Query 014292
Match_columns 427
No_of_seqs 169 out of 1307
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 03:43:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014292.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014292hhsearch_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 1.3E-96 3E-101 688.0 38.5 409 1-426 1-446 (446)
2 KOG2740 Clathrin-associated pr 100.0 4.3E-86 9.4E-91 623.3 35.5 413 1-427 1-418 (418)
3 KOG0937 Adaptor complexes medi 100.0 2.5E-80 5.5E-85 604.4 40.2 401 2-427 1-424 (424)
4 PF00928 Adap_comp_sub: Adapto 100.0 1.3E-58 2.7E-63 445.5 30.6 247 167-427 1-262 (262)
5 KOG2635 Medium subunit of clat 100.0 2.5E-38 5.4E-43 305.9 34.4 401 1-425 2-511 (512)
6 KOG2677 Stoned B synaptic vesi 100.0 1.4E-32 3.1E-37 275.1 6.1 236 174-426 582-890 (922)
7 PF01217 Clat_adaptor_s: Clath 99.9 3E-26 6.4E-31 200.1 15.8 134 1-138 1-138 (141)
8 COG5030 APS2 Clathrin adaptor 99.8 8.7E-21 1.9E-25 157.3 11.9 133 1-135 1-135 (152)
9 KOG3343 Vesicle coat complex C 99.8 1.9E-18 4.1E-23 146.6 11.7 139 2-142 9-150 (175)
10 KOG0935 Clathrin adaptor compl 99.8 1.9E-18 4.1E-23 139.5 10.2 135 1-136 1-137 (143)
11 KOG0934 Clathrin adaptor compl 99.8 5.1E-19 1.1E-23 146.7 6.9 128 1-130 1-130 (145)
12 KOG0936 Clathrin adaptor compl 99.7 1E-17 2.2E-22 140.9 10.0 140 1-142 1-148 (182)
13 COG5541 RET3 Vesicle coat comp 99.4 3.6E-13 7.8E-18 114.1 8.6 138 2-140 8-155 (187)
14 PF10291 muHD: Muniscin C-term 99.2 3.7E-09 8.1E-14 101.1 23.8 224 181-425 3-256 (257)
15 PF15001 AP-5_subunit_s1: AP-5 96.4 0.052 1.1E-06 49.2 11.4 79 55-133 104-183 (189)
16 PF03164 Mon1: Trafficking pro 94.0 0.44 9.5E-06 49.0 10.7 89 3-95 12-103 (415)
17 KOG0997 Uncharacterized conser 91.0 0.94 2E-05 46.5 8.1 100 3-109 118-226 (523)
18 PF13774 Longin: Regulated-SNA 90.2 2.7 5.9E-05 32.6 8.7 48 49-96 18-65 (83)
19 PF08923 MAPKK1_Int: Mitogen-a 89.9 7.3 0.00016 32.8 11.4 90 2-93 17-114 (119)
20 KOG0859 Synaptobrevin/VAMP-lik 87.3 22 0.00047 32.5 13.1 89 6-98 5-94 (217)
21 COG5122 TRS23 Transport protei 87.3 9.1 0.0002 31.6 9.7 90 2-96 3-107 (134)
22 PF04099 Sybindin: Sybindin-li 86.3 12 0.00025 32.5 10.8 92 2-95 1-115 (142)
23 KOG0781 Signal recognition par 82.3 20 0.00043 37.4 11.8 112 1-115 1-115 (587)
24 PF09201 SRX: SRX; InterPro: 79.9 7.9 0.00017 33.2 6.8 73 1-73 1-86 (148)
25 PF03504 Chlam_OMP6: Chlamydia 69.4 31 0.00066 26.9 7.0 44 312-359 41-85 (95)
26 TIGR01451 B_ant_repeat conserv 51.6 47 0.001 23.4 5.1 32 298-329 11-42 (53)
27 KOG0862 Synaptobrevin/VAMP-lik 50.4 59 0.0013 30.2 6.7 48 50-97 54-101 (216)
28 KOG3368 Transport protein part 38.9 2.5E+02 0.0054 24.0 10.3 83 2-89 3-102 (140)
29 KOG3369 Transport protein part 30.6 56 0.0012 29.3 3.2 29 2-33 3-31 (199)
30 PRK06764 hypothetical protein; 27.5 1.9E+02 0.0042 22.7 5.3 48 379-426 41-89 (105)
31 PF01345 DUF11: Domain of unkn 24.5 1.7E+02 0.0036 21.8 4.7 32 298-329 40-71 (76)
32 PF10633 NPCBM_assoc: NPCBM-as 21.5 1.6E+02 0.0034 22.2 4.0 32 298-329 4-35 (78)
33 PF08784 RPA_C: Replication pr 21.3 1.4E+02 0.0031 23.7 3.9 21 107-127 79-99 (102)
34 KOG0861 SNARE protein YKT6, sy 20.6 6.4E+02 0.014 22.8 8.4 34 58-94 68-101 (198)
No 1
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.3e-96 Score=688.04 Aligned_cols=409 Identities=29% Similarity=0.527 Sum_probs=372.5
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhHH
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMG 80 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~~ 80 (427)
||+++||+|.+|++++.|.||+ ++.++..|.|+.++++.. +..+|+...++..++|.+.++||+++++..|.|.+++
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 MISGLFIYNLRGEVLINKTFRD-DLKRSIVDIFRVQVINNL--DVRSPVLTIGSTTFHHIRSSNLWLVAITKSNANVAAV 77 (446)
T ss_pred CcceEEEEeccCcEEEehhhhh-hhhhhHHHHHHHhhhhcc--ccCCCeeEecceeEEEEeeccEEEEEEecCCCchhhH
Confidence 9999999999999999999999 999999999999999863 4678999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCCccccccc--ccccCCCCCccCC
Q 014292 81 IEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKML--SVVTGNSSNVSDI 158 (427)
Q Consensus 81 ~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~~~~~k~~--~~~~g~~~~~~~~ 158 (427)
++||..+.+++..|||+++|+.|++||.+|||+||||+|+|+||+|++++|+..+..++.-++.- +......++....
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 99999999999999999999999999999999999999999999999999999999987644311 1101111122212
Q ss_pred CCCCCCcCCcccCCCCCcccceEEEEEEEeEeEEEecccccccccccCCCCcEEEEEEEEEEEEEEeecCCCeEEEEecC
Q 014292 159 LPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 238 (427)
Q Consensus 159 ~~~~~~~~~~WR~~~~~~~~nei~vdv~E~i~~~~~~~~~~~~~~~~~~~g~~~~~~i~G~i~~~s~LsG~P~~~l~ln~ 238 (427)
..+..+..++||+.|++|++||+|+||.|++|.+++ ++|++++++|+|.|.|+|+|||||+|+++|||
T Consensus 158 ~ssqv~G~i~WRr~Gi~ykknevfldvvErvNlLmS------------~~GnVLrs~VsG~V~mk~~LSGmPeckfGlND 225 (446)
T KOG0938|consen 158 RSSQVTGKIGWRREGIKYKKNEVFLDVVERVNLLMS------------SDGNVLRSDVSGTVDMKTHLSGMPECKFGLND 225 (446)
T ss_pred cccccccccccccccceeccceeEeEehheeeeEEc------------CCCCEEEeecccEEEEEEeccCCcccccccCc
Confidence 224557789999999999999999999999999999 99999999999999999999999999999998
Q ss_pred CC---------------------------ccccceecceeecCCcCCCceEEEeCCCCeEEEEEEEecCCCCCCEEEEEE
Q 014292 239 PS---------------------------ILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQ 291 (427)
Q Consensus 239 ~~---------------------------~l~~~~fH~cV~~~~~~~~~~l~F~PPdG~f~L~~Y~~~~~~~~P~~v~~~ 291 (427)
.. .|+||+||+||++++|++++.|+|+||||+|+||+||+..+.++||+|.|.
T Consensus 226 kl~~e~kq~esks~~~n~~~~sks~~g~v~leDc~FHqCV~L~kFn~eh~IsFvPPDGe~ELMkYr~~enInlPFrV~Pi 305 (446)
T KOG0938|consen 226 KLGMESKQSESKSDFGNKNFPSKSGKGSVLLEDCTFHQCVRLDKFNSEHIISFVPPDGEFELMKYRVTENINLPFRVTPI 305 (446)
T ss_pred ccceeeccccccccccccCCCcccCCceEEeeccchheeeccccccccceEEEeCCCCceEeEeeeeccCcccceEeeeh
Confidence 73 299999999999999999999999999999999999999999999999999
Q ss_pred EEEcCCccEEEEEEEeecCCC--CceeeEEEEEeCCCCceeeEEEeccccceeEeC--cEEEEEeCCcCCCCceEEEEEE
Q 014292 292 LTSDAGTCRISVMVGIRNDPG--KTIDSIILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTM 367 (427)
Q Consensus 292 ~~~~~~~~~~ei~l~~~~~~~--~~~~~v~i~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~i 367 (427)
++. .+..++++++.+++.++ ..+.+|.++||+|+++..+.++++.|++ +|.+ ++++|+|++++|.+|.+++|++
T Consensus 306 V~e-l~r~kie~ri~iks~f~~kl~a~~v~~rIPvP~ntv~~n~~v~~Gka-ky~psen~ivWki~kf~G~tE~tlsAev 383 (446)
T KOG0938|consen 306 VTE-LGRTKIEYRITIKSLFPPKLLAKDVVVRIPVPPNTVKCNISVSNGKA-KYVPSENAIVWKINKFNGLTESTLSAEV 383 (446)
T ss_pred eec-ccceeEEEEEEEeccCCchhhhcceEEEecCCCccccceeEEecCcc-ccCcccceEEEEecccCCcccceeEEEE
Confidence 984 46799999999999874 3889999999999999999999999999 9999 9999999999999999999999
Q ss_pred EeecCC--CCCCCCCcEEEEEEECceeccccEEeEEEee--cCCCccccceEEEEecccEEEc
Q 014292 368 VLETGL--ETLRVFPTFQVEFRIMGVALSGLQIDKLDLQ--NVPNRLYKGFRAVTRAGEYEVR 426 (427)
Q Consensus 368 ~~~~~~--~~~~~~~~i~v~F~~~~~~~SGl~V~~l~v~--~~~~~~~k~vry~t~sg~y~iR 426 (427)
++.+.. ...|..|||+++|++||++.|||.|++++|. +++|+..|||||+|+||+||+|
T Consensus 384 els~Tt~nkq~WtrPPIsleFeV~MFt~SGL~VrylkV~e~~Sk~~~vkWVrYitkaGsyEiR 446 (446)
T KOG0938|consen 384 ELSDTTQNKQQWTRPPISLEFEVPMFTNSGLVVRYLKVSEKDSKHRAVKWVRYITKAGSYEIR 446 (446)
T ss_pred EeccCccccccccCCCceeEEeeeeecCCceEEEEEEEecccCCCceEEEEEEecccceeeeC
Confidence 996543 3458899999999999999999999999994 4689999999999999999998
No 2
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.3e-86 Score=623.32 Aligned_cols=413 Identities=51% Similarity=0.859 Sum_probs=388.5
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhHH
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMG 80 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~~ 80 (427)
||.+||++|.+|++++++.+++....|+.++-|++.-....+.++.+|++....+|++.+-++++||++++..+.+||++
T Consensus 1 mi~siflidtsg~l~lek~~~g~t~~rsic~~f~e~~~~~~~~e~~ppvi~~p~hylfsv~~~~i~~~~~st~e~pPL~~ 80 (418)
T KOG2740|consen 1 MILSIFLIDTSGDLLLEKHLKGSTVVRSICDYFFEDQSSDDDLEHVPPVISTPHHYLFSVYRDLIFFCAVSTVETPPLMV 80 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCCceeeeehHHHHHHhhhhccccccCCceecCCceeeeeeeccCcEEEEEEeccCCChhH
Confidence 99999999999999999999963667999999998877765666788899889999998889999999999999999999
Q ss_pred HHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCCcccccccccccCCCCCccCCCC
Q 014292 81 IEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILP 160 (427)
Q Consensus 81 ~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~~~~~k~~~~~~g~~~~~~~~~~ 160 (427)
++|||++++++.+|||+++|.+|++|+..||++||||+|+|+|..||+|.||++|+.++++++.++.++| ++|++.++|
T Consensus 81 iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~NiLke~i~pps~l~~~~~svTg-~~n~~~~lP 159 (418)
T KOG2740|consen 81 IEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEPNILKELIPPPSFLSKKFNSVTG-NSNVSDTLP 159 (418)
T ss_pred HHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccChhHHHhhcCChHHHHHHHhhhhc-cccccccCC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999 789999999
Q ss_pred CCCCcCCcccCCCCCcccceEEEEEEEeEeEEEecccccccccccCCCCcEEEEEEEEEEEEEEeecCCCeEEEEecCCC
Q 014292 161 GATASCVPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 240 (427)
Q Consensus 161 ~~~~~~~~WR~~~~~~~~nei~vdv~E~i~~~~~~~~~~~~~~~~~~~g~~~~~~i~G~i~~~s~LsG~P~~~l~ln~~~ 240 (427)
....+.+|||+.+.||++||.||||.|+++|+++ ++|..+.++|.|.|.|+|.|+|||++.|+|+++.
