Query 021018
Match_columns 318
No_of_seqs 148 out of 1190
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 06:57:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021018.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021018hhsearch_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 4.7E-76 1E-80 535.3 27.4 307 4-313 1-333 (446)
2 KOG0937 Adaptor complexes medi 100.0 3.1E-66 6.7E-71 489.4 28.8 309 5-314 1-310 (424)
3 KOG2740 Clathrin-associated pr 100.0 5.5E-60 1.2E-64 433.7 23.1 288 4-306 1-303 (418)
4 PF00928 Adap_comp_sub: Adapto 100.0 2E-35 4.4E-40 271.7 17.1 148 159-313 1-148 (262)
5 PF01217 Clat_adaptor_s: Clath 100.0 1E-28 2.2E-33 207.3 17.9 135 4-141 1-138 (141)
6 KOG2635 Medium subunit of clat 100.0 2.8E-26 6.1E-31 216.0 24.4 271 3-292 1-391 (512)
7 COG5030 APS2 Clathrin adaptor 99.9 8.7E-22 1.9E-26 159.3 13.8 133 4-139 1-136 (152)
8 KOG2677 Stoned B synaptic vesi 99.8 7.4E-22 1.6E-26 192.8 3.6 142 165-307 581-733 (922)
9 KOG0934 Clathrin adaptor compl 99.8 5.6E-21 1.2E-25 154.4 7.8 132 4-138 1-135 (145)
10 KOG0936 Clathrin adaptor compl 99.8 2.6E-19 5.6E-24 146.9 13.4 140 4-146 1-149 (182)
11 KOG0935 Clathrin adaptor compl 99.8 3E-19 6.6E-24 140.9 11.7 134 4-139 1-137 (143)
12 KOG3343 Vesicle coat complex C 99.8 8.9E-19 1.9E-23 144.9 13.4 140 4-145 8-150 (175)
13 COG5541 RET3 Vesicle coat comp 99.4 1.1E-12 2.4E-17 108.4 9.1 139 4-144 7-156 (187)
14 PF03164 Mon1: Trafficking pro 96.1 0.059 1.3E-06 53.2 11.3 89 6-98 12-103 (415)
15 PF15001 AP-5_subunit_s1: AP-5 95.4 0.15 3.3E-06 44.6 9.8 81 57-137 103-184 (189)
16 KOG0997 Uncharacterized conser 93.1 0.79 1.7E-05 45.5 10.0 75 6-84 118-195 (523)
17 PF08923 MAPKK1_Int: Mitogen-a 92.4 2.3 4.9E-05 34.6 10.4 91 5-96 17-114 (119)
18 COG5122 TRS23 Transport protei 92.3 3.2 6.8E-05 33.3 10.6 91 4-99 2-107 (134)
19 PF10291 muHD: Muniscin C-term 92.1 6.6 0.00014 36.2 14.4 115 173-304 3-132 (257)
20 PF13774 Longin: Regulated-SNA 91.0 1.8 3.8E-05 32.4 7.9 49 51-99 17-65 (83)
21 KOG0859 Synaptobrevin/VAMP-lik 89.3 11 0.00025 33.2 12.3 88 9-100 5-93 (217)
22 PF04099 Sybindin: Sybindin-li 89.0 12 0.00025 31.3 12.1 93 5-98 1-115 (142)
23 KOG0781 Signal recognition par 87.0 9.2 0.0002 38.4 11.5 114 4-120 1-117 (587)
24 PF09201 SRX: SRX; InterPro: 81.4 30 0.00066 28.8 10.7 73 4-76 1-86 (148)
25 KOG3369 Transport protein part 72.8 51 0.0011 28.6 9.8 46 52-99 125-171 (199)
26 KOG0862 Synaptobrevin/VAMP-lik 58.6 1.4E+02 0.003 26.9 10.2 49 52-100 53-101 (216)
27 KOG0647 mRNA export protein (c 33.2 1.1E+02 0.0023 29.2 5.7 88 180-272 203-291 (347)
28 KOG3368 Transport protein part 28.7 3.4E+02 0.0074 22.5 10.5 90 3-98 1-109 (140)
29 KOG1766 Enhancer of rudimentar 23.7 1.1E+02 0.0023 23.9 3.2 43 82-124 24-68 (104)
30 PF00235 Profilin: Profilin; 21.3 4.1E+02 0.0088 20.8 9.3 87 5-94 16-121 (121)
31 PF03392 OS-D: Insect pheromon 21.2 1.1E+02 0.0023 23.8 2.9 42 98-140 5-46 (95)
32 PF08784 RPA_C: Replication pr 20.2 1.5E+02 0.0032 22.7 3.7 21 110-130 79-99 (102)
No 1
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.7e-76 Score=535.26 Aligned_cols=307 Identities=39% Similarity=0.700 Sum_probs=283.0
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCChHHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCHHHH
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAASI 83 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~~~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~~ 83 (318)
||+++||+|.+|++++.|.||+|..++..++|+-+++...+ ..+|+..+++..|+|.+.++||+++++.+|.|.+.+
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 MISGLFIYNLRGEVLINKTFRDDLKRSIVDIFRVQVINNLD---VRSPVLTIGSTTFHHIRSSNLWLVAITKSNANVAAV 77 (446)
T ss_pred CcceEEEEeccCcEEEehhhhhhhhhhHHHHHHHhhhhccc---cCCCeeEecceeEEEEeeccEEEEEEecCCCchhhH
Confidence 89999999999999999999999999999999999998743 458999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhccccccccc----C-----CC---
Q 021018 84 LLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTDAYRMEVT----Q-----RP--- 151 (318)
Q Consensus 84 l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~~~~~~~~----~-----~~--- 151 (318)
++||..+..++..|||+.+|+.|++||.+|||+||||+|+|+||+|++++|+.+|..+++..+-. . .+
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 99999999999999999999999999999999999999999999999999999999988765511 1 11
Q ss_pred -CCCccCCCcCccCCCccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEeeCCCCeEEEEeccchhhhhc-c---
Q 021018 152 -PMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQ-G--- 226 (318)
Q Consensus 152 -~~~~~~~~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~-~--- 226 (318)
.++.+++++||++|++|+|||+|+||.|++|.+++++|++++++|.|.|.|+++|||||+|++||||...+... +
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 13456789999999999999999999999999999999999999999999999999999999999999876521 1
Q ss_pred --------C-CCCCcceeccccccccccccccccCCceEEeeCCCCceEEEEEEeecCCCCeEEEEEEEEEcCceEEEEE
Q 021018 227 --------R-STKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIM 297 (318)
Q Consensus 227 --------~-~~~~~~~~l~~~~fH~cV~~~~f~~~~~i~F~PPdg~f~Lm~Y~~~~~~~~P~~v~~~~~~~~~~~~~~~ 297 (318)
+ .+.+..+.|+||.||+||++++|++++.|+|+||||+|+||+||++.++.+||+|.|.++..+.+++++.
