Query 014970
Match_columns 415
No_of_seqs 150 out of 1323
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 01:50:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014970.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014970hhsearch_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 1.1E-95 2E-100 671.1 38.2 408 1-414 1-446 (446)
2 KOG2740 Clathrin-associated pr 100.0 2.9E-84 6.4E-89 601.3 35.4 413 1-415 1-418 (418)
3 KOG0937 Adaptor complexes medi 100.0 2E-79 4.2E-84 589.2 39.9 401 2-415 1-424 (424)
4 PF00928 Adap_comp_sub: Adapto 100.0 1.3E-58 2.9E-63 440.2 29.5 247 167-415 1-262 (262)
5 KOG2635 Medium subunit of clat 100.0 5.2E-44 1.1E-48 340.0 34.3 401 1-413 2-511 (512)
6 KOG2677 Stoned B synaptic vesi 100.0 7.8E-32 1.7E-36 266.0 6.3 235 174-413 582-889 (922)
7 PF01217 Clat_adaptor_s: Clath 99.9 2.1E-26 4.5E-31 198.4 15.4 134 1-138 1-138 (141)
8 COG5030 APS2 Clathrin adaptor 99.9 3.3E-21 7.3E-26 156.9 11.6 131 1-133 1-133 (152)
9 KOG0935 Clathrin adaptor compl 99.8 3E-19 6.6E-24 141.5 9.8 134 1-135 1-136 (143)
10 KOG0934 Clathrin adaptor compl 99.8 3.8E-19 8.2E-24 144.9 6.7 128 1-130 1-130 (145)
11 KOG0936 Clathrin adaptor compl 99.8 3.8E-18 8.3E-23 140.9 9.7 141 1-143 1-149 (182)
12 KOG3343 Vesicle coat complex C 99.8 8.6E-18 1.9E-22 140.2 11.6 140 2-143 9-151 (175)
13 COG5541 RET3 Vesicle coat comp 99.3 7.4E-12 1.6E-16 104.3 8.7 138 2-140 8-155 (187)
14 PF10291 muHD: Muniscin C-term 99.2 3.8E-09 8.2E-14 99.7 24.2 226 181-413 3-256 (257)
15 PF15001 AP-5_subunit_s1: AP-5 96.7 0.034 7.4E-07 49.5 11.9 80 54-133 103-183 (189)
16 PF03164 Mon1: Trafficking pro 94.3 0.36 7.7E-06 49.1 10.5 90 3-94 12-102 (415)
17 PF08923 MAPKK1_Int: Mitogen-a 91.1 4.8 0.0001 33.4 11.1 90 2-93 17-114 (119)
18 PF13774 Longin: Regulated-SNA 89.3 3.5 7.5E-05 31.5 8.4 48 49-96 18-65 (83)
19 COG5122 TRS23 Transport protei 88.0 11 0.00024 30.6 10.4 90 2-96 3-107 (134)
20 KOG0997 Uncharacterized conser 85.0 4.1 9E-05 41.3 8.1 95 3-102 118-213 (523)
21 PF04099 Sybindin: Sybindin-li 82.3 22 0.00047 30.4 10.7 92 2-95 1-115 (142)
22 KOG0859 Synaptobrevin/VAMP-lik 82.1 38 0.00082 30.5 12.9 90 6-98 5-94 (217)
23 KOG0781 Signal recognition par 79.8 27 0.00059 35.9 11.7 112 1-115 1-115 (587)
24 PF09201 SRX: SRX; InterPro: 76.8 15 0.00034 30.9 7.5 73 1-73 1-86 (148)
25 PF03504 Chlam_OMP6: Chlamydia 72.3 25 0.00055 26.8 7.0 43 301-347 42-85 (95)
26 TIGR01451 B_ant_repeat conserv 46.7 64 0.0014 22.3 5.1 32 286-317 11-42 (53)
27 KOG3368 Transport protein part 45.9 1.8E+02 0.0039 24.4 10.3 83 2-89 3-102 (140)
28 KOG3369 Transport protein part 40.9 2.6E+02 0.0056 24.8 10.2 37 58-96 135-171 (199)
29 PF10633 NPCBM_assoc: NPCBM-as 38.2 1.5E+02 0.0033 21.9 6.5 31 287-317 5-35 (78)
30 PRK06764 hypothetical protein; 37.5 91 0.002 24.0 4.9 46 367-415 41-90 (105)
31 KOG0862 Synaptobrevin/VAMP-lik 36.3 3.4E+02 0.0074 24.9 10.3 48 50-97 54-101 (216)
32 PF13998 MgrB: MgrB protein 26.9 30 0.00064 20.9 0.6 25 111-135 3-27 (29)
33 PF13598 DUF4139: Domain of un 26.4 5.8E+02 0.013 24.4 10.9 106 243-356 194-312 (317)
34 KOG0861 SNARE protein YKT6, sy 24.6 5E+02 0.011 23.1 8.3 32 58-89 68-99 (198)
35 PF05753 TRAP_beta: Translocon 22.7 4.3E+02 0.0094 23.5 7.6 79 286-378 37-116 (181)
36 PF01345 DUF11: Domain of unkn 21.8 2E+02 0.0044 21.0 4.6 32 286-317 40-71 (76)
37 PF06919 Phage_T4_Gp30_7: Phag 21.1 1.1E+02 0.0024 24.5 2.9 32 208-240 52-83 (121)
38 KOG0647 mRNA export protein (c 21.1 1.7E+02 0.0036 28.4 4.7 104 186-296 201-315 (347)
No 1
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.1e-95 Score=671.08 Aligned_cols=408 Identities=29% Similarity=0.538 Sum_probs=370.7
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhhH
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMG 80 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~ 80 (415)
||+++||+|.+|++|+.|.||+ ++.++..|.|+.++++.. .-.+|+..++++.++|.+.++||+++++.+|.|.+++
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 3567999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCCcchhcccccccCC---CCCccC
Q 014970 81 IEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGN---SSNVSD 157 (415)
Q Consensus 81 ~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~s~~~k~~~~~~g~---~~~~~~ 157 (415)
++||..+.+++..|||+.+|+.|++||.+|||+||||+|+|+||+|++++|+..|.++.+-++- +...-+ .+++..
T Consensus 78 ~eFl~kl~avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~~al~~~is~~~Vrs~g-~~ls~k~s~~sq~~~ 156 (446)
T KOG0938|consen 78 FEFLYKLDAVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEPNALKAQISQKGVRSMG-GVLSSKSSPTSQATE 156 (446)
T ss_pred HHHHHHHHHHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCChhHHHhhhhhhhhhccc-cccCCcCCCCccccc
Confidence 9999999999999999999999999999999999999999999999999999999998774431 100000 011111
Q ss_pred CCCCCCCcCCccCCCCCCcccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeecCCCeeEEEecCCc---------
Q 014970 158 ILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS--------- 228 (415)
Q Consensus 158 ~~~~~~~~~~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~i~~~~~LsG~P~~~l~ln~~~--------- 228 (415)
...++.+..++||+.|++|++||+|+||.|++|..++++|++++++|+|.|.|+++|||||+|+++|||..
T Consensus 157 ~~ssqv~G~i~WRr~Gi~ykknevfldvvErvNlLmS~~GnVLrs~VsG~V~mk~~LSGmPeckfGlNDkl~~e~kq~es 236 (446)
T KOG0938|consen 157 LRSSQVTGKIGWRREGIKYKKNEVFLDVVERVNLLMSSDGNVLRSDVSGTVDMKTHLSGMPECKFGLNDKLGMESKQSES 236 (446)
T ss_pred ccccccccccccccccceeccceeEeEehheeeeEEcCCCCEEEeecccEEEEEEeccCCcccccccCcccceeeccccc
Confidence 22245567899999999999999999999999999999999999999999999999999999999999863
Q ss_pred ------------------ccccceecceeecCCCCCCceEEEeCCCCcEEEEEEEecCCCCCCEEEEEEEEEcCCceEEE
Q 014970 229 ------------------ILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRIS 290 (415)
Q Consensus 229 ------------------~l~~~~fH~cV~~~~~~~~~~l~f~PPdg~f~L~~Y~~~~~~~~P~~v~~~~~~~~~~~~~e 290 (415)
.++||+||+||++++|++++.|+|+||||+|+||+||++...++||.|.|.++. .+..+++
T Consensus 237 ks~~~n~~~~sks~~g~v~leDc~FHqCV~L~kFn~eh~IsFvPPDGe~ELMkYr~~enInlPFrV~PiV~e-l~r~kie 315 (446)
T KOG0938|consen 237 KSDFGNKNFPSKSGKGSVLLEDCTFHQCVRLDKFNSEHIISFVPPDGEFELMKYRVTENINLPFRVTPIVTE-LGRTKIE 315 (446)
T ss_pred cccccccCCCcccCCceEEeeccchheeeccccccccceEEEeCCCCceEeEeeeeccCcccceEeeeheec-ccceeEE
Confidence 289999999999999999999999999999999999999999999999999984 4578999
Q ss_pred EEEEeecCCC--CceeeEEEEEeCCCCceeeEEEeccccceeeeC--cEEEEEcCCCCCCCCeeEEEEEEeecCC--cCC
Q 014970 291 VMVGIRNDPG--KTIDSIILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGL--ETL 364 (415)
Q Consensus 291 i~~~~~~~~~--~~~~~v~v~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~~~~~~~~--~~~ 364 (415)
+.+.+++.++ ..+.+|.++||+|+++..++++++.|++ +|.+ ++++|+|.++.|..|.++++++++.+.. ...