T Consensus 160 tg~~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~------------k~gslv~~eI~g~vd~~~qLsgmPdltlsl~np~ 227 (418)
T KOG2740|consen 160 TGALSNVPWRTAGVKYTNNEAYVDVLEEIDAIVD------------KKGSLVFGEIQGIVDVCSQLSGMPDLTLSLNNPR 227 (418)
T ss_pred CcccccccccccCcccccchhhhhhhheeheEec------------CCCCEEEEEEEEEEEEEEeecCCCceEEEccCcc
Confidence 9999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred ccccceecceeecCCcCCCceEEEeCCCCeEEEEEEEecC--CCCCCEEEEEEEEEcCCc-cEEEEEEEeecCCCCceee
Q 014292 241 ILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKK--LKSTPIYVKPQLTSDAGT-CRISVMVGIRNDPGKTIDS 317 (427)
Q Consensus 241 ~l~~~~fH~cV~~~~~~~~~~l~F~PPdG~f~L~~Y~~~~--~~~~P~~v~~~~~~~~~~-~~~ei~l~~~~~~~~~~~~ 317 (427)
.|+|++|||||+..+|++++.|+|+||||+|+||+|+++. ....|+.|+.+++...+. ++++++++.+....+.++-
T Consensus 228 ~L~dvsfHpcVr~krwe~~~~lsFIPPDGkFrLlsy~v~~~~~v~~pvyv~~~i~l~~~~~~ri~~tvg~~~~~gK~ie~ 307 (418)
T KOG2740|consen 228 LLGDVSFHPCVRYKRWESHSVLSFIPPDGKFRLLSYRVDAQNQVAIPVYVKNSISLDSNHQGRISLTVGPKKKMGKTIEL 307 (418)
T ss_pred ccCCcccccceeecccccccceEEcCCCCcEEEEEEEEehhhccccceEEeeeeccCCCceEEEEEeccccccccceeEe
Confidence 9999999999999999999999999999999999999986 467899999999987654 5666666666667789999
Q ss_pred EEEEEeCCCCceeeEEEeccccceeEeC--cEEEEEeCCcCCCCceEEEEEEEeecCCCCCCCCCcEEEEEEECceeccc
Q 014292 318 IILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLETLRVFPTFQVEFRIMGVALSG 395 (427)
Q Consensus 318 v~i~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~i~~~~~~~~~~~~~~i~v~F~~~~~~~SG 395 (427)
+.|++..|+.+......+++|+. .++. +.+.|.++++..+..++|+|+++++++.....+++.++++|++.|.++||
T Consensus 308 itVt~~~pn~i~~~~k~~~~g~~-~~~~~~k~l~W~~~~i~tg~lp~Lkg~~~~e~~~sk~~~l~t~~Lqykiqg~alsg 386 (418)
T KOG2740|consen 308 ITVTVQDPNEIAYASKILTHGTF-TNSIIMKQLTWTFGSIATGKLPVLKGTINLEPGFSKKVDLPTLSLQYKIQGQALSG 386 (418)
T ss_pred EEEEecCccceeeeeccccccee-EeecccceeEEEeecccCCcccccccccccCCCCCccccCcccceeeeeeeeeccc
Confidence 99999999999999999999999 8888 99999999999999999999999998877888899999999999999999
Q ss_pred cEEeEEEeecCCCccccceEEEEecccEEEcC
Q 014292 396 LQIDKLDLQNVPNRLYKGFRAVTRAGEYEVRS 427 (427)
Q Consensus 396 l~V~~l~v~~~~~~~~k~vry~t~sg~y~iR~ 427 (427)
++|+.|++.+..|++||||||.|+||++++|+
T Consensus 387 lkVe~Ldm~~~~~k~yKGvKy~t~agnfqvR~ 418 (418)
T KOG2740|consen 387 LKVERLDMYGEPYKPYKGVKYKTKAGNFQVRL 418 (418)
T ss_pred eEEEeeeecCCCCccccceEEEEeeeeEEEeC
Confidence 99999999999999999999999999999996
No 3
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.5e-80 Score=604.37 Aligned_cols=401 Identities=29% Similarity=0.549 Sum_probs=360.7
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhHHH
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMGI 81 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~~~ 81 (427)
++++||+|.+|++|++|.||. +.+.+..+.|.+++......+..+|++..++..+.|.++++||+++++..|.+++.++
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 ASAVFILDHKGEVLISRDYRG-DVPMSSTEKFFRKLFEKEEGDESPPFLVHDGSRFIHIKHSNLYLVAGTRPNVSAALVL 79 (424)
T ss_pred CceEEEEcCCCcEeEeecccc-cCChhhhhhHHHHHhhhcccCCCCCeEEeCCceEEEEeecceEEEEEeccCCCHHHHH
Confidence 589999999999999999999 8999999999986665434456789999987777789999999999999999999999
Q ss_pred HHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCCcccccccccccCCCCCccCCCCC
Q 014292 82 EFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPG 161 (427)
Q Consensus 82 ~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~~~~~k~~~~~~g~~~~~~~~~~~ 161 (427)
+||+++++++.+||+.+.|+.++.|+.++||+|||++||||||.|++..|++++.+++. ++.. .+.+.|.
T Consensus 80 ~~l~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGypQ~t~s~iL~~yi~~~~~--~l~~--------~~~~~p~ 149 (424)
T KOG0937|consen 80 SFLYAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYPQTTDSEILKNYITQKAN--RLQD--------AQPRPPL 149 (424)
T ss_pred HHHHHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCcccchHHHHHHHhccccc--ceee--------cCCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999853 2211 1113456
Q ss_pred CCCcCCcccCCCCCcccceEEEEEEEeEeEEEecccccccccccCCCCcEEEEEEEEEEEEEEeecCCCeEEEEecCCC-
Q 014292 162 ATASCVPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS- 240 (427)
Q Consensus 162 ~~~~~~~WR~~~~~~~~nei~vdv~E~i~~~~~~~~~~~~~~~~~~~g~~~~~~i~G~i~~~s~LsG~P~~~l~ln~~~- 240 (427)
+.++++.||+.|++|+|||+|+||+|+|++.++ ++|.++.++|.|+|+|||+|+|||+++|+||+..
T Consensus 150 avtnavsWrs~gi~~~KnevflDViE~Vs~l~~------------~~G~vl~s~i~G~I~~k~~LsGmPelrl~ln~~~~ 217 (424)
T KOG0937|consen 150 AVTNAVSWRSEGIYYGKNEVFLDVIESVSLLYD------------SNGIVLLSEIVGTIKLKCYLSGMPELRLGLNDKVL 217 (424)
T ss_pred ccccceeecccccccccceEEEEhhhhhhHhhh------------cCCcEEEeeeeeEEEEEEEcCCCceeeeecCcccc
Confidence 678888999999999999999999999998899 9999999999999999999999999999999763
Q ss_pred -------------ccccceecceeecCCcCCCceEEEeCCCCeEEEEEEEecCCCCCCEEEEEEEEEcCCccEEEEEEEe
Q 014292 241 -------------ILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGI 307 (427)
Q Consensus 241 -------------~l~~~~fH~cV~~~~~~~~~~l~F~PPdG~f~L~~Y~~~~~~~~P~~v~~~~~~~~~~~~~ei~l~~ 307 (427)
.++|++||+||++++|+.+|.|+|+||||+|+||+||++....|++.+ +++....+..++++.+++
T Consensus 218 ~~~~~~~~~s~~v~ledi~fh~~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~vkPli~~-~~~~~~~~~~ri~i~~K~ 296 (424)
T KOG0937|consen 218 FDKQGPRSKSKGVELEDIKFHECVRLSRFDNDRTISFIPPDGEFELMRYRLSTHVKPLIWF-YQLIEEHSRSRIEVMVKL 296 (424)
T ss_pred cccccccccCcceEeeecccceeechhhccCCceEEecCCCCceEEEEEEecCCCCCeEEe-eeeeeeccceeEEEEEec
Confidence 478999999999999999999999999999999999999877744455 666655668899999999
Q ss_pred ecCCCC--ceeeEEEEEeCCCCceeeEEEeccccceeEeC--cEEEEEeCCcCCCCceEEEEEEEeecCCC-C--CCCCC
Q 014292 308 RNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLE-T--LRVFP 380 (427)
Q Consensus 308 ~~~~~~--~~~~v~i~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~i~~~~~~~-~--~~~~~ 380 (427)
++.+++ .+++|+|+||+|..+.++..+++.|++ +|.+ ++++|+|++++|+.+..+++++.+..... + ....+
T Consensus 297 ~~~fk~~~~a~~v~I~iP~P~~a~~~~fk~s~G~~-~~~~e~~~l~W~I~~~~gg~e~~~r~~~~lp~~~~e~~~~~~~~ 375 (424)
T KOG0937|consen 297 REQFKSRSSANNVEICIPVPDDASSPSFKTSLGSA-KYDPEKSALRWTIKKFVGGKEYSLRARMDLPSEEHEEQCTEGLG 375 (424)
T ss_pred hhhcCCccccceEEEEeeCCCccccceEeccCCce-eeecccceEEEEeccccCCceEEEEEeecCCccccCCCCcccCC
Confidence 988764 999999999999999999999999999 9988 99999999999999999999999965433 2 35689
Q ss_pred cEEEEEEECceeccccEEeEEEee--cCCCccccceEEEEecccEEEcC
Q 014292 381 TFQVEFRIMGVALSGLQIDKLDLQ--NVPNRLYKGFRAVTRAGEYEVRS 427 (427)
Q Consensus 381 ~i~v~F~~~~~~~SGl~V~~l~v~--~~~~~~~k~vry~t~sg~y~iR~ 427 (427)
|++|+|+||++|.||++|+++++. ..+|++.+||||.|+||.|++|.
