Query 032406
Match_columns 141
No_of_seqs 109 out of 565
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 13:40:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032406.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032406hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04099 Sybindin: Sybindin-li 100.0 8.5E-46 1.9E-50 271.2 16.1 130 4-133 1-142 (142)
2 KOG3368 Transport protein part 100.0 2.4E-42 5.2E-47 245.9 15.3 132 2-133 1-138 (140)
3 KOG3369 Transport protein part 100.0 7E-39 1.5E-43 238.0 14.0 133 2-134 1-198 (199)
4 COG5122 TRS23 Transport protei 100.0 4.3E-35 9.4E-40 204.4 12.1 132 2-133 1-133 (134)
5 PF04628 Sedlin_N: Sedlin, N-t 100.0 2.9E-29 6.2E-34 181.5 12.4 123 9-133 1-132 (132)
6 COG5603 TRS20 Subunit of TRAPP 99.9 1.3E-25 2.8E-30 157.5 11.4 129 5-134 3-135 (136)
7 KOG3487 TRAPP 20 K subunit [In 99.9 7.3E-25 1.6E-29 155.5 11.6 130 5-135 3-137 (139)
8 KOG3444 Uncharacterized conser 99.8 2.3E-20 5.1E-25 129.2 11.6 107 3-116 1-121 (121)
9 KOG0861 SNARE protein YKT6, sy 96.6 0.053 1.1E-06 41.2 10.9 125 2-137 1-133 (198)
10 PF01217 Clat_adaptor_s: Clath 96.5 0.2 4.2E-06 36.0 12.8 91 3-105 1-94 (141)
11 PF03164 Mon1: Trafficking pro 95.5 0.61 1.3E-05 39.7 13.3 84 6-102 13-99 (415)
12 PF13774 Longin: Regulated-SNA 94.5 0.46 9.9E-06 30.9 8.0 58 44-104 3-62 (83)
13 PF08217 DUF1712: Fungal domai 89.0 11 0.00023 33.9 12.2 114 14-135 17-139 (604)
14 COG5143 SNC1 Synaptobrevin/VAM 72.0 12 0.00025 28.9 5.3 51 37-89 26-78 (190)
15 PF03259 Robl_LC7: Roadblock/L 69.2 18 0.00039 23.0 5.2 64 3-74 14-81 (91)
16 KOG0859 Synaptobrevin/VAMP-lik 63.1 60 0.0013 25.4 7.6 57 45-104 31-89 (217)
17 KOG2740 Clathrin-associated pr 59.5 41 0.00088 28.7 6.6 91 3-105 1-94 (418)
18 PF12321 DUF3634: Protein of u 49.2 81 0.0018 22.1 5.8 78 6-98 14-91 (108)
19 PF13585 CHU_C: C-terminal dom 45.0 25 0.00053 23.1 2.6 18 4-21 28-45 (87)
20 PF08800 VirE_N: VirE N-termin 44.2 82 0.0018 22.4 5.5 24 65-88 56-81 (136)
21 PF11530 Pilin_PilX: Minor typ 36.5 75 0.0016 22.8 4.1 38 93-136 13-50 (127)
22 PF03288 Pox_D5: Poxvirus D5 p 33.2 79 0.0017 20.1 3.6 35 96-133 25-59 (86)
23 PF08465 Herpes_TK_C: Thymidin 32.4 36 0.00078 18.8 1.5 15 98-113 9-24 (33)
24 KOG0936 Clathrin adaptor compl 31.4 1.3E+02 0.0028 22.6 4.8 22 3-24 1-22 (182)
25 COG5541 RET3 Vesicle coat comp 31.3 2.3E+02 0.005 21.4 7.0 105 3-111 7-113 (187)
26 COG4918 Uncharacterized protei 31.2 30 0.00066 24.1 1.4 18 8-25 55-72 (114)
27 PF07013 DUF1314: Protein of u 30.4 51 0.0011 25.0 2.6 33 58-96 60-92 (177)
28 COG3260 Ni,Fe-hydrogenase III 30.2 95 0.0021 22.9 3.8 40 62-101 34-73 (148)
29 COG2122 Uncharacterized conser 28.8 1.3E+02 0.0029 24.0 4.7 37 100-136 46-83 (256)
30 PF08253 Leader_Erm: Erm Leade 28.3 61 0.0013 15.5 1.7 11 2-12 1-11 (19)
31 PHA03371 circ protein; Provisi 28.2 50 0.0011 26.3 2.3 32 59-96 84-115 (240)
32 COG5030 APS2 Clathrin adaptor 27.7 2.5E+02 0.0055 20.7 11.0 74 3-88 1-75 (152)
33 PF13388 DUF4106: Protein of u 27.3 1.1E+02 0.0023 25.7 4.0 43 89-135 51-93 (422)
34 PF04556 DpnII: DpnII restrict 26.9 69 0.0015 26.2 2.9 28 75-102 240-272 (286)
35 PF04370 DUF508: Domain of unk 26.0 2E+02 0.0043 21.2 4.9 63 71-133 48-137 (156)
36 KOG0862 Synaptobrevin/VAMP-lik 24.9 3.5E+02 0.0075 21.3 8.5 84 42-129 36-125 (216)
37 PF10407 Cytokin_check_N: Cdc1 24.9 81 0.0018 20.5 2.5 26 78-104 3-28 (73)
38 MTH00027 COX2 cytochrome c oxi 24.7 67 0.0015 25.8 2.5 21 1-21 1-21 (262)
39 COG1618 Predicted nucleotide k 24.1 40 0.00086 25.7 1.0 26 116-141 112-139 (179)
40 PF07599 DUF1563: Protein of u 23.8 1.2E+02 0.0026 17.4 2.7 20 92-111 11-30 (43)
41 KOG4497 Uncharacterized conser 22.7 52 0.0011 27.9 1.5 23 64-86 199-221 (447)
42 PF04648 MF_alpha: Yeast matin 21.0 35 0.00076 14.9 0.1 7 12-18 7-13 (13)
43 KOG0997 Uncharacterized conser 20.6 6.1E+02 0.013 22.6 10.9 85 6-104 119-204 (523)
44 PF12651 RHH_3: Ribbon-helix-h 20.4 75 0.0016 18.2 1.5 17 119-135 28-44 (44)
45 PF10100 DUF2338: Uncharacteri 20.2 3.2E+02 0.0069 23.7 5.8 93 8-116 227-329 (429)
46 KOG1299 Vacuolar sorting prote 20.2 90 0.002 27.6 2.5 29 89-117 113-142 (549)
47 PF13198 DUF4014: Protein of u 20.1 72 0.0016 20.7 1.5 25 94-119 43-67 (72)
No 1
>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=100.00 E-value=8.5e-46 Score=271.21 Aligned_cols=130 Identities=50% Similarity=0.991 Sum_probs=103.0
Q ss_pred EEEEEEEeCCCceEEEeecCCCC-----CCCChhHHHHHHHHHHHHHHHHhhCCC------CCCCCceEeecCcEEEEEE
Q 032406 4 IYSLYIINKSGGLIFYKDYGSAG-----RMDTNDSLRVASLWHSMHAISQQLSPT------TGCSGIELLEADTFDLHCF 72 (141)
Q Consensus 4 i~~~~Ii~r~g~~iy~~~~~~~~-----~~~~~~~~~l~~~l~sL~~i~~klsp~------~~~~g~~~~~t~~ykv~~y 72 (141)
||+||||||+|+|||+++|.+.. +.++|+.+.|+|++|||++|+.+++|. ++.+|++++.|+.|++|+|
T Consensus 1 IyslyI~nr~G~lIy~~~~~~~~~~~~~~~~~ne~~ll~g~l~sl~~i~~klsp~~~~~~~~~~~g~~~~~T~~yklh~~ 80 (142)
T PF04099_consen 1 IYSLYIFNRSGGLIYYREWNRSKNEGQPKLSSNEYKLLAGMLHSLKAIASKLSPVDSKPNEPGSSGFESFETDTYKLHCF 80 (142)
T ss_dssp EEEEEEE-TTS-EEEEEETSSSS--E-SSSCHHHHHHHHHHHHHHHHHHHHT-SSSSSS-SSS--SEEEEEESS-EEEEE
T ss_pred CeEEEEEeCCcceeeehhhCCCCccccCCCChhHHHHHHhhHHHHHHHHHHhCCCCcccccccceeEEEEEeCCEEEEEE
Confidence 79999999999999999999863 567788888999999999999999993 3457999999999999999
Q ss_pred EcCCCcEEEEEecCCchhHHH-HHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHh
Q 032406 73 QSLTGTKFFVVCEPGTQHMES-LLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQK 133 (141)
Q Consensus 73 ~T~TgiKfvlitd~~~~~~~~-~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~ 133 (141)
||+||+|||++||++.++.++ +++.+|++|+|||+|||||++||||+|++|+++|++++++
T Consensus 81 eT~TGlKFvl~td~~~~~~~~~l~~~~~~lY~dyV~KNPfy~~~~pI~~~lF~~~l~~~~~~ 142 (142)
T PF04099_consen 81 ETPTGLKFVLITDPNVPSLRDELLRIYYELYVDYVVKNPFYSLEMPIRCELFDTKLDQYVKS 142 (142)
T ss_dssp E-TTS-EEEEEE-TTCCHCHHHHHHHHHHHHHHHHHS-TTS-TTS----HHHHHHHHHHHHC
T ss_pred EcCcCcEEEEEecCCCccHHHHHHHHHHHHHHHHHhhCCCCCCCCcEehHHHHHHHHHHHhC
Confidence 999999999999999855555 4455559999999999999999999999999999999874
No 2
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.4e-42 Score=245.91 Aligned_cols=132 Identities=29% Similarity=0.596 Sum_probs=122.6
Q ss_pred ccEEEEEEEeCCCceEEEeecCCCCC---CCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCc
Q 032406 2 AAIYSLYIINKSGGLIFYKDYGSAGR---MDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGT 78 (141)
Q Consensus 2 ~~i~~~~Ii~r~g~~iy~~~~~~~~~---~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~Tgi 78 (141)
|+||+||||||+|+|||+++|++..+ ..++++++++|+++||+.|++|++|.....||.++.|+.||+|+||||||+
T Consensus 1 Mtiy~~yIFdR~g~Cl~y~EW~r~~~s~~~~eee~KL~yGmlFSlkS~v~Kls~~d~k~~f~sy~Ts~YklhfyeTptgl 80 (140)
T KOG3368|consen 1 MTIYNFYIFDRNGVCLFYREWNRTKQSGIPNEEEAKLMYGMLFSLKSFVSKLSPGDVKDGFLSYKTSKYKLHFYETPTGL 80 (140)
T ss_pred CeEEEEEEEcCCccEEEehhcccccccCCchhHHHHHHHHHHhhHHHHHHhcCCCCcccCeeEEeeceeEEEEEEcCCCc
Confidence 68999999999999999999998722 233446779999999999999999988889999999999999999999999
Q ss_pred EEEEEecCCchhHHHHHHHHHH-HHHHhhhhCCCCC--CCCcccchhHHHHHHHHHHh
Q 032406 79 KFFVVCEPGTQHMESLLKVIYE-LYTDYVLKNPFYE--MEMPIRCELFDINLSQAVQK 133 (141)
Q Consensus 79 Kfvlitd~~~~~~~~~l~~iy~-~Yv~~v~~NPfy~--~~~pI~s~~F~~~v~~~~~~ 133 (141)
||||+||++..+++++|++||. +||++|++||+|+ +++||+|+.|...+|+.++.
