Query psy2728
Match_columns 139
No_of_seqs 115 out of 316
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 23:41:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2728.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2728hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3368|consensus 100.0 1.1E-34 2.3E-39 220.1 10.1 100 40-139 1-106 (140)
2 PF04099 Sybindin: Sybindin-li 100.0 3.2E-33 6.8E-38 212.2 9.7 101 33-139 4-112 (142)
3 KOG3369|consensus 99.9 9.4E-27 2E-31 184.4 8.8 78 61-139 90-167 (199)
4 COG5122 TRS23 Transport protei 99.9 1.4E-22 3E-27 151.7 7.8 99 32-139 5-103 (134)
5 PF04628 Sedlin_N: Sedlin, N-t 97.7 7.7E-05 1.7E-09 55.7 5.2 88 49-139 9-103 (132)
6 COG5603 TRS20 Subunit of TRAPP 96.0 0.013 2.8E-07 44.7 4.5 89 48-139 14-105 (136)
7 PF13774 Longin: Regulated-SNA 92.4 0.78 1.7E-05 31.0 6.6 53 79-134 3-57 (83)
8 PF08217 DUF1712: Fungal domai 91.2 0.9 1.9E-05 42.2 7.6 73 62-138 29-110 (604)
9 KOG3444|consensus 86.6 1.2 2.5E-05 33.7 4.0 57 65-122 24-88 (121)
10 KOG3487|consensus 83.2 2.4 5.2E-05 32.8 4.4 95 33-139 5-106 (139)
11 PF03164 Mon1: Trafficking pro 82.4 19 0.00042 31.8 10.4 85 32-137 13-99 (415)
12 KOG3603|consensus 70.6 11 0.00025 34.2 5.8 71 64-134 335-432 (456)
13 KOG0861|consensus 58.8 46 0.00099 27.2 6.6 45 76-124 42-86 (198)
14 COG5143 SNC1 Synaptobrevin/VAM 49.5 31 0.00068 28.0 4.3 59 64-124 18-78 (190)
15 PF10407 Cytokin_check_N: Cdc1 45.9 28 0.00062 24.0 3.1 26 113-138 3-30 (73)
16 KOG0862|consensus 41.9 85 0.0018 26.1 5.8 44 78-124 37-80 (216)
17 KOG0625|consensus 30.7 12 0.00025 34.5 -1.0 18 100-117 342-359 (558)
18 COG0033 Pgm Phosphoglucomutase 26.6 34 0.00073 31.6 1.2 15 103-117 340-354 (524)
19 COG3260 Ni,Fe-hydrogenase III 24.8 1E+02 0.0022 24.3 3.4 37 98-134 35-71 (148)
20 PF14484 FISNA: Fish-specific 24.3 18 0.00039 24.7 -0.7 26 114-139 9-35 (73)
21 PF01217 Clat_adaptor_s: Clath 22.0 3.2E+02 0.0069 19.8 8.1 82 33-134 5-88 (141)
22 TIGR02471 sucr_syn_bact_C sucr 21.0 90 0.0019 24.3 2.5 22 112-133 30-51 (236)
No 1
>KOG3368|consensus
Probab=100.00 E-value=1.1e-34 Score=220.14 Aligned_cols=100 Identities=57% Similarity=0.833 Sum_probs=96.3
Q ss_pred ceeeeeee------eeecccCCCCCCCccCCcchhhhhHHhHHHHHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCCc
Q psy2728 40 ATPADVYR------LILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGL 113 (139)
Q Consensus 40 m~v~sl~I------LIy~re~~~~~~~~~~~sne~klLaG~lhSL~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TGl 113 (139)
|++|++|| |||++||++.++++..+++|+|||+||+|||++|++||+|.+.++||.+++|+.||||+||||||+
