Query 014235
Match_columns 428
No_of_seqs 144 out of 1282
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 03:09:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014235.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014235hhsearch_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 6E-105 1E-109 740.3 38.3 417 4-426 1-446 (446)
2 KOG0937 Adaptor complexes medi 100.0 5.5E-91 1.2E-95 676.3 42.2 422 5-427 1-424 (424)
3 KOG2740 Clathrin-associated pr 100.0 4E-77 8.8E-82 559.8 33.7 402 4-427 1-418 (418)
4 PF00928 Adap_comp_sub: Adapto 100.0 9.3E-60 2E-64 452.3 30.4 261 159-427 1-262 (262)
5 KOG2635 Medium subunit of clat 100.0 3.2E-38 7E-43 303.7 34.3 383 3-425 1-511 (512)
6 KOG2677 Stoned B synaptic vesi 100.0 3.7E-36 8.1E-41 299.5 8.6 254 166-426 582-890 (922)
7 PF01217 Clat_adaptor_s: Clath 99.9 7.2E-27 1.6E-31 203.3 17.8 135 4-141 1-138 (141)
8 COG5030 APS2 Clathrin adaptor 99.8 7.8E-20 1.7E-24 150.8 13.0 132 4-138 1-135 (152)
9 KOG0936 Clathrin adaptor compl 99.8 7.3E-18 1.6E-22 140.9 12.9 157 4-163 1-166 (182)
10 KOG0934 Clathrin adaptor compl 99.7 3.9E-18 8.6E-23 140.6 6.7 127 4-133 1-130 (145)
11 KOG0935 Clathrin adaptor compl 99.7 5.7E-17 1.2E-21 130.2 10.9 134 4-139 1-137 (143)
12 KOG3343 Vesicle coat complex C 99.7 6.5E-16 1.4E-20 130.5 13.9 138 5-144 9-149 (175)
13 COG5541 RET3 Vesicle coat comp 99.3 2.8E-11 6.1E-16 102.1 9.9 138 5-144 8-156 (187)
14 PF10291 muHD: Muniscin C-term 99.0 1E-07 2.2E-12 91.0 23.3 226 173-425 3-256 (257)
15 PF15001 AP-5_subunit_s1: AP-5 96.4 0.11 2.5E-06 46.8 13.7 81 57-137 103-184 (189)
16 PF03164 Mon1: Trafficking pro 96.3 0.029 6.3E-07 57.5 10.6 89 6-98 12-103 (415)
17 KOG0997 Uncharacterized conser 94.4 0.41 8.9E-06 48.8 10.9 100 6-112 118-226 (523)
18 PF08923 MAPKK1_Int: Mitogen-a 93.5 1.3 2.9E-05 37.1 10.8 91 5-96 17-114 (119)
19 COG5122 TRS23 Transport protei 92.7 3 6.5E-05 34.1 11.1 94 3-100 1-108 (134)
20 PF04099 Sybindin: Sybindin-li 91.9 3.3 7.2E-05 35.8 11.6 94 5-99 1-116 (142)
21 PF13774 Longin: Regulated-SNA 89.4 2.4 5.2E-05 32.8 7.7 49 51-99 17-65 (83)
22 PF09201 SRX: SRX; InterPro: 86.5 18 0.00039 30.9 11.4 91 4-99 1-104 (148)
23 KOG0859 Synaptobrevin/VAMP-lik 83.7 16 0.00035 33.1 10.5 86 11-100 7-93 (217)
24 KOG3369 Transport protein part 80.1 22 0.00047 31.6 9.7 41 58-100 132-172 (199)
25 KOG0781 Signal recognition par 79.8 26 0.00057 36.4 11.7 111 4-118 1-115 (587)
26 KOG3368 Transport protein part 71.5 56 0.0012 27.7 9.6 93 3-99 1-110 (140)
27 PF13598 DUF4139: Domain of un 56.7 81 0.0017 30.8 9.6 112 249-365 194-313 (317)
28 PF14400 Transglut_i_TM: Inact 42.8 2.1E+02 0.0046 25.4 8.9 54 311-364 32-92 (165)
29 KOG0647 mRNA export protein (c 39.9 86 0.0019 30.6 6.3 114 178-301 201-315 (347)
30 PF00235 Profilin: Profilin; 39.5 2.1E+02 0.0046 23.4 9.2 86 5-94 16-121 (121)
31 KOG0862 Synaptobrevin/VAMP-lik 38.9 3.2E+02 0.007 25.3 10.4 49 52-100 53-101 (216)
32 PF08460 SH3_5: Bacterial SH3 37.6 1.2E+02 0.0026 22.4 5.5 34 383-423 27-60 (65)
33 PF08784 RPA_C: Replication pr 34.7 54 0.0012 26.2 3.7 20 111-130 80-99 (102)
34 PF04628 Sedlin_N: Sedlin, N-t 28.4 3.6E+02 0.0077 22.6 8.3 90 10-100 1-108 (132)
35 PRK09750 hypothetical protein; 27.6 49 0.0011 23.9 1.9 15 403-417 10-24 (64)
36 PF03504 Chlam_OMP6: Chlamydia 25.2 3.3E+02 0.0072 21.2 6.3 43 309-355 43-85 (95)
37 PF07151 DUF1391: Protein of u 22.2 1E+02 0.0022 20.8 2.5 17 257-273 15-31 (49)
No 1
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.3e-105 Score=740.30 Aligned_cols=417 Identities=41% Similarity=0.741 Sum_probs=388.4
Q ss_pred ceEEEEEEeCCCCEEEEEccCCCCChhHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCHHHH
Q 014235 4 AVSALFLLDIKGRVLVWRDYRGDVSAKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAASL 83 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~~~~~~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~~ 83 (428)
||+++||+|.+|++|+.|.||++..++..+.|+-++++.. ...+|+..++++.|+|.+.++||+|++|++|.|.+.+
T Consensus 1 misglfi~n~rGevlink~fr~dlkrs~~diFRv~vi~n~---d~r~PV~~igsttf~~~r~~nl~lvaitksN~Nva~v 77 (446)
T KOG0938|consen 1 MISGLFIYNLRGEVLINKTFRDDLKRSIVDIFRVQVINNL---DVRSPVLTIGSTTFHHIRSSNLWLVAITKSNANVAAV 77 (446)
T ss_pred CcceEEEEeccCcEEEehhhhhhhhhhHHHHHHHhhhhcc---ccCCCeeEecceeEEEEeeccEEEEEEecCCCchhhH
Confidence 8999999999999999999999999999999999999763 3689999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCcccccccc----c-----CCC--
Q 014235 84 LFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVT----Q-----RPP-- 152 (428)
Q Consensus 84 ~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~~~~~~~~----~-----~~~-- 152 (428)
++||..+..++..|||.++|+.|++||.+|||+||||+|+|+||+|++++|+.++..+++..+-. + +++
T Consensus 78 ~eFl~kl~avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~~al~~~is~~~Vrs~g~~ls~k~s~~sq~~~~ 157 (446)
T KOG0938|consen 78 FEFLYKLDAVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEPNALKAQISQKGVRSMGGVLSSKSSPTSQATEL 157 (446)
T ss_pred HHHHHHHHHHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCChhHHHhhhhhhhhhccccccCCcCCCCcccccc
Confidence 99999999999999999999999999999999999999999999999999999999887765521 1 111
Q ss_pred --CccccccccccCCCccccceEEEEEEEeeeEEEeccCcEEEEEEEEEEEEEEEecCCCeEEEEeccchhhhhcCC-C-
Q 014235 153 --MAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGR-S- 228 (428)
Q Consensus 153 --~~~~~~v~wR~~~~~~~~nei~vdV~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~-~- 228 (428)
+..++.++||+.|++|++||+|+||+|++|.+++++|++++++|.|.|.|++||||||+|++||||.+.++++++ +
T Consensus 158 ~ssqv~G~i~WRr~Gi~ykknevfldvvErvNlLmS~~GnVLrs~VsG~V~mk~~LSGmPeckfGlNDkl~~e~kq~esk 237 (446)
T KOG0938|consen 158 RSSQVTGKIGWRREGIKYKKNEVFLDVVERVNLLMSSDGNVLRSDVSGTVDMKTHLSGMPECKFGLNDKLGMESKQSESK 237 (446)
T ss_pred cccccccccccccccceeccceeEeEehheeeeEEcCCCCEEEeecccEEEEEEeccCCcccccccCcccceeecccccc
Confidence 344678999999999999999999999999999999999999999999999999999999999999988773321 1
Q ss_pred -----------CCCceEEeccceeeeeeccccccCCceEEEeCCCCeEEEEEEEecCCC-CCcEEEEEEEEEccceEEEE
Q 014235 229 -----------TKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV-KPLIWVEAQVERHSRSRVEI 296 (428)
Q Consensus 229 -----------~~~~~i~l~d~~fH~cV~~~~f~~~~~l~F~PPdG~f~Lm~Yr~~~~~-~P~~~v~~~~~~~~~~~~ei 296 (428)
+....+.|+||.||+||++++|++++.|+|+||||+|+||+||+..++ +||.+ .|.+++.+.+++|+
T Consensus 238 s~~~n~~~~sks~~g~v~leDc~FHqCV~L~kFn~eh~IsFvPPDGe~ELMkYr~~enInlPFrV-~PiV~el~r~kie~ 316 (446)
T KOG0938|consen 238 SDFGNKNFPSKSGKGSVLLEDCTFHQCVRLDKFNSEHIISFVPPDGEFELMKYRVTENINLPFRV-TPIVTELGRTKIEY 316 (446)
T ss_pred ccccccCCCcccCCceEEeeccchheeeccccccccceEEEeCCCCceEeEeeeeccCcccceEe-eeheecccceeEEE
Confidence 244569999999999999999999999999999999999999999987 89875 79999988899999
Q ss_pred EEEeeecCCCcceeeeEEEEecCCCCCCCceEEeccceEEEeCCCcEEEEEeceeCCCCeeEEEEEEEecCCC-CCCCCC
Q 014235 297 LVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSIT-AEEATP 375 (428)
Q Consensus 297 ~l~~~~~~~~~~~~~~v~v~iplP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~k~~g~~~~~l~~~i~~~~~~-~~~~~~ 375 (428)
++.+++.|+++..+.+|.++||+|+++..+.++++.|+++|.+++++++|+|+|++|.+|.+|+|++++.+.. +...|
T Consensus 317 ri~iks~f~~kl~a~~v~~rIPvP~ntv~~n~~v~~Gkaky~psen~ivWki~kf~G~tE~tlsAevels~Tt~nkq~W- 395 (446)
T KOG0938|consen 317 RITIKSLFPPKLLAKDVVVRIPVPPNTVKCNISVSNGKAKYVPSENAIVWKINKFNGLTESTLSAEVELSDTTQNKQQW- 395 (446)