T Consensus 316 ~ri~iks~f~~kl~a~~v~~rIPvP~ntv~~n~~v~~Gka-ky~psen~ivWki~kf~G~tE~tlsAevels~Tt~nkq~ 394 (446)
T KOG0938|consen 316 YRITIKSLFPPKLLAKDVVVRIPVPPNTVKCNISVSNGKA-KYVPSENAIVWKINKFNGLTESTLSAEVELSDTTQNKQQ 394 (446)
T ss_pred EEEEEeccCCchhhhcceEEEecCCCccccceeEEecCcc-ccCcccceEEEEecccCCcccceeEEEEEeccCcccccc
Confidence 9999999874 3889999999999999999999999999 9999 9999999999999999999999996543 335
Q ss_pred CCCCcEEEEEEECcccccccEEeEEEee--cCCCccccceEEEEecCcEEEc
Q 014970 365 RVFPTFQVEFRIMGVALSGLQIDKLDLQ--NVPNRLYKGFRAVTRAGEYEVR 414 (415)
Q Consensus 365 ~~~~pi~v~F~~~~~~~SGl~V~~l~v~--~~~~~~~k~vkY~t~sg~y~ir 414 (415)
|..|||+++|++|+++.||+.|++++|. +.+|+..|||||+|+||+||+|
T Consensus 395 WtrPPIsleFeV~MFt~SGL~VrylkV~e~~Sk~~~vkWVrYitkaGsyEiR 446 (446)
T KOG0938|consen 395 WTRPPISLEFEVPMFTNSGLVVRYLKVSEKDSKHRAVKWVRYITKAGSYEIR 446 (446)
T ss_pred ccCCCceeEEeeeeecCCceEEEEEEEecccCCCceEEEEEEecccceeeeC
Confidence 8899999999999999999999999994 4689999999999999999998
No 2
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.9e-84 Score=601.31 Aligned_cols=413 Identities=51% Similarity=0.859 Sum_probs=389.4
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhhH
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMG 80 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~ 80 (415)
||.+||++|.+|++++++++++....|+.++.|+.......+..+.||++....+|++.+-++++||++++..+..||++
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 99999999999999999999974677999999998887766667788899899999998889999999999999999999
Q ss_pred HHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCCcchhcccccccCCCCCccCCCC
Q 014970 81 IEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILP 160 (415)
Q Consensus 81 ~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~s~~~k~~~~~~g~~~~~~~~~~ 160 (415)
++|||++++++.+|||+++|.+|++|+..||++||||+|+|+|..||+|.||++|+.++++++.+++++| ++|++.++|
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 9999999999999999999999999999999999999999999999999999999999999988999999 688999999
Q ss_pred CCCCcCCccCCCCCCcccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeecCCCeeEEEecCCcccccceecceee
Q 014970 161 GATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILHDVRFHPCVR 240 (415)
Q Consensus 161 ~~~~~~~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~i~~~~~LsG~P~~~l~ln~~~~l~~~~fH~cV~ 240 (415)
.++.+.+|||+.+.+|.+||.||||.|+++|+++++|.++.++|.|.+.|+|.|+|||++.|.|+++..++|++|||||+
T Consensus 160 tg~~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~k~gslv~~eI~g~vd~~~qLsgmPdltlsl~np~~L~dvsfHpcVr 239 (418)
T KOG2740|consen 160 TGALSNVPWRTAGVKYTNNEAYVDVLEEIDAIVDKKGSLVFGEIQGIVDVCSQLSGMPDLTLSLNNPRLLGDVSFHPCVR 239 (418)
T ss_pred CcccccccccccCcccccchhhhhhhheeheEecCCCCEEEEEEEEEEEEEEeecCCCceEEEccCccccCCccccccee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCceEEEeCCCCcEEEEEEEecC--CCCCCEEEEEEEEEcCCc-eEEEEEEEeecCCCCceeeEEEEEeCCCCce
Q 014970 241 FRPWESHQILSFVPPDGQFKLMSYRVKK--LKSTPIYVKPQLTSDAGT-CRISVMVGIRNDPGKTIDSIILQFQLPPCIL 317 (415)
Q Consensus 241 ~~~~~~~~~l~f~PPdg~f~L~~Y~~~~--~~~~P~~v~~~~~~~~~~-~~~ei~~~~~~~~~~~~~~v~v~ip~p~~~~ 317 (415)
..+|++++.|+|+||||+|.||+|+++. ....|..+..+.+..++. +++++.++.+..+.+.++.+.|++..|+.+.
T Consensus 240 ~krwe~~~~lsFIPPDGkFrLlsy~v~~~~~v~~pvyv~~~i~l~~~~~~ri~~tvg~~~~~gK~ie~itVt~~~pn~i~ 319 (418)
T KOG2740|consen 240 YKRWESHSVLSFIPPDGKFRLLSYRVDAQNQVAIPVYVKNSISLDSNHQGRISLTVGPKKKMGKTIELITVTVQDPNEIA 319 (418)
T ss_pred ecccccccceEEcCCCCcEEEEEEEEehhhccccceEEeeeeccCCCceEEEEEeccccccccceeEeEEEEecCcccee
Confidence 9999999999999999999999999986 466899999999887655 6777777666667789999999999999999
Q ss_pred eeEEEeccccceeeeC--cEEEEEcCCCCCCCCeeEEEEEEeecCCcCCCCCCcEEEEEEECcccccccEEeEEEeecCC
Q 014970 318 SADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVP 395 (415)
Q Consensus 318 ~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~~~~~~~~~~~~~~~pi~v~F~~~~~~~SGl~V~~l~v~~~~ 395 (415)
..+..+++|+. .++. +.+.|+++++..+.-++|+|+++++++..+..+++.+++.|++.+.++||++|+++++.+..
T Consensus 320 ~~~k~~~~g~~-~~~~~~k~l~W~~~~i~tg~lp~Lkg~~~~e~~~sk~~~l~t~~Lqykiqg~alsglkVe~Ldm~~~~ 398 (418)
T KOG2740|consen 320 YASKILTHGTF-TNSIIMKQLTWTFGSIATGKLPVLKGTINLEPGFSKKVDLPTLSLQYKIQGQALSGLKVERLDMYGEP 398 (418)
T ss_pred eeeccccccee-EeecccceeEEEeecccCCcccccccccccCCCCCccccCcccceeeeeeeeeccceEEEeeeecCCC
Confidence 99999999999 8888 99999999998888899999999998888888999999999999999999999999999999
Q ss_pred CccccceEEEEecCcEEEcC
Q 014970 396 NRLYKGFRAVTRAGEYEVRS 415 (415)
Q Consensus 396 ~~~~k~vkY~t~sg~y~ir~ 415 (415)
|++||||||.|+||.+++|+
T Consensus 399 ~k~yKGvKy~t~agnfqvR~ 418 (418)
T KOG2740|consen 399 YKPYKGVKYKTKAGNFQVRL 418 (418)
T ss_pred CccccceEEEEeeeeEEEeC
Confidence 99999999999999999996
No 3
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2e-79 Score=589.16 Aligned_cols=401 Identities=29% Similarity=0.549 Sum_probs=359.6
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhhHH
Q 014970 2 LQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMGI 81 (415)
Q Consensus 2 I~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~~ 81 (415)
++|+||+|.+|++|++|.||. +.+.+..+.|++++......+..+|++..++..+.|.+++++|++++++.+.+++.++
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 8999999999976665434456789999987777779999999999999999999999
Q ss_pred HHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCCcchhcccccccCCCCCccCCCCC
Q 014970 82 EFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPG 161 (415)
Q Consensus 82 ~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~s~~~k~~~~~~g~~~~~~~~~~~ 161 (415)
+||+++++++.+||+.+.|+.++.|+.++||+|||++||||||.|+...|++|+.+++. +++. .+...|.
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 99999999999999999999999999999999999999999999999999999999854 3322 1113456
Q ss_pred CCCcCCccCCCCCCcccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeecCCCeeEEEecCCc-------------
Q 014970 162 ATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS------------- 228 (415)
Q Consensus 162 ~~~~~~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~i~~~~~LsG~P~~~l~ln~~~------------- 228 (415)
+.+..++||+.|+.|+|||+|+||+|++++.++++|.++.++|.|+|+|||+|+|||+++|+||+..
T Consensus 150 avtnavsWrs~gi~~~KnevflDViE~Vs~l~~~~G~vl~s~i~G~I~~k~~LsGmPelrl~ln~~~~~~~~~~~~~s~~ 229 (424)
T KOG0937|consen 150 AVTNAVSWRSEGIYYGKNEVFLDVIESVSLLYDSNGIVLLSEIVGTIKLKCYLSGMPELRLGLNDKVLFDKQGPRSKSKG 229 (424)
T ss_pred ccccceeecccccccccceEEEEhhhhhhHhhhcCCcEEEeeeeeEEEEEEEcCCCceeeeecCcccccccccccccCcc
Confidence 6778888999999999999999999999999999999999999999999999999999999999753
Q ss_pred -ccccceecceeecCCCCCCceEEEeCCCCcEEEEEEEecCCCCCCEEEEEEEEEcCCceEEEEEEEeecCCCC--ceee
Q 014970 229 -ILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDS 305 (415)
Q Consensus 229 -~l~~~~fH~cV~~~~~~~~~~l~f~PPdg~f~L~~Y~~~~~~~~P~~v~~~~~~~~~~~~~ei~~~~~~~~~~--~~~~ 305 (415)
.++|++||+||++++|+.+|.|+|+||||+|+||+||++....|++.+ +.+.+..++.++++.++++++++. .+++
T Consensus 230 v~ledi~fh~~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~vkPli~~-~~~~~~~~~~ri~i~~K~~~~fk~~~~a~~ 308 (424)
T KOG0937|consen 230 VELEDIKFHECVRLSRFDNDRTISFIPPDGEFELMRYRLSTHVKPLIWF-YQLIEEHSRSRIEVMVKLREQFKSRSSANN 308 (424)
T ss_pred eEeeecccceeechhhccCCceEEecCCCCceEEEEEEecCCCCCeEEe-eeeeeeccceeEEEEEechhhcCCccccce
Confidence 378999999999999999999999999999999999998877744444 555555567899999999998764 8999
Q ss_pred EEEEEeCCCCceeeEEEeccccceeeeC--cEEEEEcCCCCCCCCeeEEEEEEeecCCcC---CCCCCcEEEEEEECccc
Q 014970 306 IILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLET---LRVFPTFQVEFRIMGVA 380 (415)
Q Consensus 306 v~v~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~~~~~~~~~~---~~~~~pi~v~F~~~~~~ 380 (415)
|+|.||+|..++.+..+++.|++ +|.+ ++++|+|++++++.+.++++++.+.....+ ....+|++|+|+||+++
T Consensus 309 v~I~iP~P~~a~~~~fk~s~G~~-~~~~e~~~l~W~I~~~~gg~e~~~r~~~~lp~~~~e~~~~~~~~pi~v~FeIp~~T 387 (424)
T KOG0937|consen 309 VEICIPVPDDASSPSFKTSLGSA-KYDPEKSALRWTIKKFVGGKEYSLRARMDLPSEEHEEQCTEGLGPIKVKFEIPYFT 387 (424)
T ss_pred EEEEeeCCCccccceEeccCCce-eeecccceEEEEeccccCCceEEEEEeecCCccccCCCCcccCCceEEEEEecccc
Confidence 99999999999999999999999 9988 999999999999999999999999654332 35688999999999999
Q ss_pred ccccEEeEEEee--cCCCccccceEEEEecCcEEEcC
Q 014970 381 LSGLQIDKLDLQ--NVPNRLYKGFRAVTRAGEYEVRS 415 (415)
Q Consensus 381 ~SGl~V~~l~v~--~~~~~~~k~vkY~t~sg~y~ir~ 415 (415)
.||++|+++++. ..+|++.+||||.|+||.|++|.
