus 49 pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~~~~~L~~~~~~l~~y~~ 97 (451)
-.++.++..|-+...+++.++|+|+.+-+.-.++.||+.+.+-...-++
T Consensus 17 ~s~~~~~~~fh~~~~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~ 65 (83)
T PF13774_consen 17 MSYESGNYVFHYLVEDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYG 65 (83)
T ss_dssp EEEEETTEEEEEEEETTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCT
T ss_pred EEEEECCEEEEEEEcCCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcC
Confidence 4567888888888899999999999999999999999999988777665
No 20
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=82.82 E-value=26 Score=29.09 Aligned_cols=87 Identities=18% Similarity=0.286 Sum_probs=53.9
Q ss_pred eEEEEEEeCCCCEEEEEeccCCCC---cch-------H---HHHHHHhcccccCCCCCCCCE--EEeCC-EEEEEEEeCC
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEVQ---KGS-------A---EIFFRKVKFWKDDGEEEAPPV--FNVDG-VNYFHVKVVG 65 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~~---~~~-------~---e~f~~~~~~~~~~~~~~~~pi--~~~~~-~~~~~~~~~~ 65 (451)
+.++||+|+.|-.+..|.|..+.+ .+. + .++..++.... ...+. +..+. +-.+++...+
T Consensus 3 ve~~~iINksGglifqref~~~et~lnsneyLiLastlhgV~aI~tq~~p~~-----gssg~~~l~~~~f~m~I~qT~TG 77 (134)
T COG5122 3 VEQFFIINKSGGLIFQREFGEGETELNSNEYLILASTLHGVSAILTQTIPLP-----GSSGRLVLYFRNFVMTIFQTTTG 77 (134)
T ss_pred eeEEEEEecCCcEEEEEeccCCccccCcccEEEEeechhhhhhhhhhcccCC-----CCCceEEEEeccEEEEEEEecCC
Confidence 678999999999999999954322 111 1 12222222111 11232 23333 4468888999
Q ss_pred EEEEEEec-cCCCHHHHHHHHHHHHHHHHHHh
Q 013029 66 LLFVATTR-VNVSPSLVLELLQRIARVIKDYL 96 (451)
Q Consensus 66 l~~v~~~~-~~~n~~~~~~~L~~~~~~l~~y~ 96 (451)
+-||+++. +..|.++- |+++..+..+|.
T Consensus 78 ~kFV~~~~k~t~na~~q---l~kiY~lYsdYV 106 (134)
T COG5122 78 TKFVFVAEKRTVNALFQ---LQKIYSLYSDYV 106 (134)
T ss_pred cEEEEEecCCchhHHHH---HHHHHHHHHHHh
Confidence 99999984 45555433 778888888887
No 21
>PF04099 Sybindin: Sybindin-like family ; InterPro: IPR007233 Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses. Syndecan-2 induces spine formation by recruiting intracellular vesicles toward postsynaptic sites through the interaction with synbindin []. ; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005801 cis-Golgi network; PDB: 3CUE_C 2J3T_C 2ZMV_B 2JSN_A.