T Consensus 376 pi~v~FeIp~~T~SgiqVrylki~ep~~~y~s~~WVRy~T~s~~Y~~r~ 424 (424)
T KOG0937|consen 376 PIKVKFEIPYFTVSGIQVRYLKIIEPKSQYQSLPWVRYNTQSGPYEIRV 424 (424)
T ss_pred ceEEEEEecccccCCeEEEEEEecccccCCCccceEEEEccCCceEeeC
Confidence 999999999999999999999994 46899999999999999999995
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=1.3e-58 Score=445.48 Aligned_cols=247 Identities=35% Similarity=0.715 Sum_probs=211.5
Q ss_pred CcccCCCCCcccceEEEEEEEeEeEEEecccccccccccCCCCcEEEEEEEEEEEEEEeecCCCeEEEEecCC-------
Q 014292 167 VPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANP------- 239 (427)
Q Consensus 167 ~~WR~~~~~~~~nei~vdv~E~i~~~~~~~~~~~~~~~~~~~g~~~~~~i~G~i~~~s~LsG~P~~~l~ln~~------- 239 (427)
+|||+.+++|++|||||||+|+|+|+++ ++|.++.++|.|+|.|+|+|+|+|+|+|+|+++
T Consensus 1 ~~wR~~~~~~~~nei~vdv~E~i~~~~~------------~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~~~~~ 68 (262)
T PF00928_consen 1 VPWRPSGIKYKKNEIFVDVVEKISAVLD------------RDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVVSKNG 68 (262)
T ss_dssp -TTS-STB--SSEEEEEEEEEEEEEEEE------------TTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCCTSSS
T ss_pred CCcccCCcccccceEEEEEEEEEEEEEc------------cCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCccccccCc
Confidence 6999999999999999999999999999 999999999999999999999999999999998
Q ss_pred CccccceecceeecCCcCCCceEEEeCCCCeEEEEEEEecCCCCCCEEEEEEEEEcCCccEEEEEEEeecCCCC--ceee
Q 014292 240 SILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDS 317 (427)
Q Consensus 240 ~~l~~~~fH~cV~~~~~~~~~~l~F~PPdG~f~L~~Y~~~~~~~~P~~v~~~~~~~~~~~~~ei~l~~~~~~~~--~~~~ 317 (427)
..++|++|||||++++|++++.|+|+||||+|+||+||++....+||.++|++.. .+++++++.++++++... .+++
T Consensus 69 ~~l~~~~fH~cV~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~-~~~~~~~v~i~~~~~~~~~~~~~~ 147 (262)
T PF00928_consen 69 IKLDDVSFHPCVDLSKFESDRVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSE-KSSGRFEVTIELESNFPNKISLEN 147 (262)
T ss_dssp BEESEEEEETTEECCCCCSHTEEEE---SEEEEEEEEEEESSS--SEEEEEEEEE-ETTTEEEEEEEEEE-S-TTSEEEE
T ss_pred eeeeceeeccccCccccccccceecCCCCceEEEEEEEccCCCCCCcEEEEEecc-CCCceEEEEEEecccCCCCceece
Confidence 6799999999999999999999999999999999999999888999999999997 457899999999977644 8999
Q ss_pred EEEEEeCCCCceeeEEEeccccceeEeC--cEEEEEeCCcCCCCceEEEEEEEeecCCCCCC--CCCcEEEEEEECceec
Q 014292 318 IILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLETLR--VFPTFQVEFRIMGVAL 393 (427)
Q Consensus 318 v~i~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~i~~~~~~~~~~--~~~~i~v~F~~~~~~~ 393 (427)
|.|+||+|+.+.++++.++.|++ +|+. +.++|+|++++++.+++++|++++......+. .++||+|+|++|++++
T Consensus 148 v~I~iplP~~~~~~~~~~~~G~~-~~~~~~~~l~W~I~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~pi~v~F~~~~~~~ 226 (262)
T PF00928_consen 148 VVIRIPLPPGTSSPSIESSDGSA-EYDEEENALVWKIKKLPGGSESTLSGTLEFSSPSSVPSDWSFFPISVEFTIPGYTL 226 (262)
T ss_dssp EEEEEE--TTEEEEEEEESSSEE-EEETGCTEEEEEEEEEETSEEEEEEEEEEEEEECCSS-S-----EEEEEEESTSET
T ss_pred EEEEeecCCccccceeeecCceE-EEEccCCEEEEEECCccCcccccEEEEEEecCCCcccccccceeEEEEEEeCCccc
Confidence 99999999999999999999999 9999 89999999999999999999999976544333 6889999999999999
Q ss_pred cccEEeEEEeec--CCCccccceEEEEecccEEEcC
Q 014292 394 SGLQIDKLDLQN--VPNRLYKGFRAVTRAGEYEVRS 427 (427)
Q Consensus 394 SGl~V~~l~v~~--~~~~~~k~vry~t~sg~y~iR~ 427 (427)
||++|++++|.+ .+++|+|||||.|+||+|+||+
T Consensus 227 Sgl~V~~l~v~~~~~~~~~~k~vky~t~s~~Y~iR~ 262 (262)
T PF00928_consen 227 SGLKVRSLDVVNEDENYKPYKWVKYVTKSGSYEIRT 262 (262)
T ss_dssp TT-EEEEEEEE-SSCGGGSEEEEEEEEEEEEEEE--
T ss_pred CCCEEEEEEeEecCCCCCCcccEEEEEEcCcEEEcC
Confidence 999999999976 6899999999999999999995
No 5
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.5e-38 Score=305.92 Aligned_cols=401 Identities=18% Similarity=0.265 Sum_probs=316.9
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhHH
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMG 80 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~~ 80 (427)
|+-+..|+++.|+.+++|+|+ +++|..++.|.....+.-.-.+++++++.+...++|++.+++|+|.+|..+.|++..
T Consensus 2 vvlaa~i~t~~Gk~ivsRqf~--~Msr~RIEgLl~aFpkLv~~~~qhT~vEt~~VRYVYqP~d~lY~vLITtk~SNIleD 79 (512)
T KOG2635|consen 2 VVLAASINTKTGKAIVSRQFR--EMSRSRIEGLLAAFPKLVSAGKQHTFVETDSVRYVYQPLDNLYIVLITTKQSNILED 79 (512)
T ss_pred eEEEEEEeecCCceeeehHhH--hhhHHHHHHHHHHhHHhhccCCCccEEecccEEEEEEecccEEEEEEeccccchhhH
Confidence 345778999999999999999 588776665444333322224678999997666666999999999999999999999
Q ss_pred HHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCCccccccccccc-----------
Q 014292 81 IEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVT----------- 149 (427)
Q Consensus 81 ~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~~~~~k~~~~~~----------- 149 (427)
++.|+.|.+++.+||..++|..|.+|.+.+...+||++.-||-...+..++|.+..|+++.+|++..+.
T Consensus 80 l~TL~Lfskvipey~~slde~eI~~~~FelifAFDEivsLGyre~v~laQikty~eMdSHEEKi~e~v~~nke~ea~q~m 159 (512)
T KOG2635|consen 80 LETLRLFSKVIPEYCSSLDEKEILENAFELIFAFDEIVSLGYRENVNLAQIKTYLEMDSHEEKIHELVMRNKEREAKQEM 159 (512)
T ss_pred HHHHHHHHHhchhhhhhhhHHHHHHhhhhhhhccchhhhhcccccccHHHhhhhhccccHHHHHHHHHHHhhhHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999998866431
Q ss_pred -----------------C-C-------------CC----Cc-c-----CCCC----CCCCcCCc---cc-----------
Q 014292 150 -----------------G-N-------------SS----NV-S-----DILP----GATASCVP---WR----------- 170 (427)
Q Consensus 150 -----------------g-~-------------~~----~~-~-----~~~~----~~~~~~~~---WR----------- 170 (427)
| + .+ +. + .+.| ....+..| .|
T Consensus 160 krKaKElqr~r~ea~rrgg~~~~~~~~~~s~g~~~~s~~~~~~~~~~~~~~~~~~sa~~~~s~pak~mklG~k~~~s~~~ 239 (512)
T KOG2635|consen 160 KRKAKELQRARKEAERRGGSLNPGFDAIGSSGYSSVSTTNAINRVESIAQKPKQQSAAKASSAPAKAMKLGKKTKNSDTF 239 (512)
T ss_pred HHHHHHHHHHHHhhhccccccCCCccccccccccCCcccchhhccccccccccccccccCCCCCchhhhhcccccchhhH
Confidence 1 0 00 00 0 0000 00000111 00
Q ss_pred ---------------------------CCCCCcccceEEEEEEEeEeEEEecccccccccccCCCCcEEEEEEEEEEEEE
Q 014292 171 ---------------------------PTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVN 223 (427)
Q Consensus 171 ---------------------------~~~~~~~~nei~vdv~E~i~~~~~~~~~~~~~~~~~~~g~~~~~~i~G~i~~~ 223 (427)
+....-.++.+++.+.|+|++.++ +||.+.++++.|.+.++
T Consensus 240 ~d~Lk~ege~ia~~~s~~g~~s~aap~~~~p~v~~e~v~i~ieEkln~~~~------------RDGgi~s~E~qG~lsLr 307 (512)
T KOG2635|consen 240 VDKLKGEGERIAGASSAIGSASSAAPPPTAPDVPEESVHIVIEEKLNVRLS------------RDGGIKSGEVQGTLSLR 307 (512)
T ss_pred HHHhhccccccccccccccccccCCCCCCCCCCccceEEEEEeeeEeEEEc------------ccCCccceeeeeeEEEE
Confidence 000111244599999999999999 99999999999999999
Q ss_pred EeecCCCeEEEEecCC-CccccceecceeecCCcCCCceEEEeCCCCeEE------EEEEEecC--CCCCCEEEEEEEEE
Q 014292 224 CLLSGLPDLTLSFANP-SILHDVRFHPCVRFRPWESHQILSFVPPDGQFK------LMSYRVKK--LKSTPIYVKPQLTS 294 (427)
Q Consensus 224 s~LsG~P~~~l~ln~~-~~l~~~~fH~cV~~~~~~~~~~l~F~PPdG~f~------L~~Y~~~~--~~~~P~~v~~~~~~ 294 (427)
....---.+.|.|++. ..--++++||.+|++.|.++..|...+|+..|+ |++||... ....|++++||.+.