T Consensus 81 k~vl~Tdpk~~~ir~vLq~IYs~lyVE~Vvknpl~~~~~~~~i~~E~fr~~ld~~vrs 138 (140)
T KOG3368|consen 81 KFVLNTDPKAGSIRDVLQYIYSHLYVEYVVKNPLYTYDPGSPIRSELFRKILDRFVRS 138 (140)
T ss_pred EEEEecCCCcccHHHHHHHHHHHHHHHHHHcCcccccCCCCccchHHHHHHHHhhhcc
Confidence 9999999999999999999995 9999999999999 99999999999999999874
No 3
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=7e-39 Score=238.00 Aligned_cols=133 Identities=62% Similarity=0.998 Sum_probs=124.4
Q ss_pred ccEEEEEEEeCCCceEEEeecC----------------------------------------------------------
Q 032406 2 AAIYSLYIINKSGGLIFYKDYG---------------------------------------------------------- 23 (141)
Q Consensus 2 ~~i~~~~Ii~r~g~~iy~~~~~---------------------------------------------------------- 23 (141)
|.|++++||||+|++||.+++.
T Consensus 1 maI~~~~IINKsGgLIfq~e~~~~~~e~et~d~~l~~~~~~~vvaf~~kdgik~~~~~~~vNg~~v~g~~~~~Gl~~~~~ 80 (199)
T KOG3369|consen 1 MAIESLFIINKSGGLIFQREFGNPRQELETFDLLLLASDLKVVVAFGSKDGIKVGHLVQAVNGENVNGYILYDGLSSPRN 80 (199)
T ss_pred CceEEEEEEecCCcEEEEeecCCccccccchhhhhhhcccceeEEeecccccchhheeeeecccccccceecccccCccc
Confidence 5689999999999999999998
Q ss_pred -------CCCCCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEecCCchhHHHHHH
Q 032406 24 -------SAGRMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVCEPGTQHMESLLK 96 (141)
Q Consensus 24 -------~~~~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlitd~~~~~~~~~l~ 96 (141)
..++.++||.+.|++++||++.|+.+++|-++++|++...|+++++|||+|.||+|||+++++....++.+|+
T Consensus 81 ypv~~~f~~p~~ttNEkL~las~fhsl~aI~~qlsp~~ksSGie~LetdtF~l~~~QTlTG~KFVvis~~~~~~aD~lLr 160 (199)
T KOG3369|consen 81 YPVNGKFGRPKLTTNEKLILASSFHSLFAISTQLSPEPKSSGIEVLETDTFTLHIFQTLTGTKFVVIAEPGTQGADSLLR 160 (199)
T ss_pred cccccccCCCcccccchhhhhhhhcchhheeeccCCCCCCCceEEEEeccEEEEEEEccCCcEEEEEecCCchhHHHHHH
Confidence 1134677888889999999999999999998899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHhh
Q 032406 97 VIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQKD 134 (141)
Q Consensus 97 ~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~~ 134 (141)
+||++|.|||+|||||+++|||+|++||.+|+.++++.
T Consensus 161 KiYelYsDyvlKNPfYSlEMPIRc~lFDe~lk~~le~~ 198 (199)
T KOG3369|consen 161 KIYELYSDYVLKNPFYSLEMPIRCELFDEKLKFLLESA 198 (199)
T ss_pred HHHHHHHHHhhcCCccCcccceeHHHhhHHHHHHHhhc
Confidence 99999999999999999999999999999999998763
No 4
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=100.00 E-value=4.3e-35 Score=204.36 Aligned_cols=132 Identities=44% Similarity=0.701 Sum_probs=123.2
Q ss_pred ccEEEEEEEeCCCceEEEeecCCC-CCCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEE
Q 032406 2 AAIYSLYIINKSGGLIFYKDYGSA-GRMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKF 80 (141)
Q Consensus 2 ~~i~~~~Ii~r~g~~iy~~~~~~~-~~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKf 80 (141)
|.+..|.|+||+|++||.++|.+. .++++||.+.|+|++|++.+|+.+++|-++++|.+...++++.++.|+|.||+||
T Consensus 1 mave~~~iINksGglifqref~~~et~lnsneyLiLastlhgV~aI~tq~~p~~gssg~~~l~~~~f~m~I~qT~TG~kF 80 (134)
T COG5122 1 MAVEQFFIINKSGGLIFQREFGEGETELNSNEYLILASTLHGVSAILTQTIPLPGSSGRLVLYFRNFVMTIFQTTTGTKF 80 (134)
T ss_pred CceeEEEEEecCCcEEEEEeccCCccccCcccEEEEeechhhhhhhhhhcccCCCCCceEEEEeccEEEEEEEecCCcEE
Confidence 456899999999999999999665 7889999999999999999999999998888999889999999999999999999
Q ss_pred EEEecCCchhHHHHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHh
Q 032406 81 FVVCEPGTQHMESLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQK 133 (141)
Q Consensus 81 vlitd~~~~~~~~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~ 133 (141)
|+++.++..+.+--+|++|++|+|||+|||||.++|||+|.+||.+|++++.+
T Consensus 81 V~~~~k~t~na~~ql~kiY~lYsdYV~knPfys~EMPI~c~lFde~lkrm~e~ 133 (134)
T COG5122 81 VFVAEKRTVNALFQLQKIYSLYSDYVTKNPFYSPEMPIQCSLFDEHLKRMFEG 133 (134)
T ss_pred EEEecCCchhHHHHHHHHHHHHHHHhhcCCCCCcccceehhhhhHHHHHHhcC
Confidence 99998888888878999999999999999999999999999999999998764
No 5
>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport. Several missense mutations and deletion mutations in the SEDL gene, which result in protein truncation by frame shift, are responsible for spondyloepiphyseal dysplasia tarda, a progressive skeletal disorder (OMIM:313400). [].; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005622 intracellular; PDB: 3PR6_A 2J3W_A 1H3Q_A.