T Consensus 388 ~SgiqVrylki~ep~~~y~s~~WVRy~T~s~~Y~~r~ 424 (424)
T KOG0937|consen 388 VSGIQVRYLKIIEPKSQYQSLPWVRYNTQSGPYEIRV 424 (424)
T ss_pred cCCeEEEEEEecccccCCCccceEEEEccCCceEeeC
Confidence 999999999993 35899999999999999999995
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=440.23 Aligned_cols=247 Identities=35% Similarity=0.715 Sum_probs=210.6
Q ss_pred CccCCCCCCcccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeecCCCeeEEEecCC-------cccccceeccee
Q 014970 167 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANP-------SILHDVRFHPCV 239 (415)
Q Consensus 167 ~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~i~~~~~LsG~P~~~l~ln~~-------~~l~~~~fH~cV 239 (415)
+|||+.+++|++|||||||+|+++|+++++|.+..++|.|+|.|+++|+|+|+|+|+|+++ ..++|++|||||
T Consensus 1 ~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~~~~~~~l~~~~fH~cV 80 (262)
T PF00928_consen 1 VPWRPSGIKYKKNEIFVDVVEKISAVLDRDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVVSKNGIKLDDVSFHPCV 80 (262)
T ss_dssp -TTS-STB--SSEEEEEEEEEEEEEEEETTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCCTSSSBEESEEEEETTE
T ss_pred CCcccCCcccccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCccccccCceeeeceeecccc
Confidence 5899999999999999999999999999999999999999999999999999999999998 679999999999
Q ss_pred ecCCCCCCceEEEeCCCCcEEEEEEEecCCCCCCEEEEEEEEEcCCceEEEEEEEeecCCCC--ceeeEEEEEeCCCCce
Q 014970 240 RFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCIL 317 (415)
Q Consensus 240 ~~~~~~~~~~l~f~PPdg~f~L~~Y~~~~~~~~P~~v~~~~~~~~~~~~~ei~~~~~~~~~~--~~~~v~v~ip~p~~~~ 317 (415)
|+++|++++.|+|+||||+|+||+||++....+||.++|++.. .+++++++.++++++.+. .+++|.|+||+|+.+.
T Consensus 81 ~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~-~~~~~~~v~i~~~~~~~~~~~~~~v~I~iplP~~~~ 159 (262)
T PF00928_consen 81 DLSKFESDRVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSE-KSSGRFEVTIELESNFPNKISLENVVIRIPLPPGTS 159 (262)
T ss_dssp ECCCCCSHTEEEE---SEEEEEEEEEEESSS--SEEEEEEEEE-ETTTEEEEEEEEEE-S-TTSEEEEEEEEEE--TTEE
T ss_pred CccccccccceecCCCCceEEEEEEEccCCCCCCcEEEEEecc-CCCceEEEEEEecccCCCCceeceEEEEeecCCccc
Confidence 9999999999999999999999999999888999999999997 457899999998877654 8999999999999999
Q ss_pred eeEEEeccccceeeeC--cEEEEEcCCCCCCCCeeEEEEEEeecCCcCCC--CCCcEEEEEEECcccccccEEeEEEeec
Q 014970 318 SADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLETLR--VFPTFQVEFRIMGVALSGLQIDKLDLQN 393 (415)
Q Consensus 318 ~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~~~~~~~~~~~~--~~~pi~v~F~~~~~~~SGl~V~~l~v~~ 393 (415)
.+++.++.|++ +|+. +.++|+|++++++.+++++|++++......+. .++|++|+|+++++++||++|++++|.+
T Consensus 160 ~~~~~~~~G~~-~~~~~~~~l~W~I~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~pi~v~F~~~~~~~Sgl~V~~l~v~~ 238 (262)
T PF00928_consen 160 SPSIESSDGSA-EYDEEENALVWKIKKLPGGSESTLSGTLEFSSPSSVPSDWSFFPISVEFTIPGYTLSGLKVRSLDVVN 238 (262)
T ss_dssp EEEEEESSSEE-EEETGCTEEEEEEEEEETSEEEEEEEEEEEEEECCSS-S-----EEEEEEESTSETTT-EEEEEEEE-
T ss_pred cceeeecCceE-EEEccCCEEEEEECCccCcccccEEEEEEecCCCcccccccceeEEEEEEeCCcccCCCEEEEEEeEe
Confidence 99999999999 9999 89999999999988999999999976554333 6889999999999999999999999976
Q ss_pred --CCCccccceEEEEecCcEEEcC
Q 014970 394 --VPNRLYKGFRAVTRAGEYEVRS 415 (415)
Q Consensus 394 --~~~~~~k~vkY~t~sg~y~ir~ 415 (415)
++++|+|||||.|+||+|+||+
T Consensus 239 ~~~~~~~~k~vky~t~s~~Y~iR~ 262 (262)
T PF00928_consen 239 EDENYKPYKWVKYVTKSGSYEIRT 262 (262)
T ss_dssp SSCGGGSEEEEEEEEEEEEEEE--
T ss_pred cCCCCCCcccEEEEEEcCcEEEcC
Confidence 6899999999999999999996
No 5
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=5.2e-44 Score=339.96 Aligned_cols=401 Identities=18% Similarity=0.263 Sum_probs=316.0
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhhH
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMG 80 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~ 80 (415)
|+-+..|.+..|+.+++|+|++ ++|..++.+.....+.-..++++++++.+...++|++.+++|+|.+|+.++|++..
T Consensus 2 vvlaa~i~t~~Gk~ivsRqf~~--Msr~RIEgLl~aFpkLv~~~~qhT~vEt~~VRYVYqP~d~lY~vLITtk~SNIleD 79 (512)
T KOG2635|consen 2 VVLAASINTKTGKAIVSRQFRE--MSRSRIEGLLAAFPKLVSAGKQHTFVETDSVRYVYQPLDNLYIVLITTKQSNILED 79 (512)
T ss_pred eEEEEEEeecCCceeeehHhHh--hhHHHHHHHHHHhHHhhccCCCccEEecccEEEEEEecccEEEEEEeccccchhhH
Confidence 3557788899999999999995 88877664433333322225778999996544445999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCCcchhccccccc-----------
Q 014970 81 IEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVT----------- 149 (415)
Q Consensus 81 ~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~s~~~k~~~~~~----------- 149 (415)
++.|+.|.+++.+||..+.|..|.+|.+.+...+||++.-||..+.+..++|.|..|+||++|++..+.
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 999999999999999999999999999999999999999999999999999999999999999876431
Q ss_pred -----------------C-C-------------CC----Cc-cC-----CCC----CCCCcCCc---c------------
Q 014970 150 -----------------G-N-------------SS----NV-SD-----ILP----GATASCVP---W------------ 169 (415)
Q Consensus 150 -----------------g-~-------------~~----~~-~~-----~~~----~~~~~~~~---w------------ 169 (415)
| . ++ +. +. ..| ....+..| .
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 00 000 00000000 0
Q ss_pred --------------------------CCCCCCcccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeecCCCeeEEE
Q 014970 170 --------------------------RPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLS 223 (415)
Q Consensus 170 --------------------------R~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~i~~~~~LsG~P~~~l~ 223 (415)
.+.......+.+++.+.|+|++.+++||.+.+++++|.+.++....-...+.|.
T Consensus 240 ~d~Lk~ege~ia~~~s~~g~~s~aap~~~~p~v~~e~v~i~ieEkln~~~~RDGgi~s~E~qG~lsLrI~d~e~~~i~lk 319 (512)
T KOG2635|consen 240 VDKLKGEGERIAGASSAIGSASSAAPPPTAPDVPEESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSLRIKDEEYGDIELK 319 (512)
T ss_pred HHHhhccccccccccccccccccCCCCCCCCCCccceEEEEEeeeEeEEEcccCCccceeeeeeEEEEEccccccceEEE
Confidence 001112234569999999999999999999999999999999999888889999
Q ss_pred ecCCc-ccccceecceeecCCCCCCceEEEeCCCCcEE------EEEEEecC--CCCCCEEEEEEEEEcCCceEEEEEEE
Q 014970 224 FANPS-ILHDVRFHPCVRFRPWESHQILSFVPPDGQFK------LMSYRVKK--LKSTPIYVKPQLTSDAGTCRISVMVG 294 (415)
Q Consensus 224 ln~~~-~l~~~~fH~cV~~~~~~~~~~l~f~PPdg~f~------L~~Y~~~~--~~~~P~~v~~~~~~~~~~~~~ei~~~ 294 (415)
|++.. .--++++||++|++.|.++..|.+.+|+..|+ |++||... ....|++++||++.+.++ ++|.+.