T Consensus 238 s~~~n~~~~sks~~g~v~leDc~FHqCV~L~kFn~eh~IsFvPPDGe~ELMkYr~~enInlPFrV~PiV~el~r~kie~r 317 (446)
T KOG0938|consen 238 SDFGNKNFPSKSGKGSVLLEDCTFHQCVRLDKFNSEHIISFVPPDGEFELMKYRVTENINLPFRVTPIVTELGRTKIEYR 317 (446)
T ss_pred ccccccCCCcccCCceEEeeccchheeeccccccccceEEEeCCCCceEeEeeeeccCcccceEeeeheecccceeEEEE
Confidence 0 1233458899999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeecCCCccccccc
Q 021018 298 VKARSQFKERSYFPLQ 313 (318)
Q Consensus 298 i~l~~~~~~~~~a~~~ 313 (318)
++++++|++++.|.++
T Consensus 318 i~iks~f~~kl~a~~v 333 (446)
T KOG0938|consen 318 ITIKSLFPPKLLAKDV 333 (446)
T ss_pred EEEeccCCchhhhcce
Confidence 9999999999999875
No 2
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.1e-66 Score=489.37 Aligned_cols=309 Identities=61% Similarity=1.007 Sum_probs=285.1
Q ss_pred eeEEEEEcCCCCEEEEEccCCCCChHHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCHHHHH
Q 021018 5 ASALFLLDIKGRVLIWRDYRGDVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAASIL 84 (318)
Q Consensus 5 I~~i~Iln~~G~~ll~r~y~~~~~~~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~~l 84 (318)
++|+||+|.+|++|++|.||++.+....+.|++++.... .....+|++..+|+.|+|.+.+++|+++++..|.++..++
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 479999999999999999999999999999998766543 2235679999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhcccccccccC-CCCCCccCCCcCcc
Q 021018 85 LFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTDAYRMEVTQ-RPPMAVTNAVSWRS 163 (318)
Q Consensus 85 ~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~~~~~~~~~-~~~~~~~~~~~wR~ 163 (318)
+||+++++++.+||+.+.|+.++.||.++||+|||++|+||||.|+++.|++||..++...+... ++|.+.+++++||+
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 99999999999999999999999999999999999999999999999999999999976544322 56778889999999
Q ss_pred CCCccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEeeCCCCeEEEEeccchhhhhccCCCCCcceecccccccc
Q 021018 164 EGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFHQ 243 (318)
Q Consensus 164 ~~~~~~~nei~vdv~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~l~~~~fH~ 243 (318)
.|++|+|||+|+||+|+++++++++|.+++++|.|+|+|||+|+|||+++|+||+....+..+..+.+..+.++|++||+
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 99999999999999999999999999999999999999999999999999999999888776656666889999999999
Q ss_pred ccccccccCCceEEeeCCCCceEEEEEEeecCCCCeEEEEEEEEEcCceEEEEEEEEeecCCCcccccccc
Q 021018 244 CVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFKERSYFPLQH 314 (318)
Q Consensus 244 cV~~~~f~~~~~i~F~PPdg~f~Lm~Y~~~~~~~~P~~v~~~~~~~~~~~~~~~i~l~~~~~~~~~a~~~~ 314 (318)
||++++|+.+|.|+|+||||+|+||+||++....|++.+......++.+|+++.+++++.|+.+..|+.++
T Consensus 240 ~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~vkPli~~~~~~~~~~~~ri~i~~K~~~~fk~~~~a~~v~ 310 (424)
T KOG0937|consen 240 CVRLSRFDNDRTISFIPPDGEFELMRYRLSTHVKPLIWFYQLIEEHSRSRIEVMVKLREQFKSRSSANNVE 310 (424)
T ss_pred eechhhccCCceEEecCCCCceEEEEEEecCCCCCeEEeeeeeeeccceeEEEEEechhhcCCccccceEE
Confidence 99999999999999999999999999999998898888777666788899999999999999999998765
No 3
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=5.5e-60 Score=433.72 Aligned_cols=288 Identities=33% Similarity=0.626 Sum_probs=255.7
Q ss_pred ceeEEEEEcCCCCEEEEEccCC-CCChHHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCHHH
Q 021018 4 AASALFLLDIKGRVLIWRDYRG-DVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAAS 82 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~-~~~~~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~ 82 (318)
||.+||++|.+|++++++.+++ ..+++.++.|+........ ....+|++..+.++++-.-++++||++++..+..|++
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 MILSIFLIDTSGDLLLEKHLKGSTVVRSICDYFFEDQSSDDD-LEHVPPVISTPHHYLFSVYRDLIFFCAVSTVETPPLM 79 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCCceeeeehHHHHHHhhhhccc-cccCCceecCCceeeeeeeccCcEEEEEEeccCCChh
Confidence 8999999999999999999994 4557788888887776432 2245677777888888888889999999999999999
Q ss_pred HHHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhcccccccccC----------CCC
Q 021018 83 ILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTDAYRMEVTQ----------RPP 152 (318)
Q Consensus 83 ~l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~~~~~~~~~----------~~~ 152 (318)
+++||+++++++.+|||+++|.+|++|+..||++||||+|+|+|..||+|.||++|+.++...+... ..|
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 9999999999999999999999999999999999999999999999999999999999998874321 456
Q ss_pred CCccCCCcCccCCCccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEeeCCCCeEEEEeccchhhhhccCCCCCc
Q 021018 153 MAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGK 232 (318)
Q Consensus 153 ~~~~~~~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~ 232 (318)
+++.+.+|||+.+.+|.+||.||||+|+++|+++++|..+.++|.|.|.|+|+|+|||++.|.|+.+.
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 67777899999999999999999999999999999999999999999999999999999999998863
Q ss_pred ceeccccccccccccccccCCceEEeeCCCCceEEEEEEeecC--CCCeEEEEEEEEEcCc--eEEEEEEEEeecCCC
Q 021018 233 AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQ--VKPLIWVEAQIERHSR--SRIEIMVKARSQFKE 306 (318)
Q Consensus 233 ~~~l~~~~fH~cV~~~~f~~~~~i~F~PPdg~f~Lm~Y~~~~~--~~~P~~v~~~~~~~~~--~~~~~~i~l~~~~~~ 306 (318)
.|+|++|||||+.++|+++++|+|+||||+|+||+||++.+ ...|..++++++..+. .|+++.++.+.+..+
T Consensus 228 --~L~dvsfHpcVr~krwe~~~~lsFIPPDGkFrLlsy~v~~~~~v~~pvyv~~~i~l~~~~~~ri~~tvg~~~~~gK 303 (418)
T KOG2740|consen 228 --LLGDVSFHPCVRYKRWESHSVLSFIPPDGKFRLLSYRVDAQNQVAIPVYVKNSISLDSNHQGRISLTVGPKKKMGK 303 (418)
T ss_pred --ccCCcccccceeecccccccceEEcCCCCcEEEEEEEEehhhccccceEEeeeeccCCCceEEEEEeccccccccc
Confidence 58999999999999999999999999999999999999864 4889999999987554 466666666665555
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=2e-35 Score=271.74 Aligned_cols=148 Identities=41% Similarity=0.804 Sum_probs=125.1
Q ss_pred CcCccCCCccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEeeCCCCeEEEEeccchhhhhccCCCCCcceeccc
Q 021018 159 VSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDD 238 (318)
Q Consensus 159 ~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~l~~ 238 (318)
+|||+.+.+|++|||||||.|+++++++++|.++.++|.|+|.|+++|+|+|+|+|+||++... ..+++.++|
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 5899999999999999999999999999999999999999999999999999999999998432 235678999
Q ss_pred cccccccccccccCCceEEeeCCCCceEEEEEEeecCCCCeEEEEEEEEEcCceEEEEEEEEeecCCCccccccc
Q 021018 239 IKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFKERSYFPLQ 313 (318)
Q Consensus 239 ~~fH~cV~~~~f~~~~~i~F~PPdg~f~Lm~Y~~~~~~~~P~~v~~~~~~~~~~~~~~~i~l~~~~~~~~~a~~~ 313 (318)
++||+|||+++|++++.|+|+||||+|+||+||++.+..+||.+.|++.+.+.+++++.++++++++....+..+
T Consensus 74 ~~fH~cV~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~~~~~~~~v~i~~~~~~~~~~~~~~v 148 (262)
T PF00928_consen 74 VSFHPCVDLSKFESDRVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSEKSSGRFEVTIELESNFPNKISLENV 148 (262)
T ss_dssp EEEETTEECCCCCSHTEEEE---SEEEEEEEEEEESSS--SEEEEEEEEEETTTEEEEEEEEEE-S-TTSEEEEE
T ss_pred eeeccccCccccccccceecCCCCceEEEEEEEccCCCCCCcEEEEEeccCCCceEEEEEEecccCCCCceeceE
Confidence 999999999999999999999999999999999998899999999999997778999999999999987766654
No 5
>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=99.96 E-value=1e-28 Score=207.33 Aligned_cols=135 Identities=24% Similarity=0.471 Sum_probs=116.1
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCChH---HHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCH
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVSAI---QAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNA 80 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~~~---~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~ 80 (318)
||++++|+|++|+++++|||++..... ..+++.+....++ ...+|++.++++.++|++.++|||+++++.++||
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 999999999999999999997644332 2333444444332 2358999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhcc
Q 021018 81 ASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTD 141 (318)
Q Consensus 81 l~~l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~ 141 (318)
++++++|++++++|+.||++++|.+|++||+.+|++|||++|+|+|++||++.|.+.+.+.