Probab=81.94 E-value=33 Score=29.90 Aligned_cols=94 Identities=24% Similarity=0.322 Sum_probs=53.1
Q ss_pred eEEEEEEeCCCCEEEEEeccCCC----CcchH-------------HHHHHHhcccccCC-CCCCCC--EEEeCCEEE-EE
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEV----QKGSA-------------EIFFRKVKFWKDDG-EEEAPP--VFNVDGVNY-FH 60 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~----~~~~~-------------e~f~~~~~~~~~~~-~~~~~p--i~~~~~~~~-~~ 60 (451)
|.+++|+|+.|..+.+|.|.... ++... -+|..++....... ...... -++++..++ ++
T Consensus 1 IyslyI~nr~G~lIy~~~~~~~~~~~~~~~~~ne~~ll~g~l~sl~~i~~klsp~~~~~~~~~~~g~~~~~T~~yklh~~ 80 (142)
T PF04099_consen 1 IYSLYIFNRSGGLIYYREWNRSKNEGQPKLSSNEYKLLAGMLHSLKAIASKLSPVDSKPNEPGSSGFESFETDTYKLHCF 80 (142)
T ss_dssp EEEEEEE-TTS-EEEEEETSSSS--E-SSSCHHHHHHHHHHHHHHHHHHHHT-SSSSSS-SSS--SEEEEEESS-EEEEE
T ss_pred CeEEEEEeCCcceeeehhhCCCCccccCCCChhHHHHHHhhHHHHHHHHHHhCCCCcccccccceeEEEEEeCCEEEEEE
Confidence 67899999999999999997643 11111 12333333210000 001122 344555554 55
Q ss_pred EEeCCEEEEEEeccCCCHHHHHHHHHHHHHHHHHHh
Q 013029 61 VKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYL 96 (451)
Q Consensus 61 ~~~~~l~~v~~~~~~~n~~~~~~~L~~~~~~l~~y~ 96 (451)
....++.||++++.+... ..-++++.+.++.-+|.
T Consensus 81 eT~TGlKFvl~td~~~~~-~~~~l~~~~~~lY~dyV 115 (142)
T PF04099_consen 81 ETPTGLKFVLITDPNVPS-LRDELLRIYYELYVDYV 115 (142)
T ss_dssp E-TTS-EEEEEE-TTCCH-CHHHHHHHHHHHHHHHH
T ss_pred EcCcCcEEEEEecCCCcc-HHHHHHHHHHHHHHHHH
Confidence 667899999999998854 34457888888888887
No 22
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.32 E-value=20 Score=37.55 Aligned_cols=112 Identities=20% Similarity=0.231 Sum_probs=70.1
Q ss_pred CeEEEEEEeCCCCEEEEEeccCCCCcchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCC--EEEEEEeccCCCH
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVG--LLFVATTRVNVSP 78 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~~~~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~--l~~v~~~~~~~n~ 78 (451)
||+.+.|+++.|-+|...+=-+..-...+..|++.++-.... .... +..+..+.=|...++ +.|+++-..--+-
T Consensus 1 Mld~faIFtkgG~vLw~~~~~~~~~~~~in~lI~~~ll~er~-~~~~---~~~~~yTlk~q~~N~~~lvfvvvfqki~~L 76 (587)
T KOG0781|consen 1 MLDQFAIFTKGGLVLWCYQEVGDNLKGPINALIRSVLLSERG-GVNS---FTFEAYTLKYQLDNQYSLVFVVVFQKILTL 76 (587)
T ss_pred CcceeeeecCCcEEEEEecccchhccchHHHHHHHHHHHhhc-Cccc---CchhheeEeeeecCCccEEEEEEEeccchh
Confidence 999999999999988876654443344455665554432211 1111 445566666666664 6666665555555
Q ss_pred HHHHHHHHHHHHHHHHHhcccCHHHHHhhHH-HHHHHHH
Q 013029 79 SLVLELLQRIARVIKDYLGVLNEDSLRKNFV-LVYELLD 116 (451)
Q Consensus 79 ~~~~~~L~~~~~~l~~y~~~l~e~~i~~n~~-~v~~lld 116 (451)
..+-.+|....+...+-+...+-..++.|++ .-.++|+
T Consensus 77 ~yv~~ll~~v~~~f~e~~~~~~~~~l~~n~~~~~~e~lk 115 (587)
T KOG0781|consen 77 TYVDKLLNDVLNLFREKYDTQSALSLLNNTFDFQEELLK 115 (587)
T ss_pred hhHHHHHHHHHHHHHHHhccchHHHhhhhhHHHHHHHHH
Confidence 5666677777776666666666777788876 4455554
No 23
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.85 E-value=35 Score=30.65 Aligned_cols=45 Identities=22% Similarity=0.303 Sum_probs=34.7
Q ss_pred EEEeCC-EEEEEEEeCCEEEEEEeccCCCHHHHHHHHHHHHHHHHHHh
Q 013029 50 VFNVDG-VNYFHVKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYL 96 (451)
Q Consensus 50 i~~~~~-~~~~~~~~~~l~~v~~~~~~~n~~~~~~~L~~~~~~l~~y~ 96 (451)
+++.+. .-+||+...++-||++++.-. ..+-.+|+++.++..+|.