T Consensus 320 l~n~~~~g~q~ktHPNlDK~~f~s~s~iglk~~~K~FPvn~~VGvLkWR~~~~des~iPlTincWPSes~~g--~dV~iE 397 (512)
T KOG2635|consen 320 LANGRDKGTQLKTHPNLDKKVFLSSSLIGLKRPEKPFPVNSDVGVLKWRMVDEDESEIPLTINCWPSESGNG--YDVNIE 397 (512)
T ss_pred EcCCCCcceeeeeCCCcchhhhccccccccccCCCCCCcCCcceEEEEeecccccccCceEEEeccccCCCC--eEEEEE
Confidence 97632 34578999999999999999999999999997 79999976 577899999999876544 444444
Q ss_pred eecCCCCceeeEEEEEeCCCCceeeEEEeccccceeeeC--cEEEEEcCCCCCCCCeeEEEEEEeecCCcCCCCCCcEEE
Q 014970 295 IRNDPGKTIDSIILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLETLRVFPTFQV 372 (415)
Q Consensus 295 ~~~~~~~~~~~v~v~ip~p~~~~~~~~~~~~G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~~~~~~~~~~~~~~~pi~v 372 (415)
+.....-.+.||.|.||+|.++ .+++...+|.+ .|++ +.+.|+|+.+.. ..+|+++|+.....++.++|++|
T Consensus 398 Ye~~~~~eL~dV~i~iPlP~~i-apsv~~~Dge~-~~~~~~~~leW~I~~Ia~----N~SGslEFs~~~~~~~~fFPl~V 471 (512)
T KOG2635|consen 398 YEAVLECELNDVIITIPLPANI-APSVGECDGEY-RYDERKNVLEWSIGVIAK----NFSGSLEFSCPASDPDGFFPLSV 471 (512)
T ss_pred EeehhcccccceEEEeeccccc-CCccceecceE-EeccccceeEEEeeeecc----CCCCcEEEeecCCCCCceeeEEE
Confidence 4442234799999999999998 78899999999 9988 999999999833 46789999887888899999999
Q ss_pred EEEECcccccccEEeEEEeecCCCccccc-eEEEEecCcEEE
Q 014970 373 EFRIMGVALSGLQIDKLDLQNVPNRLYKG-FRAVTRAGEYEV 413 (415)
Q Consensus 373 ~F~~~~~~~SGl~V~~l~v~~~~~~~~k~-vkY~t~sg~y~i 413 (415)
+|... .+++|+.|.++.-.++. .+.+. ++=.-.+..|+|
T Consensus 472 sF~s~-~~ftgl~vqkVv~~~~~-~~~~y~~~t~f~~dky~V 511 (512)
T KOG2635|consen 472 SFTSD-TVFTGLFVQKVVRNDGH-APVRYSVETTFEVDKYEV 511 (512)
T ss_pred EEEec-ccccceEEEEEEEcCCC-CCceeEEEEEEEeeeeEe
Confidence 99998 58999999998774333 22222 343444677775
No 6
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.97 E-value=7.8e-32 Score=265.98 Aligned_cols=235 Identities=22% Similarity=0.409 Sum_probs=200.0
Q ss_pred CCcccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeecCCCeeEEEecCCc---------------------cccc
Q 014970 174 VKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS---------------------ILHD 232 (415)
Q Consensus 174 ~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~i~~~~~LsG~P~~~l~ln~~~---------------------~l~~ 232 (415)
..|..+||.|||.++.+++++++|.+....+.-+|.|-|||+|.|+|.|+||+-. .+.+
T Consensus 582 ~nY~e~EI~v~~~Defsg~V~Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t~kwI~~~~ 661 (922)
T KOG2677|consen 582 SNYLEEEITVDVRDEFSGIVSKEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTTTKWIKLHE 661 (922)
T ss_pred cccccceeEEEEEeccceeecccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEeccccccccccceeeee
Confidence 3688999999999999999999999999999999999999999999999999753 2788
Q ss_pred ceecceeecCCCCCCceEEEeCCCC-cEEEEEEEecC-CCCCCEEEEEEEEEcCCceEEEEEEEeec--C-----C---C
Q 014970 233 VRFHPCVRFRPWESHQILSFVPPDG-QFKLMSYRVKK-LKSTPIYVKPQLTSDAGTCRISVMVGIRN--D-----P---G 300 (415)
Q Consensus 233 ~~fH~cV~~~~~~~~~~l~f~PPdg-~f~L~~Y~~~~-~~~~P~~v~~~~~~~~~~~~~ei~~~~~~--~-----~---~ 300 (415)
|.||.||+.+.|+++|+|.|.|||| .|+|||||+.. ...+||+++..+... |.++||+..++. . . -
T Consensus 662 ~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftlks~~~V~--Ga~VEvq~~~~mat~~qr~rd~~~~ 739 (922)
T KOG2677|consen 662 CRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTLKSATSVN--GAEVEVQSWLRMATGFQRNRDPLTQ 739 (922)
T ss_pred eeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceeeeeeeeec--cceeehHHHHHHHhhhhhccCcccc
Confidence 9999999999999999999999999 79999999875 467899999887754 467777543331 1 1 1
Q ss_pred CceeeEEEEEeCCCCcee--------------------------------eEEEeccccceeeeC--cEEEEEcCCCCCC
Q 014970 301 KTIDSIILQFQLPPCILS--------------------------------ADLTSNHGTVNVLSN--KICTWSIGRIPKD 346 (415)
Q Consensus 301 ~~~~~v~v~ip~p~~~~~--------------------------------~~~~~~~G~~~~~~~--~~l~W~I~~~~~~ 346 (415)
..|+|+.|++|+|..|.. +.++++.|++ +|+. +.++|+|++++.+
T Consensus 740 vpCenI~IrfPVPs~WIk~fr~e~~~g~kSlkaK~nR~a~~gsl~~~~sepvi~vt~G~A-KYEhay~siVWrI~RLPdK 818 (922)
T KOG2677|consen 740 VPCENIMIRFPVPSEWIKNFRRESVLGEKSLKAKVNRGASFGSLSVSGSEPVIRVTLGTA-KYEHAYNSIVWRINRLPDK 818 (922)
T ss_pred CcccceeEeccCcHHHHHHHHHHhhhccchhhhhhcccccccchhhccCCceEEEeecch-hhHHhhhhheeecccCCcc
Confidence 399999999999987642 2478899999 9999 9999999999753
Q ss_pred -----CCeeEEEEEEeecCCcCCCC-CCcEEEEEEECcccccccEEeEEEeecCCCccccceEEEEecCcEEE
Q 014970 347 -----KAPSLSGTMVLETGLETLRV-FPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEV 413 (415)
Q Consensus 347 -----~~~~l~g~~~~~~~~~~~~~-~~pi~v~F~~~~~~~SGl~V~~l~v~~~~~~~~k~vkY~t~sg~y~i 413 (415)
..+.|.|.+++++..+.+.+ .+.+.|+|++|..++|...|+++.|+. .-.+.|||+|... .+|++
T Consensus 819 nsa~~hpHcl~c~lELgSd~evPs~f~p~~~V~FsmP~t~aS~t~VRSisVE~-~~~v~K~V~y~A~-Y~yqv 889 (922)
T KOG2677|consen 819 NSASGHPHCLFCHLELGSDREVPSRFAPHVNVEFSMPTTSASKTSVRSISVED-KTDVRKWVNYSAH-YSYQV 889 (922)
T ss_pred ccccCCCeeEEEEEeccccccCchhhccccceeeeccccccccceeeeeeccc-cccHHHHHhhhhh-eeeee
Confidence 46889999999887666655 467999999999999999999999964 4569999999765 55554
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=2.1e-26 Score=198.40 Aligned_cols=134 Identities=29% Similarity=0.482 Sum_probs=113.7
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcch----HHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCC
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVDRSI----CDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMP 76 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~~~~----~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n 76 (415)
||+|++|+|++|+++++|||++ .+... .+.+.+....+. .+.+|++.++++.++|+++++|||+++++.++|
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~--~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eN 76 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRD--VSEEERQKLFEKFIKKKSSRN--SKQSPIFEHDNYRIVYKRYSDLYFVVVGDENEN 76 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESST--STSHHHHHHHHHHHHHHHTSS--SSSTSEEEETTEEEEEEEETTEEEEEEESSTSB
T ss_pred CEEEEEEEcCCCCEEEehhcCC--ccHHHHHHHHHHHHHHHHhcc--cccceeeecccceeeeEeeccEEEEEEeecccc
Confidence 9999999999999999999965 44222 233333333321 345899999998889999999999999999999
Q ss_pred hhhHHHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCC
Q 014970 77 PLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPP 138 (415)
Q Consensus 77 ~l~~~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~ 138 (415)
+++++++|+.+.++|+.||++++|.+|++||+.+|++||||+|+|+|++||++.|.+.+.+.
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 99999999999999999999999999999999999999999999999999999998887654
No 8
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=99.86 E-value=3.3e-21 Score=156.92 Aligned_cols=131 Identities=21% Similarity=0.259 Sum_probs=115.1
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCC--cchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChh
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVD--RSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPL 78 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~--~~~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l 78 (415)
||++++|+|++|++++.|||.+.+.+ ...+...+..++.++. +.+.+++.....++|+++++|||+.+.+.++|++
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 MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISARKP--KESNFIEGKNEKIVYRRYATLYFVFGVDNDDNEL 78 (152)
T ss_pred CeEEEEEEcCCCceeeeEeeccCCcHHHHHHHHHHHHHHHcCCc--hhcccccccCcEEEeeecCcEEEEEEEcCCCCcc
Confidence 89999999999999999999874444 2244557777776533 4667888877678889999999999999999999
Q ss_pred hHHHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhh
Q 014970 79 MGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILRE 133 (415)
Q Consensus 79 ~~~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~ 133 (415)
.+++++|.|+++|+.|||++||.++..||-.+|.+||||+-+|..++++++.+.+
T Consensus 79 ~iL~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl~ 133 (152)
T COG5030 79 IILELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVLE 133 (152)
T ss_pred hHHHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHHH
Confidence 9999999999999999999999999999999999999999999999999987654
No 9
>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.80 E-value=3e-19 Score=141.51 Aligned_cols=134 Identities=21% Similarity=0.241 Sum_probs=111.2
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCC-cc-hHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChh
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVD-RS-ICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPL 78 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~-~~-~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l 78 (415)
||..|+|.|+.|+.+++|||.+.+-+ +. ..++..+.+..+.. .....+.+-....++++++++|||+.+.+...|++
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 99999999999999999999763322 22 34456666665432 33333444466777778999999999999999999
Q ss_pred hHHHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhcc
Q 014970 79 MGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMI 135 (415)
Q Consensus 79 ~~~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i 135 (415)
+.++.+|.++++|+.||+++||.++..||-.+|.++|||+-+|.+++|+...+.+.+
T Consensus 80 ayLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vlerl 136 (143)
T KOG0935|consen 80 AYLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVLERL 136 (143)
T ss_pred HHHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999987765544
No 10
>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.77 E-value=3.8e-19 Score=144.88 Aligned_cols=128 Identities=22% Similarity=0.237 Sum_probs=109.6
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCC-cchH-HHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChh
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVD-RSIC-DWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPL 78 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~-~~~~-~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l 78 (415)
||++++..+++|+.+++|||...+.. |..+ ....+.++.++ .+.+.+++..+..++|+++++|||++..+.++|++
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 89999999999999999999862221 2222 23444444432 36788999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhh
Q 014970 79 MGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNI 130 (415)
Q Consensus 79 ~~~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~ 130 (415)
.++|++|+++++|+.|||+++|.+|..||..+|.+|||++-.|..+++..+.