T ss_pred EEEEeccCCchhhhcceEEEecCCCccccceeEEecCccccCcccceEEEEecccCCcccceeEEEEEeccCccccccc-
Confidence 9999999999999999999999999999999999999999999999999999999999999999999997765 56678
Q ss_pred CCCCCEEEEEEECcccccccEEEEEEEEE-cCCCCCccceEEEEEeCcEEEE
Q 014235 376 ERKAPIRVKFEIPYFTVSGIQVRYLKIIE-KSGYHALPWVRYITMAGEYELR 426 (428)
Q Consensus 376 ~~~~pi~v~F~ip~~t~SGl~V~~l~v~~-~~~~~~~k~vrY~t~sg~Y~~r 426 (428)
..+||+++|++|||+.|||.|+|++|.+ +++|+..|||||+|+||+||+|
T Consensus 396 -trPPIsleFeV~MFt~SGL~VrylkV~e~~Sk~~~vkWVrYitkaGsyEiR 446 (446)
T KOG0938|consen 396 -TRPPISLEFEVPMFTNSGLVVRYLKVSEKDSKHRAVKWVRYITKAGSYEIR 446 (446)
T ss_pred -cCCCceeEEeeeeecCCceEEEEEEEecccCCCceEEEEEEecccceeeeC
Confidence 8999999999999999999999999999 5889999999999999999998
No 2
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=5.5e-91 Score=676.29 Aligned_cols=422 Identities=60% Similarity=1.032 Sum_probs=390.3
Q ss_pred eEEEEEEeCCCCEEEEEccCCCCChhHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCHHHHH
Q 014235 5 VSALFLLDIKGRVLVWRDYRGDVSAKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAASLL 84 (428)
Q Consensus 5 i~~i~Il~~~G~~l~~r~y~~~~~~~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~~~ 84 (428)
++++||+|.+|++|++|.||++.+.+..+.|++++...- .....+|++..+|..|+|.+.+++|++++++.|.+++.++
T Consensus 1 ~sa~fild~~G~~lisr~yr~dv~~s~~~~F~~~l~~~e-~~~~~~p~l~~~g~~~~~ik~s~lylv~~~~~n~~a~~v~ 79 (424)
T KOG0937|consen 1 ASAVFILDHKGEVLISRDYRGDVPMSSTEKFFRKLFEKE-EGDESPPFLVHDGSRFIHIKHSNLYLVAGTRPNVSAALVL 79 (424)
T ss_pred CceEEEEcCCCcEeEeecccccCChhhhhhHHHHHhhhc-ccCCCCCeEEeCCceEEEEeecceEEEEEeccCCCHHHHH
Confidence 479999999999999999999998889999998665432 2246789999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCccccccccc-CCCCcccccccccc
Q 014235 85 FFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQ-RPPMAVTNAVSWRS 163 (428)
Q Consensus 85 ~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~~~~~~~~~-~~~~~~~~~v~wR~ 163 (428)
+||+++++++.+||+.+.|+.++.||.++||+|||++||||||.|+...|++|+.++++..+..+ ++|.+.++.++||+
T Consensus 80 ~~l~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGypQ~t~s~iL~~yi~~~~~~l~~~~~~~p~avtnavsWrs 159 (424)
T KOG0937|consen 80 SFLYAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYPQTTDSEILKNYITQKANRLQDAQPRPPLAVTNAVSWRS 159 (424)
T ss_pred HHHHHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCcccchHHHHHHHhcccccceeecCCCCCcccccceeecc
Confidence 99999999999999999999999999999999999999999999999999999999977654332 56888899999999
Q ss_pred CCCccccceEEEEEEEeeeEEEeccCcEEEEEEEEEEEEEEEecCCCeEEEEeccchhhhhcCCCCCCceEEeccceeee
Q 014235 164 EGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQ 243 (428)
Q Consensus 164 ~~~~~~~nei~vdV~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~i~l~d~~fH~ 243 (428)
.|++|+|||+|+||+|+|+++++++|.+++++|.|+|+|||||+|||+++|+||+....+.++..+.+..+.++|++||+
T Consensus 160 ~gi~~~KnevflDViE~Vs~l~~~~G~vl~s~i~G~I~~k~~LsGmPelrl~ln~~~~~~~~~~~~~s~~v~ledi~fh~ 239 (424)
T KOG0937|consen 160 EGIYYGKNEVFLDVIESVSLLYDSNGIVLLSEIVGTIKLKCYLSGMPELRLGLNDKVLFDKQGPRSKSKGVELEDIKFHE 239 (424)
T ss_pred cccccccceEEEEhhhhhhHhhhcCCcEEEeeeeeEEEEEEEcCCCceeeeecCcccccccccccccCcceEeeecccce
Confidence 99999999999999999999999999999999999999999999999999999999888777654555789999999999
Q ss_pred eeccccccCCceEEEeCCCCeEEEEEEEecCCCCCcEEEEEEEEEccceEEEEEEEeeecCCCcceeeeEEEEecCCCCC
Q 014235 244 CVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDA 323 (428)
Q Consensus 244 cV~~~~f~~~~~l~F~PPdG~f~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~ei~l~~~~~~~~~~~~~~v~v~iplP~~~ 323 (428)
||++++|+++|.|+|+||||+|+||+||++....|++++....+.++..++++.++++++|+.+..+.+|.|+||+|..+
T Consensus 240 ~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~vkPli~~~~~~~~~~~~ri~i~~K~~~~fk~~~~a~~v~I~iP~P~~a 319 (424)
T KOG0937|consen 240 CVRLSRFDNDRTISFIPPDGEFELMRYRLSTHVKPLIWFYQLIEEHSRSRIEVMVKLREQFKSRSSANNVEICIPVPDDA 319 (424)
T ss_pred eechhhccCCceEEecCCCCceEEEEEEecCCCCCeEEeeeeeeeccceeEEEEEechhhcCCccccceEEEEeeCCCcc
Confidence 99999999999999999999999999999999999998755555567789999999999999999999999999999999
Q ss_pred CCceEEeccceEEEeCCCcEEEEEeceeCCCCeeEEEEEEEecCCCCCCCCCCCCCCEEEEEEECcccccccEEEEEEEE
Q 014235 324 SNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKII 403 (428)
Q Consensus 324 ~~~~~~~~~G~~~~~~~~~~l~W~I~k~~g~~~~~l~~~i~~~~~~~~~~~~~~~~pi~v~F~ip~~t~SGl~V~~l~v~ 403 (428)
+++++..+.|+++|.+++++++|+|++++|+.+.++++++.+++...++.-....+||+|+|+||++|+||++|+++++.
T Consensus 320 ~~~~fk~s~G~~~~~~e~~~l~W~I~~~~gg~e~~~r~~~~lp~~~~e~~~~~~~~pi~v~FeIp~~T~SgiqVrylki~ 399 (424)
T KOG0937|consen 320 SSPSFKTSLGSAKYDPEKSALRWTIKKFVGGKEYSLRARMDLPSEEHEEQCTEGLGPIKVKFEIPYFTVSGIQVRYLKII 399 (424)
T ss_pred ccceEeccCCceeeecccceEEEEeccccCCceEEEEEeecCCccccCCCCcccCCceEEEEEecccccCCeEEEEEEec
Confidence 99999999999999999999999999999999999999999988655441113899999999999999999999999999
Q ss_pred E-cCCCCCccceEEEEEeCcEEEEe
Q 014235 404 E-KSGYHALPWVRYITMAGEYELRL 427 (428)
Q Consensus 404 ~-~~~~~~~k~vrY~t~sg~Y~~r~ 427 (428)
+ +.+|++.+||||.|++|.|++|.
T Consensus 400 ep~~~y~s~~WVRy~T~s~~Y~~r~ 424 (424)
T KOG0937|consen 400 EPKSQYQSLPWVRYNTQSGPYEIRV 424 (424)
T ss_pred ccccCCCccceEEEEccCCceEeeC
Confidence 9 68999999999999999999994
No 3
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4e-77 Score=559.82 Aligned_cols=402 Identities=29% Similarity=0.542 Sum_probs=355.4
Q ss_pred ceEEEEEEeCCCCEEEEEccCC-CCChhHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCHHH
Q 014235 4 AVSALFLLDIKGRVLVWRDYRG-DVSAKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAAS 82 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~-~~~~~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~ 82 (428)
||.++|++|.+|++++++.+++ ...|+.++.|+......... ...+|++....++++.+-++++|||+++..+..|++
T Consensus 1 mi~siflidtsg~l~lek~~~g~t~~rsic~~f~e~~~~~~~~-e~~ppvi~~p~hylfsv~~~~i~~~~~st~e~pPL~ 79 (418)
T KOG2740|consen 1 MILSIFLIDTSGDLLLEKHLKGSTVVRSICDYFFEDQSSDDDL-EHVPPVISTPHHYLFSVYRDLIFFCAVSTVETPPLM 79 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCCceeeeehHHHHHHhhhhcccc-ccCCceecCCceeeeeeeccCcEEEEEEeccCCChh
Confidence 8999999999999999999994 55578899999887765432 356778888888888888999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCccccccc----------ccCCC
Q 014235 83 LLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEV----------TQRPP 152 (428)
Q Consensus 83 ~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~~~~~~~----------~~~~~ 152 (428)
+++||+++++++++|||+++|.+|++|+..||+|||||+|+|+|..|++|.||++|+.++...+. +.+.|
T Consensus 80 ~iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~NiLke~i~pps~l~~~~~svTg~~n~~~~lP 159 (418)
T KOG2740|consen 80 VIEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEPNILKELIPPPSFLSKKFNSVTGNSNVSDTLP 159 (418)
T ss_pred HHHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccChhHHHhhcCChHHHHHHHhhhhccccccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999888742 12556
Q ss_pred CccccccccccCCCccccceEEEEEEEeeeEEEeccCcEEEEEEEEEEEEEEEecCCCeEEEEeccchhhhhcCCCCCCc
Q 014235 153 MAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGK 232 (428)
Q Consensus 153 ~~~~~~v~wR~~~~~~~~nei~vdV~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~ 232 (428)
..+.+.+|||+.+.+|.+||.||||.|+++++++++|..+.++|.|.|.|+|+|+|||++.|.|+++.