T Consensus 308 I~d~e~~~i~lkl~n~~~~g~q~ktHPNlDK~~f~s~s~iglk~~~K~FPvn~~VGvLkWR~~~~des~iPlTincWPSe 387 (512)
T KOG2635|consen 308 IKDEEYGDIELKLANGRDKGTQLKTHPNLDKKVFLSSSLIGLKRPEKPFPVNSDVGVLKWRMVDEDESEIPLTINCWPSE 387 (512)
T ss_pred EccccccceEEEEcCCCCcceeeeeCCCcchhhhccccccccccCCCCCCcCCcceEEEEeecccccccCceEEEecccc
Confidence 9888888889999663 235668999999999999999999999999997 69999976 56789999999885
Q ss_pred cCCccEEEEEEEeecCCCCceeeEEEEEeCCCCceeeEEEeccccceeEeC--cEEEEEeCCcCCCCceEEEEEEEeecC
Q 014292 295 DAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETG 372 (427)
Q Consensus 295 ~~~~~~~ei~l~~~~~~~~~~~~v~i~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~i~~~~~ 372 (427)
.. +.++|.|.+.....-.+.||.|.||+|.++ .+++...+|.+ .|+. +.++|+|+.+.. +.+|+++|+..
T Consensus 388 s~--~g~dV~iEYe~~~~~eL~dV~i~iPlP~~i-apsv~~~Dge~-~~~~~~~~leW~I~~Ia~----N~SGslEFs~~ 459 (512)
T KOG2635|consen 388 SG--NGYDVNIEYEAVLECELNDVIITIPLPANI-APSVGECDGEY-RYDERKNVLEWSIGVIAK----NFSGSLEFSCP 459 (512)
T ss_pred CC--CCeEEEEEEeehhcccccceEEEeeccccc-CCccceecceE-EeccccceeEEEeeeecc----CCCCcEEEeec
Confidence 53 347777766653334789999999999998 78899999999 9988 999999999843 67899999877
Q ss_pred CCCCCCCCcEEEEEEECceeccccEEeEEEeecCCCccccc-eEEEEecccEEE
Q 014292 373 LETLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKG-FRAVTRAGEYEV 425 (427)
Q Consensus 373 ~~~~~~~~~i~v~F~~~~~~~SGl~V~~l~v~~~~~~~~k~-vry~t~sg~y~i 425 (427)
...++.++|++|.|.... +++|+.|+++.-.+.. .+.+. ++=.-.+..|+|
T Consensus 460 ~~~~~~fFPl~VsF~s~~-~ftgl~vqkVv~~~~~-~~~~y~~~t~f~~dky~V 511 (512)
T KOG2635|consen 460 ASDPDGFFPLSVSFTSDT-VFTGLFVQKVVRNDGH-APVRYSVETTFEVDKYEV 511 (512)
T ss_pred CCCCCceeeEEEEEEecc-cccceEEEEEEEcCCC-CCceeEEEEEEEeeeeEe
Confidence 778889999999999994 9999999998764333 23332 444445778876
No 6
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.97 E-value=1.4e-32 Score=275.13 Aligned_cols=236 Identities=22% Similarity=0.409 Sum_probs=203.8
Q ss_pred CCcccceEEEEEEEeEeEEEecccccccccccCCCCcEEEEEEEEEEEEEEeecCCCeEEEEecCCC-------------
Q 014292 174 VKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS------------- 240 (427)
Q Consensus 174 ~~~~~nei~vdv~E~i~~~~~~~~~~~~~~~~~~~g~~~~~~i~G~i~~~s~LsG~P~~~l~ln~~~------------- 240 (427)
..|..+||.|||.++.+++++ ++|.++...|.-+|.|.|+|+|+|+|.|+|||..
T Consensus 582 ~nY~e~EI~v~~~Defsg~V~------------Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDim 649 (922)
T KOG2677|consen 582 SNYLEEEITVDVRDEFSGIVS------------KEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIM 649 (922)
T ss_pred cccccceeEEEEEeccceeec------------ccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEecccc
Confidence 368899999999999999999 9999999999999999999999999999999863
Q ss_pred --------ccccceecceeecCCcCCCceEEEeCCCC-eEEEEEEEecC-CCCCCEEEEEEEEEcCCccEEEEEEEeec-
Q 014292 241 --------ILHDVRFHPCVRFRPWESHQILSFVPPDG-QFKLMSYRVKK-LKSTPIYVKPQLTSDAGTCRISVMVGIRN- 309 (427)
Q Consensus 241 --------~l~~~~fH~cV~~~~~~~~~~l~F~PPdG-~f~L~~Y~~~~-~~~~P~~v~~~~~~~~~~~~~ei~l~~~~- 309 (427)
.+++|.||.||+.+.|+++|+|.|.|||| +|+|||||+-. ...+||+++..+... |.++||+..++.
T Consensus 650 p~~t~kwI~~~~~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftlks~~~V~--Ga~VEvq~~~~ma 727 (922)
T KOG2677|consen 650 PTTTTKWIKLHECRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTLKSATSVN--GAEVEVQSWLRMA 727 (922)
T ss_pred ccccccceeeeeeeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceeeeeeeeec--cceeehHHHHHHH
Confidence 38999999999999999999999999999 99999999875 467899999888754 578888654331
Q ss_pred -----CC----CCceeeEEEEEeCCCCcee--------------------------------eEEEeccccceeEeC--c
Q 014292 310 -----DP----GKTIDSIILQFQLPPCILS--------------------------------ADLTSNHGTVNVLSN--K 346 (427)
Q Consensus 310 -----~~----~~~~~~v~i~ip~p~~~~~--------------------------------~~~~~~~G~~~~~~~--~ 346 (427)
+. -..|||+.|++|+|..|.. +.++++.|++ +|+. +
T Consensus 728 t~~qr~rd~~~~vpCenI~IrfPVPs~WIk~fr~e~~~g~kSlkaK~nR~a~~gsl~~~~sepvi~vt~G~A-KYEhay~ 806 (922)
T KOG2677|consen 728 TGFQRNRDPLTQVPCENIMIRFPVPSEWIKNFRRESVLGEKSLKAKVNRGASFGSLSVSGSEPVIRVTLGTA-KYEHAYN 806 (922)
T ss_pred hhhhhccCccccCcccceeEeccCcHHHHHHHHHHhhhccchhhhhhcccccccchhhccCCceEEEeecch-hhHHhhh
Confidence 11 1399999999999987641 3478899999 9999 9
Q ss_pred EEEEEeCCcCC-----CCceEEEEEEEeecCCCCCCC-CCcEEEEEEECceeccccEEeEEEeecCCCccccceEEEEec
Q 014292 347 ICTWSIGRIPK-----DKAPSLSGTMVLETGLETLRV-FPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRA 420 (427)
Q Consensus 347 ~l~W~I~~~~~-----~~~~~l~g~i~~~~~~~~~~~-~~~i~v~F~~~~~~~SGl~V~~l~v~~~~~~~~k~vry~t~s 420 (427)
.++|+|++++. +..+.|.|.+++++..+.+.+ .+.+.|+|.+|..++|...|+++.|+. ...+.|||+|..+
T Consensus 807 siVWrI~RLPdKnsa~~hpHcl~c~lELgSd~evPs~f~p~~~V~FsmP~t~aS~t~VRSisVE~-~~~v~K~V~y~A~- 884 (922)
T KOG2677|consen 807 SIVWRINRLPDKNSASGHPHCLFCHLELGSDREVPSRFAPHVNVEFSMPTTSASKTSVRSISVED-KTDVRKWVNYSAH- 884 (922)
T ss_pred hheeecccCCccccccCCCeeEEEEEeccccccCchhhccccceeeeccccccccceeeeeeccc-cccHHHHHhhhhh-
Confidence 99999999874 467899999999887776655 466999999999999999999999965 4579999999886
Q ss_pred ccEEEc
Q 014292 421 GEYEVR 426 (427)
Q Consensus 421 g~y~iR 426 (427)
.+|++.
T Consensus 885 Y~yqv~ 890 (922)
T KOG2677|consen 885 YSYQVA 890 (922)
T ss_pred eeeeee
Confidence 777653
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=99.94 E-value=3e-26 Score=200.07 Aligned_cols=134 Identities=29% Similarity=0.483 Sum_probs=114.1
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcch----HHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCC
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVDRSI----CDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMP 76 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~~~~----~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n 76 (427)
||++++|+|++|+++++|||++ .++.. .+.+.+.+... ..+.+|++..+++.++|++.++|||+++++.++|
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~--~~~~~~~~~~~~~~~~~~~~--~~~~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eN 76 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRD--VSEEERQKLFEKFIKKKSSR--NSKQSPIFEHDNYRIVYKRYSDLYFVVVGDENEN 76 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESST--STSHHHHHHHHHHHHHHHTS--SSSSTSEEEETTEEEEEEEETTEEEEEEESSTSB
T ss_pred CEEEEEEEcCCCCEEEehhcCC--ccHHHHHHHHHHHHHHHHhc--ccccceeeecccceeeeEeeccEEEEEEeecccc
Confidence 9999999999999999999965 44222 23333333332 2356899999988888999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCC
Q 014292 77 PLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPP 138 (427)
Q Consensus 77 ~l~~~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~ 138 (427)
+++++++|+++.++|+.||++++|.+|++||+.+|++||||+|+|+|++||++.|.+.+.+.