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 9999999999999999999999999999999999999999999988887654
No 11
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.75 E-value=3.8e-18 Score=140.87 Aligned_cols=141 Identities=16% Similarity=0.189 Sum_probs=119.0
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCC--cchHHHHHHHHhccCCCCCCCCEEEc------CCEEEEEEEeCCEEEEEEec
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVD--RSICDWFWDHVISQGDSFKSMPVIAS------PTHYIFQIVRAGITFLACTQ 72 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~--~~~~~~f~~~~~~~~~~~~~~~i~~~------~~~~~~~~~~~~l~~v~~~~ 72 (415)
||+|++|+|.+|++++.|+|.+.+.+ +..+...+..+.++++ ..+.+++. .+..++|+.++-|||+.+.+
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 MIKAVLIFNNKGKPRLVKFYTPVDEEKQQQLIREVFHLVSKRPD--NVCNFLEGNSLIGGSDNRLIYRHYATLYFVFVVD 78 (182)
T ss_pred CeeEEEEecCCCCcceeeecCcCChHHHHHHHHHHHHHHHcCCc--hHhhhhccccccCCccceeehheeeeEEEEEEEc
Confidence 99999999999999999999974443 4455666777776643 34455543 36777889999999999999
Q ss_pred CCCChhhHHHHHHHHHHHHhhhcCCCCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCCcchhc
Q 014970 73 VEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSK 143 (415)
Q Consensus 73 ~~~n~l~~~~~L~~i~~~l~~~~~~l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~s~~~k 143 (415)
..++++.++++++-|++.|+..|.+++|.++..|+..++.+|+|++.+|.+++|+.+.+..-+...+-.+|
T Consensus 79 ~sEsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~~~nklek 149 (182)
T KOG0936|consen 79 SSESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVDEQNKLEK 149 (182)
T ss_pred CCcchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHHHhchhhh
Confidence 99999999999999999999999999999999999999999999999999999999987776665444333
No 12
>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.75 E-value=8.6e-18 Score=140.16 Aligned_cols=140 Identities=21% Similarity=0.282 Sum_probs=122.8
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcch--HHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhh
Q 014970 2 LQCIFLLADNGAVILEKQLTGHRVDRSI--CDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLM 79 (415)
Q Consensus 2 I~~i~I~~~~G~~l~~r~y~~~~~~~~~--~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~ 79 (415)
+++++|+|++|+++++|||.+ +.+... ..+|.+.+.+.+.. ....|...++..++|+..-||||.++...++|+++
T Consensus 9 vk~iliLD~~G~Ri~aKYY~~-~~~s~vkeqkaFEK~lF~KT~k-t~~eI~~ldg~~vvYk~~~Dl~fyv~G~~~ENEl~ 86 (175)
T KOG3343|consen 9 VKAILILDSDGKRILAKYYDD-PHPSTVKEQKAFEKNLFSKTSK-TESEILLLDGNTVVYKSVIDLHFYVVGSEEENELM 86 (175)
T ss_pred hheEEEEcCCCCEeeeeecCC-CcchhHHHHHHHHHHHhccccc-ccceeEEecCcEEEEEecccEEEEEecCcchhHHH
Confidence 689999999999999999998 776533 34699999876543 33456777888888899999999999999999999
Q ss_pred HHHHHHHHHHHHhhhcCC-CCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCCcchhc
Q 014970 80 GIEFLCRVADILSDYLGE-LNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSK 143 (415)
Q Consensus 80 ~~~~L~~i~~~l~~~~~~-l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~s~~~k 143 (415)
..+.|+++.+.+.-.+++ +....+.+|++.+...+|||||+|.+++||++++...+..++....
T Consensus 87 L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp~~ia~rv~~~~~~~~ 151 (175)
T KOG3343|consen 87 LMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDPNQIAQRVALRPTDEP 151 (175)
T ss_pred HHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCHHHHHHHhccCCCCcc
Confidence 999999999999999985 8888999999999999999999999999999999999988876553
No 13
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=7.4e-12 Score=104.30 Aligned_cols=138 Identities=13% Similarity=0.145 Sum_probs=113.8
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCc-------c--hHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEec
Q 014970 2 LQCIFLLADNGAVILEKQLTGHRVDR-------S--ICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQ 72 (415)
Q Consensus 2 I~~i~I~~~~G~~l~~r~y~~~~~~~-------~--~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~ 72 (415)
+.|++|+|++|++++.|||.++-.++ + --.+|.+++..... .....|....++-+.+....++.++.+..
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 VEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEKTA-KDRESILMFYDRLVMCKRLDDVLLYIVSP 86 (187)
T ss_pred eeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHHhh-cCccceeeEcceeeeeeeehhEEEEEecc
Confidence 57999999999999999998722221 1 12358788776543 23345666666666669999999999999
Q ss_pred CCCChhhHHHHHHHHHHHHhhhcCC-CCHHHHHhhHHHHHHHHHHHhcCCcccccChhhHhhccCCCcc
Q 014970 73 VEMPPLMGIEFLCRVADILSDYLGE-LNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNI 140 (415)
Q Consensus 73 ~~~n~l~~~~~L~~i~~~l~~~~~~-l~e~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~~~i~~~s~ 140 (415)
-++|+.++.+.+..|...|.-.++. ..++.+.+||+.+..++||.||.|.+.+|+++.+.+.++.++.
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 9999999999999999999999997 5666699999999999999999999999999999999998654
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=99.24 E-value=3.8e-09 Score=99.65 Aligned_cols=226 Identities=19% Similarity=0.257 Sum_probs=129.5
Q ss_pred EEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeec------CCCeeEEEecCCcccccceecceeecCCCCCCceEEEeC
Q 014970 181 VYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLS------GLPDLTLSFANPSILHDVRFHPCVRFRPWESHQILSFVP 254 (415)
Q Consensus 181 i~vdv~E~i~~~~~~~G~~~~~~v~G~i~~~~~Ls------G~P~~~l~ln~~~~l~~~~fH~cV~~~~~~~~~~l~f~P 254 (415)
+-..|+|.|||.+. +|.+....|.|+|.+.-.-. ..+.+.+.|++...++.+...+..=...-.++....|.+
T Consensus 3 l~asi~E~VnA~Fk-~g~~~~v~v~GEv~ls~~~~~~~~~~~~~~l~~rl~n~~~le~i~pN~~~v~~~~~~~~~f~~n~ 81 (257)
T PF10291_consen 3 LNASITETVNAYFK-GGQLSKVKVTGEVALSYPAGISSSLTSPPPLSFRLNNFSRLEKIAPNPQFVSSSSQSDGEFWLNM 81 (257)
T ss_dssp EEEEEEEEEEEEEE-TTEEEEEEEEEEEEEEEE--SSS-----SEEEEEEETGGGEEEEEE-TTTE--EEEETTEEEE-T
T ss_pred eeEEEEEEEEEEEE-CCcEEEEEEEEEEEEecCCChhhcccCCCcEEEEEcCcchhceeecCHhHeecCCCCCCcEEEeh
Confidence 34578999999996 78999999999999965322 245778999887777766555432211111223455554
Q ss_pred CC--CcE--EEEEEEecCC----CCCCEEEEEEEEEcCCceEEEEEEEeec-CCC--CceeeEEEEEeCCCC-ceeeEEE
Q 014970 255 PD--GQF--KLMSYRVKKL----KSTPIYVKPQLTSDAGTCRISVMVGIRN-DPG--KTIDSIILQFQLPPC-ILSADLT 322 (415)
Q Consensus 255 Pd--g~f--~L~~Y~~~~~----~~~P~~v~~~~~~~~~~~~~ei~~~~~~-~~~--~~~~~v~v~ip~p~~-~~~~~~~ 322 (415)
+. ... ..++|++... ...|+.+.+.-..++....+-+.+++.. .+. ..++||.|.+++... +.++...
T Consensus 82 ~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e~~~tsl~l~Y~~Np~~~~~~~~L~nv~~~v~l~g~~~ts~~sk 161 (257)
T PF10291_consen 82 SALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCEPSQTSLILDYKLNPDAFASPVPLENVVFSVPLDGGRATSAQSK 161 (257)
T ss_dssp TTTBT-E-EEEEEEEEES--------SEEEEEEEEE-SSEEEEEEEEEE-TTT--E-EEEEEEEEEEEB-SS-EEEEEES
T ss_pred HHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeCCceEEEEEEEEeChhhccccceeeeEEEEEEcCCccccccccC
Confidence 42 233 5699999863 5679999987776654444444433333 122 379999999999888 6555554
Q ss_pred eccccceeeeCcEEEEEcCCCC--CCCC-eeEEEEEEeecCCcCCCCCCcEEEEEEEC-cccccccEEeEEEee------
Q 014970 323 SNHGTVNVLSNKICTWSIGRIP--KDKA-PSLSGTMVLETGLETLRVFPTFQVEFRIM-GVALSGLQIDKLDLQ------ 392 (415)
Q Consensus 323 ~~~G~~~~~~~~~l~W~I~~~~--~~~~-~~l~g~~~~~~~~~~~~~~~pi~v~F~~~-~~~~SGl~V~~l~v~------ 392 (415)
+. |++ .-+.+.+.|+++.+. ++.+ ..|.|.+....... .-.+|.+.|++. +.+.||+.|.-..-.