T Consensus 160 tg~~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~k~gslv~~eI~g~vd~~~qLsgmPdltlsl~np~------------ 227 (418)
T KOG2740|consen 160 TGALSNVPWRTAGVKYTNNEAYVDVLEEIDAIVDKKGSLVFGEIQGIVDVCSQLSGMPDLTLSLNNPR------------ 227 (418)
T ss_pred CcccccccccccCcccccchhhhhhhheeheEecCCCCEEEEEEEEEEEEEEeecCCCceEEEccCcc------------
Confidence 77778899999999999999999999999999999999999999999999999999999999998864
Q ss_pred eEEeccceeeeeeccccccCCceEEEeCCCCeEEEEEEEecCCC---CCcEEEEEEEEEccce--EEEEEEEeeecCCCc
Q 014235 233 AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV---KPLIWVEAQVERHSRS--RVEILVKARSQFKER 307 (428)
Q Consensus 233 ~i~l~d~~fH~cV~~~~f~~~~~l~F~PPdG~f~Lm~Yr~~~~~---~P~~~v~~~~~~~~~~--~~ei~l~~~~~~~~~ 307 (428)
.|+|++||+||+..+|++++.|+|+||||+|+||+||++... +|.. +.++++..++. ++++.+..+...++
T Consensus 228 --~L~dvsfHpcVr~krwe~~~~lsFIPPDGkFrLlsy~v~~~~~v~~pvy-v~~~i~l~~~~~~ri~~tvg~~~~~gK- 303 (418)
T KOG2740|consen 228 --LLGDVSFHPCVRYKRWESHSVLSFIPPDGKFRLLSYRVDAQNQVAIPVY-VKNSISLDSNHQGRISLTVGPKKKMGK- 303 (418)
T ss_pred --ccCCcccccceeecccccccceEEcCCCCcEEEEEEEEehhhccccceE-EeeeeccCCCceEEEEEeccccccccc-
Confidence 599999999999999999999999999999999999998753 6665 56777654443 44444444444443
Q ss_pred ceeeeEEEEecCCCCCCCceEEeccceEEEeCCCcEEEEEeceeCCCCeeEEEEEEEecCCCCCCCCCCCCCCEEEEEEE
Q 014235 308 STATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEI 387 (428)
Q Consensus 308 ~~~~~v~v~iplP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~k~~g~~~~~l~~~i~~~~~~~~~~~~~~~~pi~v~F~i 387 (428)
..+.+.|....|+.........++|+..++...+.+-|.+++++.+.-+.|++++.+.+..... ..++.++++|++
T Consensus 304 -~ie~itVt~~~pn~i~~~~k~~~~g~~~~~~~~k~l~W~~~~i~tg~lp~Lkg~~~~e~~~sk~---~~l~t~~Lqyki 379 (418)
T KOG2740|consen 304 -TIELITVTVQDPNEIAYASKILTHGTFTNSIIMKQLTWTFGSIATGKLPVLKGTINLEPGFSKK---VDLPTLSLQYKI 379 (418)
T ss_pred -eeEeEEEEecCccceeeeecccccceeEeecccceeEEEeecccCCcccccccccccCCCCCcc---ccCcccceeeee
Confidence 4567899999999999888888999999999999999999999988889999999987643322 278999999999
Q ss_pred CcccccccEEEEEEEEEcCCCCCccceEEEEEeCcEEEEe
Q 014235 388 PYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGEYELRL 427 (428)
Q Consensus 388 p~~t~SGl~V~~l~v~~~~~~~~~k~vrY~t~sg~Y~~r~ 427 (428)
.+.++||++|+.|++.+ ..|++|||+||.|++|++++|+
T Consensus 380 qg~alsglkVe~Ldm~~-~~~k~yKGvKy~t~agnfqvR~ 418 (418)
T KOG2740|consen 380 QGQALSGLKVERLDMYG-EPYKPYKGVKYKTKAGNFQVRL 418 (418)
T ss_pred eeeeccceEEEeeeecC-CCCccccceEEEEeeeeEEEeC
Confidence 99999999999999997 4688999999999999999995
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=9.3e-60 Score=452.31 Aligned_cols=261 Identities=40% Similarity=0.787 Sum_probs=217.0
Q ss_pred cccccCCCccccceEEEEEEEeeeEEEeccCcEEEEEEEEEEEEEEEecCCCeEEEEeccchhhhhcCCCCCCceEEecc
Q 014235 159 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDD 238 (428)
Q Consensus 159 v~wR~~~~~~~~nei~vdV~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~i~l~d 238 (428)
+|||+.+++|++|||||||.|+++++++++|.++.++|.|+|.|+|+|+|+|+|+|+||++... ..+++.++|
T Consensus 1 ~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~-------~~~~~~l~~ 73 (262)
T PF00928_consen 1 VPWRPSGIKYKKNEIFVDVVEKISAVLDRDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVV-------SKNGIKLDD 73 (262)
T ss_dssp -TTS-STB--SSEEEEEEEEEEEEEEEETTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCC-------TSSSBEESE
T ss_pred CCcccCCcccccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCcccc-------ccCceeeec
Confidence 6899999999999999999999999999999999999999999999999999999999987432 124568999
Q ss_pred ceeeeeeccccccCCceEEEeCCCCeEEEEEEEecCCCCCcEEEEEEEEEccceEEEEEEEeeecCCCcceeeeEEEEec
Q 014235 239 IKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELP 318 (428)
Q Consensus 239 ~~fH~cV~~~~f~~~~~l~F~PPdG~f~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~ei~l~~~~~~~~~~~~~~v~v~ip 318 (428)
++||+||++++|+++|.|+|+||||+|+||+||++....+|+.+.|++...+++++++.++++++++.+..+++|.|+||
T Consensus 74 ~~fH~cV~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~~~~~~~~v~i~~~~~~~~~~~~~~v~I~ip 153 (262)
T PF00928_consen 74 VSFHPCVDLSKFESDRVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSEKSSGRFEVTIELESNFPNKISLENVVIRIP 153 (262)
T ss_dssp EEEETTEECCCCCSHTEEEE---SEEEEEEEEEEESSS--SEEEEEEEEEETTTEEEEEEEEEE-S-TTSEEEEEEEEEE
T ss_pred eeeccccCccccccccceecCCCCceEEEEEEEccCCCCCCcEEEEEeccCCCceEEEEEEecccCCCCceeceEEEEee
Confidence 99999999999999999999999999999999998887444456898888667799999999999988889999999999
Q ss_pred CCCCCCCceEEeccceEEEeCCCcEEEEEeceeCCCCeeEEEEEEEecCCCCCCCCCCCCCCEEEEEEECcccccccEEE
Q 014235 319 VSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVR 398 (428)
Q Consensus 319 lP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~k~~g~~~~~l~~~i~~~~~~~~~~~~~~~~pi~v~F~ip~~t~SGl~V~ 398 (428)
+|.++..+++..+.|+++|+.++++++|+|++++++.+.+++|++++......+. ...++||+|+|++|++++||++|+
T Consensus 154 lP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~~~~~~~~~~l~~~l~~~~~~~~~~-~~~~~pi~v~F~~~~~~~Sgl~V~ 232 (262)
T PF00928_consen 154 LPPGTSSPSIESSDGSAEYDEEENALVWKIKKLPGGSESTLSGTLEFSSPSSVPS-DWSFFPISVEFTIPGYTLSGLKVR 232 (262)
T ss_dssp --TTEEEEEEEESSSEEEEETGCTEEEEEEEEEETSEEEEEEEEEEEEEECCSS--S-----EEEEEEESTSETTT-EEE
T ss_pred cCCccccceeeecCceEEEEccCCEEEEEECCccCcccccEEEEEEecCCCcccc-cccceeEEEEEEeCCcccCCCEEE
Confidence 9999889999999999999999999999999999999999999999876544333 226889999999999999999999
Q ss_pred EEEEEE-cCCCCCccceEEEEEeCcEEEEe
Q 014235 399 YLKIIE-KSGYHALPWVRYITMAGEYELRL 427 (428)
Q Consensus 399 ~l~v~~-~~~~~~~k~vrY~t~sg~Y~~r~ 427 (428)
+++|.+ ..+++|+|||||+|+||+|+||+
T Consensus 233 ~l~v~~~~~~~~~~k~vky~t~s~~Y~iR~ 262 (262)
T PF00928_consen 233 SLDVVNEDENYKPYKWVKYVTKSGSYEIRT 262 (262)
T ss_dssp EEEEE-SSCGGGSEEEEEEEEEEEEEEE--
T ss_pred EEEeEecCCCCCCcccEEEEEEcCcEEEcC
Confidence 999998 36889999999999999999995
No 5
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.2e-38 Score=303.73 Aligned_cols=383 Identities=20% Similarity=0.315 Sum_probs=302.1
Q ss_pred cceEEEEEEeCCCCEEEEEccCCCCCh----hHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCc
Q 014235 3 GAVSALFLLDIKGRVLVWRDYRGDVSA----KQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNC 78 (428)
Q Consensus 3 ~Mi~~i~Il~~~G~~l~~r~y~~~~~~----~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~ 78 (428)
||+-++.|++..|+.+++|+|+ ++++ +++.+|.+++.. +.++++++.+.++|||++.+++|+|.+|+.+.
T Consensus 1 Mvvlaa~i~t~~Gk~ivsRqf~-~Msr~RIEgLl~aFpkLv~~-----~~qhT~vEt~~VRYVYqP~d~lY~vLITtk~S 74 (512)
T KOG2635|consen 1 MVVLAASINTKTGKAIVSRQFR-EMSRSRIEGLLAAFPKLVSA-----GKQHTFVETDSVRYVYQPLDNLYIVLITTKQS 74 (512)
T ss_pred CeEEEEEEeecCCceeeehHhH-hhhHHHHHHHHHHhHHhhcc-----CCCccEEecccEEEEEEecccEEEEEEecccc
Confidence 5677899999999999999999 5565 467788888763 47899999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCccccccccc---------
Q 014235 79 NAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQ--------- 149 (428)
Q Consensus 79 n~~~~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~~~~~~~~~--------- 149 (428)
|++..++.|+.|.+++..||..++|+.|..|.+.+...+||++..||-...+..++|+|..|++|++++..
T Consensus 75 NIleDl~TL~Lfskvipey~~slde~eI~~~~FelifAFDEivsLGyre~v~laQikty~eMdSHEEKi~e~v~~nke~e 154 (512)
T KOG2635|consen 75 NILEDLETLRLFSKVIPEYCSSLDEKEILENAFELIFAFDEIVSLGYRENVNLAQIKTYLEMDSHEEKIHELVMRNKERE 154 (512)
T ss_pred chhhHHHHHHHHHHhchhhhhhhhHHHHHHhhhhhhhccchhhhhcccccccHHHhhhhhccccHHHHHHHHHHHhhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999988510
Q ss_pred ------------------------------------------------------CCC---C-cccccccc----------
Q 014235 150 ------------------------------------------------------RPP---M-AVTNAVSW---------- 161 (428)
Q Consensus 150 ------------------------------------------------------~~~---~-~~~~~v~w---------- 161 (428)
+.+ . +...+.|-
T Consensus 155 a~q~mkrKaKElqr~r~ea~rrgg~~~~~~~~~~s~g~~~~s~~~~~~~~~~~~~~~~~~sa~~~~s~pak~mklG~k~~ 234 (512)
T KOG2635|consen 155 AKQEMKRKAKELQRARKEAERRGGSLNPGFDAIGSSGYSSVSTTNAINRVESIAQKPKQQSAAKASSAPAKAMKLGKKTK 234 (512)
T ss_pred HHHHHHHHHHHHHHHHHhhhccccccCCCccccccccccCCcccchhhccccccccccccccccCCCCCchhhhhccccc
Confidence 000 0 00000000
Q ss_pred -------------------------ccC------CCccccceEEEEEEEeeeEEEeccCcEEEEEEEEEEEEEEEecCCC
Q 014235 162 -------------------------RSE------GIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMP 210 (428)
Q Consensus 162 -------------------------R~~------~~~~~~nei~vdV~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P 210 (428)
+.. ...-.++.+++.+.|+|++.++++|.+.+.++.|.+.++---.---
T Consensus 235 ~s~~~~d~Lk~ege~ia~~~s~~g~~s~aap~~~~p~v~~e~v~i~ieEkln~~~~RDGgi~s~E~qG~lsLrI~d~e~~ 314 (512)
T KOG2635|consen 235 NSDTFVDKLKGEGERIAGASSAIGSASSAAPPPTAPDVPEESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSLRIKDEEYG 314 (512)
T ss_pred chhhHHHHhhccccccccccccccccccCCCCCCCCCCccceEEEEEeeeEeEEEcccCCccceeeeeeEEEEEcccccc
Confidence 000 0111234599999999999999999999999999998887655556
Q ss_pred eEEEEeccchhhhhcCCCCCCceEEeccceeeeeeccccccCCceEEEeCCCCeEE------EEEEEecCC---CCCcEE
Q 014235 211 ECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFD------LMTYRLNTQ---VKPLIW 281 (428)
Q Consensus 211 ~~~l~ln~~~~~~~~~~~~~~~~i~l~d~~fH~cV~~~~f~~~~~l~F~PPdG~f~------Lm~Yr~~~~---~~P~~~ 281 (428)
.+.|.|++... .+ -++++||.+|++.|.++..|.+.+|+..|+ |++||.... ..|+.
T Consensus 315 ~i~lkl~n~~~----------~g---~q~ktHPNlDK~~f~s~s~iglk~~~K~FPvn~~VGvLkWR~~~~des~iPlT- 380 (512)
T KOG2635|consen 315 DIELKLANGRD----------KG---TQLKTHPNLDKKVFLSSSLIGLKRPEKPFPVNSDVGVLKWRMVDEDESEIPLT- 380 (512)
T ss_pred ceEEEEcCCCC----------cc---eeeeeCCCcchhhhccccccccccCCCCCCcCCcceEEEEeecccccccCceE-
Confidence 67777766321 12 257999999999999999999999999995 999999763 48887
Q ss_pred EEEEEEEccce---EEEEEEEeeecCCCcceeeeEEEEecCCCCCCCceEEeccceEEEeCCCcEEEEEeceeCCCCeeE
Q 014235 282 VEAQVERHSRS---RVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYM 358 (428)
Q Consensus 282 v~~~~~~~~~~---~~ei~l~~~~~~~~~~~~~~v~v~iplP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~k~~g~~~~~ 358 (428)
++||.++.+.+ .+||++...+ ..+||.|.||+|.++ .+++.+.+|.+.|+..++.+.|+|+.+..+. +
T Consensus 381 incWPSes~~g~dV~iEYe~~~~~------eL~dV~i~iPlP~~i-apsv~~~Dge~~~~~~~~~leW~I~~Ia~N~--S 451 (512)
T KOG2635|consen 381 INCWPSESGNGYDVNIEYEAVLEC------ELNDVIITIPLPANI-APSVGECDGEYRYDERKNVLEWSIGVIAKNF--S 451 (512)
T ss_pred EEeccccCCCCeEEEEEEeehhcc------cccceEEEeeccccc-CCccceecceEEeccccceeEEEeeeeccCC--C
Confidence 48888775433 3455553233 357999999999998 8899999999999999999999999994433 3
Q ss_pred EEEEEEecCCCCCCCCCCCCCCEEEEEEECcccccccEEEEEEEEEcCCCCCccceEEEEE----eCcEEE
Q 014235 359 LRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITM----AGEYEL 425 (428)
Q Consensus 359 l~~~i~~~~~~~~~~~~~~~~pi~v~F~ip~~t~SGl~V~~l~v~~~~~~~~~k~vrY~t~----sg~Y~~ 425 (428)
.+.+|..+.. .+. .++|++|+|... .+++|+.|+.+.-.+ +..+ +||.+. +..|++
T Consensus 452 GslEFs~~~~---~~~--~fFPl~VsF~s~-~~ftgl~vqkVv~~~--~~~~---~~y~~~t~f~~dky~V 511 (512)
T KOG2635|consen 452 GSLEFSCPAS---DPD--GFFPLSVSFTSD-TVFTGLFVQKVVRND--GHAP---VRYSVETTFEVDKYEV 511 (512)
T ss_pred CcEEEeecCC---CCC--ceeeEEEEEEec-ccccceEEEEEEEcC--CCCC---ceeEEEEEEEeeeeEe
Confidence 4444554443 233 899999999998 799999999776543 2133 445444 356765
No 6
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.7e-36 Score=299.48 Aligned_cols=254 Identities=27% Similarity=0.483 Sum_probs=213.1
Q ss_pred CccccceEEEEEEEeeeEEEeccCcEEEEEEEEEEEEEEEecCCCeEEEEeccchhhhhc-------CCCCCCceEEecc
Q 014235 166 IQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQ-------GRSTKGKAIDLDD 238 (428)
Q Consensus 166 ~~~~~nei~vdV~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~-------~~~~~~~~i~l~d 238 (428)
..|..+||.|||.+..+.+++++|.++...|..+|.|.|||+|.|+|.|+|||....+.. -+.....||++.+
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 468999999999999999999999999999999999999999999999999998763321 0113568999999
Q ss_pred ceeeeeeccccccCCceEEEeCCCC-eEEEEEEEecC--CCCCcEEEEEEEEEccceEEEEEEEee--ec------CCCc
Q 014235 239 IKFHQCVRLARFENDRTISFIPPDG-SFDLMTYRLNT--QVKPLIWVEAQVERHSRSRVEILVKAR--SQ------FKER 307 (428)
Q Consensus 239 ~~fH~cV~~~~f~~~~~l~F~PPdG-~f~Lm~Yr~~~--~~~P~~~v~~~~~~~~~~~~ei~l~~~--~~------~~~~ 307 (428)
|.||.|||.+.|+++|+|.|.|||| .|+|||||+-. +.+||.+ +..+. .+|.++|++.-++ ++ -...