T Consensus 77 el~~~e~l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~~~I~~~v~~~ 138 (141)
T PF01217_consen 77 ELLLLEFLHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDPNVILKRVTMQ 138 (141)
T ss_dssp HHHHHHHHHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--THHHHHHHHHHC
T ss_pred hHHHHHHHHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999888754
No 8
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=99.85 E-value=8.7e-21 Score=157.30 Aligned_cols=133 Identities=21% Similarity=0.254 Sum_probs=116.6
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCc--chHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChh
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVDR--SICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPL 78 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~~--~~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l 78 (427)
||++++|+|++|++++.|||.+++.+. ..+...+..+.+++ .+.+.+++.....++|+++++|||+++.+.++|++
T Consensus 1 ~i~~vli~nrqgk~RL~K~yt~~~~~e~~kli~~i~~lIs~R~--~ke~N~~e~k~~kiVYrrYA~LyF~f~Vd~~dnEl 78 (152)
T COG5030 1 MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISARK--PKESNFIEGKNEKIVYRRYATLYFVFGVDNDDNEL 78 (152)
T ss_pred CeEEEEEEcCCCceeeeEeeccCCcHHHHHHHHHHHHHHHcCC--chhcccccccCcEEEeeecCcEEEEEEEcCCCCcc
Confidence 899999999999999999999755552 23555777777654 35677888876678889999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhcc
Q 014292 79 MGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMI 135 (427)
Q Consensus 79 ~~~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i 135 (427)
.+++++|.|+++|+.|||+++|.++..||..+|.+||||+-+|..++++++.+.+.+
T Consensus 79 ~iL~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl~~v 135 (152)
T COG5030 79 IILELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVLEHV 135 (152)
T ss_pred hHHHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999988765443
No 9
>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.78 E-value=1.9e-18 Score=146.62 Aligned_cols=139 Identities=22% Similarity=0.288 Sum_probs=120.1
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcch--HHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhH
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRVDRSI--CDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLM 79 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~~~~~--~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~ 79 (427)
+++++|+|++|+++++|||.+ +++... ..+|.+.+.+...+.+.. +...++..++|+..-||+|..+.+.++|+++
T Consensus 9 vk~iliLD~~G~Ri~aKYY~~-~~~s~vkeqkaFEK~lF~KT~kt~~e-I~~ldg~~vvYk~~~Dl~fyv~G~~~ENEl~ 86 (175)
T KOG3343|consen 9 VKAILILDSDGKRILAKYYDD-PHPSTVKEQKAFEKNLFSKTSKTESE-ILLLDGNTVVYKSVIDLHFYVVGSEEENELM 86 (175)
T ss_pred hheEEEEcCCCCEeeeeecCC-CcchhHHHHHHHHHHHhcccccccce-eEEecCcEEEEEecccEEEEEecCcchhHHH
Confidence 579999999999999999998 777533 456999998765433333 4444555566699999999999999999999
Q ss_pred HHHHHHHHHHHHhhhccC-CCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCCcccc
Q 014292 80 GIEFLCRVADILSDYLGE-LNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVS 142 (427)
Q Consensus 80 ~~~~L~~~~~~l~~y~~~-l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~~~~~ 142 (427)
..+.|+++.+.+.-.+.+ +.+..+.+|++.+..++|||||+|.+++||++++..++..++...
T Consensus 87 L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp~~ia~rv~~~~~~~ 150 (175)
T KOG3343|consen 87 LMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDPNQIAQRVALRPTDE 150 (175)
T ss_pred HHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCHHHHHHHhccCCCCc
Confidence 999999999999999975 889999999999999999999999999999999999999887654
No 10
>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.77 E-value=1.9e-18 Score=139.54 Aligned_cols=135 Identities=21% Similarity=0.236 Sum_probs=110.8
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCC-cc-hHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChh
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVD-RS-ICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPL 78 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~-~~-~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l 78 (427)
||.+|+|.|+.|+.+++|||.+.+-+ +. ..++..+.+..+.. .....+.......++++++++|||+.+++...|++
T Consensus 1 mi~FILiqNr~Gk~RLak~yv~~dd~ek~~~~~~vh~lvs~Rd~-K~~~~~~~~~~~~~~~rryagLyf~~~vd~tDnel 79 (143)
T KOG0935|consen 1 MIRFILIQNRAGKTRLAKWYVQFDDDEKQKLIEEVHALVTVRDA-KHTNFVEFRNFKIIYRRRYAGLYFCICVDVTDNEL 79 (143)
T ss_pred CeEEEEEEccccceeheeeeeccCchHHHHHHHHHHHHHhhccc-hhhhheeeeeceEEEEEeeCCEEEEEEEecCCchH
Confidence 99999999999999999999863322 22 34456666665432 12233444466667778999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccC
Q 014292 79 MGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIA 136 (427)
Q Consensus 79 ~~~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~ 136 (427)
..++.+|.|+++|+.||++++|.++..||-.||.++|||+-+|.+++|+...+-+.+.
T Consensus 80 ayLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vlerl~ 137 (143)
T KOG0935|consen 80 AYLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVLERLL 137 (143)
T ss_pred HHHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999887655543
No 11
>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.77 E-value=5.1e-19 Score=146.73 Aligned_cols=128 Identities=22% Similarity=0.237 Sum_probs=110.7
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCC-cchH-HHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChh
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVD-RSIC-DWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPL 78 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~-~~~~-~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l 78 (427)
||+++++.+++|+.+++|||...+.. |..+ ....+.+++++ .+.+.+++..+..++|+++++|||++....++|+|
T Consensus 1 mi~f~LlvsrQGk~rL~k~y~~~~~~er~~i~re~i~~~Lar~--pk~csfie~kd~kvVyrryasl~f~~~v~~~dNEL 78 (145)
T KOG0934|consen 1 MIKFFLLVSRQGKTRLQKWYEALSIKERKKIERELIKSVLARK--PKMCSFIEYKDEKVVYRRYASLFFCVGVEDNDNEL 78 (145)
T ss_pred CeEEEEEEeccCceehhHHHhhhcHHHHHHHHHHHHHHHHhCC--cccccchhccCceehhhhhhhEEEEEEEecCCchh
Confidence 89999999999999999999963322 2222 23444555443 47789999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhh
Q 014292 79 MGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNI 130 (427)
Q Consensus 79 ~~~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~ 130 (427)
.++|++|+++++|+.|||+++|.+|..||..+|.+|||++-.|..+++..+.
T Consensus 79 ~~LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~~ 130 (145)
T KOG0934|consen 79 AILEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKND 130 (145)
T ss_pred hHHHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhccc
Confidence 9999999999999999999999999999999999999999999988887664
No 12
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.74 E-value=1e-17 Score=140.90 Aligned_cols=140 Identities=14% Similarity=0.161 Sum_probs=119.3
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCC--cchHHHHHHHHhccCCCCCCCCEEEc------CCEEEEEEEeCCEEEEEEec
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVD--RSICDWFWDHVISQGDSFKSMPVIAS------PTHYIFQIVRAGITFLACTQ 72 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~--~~~~~~f~~~~~~~~~~~~~~pii~~------~~~~~~~~~~~~L~fv~~~~ 72 (427)
||+|++|+|.+|++++.|+|.+.+.+ ...+...+..+.+++ ...+.+++. .+..++|+.++-|||+.+.+
T Consensus 1 MI~AvlifNn~gkPRL~KFY~p~~~~~Qq~lir~vf~lvs~R~--~n~~nFLe~~~l~g~~d~rlIYrhYATLYFvfvvD 78 (182)
T KOG0936|consen 1 MIKAVLIFNNKGKPRLVKFYTPVDEEKQQQLIREVFHLVSKRP--DNVCNFLEGNSLIGGSDNRLIYRHYATLYFVFVVD 78 (182)
T ss_pred CeeEEEEecCCCCcceeeecCcCChHHHHHHHHHHHHHHHcCC--chHhhhhccccccCCccceeehheeeeEEEEEEEc
Confidence 99999999999999999999975544 234556666766654 345666654 25678889999999999999
Q ss_pred CCCChhHHHHHHHHHHHHHhhhccCCCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCCcccc
Q 014292 73 VEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVS 142 (427)
Q Consensus 73 ~~~n~l~~~~~L~~~~~~l~~y~~~l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~~~~~ 142 (427)
..++++.+++++|-|++.|+..|.+++|.++..|++.++.+|+|++.+|.+++|+.+.+...+...+-.+
T Consensus 79 ~sEsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~~~nkle 148 (182)
T KOG0936|consen 79 SSESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVDEQNKLE 148 (182)
T ss_pred CCcchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHHHhchhh
Confidence 9999999999999999999999999999999999999999999999999999999998877776554333
No 13
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.44 E-value=3.6e-13 Score=114.06 Aligned_cols=138 Identities=12% Similarity=0.149 Sum_probs=112.6
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcc---------hHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEec
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRVDRS---------ICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQ 72 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~~~~---------~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~ 72 (427)
+.|++|+|++|++|+.|||.++--++. ...+|.+++.....++.. .+....++.+.+++..++.|+.+..
T Consensus 8 v~a~LilDsqGeriy~kyy~pph~~eg~~~vFnsvkkekefek~l~eKt~k~~~-~Il~f~d~lV~~k~~~dv~~yiv~~ 86 (187)
T COG5541 8 VEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEKTAKDRE-SILMFYDRLVMCKRLDDVLLYIVSP 86 (187)
T ss_pred eeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHHhhcCcc-ceeeEcceeeeeeeehhEEEEEecc
Confidence 679999999999999999997322221 123577777754332333 3444444455569999999999999
Q ss_pred CCCChhHHHHHHHHHHHHHhhhccC-CCHHHHHhhHHHHHHHHHHHHhCCcccccChhhHhhccCCCcc
Q 014292 73 VEMPPLMGIEFLCRVADILSDYLGE-LNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNI 140 (427)
Q Consensus 73 ~~~n~l~~~~~L~~~~~~l~~y~~~-l~e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~~i~~~~~ 140 (427)
-++|+.+..+.+..|..+|.-.++. .++..+.+|||.+..++||.||.|.+++|+++.+.+.++.++.
T Consensus 87 meeNE~~l~q~f~~ir~Al~li~k~~~dkr~v~enYDqivl~vdEtid~Gvilet~s~~ia~rv~K~p~ 155 (187)
T COG5541 87 MEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPKPPN 155 (187)
T ss_pred cccccHHHHHHHHHHHHHHHHHHcCCcchhhHHhhhceEEEeeehhcccceEeecChHHHHHhCCCCCC
Confidence 9999999999999999999999987 5566699999999999999999999999999999999998764
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=99.23 E-value=3.7e-09 Score=101.07 Aligned_cols=224 Identities=21% Similarity=0.303 Sum_probs=132.5
Q ss_pred EEEEEEEeEeEEEecccccccccccCCCCcEEEEEEEEEEEEEEe------ecCCCeEEEEecCCCccccceecceeecC
Q 014292 181 VYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCL------LSGLPDLTLSFANPSILHDVRFHPCVRFR 254 (427)
Q Consensus 181 i~vdv~E~i~~~~~~~~~~~~~~~~~~~g~~~~~~i~G~i~~~s~------LsG~P~~~l~ln~~~~l~~~~fH~cV~~~ 254 (427)
+-..|.|+|||.+. +|.+....|.|+|.+.-- ++..+.+.+.|++...|+.+...+..-..