T Consensus 162 P~-g~~-~~e~~ri~Wrl~el~~~~~~~~~kL~ARf~~~~~~~---~p~~v~vkF~~~~~~~~sg~~i~~~~~~~~~dp~ 236 (257)
T PF10291_consen 162 PQ-GTW-NKEKNRITWRLPELSLTSEGEGGKLIARFMTSGGPS---RPGGVEVKFEIEGGSTLSGLGISLVYQDDEEDPP 236 (257)
T ss_dssp SS---B--SSS-EEEEE-SSEEEETT---EEEEEEEEESS-------SS-EEEEEEE---S-SS----EEEEEESSS-TT
T ss_pred CC-ccc-cCCCcEEEEECCcccccCCCCCceEEEEEECCCCCC---CCceEEEEEEEcCCCcccCcEEEEeecccccCCC
Confidence 44 877 444599999999964 2222 68988888755432 567899999999 888999888877221
Q ss_pred cCCCccccceEEEEecCcEEE
Q 014970 393 NVPNRLYKGFRAVTRAGEYEV 413 (415)
Q Consensus 393 ~~~~~~~k~vkY~t~sg~y~i 413 (415)
+..|+.. -++-...||.|..
T Consensus 237 ~~~w~~~-~~~r~~~sGkY~~ 256 (257)
T PF10291_consen 237 GGGWRLV-LVKRKLVSGKYIA 256 (257)
T ss_dssp ----EE--EEEEEEEEEEEE-
T ss_pred CCcceEE-EEEEEEeeeEEec
Confidence 1123221 3677777899974
No 15
>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1
Probab=96.67 E-value=0.034 Score=49.53 Aligned_cols=80 Identities=11% Similarity=0.098 Sum_probs=68.4
Q ss_pred CEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHHHHHhhhcCCCCH-HHHHhhHHHHHHHHHHHhcCCcccccChhhHh
Q 014970 54 THYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNE-DLIKDNFVIVYELLDEMIDNGFPLTTEPNILR 132 (415)
Q Consensus 54 ~~~~~~~~~~~l~~v~~~~~~~n~l~~~~~L~~i~~~l~~~~~~l~e-~~i~~N~~~i~~lldEiid~G~p~~t~~~~l~ 132 (415)
..++++....++-|..+++.++|.+++-.+|+.+...|.+.++.++. ..+....+.|..+|+..++.|.-.-.+...+|
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 35666689999999999999999999999999999999999976443 56777899999999999999988777766554
Q ss_pred h
Q 014970 133 E 133 (415)
Q Consensus 133 ~ 133 (415)
.
T Consensus 183 ~ 183 (189)
T PF15001_consen 183 Q 183 (189)
T ss_pred H
Confidence 4
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=94.27 E-value=0.36 Score=49.07 Aligned_cols=90 Identities=14% Similarity=0.091 Sum_probs=53.7
Q ss_pred EEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccC-CCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhhHH
Q 014970 3 QCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQG-DSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMGI 81 (415)
Q Consensus 3 ~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~-~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~~ 81 (415)
+.+||+++.||++++|+=.+ +.-.+..- ....+.+.. +.++.---+..+++.+++..++.||+||+++..+++..+.
T Consensus 12 kh~fIlS~AGKPIysr~G~e-~~l~~~~g-~~~aiiS~~~~~~d~l~~i~~~~~~ivfl~r~pl~lv~vS~~~e~~~~l~ 89 (415)
T PF03164_consen 12 KHFFILSSAGKPIYSRYGDE-DKLSSLMG-VIQAIISFFQSNGDELRSIRAGDHRIVFLNRGPLILVAVSKTGESESQLR 89 (415)
T ss_pred CeEEEECCCCceeEEecCCh-HHHHHHHH-HHHHHHHHHHhCCCcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHHHH
Confidence 57999999999999999332 11111111 111222111 1122112344577888889999999999999888876665
Q ss_pred HHHHHHHHHHhhh
Q 014970 82 EFLCRVADILSDY 94 (415)
Q Consensus 82 ~~L~~i~~~l~~~ 94 (415)
.-|+.+...+-..
T Consensus 90 ~qL~~ly~qils~ 102 (415)
T PF03164_consen 90 KQLDYLYSQILSI 102 (415)
T ss_pred HHHHHHHHHHHHh
Confidence 5555554444333
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=91.09 E-value=4.8 Score=33.36 Aligned_cols=90 Identities=14% Similarity=0.080 Sum_probs=59.0
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCCcchH-H----HHHHHHhccC--CCCCCCCEE-EcCCEEEEEEEeCCEEEEEEecC
Q 014970 2 LQCIFLLADNGAVILEKQLTGHRVDRSIC-D----WFWDHVISQG--DSFKSMPVI-ASPTHYIFQIVRAGITFLACTQV 73 (415)
Q Consensus 2 I~~i~I~~~~G~~l~~r~y~~~~~~~~~~-~----~f~~~~~~~~--~~~~~~~i~-~~~~~~~~~~~~~~l~~v~~~~~ 73 (415)
+.+|+|.|++|=+++.-...+ .+.... . .|-....+.+ ..++.-.++ .++.+.+++.....+|+..+++.
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 579999999999998755443 332222 1 2322222221 123333444 44888888889999999999999
Q ss_pred CCChhhHHHHHHHHHHHHhh
Q 014970 74 EMPPLMGIEFLCRVADILSD 93 (415)
Q Consensus 74 ~~n~l~~~~~L~~i~~~l~~ 93 (415)
+.|.=+++.+-+.+..++.+
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 99999999888888888765
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=89.26 E-value=3.5 Score=31.51 Aligned_cols=48 Identities=21% Similarity=0.321 Sum_probs=40.9
Q ss_pred EEEcCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHHHHHhhhcC
Q 014970 49 VIASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLG 96 (415)
Q Consensus 49 i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~~~~L~~i~~~l~~~~~ 96 (415)
.++.+.+.+.+...+++.++|+++.+-+.-..+.||..+.+-...-++
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 455677777777889999999999999999999999999998888777
No 19
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=88.01 E-value=11 Score=30.55 Aligned_cols=90 Identities=14% Similarity=0.248 Sum_probs=52.7
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCCC--cc-------hHH---HHHHHHhccCCCCCCCC-EEEcCC-EEEEEEEeCCEEE
Q 014970 2 LQCIFLLADNGAVILEKQLTGHRVD--RS-------ICD---WFWDHVISQGDSFKSMP-VIASPT-HYIFQIVRAGITF 67 (415)
Q Consensus 2 I~~i~I~~~~G~~l~~r~y~~~~~~--~~-------~~~---~f~~~~~~~~~~~~~~~-i~~~~~-~~~~~~~~~~l~~ 67 (415)
+.++||+|+.|..+++|.|.+.+.. .+ .+. ++..++.... +..+- +++.+. .-.+++-..++-|
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 5789999999999999999651321 11 111 2222222211 12211 222232 2223477889999
Q ss_pred EEEe-cCCCChhhHHHHHHHHHHHHhhhcC
Q 014970 68 LACT-QVEMPPLMGIEFLCRVADILSDYLG 96 (415)
Q Consensus 68 v~~~-~~~~n~l~~~~~L~~i~~~l~~~~~ 96 (415)
|+++ ++..|.++- |+++..+..+|.-
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 9999 556666544 6778888777764
No 20
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=84.97 E-value=4.1 Score=41.34 Aligned_cols=95 Identities=14% Similarity=0.123 Sum_probs=53.1
Q ss_pred EEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCC-CCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhhHH
Q 014970 3 QCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDS-FKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMGI 81 (415)
Q Consensus 3 ~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~-~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~~ 81 (415)
+.+||+.+.|+++++|+-.+ +.-.+..-. ...+++--+. +..-.-+..++..+.+...+-|++||+++.+..+...
T Consensus 118 khifilseaGKPiyS~~gs~-e~l~stmGv-~~alISf~q~~~~~i~si~a~g~k~vfl~kspl~LvA~s~t~~Sa~qL- 194 (523)
T KOG0997|consen 118 KHIFILSEAGKPIYSRHGSD-EALSSTMGV-MQALISFFQVSGLAITSIHAFGNKLVFLQKSPLLLVAVSRTSQSAAQL- 194 (523)
T ss_pred ceEEEEecCCCceeeecCcH-HHHHHHHHH-HHHHHHHHhhCCceEEEEEecCceEEEEecCcEEEEEEcccccCHHHH-
Confidence 46999999999999999654 322111111 1122211111 1111234447777777999999999999866655433
Q ss_pred HHHHHHHHHHhhhcCCCCHHH
Q 014970 82 EFLCRVADILSDYLGELNEDL 102 (415)
Q Consensus 82 ~~L~~i~~~l~~~~~~l~e~~ 102 (415)
++++..+....+..+++..
T Consensus 195 --~~qL~~ly~QIlS~LT~~q 213 (523)
T KOG0997|consen 195 --LQQLLLLYCQILSILTASQ 213 (523)
T ss_pred --HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333344443
No 21
>PF04099 Sybindin: Sybindin-like family ; InterPro: IPR007233 Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses. Syndecan-2 induces spine formation by recruiting intracellular vesicles toward postsynaptic sites through the interaction with synbindin []. ; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005801 cis-Golgi network; PDB: 3CUE_C 2J3T_C 2ZMV_B 2JSN_A.
Probab=82.34 E-value=22 Score=30.35 Aligned_cols=92 Identities=14% Similarity=0.207 Sum_probs=51.6
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCC----Ccch-------------HHHHHHHHhccCCC---CCCCCE--EEcCCEEEE-
Q 014970 2 LQCIFLLADNGAVILEKQLTGHRV----DRSI-------------CDWFWDHVISQGDS---FKSMPV--IASPTHYIF- 58 (415)
Q Consensus 2 I~~i~I~~~~G~~l~~r~y~~~~~----~~~~-------------~~~f~~~~~~~~~~---~~~~~i--~~~~~~~~~- 58 (415)
|.++||+|+.|..++.|.|.. .. ++.. +.+|-.++...... .....+ ++.+...+.
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 11333333321110 011223 333554443
Q ss_pred EEEeCCEEEEEEecCCCChhhHHHHHHHHHHHHhhhc
Q 014970 59 QIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYL 95 (415)
Q Consensus 59 ~~~~~~l~~v~~~~~~~n~l~~~~~L~~i~~~l~~~~ 95 (415)
+.-..++-||++++.+...+ .-++++.+.++.-+|.
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 45668999999999887543 4557888888888876
No 22
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.15 E-value=38 Score=30.48 Aligned_cols=90 Identities=18% Similarity=0.164 Sum_probs=59.2
Q ss_pred EEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHH
Q 014970 6 FLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLC 85 (415)
Q Consensus 6 ~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~~~~L~ 85 (415)
|=+=.+|-++++.+=.-...-.++.+....++... ++..--+.++++.+.|...+++.++|+++.+.---..+.||.