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 9999999999999999999999999999999999999999999999999999999998765
No 6
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.95 E-value=2.8e-26 Score=216.00 Aligned_cols=271 Identities=17% Similarity=0.275 Sum_probs=223.4
Q ss_pred cceeEEEEEcCCCCEEEEEccCCCCChH----HHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCC
Q 021018 3 GAASALFLLDIKGRVLIWRDYRGDVSAI----QAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNC 78 (318)
Q Consensus 3 ~MI~~i~Iln~~G~~ll~r~y~~~~~~~----~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~ 78 (318)
||+-++-|++..|+.+++|+|+ ++++. .+.+|.+.+... .++.+++.+.++|||++.+++|++.+|..+.
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-EMSRSRIEGLLAAFPKLVSAG-----KQHTFVETDSVRYVYQPLDNLYIVLITTKQS 74 (512)
T ss_pred CeEEEEEEeecCCceeeehHhH-hhhHHHHHHHHHHhHHhhccC-----CCccEEecccEEEEEEecccEEEEEEecccc
Confidence 4678899999999999999999 56764 445677766632 4789999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhcccccccccC---------
Q 021018 79 NAASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTDAYRMEVTQ--------- 149 (318)
Q Consensus 79 n~l~~l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~~~~~~~~~--------- 149 (318)
|.+..++.|+.|.+++..||..++|+.|.+|...+...+||++..||-.+.+..+++.|..+++|++++..
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 99999999999999999999999999999999998999999999999999999999999999999876420
Q ss_pred ------------------------------------------------------CCC---CC-ccCCCcCc---------
Q 021018 150 ------------------------------------------------------RPP---MA-VTNAVSWR--------- 162 (318)
Q Consensus 150 ------------------------------------------------------~~~---~~-~~~~~~wR--------- 162 (318)
..+ .+ ...+.|-.
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 00 00000000
Q ss_pred --------------------------------cCCCccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEeeCCCC
Q 021018 163 --------------------------------SEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMP 210 (318)
Q Consensus 163 --------------------------------~~~~~~~~nei~vdv~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P 210 (318)
+....-.++-+++.+.|+|++.++++|.+-+.++.|.+.++---.--.
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 000111234499999999999999999999999999999998777777
Q ss_pred eEEEEeccchhhhhccCCCCCcceeccccccccccccccccCCceEEeeCCCCce------EEEEEEeecC--CCCeEEE
Q 021018 211 ECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSF------DLMTYRLSTQ--VKPLIWV 282 (318)
Q Consensus 211 ~~~l~ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV~~~~f~~~~~i~F~PPdg~f------~Lm~Y~~~~~--~~~P~~v 282 (318)
.+.|.|++... . =-++++||.+|++.|.++..|...+|+..| .|++||.... ...|+++
T Consensus 315 ~i~lkl~n~~~----------~---g~q~ktHPNlDK~~f~s~s~iglk~~~K~FPvn~~VGvLkWR~~~~des~iPlTi 381 (512)
T KOG2635|consen 315 DIELKLANGRD----------K---GTQLKTHPNLDKKVFLSSSLIGLKRPEKPFPVNSDVGVLKWRMVDEDESEIPLTI 381 (512)
T ss_pred ceEEEEcCCCC----------c---ceeeeeCCCcchhhhccccccccccCCCCCCcCCcceEEEEeecccccccCceEE
Confidence 88888876421 1 247899999999999999999999999988 8999999763 4899999
Q ss_pred EEEEEEcCce
Q 021018 283 EAQIERHSRS 292 (318)
Q Consensus 283 ~~~~~~~~~~ 292 (318)
+||.++.+.+
T Consensus 382 ncWPSes~~g 391 (512)
T KOG2635|consen 382 NCWPSESGNG 391 (512)
T ss_pred EeccccCCCC
Confidence 9999886654
No 7
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=99.88 E-value=8.7e-22 Score=159.29 Aligned_cols=133 Identities=15% Similarity=0.231 Sum_probs=118.4
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCC---hHHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCH
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVS---AIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNA 80 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~---~~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~ 80 (318)
||++++|.|++|++++.|||.+... ...+...++.+.+++. +.+.+++.++..++|+++++|||+++.+.++|+
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 MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISARKP---KESNFIEGKNEKIVYRRYATLYFVFGVDNDDNE 77 (152)
T ss_pred CeEEEEEEcCCCceeeeEeeccCCcHHHHHHHHHHHHHHHcCCc---hhcccccccCcEEEeeecCcEEEEEEEcCCCCc
Confidence 8999999999999999999976322 1355677888887642 367899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhh
Q 021018 81 ASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIK 139 (318)
Q Consensus 81 l~~l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~ 139 (318)
+.+++++|.|++.|+.||+++||.++..||..+|.+||||+-+|..++++++.+.+.+.
T Consensus 78 l~iL~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl~~v~ 136 (152)
T COG5030 78 LIILELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVLEHVY 136 (152)
T ss_pred chHHHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999987665443
No 8
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.84 E-value=7.4e-22 Score=192.78 Aligned_cols=142 Identities=28% Similarity=0.506 Sum_probs=120.7
Q ss_pred CCccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEeeCCCCeEEEEeccchhhhhcc-------CCCCCcceecc
Q 021018 165 GIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQG-------RSTKGKAIDLD 237 (318)
Q Consensus 165 ~~~~~~nei~vdv~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~-------~~~~~~~~~l~ 237 (318)
...|..+||.|||.++.+++++++|+++...|..+|+|.|||+|.|+|.|||||..+.+..- +....+|++|.