T Consensus 125 ~LetdtF~l~~~QTlTG~KFVvis~~~~--~~aD~lLrKiYelYsDyv 170 (199)
T KOG3369|consen 125 VLETDTFTLHIFQTLTGTKFVVIAEPGT--QGADSLLRKIYELYSDYV 170 (199)
T ss_pred EEEeccEEEEEEEccCCcEEEEEecCCc--hhHHHHHHHHHHHHHHHh
Confidence 344444 346889999999999988765 335668999999999997
No 24
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.33 E-value=90 Score=28.78 Aligned_cols=88 Identities=16% Similarity=0.229 Sum_probs=60.5
Q ss_pred EEEeCCCCEEEEEeccCCCC-cchHHHHHHHhcccccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEeccCCCHHHHHHH
Q 013029 6 FVLSQRGDNIVFRDYRGEVQ-KGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFHVKVVGLLFVATTRVNVSPSLVLEL 84 (451)
Q Consensus 6 fIl~~~G~~li~r~y~~~~~-~~~~e~f~~~~~~~~~~~~~~~~pi~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~~~~~ 84 (451)
|=+=.+|-++++.+=.-..+ .+..+....++-. +++..=-..+|+..|-|...+++.++|++..+..-...+.|
T Consensus 5 Ys~VARGTvvLaeft~~~gNf~sva~qiL~klp~-----~~n~k~tYs~d~y~Fh~l~~dg~tylcvadds~gR~ipfaF 79 (217)
T KOG0859|consen 5 YSFVARGTVILAEFTEFSGNFSSIAAQILQKLPS-----SSNSKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAF 79 (217)
T ss_pred EEEEecceEEEEeeeeccCCHHHHHHHHHHhCCC-----CCCCceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHH
Confidence 33447899999987321111 1223334444332 22333456789999999999999999999998888889999
Q ss_pred HHHHHHHHHHHhcc
Q 013029 85 LQRIARVIKDYLGV 98 (451)
Q Consensus 85 L~~~~~~l~~y~~~ 98 (451)
|+++.+-+..-+|.
T Consensus 80 Le~Ik~~F~k~YG~ 93 (217)
T KOG0859|consen 80 LERIKEDFKKRYGG 93 (217)
T ss_pred HHHHHHHHHHHhcc
Confidence 99998877666653
No 25
>PF03504 Chlam_OMP6: Chlamydia cysteine-rich outer membrane protein 6; InterPro: IPR003506 Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism. The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane []. OMP6 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa []. MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin []. The OMP6 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level []. Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae and Chlamydia psittaci.; GO: 0005201 extracellular matrix structural constituent
Probab=59.26 E-value=86 Score=24.63 Aligned_cols=43 Identities=16% Similarity=0.283 Sum_probs=28.2
Q ss_pred eeeeEEEEecCCCCceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecCCc
Q 013029 329 TANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGS 379 (451)
Q Consensus 329 ~~~~v~i~iplP~~~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~~~ 379 (451)
.+-||+|+=.||-++.=++..+ .+ + -...+.|+|+|+++..+.
T Consensus 43 DcvnVviTqqLPce~eFV~SdP--et-----t-p~~D~kLVW~Ig~l~~G~ 85 (95)
T PF03504_consen 43 DCVNVVITQQLPCEVEFVRSDP--ET-----T-PTPDGKLVWKIGRLGQGE 85 (95)
T ss_pred ceeEEEEeecCCcceEEEecCC--cc-----c-cCCCCEEEEEeccccCCc
Confidence 5679999999998753332211 11 1 125678999999997654
No 26
>PF09201 SRX: SRX; InterPro: IPR015284 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. This entry represents a homologue of the alpha subunit of the SR receptor. Members of this entry consist of a central six-stranded anti-parallel beta-sheet sandwiched by helix alpha1 on one side and helices alpha2-alpha4 on the other. They interact with the small GTPase SR-beta, forming a complex that matches a class of small G protein-effector complexes, including Rap-Raf, Ras-PI3K(gamma), Ras-RalGDS, and Arl2-PDE(delta) []. ; PDB: 1NRJ_A.