T Consensus 662 ~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftl-ks~~~-V~Ga~VEvq~~~~mat~~qr~rd~~~~ 739 (922)
T KOG2677|consen 662 CRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTL-KSATS-VNGAEVEVQSWLRMATGFQRNRDPLTQ 739 (922)
T ss_pred eeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceee-eeeee-eccceeehHHHHHHHhhhhhccCcccc
Confidence 9999999999999999999999999 89999999964 4599986 33333 3566888764332 22 2345
Q ss_pred ceeeeEEEEecCCCCC--------------------------------CCceEEeccceEEEeCCCcEEEEEeceeCCC-
Q 014235 308 STATNVEIELPVSSDA--------------------------------SNPDVRTSMGSASYVPEDEALIWKIRSFPGG- 354 (428)
Q Consensus 308 ~~~~~v~v~iplP~~~--------------------------------~~~~~~~~~G~~~~~~~~~~l~W~I~k~~g~- 354 (428)
+.|+||.|++|+|..| +.+.++++.|++||++..+.|+|+|++++.+
T Consensus 740 vpCenI~IrfPVPs~WIk~fr~e~~~g~kSlkaK~nR~a~~gsl~~~~sepvi~vt~G~AKYEhay~siVWrI~RLPdKn 819 (922)
T KOG2677|consen 740 VPCENIMIRFPVPSEWIKNFRRESVLGEKSLKAKVNRGASFGSLSVSGSEPVIRVTLGTAKYEHAYNSIVWRINRLPDKN 819 (922)
T ss_pred CcccceeEeccCcHHHHHHHHHHhhhccchhhhhhcccccccchhhccCCceEEEeecchhhHHhhhhheeecccCCccc
Confidence 7899999999999853 2356889999999999999999999999763
Q ss_pred ----CeeEEEEEEEecCCCCCCCCCCCCCCEEEEEEECcccccccEEEEEEEEEcCCCCCccceEEEEEeCcEEEE
Q 014235 355 ----KEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGEYELR 426 (428)
Q Consensus 355 ----~~~~l~~~i~~~~~~~~~~~~~~~~pi~v~F~ip~~t~SGl~V~~l~v~~~~~~~~~k~vrY~t~sg~Y~~r 426 (428)
.++.|.|+++|+++++.+.. ..+.+.|+|.+|..++|...||++.|.. ...+.|||+|..+. +|++.
T Consensus 820 sa~~hpHcl~c~lELgSd~evPs~--f~p~~~V~FsmP~t~aS~t~VRSisVE~--~~~v~K~V~y~A~Y-~yqv~ 890 (922)
T KOG2677|consen 820 SASGHPHCLFCHLELGSDREVPSR--FAPHVNVEFSMPTTSASKTSVRSISVED--KTDVRKWVNYSAHY-SYQVA 890 (922)
T ss_pred cccCCCeeEEEEEeccccccCchh--hccccceeeeccccccccceeeeeeccc--cccHHHHHhhhhhe-eeeee
Confidence 47899999999999887765 7888999999999999999999999976 34689999998655 56553
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=7.2e-27 Score=203.27 Aligned_cols=135 Identities=27% Similarity=0.510 Sum_probs=117.2
Q ss_pred ceEEEEEEeCCCCEEEEEccCCCCChh---HHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCH
Q 014235 4 AVSALFLLDIKGRVLVWRDYRGDVSAK---QAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNA 80 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~~~~~~---~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~ 80 (428)
||++++|+|++|+++++|+|++..... ..+++.+.+..++ ...+|++..++++++|++.+++||+++++.++|+
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~~~~~~~~~~~~~~~~~~~~~~---~~~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNe 77 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRDVSEEERQKLFEKFIKKKSSRN---SKQSPIFEHDNYRIVYKRYSDLYFVVVGDENENE 77 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESSTSTSHHHHHHHHHHHHHHHTSS---SSSTSEEEETTEEEEEEEETTEEEEEEESSTSBH
T ss_pred CEEEEEEEcCCCCEEEehhcCCccHHHHHHHHHHHHHHHHhcc---cccceeeecccceeeeEeeccEEEEEEeecccch
Confidence 999999999999999999997654432 3444444444442 3569999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCc
Q 014235 81 ASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTD 141 (428)
Q Consensus 81 ~~~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~ 141 (428)
++++++|+++.++|++||++++|..|++||+.+|++||||+|+|+|++||++.+...+.+.
T Consensus 78 l~~~e~l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~~~I~~~v~~~ 138 (141)
T PF01217_consen 78 LLLLEFLHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDPNVILKRVTMQ 138 (141)
T ss_dssp HHHHHHHHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--THHHHHHHHHHC
T ss_pred HHHHHHHHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999988753
No 8
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=99.83 E-value=7.8e-20 Score=150.79 Aligned_cols=132 Identities=17% Similarity=0.287 Sum_probs=119.6
Q ss_pred ceEEEEEEeCCCCEEEEEccCCCCCh---hHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCH
Q 014235 4 AVSALFLLDIKGRVLVWRDYRGDVSA---KQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNA 80 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~~~~~---~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~ 80 (428)
||++++|+|++|++++.|+|.+.... .+++...+.+.+++ .+.+.+++..+.+.+|+++++|||+++.+.++|+
T Consensus 1 ~i~~vli~nrqgk~RL~K~yt~~~~~e~~kli~~i~~lIs~R~---~ke~N~~e~k~~kiVYrrYA~LyF~f~Vd~~dnE 77 (152)
T COG5030 1 MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISARK---PKESNFIEGKNEKIVYRRYATLYFVFGVDNDDNE 77 (152)
T ss_pred CeEEEEEEcCCCceeeeEeeccCCcHHHHHHHHHHHHHHHcCC---chhcccccccCcEEEeeecCcEEEEEEEcCCCCc
Confidence 89999999999999999999875432 36677888888764 3678899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhc
Q 014235 81 ASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFI 138 (428)
Q Consensus 81 ~~~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i 138 (428)
+.+++++|.|+++|+.||+++||..+..||..+|.+||||+-+|..++++++.+-+.+
T Consensus 78 l~iL~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl~~v 135 (152)
T COG5030 78 LIILELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVLEHV 135 (152)
T ss_pred chHHHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999998765443
No 9
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.76 E-value=7.3e-18 Score=140.90 Aligned_cols=157 Identities=15% Similarity=0.136 Sum_probs=127.3
Q ss_pred ceEEEEEEeCCCCEEEEEccCCCCC---hhHHHHHHHHHhhccCCCCCCCCeEEe------CCEEEEEEEeCCEEEEEEe
Q 014235 4 AVSALFLLDIKGRVLVWRDYRGDVS---AKQAERFFTKLIEKDGDAQSQDPVVYD------NGVSYLFIQHSNVYLMTAS 74 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~~~~---~~~~~~f~~~~~~~~~~~~~~~pii~~------~~~~~v~~~~~~ly~v~~t 74 (428)
||+|++|+|.+|++++.|+|.+... +.++...+..+.++++ ..+.+.+. .+.+.+|+++..|||+.+.
T Consensus 1 MI~AvlifNn~gkPRL~KFY~p~~~~~Qq~lir~vf~lvs~R~~---n~~nFLe~~~l~g~~d~rlIYrhYATLYFvfvv 77 (182)
T KOG0936|consen 1 MIKAVLIFNNKGKPRLVKFYTPVDEEKQQQLIREVFHLVSKRPD---NVCNFLEGNSLIGGSDNRLIYRHYATLYFVFVV 77 (182)
T ss_pred CeeEEEEecCCCCcceeeecCcCChHHHHHHHHHHHHHHHcCCc---hHhhhhccccccCCccceeehheeeeEEEEEEE
Confidence 9999999999999999999998433 2466777777777654 35556553 3679999999999999999
Q ss_pred cCCcCHHHHHHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCcccccccccCCCCc
Q 014235 75 RQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRPPMA 154 (428)
Q Consensus 75 ~~~~n~~~~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~~~~~~~~~~~~~~ 154 (428)
++.++++.++++++.|++.|+.+|.+++|.++..|++.++.+|+|++.+|.+.+|+.+.+..-+....-..+.....+.+
T Consensus 78 D~sEsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~~~nkleks~~~~~~~ 157 (182)
T KOG0936|consen 78 DSSESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVDEQNKLEKSEDGLIGA 157 (182)
T ss_pred cCCcchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHHHhchhhhccCCcccC
Confidence 99999999999999999999999999999999999999999999999999999999998877776543333322223333
Q ss_pred ccccccccc
Q 014235 155 VTNAVSWRS 163 (428)
Q Consensus 155 ~~~~v~wR~ 163 (428)
.++...|+.
T Consensus 158 p~~~~~~~~ 166 (182)
T KOG0936|consen 158 PTRAVFAVK 166 (182)
T ss_pred chhhhhhhh
Confidence 444455553
No 10
>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.73 E-value=3.9e-18 Score=140.65 Aligned_cols=127 Identities=18% Similarity=0.271 Sum_probs=112.3
Q ss_pred ceEEEEEEeCCCCEEEEEccCCCCCh---hHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCH
Q 014235 4 AVSALFLLDIKGRVLVWRDYRGDVSA---KQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNA 80 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~~~~~---~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~ 80 (428)
||+++...++.|+.+++|||...... .......+.+.+++ ...+.+++..+.+.||+++++|||++....+.|+
T Consensus 1 mi~f~LlvsrQGk~rL~k~y~~~~~~er~~i~re~i~~~Lar~---pk~csfie~kd~kvVyrryasl~f~~~v~~~dNE 77 (145)
T KOG0934|consen 1 MIKFFLLVSRQGKTRLQKWYEALSIKERKKIERELIKSVLARK---PKMCSFIEYKDEKVVYRRYASLFFCVGVEDNDNE 77 (145)
T ss_pred CeEEEEEEeccCceehhHHHhhhcHHHHHHHHHHHHHHHHhCC---cccccchhccCceehhhhhhhEEEEEEEecCCch
Confidence 89999999999999999999975432 23344555566554 3689999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHH
Q 014235 81 ASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANI 133 (428)
Q Consensus 81 ~~~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~ 133 (428)
+.++|++|+++++|+.|||++||.+|..||..+|.+|||++-.|..+++..+.