T Consensus 581 k~nY~e~EI~v~~~Defsg~V~Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t~kwI~~~ 660 (922)
T KOG2677|consen 581 KSNYLEEEITVDVRDEFSGIVSKEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTTTKWIKLH 660 (922)
T ss_pred ccccccceeEEEEEeccceeecccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEeccccccccccceeee
Confidence 34789999999999999999999999999999999999999999999999999998654321 22467999999
Q ss_pred ccccccccccccccCCceEEeeCCCC-ceEEEEEEeecCC-CCeEEEEEEEEEcCceEEEE--EEEEeecCCCc
Q 021018 238 DIKFHQCVRLARFENDRTISFIPPDG-SFDLMTYRLSTQV-KPLIWVEAQIERHSRSRIEI--MVKARSQFKER 307 (318)
Q Consensus 238 ~~~fH~cV~~~~f~~~~~i~F~PPdg-~f~Lm~Y~~~~~~-~~P~~v~~~~~~~~~~~~~~--~i~l~~~~~~~ 307 (318)
+|.||.|||.++|+++|+|.|.|||| .|+|||||+..+- ..||.++..+...|. ++|+ .+++.+.|..+
T Consensus 661 ~~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftlks~~~V~Ga-~VEvq~~~~mat~~qr~ 733 (922)
T KOG2677|consen 661 ECRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTLKSATSVNGA-EVEVQSWLRMATGFQRN 733 (922)
T ss_pred eeeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceeeeeeeeeccc-eeehHHHHHHHhhhhhc
Confidence 99999999999999999999999999 8999999997654 889999998888654 4444 33444444433
No 9
>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.84 E-value=5.6e-21 Score=154.39 Aligned_cols=132 Identities=17% Similarity=0.223 Sum_probs=115.0
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCC--hH-HHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCH
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVS--AI-QAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNA 80 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~--~~-~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~ 80 (318)
||.++++.+++|+.+++|||..... +. ......+.+++++ ...+.++++++...||++++.|||++....++|+
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 8999999999999999999986332 22 3345666666654 2478999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhh
Q 021018 81 ASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFI 138 (318)
Q Consensus 81 l~~l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I 138 (318)
+.+++++|+++++|+.|||++||.+|..||..+|.+|||++-.|..|++..+.....+
T Consensus 78 L~~LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~~~~~~i 135 (145)
T KOG0934|consen 78 LAILEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKNDVLKAI 135 (145)
T ss_pred hhHHHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhcccHHHHH
Confidence 9999999999999999999999999999999999999999999999999887544333
No 10
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.82 E-value=2.6e-19 Score=146.86 Aligned_cols=140 Identities=14% Similarity=0.148 Sum_probs=120.8
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCC---hHHHHHHHHHhhcccCCCCCCCCEEE------eCCEEEEEEEeCCEEEEEEe
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVS---AIQAERFFTKFIEKEGDPQSQNPVVF------DNGVTYMFIQHNNVYLMAAS 74 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~---~~~~~~f~~~i~~~~~~~~~~~pvi~------~~~~~~v~~~~~~ly~v~v~ 74 (318)
||+|++|.|.+|++++.|+|.+-.. +..++..+..+.++++. .+.+++ -.+...+|+.+..|||+-+.
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 MIKAVLIFNNKGKPRLVKFYTPVDEEKQQQLIREVFHLVSKRPDN---VCNFLEGNSLIGGSDNRLIYRHYATLYFVFVV 77 (182)
T ss_pred CeeEEEEecCCCCcceeeecCcCChHHHHHHHHHHHHHHHcCCch---HhhhhccccccCCccceeehheeeeEEEEEEE
Confidence 9999999999999999999986322 24666777778777642 344554 23689999999999999999
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhccccccc
Q 021018 75 RQNCNAASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTDAYRME 146 (318)
Q Consensus 75 ~~~~n~l~~l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~~~~~~ 146 (318)
++.++++.++++++.|++.|+..|.++||.++..|+..++.+|+|++.+|.+.+|+.+-+...+....-.++
T Consensus 78 D~sEsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~~~nklek 149 (182)
T KOG0936|consen 78 DSSESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVDEQNKLEK 149 (182)
T ss_pred cCCcchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHHHhchhhh
Confidence 999999999999999999999999999999999999999999999999999999999988888876554444
No 11
>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.81 E-value=3e-19 Score=140.95 Aligned_cols=134 Identities=18% Similarity=0.167 Sum_probs=110.8
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCC--h-HHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCH
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVS--A-IQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNA 80 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~--~-~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~ 80 (318)
||.+|+|.|++|+.+++|||.+-.. + ...+...+.+..+... -+.-+........+++++++|||+...+...|+
T Consensus 1 mi~FILiqNr~Gk~RLak~yv~~dd~ek~~~~~~vh~lvs~Rd~K--~~~~~~~~~~~~~~~rryagLyf~~~vd~tDne 78 (143)
T KOG0935|consen 1 MIRFILIQNRAGKTRLAKWYVQFDDDEKQKLIEEVHALVTVRDAK--HTNFVEFRNFKIIYRRRYAGLYFCICVDVTDNE 78 (143)
T ss_pred CeEEEEEEccccceeheeeeeccCchHHHHHHHHHHHHHhhccch--hhhheeeeeceEEEEEeeCCEEEEEEEecCCch
Confidence 8999999999999999999986333 2 3445666666665321 122344444555556799999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhh
Q 021018 81 ASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIK 139 (318)
Q Consensus 81 l~~l~~L~~i~~~l~~y~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~ 139 (318)
+..++.+|.|+++|+.||+++||.++..||..||.++|||+-+|.+++|+...+.+.+.
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 99999999999999999999999999999999999999999999999999988766654
No 12
>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.80 E-value=8.9e-19 Score=144.89 Aligned_cols=140 Identities=16% Similarity=0.288 Sum_probs=127.1
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCChH--HHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCHH
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVSAI--QAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAA 81 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~~~--~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l 81 (318)
.+++++|+|++|++++.|||.++.+.. ...+|.+.+.++... ....+...+|..++|+..-+|+|..+...++|++
T Consensus 8 ~vk~iliLD~~G~Ri~aKYY~~~~~s~vkeqkaFEK~lF~KT~k--t~~eI~~ldg~~vvYk~~~Dl~fyv~G~~~ENEl 85 (175)
T KOG3343|consen 8 TVKAILILDSDGKRILAKYYDDPHPSTVKEQKAFEKNLFSKTSK--TESEILLLDGNTVVYKSVIDLHFYVVGSEEENEL 85 (175)
T ss_pred hhheEEEEcCCCCEeeeeecCCCcchhHHHHHHHHHHHhccccc--ccceeEEecCcEEEEEecccEEEEEecCcchhHH
Confidence 468999999999999999999888763 455899999986532 4678999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcc-ccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhcccccc
Q 021018 82 SILLFLHRVADVFKHYFEE-LEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTDAYRM 145 (318)
Q Consensus 82 ~~l~~L~~i~~~l~~y~~~-l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~~~~~ 145 (318)
+..+.|+.+.+.+.-.+.+ +....+.+|++.+...+||+||+|.+++||++++..++..++...
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 9999999999999999987 999999999999999999999999999999999999998877543
No 13
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.40 E-value=1.1e-12 Score=108.43 Aligned_cols=139 Identities=16% Similarity=0.214 Sum_probs=119.9
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCChH----------HHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEE
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVSAI----------QAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAA 73 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~~~----------~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v 73 (318)
-+.|++|+|++|++++.|||.+...+. -..+|.+.+..+.. .+...+..+++..++|++..++.++.+
T Consensus 7 ~v~a~LilDsqGeriy~kyy~pph~~eg~~~vFnsvkkekefek~l~eKt~--k~~~~Il~f~d~lV~~k~~~dv~~yiv 84 (187)
T COG5541 7 DVEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEKTA--KDRESILMFYDRLVMCKRLDDVLLYIV 84 (187)
T ss_pred eeeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHHhh--cCccceeeEcceeeeeeeehhEEEEEe
Confidence 368999999999999999998643321 33478888876432 135689999999999999999999999
Q ss_pred ecCCCCHHHHHHHHHHHHHHHHHHhcc-ccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhccccc
Q 021018 74 SRQNCNAASILLFLHRVADVFKHYFEE-LEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKTDAYR 144 (318)
Q Consensus 74 ~~~~~n~l~~l~~L~~i~~~l~~y~~~-l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~~~~~ 144 (318)
..-++|+.++.+.+..|...|.-.++. -++..+.+|||.+..+.||.||.|.+.+|+++.+.+.++.++..