T Consensus 3 l~asi~E~VnA~Fk-------------~g~~~~v~v~GEv~ls~~~~~~~~~~~~~~l~~rl~n~~~le~i~pN~~~v~~ 69 (257)
T PF10291_consen 3 LNASITETVNAYFK-------------GGQLSKVKVTGEVALSYPAGISSSLTSPPPLSFRLNNFSRLEKIAPNPQFVSS 69 (257)
T ss_dssp EEEEEEEEEEEEEE-------------TTEEEEEEEEEEEEEEEE--SSS-----SEEEEEEETGGGEEEEEE-TTTE--
T ss_pred eeEEEEEEEEEEEE-------------CCcEEEEEEEEEEEEecCCChhhcccCCCcEEEEEcCcchhceeecCHhHeec
Confidence 45679999999996 999999999999999843 23357789999888777776544432211
Q ss_pred CcCCCceEEEeCC--CCeE--EEEEEEecCC----CCCCEEEEEEEEEcCCccEEEEEEEeecCC---C--CceeeEEEE
Q 014292 255 PWESHQILSFVPP--DGQF--KLMSYRVKKL----KSTPIYVKPQLTSDAGTCRISVMVGIRNDP---G--KTIDSIILQ 321 (427)
Q Consensus 255 ~~~~~~~l~F~PP--dG~f--~L~~Y~~~~~----~~~P~~v~~~~~~~~~~~~~ei~l~~~~~~---~--~~~~~v~i~ 321 (427)
.-.++....|.++ .... ..++|++... ...|+.+.+.-+.+. ....+.|.++.+. . ..++||.|.
T Consensus 70 ~~~~~~~f~~n~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e~--~~tsl~l~Y~~Np~~~~~~~~L~nv~~~ 147 (257)
T PF10291_consen 70 SSQSDGEFWLNMSALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCEP--SQTSLILDYKLNPDAFASPVPLENVVFS 147 (257)
T ss_dssp EEEETTEEEE-TTTTBT-E-EEEEEEEEES--------SEEEEEEEEE-S--SEEEEEEEEEE-TTT--E-EEEEEEEEE
T ss_pred CCCCCCcEEEehHHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeCC--ceEEEEEEEEeChhhccccceeeeEEEE
Confidence 1112234556554 2333 5699999863 567999999888775 4445555555333 2 379999999
Q ss_pred EeCCCC-ceeeEEEeccccceeEeCcEEEEEeCCcC--CCCc-eEEEEEEEeecCCCCCCCCCcEEEEEEEC-ceecccc
Q 014292 322 FQLPPC-ILSADLTSNHGTVNVLSNKICTWSIGRIP--KDKA-PSLSGTMVLETGLETLRVFPTFQVEFRIM-GVALSGL 396 (427)
Q Consensus 322 ip~p~~-~~~~~~~~~~G~~~~~~~~~l~W~I~~~~--~~~~-~~l~g~i~~~~~~~~~~~~~~i~v~F~~~-~~~~SGl 396 (427)
+++... +.+++..+. |++ .-+.+.+.|+++.+. ++.+ ..|.|.+....... .-.+|.+.|++. +.+.||+
T Consensus 148 v~l~g~~~ts~~skP~-g~~-~~e~~ri~Wrl~el~~~~~~~~~kL~ARf~~~~~~~---~p~~v~vkF~~~~~~~~sg~ 222 (257)
T PF10291_consen 148 VPLDGGRATSAQSKPQ-GTW-NKEKNRITWRLPELSLTSEGEGGKLIARFMTSGGPS---RPGGVEVKFEIEGGSTLSGL 222 (257)
T ss_dssp EEB-SS-EEEEEESSS---B--SSS-EEEEE-SSEEEETT---EEEEEEEEESS-------SS-EEEEEEE---S-SS--
T ss_pred EEcCCccccccccCCC-ccc-cCCCcEEEEECCcccccCCCCCceEEEEEECCCCCC---CCceEEEEEEEcCCCcccCc
Confidence 999988 666665555 888 444499999999964 2222 68999998855432 467899999999 8889998
Q ss_pred EEeEEEee------cCCCccccceEEEEecccEEE
Q 014292 397 QIDKLDLQ------NVPNRLYKGFRAVTRAGEYEV 425 (427)
Q Consensus 397 ~V~~l~v~------~~~~~~~k~vry~t~sg~y~i 425 (427)
.|.-..-. +..|+.. -++-...||.|..
T Consensus 223 ~i~~~~~~~~~dp~~~~w~~~-~~~r~~~sGkY~~ 256 (257)
T PF10291_consen 223 GISLVYQDDEEDPPGGGWRLV-LVKRKLVSGKYIA 256 (257)
T ss_dssp --EEEEEESSS-TT----EE--EEEEEEEEEEEE-
T ss_pred EEEEeecccccCCCCCcceEE-EEEEEEeeeEEec
Confidence 88887211 1223332 3566666899963
No 15
>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1
Probab=96.38 E-value=0.052 Score=49.16 Aligned_cols=79 Identities=11% Similarity=0.090 Sum_probs=68.3
Q ss_pred EEEEEEEeCCEEEEEEecCCCChhHHHHHHHHHHHHHhhhccCCC-HHHHHhhHHHHHHHHHHHHhCCcccccChhhHhh
Q 014292 55 HYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELN-EDLIKDNFVIVYELLDEMIDNGFPLTTEPNILRE 133 (427)
Q Consensus 55 ~~~~~~~~~~L~fv~~~~~~~n~l~~~~~L~~~~~~l~~y~~~l~-e~~i~~N~~~v~~lldEiid~G~p~~t~~~~l~~ 133 (427)
.+++.....++-|..+++..+|.+++-.+|+.+...|.+.+..++ -..+....+.|..+|+..++.|.-+-.+.+.++.
T Consensus 104 k~vvW~~v~~l~ftLVce~hEN~lLa~~~L~~~~~~l~~~~~~l~~~~e~l~k~d~i~aiL~~fLP~GQLLFlN~~~~k~ 183 (189)
T PF15001_consen 104 KIVVWLGVGSLCFTLVCEPHENRLLAENTLRLFIRHLLEHLKILSQPSEVLLKSDRILAILHRFLPHGQLLFLNHRFVKQ 183 (189)
T ss_pred cEEEeeccCCEEEEEEecCchhHHHHHHHHHHHHHHHHHHHHHhCcHHHhhhhHHHHHHHHHHhCCCCcEEEEcHHHHHH
Confidence 455558999999999999999999999999999999999997644 3667889999999999999999887777666554
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=94.02 E-value=0.44 Score=49.04 Aligned_cols=89 Identities=15% Similarity=0.095 Sum_probs=54.6
Q ss_pred EEEEEEcCCCCEEEEEccCCCCCCcc---hHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhH
Q 014292 3 QCIFLLADNGAVILEKQLTGHRVDRS---ICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLM 79 (427)
Q Consensus 3 ~~i~Ild~~G~~l~~r~y~~~~~~~~---~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~ 79 (427)
+.+||+.+.||+|++|+=.+ +.-.+ ++.++..-+... ++.---+..++..+++..++-||+||+++..+++..
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 KHFFILSSAGKPIYSRYGDE-DKLSSLMGVIQAIISFFQSN---GDELRSIRAGDHRIVFLNRGPLILVAVSKTGESESQ 87 (415)
T ss_pred CeEEEECCCCceeEEecCCh-HHHHHHHHHHHHHHHHHHhC---CCcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHH
Confidence 46899999999999997332 11111 122222222111 122223445777777799999999999998888766
Q ss_pred HHHHHHHHHHHHhhhc
Q 014292 80 GIEFLCRVADILSDYL 95 (427)
Q Consensus 80 ~~~~L~~~~~~l~~y~ 95 (427)
...-|+.+...|-..+
T Consensus 88 l~~qL~~ly~qils~l 103 (415)
T PF03164_consen 88 LRKQLDYLYSQILSIL 103 (415)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 6655555555444433
No 17
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=91.02 E-value=0.94 Score=46.47 Aligned_cols=100 Identities=13% Similarity=0.204 Sum_probs=56.7
Q ss_pred EEEEEEcCCCCEEEEEccCCCCCCcc---hHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhH
Q 014292 3 QCIFLLADNGAVILEKQLTGHRVDRS---ICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLM 79 (427)
Q Consensus 3 ~~i~Ild~~G~~l~~r~y~~~~~~~~---~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~ 79 (427)
+.+||+.+.|+++++++-.+ +.-.. +..+...-+.. + +..-..+..++..+++.+.+-|++||++.....+..
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 KHIFILSEAGKPIYSRHGSD-EALSSTMGVMQALISFFQV--S-GLAITSIHAFGNKLVFLQKSPLLLVAVSRTSQSAAQ 193 (523)
T ss_pred ceEEEEecCCCceeeecCcH-HHHHHHHHHHHHHHHHHhh--C-CceEEEEEecCceEEEEecCcEEEEEEcccccCHHH
Confidence 45999999999999997654 32211 22222111111 1 122223344666676799999999999986654433
Q ss_pred HHHHHHHHHHHHhhhccCCCHHHH------HhhHHH
Q 014292 80 GIEFLCRVADILSDYLGELNEDLI------KDNFVI 109 (427)
Q Consensus 80 ~~~~L~~~~~~l~~y~~~l~e~~i------~~N~~~ 109 (427)
+++.+..+....+..|++..+ ++|||+
T Consensus 194 ---L~~qL~~ly~QIlS~LT~~ql~~if~~r~NfDL 226 (523)
T KOG0997|consen 194 ---LLQQLLLLYCQILSILTASQLQRIFNKRQNFDL 226 (523)
T ss_pred ---HHHHHHHHHHHHHHHHHHHHHHHHHhcccCchH
Confidence 333443333334444555443 467763
No 18
>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=90.22 E-value=2.7 Score=32.56 Aligned_cols=48 Identities=21% Similarity=0.321 Sum_probs=40.8
Q ss_pred EEEcCCEEEEEEEeCCEEEEEEecCCCChhHHHHHHHHHHHHHhhhcc
Q 014292 49 VIASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLG 96 (427)
Q Consensus 49 ii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~~~~~L~~~~~~l~~y~~ 96 (427)
.++.+.+.+++...+++.++|+++.+-+.-..+.||+.+.+-...-++
T Consensus 18 s~~~~~~~fh~~~~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~ 65 (83)
T PF13774_consen 18 SYESGNYVFHYLVEDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYG 65 (83)
T ss_dssp EEEETTEEEEEEEETTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCT
T ss_pred EEEECCEEEEEEEcCCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcC
Confidence 455677777777789999999999999999999999999999888877
No 19
>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=89.91 E-value=7.3 Score=32.78 Aligned_cols=90 Identities=13% Similarity=0.062 Sum_probs=58.4
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcchH-H----HHHHHHhccC--CCCCCCCE-EEcCCEEEEEEEeCCEEEEEEecC
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRVDRSIC-D----WFWDHVISQG--DSFKSMPV-IASPTHYIFQIVRAGITFLACTQV 73 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~~~~~~-~----~f~~~~~~~~--~~~~~~pi-i~~~~~~~~~~~~~~L~fv~~~~~ 73 (427)
+.+|+|.|++|=+++.=...+ .+.... . .|-....+.. .-++...+ ...+.+.+++.....+|+..+++.