T Consensus 78 L~~LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~~ 130 (145)
T KOG0934|consen 78 LAILEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKND 130 (145)
T ss_pred hhHHHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhccc
Confidence 99999999999999999999999999999999999999999999888877664
No 11
>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.72 E-value=5.7e-17 Score=130.24 Aligned_cols=134 Identities=19% Similarity=0.210 Sum_probs=112.4
Q ss_pred ceEEEEEEeCCCCEEEEEccCCCCCh---hHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCH
Q 014235 4 AVSALFLLDIKGRVLVWRDYRGDVSA---KQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNA 80 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~~~~~---~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~ 80 (428)
||..|.|.|+.|+.+++|||...... .+.++..+.+..++. ..+.-+........+++++++|||+...+...|.
T Consensus 1 mi~FILiqNr~Gk~RLak~yv~~dd~ek~~~~~~vh~lvs~Rd~--K~~~~~~~~~~~~~~~rryagLyf~~~vd~tDne 78 (143)
T KOG0935|consen 1 MIRFILIQNRAGKTRLAKWYVQFDDDEKQKLIEEVHALVTVRDA--KHTNFVEFRNFKIIYRRRYAGLYFCICVDVTDNE 78 (143)
T ss_pred CeEEEEEEccccceeheeeeeccCchHHHHHHHHHHHHHhhccc--hhhhheeeeeceEEEEEeeCCEEEEEEEecCCch
Confidence 89999999999999999999875442 366778888877653 2233344444445555789999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhcc
Q 014235 81 ASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIK 139 (428)
Q Consensus 81 ~~~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~ 139 (428)
+..++.+|.++++|+.||+++||.++..||-.||.++|||+-+|..++|+...+-+.+.
T Consensus 79 layLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vlerl~ 137 (143)
T KOG0935|consen 79 LAYLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVLERLL 137 (143)
T ss_pred HHHHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999887655543
No 12
>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.69 E-value=6.5e-16 Score=130.55 Aligned_cols=138 Identities=18% Similarity=0.323 Sum_probs=124.8
Q ss_pred eEEEEEEeCCCCEEEEEccCCCCCh--hHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCHHH
Q 014235 5 VSALFLLDIKGRVLVWRDYRGDVSA--KQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAAS 82 (428)
Q Consensus 5 i~~i~Il~~~G~~l~~r~y~~~~~~--~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~ 82 (428)
+++++|+|+.|++++.|+|.++.+. ....+|.+.+-+... .....+...+|..++|+..-||+|.++...++|+++
T Consensus 9 vk~iliLD~~G~Ri~aKYY~~~~~s~vkeqkaFEK~lF~KT~--kt~~eI~~ldg~~vvYk~~~Dl~fyv~G~~~ENEl~ 86 (175)
T KOG3343|consen 9 VKAILILDSDGKRILAKYYDDPHPSTVKEQKAFEKNLFSKTS--KTESEILLLDGNTVVYKSVIDLHFYVVGSEEENELM 86 (175)
T ss_pred hheEEEEcCCCCEeeeeecCCCcchhHHHHHHHHHHHhcccc--cccceeEEecCcEEEEEecccEEEEEecCcchhHHH
Confidence 5899999999999999999998775 345689988876543 356789999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhh-hcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCcccc
Q 014235 83 LLFFLHRVVDVFKHYFEE-LEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYR 144 (428)
Q Consensus 83 ~~~~L~~i~~~l~~~~~~-l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~~~~ 144 (428)
..+.|+.|.+.+.-.+.. +....+.+|++.+...+||++|+|.+++||++.+...+..++..
T Consensus 87 L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp~~ia~rv~~~~~~ 149 (175)
T KOG3343|consen 87 LMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDPNQIAQRVALRPTD 149 (175)
T ss_pred HHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCHHHHHHHhccCCCC
Confidence 999999999999999997 88899999999999999999999999999999999998876554
No 13
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=2.8e-11 Score=102.08 Aligned_cols=138 Identities=17% Similarity=0.230 Sum_probs=118.9
Q ss_pred eEEEEEEeCCCCEEEEEccCCCCChh----------HHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEe
Q 014235 5 VSALFLLDIKGRVLVWRDYRGDVSAK----------QAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTAS 74 (428)
Q Consensus 5 i~~i~Il~~~G~~l~~r~y~~~~~~~----------~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t 74 (428)
+.|++|+|++|++++.|+|.+..... -.++|.+.+..... .....+...++..+++.+..++.|+.+.
T Consensus 8 v~a~LilDsqGeriy~kyy~pph~~eg~~~vFnsvkkekefek~l~eKt~--k~~~~Il~f~d~lV~~k~~~dv~~yiv~ 85 (187)
T COG5541 8 VEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEKTA--KDRESILMFYDRLVMCKRLDDVLLYIVS 85 (187)
T ss_pred eeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHHhh--cCccceeeEcceeeeeeeehhEEEEEec
Confidence 67999999999999999999754321 34567777765432 3567899999999999999999999999
Q ss_pred cCCcCHHHHHHHHHHHHHHHHHHHhh-hcHHHHHhhHHHHHHHHHHHhcCCeeeecChHHHhhhccCcccc
Q 014235 75 RQNCNAASLLFFLHRVVDVFKHYFEE-LEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYR 144 (428)
Q Consensus 75 ~~~~n~~~~~~~L~~i~~~l~~~~~~-l~e~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~~~i~~~~~~ 144 (428)
.-++|+.+..+.+..|...|.-.++. -++..+.+||+.+..++||.||.|.+.+|+++.+.+.++.++..
T Consensus 86 ~meeNE~~l~q~f~~ir~Al~li~k~~~dkr~v~enYDqivl~vdEtid~Gvilet~s~~ia~rv~K~p~~ 156 (187)
T COG5541 86 PMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPKPPNF 156 (187)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHcCCcchhhHHhhhceEEEeeehhcccceEeecChHHHHHhCCCCCCc
Confidence 99999999999999999999999998 56666999999999999999999999999999999999886554
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=99.03 E-value=1e-07 Score=90.96 Aligned_cols=226 Identities=20% Similarity=0.313 Sum_probs=119.2
Q ss_pred EEEEEEEeeeEEEeccCcEEEEEEEEEEEEEEEecC-------CCeEEEEeccchhhhhcCCCCCCceEEeccceeeeee
Q 014235 173 VFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSG-------MPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCV 245 (428)
Q Consensus 173 i~vdV~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG-------~P~~~l~ln~~~~~~~~~~~~~~~~i~l~d~~fH~cV 245 (428)
+-..|.|+|||.+.. |.+.+..|.|+|.+. |..| .+.+.+.|++...+ +.+...+..
T Consensus 3 l~asi~E~VnA~Fk~-g~~~~v~v~GEv~ls-~~~~~~~~~~~~~~l~~rl~n~~~l--------------e~i~pN~~~ 66 (257)
T PF10291_consen 3 LNASITETVNAYFKG-GQLSKVKVTGEVALS-YPAGISSSLTSPPPLSFRLNNFSRL--------------EKIAPNPQF 66 (257)
T ss_dssp EEEEEEEEEEEEEET-TEEEEEEEEEEEEEE-EE--SSS-----SEEEEEEETGGGE--------------EEEEE-TTT
T ss_pred eeEEEEEEEEEEEEC-CcEEEEEEEEEEEEe-cCCChhhcccCCCcEEEEEcCcchh--------------ceeecCHhH
Confidence 456799999999976 789999999999775 4333 24567777655432 221111111
Q ss_pred ccccccCCceEEEeCCC--CeE--EEEEEEecC-----CCCCcEEEEEEEEEc-cceEEEEEEEeee-cCCCcceeeeEE
Q 014235 246 RLARFENDRTISFIPPD--GSF--DLMTYRLNT-----QVKPLIWVEAQVERH-SRSRVEILVKARS-QFKERSTATNVE 314 (428)
Q Consensus 246 ~~~~f~~~~~l~F~PPd--G~f--~Lm~Yr~~~-----~~~P~~~v~~~~~~~-~~~~~ei~l~~~~-~~~~~~~~~~v~ 314 (428)
=...-.++....|.++- ... ..|+|++.. ...|+.+ .|.-+.. ....+-+.+++.. .+......+||.
T Consensus 67 v~~~~~~~~~f~~n~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l-~~~Wk~e~~~tsl~l~Y~~Np~~~~~~~~L~nv~ 145 (257)
T PF10291_consen 67 VSSSSQSDGEFWLNMSALTSHLPKQALKYQVHSDPSNLSSVPLIL-KPVWKCEPSQTSLILDYKLNPDAFASPVPLENVV 145 (257)
T ss_dssp E--EEEETTEEEE-TTTTBT-E-EEEEEEEEES--------SEEE-EEEEEE-SSEEEEEEEEEE-TTT--E-EEEEEEE
T ss_pred eecCCCCCCcEEEehHHhhhhhhhceEEEEEeccccccCCCCeEE-EeEEEeCCceEEEEEEEEeChhhccccceeeeEE
Confidence 00011122334444432 233 569999976 4477765 5554433 2233444444444 344446789999
Q ss_pred EEecCCCC-CCCceEEeccceEEEeCCCcEEEEEeceeC--CCCe-eEEEEEEEecCCCCCCCCCCCCCCEEEEEEEC-c
Q 014235 315 IELPVSSD-ASNPDVRTSMGSASYVPEDEALIWKIRSFP--GGKE-YMLRAEFTLPSITAEEATPERKAPIRVKFEIP-Y 389 (428)
Q Consensus 315 v~iplP~~-~~~~~~~~~~G~~~~~~~~~~l~W~I~k~~--g~~~-~~l~~~i~~~~~~~~~~~~~~~~pi~v~F~ip-~ 389 (428)
+..++..+ +.++.. .-.+.|..+++.+.|+++.+. ++.+ ..|.|+|...... . ...+|.+.|++. +
T Consensus 146 ~~v~l~g~~~ts~~s---kP~g~~~~e~~ri~Wrl~el~~~~~~~~~kL~ARf~~~~~~----~--~p~~v~vkF~~~~~ 216 (257)
T PF10291_consen 146 FSVPLDGGRATSAQS---KPQGTWNKEKNRITWRLPELSLTSEGEGGKLIARFMTSGGP----S--RPGGVEVKFEIEGG 216 (257)
T ss_dssp EEEEB-SS-EEEEEE---SSS--B-SSS-EEEEE-SSEEEETT---EEEEEEEEESS----------SS-EEEEEEE---
T ss_pred EEEEcCCcccccccc---CCCccccCCCcEEEEECCcccccCCCCCceEEEEEECCCCC----C--CCceEEEEEEEcCC
Confidence 99999887 333332 333688899999999999764 3333 7899999875532 1 567899999999 8
Q ss_pred ccccccEEEEEEEEEc-----CCCCCccceEEEEEeCcEEE
Q 014235 390 FTVSGIQVRYLKIIEK-----SGYHALPWVRYITMAGEYEL 425 (428)
Q Consensus 390 ~t~SGl~V~~l~v~~~-----~~~~~~k~vrY~t~sg~Y~~ 425 (428)
.+.||+.|.-..-.+. .+|+. -=++-...+|.|..