T Consensus 85 ~~meeNE~~l~q~f~~ir~Al~li~k~~~dkr~v~enYDqivl~vdEtid~Gvilet~s~~ia~rv~K~p~~ 156 (187)
T COG5541 85 SPMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPKPPNF 156 (187)
T ss_pred cccccccHHHHHHHHHHHHHHHHHHcCCcchhhHHhhhceEEEeeehhcccceEeecChHHHHHhCCCCCCc
Confidence 999999999999999999999999998 56677999999999999999999999999999999999886553
No 14
>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=96.12 E-value=0.059 Score=53.18 Aligned_cols=89 Identities=12% Similarity=0.136 Sum_probs=59.3
Q ss_pred eEEEEEcCCCCEEEEEccCCCCCh---HHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCHHH
Q 021018 6 SALFLLDIKGRVLIWRDYRGDVSA---IQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAAS 82 (318)
Q Consensus 6 ~~i~Iln~~G~~ll~r~y~~~~~~---~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~ 82 (318)
+.+||+++.||++++|+=.++.-. +.+.++..-+.... +.---+..++..+++..++.||+||++...+++..
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 KHFFILSSAGKPIYSRYGDEDKLSSLMGVIQAIISFFQSNG----DELRSIRAGDHRIVFLNRGPLILVAVSKTGESESQ 87 (415)
T ss_pred CeEEEECCCCceeEEecCChHHHHHHHHHHHHHHHHHHhCC----CcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHH
Confidence 579999999999999983222111 23333333332221 11225567899999999999999999999998777
Q ss_pred HHHHHHHHHHHHHHHh
Q 021018 83 ILLFLHRVADVFKHYF 98 (318)
Q Consensus 83 ~l~~L~~i~~~l~~y~ 98 (318)
+..-|+.+...|-..+
T Consensus 88 l~~qL~~ly~qils~l 103 (415)
T PF03164_consen 88 LRKQLDYLYSQILSIL 103 (415)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 6666655555544443
No 15
>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1
Probab=95.44 E-value=0.15 Score=44.64 Aligned_cols=81 Identities=7% Similarity=0.052 Sum_probs=71.3
Q ss_pred CEEEEEEEeCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHhcccc-HHHHhhhHHHHHHHHHHHhcCCeeeeechhhHH
Q 021018 57 GVTYMFIQHNNVYLMAASRQNCNAASILLFLHRVADVFKHYFEELE-EESLRDNFVVVYELLDEIMDFGFPQFTEAKILS 135 (318)
Q Consensus 57 ~~~~v~~~~~~ly~v~v~~~~~n~l~~l~~L~~i~~~l~~y~~~l~-e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~ 135 (318)
...+++....++-|..+++..+|.+++-.+|..++..|.+.+..++ ...+...-+.|..+|+..++.|.-.-.+-+.++
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 3678999999999999999999999999999999999999997744 467788999999999999999998887776655
Q ss_pred Hh
Q 021018 136 EF 137 (318)
Q Consensus 136 ~~ 137 (318)
.+
T Consensus 183 ~l 184 (189)
T PF15001_consen 183 QL 184 (189)
T ss_pred HH
Confidence 43
No 16
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=93.11 E-value=0.79 Score=45.48 Aligned_cols=75 Identities=20% Similarity=0.274 Sum_probs=52.0
Q ss_pred eEEEEEcCCCCEEEEEccCCCCCh---HHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCHHH
Q 021018 6 SALFLLDIKGRVLIWRDYRGDVSA---IQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAAS 82 (318)
Q Consensus 6 ~~i~Iln~~G~~ll~r~y~~~~~~---~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~ 82 (318)
+.+||+.+.|+++++|+-..+.-. ++..+...-+...+ ..-..+...|..+++.+++.|+++|++..+..+..
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 KHIFILSEAGKPIYSRHGSDEALSSTMGVMQALISFFQVSG----LAITSIHAFGNKLVFLQKSPLLLVAVSRTSQSAAQ 193 (523)
T ss_pred ceEEEEecCCCceeeecCcHHHHHHHHHHHHHHHHHHhhCC----ceEEEEEecCceEEEEecCcEEEEEEcccccCHHH
Confidence 469999999999999986643322 23333333222211 12346678999999999999999999998777654
Q ss_pred HH
Q 021018 83 IL 84 (318)
Q Consensus 83 ~l 84 (318)
..
T Consensus 194 L~ 195 (523)
T KOG0997|consen 194 LL 195 (523)
T ss_pred HH
Confidence 43
No 17
>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=92.37 E-value=2.3 Score=34.60 Aligned_cols=91 Identities=11% Similarity=0.135 Sum_probs=62.0
Q ss_pred eeEEEEEcCCCCEEEEEccCCCCCh-----HHHHHHHHHhhcccC--CCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCC
Q 021018 5 ASALFLLDIKGRVLIWRDYRGDVSA-----IQAERFFTKFIEKEG--DPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQN 77 (318)
Q Consensus 5 I~~i~Iln~~G~~ll~r~y~~~~~~-----~~~~~f~~~i~~~~~--~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~ 77 (318)
+.+++|.|++|=+++.-...+ .+. ..+..|-....+.++ -+.+..-+..++++.+++.....+|+..+++.+
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 LQAIVITDRDGVPIAKVSSDS-APESAMRPSLLSTFAMAIDQASKLGLGKNKSIIAYYDSYQVVQFNKLPLYITFIASSN 95 (119)
T ss_dssp EEEEEEEETTS-EEEEEE-TT-S-GGGGSHHHHCCHHHHHHHHTTSSS-SEEEEEEEESSEEEEEEEETTEEEEEEEETT
T ss_pred eEEEEEECCCCcEEEEecCCC-CcchhhhhHHHHHHHHHhhcccccCCCCceEEEEEeCCEEEEEEeCCCeEEEEEecCC
Confidence 689999999999999844443 232 122233333333222 121223456789999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHH
Q 021018 78 CNAASILLFLHRVADVFKH 96 (318)
Q Consensus 78 ~n~l~~l~~L~~i~~~l~~ 96 (318)
.|.-.++++-+.+..++.+
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 9999999988888888865
No 18
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=92.29 E-value=3.2 Score=33.31 Aligned_cols=91 Identities=15% Similarity=0.302 Sum_probs=56.7
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCCh----------H---HHHHHHHHhhcccCCCCCCCCEEEeCC-EEEEEEEeCCEE
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVSA----------I---QAERFFTKFIEKEGDPQSQNPVVFDNG-VTYMFIQHNNVY 69 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~~----------~---~~~~f~~~i~~~~~~~~~~~pvi~~~~-~~~v~~~~~~ly 69 (318)
.+.+++|+|+.|..+++|.|.++.+. + ...++..++.... +...--++..+. +-.+|+...++-
T Consensus 2 ave~~~iINksGglifqref~~~et~lnsneyLiLastlhgV~aI~tq~~p~~--gssg~~~l~~~~f~m~I~qT~TG~k 79 (134)
T COG5122 2 AVEQFFIINKSGGLIFQREFGEGETELNSNEYLILASTLHGVSAILTQTIPLP--GSSGRLVLYFRNFVMTIFQTTTGTK 79 (134)
T ss_pred ceeEEEEEecCCcEEEEEeccCCccccCcccEEEEeechhhhhhhhhhcccCC--CCCceEEEEeccEEEEEEEecCCcE
Confidence 36899999999999999999654332 0 1122333333211 111112344443 457888899999
Q ss_pred EEEEe-cCCCCHHHHHHHHHHHHHHHHHHhc
Q 021018 70 LMAAS-RQNCNAASILLFLHRVADVFKHYFE 99 (318)
Q Consensus 70 ~v~v~-~~~~n~l~~l~~L~~i~~~l~~y~~ 99 (318)
||+++ +...|.++- |+++..+..+|.-
T Consensus 80 FV~~~~k~t~na~~q---l~kiY~lYsdYV~ 107 (134)
T COG5122 80 FVFVAEKRTVNALFQ---LQKIYSLYSDYVT 107 (134)
T ss_pred EEEEecCCchhHHHH---HHHHHHHHHHHhh
Confidence 99999 444565443 6778888777764
No 19
>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=92.08 E-value=6.6 Score=36.21 Aligned_cols=115 Identities=15% Similarity=0.238 Sum_probs=62.8
Q ss_pred EEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEeeCC-------CCeEEEEeccchhhhhccCCCCCcceecccccccccc
Q 021018 173 VFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSG-------MPECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFHQCV 245 (318)
Q Consensus 173 i~vdv~E~i~~~~~~~G~v~~~~v~G~i~~~s~LsG-------~P~~~l~ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV 245 (318)
+-..|.|.|||.+. +|.+.++.|.|+|.+. |..| .+.+.+.|+.... |+.+.-.+..