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 78999999 999999999988888899999999999999999999999999899999999999999999999999
Q ss_pred EEEEEeCCCchhHHHHHHHHhhhccC
Q psy2728 114 KFVLNTDVQAQDVRKFLASVYSKVYV 139 (139)
Q Consensus 114 KFVL~Td~~~~~l~~~L~~IY~elYv 139 (139)
||||+||+++++++++|++||+.+||
T Consensus 81 k~vl~Tdpk~~~ir~vLq~IYs~lyV 106 (140)
T KOG3368|consen 81 KFVLNTDPKAGSIRDVLQYIYSHLYV 106 (140)
T ss_pred EEEEecCCCcccHHHHHHHHHHHHHH
Confidence 99999999999999999999987986
No 2
>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=3.2e-33 Score=212.16 Aligned_cols=101 Identities=41% Similarity=0.589 Sum_probs=77.5
Q ss_pred eEEecCCceeeeeeeeeecccCCCCCCC--ccCCcchhhhhHHhHHHHHHHHhhhCC------CCCCCCeEEEEeCCEEE
Q psy2728 33 LIGYDRSATPADVYRLILGQSVDHGSQS--ALMLMIEGKLMYGMLFSLKSFVSKISP------LDSKTGFLSYKTTKYAL 104 (139)
Q Consensus 33 ~~~~~~~m~v~sl~ILIy~re~~~~~~~--~~~~sne~klLaG~lhSL~ais~kLsP------~~~~~G~~s~eT~~ykL 104 (139)
|||+||++++ ||+|+|++.++. +..++||+|+|||||||||+||+||+| .++++||++++|++|||
T Consensus 4 lyI~nr~G~l------Iy~~~~~~~~~~~~~~~~~ne~~ll~g~l~sl~~i~~klsp~~~~~~~~~~~g~~~~~T~~ykl 77 (142)
T PF04099_consen 4 LYIFNRSGGL------IYYREWNRSKNEGQPKLSSNEYKLLAGMLHSLKAIASKLSPVDSKPNEPGSSGFESFETDTYKL 77 (142)
T ss_dssp EEEE-TTS-E------EEEEETSSSS--E-SSSCHHHHHHHHHHHHHHHHHHHHT-SSSSSS-SSS--SEEEEEESS-EE
T ss_pred EEEEeCCcce------eeehhhCCCCccccCCCChhHHHHHHhhHHHHHHHHHHhCCCCcccccccceeEEEEEeCCEEE
Confidence 5666666665 999999975433 467999999999999999999999999 34568999999999999
Q ss_pred EEeeCCCCcEEEEEeCCCchhHHHHHHHHhhhccC
Q psy2728 105 HLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVYV 139 (139)
Q Consensus 105 h~~ET~TGlKFVL~Td~~~~~l~~~L~~IY~elYv 139 (139)
|||||+||+||||+||++++++.+.|.++|.++||
T Consensus 78 h~~eT~TGlKFvl~td~~~~~~~~~l~~~~~~lY~ 112 (142)
T PF04099_consen 78 HCFETPTGLKFVLITDPNVPSLRDELLRIYYELYV 112 (142)
T ss_dssp EEEE-TTS-EEEEEE-TTCCHCHHHHHHHHHHHHH
T ss_pred EEEEcCcCcEEEEEecCCCccHHHHHHHHHHHHHH
Confidence 99999999999999999997776666666659985
No 3
>KOG3369|consensus
Probab=99.94 E-value=9.4e-27 Score=184.37 Aligned_cols=78 Identities=24% Similarity=0.438 Sum_probs=75.1
Q ss_pred ccCCcchhhhhHHhHHHHHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCCcEEEEEeCCCchhHHHHHHHHhhhccC
Q psy2728 61 ALMLMIEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVYV 139 (139)
Q Consensus 61 ~~~~sne~klLaG~lhSL~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TGlKFVL~Td~~~~~l~~~L~~IY~elYv 139 (139)
++.+.||.+.|+|||||+++|+.|+||.++++|++.++|++|+||||||.||+|||+++|+.+..++.+||+|| ++|.