T Consensus 217 ~~~sg~~i~~~~~~~~~dp~~~~w~~-~~~~r~~~sGkY~~ 256 (257)
T PF10291_consen 217 STLSGLGISLVYQDDEEDPPGGGWRL-VLVKRKLVSGKYIA 256 (257)
T ss_dssp S-SS----EEEEEESSS-TT----EE--EEEEEEEEEEEE-
T ss_pred CcccCcEEEEeecccccCCCCCcceE-EEEEEEEeeeEEec
Confidence 8999999887722211 12222 24566677899974
No 15
>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1
Probab=96.42 E-value=0.11 Score=46.78 Aligned_cols=81 Identities=6% Similarity=0.059 Sum_probs=70.4
Q ss_pred CEEEEEEEeCCEEEEEEecCCcCHHHHHHHHHHHHHHHHHHHhhhcH-HHHHhhHHHHHHHHHHHhcCCeeeecChHHHh
Q 014235 57 GVSYLFIQHSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFEELEE-ESLRDNFVVVYELLDEMMDFGYPQYTEANILS 135 (428)
Q Consensus 57 ~~~~v~~~~~~ly~v~~t~~~~n~~~~~~~L~~i~~~l~~~~~~l~e-~~i~~n~~~v~~lldE~id~G~p~~t~~~~l~ 135 (428)
...++.....++-|..+++..+|.+++-.||+.+...|.+.+..++. ..+...-+.|..+|+..++.|.-.-.+...++
T Consensus 103 ~k~vvW~~v~~l~ftLVce~hEN~lLa~~~L~~~~~~l~~~~~~l~~~~e~l~k~d~i~aiL~~fLP~GQLLFlN~~~~k 182 (189)
T PF15001_consen 103 PKIVVWLGVGSLCFTLVCEPHENRLLAENTLRLFIRHLLEHLKILSQPSEVLLKSDRILAILHRFLPHGQLLFLNHRFVK 182 (189)
T ss_pred CcEEEeeccCCEEEEEEecCchhHHHHHHHHHHHHHHHHHHHHHhCcHHHhhhhHHHHHHHHHHhCCCCcEEEEcHHHHH
Confidence 35788899999999999999999999999999999999999987543 66777899999999999999988877776655
Q ss_pred hh
Q 014235 136 EF 137 (428)
Q Consensus 136 ~~ 137 (428)
.+
T Consensus 183 ~l 184 (189)
T PF15001_consen 183 QL 184 (189)
T ss_pred HH
Confidence 43
No 16
>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=96.30 E-value=0.029 Score=57.47 Aligned_cols=89 Identities=11% Similarity=0.132 Sum_probs=59.3
Q ss_pred EEEEEEeCCCCEEEEEccCCCCChh---HHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCHHH
Q 014235 6 SALFLLDIKGRVLVWRDYRGDVSAK---QAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAAS 82 (428)
Q Consensus 6 ~~i~Il~~~G~~l~~r~y~~~~~~~---~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~ 82 (428)
+.+||+++.||++++|+=.++.-.+ ++.++...+... ++.---+..+++++++..++.||+||+++..+++..
T Consensus 12 kh~fIlS~AGKPIysr~G~e~~l~~~~g~~~aiiS~~~~~----~d~l~~i~~~~~~ivfl~r~pl~lv~vS~~~e~~~~ 87 (415)
T PF03164_consen 12 KHFFILSSAGKPIYSRYGDEDKLSSLMGVIQAIISFFQSN----GDELRSIRAGDHRIVFLNRGPLILVAVSKTGESESQ 87 (415)
T ss_pred CeEEEECCCCceeEEecCChHHHHHHHHHHHHHHHHHHhC----CCcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHH
Confidence 5799999999999998822211111 222333222222 223345678999999999999999999998888776
Q ss_pred HHHHHHHHHHHHHHHH
Q 014235 83 LLFFLHRVVDVFKHYF 98 (428)
Q Consensus 83 ~~~~L~~i~~~l~~~~ 98 (428)
...-|+.+...|-..+
T Consensus 88 l~~qL~~ly~qils~l 103 (415)
T PF03164_consen 88 LRKQLDYLYSQILSIL 103 (415)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 6666665555554433
No 17
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=94.38 E-value=0.41 Score=48.81 Aligned_cols=100 Identities=20% Similarity=0.291 Sum_probs=65.1
Q ss_pred EEEEEEeCCCCEEEEEccCCCCCh---hHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCHHH
Q 014235 6 SALFLLDIKGRVLVWRDYRGDVSA---KQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAAS 82 (428)
Q Consensus 6 ~~i~Il~~~G~~l~~r~y~~~~~~---~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~ 82 (428)
+.+||+.+.|+++++|+=.++... ++..+...-+... +..-..|..+|.++++.+++-|++||++..+..+..
T Consensus 118 khifilseaGKPiyS~~gs~e~l~stmGv~~alISf~q~~----~~~i~si~a~g~k~vfl~kspl~LvA~s~t~~Sa~q 193 (523)
T KOG0997|consen 118 KHIFILSEAGKPIYSRHGSDEALSSTMGVMQALISFFQVS----GLAITSIHAFGNKLVFLQKSPLLLVAVSRTSQSAAQ 193 (523)
T ss_pred ceEEEEecCCCceeeecCcHHHHHHHHHHHHHHHHHHhhC----CceEEEEEecCceEEEEecCcEEEEEEcccccCHHH
Confidence 469999999999999985544322 2233322222211 233456778999999999999999999997766654
Q ss_pred HHHHHHHHHHHHHHHHhhhcHHHH------HhhHHH
Q 014235 83 LLFFLHRVVDVFKHYFEELEEESL------RDNFVV 112 (428)
Q Consensus 83 ~~~~L~~i~~~l~~~~~~l~e~~i------~~n~~~ 112 (428)
. ++.+.-+....+..||+..+ +.|||+
T Consensus 194 L---~~qL~~ly~QIlS~LT~~ql~~if~~r~NfDL 226 (523)
T KOG0997|consen 194 L---LQQLLLLYCQILSILTASQLQRIFNKRQNFDL 226 (523)
T ss_pred H---HHHHHHHHHHHHHHHHHHHHHHHHhcccCchH
Confidence 3 34444444444555655443 578875
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=93.48 E-value=1.3 Score=37.06 Aligned_cols=91 Identities=10% Similarity=0.162 Sum_probs=63.4
Q ss_pred eEEEEEEeCCCCEEEEEccCCCCCh-----hHHHHHHHHHhhccC-CCCCCC-CeEEeCCEEEEEEEeCCEEEEEEecCC
Q 014235 5 VSALFLLDIKGRVLVWRDYRGDVSA-----KQAERFFTKLIEKDG-DAQSQD-PVVYDNGVSYLFIQHSNVYLMTASRQN 77 (428)
Q Consensus 5 i~~i~Il~~~G~~l~~r~y~~~~~~-----~~~~~f~~~~~~~~~-~~~~~~-pii~~~~~~~v~~~~~~ly~v~~t~~~ 77 (428)
+.+|+|.|++|=+++.-...+. +. ..+..|-....+.++ .-+++. -+..++++.+++.....+|+..+++.+
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 6899999999999998444432 32 233334444443322 012233 356789999999999999999999999
Q ss_pred cCHHHHHHHHHHHHHHHHH
Q 014235 78 CNAASLLFFLHRVVDVFKH 96 (428)
Q Consensus 78 ~n~~~~~~~L~~i~~~l~~ 96 (428)
.|.-.++.+-+.+..++++
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
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=92.65 E-value=3 Score=34.13 Aligned_cols=94 Identities=15% Similarity=0.270 Sum_probs=55.6
Q ss_pred cceEEEEEEeCCCCEEEEEccCCCCCh----------hHHHHHHHHHhhccCCCCCCCC--eEEeCC-EEEEEEEeCCEE
Q 014235 3 GAVSALFLLDIKGRVLVWRDYRGDVSA----------KQAERFFTKLIEKDGDAQSQDP--VVYDNG-VSYLFIQHSNVY 69 (428)
Q Consensus 3 ~Mi~~i~Il~~~G~~l~~r~y~~~~~~----------~~~~~f~~~~~~~~~~~~~~~p--ii~~~~-~~~v~~~~~~ly 69 (428)
+.+.++||+|++|..+++|.|.++... +.+-.......+...- ....+ ++..+. +-.+|+...++-
T Consensus 1 mave~~~iINksGglifqref~~~et~lnsneyLiLastlhgV~aI~tq~~p~-~gssg~~~l~~~~f~m~I~qT~TG~k 79 (134)
T COG5122 1 MAVEQFFIINKSGGLIFQREFGEGETELNSNEYLILASTLHGVSAILTQTIPL-PGSSGRLVLYFRNFVMTIFQTTTGTK 79 (134)
T ss_pred CceeEEEEEecCCcEEEEEeccCCccccCcccEEEEeechhhhhhhhhhcccC-CCCCceEEEEeccEEEEEEEecCCcE
Confidence 357899999999999999999765432 1111111111111110 01122 233332 456778889999
Q ss_pred EEEEe-cCCcCHHHHHHHHHHHHHHHHHHHhh
Q 014235 70 LMTAS-RQNCNAASLLFFLHRVVDVFKHYFEE 100 (428)
Q Consensus 70 ~v~~t-~~~~n~~~~~~~L~~i~~~l~~~~~~ 100 (428)
||+++ +..+|.++- |+.+..+..+|.-.
T Consensus 80 FV~~~~k~t~na~~q---l~kiY~lYsdYV~k 108 (134)
T COG5122 80 FVFVAEKRTVNALFQ---LQKIYSLYSDYVTK 108 (134)
T ss_pred EEEEecCCchhHHHH---HHHHHHHHHHHhhc
Confidence 99998 445565544 66777777777653
No 20
>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=91.93 E-value=3.3 Score=35.80 Aligned_cols=94 Identities=11% Similarity=0.224 Sum_probs=54.5
Q ss_pred eEEEEEEeCCCCEEEEEccCCCC----C---hh----------HHHHHHHHHhhccCCCC--CCC--CeEEeCCEEE-EE
Q 014235 5 VSALFLLDIKGRVLVWRDYRGDV----S---AK----------QAERFFTKLIEKDGDAQ--SQD--PVVYDNGVSY-LF 62 (428)
Q Consensus 5 i~~i~Il~~~G~~l~~r~y~~~~----~---~~----------~~~~f~~~~~~~~~~~~--~~~--pii~~~~~~~-v~ 62 (428)
|.+++|+|+.|..+++|.|.... + .+ .+.+|.+++...+...+ ... ..++++..+. ++
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 68999999999999999998754 1 11 22344444443211100 111 2345666544 45
Q ss_pred EEeCCEEEEEEecCCcCHHHHHHHHHHHHHHHHHHHh
Q 014235 63 IQHSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFE 99 (428)
Q Consensus 63 ~~~~~ly~v~~t~~~~n~~~~~~~L~~i~~~l~~~~~ 99 (428)
....++-||++|+.+.... .-++++.+.++.-+|.-
T Consensus 81 eT~TGlKFvl~td~~~~~~-~~~l~~~~~~lY~dyV~ 116 (142)
T PF04099_consen 81 ETPTGLKFVLITDPNVPSL-RDELLRIYYELYVDYVV 116 (142)
T ss_dssp E-TTS-EEEEEE-TTCCHC-HHHHHHHHHHHHHHHHH
T ss_pred EcCcCcEEEEEecCCCccH-HHHHHHHHHHHHHHHHh
Confidence 6678999999999888543 34467888888888764
No 21
>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=89.39 E-value=2.4 Score=32.77 Aligned_cols=49 Identities=6% Similarity=0.170 Sum_probs=42.2
Q ss_pred CeEEeCCEEEEEEEeCCEEEEEEecCCcCHHHHHHHHHHHHHHHHHHHh
Q 014235 51 PVVYDNGVSYLFIQHSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFE 99 (428)
Q Consensus 51 pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~~~~~L~~i~~~l~~~~~ 99 (428)
-.++.++..|.+...+++.++|+|+.+-+.-..+.||+.+.+-...-++
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 3567888888888899999999999999999999999999988887766
No 22
>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=86.51 E-value=18 Score=30.92 Aligned_cols=91 Identities=16% Similarity=0.235 Sum_probs=46.0
Q ss_pred ceEEEEEEeCCCCEEEEEccCC-CCChhHHHHHHHHHhhccCC---CCCCCCeEE-------eCCEEEEEEE--eCCEEE
Q 014235 4 AVSALFLLDIKGRVLVWRDYRG-DVSAKQAERFFTKLIEKDGD---AQSQDPVVY-------DNGVSYLFIQ--HSNVYL 70 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~-~~~~~~~~~f~~~~~~~~~~---~~~~~pii~-------~~~~~~v~~~--~~~ly~ 70 (428)
||+.+.|++..|++|++.+=-+ ......+.+|..++++.+.. .....-+.. .++..+.|.. .-.|||
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 9999999999999999976333 23345678999988775321 011222333 3355555543 567998
Q ss_pred EEEecCCcCHHHHHHHHHHHHHHHHHHHh
Q 014235 71 MTASRQNCNAASLLFFLHRVVDVFKHYFE 99 (428)
Q Consensus 71 v~~t~~~~n~~~~~~~L~~i~~~l~~~~~ 99 (428)
|++-.. ..+++=+.-.++|+--++
T Consensus 81 VvTyae-----qsleLn~EAe~~L~lal~ 104 (148)
T PF09201_consen 81 VVTYAE-----QSLELNQEAEQTLDLALK 104 (148)
T ss_dssp EEEESS-------HHHHHHHHHHHHHHHH
T ss_pred EEEecc-----ccchhhHHHHHHHHHHHH
Confidence 887543 334444555555554433
No 23
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.74 E-value=16 Score=33.10 Aligned_cols=86 Identities=13% Similarity=0.205 Sum_probs=61.1
Q ss_pred EeCCCCEEEEEccCCCCC-hhHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEEeCCEEEEEEecCCcCHHHHHHHHHH
Q 014235 11 LDIKGRVLVWRDYRGDVS-AKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAASLLFFLHR 89 (428)
Q Consensus 11 l~~~G~~l~~r~y~~~~~-~~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~~~~~L~~ 89 (428)
+=.+|-++++.+-.-..+ .+..++..+++-.. +...=-..+|++.|-|...+++.++|+++.+..-...+.||++
T Consensus 7 ~VARGTvvLaeft~~~gNf~sva~qiL~klp~~----~n~k~tYs~d~y~Fh~l~~dg~tylcvadds~gR~ipfaFLe~ 82 (217)
T KOG0859|consen 7 FVARGTVILAEFTEFSGNFSSIAAQILQKLPSS----SNSKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAFLER 82 (217)
T ss_pred EEecceEEEEeeeeccCCHHHHHHHHHHhCCCC----CCCceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHHHHH
Confidence 346899999976222122 24555555555432 1223456789999999999999999999988877888899999
Q ss_pred HHHHHHHHHhh
Q 014235 90 VVDVFKHYFEE 100 (428)
Q Consensus 90 i~~~l~~~~~~ 100 (428)
+.+=+..-.|.