Probab=55.39 E-value=1.3e+02 Score=26.07 Aligned_cols=74 Identities=11% Similarity=0.163 Sum_probs=35.1
Q ss_pred CeEEEEEEeCCCCEEEEEeccCC-CCcchHHHHHHHhcccccCC--CCCCCCEEEeC-------CEEEEEEE--eCCEEE
Q 013029 1 MISQFFVLSQRGDNIVFRDYRGE-VQKGSAEIFFRKVKFWKDDG--EEEAPPVFNVD-------GVNYFHVK--VVGLLF 68 (451)
Q Consensus 1 MI~~ifIl~~~G~~li~r~y~~~-~~~~~~e~f~~~~~~~~~~~--~~~~~pi~~~~-------~~~~~~~~--~~~l~~ 68 (451)
|++.+.|++.+|++|..-.=-+. .....+-+|..+++.+..+. .....-+..+. +..+.+.- ...|||
T Consensus 1 MfdQlaIFTpqGqvLyqyN~~gKKFsE~QiN~FIs~lItsP~~~~e~~~~~k~~~i~s~~~~~~~f~~mfh~sKQPeLy~ 80 (148)
T PF09201_consen 1 MFDQLAIFTPQGQVLYQYNCLGKKFSETQINAFISHLITSPVTKKEDSSKSKFLTISSEKKNSRSFSAMFHISKQPELYY 80 (148)
T ss_dssp ---EEEEE-TT-BEEEEEETTS----HHHHHHHHHHHHHS---GGGTT--EEEEE-----------EEEEEEETTTTEEE
T ss_pred CcceeEEeccCceEEEEecccchHHHHHHHHHHHHHHhcCCCcccCCCcceeeEEecccccCCCChheeeeecCCCcEEE
Confidence 99999999999999987443221 12233557888887642111 01122333333 55554443 457998
Q ss_pred EEEecc
Q 013029 69 VATTRV 74 (451)
Q Consensus 69 v~~~~~ 74 (451)
|+.-.+
T Consensus 81 VvTyae 86 (148)
T PF09201_consen 81 VVTYAE 86 (148)
T ss_dssp EEEESS
T ss_pred EEEecc
Confidence 877543
No 27
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=50.60 E-value=1.7e+02 Score=28.81 Aligned_cols=109 Identities=20% Similarity=0.291 Sum_probs=60.2
Q ss_pred CccCCccEEEeCCCCeEEEEEEeecCCCCCCeEEEEEEE----E---cC---ceEEEEEEEEeeecCCcceeeeEEEEec
Q 013029 269 SFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFRINTLVE----E---AG---ALKAEVIIKISAEFSASITANTIVVEMP 338 (451)
Q Consensus 269 ~~~~~~~i~F~PPdG~F~Lm~Yr~~~~~~~P~~v~~~~~----~---~~---~~~~e~~l~l~~~~~~~~~~~~v~i~ip 338 (451)
.|-.+..|.+++|.++|.| .+-.+.. +.+..... . .+ ..+.++.+.++...+ ..-.|.|.=+
T Consensus 194 ~~vG~~~l~~~~~ge~~~l-~~G~d~~----v~v~r~~~~~~~~~g~~~~~~~~~~~~~itv~N~~~---~~v~v~v~d~ 265 (317)
T PF13598_consen 194 TFVGESRLPHTAPGEEFEL-SFGVDPD----VRVERKLLKKEEERGFFGKSQRRTYEYTITVRNNKD---EPVTVTVEDQ 265 (317)