Probab=99.96 E-value=2.9e-29 Score=181.53 Aligned_cols=123 Identities=22% Similarity=0.385 Sum_probs=93.8
Q ss_pred EEeCCCceEEEeecCCCCCCCC--hhHHHHHHHHH-HHHHHHHhhCCCCCCCCce-EeecCcEEEEEEEcCCCcEEEEEe
Q 032406 9 IINKSGGLIFYKDYGSAGRMDT--NDSLRVASLWH-SMHAISQQLSPTTGCSGIE-LLEADTFDLHCFQSLTGTKFFVVC 84 (141)
Q Consensus 9 Ii~r~g~~iy~~~~~~~~~~~~--~~~~~l~~~l~-sL~~i~~klsp~~~~~g~~-~~~t~~ykv~~y~T~TgiKfvlit 84 (141)
|||++++|||.+++...+.... ++++ ...++| |||.+.++++....+..+. .+++++|+||||+|+||+||||++
T Consensus 1 IIg~~n~PLy~~~~~~~~~~~~~~~~~l-~~~~~h~sLD~iee~~~~~~~~~yLg~l~~~~~~~vygyvT~t~~Kfvl~~ 79 (132)
T PF04628_consen 1 IIGPNNNPLYIRSFPSEKESSSSDARHL-YQFIAHSSLDVIEEKLWKSSSDMYLGLLDPFEDYKVYGYVTNTGIKFVLVH 79 (132)
T ss_dssp EE-TTS-EEEEEEE--ST-CGHHHHHHH-HHHHHHHHHHHHHHCCHCSSSCSEEEEEEEETTEEEEEEETTT--EEEEEE
T ss_pred CCCCCCcceEEEecCCCcccccchHHHH-HHHHHHHHHHHHHHHHhhcccccccCceehhhhHHHHhhhccCceeEEEEE
Confidence 8999999999999986532221 1233 666777 8999999887633344443 357899999999999999999999
Q ss_pred c-----CCchhHHHHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHh
Q 032406 85 E-----PGTQHMESLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQK 133 (141)
Q Consensus 85 d-----~~~~~~~~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~ 133 (141)
+ .+++++|++|++||++|++.++ ||||.+++||+|+.|+++|++++++
T Consensus 80 ~~~~~~~~d~~ik~fF~~vh~~Y~~~~~-NPF~~~~~~I~S~~Fd~~v~~l~~k 132 (132)
T PF04628_consen 80 DMSDNSIRDEDIKQFFKEVHELYVKALC-NPFYQPGTPIKSPKFDSRVRALAKK 132 (132)
T ss_dssp CGGG-S--HHHHHHHHHHHHHHHHHHHT-STTCGCT-HHHHHHHHHHHHHHHHH
T ss_pred ecccCCcchHHHHHHHHHHHHHHHHHcc-CCCCCCCCCcCCHHHHHHHHHHhcC
Confidence 9 3467999999999999999665 9999999999999999999999985
No 6
>COG5603 TRS20 Subunit of TRAPP, an ER-Golgi tethering complex [Cell motility and secretion]
Probab=99.93 E-value=1.3e-25 Score=157.48 Aligned_cols=129 Identities=22% Similarity=0.375 Sum_probs=105.9
Q ss_pred EEEEEEeCCCceEEEeecCCCCCCCChhHHH-H-HHHHHHHHHHHHhhCCCCCCCCceEe-ecCcEEEEEEEcCCCcEEE
Q 032406 5 YSLYIINKSGGLIFYKDYGSAGRMDTNDSLR-V-ASLWHSMHAISQQLSPTTGCSGIELL-EADTFDLHCFQSLTGTKFF 81 (141)
Q Consensus 5 ~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~-l-~~~l~sL~~i~~klsp~~~~~g~~~~-~t~~ykv~~y~T~TgiKfv 81 (141)
.+++|+|+.++|+|.+++.+..+.+..+..+ | ..++||--++.+.+.|+...+.|.++ ...+..+++|.||+|+||+
T Consensus 3 ~y~aIIg~KdnpVYe~e~~~~n~~~d~~~~~~ln~fiihaSlDiv~~lqwsvN~~Y~~~~d~f~~l~IsAYi~pSgmkf~ 82 (136)
T COG5603 3 EYLAIIGEKDNPVYEREYDPINKTSDGEYCRLLNQFIIHASLDIVVWLQWSVNTSYFDCLDSFGDLRISAYIMPSGMKFL 82 (136)
T ss_pred ceEEEEecCCCceeeeeecCcCcccCHHHHHHHhHHhhhhhHHHHHHHHHHhhhHHHHHHHhhCCeEEEEEEccCCceEE
Confidence 4789999999999999999665555555444 3 46778544444555555455666665 3688999999999999999
Q ss_pred EEecCC-chhHHHHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHhh
Q 032406 82 VVCEPG-TQHMESLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQKD 134 (141)
Q Consensus 82 litd~~-~~~~~~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~~ 134 (141)
+++... .+++|.||+++|++|++.++ ||||++++||+|++|+.+|+++.+.+
T Consensus 83 ~iH~n~s~~N~rsF~qevHely~ktLm-spfy~~~~pirsqafd~~Vr~~ar~~ 135 (136)
T COG5603 83 FIHQNQSRKNARSFLQEVHELYAKTLM-SPFYEPDEPIRSQAFDDGVREAARVC 135 (136)
T ss_pred EEeccchhhhHHHHHHHHHHHHHHHhh-CcccCCCccccchhhhhhHHHHHHhh
Confidence 999876 56999999999999999887 99999999999999999999998864
No 7
>KOG3487 consensus TRAPP 20 K subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.92 E-value=7.3e-25 Score=155.55 Aligned_cols=130 Identities=18% Similarity=0.323 Sum_probs=109.3
Q ss_pred EEEEEEeCCCceEEEeecCCCCC--CCChh-HHHHHHHHHHHHHHHHhhCCCCCCCCceEe-ecCcEEEEEEEcCCCcEE
Q 032406 5 YSLYIINKSGGLIFYKDYGSAGR--MDTND-SLRVASLWHSMHAISQQLSPTTGCSGIELL-EADTFDLHCFQSLTGTKF 80 (141)
Q Consensus 5 ~~~~Ii~r~g~~iy~~~~~~~~~--~~~~~-~~~l~~~l~sL~~i~~klsp~~~~~g~~~~-~t~~ykv~~y~T~TgiKf 80 (141)
.+|+|+|+.++|+|.-+|..+++ ...++ ..+-..++|+..++++++.|..++..++.+ ..+++-|++|.|+++++|
T Consensus 3 ~yfaIig~~d~Pvye~e~~~~~~~~~~~~~~~~LN~FI~HAaLdiVde~~W~~snmYLktVDkfne~~VSAyvTas~i~f 82 (139)
T KOG3487|consen 3 AYFAIIGHCDNPVYEMEFGCPENSKAARDDNRHLNQFIVHAALDIVDELQWTTSNMYLKTVDKFNELFVSAYVTASHIRF 82 (139)
T ss_pred eEEEEEecCCCceEEeecCCCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhhcceeEEEEEccCcEEE
Confidence 39999999999999999986522 22222 333477889877888888887666666666 478999999999999999
Q ss_pred EEEecCC-chhHHHHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHhhh
Q 032406 81 FVVCEPG-TQHMESLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQKDR 135 (141)
Q Consensus 81 vlitd~~-~~~~~~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~~~ 135 (141)
+++++.+ .++++.||+++|++|++.++ ||||.+++||+|++|+.+++.+.+++-
T Consensus 83 ~mlh~~~~~~~ik~Ffqev~elyik~lm-npFy~~~dpirs~afd~kv~~~~rkhl 137 (139)
T KOG3487|consen 83 IMLHINRADDNIKLFFQEVHELYIKTLM-NPFYEINDPIRSPAFDHKVRGLARKHL 137 (139)
T ss_pred EEEeeccccccHHHHHHHHHHHHHHHHh-CcccccCCccccHHHHHHHHHHHHHHh
Confidence 9999987 46999999999999999886 999999999999999999999998864
No 8
>KOG3444 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.85 E-value=2.3e-20 Score=129.22 Aligned_cols=107 Identities=21% Similarity=0.409 Sum_probs=90.0
Q ss_pred cEEEEEEEeCCCceEEEeecCCCCCCCChhHHHHHHHHH-HHHHHHHhhCC-CCCC-------CCceEeecCcEEEEEEE
Q 032406 3 AIYSLYIINKSGGLIFYKDYGSAGRMDTNDSLRVASLWH-SMHAISQQLSP-TTGC-------SGIELLEADTFDLHCFQ 73 (141)
Q Consensus 3 ~i~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~l~~~l~-sL~~i~~klsp-~~~~-------~g~~~~~t~~ykv~~y~ 73 (141)
|+.|+.+++..++|+|++.++. .++++.+...+| |||.+.++++. .++. -|+ +++|++||+|+|.
T Consensus 1 m~v~~av~g~kn~~lyi~s~t~-----~e~~L~~~y~v~~sLDVieekvn~~gkg~~tsne~fLGL-Ly~ted~kvYgfv 74 (121)
T KOG3444|consen 1 MLVCLAVAGPKNEPLYIESITP-----KEKELKLHYQVHLSLDVIEEKVNDPGKGERTSNELFLGL-LYPTEDYKVYGFV 74 (121)
T ss_pred CEEEEEEEcCCCCccEEEecCc-----HHHHHHhHhhhhhhHHHHHHHhcCcccCccchhhhhhcc-cccccceeEEEEE
Confidence 4679999999999999998875 577888877777 99999999964 2211 254 6899999999999
Q ss_pred cCCCcEEEEEecCC-----chhHHHHHHHHHHHHHHhhhhCCCCCCCC
Q 032406 74 SLTGTKFFVVCEPG-----TQHMESLLKVIYELYTDYVLKNPFYEMEM 116 (141)
Q Consensus 74 T~TgiKfvlitd~~-----~~~~~~~l~~iy~~Yv~~v~~NPfy~~~~ 116 (141)
|+|.+|||+++|.+ +.++|++|+.+|-+|.+ ++.||||.|+.