T Consensus 3 l~asi~E~VnA~Fk-~g~~~~v~v~GEv~ls-~~~~~~~~~~~~~~l~~rl~n~~~--------------le~i~pN~~~ 66 (257)
T PF10291_consen 3 LNASITETVNAYFK-GGQLSKVKVTGEVALS-YPAGISSSLTSPPPLSFRLNNFSR--------------LEKIAPNPQF 66 (257)
T ss_dssp EEEEEEEEEEEEEE-TTEEEEEEEEEEEEEE-EE--SSS-----SEEEEEEETGGG--------------EEEEEE-TTT
T ss_pred eeEEEEEEEEEEEE-CCcEEEEEEEEEEEEe-cCCChhhcccCCCcEEEEEcCcch--------------hceeecCHhH
Confidence 55789999999985 5788899999998875 4433 3456777765532 2222221111
Q ss_pred ccccccCCceEEeeCCC--Cce--EEEEEEeecC----CCCeEEEEEEEEEcCceEEEEEEEEeecC
Q 021018 246 RLARFENDRTISFIPPD--GSF--DLMTYRLSTQ----VKPLIWVEAQIERHSRSRIEIMVKARSQF 304 (318)
Q Consensus 246 ~~~~f~~~~~i~F~PPd--g~f--~Lm~Y~~~~~----~~~P~~v~~~~~~~~~~~~~~~i~l~~~~ 304 (318)
=...-.++....|.++. ... ..++|++... ..+|+.+.+.-+-. +.+.++.|..+.|-
T Consensus 67 v~~~~~~~~~f~~n~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e-~~~tsl~l~Y~~Np 132 (257)
T PF10291_consen 67 VSSSSQSDGEFWLNMSALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCE-PSQTSLILDYKLNP 132 (257)
T ss_dssp E--EEEETTEEEE-TTTTBT-E-EEEEEEEEES--------SEEEEEEEEE--SSEEEEEEEEEE-T
T ss_pred eecCCCCCCcEEEehHHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeC-CceEEEEEEEEeCh
Confidence 10011122335555443 233 5799999763 57898887766553 33555666555554
No 20
>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=90.98 E-value=1.8 Score=32.39 Aligned_cols=49 Identities=6% Similarity=0.210 Sum_probs=42.8
Q ss_pred CEEEeCCEEEEEEEeCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHhc
Q 021018 51 PVVFDNGVTYMFIQHNNVYLMAASRQNCNAASILLFLHRVADVFKHYFE 99 (318)
Q Consensus 51 pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~~l~~L~~i~~~l~~y~~ 99 (318)
-.+..++..|.|...+++.++|+++.+-+.-.++.||+.+.+-...-++
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 4677888888888899999999999999999999999999988887776
No 21
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.29 E-value=11 Score=33.23 Aligned_cols=88 Identities=13% Similarity=0.223 Sum_probs=62.3
Q ss_pred EEEcCCCCEEEEEccCCCCC-hHHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCCEEEEEEecCCCCHHHHHHHH
Q 021018 9 FLLDIKGRVLIWRDYRGDVS-AIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAASILLFL 87 (318)
Q Consensus 9 ~Iln~~G~~ll~r~y~~~~~-~~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~~l~~L 87 (318)
|=+=.+|.++++.+-.-..+ .++.+....++... ++..--+.+|++.|-|.+.+++.++|+++.+..-...+.||
T Consensus 5 Ys~VARGTvvLaeft~~~gNf~sva~qiL~klp~~----~n~k~tYs~d~y~Fh~l~~dg~tylcvadds~gR~ipfaFL 80 (217)
T KOG0859|consen 5 YSFVARGTVILAEFTEFSGNFSSIAAQILQKLPSS----SNSKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAFL 80 (217)
T ss_pred EEEEecceEEEEeeeeccCCHHHHHHHHHHhCCCC----CCCceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHHH
Confidence 33447999999976432111 23444444444432 12245677899999999999999999999888888899999
Q ss_pred HHHHHHHHHHhcc
Q 021018 88 HRVADVFKHYFEE 100 (318)
Q Consensus 88 ~~i~~~l~~y~~~ 100 (318)
+++.+=...-+|.
T Consensus 81 e~Ik~~F~k~YG~ 93 (217)
T KOG0859|consen 81 ERIKEDFKKRYGG 93 (217)
T ss_pred HHHHHHHHHHhcc
Confidence 9998877666665
No 22
>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=89.05 E-value=12 Score=31.29 Aligned_cols=93 Identities=11% Similarity=0.218 Sum_probs=53.9
Q ss_pred eeEEEEEcCCCCEEEEEccCCCC-------ChH----------HHHHHHHHhhcccCCCC--CCC--CEEEeCCEEE-EE
Q 021018 5 ASALFLLDIKGRVLIWRDYRGDV-------SAI----------QAERFFTKFIEKEGDPQ--SQN--PVVFDNGVTY-MF 62 (318)
Q Consensus 5 I~~i~Iln~~G~~ll~r~y~~~~-------~~~----------~~~~f~~~i~~~~~~~~--~~~--pvi~~~~~~~-v~ 62 (318)
|.+++|+|+.|..+++|.|.... ..+ .+.+|..++........ ... -.+..+.... +|
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 67899999999999999997543 111 22344444443211100 011 2445666654 45
Q ss_pred EEeCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHh
Q 021018 63 IQHNNVYLMAASRQNCNAASILLFLHRVADVFKHYF 98 (318)
Q Consensus 63 ~~~~~ly~v~v~~~~~n~l~~l~~L~~i~~~l~~y~ 98 (318)
....++-||++++.+... ..-.+++.+.++.-+|.
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 667899999999988854 34457788888888776
No 23
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.01 E-value=9.2 Score=38.42 Aligned_cols=114 Identities=15% Similarity=0.123 Sum_probs=73.3
Q ss_pred ceeEEEEEcCCCCEEEEEccCCCCChHHHHHHHHHhhcccCCCCCCCCEEEeCCEEEEEEEeCC--EEEEEEecCCCCHH
Q 021018 4 AASALFLLDIKGRVLIWRDYRGDVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQHNN--VYLMAASRQNCNAA 81 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~~~~~~~~~~f~~~i~~~~~~~~~~~pvi~~~~~~~v~~~~~~--ly~v~v~~~~~n~l 81 (318)
||..|.|+++.|.+|..+.=.++.-...+..|.+.++.....+ ... +..+-.+.=|...|+ +.|+++-..--+-.