T Consensus 17 l~~I~itDrDGvpi~~v~~~~--~~~~~~~~~~~~tf~~a~~Q~~KL~lG~nk~ii~~Y~~~qvv~~~~~pl~it~ias~ 94 (119)
T PF08923_consen 17 LQAIVITDRDGVPIAKVSSDS--APESAMRPSLLSTFAMAIDQASKLGLGKNKSIIAYYDSYQVVQFNKLPLYITFIASS 94 (119)
T ss_dssp EEEEEEEETTS-EEEEEE-TT--S-GGGGSHHHHCCHHHHHHHHTTSSS-SEEEEEEEESSEEEEEEEETTEEEEEEEET
T ss_pred eEEEEEECCCCcEEEEecCCC--CcchhhhhHHHHHHHHHhhcccccCCCCceEEEEEeCCEEEEEEeCCCeEEEEEecC
Confidence 578999999999998754333 332222 1 2322222211 11233333 445788888899999999999999
Q ss_pred CCChhHHHHHHHHHHHHHhh
Q 014292 74 EMPPLMGIEFLCRVADILSD 93 (427)
Q Consensus 74 ~~n~l~~~~~L~~~~~~l~~ 93 (427)
+.|.=+++.+-+.+..+|.+
T Consensus 95 ~aN~G~il~l~~~L~~~l~~ 114 (119)
T PF08923_consen 95 NANTGLILSLEEELAPILNE 114 (119)
T ss_dssp TS-HHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHhHHHHHHHHHH
Confidence 99999999998888888875
No 20
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.29 E-value=22 Score=32.50 Aligned_cols=89 Identities=18% Similarity=0.190 Sum_probs=61.1
Q ss_pred EEEcCCCCEEEEEccCCCCCC-cchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhHHHHHH
Q 014292 6 FLLADNGAVILEKQLTGHRVD-RSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFL 84 (427)
Q Consensus 6 ~Ild~~G~~l~~r~y~~~~~~-~~~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~L~fv~~~~~~~n~l~~~~~L 84 (427)
|=+=.+|-++++.+-.- .-+ .++.+....++... ++..--+.++++.+.|...+++.|+|+++.+.---..+.||
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 YSFVARGTVILAEFTEF-SGNFSSIAAQILQKLPSS---SNSKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAFL 80 (217)
T ss_pred EEEEecceEEEEeeeec-cCCHHHHHHHHHHhCCCC---CCCceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHHH
Confidence 33446899999985332 222 23344444444432 22223455688888889999999999999887778899999
Q ss_pred HHHHHHHhhhccCC
Q 014292 85 CRVADILSDYLGEL 98 (427)
Q Consensus 85 ~~~~~~l~~y~~~l 98 (427)
+++.+-+..-+|.-
T Consensus 81 e~Ik~~F~k~YG~~ 94 (217)
T KOG0859|consen 81 ERIKEDFKKRYGGG 94 (217)
T ss_pred HHHHHHHHHHhccc
Confidence 99998888877753
No 21
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=87.25 E-value=9.1 Score=31.57 Aligned_cols=90 Identities=14% Similarity=0.250 Sum_probs=52.5
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCC--Ccc-------hH---HHHHHHHhccCCCCCCCC-EEEcCCEE-EEEEEeCCEEE
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRV--DRS-------IC---DWFWDHVISQGDSFKSMP-VIASPTHY-IFQIVRAGITF 67 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~--~~~-------~~---~~f~~~~~~~~~~~~~~p-ii~~~~~~-~~~~~~~~L~f 67 (427)
+.+++|+|+.|-.+++|.|.+-+. +.+ .+ .++..+++... +..+- ++..+... .+++...++-|
T Consensus 3 ve~~~iINksGglifqref~~~et~lnsneyLiLastlhgV~aI~tq~~p~~--gssg~~~l~~~~f~m~I~qT~TG~kF 80 (134)
T COG5122 3 VEQFFIINKSGGLIFQREFGEGETELNSNEYLILASTLHGVSAILTQTIPLP--GSSGRLVLYFRNFVMTIFQTTTGTKF 80 (134)
T ss_pred eeEEEEEecCCcEEEEEeccCCccccCcccEEEEeechhhhhhhhhhcccCC--CCCceEEEEeccEEEEEEEecCCcEE
Confidence 678999999999999999964122 111 11 11122222111 11111 22223222 34577889999
Q ss_pred EEEe-cCCCChhHHHHHHHHHHHHHhhhcc
Q 014292 68 LACT-QVEMPPLMGIEFLCRVADILSDYLG 96 (427)
Q Consensus 68 v~~~-~~~~n~l~~~~~L~~~~~~l~~y~~ 96 (427)
|+++ +...|.++- |+++..+..+|.-
T Consensus 81 V~~~~k~t~na~~q---l~kiY~lYsdYV~ 107 (134)
T COG5122 81 VFVAEKRTVNALFQ---LQKIYSLYSDYVT 107 (134)
T ss_pred EEEecCCchhHHHH---HHHHHHHHHHHhh
Confidence 9998 455666554 6778888888763
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=86.27 E-value=12 Score=32.52 Aligned_cols=92 Identities=14% Similarity=0.207 Sum_probs=52.1
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCC----Ccch-------------HHHHHHHHhccCCC---CCCCCE--EEcCCEEEE-
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRV----DRSI-------------CDWFWDHVISQGDS---FKSMPV--IASPTHYIF- 58 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~----~~~~-------------~~~f~~~~~~~~~~---~~~~pi--i~~~~~~~~- 58 (427)
|.++||+|+.|..|+.|.|.. .. ++.. +.+|..++...... .....+ ++.+.+.++
T Consensus 1 IyslyI~nr~G~lIy~~~~~~-~~~~~~~~~~~ne~~ll~g~l~sl~~i~~klsp~~~~~~~~~~~g~~~~~T~~yklh~ 79 (142)
T PF04099_consen 1 IYSLYIFNRSGGLIYYREWNR-SKNEGQPKLSSNEYKLLAGMLHSLKAIASKLSPVDSKPNEPGSSGFESFETDTYKLHC 79 (142)
T ss_dssp EEEEEEE-TTS-EEEEEETSS-SS--E-SSSCHHHHHHHHHHHHHHHHHHHHT-SSSSSS-SSS--SEEEEEESS-EEEE
T ss_pred CeEEEEEeCCcceeeehhhCC-CCccccCCCChhHHHHHHhhHHHHHHHHHHhCCCCcccccccceeEEEEEeCCEEEEE
Confidence 678999999999999999986 32 1111 11333333321100 011223 334555543
Q ss_pred EEEeCCEEEEEEecCCCChhHHHHHHHHHHHHHhhhc
Q 014292 59 QIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYL 95 (427)
Q Consensus 59 ~~~~~~L~fv~~~~~~~n~l~~~~~L~~~~~~l~~y~ 95 (427)
+.-..++-||++++.+...+ .=.+++.+.++.-+|.
T Consensus 80 ~eT~TGlKFvl~td~~~~~~-~~~l~~~~~~lY~dyV 115 (142)
T PF04099_consen 80 FETPTGLKFVLITDPNVPSL-RDELLRIYYELYVDYV 115 (142)
T ss_dssp EE-TTS-EEEEEE-TTCCHC-HHHHHHHHHHHHHHHH
T ss_pred EEcCcCcEEEEEecCCCccH-HHHHHHHHHHHHHHHH
Confidence 45668999999999888543 4447888888888886
No 23
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.30 E-value=20 Score=37.36 Aligned_cols=112 Identities=13% Similarity=0.066 Sum_probs=69.6
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCC--EEEEEEecCCCChh
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAG--ITFLACTQVEMPPL 78 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~pii~~~~~~~~~~~~~~--L~fv~~~~~~~n~l 78 (427)
||+.+.|+++.|-+|.++.--+ ..-...++.|.+.++-... +.... +..+.+.+=|...|+ +.|+++-..--+-.
T Consensus 1 Mld~faIFtkgG~vLw~~~~~~-~~~~~~in~lI~~~ll~er-~~~~~-~~~~~yTlk~q~~N~~~lvfvvvfqki~~L~ 77 (587)
T KOG0781|consen 1 MLDQFAIFTKGGLVLWCYQEVG-DNLKGPINALIRSVLLSER-GGVNS-FTFEAYTLKYQLDNQYSLVFVVVFQKILTLT 77 (587)
T ss_pred CcceeeeecCCcEEEEEecccc-hhccchHHHHHHHHHHHhh-cCccc-CchhheeEeeeecCCccEEEEEEEeccchhh
Confidence 9999999999999988776554 2223356676666554321 11111 333444454455555 56666666555556
Q ss_pred HHHHHHHHHHHHHhhhccCCCHHHHHhhHH-HHHHHHH
Q 014292 79 MGIEFLCRVADILSDYLGELNEDLIKDNFV-IVYELLD 115 (427)
Q Consensus 79 ~~~~~L~~~~~~l~~y~~~l~e~~i~~N~~-~v~~lld 115 (427)
.+-.+|....+...+-|+..+-..++.|++ ...++|+
T Consensus 78 yv~~ll~~v~~~f~e~~~~~~~~~l~~n~~~~~~e~lk 115 (587)
T KOG0781|consen 78 YVDKLLNDVLNLFREKYDTQSALSLLNNTFDFQEELLK 115 (587)
T ss_pred hHHHHHHHHHHHHHHHhccchHHHhhhhhHHHHHHHHH
Confidence 677777777777777777767777777774 3444444
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=79.89 E-value=7.9 Score=33.18 Aligned_cols=73 Identities=12% Similarity=0.255 Sum_probs=39.0
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCC-C---CCCCEEEc--------CCEEEEEEE-eCCEEE
Q 014292 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDS-F---KSMPVIAS--------PTHYIFQIV-RAGITF 67 (427)
Q Consensus 1 MI~~i~Ild~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~-~---~~~pii~~--------~~~~~~~~~-~~~L~f 67 (427)
|++.+.|+..+|+++++..--+.......+.+|..++++.+.. . ....+... +-...+|+. .-.|||
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 9999999999999999876655345556688999999876421 1 01112221 223444443 367999
Q ss_pred EEEecC
Q 014292 68 LACTQV 73 (427)
Q Consensus 68 v~~~~~ 73 (427)
|++-..