T Consensus 5 Ys~VARGTvvLaeft~~~gNf~sva~qiL~klp~~---~n~k~tYs~d~y~Fh~l~~dg~tylcvadds~gR~ipfaFLe 81 (217)
T KOG0859|consen 5 YSFVARGTVILAEFTEFSGNFSSIAAQILQKLPSS---SNSKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAFLE 81 (217)
T ss_pred EEEEecceEEEEeeeeccCCHHHHHHHHHHhCCCC---CCCceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHHHH
Confidence 33346899999886321001123334444443332 122223455888888888899999999998888888999999
Q ss_pred HHHHHHhhhcCCC
Q 014970 86 RVADILSDYLGEL 98 (415)
Q Consensus 86 ~i~~~l~~~~~~l 98 (415)
++.+=+..-+|.-
T Consensus 82 ~Ik~~F~k~YG~~ 94 (217)
T KOG0859|consen 82 RIKEDFKKRYGGG 94 (217)
T ss_pred HHHHHHHHHhccc
Confidence 9999887777763
No 23
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.83 E-value=27 Score=35.86 Aligned_cols=112 Identities=13% Similarity=0.099 Sum_probs=70.7
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCCCCCEEEcCCEEEEEEEeCC--EEEEEEecCCCChh
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRAG--ITFLACTQVEMPPL 78 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~--l~~v~~~~~~~n~l 78 (415)
||..+.|+++.|-+|..++=-+... ...+..|.+.++.....+... +..+.+.+=|...|+ +.|+++-..--+-.
T Consensus 1 Mld~faIFtkgG~vLw~~~~~~~~~-~~~in~lI~~~ll~er~~~~~--~~~~~yTlk~q~~N~~~lvfvvvfqki~~L~ 77 (587)
T KOG0781|consen 1 MLDQFAIFTKGGLVLWCYQEVGDNL-KGPINALIRSVLLSERGGVNS--FTFEAYTLKYQLDNQYSLVFVVVFQKILTLT 77 (587)
T ss_pred CcceeeeecCCcEEEEEecccchhc-cchHHHHHHHHHHHhhcCccc--CchhheeEeeeecCCccEEEEEEEeccchhh
Confidence 9999999999999988776544122 335667666665432212221 434555555555555 55666655555556
Q ss_pred hHHHHHHHHHHHHhhhcCCCCHHHHHhhHH-HHHHHHH
Q 014970 79 MGIEFLCRVADILSDYLGELNEDLIKDNFV-IVYELLD 115 (415)
Q Consensus 79 ~~~~~L~~i~~~l~~~~~~l~e~~i~~N~~-~i~~lld 115 (415)
.+-.+|....++..+-|+..+-..+..|++ ...++|+
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 667777777777777777777777777764 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=76.82 E-value=15 Score=30.91 Aligned_cols=73 Identities=14% Similarity=0.266 Sum_probs=37.9
Q ss_pred CeEEEEEEcCCCCEEEEEccCCCCCCcchHHHHHHHHhccCCCCC----CCCEEEcC--------CEEEEEE-EeCCEEE
Q 014970 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFK----SMPVIASP--------THYIFQI-VRAGITF 67 (415)
Q Consensus 1 MI~~i~I~~~~G~~l~~r~y~~~~~~~~~~~~f~~~~~~~~~~~~----~~~i~~~~--------~~~~~~~-~~~~l~~ 67 (415)
|+..+.|++.+|++|+...--+.......+.+|..+++..+...+ ...+..++ -...||. +...|||
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 999999999999999977644424444556788888887542111 11222222 2344443 3377999
Q ss_pred EEEecC
Q 014970 68 LACTQV 73 (415)
Q Consensus 68 v~~~~~ 73 (415)
|++-..
T Consensus 81 VvTyae 86 (148)
T PF09201_consen 81 VVTYAE 86 (148)
T ss_dssp EEEESS
T ss_pred EEEecc
Confidence 888664
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=72.29 E-value=25 Score=26.84 Aligned_cols=43 Identities=19% Similarity=0.363 Sum_probs=28.5
Q ss_pred CceeeEEEEEeCCCCceeeEEEecccccee-eeCcEEEEEcCCCCCCC
Q 014970 301 KTIDSIILQFQLPPCILSADLTSNHGTVNV-LSNKICTWSIGRIPKDK 347 (415)
Q Consensus 301 ~~~~~v~v~ip~p~~~~~~~~~~~~G~~~~-~~~~~l~W~I~~~~~~~ 347 (415)
+.+-||.|+=++|-... +-.++-.. . -+.+.|+|+|+++..++
T Consensus 42 ~DcvnVviTqqLPce~e---FV~SdPet-tp~~D~kLVW~Ig~l~~G~ 85 (95)
T PF03504_consen 42 KDCVNVVITQQLPCEVE---FVRSDPET-TPTPDGKLVWKIGRLGQGE 85 (95)
T ss_pred cceeEEEEeecCCcceE---EEecCCcc-ccCCCCEEEEEeccccCCc
Confidence 46889999999998653 32232222 2 12278999999997664
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=46.70 E-value=64 Score=22.34 Aligned_cols=32 Identities=13% Similarity=0.181 Sum_probs=26.7
Q ss_pred ceEEEEEEEeecCCCCceeeEEEEEeCCCCce
Q 014970 286 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 317 (415)
Q Consensus 286 ~~~~ei~~~~~~~~~~~~~~v~v~ip~p~~~~ 317 (415)
+..+++++.++......+.+|.|+=++|.+..
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 56888888888766678999999999998764
No 27
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.94 E-value=1.8e+02 Score=24.45 Aligned_cols=83 Identities=8% Similarity=0.099 Sum_probs=46.8
Q ss_pred eEEEEEEcCCCCEEEEEccCCCCC---Ccch-----------HHHHHHHHhccCCCCCCCCEEEc--CCEEEEEE-EeCC
Q 014970 2 LQCIFLLADNGAVILEKQLTGHRV---DRSI-----------CDWFWDHVISQGDSFKSMPVIAS--PTHYIFQI-VRAG 64 (415)
Q Consensus 2 I~~i~I~~~~G~~l~~r~y~~~~~---~~~~-----------~~~f~~~~~~~~~~~~~~~i~~~--~~~~~~~~-~~~~ 64 (415)
|.+++|+|++|..|+.+.|....- ++.. +..|..++... +....+... +.+.+.+- --.+
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 678999999999999886653121 1111 11222222221 112234433 44444332 3378
Q ss_pred EEEEEEecCCCChhhHHHHHHHHHH
Q 014970 65 ITFLACTQVEMPPLMGIEFLCRVAD 89 (415)
Q Consensus 65 l~~v~~~~~~~n~l~~~~~L~~i~~ 89 (415)
|.|+..++..... +-+.||.|..
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 9999998876544 4566777766
No 28
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.94 E-value=2.6e+02 Score=24.78 Aligned_cols=37 Identities=16% Similarity=0.237 Sum_probs=28.6
Q ss_pred EEEEeCCEEEEEEecCCCChhhHHHHHHHHHHHHhhhcC
Q 014970 58 FQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLG 96 (415)
Q Consensus 58 ~~~~~~~l~~v~~~~~~~n~l~~~~~L~~i~~~l~~~~~ 96 (415)
+|+-..++=||++++.-.+ .+=.+|+++.++..+|.=
T Consensus 135 ~~QTlTG~KFVvis~~~~~--~aD~lLrKiYelYsDyvl 171 (199)
T KOG3369|consen 135 IFQTLTGTKFVVIAEPGTQ--GADSLLRKIYELYSDYVL 171 (199)
T ss_pred EEEccCCcEEEEEecCCch--hHHHHHHHHHHHHHHHhh
Confidence 4588899999999886653 345678899998888863
No 29
>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=38.24 E-value=1.5e+02 Score=21.90 Aligned_cols=31 Identities=16% Similarity=0.281 Sum_probs=18.9
Q ss_pred eEEEEEEEeecCCCCceeeEEEEEeCCCCce
Q 014970 287 CRISVMVGIRNDPGKTIDSIILQFQLPPCIL 317 (415)
Q Consensus 287 ~~~ei~~~~~~~~~~~~~~v~v~ip~p~~~~ 317 (415)
..+.+++.+++.....+.++.+++-+|.+|.
T Consensus 5 ~~~~~~~tv~N~g~~~~~~v~~~l~~P~GW~ 35 (78)
T PF10633_consen 5 ETVTVTLTVTNTGTAPLTNVSLSLSLPEGWT 35 (78)
T ss_dssp EEEEEEEEEE--SSS-BSS-EEEEE--TTSE
T ss_pred CEEEEEEEEEECCCCceeeEEEEEeCCCCcc
Confidence 4566666666655567899999999999996
No 30
>PRK06764 hypothetical protein; Provisional
Probab=37.54 E-value=91 Score=23.97 Aligned_cols=46 Identities=22% Similarity=0.338 Sum_probs=26.9
Q ss_pred CCcEEEEEEEC-cccccccEEeEEEeecCCCccccceEEE---EecCcEEEcC
Q 014970 367 FPTFQVEFRIM-GVALSGLQIDKLDLQNVPNRLYKGFRAV---TRAGEYEVRS 415 (415)
Q Consensus 367 ~~pi~v~F~~~-~~~~SGl~V~~l~v~~~~~~~~k~vkY~---t~sg~y~ir~ 415 (415)
+..|.|.-... .|.+|| +++++...+.....-=||. .+-|.|.||.
T Consensus 41 fn~i~v~mn~~e~y~lsg---rsidilsgdkeaiqlnkyti~f~kpg~yvirv 90 (105)
T PRK06764 41 FNAIDVSMNINELYVLSG---RSIDVLSGDKEAIQLNKYTIRFSKPGKYVIRV 90 (105)
T ss_pred cceEEEEEeccceEEEcC---ceeeeecCChhheEeeeeEEEecCCccEEEEE
Confidence 45677766543 589999 5556633333333333443 4568999883
No 31
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.34 E-value=3.4e+02 Score=24.87 Aligned_cols=48 Identities=15% Similarity=0.353 Sum_probs=41.9
Q ss_pred EEcCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHHHHHhhhcCC
Q 014970 50 IASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGE 97 (415)
Q Consensus 50 ~~~~~~~~~~~~~~~l~~v~~~~~~~n~l~~~~~L~~i~~~l~~~~~~ 97 (415)
++.+...++|...+++.+.++++.+-+--+++.+|+.+.+-+..-++.