T Consensus 90 p~~ttNEkL~las~fhsl~aI~~qlsp~~ksSGie~LetdtF~l~~~QTlTG~KFVvis~~~~~~aD~lLrKiY-elYs 167 (199)
T KOG3369|consen 90 PKLTTNEKLILASSFHSLFAISTQLSPEPKSSGIEVLETDTFTLHIFQTLTGTKFVVIAEPGTQGADSLLRKIY-ELYS 167 (199)
T ss_pred CcccccchhhhhhhhcchhheeeccCCCCCCCceEEEEeccEEEEEEEccCCcEEEEEecCCchhHHHHHHHHH-HHHH
Confidence 44689999999999999999999999999999999999999999999999999999999999999999999999 9984
No 4
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=99.88 E-value=1.4e-22 Score=151.68 Aligned_cols=99 Identities=18% Similarity=0.329 Sum_probs=91.9
Q ss_pred ceEEecCCceeeeeeeeeecccCCCCCCCccCCcchhhhhHHhHHHHHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCC
Q psy2728 32 PLIGYDRSATPADVYRLILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPT 111 (139)
Q Consensus 32 ~~~~~~~~m~v~sl~ILIy~re~~~~~~~~~~~sne~klLaG~lhSL~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~T 111 (139)
.+.++|+++++ ||+|||.++ ...+++||+++|+|++||+++|+.|++|-.+++|++.+.+++|.++.|||.|
T Consensus 5 ~~~iINksGgl------ifqref~~~--et~lnsneyLiLastlhgV~aI~tq~~p~~gssg~~~l~~~~f~m~I~qT~T 76 (134)
T COG5122 5 QFFIINKSGGL------IFQREFGEG--ETELNSNEYLILASTLHGVSAILTQTIPLPGSSGRLVLYFRNFVMTIFQTTT 76 (134)
T ss_pred EEEEEecCCcE------EEEEeccCC--ccccCcccEEEEeechhhhhhhhhhcccCCCCCceEEEEeccEEEEEEEecC
Confidence 47888999998 999999764 5668999999999999999999999999988999999999999999999999
Q ss_pred CcEEEEEeCCCchhHHHHHHHHhhhccC
Q psy2728 112 GLKFVLNTDVQAQDVRKFLASVYSKVYV 139 (139)
Q Consensus 112 GlKFVL~Td~~~~~l~~~L~~IY~elYv 139 (139)
|+|||+++.....|+.--|++|| ++|+
T Consensus 77 G~kFV~~~~k~t~na~~ql~kiY-~lYs 103 (134)
T COG5122 77 GTKFVFVAEKRTVNALFQLQKIY-SLYS 103 (134)
T ss_pred CcEEEEEecCCchhHHHHHHHHH-HHHH
Confidence 99999999988999888899999 8884
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=97.69 E-value=7.7e-05 Score=55.67 Aligned_cols=88 Identities=23% Similarity=0.229 Sum_probs=53.1
Q ss_pred eecccCCCCCCCccC-CcchhhhhHHhHHHHHHHHhhhCCCCCCCCeE-EEEeCCEEEEEeeCCCCcEEEEEeC-----C
Q psy2728 49 ILGQSVDHGSQSALM-LMIEGKLMYGMLFSLKSFVSKISPLDSKTGFL-SYKTTKYALHLYETPTGLKFVLNTD-----V 121 (139)
Q Consensus 49 Iy~re~~~~~~~~~~-~sne~klLaG~lhSL~ais~kLsP~~~~~G~~-s~eT~~ykLh~~ET~TGlKFVL~Td-----~ 121 (139)
||-+++...+ ... +.++.+.-+-..-||=.|-.++.-.....-+. ....+.|+++-|.|.||+||||+.+ .