T ss_pred EEEEeeecCCCCCCCEEEE-EcccCCC----EEEEEEecceecccccccccEEEEEEEEEEEECCCC---CCEEEEEEeC
Confidence 4556677889999888884 3433321 22221110 0 11 123445666654332 2336888888
Q ss_pred CCCCc-eeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecCCceeEEEEEEEe
Q 013029 339 LPKYT-TRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKLTF 389 (451)
Q Consensus 339 lP~~~-~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~~~~~~l~~~~~~ 389 (451)
+|-.. ..++++...-. ....+...+.+.|++.--+|+ ..+++..+++
T Consensus 266 iPvs~~~~I~V~~~~~~---~~~~~~~~g~~~W~~~l~~g~-~~~l~~~y~v 313 (317)
T PF13598_consen 266 IPVSEDEDIKVELLEPP---EPNEDEKDGILEWKVTLPPGE-SRTLEFSYEV 313 (317)
T ss_pred CCCCCCceEEEEEcCCC---CCcccCCCCEEEEEEEECCCC-EEEEEEEEEE
Confidence 88654 34455443321 135667899999999955554 4555555544
No 28
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.70 E-value=1.7e+02 Score=25.18 Aligned_cols=93 Identities=19% Similarity=0.337 Sum_probs=51.6
Q ss_pred eEEEEEEeCCCCEEEEEeccCCCCcch--HH---HHHHHhccc-----ccCCCCCCCCEEEeCCEEEE---EEEeCCEEE
Q 013029 2 ISQFFVLSQRGDNIVFRDYRGEVQKGS--AE---IFFRKVKFW-----KDDGEEEAPPVFNVDGVNYF---HVKVVGLLF 68 (451)
Q Consensus 2 I~~ifIl~~~G~~li~r~y~~~~~~~~--~e---~f~~~~~~~-----~~~~~~~~~pi~~~~~~~~~---~~~~~~l~~ 68 (451)
|-+++|+|++|.-|.++-+........ .| ..+..+... +-++......|..+...+|- |-.-.+|+|
T Consensus 3 iy~~yIFdR~g~Cl~y~EW~r~~~s~~~~eee~KL~yGmlFSlkS~v~Kls~~d~k~~f~sy~Ts~YklhfyeTptglk~ 82 (140)
T KOG3368|consen 3 IYNFYIFDRNGVCLFYREWNRTKQSGIPNEEEAKLMYGMLFSLKSFVSKLSPGDVKDGFLSYKTSKYKLHFYETPTGLKF 82 (140)
T ss_pred EEEEEEEcCCccEEEehhcccccccCCchhHHHHHHHHHHhhHHHHHHhcCCCCcccCeeEEeeceeEEEEEEcCCCcEE
Confidence 678999999999999988754322111 11 122222211 11111223334444443332 223458999
Q ss_pred EEEeccCCCHHHHHHHHHHHHH-HHHHHh
Q 013029 69 VATTRVNVSPSLVLELLQRIAR-VIKDYL 96 (451)
Q Consensus 69 v~~~~~~~n~~~~~~~L~~~~~-~l~~y~ 96 (451)
+..|+..+.. +-+.|+.|.. +--+|.