T Consensus 75 tNTkVKFIlvvdssd~avreteiRsv~r~~h~l~td-~~~npfy~pg~ 121 (121)
T KOG3444|consen 75 TNTKVKFILVVDSSDYAVRETEIRSVFRILHLLYTD-LSCNPFYLPGL 121 (121)
T ss_pred eccEEEEEEEEcCCcceehhHHHHHHHHHHHHHHHH-heecceeccCC
Confidence 99999999999875 46999999999999999 55699999873
No 9
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.63 E-value=0.053 Score=41.24 Aligned_cols=125 Identities=13% Similarity=0.156 Sum_probs=76.0
Q ss_pred ccEEEEEEEeCCCce--EEEeecCCC--C--CCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcC
Q 032406 2 AAIYSLYIINKSGGL--IFYKDYGSA--G--RMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSL 75 (141)
Q Consensus 2 ~~i~~~~Ii~r~g~~--iy~~~~~~~--~--~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~ 75 (141)
|.||++.|+++.+.. +....+.-+ + ..+.-++ .+.|.-+-++++..|. ...++.-++|.+|+|.-+
T Consensus 1 Mki~sl~V~~~~~~~~~ll~~a~dls~FsfFqRssV~E----fm~F~sktvaeRt~~g----~rqsvk~~~Y~~h~yvrn 72 (198)
T KOG0861|consen 1 MKIYSLSVLHKGTSDVKLLKTASDLSSFSFFQRSSVQE----FMTFISKTVAERTGPG----QRQSVKHEEYLVHVYVRN 72 (198)
T ss_pred CceEEEEEEeeCCcchhhhhhhcccccccceeeccHHH----HHHHHHHHHHHhcCcc----cccccccceeEEEEEEec
Confidence 679999999984333 222222110 0 0011111 2345667777777664 356788899999999999
Q ss_pred CCcEEEEEecCCch--hHHHHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHhhhhh
Q 032406 76 TGTKFFVVCEPGTQ--HMESLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQKDRVA 137 (141)
Q Consensus 76 TgiKfvlitd~~~~--~~~~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~~~~~ 137 (141)
.|+-=|+++|..=| ..-.+|++|-+-|.. ++|=-+-.-.-++..=-..++.++.+|+.|
T Consensus 73 dgL~~V~~~D~eYP~rvA~tLL~kvld~~~~---k~~~~~W~~~~~~~~~~~~L~~~l~kyqdP 133 (198)
T KOG0861|consen 73 DGLCGVLIADDEYPVRVAFTLLNKVLDEFTT---KVPATQWPVGETADLSYPYLDTLLSKYQDP 133 (198)
T ss_pred CCeeEEEEecCcCchhHHHHHHHHHHHHHhh---cCcccccCcCCCcCCCchhHHHHHHHhcCh
Confidence 99999999998744 444677888777755 454311111112222335677777777764
No 10
>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=96.46 E-value=0.2 Score=35.99 Aligned_cols=91 Identities=21% Similarity=0.368 Sum_probs=57.6
Q ss_pred cEEEEEEEeCCCceEEEeecCCCCCCCChhHHHHHHHHHHHHHHHHhhCCC-CCCCCceEeecCcEEEEEEEcCCCcEEE
Q 032406 3 AIYSLYIINKSGGLIFYKDYGSAGRMDTNDSLRVASLWHSMHAISQQLSPT-TGCSGIELLEADTFDLHCFQSLTGTKFF 81 (141)
Q Consensus 3 ~i~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~l~~~l~sL~~i~~klsp~-~~~~g~~~~~t~~ykv~~y~T~TgiKfv 81 (141)
||.+++|+|++|++++.|-|.. .+.++...++.- +..+.... +....+ +..+++++ .|.-.+++-|+
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~---~~~~~~~~~~~~------~~~~~~~~~~~~~~i--~~~~~~~~-vy~~~~dl~~~ 68 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRD---VSEEERQKLFEK------FIKKKSSRNSKQSPI--FEHDNYRI-VYKRYSDLYFV 68 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESST---STSHHHHHHHHH------HHHHHHTSSSSSTSE--EEETTEEE-EEEEETTEEEE
T ss_pred CEEEEEEEcCCCCEEEehhcCC---ccHHHHHHHHHH------HHHHHHhccccccee--eeccccee-eeEeeccEEEE
Confidence 6889999999999999999943 222232222221 22222222 112233 34566666 67778899999
Q ss_pred EEecCCch--hHHHHHHHHHHHHHHh
Q 032406 82 VVCEPGTQ--HMESLLKVIYELYTDY 105 (141)
Q Consensus 82 litd~~~~--~~~~~l~~iy~~Yv~~ 105 (141)
++++.+.. -+-++++.+.+++-++
T Consensus 69 ~v~~~~eNel~~~e~l~~~v~~l~~~ 94 (141)
T PF01217_consen 69 VVGDENENELLLLEFLHRLVEVLDDY 94 (141)
T ss_dssp EEESSTSBHHHHHHHHHHHHHHHHHH
T ss_pred EEeecccchHHHHHHHHHhhhhhhhh
Confidence 99998765 3446777777766664
No 11
>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=95.46 E-value=0.61 Score=39.70 Aligned_cols=84 Identities=15% Similarity=0.316 Sum_probs=61.3
Q ss_pred EEEEEeCCCceEEEeecCCCCCCCChhHHH-HHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEe
Q 032406 6 SLYIINKSGGLIFYKDYGSAGRMDTNDSLR-VASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVC 84 (141)
Q Consensus 6 ~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~-l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlit 84 (141)
.+.|+...|.|||.+. . .++.+. +.|++.++-.+.+.-. ..++.+..++.++. |..-+.+-+|+++
T Consensus 13 h~fIlS~AGKPIysr~-G------~e~~l~~~~g~~~aiiS~~~~~~-----d~l~~i~~~~~~iv-fl~r~pl~lv~vS 79 (415)
T PF03164_consen 13 HFFILSSAGKPIYSRY-G------DEDKLSSLMGVIQAIISFFQSNG-----DELRSIRAGDHRIV-FLNRGPLILVAVS 79 (415)
T ss_pred eEEEECCCCceeEEec-C------ChHHHHHHHHHHHHHHHHHHhCC-----CcEEEEEeCCEEEE-EEecCCEEEEEEc
Confidence 5789999999999975 3 244443 7888888877765332 35778888888887 5568999999998
Q ss_pred cCCch--hHHHHHHHHHHHH
Q 032406 85 EPGTQ--HMESLLKVIYELY 102 (141)
Q Consensus 85 d~~~~--~~~~~l~~iy~~Y 102 (141)
....+ .++.-|+-+|..-
T Consensus 80 ~~~e~~~~l~~qL~~ly~qi 99 (415)
T PF03164_consen 80 KTGESESQLRKQLDYLYSQI 99 (415)
T ss_pred CCcCCHHHHHHHHHHHHHHH
Confidence 87643 5777777777433
No 12
>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=94.51 E-value=0.46 Score=30.94 Aligned_cols=58 Identities=12% Similarity=0.259 Sum_probs=44.0
Q ss_pred HHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEecCCch--hHHHHHHHHHHHHHH
Q 032406 44 HAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVCEPGTQ--HMESLLKVIYELYTD 104 (141)
Q Consensus 44 ~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlitd~~~~--~~~~~l~~iy~~Yv~ 104 (141)
+.+.+++.|.. .+-.++..++|.+|.+. ..|+-++++||..-+ -.=.+|++|.+.|.+
T Consensus 3 ~~il~~i~~~~--~~k~s~~~~~~~fh~~~-~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~ 62 (83)
T PF13774_consen 3 RKILKRIPPNG--NSKMSYESGNYVFHYLV-EDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQ 62 (83)
T ss_dssp HHHHHTS-TTS--ESEEEEEETTEEEEEEE-ETTEEEEEEEETTS-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHhcCCCC--CCeEEEEECCEEEEEEE-cCCeEEEEEEcCCCCcchHHHHHHHHHHHHHH
Confidence 45677777532 13457788999999999 999999999999865 344699999988887
No 13
>PF08217 DUF1712: Fungal domain of unknown function (DUF1712); InterPro: IPR013176 The function of this fungal family of proteins is unknown.
Probab=89.00 E-value=11 Score=33.91 Aligned_cols=114 Identities=15% Similarity=0.244 Sum_probs=76.9
Q ss_pred CceEEEeecCCCCCCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEecC-----Cc
Q 032406 14 GGLIFYKDYGSAGRMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVCEP-----GT 88 (141)
Q Consensus 14 g~~iy~~~~~~~~~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlitd~-----~~ 88 (141)
.+.||+.-. .....+.|+++...|+.-|+-.|++..++..+ -..+.|+.-++-.++-=.|+++++..+. ..
T Consensus 17 ~kILfY~p~-~~~~~~~neql~~IGL~qglv~Ft~~Fs~~~~---~~~I~T~K~r~v~~e~Ep~~Wi~l~I~~~~~~~~~ 92 (604)
T PF08217_consen 17 KKILFYYPF-EESETSLNEQLRQIGLAQGLVSFTRTFSPDDP---CDSIHTEKSRIVFYEPEPGFWIVLSINLPKEQSTK 92 (604)
T ss_pred ceEEEEecC-CccCCCHHHHHHHhhHHHHHHHHHHhcCCCCc---ccceeecceEEEEEEecCCEEEEEEEecCcCCccc
Confidence 345666433 11233456677789999999999999988643 3457789999999999999999987662 11
Q ss_pred ----hhHHHHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHhhh
Q 032406 89 ----QHMESLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQKDR 135 (141)
Q Consensus 89 ----~~~~~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~~~ 135 (141)
..++..|++.|+.|.= ..-||-..-. .-+.|...++++...|-
T Consensus 93 ~~~~~~L~~~L~~~Y~~F~L--~hGsfs~~l~--~r~~L~~~L~~F~~~fl 139 (604)
T PF08217_consen 93 DGPEQYLLSVLKQAYSMFRL--FHGSFSSLLE--GREKLKDRLEDFFSRFL 139 (604)
T ss_pred cchHHHHHHHHHHHHHHHHH--HcCCHHHhcc--cHHHHHHHHHHHHHHHH
Confidence 1366777777776653 2234433222 56777788887777663
No 14
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion]
Probab=71.96 E-value=12 Score=28.86 Aligned_cols=51 Identities=16% Similarity=0.307 Sum_probs=39.4
Q ss_pred HHHHH--HHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEecCCch
Q 032406 37 ASLWH--SMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVCEPGTQ 89 (141)
Q Consensus 37 ~~~l~--sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlitd~~~~ 89 (141)
+++.| .++.+-..++|..++ ...+.+.+|-+|+|.-.+|+.+++++++..+
T Consensus 26 ~~ff~~~~v~~~l~~~~~~~a~--~~~ies~~~~~~~~~~s~gi~y~~~~~~e~p 78 (190)
T COG5143 26 FSFFHRSKVKEVLRFLSKTSAS--RASIESGDYFFHYLKMSSGIVYVPISDKEYP 78 (190)
T ss_pred ccccccchHHHHHHHhcccccc--hhccccCceEEEEEecCCCceeEEecccccc
Confidence 44455 567777777776554 3456789999999999999999999999743
No 15
>PF03259 Robl_LC7: Roadblock/LC7 domain; InterPro: IPR004942 This family includes proteins that are about 100 amino acids long and have been shown to be related []. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions []. This family also includes Golgi-associated MP1 adapter protein (Q9Y2Q5 from SWISSPROT) and MglB from Myxococcus xanthus (Q50883 from SWISSPROT), a protein involved in gliding motility []. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.; PDB: 2B95_B 1Z09_A 2E8J_B 2HZ5_B 3KYE_A 2ZL1_B 1SKO_B 3CPT_B 1VEU_B 1VET_B ....