T Consensus 9 Ly~~~~~~~~--~~~~~~~~~l~~~~~h~sLD~iee~~~~~~~~~yLg~l~~~~~~~vygyvT~t~~Kfvl~~~~~~~~~ 86 (132)
T PF04628_consen 9 LYIRSFPSEK--ESSSSDARHLYQFIAHSSLDVIEEKLWKSSSDMYLGLLDPFEDYKVYGYVTNTGIKFVLVHDMSDNSI 86 (132)
T ss_dssp EEEEEE--ST---CGHHHHHHHHHHHHHHHHHHHHHCCHCSSSCSEEEEEEEETTEEEEEEETTT--EEEEEECGGG-S-
T ss_pred eEEEecCCCc--ccccchHHHHHHHHHHHHHHHHHHHHhhcccccccCceehhhhHHHHhhhccCceeEEEEEecccCCc
Confidence 7788886521 111 11233433333334666666666522222222 2456999999999999999999998 4
Q ss_pred CchhHHHHHHHHhhhccC
Q psy2728 122 QAQDVRKFLASVYSKVYV 139 (139)
Q Consensus 122 ~~~~l~~~L~~IY~elYv 139 (139)
+..+++.++++|| ++|+
T Consensus 87 ~d~~ik~fF~~vh-~~Y~ 103 (132)
T PF04628_consen 87 RDEDIKQFFKEVH-ELYV 103 (132)
T ss_dssp -HHHHHHHHHHHH-HHHH
T ss_pred chHHHHHHHHHHH-HHHH
Confidence 5778999999999 8884
No 6
>COG5603 TRS20 Subunit of TRAPP, an ER-Golgi tethering complex [Cell motility and secretion]
Probab=95.96 E-value=0.013 Score=44.70 Aligned_cols=89 Identities=17% Similarity=0.180 Sum_probs=56.0
Q ss_pred eeecccCCCCCCCccCCcchhhhhH-HhHHHHHHHHhhhCCCCCCCCeEEEE-eCCEEEEEeeCCCCcEEEEEeCCC-ch
Q psy2728 48 LILGQSVDHGSQSALMLMIEGKLMY-GMLFSLKSFVSKISPLDSKTGFLSYK-TTKYALHLYETPTGLKFVLNTDVQ-AQ 124 (139)
Q Consensus 48 LIy~re~~~~~~~~~~~sne~klLa-G~lhSL~ais~kLsP~~~~~G~~s~e-T~~ykLh~~ET~TGlKFVL~Td~~-~~ 124 (139)
.+|.++|..- ..+.+.++.++|- =++|+--.|...+-=..+.+=|..++ -..-++.-|=+|+|+||+++..+. ..
T Consensus 14 pVYe~e~~~~--n~~~d~~~~~~ln~fiihaSlDiv~~lqwsvN~~Y~~~~d~f~~l~IsAYi~pSgmkf~~iH~n~s~~ 91 (136)
T COG5603 14 PVYEREYDPI--NKTSDGEYCRLLNQFIIHASLDIVVWLQWSVNTSYFDCLDSFGDLRISAYIMPSGMKFLFIHQNQSRK 91 (136)
T ss_pred ceeeeeecCc--CcccCHHHHHHHhHHhhhhhHHHHHHHHHHhhhHHHHHHHhhCCeEEEEEEccCCceEEEEeccchhh
Confidence 5999999731 2334455555552 23455444554443322222222222 134678889999999999998665 56
Q ss_pred hHHHHHHHHhhhccC
Q psy2728 125 DVRKFLASVYSKVYV 139 (139)
Q Consensus 125 ~l~~~L~~IY~elYv 139 (139)
|++.++++++ ++|+
T Consensus 92 N~rsF~qevH-ely~ 105 (136)
T COG5603 92 NARSFLQEVH-ELYA 105 (136)
T ss_pred hHHHHHHHHH-HHHH
Confidence 8999999999 8885
No 7
>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=92.42 E-value=0.78 Score=30.96 Aligned_cols=53 Identities=21% Similarity=0.428 Sum_probs=40.2
Q ss_pred HHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCCcEEEEEeCCCchh--HHHHHHHHh
Q psy2728 79 KSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQD--VRKFLASVY 134 (139)
Q Consensus 79 ~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TGlKFVL~Td~~~~~--l~~~L~~IY 134 (139)
+.|..||+|.. .+=.+++.+.|.+|++- -.|+=|+++||.+.+. .=.+|++|.