T Consensus 1 Mld~faIFtkgG~vLw~~~~~~~~~~~~in~lI~~~ll~er~~-~~~--~~~~~yTlk~q~~N~~~lvfvvvfqki~~L~ 77 (587)
T KOG0781|consen 1 MLDQFAIFTKGGLVLWCYQEVGDNLKGPINALIRSVLLSERGG-VNS--FTFEAYTLKYQLDNQYSLVFVVVFQKILTLT 77 (587)
T ss_pred CcceeeeecCCcEEEEEecccchhccchHHHHHHHHHHHhhcC-ccc--CchhheeEeeeecCCccEEEEEEEeccchhh
Confidence 8999999999999988754433322334566776666432111 111 555666666766664 56666666555556
Q ss_pred HHHHHHHHHHHHHHHHhccccHHHHhhhHH-HHHHHHHHH
Q 021018 82 SILLFLHRVADVFKHYFEELEEESLRDNFV-VVYELLDEI 120 (318)
Q Consensus 82 ~~l~~L~~i~~~l~~y~~~l~e~~I~~N~~-~v~~lLDE~ 120 (318)
.+-.+|....++..+-|+..+-..++.|++ +..++|++-
T Consensus 78 yv~~ll~~v~~~f~e~~~~~~~~~l~~n~~~~~~e~lk~r 117 (587)
T KOG0781|consen 78 YVDKLLNDVLNLFREKYDTQSALSLLNNTFDFQEELLKLR 117 (587)
T ss_pred hHHHHHHHHHHHHHHHhccchHHHhhhhhHHHHHHHHHHh
Confidence 666777777777777777777777888855 455555544
No 24
>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=81.35 E-value=30 Score=28.84 Aligned_cols=73 Identities=18% Similarity=0.293 Sum_probs=38.7
Q ss_pred ceeEEEEEcCCCCEEEEEccCC-CCChHHHHHHHHHhhcccCCCC---CCCCEEE-------eCCEEEEEE--EeCCEEE
Q 021018 4 AASALFLLDIKGRVLIWRDYRG-DVSAIQAERFFTKFIEKEGDPQ---SQNPVVF-------DNGVTYMFI--QHNNVYL 70 (318)
Q Consensus 4 MI~~i~Iln~~G~~ll~r~y~~-~~~~~~~~~f~~~i~~~~~~~~---~~~pvi~-------~~~~~~v~~--~~~~ly~ 70 (318)
||..+.|.+.+|+++++..=-+ ......+.+|..++++.+.... ...-+.. .++..+.|. +.-.|||
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 8999999999999999955332 2223466789999987543111 1122333 336666554 4458999
Q ss_pred EEEecC
Q 021018 71 MAASRQ 76 (318)
Q Consensus 71 v~v~~~ 76 (318)
|++-.+
T Consensus 81 VvTyae 86 (148)
T PF09201_consen 81 VVTYAE 86 (148)
T ss_dssp EEEESS
T ss_pred EEEecc
Confidence 988764
No 25
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=72.75 E-value=51 Score=28.64 Aligned_cols=46 Identities=9% Similarity=0.192 Sum_probs=34.4
Q ss_pred EEEeCC-EEEEEEEeCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHhc
Q 021018 52 VVFDNG-VTYMFIQHNNVYLMAASRQNCNAASILLFLHRVADVFKHYFE 99 (318)
Q Consensus 52 vi~~~~-~~~v~~~~~~ly~v~v~~~~~n~l~~l~~L~~i~~~l~~y~~ 99 (318)
+++.+. .-++|+...++=||++++... ..+=.+|.++.++..+|.=
T Consensus 125 ~LetdtF~l~~~QTlTG~KFVvis~~~~--~~aD~lLrKiYelYsDyvl 171 (199)
T KOG3369|consen 125 VLETDTFTLHIFQTLTGTKFVVIAEPGT--QGADSLLRKIYELYSDYVL 171 (199)
T ss_pred EEEeccEEEEEEEccCCcEEEEEecCCc--hhHHHHHHHHHHHHHHHhh
Confidence 444454 357889999999999987665 3445688999999888864
No 26
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=58.64 E-value=1.4e+02 Score=26.89 Aligned_cols=49 Identities=10% Similarity=0.249 Sum_probs=43.6
Q ss_pred EEEeCCEEEEEEEeCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHhcc
Q 021018 52 VVFDNGVTYMFIQHNNVYLMAASRQNCNAASILLFLHRVADVFKHYFEE 100 (318)
Q Consensus 52 vi~~~~~~~v~~~~~~ly~v~v~~~~~n~l~~l~~L~~i~~~l~~y~~~ 100 (318)
-++.++..|.|...+++.+.++++.+-+--+++.+|+.+.+-+..-++.
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 4566779999999999999999999999999999999999988887764
No 27
>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]
Probab=33.18 E-value=1.1e+02 Score=29.17 Aligned_cols=88 Identities=17% Similarity=0.213 Sum_probs=61.5
Q ss_pred eEEEEEccCCcEEEEEEEEEEEEEEeeCCCCeEEEEeccchhhhhccCCCCCcceeccccccccccc-cccccCCceEEe
Q 021018 180 SVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFHQCVR-LARFENDRTISF 258 (318)
Q Consensus 180 ~i~~~~~~~G~v~~~~v~G~i~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV~-~~~f~~~~~i~F 258 (318)
.|.+..+++|. ....|.|++.+..--.|+|.-.+.|.-....+. ...+-.-+.++.|||--. +..-.++..++|
T Consensus 203 ~va~f~d~~~~-alGsiEGrv~iq~id~~~~~~nFtFkCHR~~~~----~~~~VYaVNsi~FhP~hgtlvTaGsDGtf~F 277 (347)
T KOG0647|consen 203 CVACFQDKDGF-ALGSIEGRVAIQYIDDPNPKDNFTFKCHRSTNS----VNDDVYAVNSIAFHPVHGTLVTAGSDGTFSF 277 (347)
T ss_pred EEEEEecCCce-EeeeecceEEEEecCCCCccCceeEEEeccCCC----CCCceEEecceEeecccceEEEecCCceEEE
Confidence 56777888888 778899999999999999987887766531111 111223467899999221 123346788888
Q ss_pred eCCCCceEEEEEEe
Q 021018 259 IPPDGSFDLMTYRL 272 (318)
Q Consensus 259 ~PPdg~f~Lm~Y~~ 272 (318)
-.-|.+-.|..|..
T Consensus 278 WDkdar~kLk~s~~ 291 (347)
T KOG0647|consen 278 WDKDARTKLKTSET 291 (347)
T ss_pred ecchhhhhhhccCc
Confidence 88888888877764
No 28
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.72 E-value=3.4e+02 Score=22.53 Aligned_cols=90 Identities=11% Similarity=0.242 Sum_probs=50.0
Q ss_pred cceeEEEEEcCCCCEEEEEccCCCCC----hH-----------HHHHHHHHhhcccCCCCCCCCEEEe--CCEEEEEE-E
Q 021018 3 GAASALFLLDIKGRVLIWRDYRGDVS----AI-----------QAERFFTKFIEKEGDPQSQNPVVFD--NGVTYMFI-Q 64 (318)
Q Consensus 3 ~MI~~i~Iln~~G~~ll~r~y~~~~~----~~-----------~~~~f~~~i~~~~~~~~~~~pvi~~--~~~~~v~~-~ 64 (318)
|.|-+++|.|++|..|+.+.|..... .. .+..|..++.... ....+..+ .....-|. .