Probab=69.25 E-value=18 Score=23.03 Aligned_cols=64 Identities=14% Similarity=0.212 Sum_probs=34.4
Q ss_pred cEEEEEEEeCCCceEEEeecCCCCCCCChhHHHHHH----HHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEc
Q 032406 3 AIYSLYIINKSGGLIFYKDYGSAGRMDTNDSLRVAS----LWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQS 74 (141)
Q Consensus 3 ~i~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~l~~----~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T 74 (141)
.+-...|++++|.+|...... ..+...++. ++-+...+++.+.. +.-..-.++++...+....-
T Consensus 14 gv~~~~l~~~dG~~i~~~~~~------~~~~~~~aa~~a~~~~~~~~~~~~l~~--~~~~~v~i~~~~~~i~i~~~ 81 (91)
T PF03259_consen 14 GVRGAVLVDKDGLVIASSGID------DDDAEKLAAMAASLLAAAEKLAKELGE--GELEQVRIETEKGEIIITPV 81 (91)
T ss_dssp TEEEEEEEETTSEEEEETSSS------HHHHHHHHHHHHHHHHHHHHHHHHHTT--SSEEEEEEEESSEEEEEEEC
T ss_pred CeeEEEEEcCCCCEEEEecCC------cccHHHHHHHHHHHHHHHHHHHHHhCC--CCcEEEEEEECCCEEEEEEc
Confidence 367889999999999993222 122223333 33355555555551 11122234566666544433
No 16
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.07 E-value=60 Score=25.37 Aligned_cols=57 Identities=19% Similarity=0.286 Sum_probs=38.3
Q ss_pred HHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEecCCch--hHHHHHHHHHHHHHH
Q 032406 45 AISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVCEPGTQ--HMESLLKVIYELYTD 104 (141)
Q Consensus 45 ~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlitd~~~~--~~~~~l~~iy~~Yv~ 104 (141)
.+-+|+.+. +++-+ +|..+.|..|+..+. |+-+.+++|.+.. -.=.||++|++-|++
T Consensus 31 qiL~klp~~-~n~k~-tYs~d~y~Fh~l~~d-g~tylcvadds~gR~ipfaFLe~Ik~~F~k 89 (217)
T KOG0859|consen 31 QILQKLPSS-SNSKF-TYSCDGYTFHYLVED-GLTYLCVADDSAGRQIPFAFLERIKEDFKK 89 (217)
T ss_pred HHHHhCCCC-CCCce-EEecCCeEEEEEEeC-CeEEEEEEeccccccccHHHHHHHHHHHHH
Confidence 345666544 33344 788999999988875 7889999998743 222567777755554
No 17
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.51 E-value=41 Score=28.69 Aligned_cols=91 Identities=15% Similarity=0.177 Sum_probs=49.8
Q ss_pred cEEEEEEEeCCCceEEEeecCCC-CCCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEE
Q 032406 3 AIYSLYIINKSGGLIFYKDYGSA-GRMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFF 81 (141)
Q Consensus 3 ~i~~~~Ii~r~g~~iy~~~~~~~-~~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfv 81 (141)
||.|++++|-+|..+++++|... ...+ ++-.++ .....+.-.. .-.-.+.+..|.+. =+-.-++.|+
T Consensus 1 mi~siflidtsg~l~lek~~~g~t~~rs------ic~~f~--e~~~~~~~~e---~~ppvi~~p~hylf-sv~~~~i~~~ 68 (418)
T KOG2740|consen 1 MILSIFLIDTSGDLLLEKHLKGSTVVRS------ICDYFF--EDQSSDDDLE---HVPPVISTPHHYLF-SVYRDLIFFC 68 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCCceeeee------hHHHHH--Hhhhhccccc---cCCceecCCceeee-eeeccCcEEE
Confidence 68999999999999999999742 1111 222221 1111111111 11112234333321 1334688888
Q ss_pred EEecCCch--hHHHHHHHHHHHHHHh
Q 032406 82 VVCEPGTQ--HMESLLKVIYELYTDY 105 (141)
Q Consensus 82 litd~~~~--~~~~~l~~iy~~Yv~~ 105 (141)
+.+..+.+ .+-+||++|=+...+|
T Consensus 69 ~~st~e~pPL~~iefL~rv~dv~~ey 94 (418)
T KOG2740|consen 69 AVSTVETPPLMVIEFLHRVVDVLLEY 94 (418)
T ss_pred EEEeccCCChhHHHHHHHHHHHHHHH
Confidence 88777655 5567777776555554
No 18
>PF12321 DUF3634: Protein of unknown function (DUF3634); InterPro: IPR022090 This family of proteins is found in bacteria. Proteins in this family are typically between 103 and 114 amino acids in length.
Probab=49.23 E-value=81 Score=22.09 Aligned_cols=78 Identities=9% Similarity=0.230 Sum_probs=47.7
Q ss_pred EEEEEeCCCceEEEeecCCCCCCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEec
Q 032406 6 SLYIINKSGGLIFYKDYGSAGRMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVCE 85 (141)
Q Consensus 6 ~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlitd 85 (141)
-+.-++|+|.|+|.-.|... ++.......=.++.|...+|+++- .+ +-.+-+|.+.+|+|+++--+
T Consensus 14 ~Lv~~~r~~~~vf~i~f~dG-~l~~~KG~iP~~F~~~c~dIa~~~-------~~------~G~ik~~r~~~g~rL~fS~~ 79 (108)
T PF12321_consen 14 WLVFVDRRGLPVFEIHFKDG-RLRVHKGHIPPGFLHNCRDIARRY-------PF------RGTIKVYRQRGGVRLHFSRS 79 (108)
T ss_pred HHHHccccCceEEEEEEECC-cEEEEcCCCChHHHHHHHHHHHhC-------CC------cEEEEEEEeCCceEEEEeCC
Confidence 34557899999999999753 111100011136678888886653 22 34678899999999887555
Q ss_pred CCchhHHHHHHHH
Q 032406 86 PGTQHMESLLKVI 98 (141)
Q Consensus 86 ~~~~~~~~~l~~i 98 (141)
-. +.+++=++.+
T Consensus 80 ip-~~v~QriRNv 91 (108)
T PF12321_consen 80 IP-KKVQQRIRNV 91 (108)
T ss_pred CC-HHHhhhhhhc
Confidence 44 3344444433
No 19
>PF13585 CHU_C: C-terminal domain of CHU protein family; PDB: 3EIF_A 1XF1_B.
Probab=44.98 E-value=25 Score=23.11 Aligned_cols=18 Identities=44% Similarity=0.654 Sum_probs=12.7
Q ss_pred EEEEEEEeCCCceEEEee
Q 032406 4 IYSLYIINKSGGLIFYKD 21 (141)
Q Consensus 4 i~~~~Ii~r~g~~iy~~~ 21 (141)
-+.+.|+||-|+.||..+
T Consensus 28 ~~~~~IynrwG~~Vf~~~ 45 (87)
T PF13585_consen 28 NYSLTIYNRWGELVFESN 45 (87)
T ss_dssp EEEEEEE-SSS-EEEE--
T ss_pred eeEEEEEeCCCcEEEEEC
Confidence 478999999999999853
No 20
>PF08800 VirE_N: VirE N-terminal domain; InterPro: IPR014907 This domain is associated with the N terminus of Virulence E proteins. The function of the domain is unknown.
Probab=44.22 E-value=82 Score=22.45 Aligned_cols=24 Identities=29% Similarity=0.433 Sum_probs=18.2
Q ss_pred CcEEEEEEEcCCC--cEEEEEecCCc
Q 032406 65 DTFDLHCFQSLTG--TKFFVVCEPGT 88 (141)
Q Consensus 65 ~~ykv~~y~T~Tg--iKfvlitd~~~ 88 (141)
+-|.+.+|.|||| +|.++-.+...
T Consensus 56 ~p~t~~~f~SpSG~GvKi~v~~~~~~ 81 (136)
T PF08800_consen 56 DPYTLAAFVSPSGRGVKIIVPFDYPD 81 (136)
T ss_pred CCcEEEEEEcCCCCeEEEEEEecCCC
Confidence 4566899999996 88888766543
No 21
>PF11530 Pilin_PilX: Minor type IV pilin, PilX; PDB: 2OPE_D 2OPD_A.
Probab=36.55 E-value=75 Score=22.76 Aligned_cols=38 Identities=21% Similarity=0.278 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHhhhh
Q 032406 93 SLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQKDRV 136 (141)
Q Consensus 93 ~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~~~~ 136 (141)
.-|=.|.+..-..+++||- ..+..+..+++.++..|+.
T Consensus 13 aelv~INn~~K~~ivkNP~------~~~~~~~~~l~~~v~~yk~ 50 (127)
T PF11530_consen 13 AELVGINNVVKQFIVKNPG------DKNDEIKTKLENFVSKYKM 50 (127)
T ss_dssp HHHHHHHHHHHHHHHH-TT------S-HHHHHHHHHHHHHH---
T ss_pred HHHHHHHHHHHHHHHhCcc------hhhHHHHHHHHHHHHHhcc
Confidence 3455667777777899998 3477788888888888864
No 22
>PF03288 Pox_D5: Poxvirus D5 protein-like; InterPro: IPR004968 This domain is found at the C terminus of phage P4 alpha protein and related proteins. Phage P4 DNA replication depends on the product of the alpha gene, which has origin recognition ability, DNA helicase activity, and DNA primase activity. The structure of the protein can be summarised as follows: The N terminus provides the primase activity, the central region is the helicase/nucleoside triphosphatase domain and the ori DNA recognition resides in the C-terminal 1/3 of the protein []. The domain is also found at the C terminus of a number of proteins from orthopox viruses including vaccinia virus D5. D5 encodes a 90kDa protein that is transiently expressed at early times after infection. It has an nucleoside triphosphatase activity which is independent of common nucleic acid cofactors and it can hydrolyse all the common ribo- and deoxyribonucleoside triphosphates to diphosphates in the presence of a divalent cation [].; PDB: 1KA8_E.
Probab=33.15 E-value=79 Score=20.15 Aligned_cols=35 Identities=23% Similarity=0.453 Sum_probs=22.6
Q ss_pred HHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHh
Q 032406 96 KVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQK 133 (141)
Q Consensus 96 ~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~ 133 (141)
..+|++|..+.-.|=... ++....|..+|++.+..