T Consensus 3 ~~il~~i~~~~--~~k~s~~~~~~~fh~~~-~~~i~~~citd~~~~~r~aF~fL~~i~ 57 (83)
T PF13774_consen 3 RKILKRIPPNG--NSKMSYESGNYVFHYLV-EDGIAYLCITDKSYPKRVAFAFLEEIK 57 (83)
T ss_dssp HHHHHTS-TTS--ESEEEEEETTEEEEEEE-ETTEEEEEEEETTS-HHHHHHHHHHHH
T ss_pred HHHHHhcCCCC--CCeEEEEECCEEEEEEE-cCCeEEEEEEcCCCCcchHHHHHHHHH
Confidence 56778888643 36889999999999999 9999999999998654 344555554
No 8
>PF08217 DUF1712: Fungal domain of unknown function (DUF1712); InterPro: IPR013176 The function of this fungal family of proteins is unknown.
Probab=91.23 E-value=0.9 Score=42.22 Aligned_cols=73 Identities=26% Similarity=0.299 Sum_probs=61.3
Q ss_pred cCCcchhhhhHHhHHHHHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCCcEEEEEeC-C----C----chhHHHHHHH
Q psy2728 62 LMLMIEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTD-V----Q----AQDVRKFLAS 132 (139)
Q Consensus 62 ~~~sne~klLaG~lhSL~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TGlKFVL~Td-~----~----~~~l~~~L~~ 132 (139)
..+.|+++...|+.-||-+|++..+|.+ .-+.++|++-++-++|---|+++++.-+ + . ...+..+|++
T Consensus 29 ~~~~neql~~IGL~qglv~Ft~~Fs~~~---~~~~I~T~K~r~v~~e~Ep~~Wi~l~I~~~~~~~~~~~~~~~L~~~L~~ 105 (604)
T PF08217_consen 29 ETSLNEQLRQIGLAQGLVSFTRTFSPDD---PCDSIHTEKSRIVFYEPEPGFWIVLSINLPKEQSTKDGPEQYLLSVLKQ 105 (604)
T ss_pred CCCHHHHHHHhhHHHHHHHHHHhcCCCC---cccceeecceEEEEEEecCCEEEEEEEecCcCCccccchHHHHHHHHHH
Confidence 3568999999999999999999999986 4677999999999999999999988655 1 1 1137999999
Q ss_pred Hhhhcc
Q psy2728 133 VYSKVY 138 (139)
Q Consensus 133 IY~elY 138 (139)
.| ++|
T Consensus 106 ~Y-~~F 110 (604)
T PF08217_consen 106 AY-SMF 110 (604)
T ss_pred HH-HHH
Confidence 99 766
No 9
>KOG3444|consensus
Probab=86.60 E-value=1.2 Score=33.67 Aligned_cols=57 Identities=30% Similarity=0.380 Sum_probs=41.0
Q ss_pred cchhhhhHHhHHHHHHHHhhhCC-CCCC----C---CeEEEEeCCEEEEEeeCCCCcEEEEEeCCC
Q psy2728 65 MIEGKLMYGMLFSLKSFVSKISP-LDSK----T---GFLSYKTTKYALHLYETPTGLKFVLNTDVQ 122 (139)
Q Consensus 65 sne~klLaG~lhSL~ais~kLsP-~~~~----~---G~~s~eT~~ykLh~~ET~TGlKFVL~Td~~ 122 (139)
+++-++=+-..-||--|-.+++- ..+. + |+ .+-|++||..=|-|-|-+||||..|..