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 445778888899999999999999999999999999999988877764
No 32
>PF13998 MgrB: MgrB protein
Probab=26.88 E-value=30 Score=20.91 Aligned_cols=25 Identities=20% Similarity=0.194 Sum_probs=16.7
Q ss_pred HHHHHHHhcCCcccccChhhHhhcc
Q 014970 111 YELLDEMIDNGFPLTTEPNILREMI 135 (415)
Q Consensus 111 ~~lldEiid~G~p~~t~~~~l~~~i 135 (415)
.+.||.++|.|.+..+-...+-.++
T Consensus 3 llald~~CDQg~~F~~GiC~it~~i 27 (29)
T PF13998_consen 3 LLALDSYCDQGEQFFSGICSITRFI 27 (29)
T ss_pred HHHHHHHhcCCCCceeeeeEEeeec
Confidence 3578999999977665544444333
No 33
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=26.39 E-value=5.8e+02 Score=24.42 Aligned_cols=106 Identities=15% Similarity=0.238 Sum_probs=54.3
Q ss_pred CCCCCceEEEeCCCCcEEEEEEEecCCCCCCEEEEEEEEEc---------CCceEEEEEEEeecCCCCceeeEEEEEeCC
Q 014970 243 PWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSD---------AGTCRISVMVGIRNDPGKTIDSIILQFQLP 313 (415)
Q Consensus 243 ~~~~~~~l~f~PPdg~f~L~~Y~~~~~~~~P~~v~~~~~~~---------~~~~~~ei~~~~~~~~~~~~~~v~v~ip~p 313 (415)
.|-.+..|.+++|.++|.| .+-.+. -+.|....... ....+..+++.+++..... -.|.|.=++|
T Consensus 194 ~~vG~~~l~~~~~ge~~~l-~~G~d~----~v~v~r~~~~~~~~~g~~~~~~~~~~~~~itv~N~~~~~-v~v~v~d~iP 267 (317)
T PF13598_consen 194 TFVGESRLPHTAPGEEFEL-SFGVDP----DVRVERKLLKKEEERGFFGKSQRRTYEYTITVRNNKDEP-VTVTVEDQIP 267 (317)
T ss_pred EEEEeeecCCCCCCCEEEE-EcccCC----CEEEEEEecceecccccccccEEEEEEEEEEEECCCCCC-EEEEEEeCCC
Confidence 3445567888888888874 344332 22332222111 0123455666677654333 3488888888
Q ss_pred CCce-eeEEEecc-ccceeeeC--cEEEEEcCCCCCCCCeeEEEEEE
Q 014970 314 PCIL-SADLTSNH-GTVNVLSN--KICTWSIGRIPKDKAPSLSGTMV 356 (415)
Q Consensus 314 ~~~~-~~~~~~~~-G~~~~~~~--~~l~W~I~~~~~~~~~~l~g~~~ 356 (415)
-... ..++.... ... ..+. +.+.|++.- +.+.+.+++..++
T Consensus 268 vs~~~~I~V~~~~~~~~-~~~~~~g~~~W~~~l-~~g~~~~l~~~y~ 312 (317)
T PF13598_consen 268 VSEDEDIKVELLEPPEP-NEDEKDGILEWKVTL-PPGESRTLEFSYE 312 (317)
T ss_pred CCCCceEEEEEcCCCCC-cccCCCCEEEEEEEE-CCCCEEEEEEEEE
Confidence 6442 22222211 111 2333 999999954 4444445544443
No 34
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.65 E-value=5e+02 Score=23.07 Aligned_cols=32 Identities=19% Similarity=0.263 Sum_probs=24.9
Q ss_pred EEEEeCCEEEEEEecCCCChhhHHHHHHHHHH
Q 014970 58 FQIVRAGITFLACTQVEMPPLMGIEFLCRVAD 89 (415)
Q Consensus 58 ~~~~~~~l~~v~~~~~~~n~l~~~~~L~~i~~ 89 (415)
.|.+.++|--|++++.+=+--.++.+|+++.+
T Consensus 68 ~yvrndgL~~V~~~D~eYP~rvA~tLL~kvld 99 (198)
T KOG0861|consen 68 VYVRNDGLCGVLIADDEYPVRVAFTLLNKVLD 99 (198)
T ss_pred EEEecCCeeEEEEecCcCchhHHHHHHHHHHH
Confidence 35677799999999988888888887776543
No 35
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=22.75 E-value=4.3e+02 Score=23.47 Aligned_cols=79 Identities=20% Similarity=0.136 Sum_probs=45.0
Q ss_pred ceEEEEEEEeecCCCCceeeEEEEE-eCCCCceeeEEEeccccceeeeCcEEEEEcCCCCCCCCeeEEEEEEeecCCcCC
Q 014970 286 TCRISVMVGIRNDPGKTIDSIILQF-QLPPCILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTMVLETGLETL 364 (415)
Q Consensus 286 ~~~~ei~~~~~~~~~~~~~~v~v~i-p~p~~~~~~~~~~~~G~~~~~~~~~l~W~I~~~~~~~~~~l~g~~~~~~~~~~~ 364 (415)
+.++.|++++-+.....+.||.+.= .+|+.. + ++-.+...|++++++.+.+.+. .+.+.+.....
T Consensus 37 g~~v~V~~~iyN~G~~~A~dV~l~D~~fp~~~----F--------~lvsG~~s~~~~~i~pg~~vsh--~~vv~p~~~G~ 102 (181)
T PF05753_consen 37 GEDVTVTYTIYNVGSSAAYDVKLTDDSFPPED----F--------ELVSGSLSASWERIPPGENVSH--SYVVRPKKSGY 102 (181)
T ss_pred CcEEEEEEEEEECCCCeEEEEEEECCCCCccc----c--------EeccCceEEEEEEECCCCeEEE--EEEEeeeeeEE
Confidence 4566666666654445777777765 454422 1 1222456777888877765544 34443322223
Q ss_pred CCCCcEEEEEEECc
Q 014970 365 RVFPTFQVEFRIMG 378 (415)
Q Consensus 365 ~~~~pi~v~F~~~~ 378 (415)
-.+.++.|+|..+.
T Consensus 103 f~~~~a~VtY~~~~ 116 (181)
T PF05753_consen 103 FNFTPAVVTYRDSE 116 (181)
T ss_pred EEccCEEEEEECCC
Confidence 44678889986663
No 36
>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=21.81 E-value=2e+02 Score=21.00 Aligned_cols=32 Identities=9% Similarity=0.196 Sum_probs=26.8
Q ss_pred ceEEEEEEEeecCCCCceeeEEEEEeCCCCce
Q 014970 286 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 317 (415)
Q Consensus 286 ~~~~ei~~~~~~~~~~~~~~v~v~ip~p~~~~ 317 (415)
+..+++++.++......+.+|.|.=++|.+..
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 56889999888766678999999999998753
No 37
>PF06919 Phage_T4_Gp30_7: Phage Gp30.7 protein; InterPro: IPR009690 This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Probab=21.15 E-value=1.1e+02 Score=24.53 Aligned_cols=32 Identities=19% Similarity=0.392 Sum_probs=22.4
Q ss_pred EEEEEeecCCCeeEEEecCCcccccceecceee
Q 014970 208 VQVNCLLSGLPDLTLSFANPSILHDVRFHPCVR 240 (415)
Q Consensus 208 i~~~~~LsG~P~~~l~ln~~~~l~~~~fH~cV~ 240 (415)
+++.+.+.|. .+++++.++..-.|+..|||-+
T Consensus 52 ~tvsv~~~gs-~~kI~~~Dd~r~RDLgTHPcwn 83 (121)
T PF06919_consen 52 ITVSVTYNGS-IFKIGLDDDHRERDLGTHPCWN 83 (121)
T ss_pred CEEEEEecCc-EEEEEecCchhhcccCCCcCcc
Confidence 3444444443 5678888887778999999964
No 38
>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]
Probab=21.10 E-value=1.7e+02 Score=28.39 Aligned_cols=104 Identities=18% Similarity=0.271 Sum_probs=65.7
Q ss_pred EEEEEEEEccCCcEEEEEEEEEEEEEEeecCCCeeEEEecCCc----------ccccceecceee-cCCCCCCceEEEeC
Q 014970 186 VEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS----------ILHDVRFHPCVR-FRPWESHQILSFVP 254 (415)
Q Consensus 186 ~E~i~~~~~~~G~~~~~~v~G~i~~~~~LsG~P~~~l~ln~~~----------~l~~~~fH~cV~-~~~~~~~~~l~f~P 254 (415)
+-.|.|.-+++|. .-..|.|.+.++.-..++|.-.+.|.-.. ...++.|||--. +..-.++.+++|=+
T Consensus 201 ~R~va~f~d~~~~-alGsiEGrv~iq~id~~~~~~nFtFkCHR~~~~~~~~VYaVNsi~FhP~hgtlvTaGsDGtf~FWD 279 (347)
T KOG0647|consen 201 TRCVACFQDKDGF-ALGSIEGRVAIQYIDDPNPKDNFTFKCHRSTNSVNDDVYAVNSIAFHPVHGTLVTAGSDGTFSFWD 279 (347)
T ss_pred eeEEEEEecCCce-EeeeecceEEEEecCCCCccCceeEEEeccCCCCCCceEEecceEeecccceEEEecCCceEEEec
Confidence 4567777888888 55669999999988888887777664221 144578898211 12234667777777
Q ss_pred CCCcEEEEEEEecCCCCCCEEEEEEEEEcCCceEEEEEEEee
Q 014970 255 PDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIR 296 (415)
Q Consensus 255 Pdg~f~L~~Y~~~~~~~~P~~v~~~~~~~~~~~~~ei~~~~~ 296 (415)
.|.+-.|..|.... .|++. |.+ +.+|.-|-+-+.+.
T Consensus 280 kdar~kLk~s~~~~---qpItc-c~f--n~~G~ifaYA~gYD 315 (347)
T KOG0647|consen 280 KDARTKLKTSETHP---QPITC-CSF--NRNGSIFAYALGYD 315 (347)
T ss_pred chhhhhhhccCcCC---Cccce-eEe--cCCCCEEEEEeecc
Confidence 77777777665422 25554 323 33355666766655
Done!