T Consensus 25 ~~lY~~Y~~wc~~ng~~~---~ls~~~F~~~L~~~~~~ 59 (86)
T PF03288_consen 25 KDLYDAYKEWCEENGYKP---PLSKRKFGKELKQYFPE 59 (86)
T ss_dssp TBHHHHHHHHHHHTT-S-------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCc---ccCHHHHHHHHHHHhhh
Confidence 456666666666675533 68999999999998865
No 23
>PF08465 Herpes_TK_C: Thymidine kinase from Herpesvirus C-terminal; InterPro: IPR013672 This domain is found towards the C terminus in Herpesvirus Thymidine kinases. ; GO: 0004797 thymidine kinase activity, 0005524 ATP binding
Probab=32.39 E-value=36 Score=18.81 Aligned_cols=15 Identities=47% Similarity=0.986 Sum_probs=10.5
Q ss_pred HH-HHHHHhhhhCCCCC
Q 032406 98 IY-ELYTDYVLKNPFYE 113 (141)
Q Consensus 98 iy-~~Yv~~v~~NPfy~ 113 (141)
++ ++|.+ +++||=-+
T Consensus 9 lW~~IY~q-i~kn~aIK 24 (33)
T PF08465_consen 9 LWTEIYTQ-ILKNPAIK 24 (33)
T ss_pred HHHHHHHH-HHhCcccc
Confidence 45 67777 88898643
No 24
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.39 E-value=1.3e+02 Score=22.61 Aligned_cols=22 Identities=27% Similarity=0.324 Sum_probs=19.4
Q ss_pred cEEEEEEEeCCCceEEEeecCC
Q 032406 3 AIYSLYIINKSGGLIFYKDYGS 24 (141)
Q Consensus 3 ~i~~~~Ii~r~g~~iy~~~~~~ 24 (141)
||+.+.|+|.+|+|=.-+=|++
T Consensus 1 MI~AvlifNn~gkPRL~KFY~p 22 (182)
T KOG0936|consen 1 MIKAVLIFNNKGKPRLVKFYTP 22 (182)
T ss_pred CeeEEEEecCCCCcceeeecCc
Confidence 6899999999999998887765
No 25
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=31.30 E-value=2.3e+02 Score=21.39 Aligned_cols=105 Identities=15% Similarity=0.169 Sum_probs=60.6
Q ss_pred cEEEEEEEeCCCceEEEeecCCCCCCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEE
Q 032406 3 AIYSLYIINKSGGLIFYKDYGSAGRMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFV 82 (141)
Q Consensus 3 ~i~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvl 82 (141)
.|-.+.|.+.+|.-||-+-|.++ -++ +-+..++..+--=+.|+.++..+..... ..+.+-.=++-.+.+.-.+-|.+
T Consensus 7 ~v~a~LilDsqGeriy~kyy~pp-h~~-eg~~~vFnsvkkekefek~l~eKt~k~~-~~Il~f~d~lV~~k~~~dv~~yi 83 (187)
T COG5541 7 DVEALLILDSQGERIYRKYYQPP-HRS-EGHQLVFNSVKKEKEFEKKLAEKTAKDR-ESILMFYDRLVMCKRLDDVLLYI 83 (187)
T ss_pred eeeeeEEecCCccchhhhhcCCc-ccc-cccchhhcchhHHHHHHHHHHHHhhcCc-cceeeEcceeeeeeeehhEEEEE
Confidence 46678999999999998777553 111 2122233333334556666643211111 12222334666777888888888
Q ss_pred EecCC--chhHHHHHHHHHHHHHHhhhhCCC
Q 032406 83 VCEPG--TQHMESLLKVIYELYTDYVLKNPF 111 (141)
Q Consensus 83 itd~~--~~~~~~~l~~iy~~Yv~~v~~NPf 111 (141)
+.... .+-+.+.|++|-.+..= +++-|-
T Consensus 84 v~~meeNE~~l~q~f~~ir~Al~l-i~k~~~ 113 (187)
T COG5541 84 VSPMEENEPFLGQVFDEIRAALIL-IVKTPT 113 (187)
T ss_pred ecccccccHHHHHHHHHHHHHHHH-HHcCCc
Confidence 87765 44667777777755544 444443
No 26
>COG4918 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.15 E-value=30 Score=24.13 Aligned_cols=18 Identities=44% Similarity=0.611 Sum_probs=15.0
Q ss_pred EEEeCCCceEEEeecCCC
Q 032406 8 YIINKSGGLIFYKDYGSA 25 (141)
Q Consensus 8 ~Ii~r~g~~iy~~~~~~~ 25 (141)
.+++.+++|||+++|..-
T Consensus 55 ~~idsn~gPiyik~~~~~ 72 (114)
T COG4918 55 ASIDSNFGPIYIKDYGSY 72 (114)
T ss_pred cccccCCCcEEEEeccee
Confidence 367889999999999763
No 27
>PF07013 DUF1314: Protein of unknown function (DUF1314); InterPro: IPR010741 This family consists of several alphaherpesvirus proteins of around 200 residues in length. They belong to the varicellovirus ORF2 family and their function is unknown.
Probab=30.41 E-value=51 Score=24.99 Aligned_cols=33 Identities=12% Similarity=0.250 Sum_probs=26.0
Q ss_pred CceEeecCcEEEEEEEcCCCcEEEEEecCCchhHHHHHH
Q 032406 58 GIELLEADTFDLHCFQSLTGTKFFVVCEPGTQHMESLLK 96 (141)
Q Consensus 58 g~~~~~t~~ykv~~y~T~TgiKfvlitd~~~~~~~~~l~ 96 (141)
-|..|...++.|++||-.||+-|+ .+++.+||.
T Consensus 60 kF~iy~~~~~~vyGyE~~tgLH~L------a~sLhdfL~ 92 (177)
T PF07013_consen 60 KFVIYLSRNGSVYGYENGTGLHFL------AKSLHDFLT 92 (177)
T ss_pred eEEEEEccCCeEEeecCCcchhhh------hHHHHHHHH
Confidence 477788899999999999999765 456666654
No 28
>COG3260 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]
Probab=30.20 E-value=95 Score=22.88 Aligned_cols=40 Identities=25% Similarity=0.375 Sum_probs=35.5
Q ss_pred eecCcEEEEEEEcCCCcEEEEEecCCchhHHHHHHHHHHH
Q 032406 62 LEADTFDLHCFQSLTGTKFFVVCEPGTQHMESLLKVIYEL 101 (141)
Q Consensus 62 ~~t~~ykv~~y~T~TgiKfvlitd~~~~~~~~~l~~iy~~ 101 (141)
|.-++|.++.--+|-+--.+|+|.+-...+++-|+++|+.
T Consensus 34 YDaErfgI~~v~sPRhADiLlVTG~vT~~~~e~lkk~Yea 73 (148)
T COG3260 34 YDAERFGIKVVNSPRHADILLVTGAVTRQMREPLKKAYEA 73 (148)
T ss_pred cchHHheeEEeCCCccccEEEEeccccHHHHHHHHHHHHh
Confidence 5568899999999999999999999999999999999864
No 29
>COG2122 Uncharacterized conserved protein [Function unknown]
Probab=28.81 E-value=1.3e+02 Score=24.01 Aligned_cols=37 Identities=27% Similarity=0.486 Sum_probs=27.7
Q ss_pred HHHHHhhhhCCCCC-CCCcccchhHHHHHHHHHHhhhh
Q 032406 100 ELYTDYVLKNPFYE-MEMPIRCELFDINLSQAVQKDRV 136 (141)
Q Consensus 100 ~~Yv~~v~~NPfy~-~~~pI~s~~F~~~v~~~~~~~~~ 136 (141)
..--+||++||-+. +-.||.++.|...+-+.+.+-..
T Consensus 46 ~~Le~yI~~nP~f~ts~~pi~~~e~~peivrrM~~A~~ 83 (256)
T COG2122 46 SELEDYILKNPEFLTSLEPIECREFAPEIVRRMSRAGE 83 (256)
T ss_pred HHHHHHHHhCcchhcccceeeccccCcHHHHHHHHhcC
Confidence 56778999999654 45799999998877766655433
No 30
>PF08253 Leader_Erm: Erm Leader peptide ; InterPro: IPR013204 These short proteins are leader peptides (15-19 amino acids) of erm genes that code for resistance determinants in Staphylococcus aureus [].
Probab=28.30 E-value=61 Score=15.54 Aligned_cols=11 Identities=27% Similarity=0.863 Sum_probs=8.2
Q ss_pred ccEEEEEEEeC
Q 032406 2 AAIYSLYIINK 12 (141)
Q Consensus 2 ~~i~~~~Ii~r 12 (141)
|.++|++++++
T Consensus 1 MG~fSiFVI~~ 11 (19)
T PF08253_consen 1 MGMFSIFVINT 11 (19)
T ss_pred CceEEEEEEEe
Confidence 45788888876
No 31
>PHA03371 circ protein; Provisional
Probab=28.19 E-value=50 Score=26.27 Aligned_cols=32 Identities=13% Similarity=0.269 Sum_probs=24.4
Q ss_pred ceEeecCcEEEEEEEcCCCcEEEEEecCCchhHHHHHH
Q 032406 59 IELLEADTFDLHCFQSLTGTKFFVVCEPGTQHMESLLK 96 (141)
Q Consensus 59 ~~~~~t~~ykv~~y~T~TgiKfvlitd~~~~~~~~~l~ 96 (141)
|..|...++.|++||-.||+-|+ .+++.+||.