T Consensus 24 e~~L~~~y~v~~sLDVieekvn~~gkg~~tsne~fLGL-Ly~ted~kvYgfvtNTkVKFIlvvdss 88 (121)
T KOG3444|consen 24 EKELKLHYQVHLSLDVIEEKVNDPGKGERTSNELFLGL-LYPTEDYKVYGFVTNTKVKFILVVDSS 88 (121)
T ss_pred HHHHHhHhhhhhhHHHHHHHhcCcccCccchhhhhhcc-cccccceeEEEEEeccEEEEEEEEcCC
Confidence 45555556666688888888853 3221 1 22 256999999999999999999998754
No 10
>KOG3487|consensus
Probab=83.16 E-value=2.4 Score=32.81 Aligned_cols=95 Identities=14% Similarity=0.191 Sum_probs=57.8
Q ss_pred eEEecCCceeeeeeeeeecccCCCCCCCccCCcchhhhhHHhHHHHHHHHhhhCCCCCC------CCeEEEEeCCEEEEE
Q psy2728 33 LIGYDRSATPADVYRLILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSFVSKISPLDSK------TGFLSYKTTKYALHL 106 (139)
Q Consensus 33 ~~~~~~~m~v~sl~ILIy~re~~~~~~~~~~~sne~klLaG~lhSL~ais~kLsP~~~~------~G~~s~eT~~ykLh~ 106 (139)
++++++.+.- ||-.+|..+.++..-+++...|=-=.+|+--.|+.++.=..+. +-|. ..-+.-
T Consensus 5 faIig~~d~P------vye~e~~~~~~~~~~~~~~~~LN~FI~HAaLdiVde~~W~~snmYLktVDkfn-----e~~VSA 73 (139)
T KOG3487|consen 5 FAIIGHCDNP------VYEMEFGCPENSKAARDDNRHLNQFIVHAALDIVDELQWTTSNMYLKTVDKFN-----ELFVSA 73 (139)
T ss_pred EEEEecCCCc------eEEeecCCCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhhc-----ceeEEE
Confidence 3444555444 9999997432222223333333334556655666655432210 1122 233567
Q ss_pred eeCCCCcEEEEEeCCCc-hhHHHHHHHHhhhccC
Q psy2728 107 YETPTGLKFVLNTDVQA-QDVRKFLASVYSKVYV 139 (139)
Q Consensus 107 ~ET~TGlKFVL~Td~~~-~~l~~~L~~IY~elYv 139 (139)
|-|++++||+++-...+ .++..+.+++| |+|+
T Consensus 74 yvTas~i~f~mlh~~~~~~~ik~Ffqev~-elyi 106 (139)
T KOG3487|consen 74 YVTASHIRFIMLHINRADDNIKLFFQEVH-ELYI 106 (139)
T ss_pred EEccCcEEEEEEeeccccccHHHHHHHHH-HHHH
Confidence 89999999999988765 47899999999 9884
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=82.40 E-value=19 Score=31.76 Aligned_cols=85 Identities=15% Similarity=0.183 Sum_probs=59.5
Q ss_pred ceEEecCCceeeeeeeeeecccCCCCCCCccCCcchhhhhHHhHHHHHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCC
Q psy2728 32 PLIGYDRSATPADVYRLILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPT 111 (139)
Q Consensus 32 ~~~~~~~~m~v~sl~ILIy~re~~~~~~~~~~~sne~klLaG~lhSL~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~T 111 (139)
-+.+....|+. ||.|. . +++.---+.|++.+|-++.+. . .+.++.+.++.-++.++. ..