T Consensus 83 Ik~~F~k~YG~ 93 (217)
T KOG0859|consen 83 IKEDFKKRYGG 93 (217)
T ss_pred HHHHHHHHhcc
Confidence 98877666665
No 24
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.06 E-value=22 Score=31.61 Aligned_cols=41 Identities=7% Similarity=0.208 Sum_probs=32.1
Q ss_pred EEEEEEEeCCEEEEEEecCCcCHHHHHHHHHHHHHHHHHHHhh
Q 014235 58 VSYLFIQHSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFEE 100 (428)
Q Consensus 58 ~~~v~~~~~~ly~v~~t~~~~n~~~~~~~L~~i~~~l~~~~~~ 100 (428)
.-++|+...++-||++++.-. ..+=.+|+++.++..||.=+
T Consensus 132 ~l~~~QTlTG~KFVvis~~~~--~~aD~lLrKiYelYsDyvlK 172 (199)
T KOG3369|consen 132 TLHIFQTLTGTKFVVIAEPGT--QGADSLLRKIYELYSDYVLK 172 (199)
T ss_pred EEEEEEccCCcEEEEEecCCc--hhHHHHHHHHHHHHHHHhhc
Confidence 467889999999999987655 33455789999998888653
No 25
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.84 E-value=26 Score=36.36 Aligned_cols=111 Identities=14% Similarity=0.170 Sum_probs=69.0
Q ss_pred ceEEEEEEeCCCCEEEEEccCCCCChhHHHHHHHHHh-hccCCCCCCCCeEEeCCEEEEEEEeCC--EEEEEEecCCcCH
Q 014235 4 AVSALFLLDIKGRVLVWRDYRGDVSAKQAERFFTKLI-EKDGDAQSQDPVVYDNGVSYLFIQHSN--VYLMTASRQNCNA 80 (428)
Q Consensus 4 Mi~~i~Il~~~G~~l~~r~y~~~~~~~~~~~f~~~~~-~~~~~~~~~~pii~~~~~~~v~~~~~~--ly~v~~t~~~~n~ 80 (428)
||+.+.|++..|-+|..++=.++.-...+..|++.+. +..+. ... +..+.++.=|...|+ +.|+++-..--+-
T Consensus 1 Mld~faIFtkgG~vLw~~~~~~~~~~~~in~lI~~~ll~er~~--~~~--~~~~~yTlk~q~~N~~~lvfvvvfqki~~L 76 (587)
T KOG0781|consen 1 MLDQFAIFTKGGLVLWCYQEVGDNLKGPINALIRSVLLSERGG--VNS--FTFEAYTLKYQLDNQYSLVFVVVFQKILTL 76 (587)
T ss_pred CcceeeeecCCcEEEEEecccchhccchHHHHHHHHHHHhhcC--ccc--CchhheeEeeeecCCccEEEEEEEeccchh
Confidence 8999999999999988865443333334556666544 32221 111 555555555555555 5666666555556
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcHHHHHhhHHH-HHHHHH
Q 014235 81 ASLLFFLHRVVDVFKHYFEELEEESLRDNFVV-VYELLD 118 (428)
Q Consensus 81 ~~~~~~L~~i~~~l~~~~~~l~e~~i~~n~~~-v~~lld 118 (428)
..+-.+|....++..+-++..+-..+..|++. ..++|+
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 66667777777777776766666777777754 444444
No 26
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.49 E-value=56 Score=27.74 Aligned_cols=93 Identities=12% Similarity=0.239 Sum_probs=51.7
Q ss_pred cceEEEEEEeCCCCEEEEEccCCCCCh----h-----------HHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEEE-eC
Q 014235 3 GAVSALFLLDIKGRVLVWRDYRGDVSA----K-----------QAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQ-HS 66 (428)
Q Consensus 3 ~Mi~~i~Il~~~G~~l~~r~y~~~~~~----~-----------~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~~-~~ 66 (428)
|-|.+++|+|++|..|+.+.|...... . .+..|.+++...+. ++.---+.+...+.-|.. -.
T Consensus 1 Mtiy~~yIFdR~g~Cl~y~EW~r~~~s~~~~eee~KL~yGmlFSlkS~v~Kls~~d~--k~~f~sy~Ts~YklhfyeTpt 78 (140)
T KOG3368|consen 1 MTIYNFYIFDRNGVCLFYREWNRTKQSGIPNEEEAKLMYGMLFSLKSFVSKLSPGDV--KDGFLSYKTSKYKLHFYETPT 78 (140)
T ss_pred CeEEEEEEEcCCccEEEehhcccccccCCchhHHHHHHHHHHhhHHHHHHhcCCCCc--ccCeeEEeeceeEEEEEEcCC
Confidence 458899999999999999887653221 1 12233333332211 111122334454444443 46
Q ss_pred CEEEEEEecCCcCHHHHHHHHHHHHH-HHHHHHh
Q 014235 67 NVYLMTASRQNCNAASLLFFLHRVVD-VFKHYFE 99 (428)
Q Consensus 67 ~ly~v~~t~~~~n~~~~~~~L~~i~~-~l~~~~~ 99 (428)
+|.|+..|+..... +-+.|+.|.. +--+|..
T Consensus 79 glk~vl~Tdpk~~~--ir~vLq~IYs~lyVE~Vv 110 (140)
T KOG3368|consen 79 GLKFVLNTDPKAGS--IRDVLQYIYSHLYVEYVV 110 (140)
T ss_pred CcEEEEecCCCccc--HHHHHHHHHHHHHHHHHH
Confidence 79999999876533 3455666665 4344433
No 27
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=56.72 E-value=81 Score=30.77 Aligned_cols=112 Identities=18% Similarity=0.320 Sum_probs=59.7
Q ss_pred cccCCceEEEeCCCCeEEEEEEEecCCC----CCcE-EE-EEEEEEccceEEEEEEEeeecCCCcceeeeEEEEecCCCC
Q 014235 249 RFENDRTISFIPPDGSFDLMTYRLNTQV----KPLI-WV-EAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSD 322 (428)
Q Consensus 249 ~f~~~~~l~F~PPdG~f~Lm~Yr~~~~~----~P~~-~v-~~~~~~~~~~~~ei~l~~~~~~~~~~~~~~v~v~iplP~~ 322 (428)
.|-.+..|.+++|.++|. |.+-.+..+ .+.. .. .-.+......+.++++.++...+. .-.|.|.=++|-.
T Consensus 194 ~~vG~~~l~~~~~ge~~~-l~~G~d~~v~v~r~~~~~~~~~g~~~~~~~~~~~~~itv~N~~~~---~v~v~v~d~iPvs 269 (317)
T PF13598_consen 194 TFVGESRLPHTAPGEEFE-LSFGVDPDVRVERKLLKKEEERGFFGKSQRRTYEYTITVRNNKDE---PVTVTVEDQIPVS 269 (317)
T ss_pred EEEEeeecCCCCCCCEEE-EEcccCCCEEEEEEecceecccccccccEEEEEEEEEEEECCCCC---CEEEEEEeCCCCC
Confidence 355567788999988887 445554432 0110 00 011111111245666666654332 2357777777765
Q ss_pred CC-CceEEecc-ceEEEeCCCcEEEEEeceeCCCCeeEEEEEEEe
Q 014235 323 AS-NPDVRTSM-GSASYVPEDEALIWKIRSFPGGKEYMLRAEFTL 365 (428)
Q Consensus 323 ~~-~~~~~~~~-G~~~~~~~~~~l~W~I~k~~g~~~~~l~~~i~~ 365 (428)
.. ..++.... .....+.+.+.+.|++. ++.+...+++..+.+
T Consensus 270 ~~~~I~V~~~~~~~~~~~~~~g~~~W~~~-l~~g~~~~l~~~y~v 313 (317)
T PF13598_consen 270 EDEDIKVELLEPPEPNEDEKDGILEWKVT-LPPGESRTLEFSYEV 313 (317)
T ss_pred CCceEEEEEcCCCCCcccCCCCEEEEEEE-ECCCCEEEEEEEEEE
Confidence 33 23333222 22356789999999997 555445566655544
No 28
>PF14400 Transglut_i_TM: Inactive transglutaminase fused to 7 transmembrane helices
Probab=42.79 E-value=2.1e+02 Score=25.37 Aligned_cols=54 Identities=19% Similarity=0.262 Sum_probs=34.6
Q ss_pred eeEEEEecCCCCCCCceE----Eeccc---eEEEeCCCcEEEEEeceeCCCCeeEEEEEEE
Q 014235 311 TNVEIELPVSSDASNPDV----RTSMG---SASYVPEDEALIWKIRSFPGGKEYMLRAEFT 364 (428)
Q Consensus 311 ~~v~v~iplP~~~~~~~~----~~~~G---~~~~~~~~~~l~W~I~k~~g~~~~~l~~~i~ 364 (428)
.-|+|++.+|..-..-.+ ..+.| +..-+..++..+|.|....|.+..--+..+.
T Consensus 32 ~pvkvsl~lP~~~pgf~il~E~~~SpGYGls~~~~~~~RrA~WS~R~A~G~QtLYYr~~~~ 92 (165)
T PF14400_consen 32 GPVKVSLALPDTQPGFTILDENFASPGYGLSIVDDDGNRRAEWSIRRASGPQTLYYRVQLL 92 (165)
T ss_pred CCEEEEEcCCCCCCCeEEEccccccCCCCeEEEecCCCcEEEEecccCCCceEEEEEEEEE
Confidence 368899999985433222 12333 3444556889999999998866544454444
No 29
>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]
Probab=39.94 E-value=86 Score=30.63 Aligned_cols=114 Identities=17% Similarity=0.198 Sum_probs=70.5
Q ss_pred EEeeeEEEeccCcEEEEEEEEEEEEEEEecCCCeEEEEeccchhhhhcCCCCCCceEEeccceeeeeec-cccccCCceE
Q 014235 178 VEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVR-LARFENDRTI 256 (428)
Q Consensus 178 ~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~i~l~d~~fH~cV~-~~~f~~~~~l 256 (428)
+-.|.+..+++|. .-.+|.|.+.+..--.|+|.-.+.|.-+-.. ++...+-.-+.++.|||--. +..-.+|...