T Consensus 84 F~iyl~r~~sVyGYE~gtGLH~L------A~sLhdFL~ 115 (240)
T PHA03371 84 FVIYLSRNGSVYGYENGTGLHFL------AKSLHDFLT 115 (240)
T ss_pred EEEEEccCCeEEeecCCcchhhh------HHHHHHHHH
Confidence 66777888999999999999765 355666654
No 32
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=27.71 E-value=2.5e+02 Score=20.72 Aligned_cols=74 Identities=12% Similarity=0.098 Sum_probs=41.9
Q ss_pred cEEEEEEEeCCCceEEEeecCCCCCCCChhHHHHHHHHHHHHHHHHhhCCCC-CCCCceEeecCcEEEEEEEcCCCcEEE
Q 032406 3 AIYSLYIINKSGGLIFYKDYGSAGRMDTNDSLRVASLWHSMHAISQQLSPTT-GCSGIELLEADTFDLHCFQSLTGTKFF 81 (141)
Q Consensus 3 ~i~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~l~~~l~sL~~i~~klsp~~-~~~g~~~~~t~~ykv~~y~T~TgiKfv 81 (141)
||+.+.|+||+|.|=..+=|++ .+..++.++-+=+|+ .++..+ ..+.+.-+. +-++ .|.--.++=|+
T Consensus 1 ~i~~vli~nrqgk~RL~K~yt~---~~~~e~~kli~~i~~------lIs~R~~ke~N~~e~k--~~ki-VYrrYA~LyF~ 68 (152)
T COG5030 1 MIKFVLIFNRQGKPRLVKWYTP---VSDPEQAKLIADIYE------LISARKPKESNFIEGK--NEKI-VYRRYATLYFV 68 (152)
T ss_pred CeEEEEEEcCCCceeeeEeecc---CCcHHHHHHHHHHHH------HHHcCCchhccccccc--CcEE-EeeecCcEEEE
Confidence 5889999999999988886653 233343333332322 233221 122332222 2133 34555688899
Q ss_pred EEecCCc
Q 032406 82 VVCEPGT 88 (141)
Q Consensus 82 litd~~~ 88 (141)
+..|+.+
T Consensus 69 f~Vd~~d 75 (152)
T COG5030 69 FGVDNDD 75 (152)
T ss_pred EEEcCCC
Confidence 9998873
No 33
>PF13388 DUF4106: Protein of unknown function (DUF4106)
Probab=27.28 E-value=1.1e+02 Score=25.66 Aligned_cols=43 Identities=19% Similarity=0.264 Sum_probs=33.1
Q ss_pred hhHHHHHHHHHHHHHHhhhhCCCCCCCCcccchhHHHHHHHHHHhhh
Q 032406 89 QHMESLLKVIYELYTDYVLKNPFYEMEMPIRCELFDINLSQAVQKDR 135 (141)
Q Consensus 89 ~~~~~~l~~iy~~Yv~~v~~NPfy~~~~pI~s~~F~~~v~~~~~~~~ 135 (141)
.+.++.|+.+|+- |+.| |-|. .|...+|+-||..+++.++++-
T Consensus 51 adfknafealhsk-vklv--ndfs-sgkklksegfdkelrevaqnmt 93 (422)
T PF13388_consen 51 ADFKNAFEALHSK-VKLV--NDFS-SGKKLKSEGFDKELREVAQNMT 93 (422)
T ss_pred chHHHHHHHHHhh-hhhh--cccc-cccccccchhhHHHHHHHHHHH
Confidence 3577888888843 4533 8885 4889999999999999988763
No 34
>PF04556 DpnII: DpnII restriction endonuclease; InterPro: IPR007637 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry is found in type II restriction enzymes such as DpmII (3.1.21.4 from EC), which recognises the double-stranded unmethylated sequence GATC and cleave before G-1 [], where it encompasess the full length of the protein. It is also found in a number of proteins of unknown function, where it is located adjacent to a DNA adenine-specific methyltransferase domain (IPR012327 from INTERPRO).; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=26.94 E-value=69 Score=26.23 Aligned_cols=28 Identities=14% Similarity=0.360 Sum_probs=19.9
Q ss_pred CCCcEEEEEecCC-----chhHHHHHHHHHHHH
Q 032406 75 LTGTKFFVVCEPG-----TQHMESLLKVIYELY 102 (141)
Q Consensus 75 ~TgiKfvlitd~~-----~~~~~~~l~~iy~~Y 102 (141)
..|++||-+||.. ...+++.|..|..+|
T Consensus 240 ~~~~~FvWITDG~GW~sak~~L~Eaf~~i~~iy 272 (286)
T PF04556_consen 240 IDGFEFVWITDGKGWKSAKNPLREAFDHIDHIY 272 (286)
T ss_pred cCCcEEEEEEeChhHHhhHhHHHHHHHhhhHhe
Confidence 6899999999985 235666666654444
No 35
>PF04370 DUF508: Domain of unknown function (DUF508) ; InterPro: IPR007465 This is a family of uncharacterised proteins from Caenorhabditis elegans.
Probab=25.96 E-value=2e+02 Score=21.22 Aligned_cols=63 Identities=13% Similarity=0.201 Sum_probs=38.5
Q ss_pred EEEcCCCcEEEEEecCCc---------------hhHHHHHHHHHHHHHHhhhhCCC-----CCCC-------CcccchhH
Q 032406 71 CFQSLTGTKFFVVCEPGT---------------QHMESLLKVIYELYTDYVLKNPF-----YEME-------MPIRCELF 123 (141)
Q Consensus 71 ~y~T~TgiKfvlitd~~~---------------~~~~~~l~~iy~~Yv~~v~~NPf-----y~~~-------~pI~s~~F 123 (141)
-|+|.-++||||++-+.. --++++.-..|+++.+.+-.+-| |..| -|+-..-.
T Consensus 48 K~V~MVhVKFilLh~Dv~kRrvQS~F~DEF~SDc~LqdVi~nF~qlc~RqLr~~~f~PRlsYCIGeln~~nSKPv~~~Dl 127 (156)
T PF04370_consen 48 KYVTMVHVKFILLHRDVFKRRVQSCFTDEFPSDCLLQDVIINFHQLCSRQLRNQEFNPRLSYCIGELNYKNSKPVLKSDL 127 (156)
T ss_pred cEEEEEEEEEEEEehHHHHHHHHHhhcccCcccCcHHHHHHHHHHHHHHHHhccccCcceeeeeccccccCCCcchHHHH
Confidence 366777899999987631 14566666677888885543333 2222 25655666
Q ss_pred HHHHHHHHHh
Q 032406 124 DINLSQAVQK 133 (141)
Q Consensus 124 ~~~v~~~~~~ 133 (141)
.+.+.++++.
T Consensus 128 ~KtLAqLA~t 137 (156)
T PF04370_consen 128 GKTLAQLAAT 137 (156)
T ss_pred HHHHHHHhcc
Confidence 6666666554
No 36
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.95 E-value=3.5e+02 Score=21.32 Aligned_cols=84 Identities=17% Similarity=0.237 Sum_probs=50.2
Q ss_pred HHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEecCCchh--HHHHHHHHHH----HHHHhhhhCCCCCCC
Q 032406 42 SMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVCEPGTQH--MESLLKVIYE----LYTDYVLKNPFYEME 115 (141)
Q Consensus 42 sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlitd~~~~~--~~~~l~~iy~----~Yv~~v~~NPfy~~~ 115 (141)
-++.+..++++..+ +.-++.|+.|.+|+ ..-.|+=+++++|..-+. .=+.|+++.+ .|-+-+. +|-..|=
T Consensus 36 q~K~L~kkLs~~s~--~r~Sietg~f~fHf-li~~~Vcylvicd~~yP~kLAF~YLedL~~EF~~~~~~~~~-~~~~RPY 111 (216)
T KOG0862|consen 36 QAKSLFKKLSQQSP--TRCSIETGPFVFHF-LIESGVCYLVICDKSYPRKLAFSYLEDLAQEFDKSYGKNII-QPASRPY 111 (216)
T ss_pred HHHHHHHhccCCCC--cccccccCCeEEEE-EecCCEEEEEEecCCCcHHHHHHHHHHHHHHHHHhcccccC-CccCCCe
Confidence 46677788887632 34467888998885 456899999999997542 2245555553 3444221 3333333
Q ss_pred CcccchhHHHHHHH
Q 032406 116 MPIRCELFDINLSQ 129 (141)
Q Consensus 116 ~pI~s~~F~~~v~~ 129 (141)
.=|+=+.|..++++
T Consensus 112 ~FieFD~~IQk~Kk 125 (216)
T KOG0862|consen 112 AFIEFDTFIQKTKK 125 (216)
T ss_pred eEEehhHHHHHHHH
Confidence 33555555555544
No 37
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=24.88 E-value=81 Score=20.46 Aligned_cols=26 Identities=23% Similarity=0.454 Sum_probs=16.9
Q ss_pred cEEEEEecCCchhHHHHHHHHHHHHHH
Q 032406 78 TKFFVVCEPGTQHMESLLKVIYELYTD 104 (141)
Q Consensus 78 iKfvlitd~~~~~~~~~l~~iy~~Yv~ 104 (141)
-||+.+|++.. .+.++-++|=+-|-+
T Consensus 3 kKFLhlt~~~~-tl~~L~~eI~~~f~k 28 (73)
T PF10407_consen 3 KKFLHLTDPNN-TLSQLKEEIEERFKK 28 (73)
T ss_pred cEEEEEeCCCC-cHHHHHHHHHHHHHH
Confidence 48999999863 355555555554444
No 38
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=24.71 E-value=67 Score=25.80 Aligned_cols=21 Identities=33% Similarity=0.665 Sum_probs=18.6
Q ss_pred CccEEEEEEEeCCCceEEEee
Q 032406 1 MAAIYSLYIINKSGGLIFYKD 21 (141)
Q Consensus 1 m~~i~~~~Ii~r~g~~iy~~~ 21 (141)
|..+||+.|+|-.|+.+|-..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~ 21 (262)
T MTH00027 1 MKNVYCLTIVNWEGGALYPMN 21 (262)
T ss_pred CCceEEEEEEeccCcceeehh
Confidence 678999999999999999654
No 39
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=24.10 E-value=40 Score=25.69 Aligned_cols=26 Identities=19% Similarity=0.379 Sum_probs=20.8
Q ss_pred CcccchhHHHHHHHHHHhhhh--hhcCC
Q 032406 116 MPIRCELFDINLSQAVQKDRV--AMLGR 141 (141)
Q Consensus 116 ~pI~s~~F~~~v~~~~~~~~~--~~~~~ 141 (141)
|...|++|...|+++++.-+. ++.||
T Consensus 112 MElks~~f~~~ve~vl~~~kpliatlHr 139 (179)
T COG1618 112 MELKSKKFREAVEEVLKSGKPLIATLHR 139 (179)
T ss_pred hhhccHHHHHHHHHHhcCCCcEEEEEec
Confidence 467999999999999987664 66654
No 40
>PF07599 DUF1563: Protein of unknown function (DUF1563); InterPro: IPR011457 This is a small family of short hypothetical proteins in Leptospira interrogans.