T Consensus 13 h~fIlS~AGKP------Iysr~-G--------~e~~l~~~~g~~~aiiS~~~~---~--~d~l~~i~~~~~~ivfl~-r~ 71 (415)
T PF03164_consen 13 HFFILSSAGKP------IYSRY-G--------DEDKLSSLMGVIQAIISFFQS---N--GDELRSIRAGDHRIVFLN-RG 71 (415)
T ss_pred eEEEECCCCce------eEEec-C--------ChHHHHHHHHHHHHHHHHHHh---C--CCcEEEEEeCCEEEEEEe-cC
Confidence 56677777777 88876 2 133344455555555555532 2 257999999999998776 88
Q ss_pred CcEEEEEeCCCch--hHHHHHHHHhhhc
Q psy2728 112 GLKFVLNTDVQAQ--DVRKFLASVYSKV 137 (139)
Q Consensus 112 GlKFVL~Td~~~~--~l~~~L~~IY~el 137 (139)
.+-+|.++..+.+ -++..|+-+|.+|
T Consensus 72 pl~lv~vS~~~e~~~~l~~qL~~ly~qi 99 (415)
T PF03164_consen 72 PLILVAVSKTGESESQLRKQLDYLYSQI 99 (415)
T ss_pred CEEEEEEcCCcCCHHHHHHHHHHHHHHH
Confidence 9999999987644 5788888888655
No 12
>KOG3603|consensus
Probab=70.63 E-value=11 Score=34.21 Aligned_cols=71 Identities=14% Similarity=0.229 Sum_probs=58.9
Q ss_pred CcchhhhhHHhHHHHHHHHhhhC-----------CCCC----------------CCCeEEEEeCCEEEEEeeCCCCcEEE
Q psy2728 64 LMIEGKLMYGMLFSLKSFVSKIS-----------PLDS----------------KTGFLSYKTTKYALHLYETPTGLKFV 116 (139)
Q Consensus 64 ~sne~klLaG~lhSL~ais~kLs-----------P~~~----------------~~G~~s~eT~~ykLh~~ET~TGlKFV 116 (139)
-.+..+.|++.|+||.+++..+. |..+ ++-.-.+-|+++.=-||..-+|+-+|
T Consensus 335 ~~~~~~~m~~~L~SLq~l~~~~~~~~iqvk~f~VP~~~~~~ip~~Rv~HnKymVTe~aayIGTSNws~dYf~~TaG~~iv 414 (456)
T KOG3603|consen 335 WKHSEPSMFRFLRSLQDLSDPLENGSIQVKFFIVPQTNIEKIPFARVNHNKYMVTESAAYIGTSNWSGDYFTSTAGTAIV 414 (456)
T ss_pred cCCCCchHHHHHHHHHHhcCccccCceEEEEEEeCCCccccCchhhhccceeEEeecceeeeccCCCccceeccCceEEE
Confidence 35678899999999999998775 3222 13455677999999999999999999
Q ss_pred EEeCCCchhHHHHHHHHh
Q psy2728 117 LNTDVQAQDVRKFLASVY 134 (139)
Q Consensus 117 L~Td~~~~~l~~~L~~IY 134 (139)
+--++...++++-|+.|+
T Consensus 415 v~q~~~~~~~~~ql~~vF 432 (456)
T KOG3603|consen 415 VRQTPHKGTLVSQLKAVF 432 (456)
T ss_pred EecCCCCCcHHHHHHHHH
Confidence 999988889999999988
No 13
>KOG0861|consensus
Probab=58.81 E-value=46 Score=27.20 Aligned_cols=45 Identities=29% Similarity=0.335 Sum_probs=37.4
Q ss_pred HHHHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCCcEEEEEeCCCch
Q psy2728 76 FSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQ 124 (139)
Q Consensus 76 hSL~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TGlKFVL~Td~~~~ 124 (139)
|--+.++.+..|.. .++++-++|++|+|---.|+-=|+++|..-+
T Consensus 42 F~sktvaeRt~~g~----rqsvk~~~Y~~h~yvrndgL~~V~~~D~eYP 86 (198)
T KOG0861|consen 42 FISKTVAERTGPGQ----RQSVKHEEYLVHVYVRNDGLCGVLIADDEYP 86 (198)
T ss_pred HHHHHHHHhcCccc----ccccccceeEEEEEEecCCeeEEEEecCcCc
Confidence 44467777777754 8899999999999999999999999998733
No 14
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion]
Probab=49.54 E-value=31 Score=28.02 Aligned_cols=59 Identities=15% Similarity=0.227 Sum_probs=46.0
Q ss_pred CcchhhhhHHhHHH--HHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCCcEEEEEeCCCch
Q psy2728 64 LMIEGKLMYGMLFS--LKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQ 124 (139)