T Consensus 201 ~R~va~f~d~~~~-alGsiEGrv~iq~id~~~~~~nFtFkCHR~~----~~~~~~VYaVNsi~FhP~hgtlvTaGsDGtf 275 (347)
T KOG0647|consen 201 TRCVACFQDKDGF-ALGSIEGRVAIQYIDDPNPKDNFTFKCHRST----NSVNDDVYAVNSIAFHPVHGTLVTAGSDGTF 275 (347)
T ss_pred eeEEEEEecCCce-EeeeecceEEEEecCCCCccCceeEEEeccC----CCCCCceEEecceEeecccceEEEecCCceE
Confidence 3456777888887 7788999999998888898777777554311 11011123467889999221 2223467777
Q ss_pred EEeCCCCeEEEEEEEecCCCCCcEEEEEEEEEccceEEEEEEEee
Q 014235 257 SFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKAR 301 (428)
Q Consensus 257 ~F~PPdG~f~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~ei~l~~~ 301 (428)
+|-.-|.+..|..|.. ...|+. + |.|.. ++.-+-|-+.-.
T Consensus 276 ~FWDkdar~kLk~s~~--~~qpIt-c-c~fn~-~G~ifaYA~gYD 315 (347)
T KOG0647|consen 276 SFWDKDARTKLKTSET--HPQPIT-C-CSFNR-NGSIFAYALGYD 315 (347)
T ss_pred EEecchhhhhhhccCc--CCCccc-e-eEecC-CCCEEEEEeecc
Confidence 7777777777777643 124443 2 55532 344566655543
No 30
>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=39.46 E-value=2.1e+02 Score=23.36 Aligned_cols=86 Identities=8% Similarity=0.186 Sum_probs=49.8
Q ss_pred eEEEEEEeCCCCEEEEEc-cCCCCChhHHHHHHHHHhhccCCCCCCCCeEEeCCEEEEEE-------------------E
Q 014235 5 VSALFLLDIKGRVLVWRD-YRGDVSAKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFI-------------------Q 64 (428)
Q Consensus 5 i~~i~Il~~~G~~l~~r~-y~~~~~~~~~~~f~~~~~~~~~~~~~~~pii~~~~~~~v~~-------------------~ 64 (428)
+.+..|++.+|.+..+.. |.. .+...+..+...+.... .....-|.++|.+|... +
T Consensus 16 ~~~aaI~~~dG~vwA~s~~f~~-~~~~E~~~i~~~f~~~~---~~~~~gi~l~G~kY~~~~~d~~~i~~k~~~~G~~i~k 91 (121)
T PF00235_consen 16 ITKAAIIGSDGSVWASSPGFSN-ISPEEAKAIIKAFNNPS---KFPSNGITLGGKKYIVLRADDNSIYGKKGKGGIIIVK 91 (121)
T ss_dssp ESEEEEEETTSSEEEEETTGGG-CSHHHHHHHHHHHHSSS---HHHHH-EEETTEEEEEEEEETTEEEEEETTEEEEEEE
T ss_pred EeEEEEEcCCCCEEEecCCCCC-CCHHHHHHHHHHhcCch---hcccCCeEEcCcEeEEEecCCceEEeeCCCCcEEEEE
Confidence 677889999998887654 311 23333334444333211 01112344444444443 3
Q ss_pred eCCEEEEEEecCCcCHHHHHHHHHHHHHHH
Q 014235 65 HSNVYLMTASRQNCNAASLLFFLHRVVDVF 94 (428)
Q Consensus 65 ~~~ly~v~~t~~~~n~~~~~~~L~~i~~~l 94 (428)
.+..++|+..+.+.++-.+.....++++.|
T Consensus 92 t~~~ivIg~y~~~~~~~~~~~~v~~lA~yL 121 (121)
T PF00235_consen 92 TKQAIVIGMYDESIQPGNCNKAVEKLADYL 121 (121)
T ss_dssp CSSEEEEEEEETTSTHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEEeCCCCCHHHHHHHHHHHHhhC
Confidence 445677788888888888888888887754
No 31
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.94 E-value=3.2e+02 Score=25.32 Aligned_cols=49 Identities=10% Similarity=0.232 Sum_probs=43.0
Q ss_pred eEEeCCEEEEEEEeCCEEEEEEecCCcCHHHHHHHHHHHHHHHHHHHhh
Q 014235 52 VVYDNGVSYLFIQHSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFEE 100 (428)
Q Consensus 52 ii~~~~~~~v~~~~~~ly~v~~t~~~~n~~~~~~~L~~i~~~l~~~~~~ 100 (428)
-++.+...|.|...+++.+.++++.+-+--+++.+|+.+.+=+..-.+.
T Consensus 53 Sietg~f~fHfli~~~Vcylvicd~~yP~kLAF~YLedL~~EF~~~~~~ 101 (216)
T KOG0862|consen 53 SIETGPFVFHFLIESGVCYLVICDKSYPRKLAFSYLEDLAQEFDKSYGK 101 (216)
T ss_pred ccccCCeEEEEEecCCEEEEEEecCCCcHHHHHHHHHHHHHHHHHhccc
Confidence 4567788999999999999999999999999999999999888776664
No 32
>PF08460 SH3_5: Bacterial SH3 domain; InterPro: IPR013667 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; GO: 0016787 hydrolase activity; PDB: 1R77_B.
Probab=37.58 E-value=1.2e+02 Score=22.38 Aligned_cols=34 Identities=32% Similarity=0.670 Sum_probs=22.8
Q ss_pred EEEEECcccccccEEEEEEEEEcCCCCCccceEEEEEeCcE
Q 014235 383 VKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGEY 423 (428)
Q Consensus 383 v~F~ip~~t~SGl~V~~l~v~~~~~~~~~k~vrY~t~sg~Y 423 (428)
+-+..+ -|-.|.+-.+....| +.|++|..-+|.+
T Consensus 27 ~~~~~~----~G~~V~YD~~~~~dG---y~Wisy~~~sG~r 60 (65)
T PF08460_consen 27 VVGTYP----KGQSVNYDQVIKADG---YVWISYISYSGQR 60 (65)
T ss_dssp EEEEE-----TT-EEEEEEEEEETT---EEEEEEE-TT--E
T ss_pred eEEEEC----CCCEEEEEEEEEeCC---EEEEEEECCCCeE
Confidence 456666 788999999877666 5899999888854
No 33
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=34.65 E-value=54 Score=26.16 Aligned_cols=20 Identities=25% Similarity=0.002 Sum_probs=17.1
Q ss_pred HHHHHHHHHHhcCCeeeecC
Q 014235 111 VVVYELLDEMMDFGYPQYTE 130 (428)
Q Consensus 111 ~~v~~lldE~id~G~p~~t~ 130 (428)
..|...++++++.|+++.|-
T Consensus 80 ~~v~~al~~L~~eG~IYsTi 99 (102)
T PF08784_consen 80 NEVRKALDFLSNEGHIYSTI 99 (102)
T ss_dssp HHHHHHHHHHHHTTSEEESS
T ss_pred HHHHHHHHHHHhCCeEeccc
Confidence 56779999999999998774
No 34
>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport. Several missense mutations and deletion mutations in the SEDL gene, which result in protein truncation by frame shift, are responsible for spondyloepiphyseal dysplasia tarda, a progressive skeletal disorder (OMIM:313400). [].; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005622 intracellular; PDB: 3PR6_A 2J3W_A 1H3Q_A.
Probab=28.43 E-value=3.6e+02 Score=22.65 Aligned_cols=90 Identities=9% Similarity=0.161 Sum_probs=47.9
Q ss_pred EEeCCCCEEEEEccCCCCChh--------------HHHHHHHHHhhccCCCCCCCCeEEeCCE-EEEEEEeCCEEEEEEe
Q 014235 10 LLDIKGRVLVWRDYRGDVSAK--------------QAERFFTKLIEKDGDAQSQDPVVYDNGV-SYLFIQHSNVYLMTAS 74 (428)
Q Consensus 10 Il~~~G~~l~~r~y~~~~~~~--------------~~~~f~~~~~~~~~~~~~~~pii~~~~~-~~v~~~~~~ly~v~~t 74 (428)
|++.+.++|+.+.|....... +++.|-..+.....+ ..-.-+...+++ .|-|+...++-|+.+.
T Consensus 1 IIg~~n~PLy~~~~~~~~~~~~~~~~~l~~~~~h~sLD~iee~~~~~~~~-~yLg~l~~~~~~~vygyvT~t~~Kfvl~~ 79 (132)
T PF04628_consen 1 IIGPNNNPLYIRSFPSEKESSSSDARHLYQFIAHSSLDVIEEKLWKSSSD-MYLGLLDPFEDYKVYGYVTNTGIKFVLVH 79 (132)
T ss_dssp EE-TTS-EEEEEEE--ST-CGHHHHHHHHHHHHHHHHHHHHHCCHCSSSC-SEEEEEEEETTEEEEEEETTT--EEEEEE
T ss_pred CCCCCCcceEEEecCCCcccccchHHHHHHHHHHHHHHHHHHHHhhcccc-cccCceehhhhHHHHhhhccCceeEEEEE
Confidence 688999999999998764432 223333333320000 011124445654 6677888889999888
Q ss_pred c---CCcCHHHHHHHHHHHHHHHHHHHhh
Q 014235 75 R---QNCNAASLLFFLHRVVDVFKHYFEE 100 (428)
Q Consensus 75 ~---~~~n~~~~~~~L~~i~~~l~~~~~~ 100 (428)
+ ...+.-.+-.|++++.++.-+++-+
T Consensus 80 ~~~~~~~~d~~ik~fF~~vh~~Y~~~~~N 108 (132)
T PF04628_consen 80 DMSDNSIRDEDIKQFFKEVHELYVKALCN 108 (132)
T ss_dssp CGGG-S--HHHHHHHHHHHHHHHHHHHTS
T ss_pred ecccCCcchHHHHHHHHHHHHHHHHHccC
Confidence 7 3445666777777777776666655
No 35
>PRK09750 hypothetical protein; Provisional
Probab=27.57 E-value=49 Score=23.85 Aligned_cols=15 Identities=47% Similarity=0.807 Sum_probs=11.9
Q ss_pred EEcCCCCCccceEEE
Q 014235 403 IEKSGYHALPWVRYI 417 (428)
Q Consensus 403 ~~~~~~~~~k~vrY~ 417 (428)
.+++|..|.+|+||.
T Consensus 10 i~KpGg~P~~W~r~s 24 (64)
T PRK09750 10 IEKEGGTPTNWTRYS 24 (64)
T ss_pred EECCCCCccceeEec
Confidence 345777899999996
No 36
>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=25.19 E-value=3.3e+02 Score=21.21 Aligned_cols=43 Identities=23% Similarity=0.364 Sum_probs=27.3
Q ss_pred eeeeEEEEecCCCCCCCceEEeccceEEEeCCCcEEEEEeceeCCCC
Q 014235 309 TATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGK 355 (428)
Q Consensus 309 ~~~~v~v~iplP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~k~~g~~ 355 (428)
.+-||.|.-.||-+++ +..+.-.++ -...+.++|+|+.+..+.
T Consensus 43 DcvnVviTqqLPce~e---FV~SdPett-p~~D~kLVW~Ig~l~~G~ 85 (95)
T PF03504_consen 43 DCVNVVITQQLPCEVE---FVRSDPETT-PTPDGKLVWKIGRLGQGE 85 (95)
T ss_pred ceeEEEEeecCCcceE---EEecCCccc-cCCCCEEEEEeccccCCc
Confidence 4568889989998643 222222221 125678999999986554
No 37
>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=22.15 E-value=1e+02 Score=20.79 Aligned_cols=17 Identities=41% Similarity=0.669 Sum_probs=13.6
Q ss_pred EEeCCCCeEEEEEEEec
Q 014235 257 SFIPPDGSFDLMTYRLN 273 (428)
Q Consensus 257 ~F~PPdG~f~Lm~Yr~~ 273 (428)
.|---||.|+.|.|.-+
T Consensus 15 vfpn~dgtftamtytks 31 (49)
T PF07151_consen 15 VFPNQDGTFTAMTYTKS 31 (49)
T ss_pred EeeCCCCcEEEEEEeec
Confidence 45567999999999854
Done!