T Consensus 83 vl~Tdpk~~~--ir~vLq~IYs~lyVE~V 109 (140)
T KOG3368|consen 83 VLNTDPKAGS--IRDVLQYIYSHLYVEYV 109 (140)
T ss_pred EEecCCCccc--HHHHHHHHHHHHHHHHH
Confidence 9999877655 5667788777 444444
No 29
>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]
Probab=27.86 E-value=1.3e+02 Score=29.70 Aligned_cols=89 Identities=13% Similarity=0.182 Sum_probs=59.8
Q ss_pred EeEEEEEcCCccEEEEEEEEEEEEEEeecCCceeEEEeccccccccCCCccccccCCCCCCcEEeecccccccc-CCCCc
Q 013029 192 EKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRSIYDYRSSTGSGAVVLDDCNFHESV-RLDSF 270 (451)
Q Consensus 192 E~i~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~fH~cV-~~~~~ 270 (451)
-.|.+.-+++|. ....|.|++.+..-..|+|.-.+.|..--. ++. ...+---+.++.|||-- -+..-
T Consensus 202 R~va~f~d~~~~-alGsiEGrv~iq~id~~~~~~nFtFkCHR~---~~~--------~~~~VYaVNsi~FhP~hgtlvTa 269 (347)
T KOG0647|consen 202 RCVACFQDKDGF-ALGSIEGRVAIQYIDDPNPKDNFTFKCHRS---TNS--------VNDDVYAVNSIAFHPVHGTLVTA 269 (347)
T ss_pred eEEEEEecCCce-EeeeecceEEEEecCCCCccCceeEEEecc---CCC--------CCCceEEecceEeecccceEEEe
Confidence 356777888888 778999999999999999988888865210 000 01123456789999922 11233
Q ss_pred cCCccEEEeCCCCeEEEEEEee
Q 013029 271 DVDRTLSLVPPDGEFPVMNYRM 292 (451)
Q Consensus 271 ~~~~~i~F~PPdG~F~Lm~Yr~ 292 (451)
.++.+.+|=.-|.+-.|..|..
T Consensus 270 GsDGtf~FWDkdar~kLk~s~~ 291 (347)
T KOG0647|consen 270 GSDGTFSFWDKDARTKLKTSET 291 (347)
T ss_pred cCCceEEEecchhhhhhhccCc
Confidence 4566777777777777777754
No 30
>PF07151 DUF1391: Protein of unknown function (DUF1391); InterPro: IPR009821 This family consists of several Enterobacterial proteins of around 50 residues in length. Members of this family are found in Escherichia coli and Salmonella typhi where they are often known as YdfA. The function of this family is unknown.
Probab=26.77 E-value=65 Score=21.89 Aligned_cols=17 Identities=29% Similarity=0.618 Sum_probs=13.5
Q ss_pred EeCCCCeEEEEEEeecC
Q 013029 278 LVPPDGEFPVMNYRMTQ 294 (451)
Q Consensus 278 F~PPdG~F~Lm~Yr~~~ 294 (451)
|---||.|+.|.|.-+.
T Consensus 16 fpn~dgtftamtytksk 32 (49)
T PF07151_consen 16 FPNQDGTFTAMTYTKSK 32 (49)
T ss_pred eeCCCCcEEEEEEeecc
Confidence 55569999999998653
No 31
>PF00235 Profilin: Profilin; InterPro: IPR002097 Profilin is a small eukaryotic protein that binds to monomeric actin (G-actin) in a 1:1 ratio thus preventing the polymerisation of actin into filaments (F-actin). It can also in certain circumstance promote actin polymerisation. Profilin also binds to polyphosphoinositides such as PIP2. Overall sequence similarity among profilin from organisms which belong to different phyla (ranging from fungi to mammals) is low, but the N-terminal region is relatively well conserved. That region is thought to be involved in the binding to actin. A protein structurally similar to profilin is present in the genome of Variola virus and Vaccinia virus (gene A42R). Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Ara t 8, Bet v 2, Cyn d 12, Hel a 2, Mer a 1 and Phl p 11.; GO: 0003779 actin binding, 0007010 cytoskeleton organization, 0015629 actin cytoskeleton; PDB: 1ACF_A 3NEC_C 2V8F_B 2V8C_A 2VK3_A 2JKF_A 2JKG_A 1F2K_B 2ACG_A 1YPR_B ....