T Consensus 1 Mtiy~~yIFdR~g~Cl~y~EW~r~~~s~~~~eee~KL~yGmlFSlkS~v~Kls~~d----~k~~f~sy~Ts~YklhfyeT 76 (140)
T KOG3368|consen 1 MTIYNFYIFDRNGVCLFYREWNRTKQSGIPNEEEAKLMYGMLFSLKSFVSKLSPGD----VKDGFLSYKTSKYKLHFYET 76 (140)
T ss_pred CeEEEEEEEcCCccEEEehhcccccccCCchhHHHHHHHHHHhhHHHHHHhcCCCC----cccCeeEEeeceeEEEEEEc
Confidence 35889999999999999977743211 11 1223334333321 11223333 33333333 3
Q ss_pred eCCEEEEEEecCCCCHHHHHHHHHHHHH-HHHHHh
Q 021018 65 HNNVYLMAASRQNCNAASILLFLHRVAD-VFKHYF 98 (318)
Q Consensus 65 ~~~ly~v~v~~~~~n~l~~l~~L~~i~~-~l~~y~ 98 (318)
-.+|.|+..++..... +=+.||.|.. +--+|.
T Consensus 77 ptglk~vl~Tdpk~~~--ir~vLq~IYs~lyVE~V 109 (140)
T KOG3368|consen 77 PTGLKFVLNTDPKAGS--IRDVLQYIYSHLYVEYV 109 (140)
T ss_pred CCCcEEEEecCCCccc--HHHHHHHHHHHHHHHHH
Confidence 3589999999877643 3345666655 333333
No 29
>KOG1766 consensus Enhancer of rudimentary [General function prediction only]
Probab=23.65 E-value=1.1e+02 Score=23.94 Aligned_cols=43 Identities=9% Similarity=0.369 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHhcc--ccHHHHhhhHHHHHHHHHHHhcCC
Q 021018 82 SILLFLHRVADVFKHYFEE--LEEESLRDNFVVVYELLDEIMDFG 124 (318)
Q Consensus 82 ~~l~~L~~i~~~l~~y~~~--l~e~~I~~N~~~v~~lLDE~id~G 124 (318)
.+-+.+..+..+.++++++ -+...|-.....+|+.+|.+.|-.
T Consensus 24 sv~e~megiCk~yEe~Lkk~nPs~~~ITYDIsqlfeFiD~L~DlS 68 (104)
T KOG1766|consen 24 SVTECMEGICKMYEEHLKKKNPSAPPITYDISQLFEFIDDLADLS 68 (104)
T ss_pred hHHHHHHHHHHHHHHHHHhcCCCCCCcceeHHHHHHHHHHHhhhh
Confidence 3567788889999999987 366778889999999999998764
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=21.30 E-value=4.1e+02 Score=20.79 Aligned_cols=87 Identities=9% Similarity=0.104 Sum_probs=49.4
Q ss_pred eeEEEEEcCCCCEEEEEccCCCCChHHHHHHHHHhhcccCCCCCCCCEEEeCCE-------------------EEEEEEe
Q 021018 5 ASALFLLDIKGRVLIWRDYRGDVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGV-------------------TYMFIQH 65 (318)
Q Consensus 5 I~~i~Iln~~G~~ll~r~y~~~~~~~~~~~f~~~i~~~~~~~~~~~pvi~~~~~-------------------~~v~~~~ 65 (318)
+....|++.+|.+..+.---...+...+..+...+...... ...-|.++|. -++-.+.
T Consensus 16 ~~~aaI~~~dG~vwA~s~~f~~~~~~E~~~i~~~f~~~~~~---~~~gi~l~G~kY~~~~~d~~~i~~k~~~~G~~i~kt 92 (121)
T PF00235_consen 16 ITKAAIIGSDGSVWASSPGFSNISPEEAKAIIKAFNNPSKF---PSNGITLGGKKYIVLRADDNSIYGKKGKGGIIIVKT 92 (121)
T ss_dssp ESEEEEEETTSSEEEEETTGGGCSHHHHHHHHHHHHSSSHH---HHH-EEETTEEEEEEEEETTEEEEEETTEEEEEEEC
T ss_pred EeEEEEEcCCCCEEEecCCCCCCCHHHHHHHHHHhcCchhc---ccCCeEEcCcEeEEEecCCceEEeeCCCCcEEEEEC
Confidence 56778888999877764321012333333344433322100 0011222232 3444455
Q ss_pred CCEEEEEEecCCCCHHHHHHHHHHHHHHH
Q 021018 66 NNVYLMAASRQNCNAASILLFLHRVADVF 94 (318)
Q Consensus 66 ~~ly~v~v~~~~~n~l~~l~~L~~i~~~l 94 (318)
+..++|++.+.+.+|-.+.....++++.|
T Consensus 93 ~~~ivIg~y~~~~~~~~~~~~v~~lA~yL 121 (121)
T PF00235_consen 93 KQAIVIGMYDESIQPGNCNKAVEKLADYL 121 (121)
T ss_dssp SSEEEEEEEETTSTHHHHHHHHHHHHHHH
T ss_pred CCEEEEEEeCCCCCHHHHHHHHHHHHhhC
Confidence 56788888888899999988888888765
No 31
>PF03392 OS-D: Insect pheromone-binding family, A10/OS-D; InterPro: IPR005055 A class of small (14-20 Kd) water-soluble proteins, called odorant binding proteins (OBPs), first discovered in the insect sensillar lymph but also in the mucus of vertebrates, is postulated to mediate the solubilisation of hydrophobic odorant molecules, and thereby to facilitate their transport to the receptor neurons. The product of a gene expressed in the olfactory system of Drosophila melanogaster (Fruit fly), OS-D, shares features common to vertebrate odorant-binding proteins, but has a primary structure unlike odorant-binding proteins []. OS-D derivatives have subsequently been found in chemosensory organs of phylogenetically distinct insects, including cockroaches, phasmids and moths, suggesting that OS-D-like proteins seem to be conserved in the insect phylum.; PDB: 1KX9_A 1N8U_A 1KX8_A 1K19_A 1N8V_A 2GVS_A 2JNT_A.
Probab=21.24 E-value=1.1e+02 Score=23.81 Aligned_cols=42 Identities=21% Similarity=0.396 Sum_probs=33.5
Q ss_pred hccccHHHHhhhHHHHHHHHHHHhcCCeeeeechhhHHHhhhc
Q 021018 98 FEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIKT 140 (318)
Q Consensus 98 ~~~l~e~~I~~N~~~v~~lLDE~id~G~p~~t~~~~L~~~I~~ 140 (318)
++.++-+.|+.|=.++-..++-++|-| |..-+...|+..++.
T Consensus 5 yD~iDvd~iL~N~rl~~~y~~Clldkg-pCt~~~~~lK~~ipe 46 (95)
T PF03392_consen 5 YDNIDVDEILKNDRLLKSYIDCLLDKG-PCTPEGKELKKVIPE 46 (95)
T ss_dssp TTSSCHHHHHH-HHHHHHHHHHHTSSS-TSHHHHHHHHHHHHH
T ss_pred ccccCHHHHHcCHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHH
Confidence 456888999999999999999999999 775566777777653
No 32
>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=20.15 E-value=1.5e+02 Score=22.70 Aligned_cols=21 Identities=24% Similarity=-0.040 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHhcCCeeeeec
Q 021018 110 FVVVYELLDEIMDFGFPQFTE 130 (318)
Q Consensus 110 ~~~v~~lLDE~id~G~p~~t~ 130 (318)
-..|...++++++.|++..|-
T Consensus 79 ~~~v~~al~~L~~eG~IYsTi 99 (102)
T PF08784_consen 79 ENEVRKALDFLSNEGHIYSTI 99 (102)
T ss_dssp HHHHHHHHHHHHHTTSEEESS
T ss_pred HHHHHHHHHHHHhCCeEeccc
Confidence 467899999999999999874
Done!