T Consensus 81 VvTyae 86 (148)
T PF09201_consen 81 VVTYAE 86 (148)
T ss_dssp EEEESS
T ss_pred EEEecc
Confidence 887643
No 25
>PF03504 Chlam_OMP6: Chlamydia cysteine-rich outer membrane protein 6; InterPro: IPR003506 Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism. The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane []. OMP6 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa []. MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin []. The OMP6 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level []. Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae and Chlamydia psittaci.; GO: 0005201 extracellular matrix structural constituent
Probab=69.42 E-value=31 Score=26.91 Aligned_cols=44 Identities=18% Similarity=0.323 Sum_probs=30.8
Q ss_pred CCceeeEEEEEeCCCCceeeEEEeccccceeEeC-cEEEEEeCCcCCCC
Q 014292 312 GKTIDSIILQFQLPPCILSADLTSNHGTVNVLSN-KICTWSIGRIPKDK 359 (427)
Q Consensus 312 ~~~~~~v~i~ip~p~~~~~~~~~~~~G~~~~~~~-~~l~W~I~~~~~~~ 359 (427)
.+.+-||.|+=.+|-.+. +-.+.-.. .--. +.|+|+|+++..|.
T Consensus 41 k~DcvnVviTqqLPce~e---FV~SdPet-tp~~D~kLVW~Ig~l~~G~ 85 (95)
T PF03504_consen 41 KKDCVNVVITQQLPCEVE---FVRSDPET-TPTPDGKLVWKIGRLGQGE 85 (95)
T ss_pred ccceeEEEEeecCCcceE---EEecCCcc-ccCCCCEEEEEeccccCCc
Confidence 347889999999998754 44444443 2122 89999999987664
No 26
>TIGR01451 B_ant_repeat conserved repeat domain. This model represents the conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis, and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydial outer membrane proteins.
Probab=51.57 E-value=47 Score=23.41 Aligned_cols=32 Identities=13% Similarity=0.181 Sum_probs=27.5
Q ss_pred ccEEEEEEEeecCCCCceeeEEEEEeCCCCce
Q 014292 298 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 329 (427)
Q Consensus 298 ~~~~ei~l~~~~~~~~~~~~v~i~ip~p~~~~ 329 (427)
+..+++++.++......+.+|.|+=++|.+..
T Consensus 11 Gd~v~Yti~v~N~g~~~a~~v~v~D~lP~g~~ 42 (53)
T TIGR01451 11 GDTITYTITVTNNGNVPATNVVVTDILPSGTT 42 (53)
T ss_pred CCEEEEEEEEEECCCCceEeEEEEEcCCCCCE
Confidence 57899999998876678999999999998754
No 27
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.41 E-value=59 Score=30.17 Aligned_cols=48 Identities=15% Similarity=0.353 Sum_probs=42.3
Q ss_pred EEcCCEEEEEEEeCCEEEEEEecCCCChhHHHHHHHHHHHHHhhhccC
Q 014292 50 IASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGE 97 (427)
Q Consensus 50 i~~~~~~~~~~~~~~L~fv~~~~~~~n~l~~~~~L~~~~~~l~~y~~~ 97 (427)
++.|.+.++|+..+++.+.++++.+-+--+++.+|+.+.+-+..-++.
T Consensus 54 ietg~f~fHfli~~~Vcylvicd~~yP~kLAF~YLedL~~EF~~~~~~ 101 (216)
T KOG0862|consen 54 IETGPFVFHFLIESGVCYLVICDKSYPRKLAFSYLEDLAQEFDKSYGK 101 (216)
T ss_pred cccCCeEEEEEecCCEEEEEEecCCCcHHHHHHHHHHHHHHHHHhccc
Confidence 345778888999999999999999999999999999999988887774
No 28
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.88 E-value=2.5e+02 Score=24.04 Aligned_cols=83 Identities=8% Similarity=0.104 Sum_probs=46.6
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCC---cch-H----------HHHHHHHhccCCCCCCCCEEEc--CCEEEEEEE-eCC
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRVD---RSI-C----------DWFWDHVISQGDSFKSMPVIAS--PTHYIFQIV-RAG 64 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~~---~~~-~----------~~f~~~~~~~~~~~~~~pii~~--~~~~~~~~~-~~~ 64 (427)
|.+++|+|++|..|+.+.+...+-+ +.. . ..|.+++... +....+... +.+.+.+.. -.+
T Consensus 3 iy~~yIFdR~g~Cl~y~EW~r~~~s~~~~eee~KL~yGmlFSlkS~v~Kls~~---d~k~~f~sy~Ts~YklhfyeTptg 79 (140)
T KOG3368|consen 3 IYNFYIFDRNGVCLFYREWNRTKQSGIPNEEEAKLMYGMLFSLKSFVSKLSPG---DVKDGFLSYKTSKYKLHFYETPTG 79 (140)
T ss_pred EEEEEEEcCCccEEEehhcccccccCCchhHHHHHHHHHHhhHHHHHHhcCCC---CcccCeeEEeeceeEEEEEEcCCC
Confidence 6789999999999998876531222 111 0 1222332221 112234333 455454333 377
Q ss_pred EEEEEEecCCCChhHHHHHHHHHHH
Q 014292 65 ITFLACTQVEMPPLMGIEFLCRVAD 89 (427)
Q Consensus 65 L~fv~~~~~~~n~l~~~~~L~~~~~ 89 (427)
|.|+..++..... +-+.||.|..
T Consensus 80 lk~vl~Tdpk~~~--ir~vLq~IYs 102 (140)
T KOG3368|consen 80 LKFVLNTDPKAGS--IRDVLQYIYS 102 (140)
T ss_pred cEEEEecCCCccc--HHHHHHHHHH
Confidence 9999998766433 4466777776
No 29
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.60 E-value=56 Score=29.25 Aligned_cols=29 Identities=17% Similarity=0.571 Sum_probs=22.8
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcchHHHH
Q 014292 2 LQCIFLLADNGAVILEKQLTGHRVDRSICDWF 33 (427)
Q Consensus 2 I~~i~Ild~~G~~l~~r~y~~~~~~~~~~~~f 33 (427)
|.++||+|+.|-.|+++.++. ++..++.|
T Consensus 3 I~~~~IINKsGgLIfq~e~~~---~~~e~et~ 31 (199)
T KOG3369|consen 3 IESLFIINKSGGLIFQREFGN---PRQELETF 31 (199)
T ss_pred eEEEEEEecCCcEEEEeecCC---ccccccch
Confidence 789999999999999998875 33344555
No 30
>PRK06764 hypothetical protein; Provisional
Probab=27.53 E-value=1.9e+02 Score=22.66 Aligned_cols=48 Identities=29% Similarity=0.349 Sum_probs=28.2
Q ss_pred CCcEEEEEEE-CceeccccEEeEEEeecCCCccccceEEEEecccEEEc
Q 014292 379 FPTFQVEFRI-MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426 (427)
Q Consensus 379 ~~~i~v~F~~-~~~~~SGl~V~~l~v~~~~~~~~k~vry~t~sg~y~iR 426 (427)
+..|.|.-.. ..+.+||=.||-+.=..+.....|+---..+-|.|.||
T Consensus 41 fn~i~v~mn~~e~y~lsgrsidilsgdkeaiqlnkyti~f~kpg~yvir 89 (105)
T PRK06764 41 FNAIDVSMNINELYVLSGRSIDVLSGDKEAIQLNKYTIRFSKPGKYVIR 89 (105)
T ss_pred cceEEEEEeccceEEEcCceeeeecCChhheEeeeeEEEecCCccEEEE
Confidence 4567776664 35889996666544322334444442223457899888
No 31
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=24.55 E-value=1.7e+02 Score=21.82 Aligned_cols=32 Identities=9% Similarity=0.196 Sum_probs=27.5
Q ss_pred ccEEEEEEEeecCCCCceeeEEEEEeCCCCce
Q 014292 298 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 329 (427)
Q Consensus 298 ~~~~ei~l~~~~~~~~~~~~v~i~ip~p~~~~ 329 (427)
|..++++|.++......+.++.|.=++|.+..
T Consensus 40 Gd~v~ytitvtN~G~~~a~nv~v~D~lp~g~~ 71 (76)
T PF01345_consen 40 GDTVTYTITVTNTGPAPATNVVVTDTLPAGLT 71 (76)
T ss_pred CCEEEEEEEEEECCCCeeEeEEEEEcCCCCCE
Confidence 67899999999876678999999999998754
No 32
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=21.53 E-value=1.6e+02 Score=22.20 Aligned_cols=32 Identities=16% Similarity=0.261 Sum_probs=20.5
Q ss_pred ccEEEEEEEeecCCCCceeeEEEEEeCCCCce
Q 014292 298 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 329 (427)
Q Consensus 298 ~~~~ei~l~~~~~~~~~~~~v~i~ip~p~~~~ 329 (427)
|..+.+++.++......+.++.+++-+|.+|.
T Consensus 4 G~~~~~~~tv~N~g~~~~~~v~~~l~~P~GW~ 35 (78)
T PF10633_consen 4 GETVTVTLTVTNTGTAPLTNVSLSLSLPEGWT 35 (78)
T ss_dssp TEEEEEEEEEE--SSS-BSS-EEEEE--TTSE
T ss_pred CCEEEEEEEEEECCCCceeeEEEEEeCCCCcc
Confidence 45677777777655567899999999999997
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=21.30 E-value=1.4e+02 Score=23.74 Aligned_cols=21 Identities=24% Similarity=0.112 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHhCCcccccC
Q 014292 107 FVIVYELLDEMIDNGFPLTTE 127 (427)
Q Consensus 107 ~~~v~~lldEiid~G~p~~t~ 127 (427)
...|...|+++++.|.++.|-
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 367899999999999998874
No 34
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.65 E-value=6.4e+02 Score=22.81 Aligned_cols=34 Identities=18% Similarity=0.334 Sum_probs=25.2
Q ss_pred EEEEeCCEEEEEEecCCCChhHHHHHHHHHHHHHhhh
Q 014292 58 FQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDY 94 (427)
Q Consensus 58 ~~~~~~~L~fv~~~~~~~n~l~~~~~L~~~~~~l~~y 94 (427)
+|.+.++|--|++++.+=+--..+.+|+++ |++|
T Consensus 68 ~yvrndgL~~V~~~D~eYP~rvA~tLL~kv---ld~~ 101 (198)
T KOG0861|consen 68 VYVRNDGLCGVLIADDEYPVRVAFTLLNKV---LDEF 101 (198)
T ss_pred EEEecCCeeEEEEecCcCchhHHHHHHHHH---HHHH
Confidence 457777999999998877777777777654 4555
Done!