Probab=25.75 E-value=3.8e+02 Score=22.05 Aligned_cols=32 Identities=13% Similarity=0.246 Sum_probs=24.4
Q ss_pred EEeCCEEEEEEeccCCCHHHHHHHHHHHHHHH
Q 013029 61 VKVVGLLFVATTRVNVSPSLVLELLQRIARVI 92 (451)
Q Consensus 61 ~~~~~l~~v~~~~~~~n~~~~~~~L~~~~~~l 92 (451)
.+.+..++|+....+.+|-.+.+...++++.|
T Consensus 90 ~kt~~~ivIg~y~~~~~~~~~~~~v~~lA~yL 121 (121)
T PF00235_consen 90 VKTKQAIVIGMYDESIQPGNCNKAVEKLADYL 121 (121)
T ss_dssp EECSSEEEEEEEETTSTHHHHHHHHHHHHHHH
T ss_pred EECCCEEEEEEeCCCCCHHHHHHHHHHHHhhC
Confidence 34455677888888889999888888888765
No 32
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.04 E-value=6.3e+02 Score=23.68 Aligned_cols=48 Identities=10% Similarity=0.227 Sum_probs=41.7
Q ss_pred EEEeCCEEEEEEEeCCEEEEEEeccCCCHHHHHHHHHHHHHHHHHHhc
Q 013029 50 VFNVDGVNYFHVKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLG 97 (451)
Q Consensus 50 i~~~~~~~~~~~~~~~l~~v~~~~~~~n~~~~~~~L~~~~~~l~~y~~ 97 (451)
-++.++..|-|.-.+++.+.++++.+-+--++|.+|+.+.+-+..-++
T Consensus 53 Sietg~f~fHfli~~~Vcylvicd~~yP~kLAF~YLedL~~EF~~~~~ 100 (216)
T KOG0862|consen 53 SIETGPFVFHFLIESGVCYLVICDKSYPRKLAFSYLEDLAQEFDKSYG 100 (216)
T ss_pred ccccCCeEEEEEecCCEEEEEEecCCCcHHHHHHHHHHHHHHHHHhcc
Confidence 356777888889999999999999999999999999999987777665
No 33
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=22.35 E-value=2.7e+02 Score=29.09 Aligned_cols=60 Identities=13% Similarity=0.279 Sum_probs=43.4
Q ss_pred ceeeeEEEEecCCCCceeEEEEEcCCCCcceEEEeCCCcEEEEEeCeecCCceeEEEEEE
Q 013029 328 ITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKL 387 (451)
Q Consensus 328 ~~~~~v~i~iplP~~~~~~~~~~~~g~~~~~~~~~~~~~~l~W~I~~~~~~~~~~l~~~~ 387 (451)
...+++.++|-+|.......+-.-.|..|+..+....++.+.++.+.+++++...++..+
T Consensus 129 ~~i~~v~v~i~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~v~~~~~~l~~~~~~~v~~~f 188 (511)
T PF09972_consen 129 VPIENVTVTITLPKPVDNSKAWGHPGPYGGTVEIDDDDGTVTFTTDNLPPNEGVEVRVSF 188 (511)
T ss_pred CccceEEEEEECCCCCcceEEEEeccCCCccceeeecCCEEEEEEeccCCCCeEEEEEEc
Confidence 456789999999976666666555465555566678999999999998877655555544
No 34
>KOG1766 consensus Enhancer of rudimentary [General function prediction only]
Probab=21.33 E-value=1e+02 Score=24.78 Aligned_cols=41 Identities=17% Similarity=0.395 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHhcc--cCHHHHHhhHHHHHHHHHHhhcC
Q 013029 81 VLELLQRIARVIKDYLGV--LNEDSLRKNFVLVYELLDEVIDF 121 (451)
Q Consensus 81 ~~~~L~~~~~~l~~y~~~--l~e~~i~~n~~~v~~lldE~id~ 121 (451)
+-+.|..+.++.+++++. -+...|......+|+.+|.+.|.
T Consensus 25 v~e~megiCk~yEe~Lkk~nPs~~~ITYDIsqlfeFiD~L~Dl 67 (104)
T KOG1766|consen 25 VTECMEGICKMYEEHLKKKNPSAPPITYDISQLFEFIDDLADL 67 (104)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCcceeHHHHHHHHHHHhhh
Confidence 456778889999999964 46677888889999999988775
Done!