Probab=23.77 E-value=1.2e+02 Score=17.37 Aligned_cols=20 Identities=35% Similarity=0.697 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHhhhhCCC
Q 032406 92 ESLLKVIYELYTDYVLKNPF 111 (141)
Q Consensus 92 ~~~l~~iy~~Yv~~v~~NPf 111 (141)
-+.|+.+|.-||+|-+|--|
T Consensus 11 L~TLeNlYatyve~~lkq~f 30 (43)
T PF07599_consen 11 LETLENLYATYVEYFLKQTF 30 (43)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 35678899999999886544
No 41
>KOG4497 consensus Uncharacterized conserved protein WDR8, contains WD repeats [General function prediction only]
Probab=22.73 E-value=52 Score=27.93 Aligned_cols=23 Identities=13% Similarity=0.150 Sum_probs=19.6
Q ss_pred cCcEEEEEEEcCCCcEEEEEecC
Q 032406 64 ADTFDLHCFQSLTGTKFFVVCEP 86 (141)
Q Consensus 64 t~~ykv~~y~T~TgiKfvlitd~ 86 (141)
.=+|||++||--+|+|||--+..
T Consensus 199 ~Leykv~aYe~~lG~k~v~wsP~ 221 (447)
T KOG4497|consen 199 VLEYKVYAYERGLGLKFVEWSPC 221 (447)
T ss_pred hhhheeeeeeeccceeEEEeccc
Confidence 35799999999999999987664
No 42
>PF04648 MF_alpha: Yeast mating factor alpha hormone; InterPro: IPR006742 This repeated sequence,WHWLQLKPGQPMY, characterises the mating factor alpha-1 or alpha-1 mating pheromone [contains: Mating factor alpha].The hormone is excreted into the culture medium by haploid cells of the alpha mating type and acts on cells of the opposite mating type (type A) by binding to a cognate G-protein coupled receptor which is coupled to a downstream signal transduction pathway. It inhibits DNA synthesis in type A cells synchronising them with type alpha, and so mediates the conjugation process.; GO: 0000772 mating pheromone activity, 0019953 sexual reproduction, 0005576 extracellular region
Probab=20.98 E-value=35 Score=14.90 Aligned_cols=7 Identities=14% Similarity=0.544 Sum_probs=5.0
Q ss_pred CCCceEE
Q 032406 12 KSGGLIF 18 (141)
Q Consensus 12 r~g~~iy 18 (141)
+.|+|+|
T Consensus 7 ~~GqP~Y 13 (13)
T PF04648_consen 7 SPGQPMY 13 (13)
T ss_pred cCCCcCC
Confidence 5678876
No 43
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=20.57 E-value=6.1e+02 Score=22.59 Aligned_cols=85 Identities=18% Similarity=0.258 Sum_probs=47.0
Q ss_pred EEEEEeCCCceEEEeecCCCCCCCChhHHH-HHHHHHHHHHHHHhhCCCCCCCCceEeecCcEEEEEEEcCCCcEEEEEe
Q 032406 6 SLYIINKSGGLIFYKDYGSAGRMDTNDSLR-VASLWHSMHAISQQLSPTTGCSGIELLEADTFDLHCFQSLTGTKFFVVC 84 (141)
Q Consensus 6 ~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~-l~~~l~sL~~i~~klsp~~~~~g~~~~~t~~ykv~~y~T~TgiKfvlit 84 (141)
.+.|+...|.|||.+.=+ ++.+. ..|.+.++=.+.+.- + .-+.++.+..+++.... -+-+-+|.++
T Consensus 119 hifilseaGKPiyS~~gs-------~e~l~stmGv~~alISf~q~~-~----~~i~si~a~g~k~vfl~-kspl~LvA~s 185 (523)
T KOG0997|consen 119 HIFILSEAGKPIYSRHGS-------DEALSSTMGVMQALISFFQVS-G----LAITSIHAFGNKLVFLQ-KSPLLLVAVS 185 (523)
T ss_pred eEEEEecCCCceeeecCc-------HHHHHHHHHHHHHHHHHHhhC-C----ceEEEEEecCceEEEEe-cCcEEEEEEc
Confidence 378999999999997431 23222 466555555553322 1 24667777777775443 4445555555
Q ss_pred cCCchhHHHHHHHHHHHHHH
Q 032406 85 EPGTQHMESLLKVIYELYTD 104 (141)
Q Consensus 85 d~~~~~~~~~l~~iy~~Yv~ 104 (141)
.. .....++++++=-+|..
T Consensus 186 ~t-~~Sa~qL~~qL~~ly~Q 204 (523)
T KOG0997|consen 186 RT-SQSAAQLLQQLLLLYCQ 204 (523)
T ss_pred cc-ccCHHHHHHHHHHHHHH
Confidence 42 33444444444444433
No 44
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=20.41 E-value=75 Score=18.25 Aligned_cols=17 Identities=18% Similarity=0.274 Sum_probs=13.9
Q ss_pred cchhHHHHHHHHHHhhh
Q 032406 119 RCELFDINLSQAVQKDR 135 (141)
Q Consensus 119 ~s~~F~~~v~~~~~~~~ 135 (141)
.|..++.+|+.++++|.
T Consensus 28 ~S~Ll~eAle~~l~ky~ 44 (44)
T PF12651_consen 28 KSKLLREALEDYLEKYE 44 (44)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 57888999999988874
No 45
>PF10100 DUF2338: Uncharacterized protein conserved in bacteria (DUF2338); InterPro: IPR016935 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.15 E-value=3.2e+02 Score=23.73 Aligned_cols=93 Identities=22% Similarity=0.383 Sum_probs=56.6
Q ss_pred EEEeCCCceEEEeecCCCCCCCChhHHHHHHHHHHHHHHHHhhCCCCCCCCceE---eecCcEEEEEEEcCCCcEEEEEe
Q 032406 8 YIINKSGGLIFYKDYGSAGRMDTNDSLRVASLWHSMHAISQQLSPTTGCSGIEL---LEADTFDLHCFQSLTGTKFFVVC 84 (141)
Q Consensus 8 ~Ii~r~g~~iy~~~~~~~~~~~~~~~~~l~~~l~sL~~i~~klsp~~~~~g~~~---~~t~~ykv~~y~T~TgiKfvlit 84 (141)
.||+..+.+-|-...-+++..+..--..|-.+++=+..+..++.-. ++.+ ...++|=|+- +| +
T Consensus 227 aIF~~~~~~kYvYKL~PEGPIT~~~I~~M~~lw~Ei~~i~~~l~~~----~~NLLkFm~ddNYPV~~-es---l------ 292 (429)
T PF10100_consen 227 AIFEEDGVPKYVYKLFPEGPITPTLIRDMVQLWKEIMEILNKLGIE----PFNLLKFMNDDNYPVRP-ES---L------ 292 (429)
T ss_pred HHhCCCCCcceEEecCCCCCCCHHHHHHHHHHHHHHHHHHHHcCCC----cchHHHHhccCCCCCCh-hh---C------
Confidence 3677888888876655555554433333777777888888888653 2322 2345676542 11 1
Q ss_pred cCCchhHHHH-----HHHHHHHHHHh--hhhCCCCCCCC
Q 032406 85 EPGTQHMESL-----LKVIYELYTDY--VLKNPFYEMEM 116 (141)
Q Consensus 85 d~~~~~~~~~-----l~~iy~~Yv~~--v~~NPfy~~~~ 116 (141)
+..++.+| .++-|-+||+| ++=.||.+||.
T Consensus 293 --sr~~Ie~F~~l~~i~QEYLLYVRYtsiLIDPFS~PD~ 329 (429)
T PF10100_consen 293 --SRDDIESFEELPAIHQEYLLYVRYTSILIDPFSEPDE 329 (429)
T ss_pred --CHHHHhhhhcCChHHhhHHHHHHhhhheeCCCCCCCC
Confidence 23455554 34556688887 34599999985
No 46
>KOG1299 consensus Vacuolar sorting protein VPS45/Stt10 (Sec1 family) [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.15 E-value=90 Score=27.60 Aligned_cols=29 Identities=21% Similarity=0.590 Sum_probs=23.4
Q ss_pred hhHHHHHHHHHHHHHHhhhhCCC-CCCCCc
Q 032406 89 QHMESLLKVIYELYTDYVLKNPF-YEMEMP 117 (141)
Q Consensus 89 ~~~~~~l~~iy~~Yv~~v~~NPf-y~~~~p 117 (141)
.|-.+.-++|+++|.||+.-||+ +..+.|
T Consensus 113 sD~~E~V~eVqE~y~Df~~~n~~Lfsln~p 142 (549)
T KOG1299|consen 113 SDEQEVVREVQEIYLDFFKVNPDLFSLNIP 142 (549)
T ss_pred cchHHHHHHHHHHHHhhhccCCceeecCCc
Confidence 36678889999999999999997 555544
No 47
>PF13198 DUF4014: Protein of unknown function (DUF4014)
Probab=20.12 E-value=72 Score=20.72 Aligned_cols=25 Identities=32% Similarity=0.676 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhhhhCCCCCCCCccc
Q 032406 94 LLKVIYELYTDYVLKNPFYEMEMPIR 119 (141)
Q Consensus 94 ~l~~iy~~Yv~~v~~NPfy~~~~pI~ 119 (141)
.++.+.+.|.+ ++.|||-.+++.|.
T Consensus 43 ~~E~l~e~Y~~-~~w~~F~~Lhnkin 67 (72)
T PF13198_consen 43 IIEPLFELYKD-WFWNPFNALHNKIN 67 (72)
T ss_pred HHHHHHHHHHH-HHHHhHHHHhcccc
Confidence 67888899999 45699976666653
Done!