Q Consensus 64 ~sne~klLaG~lhS--L~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TGlKFVL~Td~~~~ 124 (139)
.+++..-=++++|. ++-+-..++|...+ -..+++++|-.|++.--+|+.++++++...+
T Consensus 18 ~~~~s~~~~~ff~~~~v~~~l~~~~~~~a~--~~~ies~~~~~~~~~~s~gi~y~~~~~~e~p 78 (190)
T COG5143 18 SDAESLSSFSFFHRSKVKEVLRFLSKTSAS--RASIESGDYFFHYLKMSSGIVYVPISDKEYP 78 (190)
T ss_pred ccccccCcccccccchHHHHHHHhcccccc--hhccccCceEEEEEecCCCceeEEecccccc
Confidence 34444445566664 67788888888643 7789999999999999999999999998754
No 15
>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=45.85 E-value=28 Score=24.02 Aligned_cols=26 Identities=23% Similarity=0.418 Sum_probs=18.2
Q ss_pred cEEEEEeCCCch--hHHHHHHHHhhhcc
Q psy2728 113 LKFVLNTDVQAQ--DVRKFLASVYSKVY 138 (139)
Q Consensus 113 lKFVL~Td~~~~--~l~~~L~~IY~elY 138 (139)
-||+.+|+++.. .+.+.+.+-|..+|
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~kLY 30 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFKKLY 30 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHHHHC
Confidence 489999999743 56666666666665
No 16
>KOG0862|consensus
Probab=41.93 E-value=85 Score=26.05 Aligned_cols=44 Identities=20% Similarity=0.293 Sum_probs=37.4
Q ss_pred HHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCCcEEEEEeCCCch
Q psy2728 78 LKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQ 124 (139)
Q Consensus 78 L~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TGlKFVL~Td~~~~ 124 (139)
.+.+.++|++.. .+..++||+.|.+||. .-.|+=+++++|.+-+
T Consensus 37 ~K~L~kkLs~~s--~~r~Sietg~f~fHfl-i~~~Vcylvicd~~yP 80 (216)
T KOG0862|consen 37 AKSLFKKLSQQS--PTRCSIETGPFVFHFL-IESGVCYLVICDKSYP 80 (216)
T ss_pred HHHHHHhccCCC--CcccccccCCeEEEEE-ecCCEEEEEEecCCCc
Confidence 677889999984 4789999999999986 5689999999998854
No 17
>KOG0625|consensus
Probab=30.75 E-value=12 Score=34.52 Aligned_cols=18 Identities=50% Similarity=0.774 Sum_probs=15.4
Q ss_pred CCEEEEEeeCCCCcEEEE
Q psy2728 100 TKYALHLYETPTGLKFVL 117 (139)
Q Consensus 100 ~~ykLh~~ET~TGlKFVL 117 (139)
..-++.|||+|||-||..
T Consensus 342 k~~gl~~yEvPTGWKfF~ 359 (558)
T KOG0625|consen 342 KKLGLPVYEVPTGWKFFG 359 (558)
T ss_pred HHcCCceEEcCchHHHHH
Confidence 356789999999999986
No 18
>COG0033 Pgm Phosphoglucomutase [Carbohydrate transport and metabolism]
Probab=26.62 E-value=34 Score=31.65 Aligned_cols=15 Identities=40% Similarity=0.826 Sum_probs=12.9
Q ss_pred EEEEeeCCCCcEEEE
Q psy2728 103 ALHLYETPTGLKFVL 117 (139)
Q Consensus 103 kLh~~ET~TGlKFVL 117 (139)
-+.|||+|||-||++
T Consensus 340 Gr~lyEvPvG~K~F~ 354 (524)
T COG0033 340 GRGLYEVPVGFKWFV 354 (524)
T ss_pred CCceEEcCCcceeee
Confidence 457899999999987
No 19
>COG3260 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]
Probab=24.84 E-value=1e+02 Score=24.26 Aligned_cols=37 Identities=16% Similarity=0.408 Sum_probs=33.1
Q ss_pred EeCCEEEEEeeCCCCcEEEEEeCCCchhHHHHHHHHh
Q psy2728 98 KTTKYALHLYETPTGLKFVLNTDVQAQDVRKFLASVY 134 (139)
Q Consensus 98 eT~~ykLh~~ET~TGlKFVL~Td~~~~~l~~~L~~IY 134 (139)
..+.|.+.+-.+|-=--.+|+|.+-+..+++-|+++|
T Consensus 35 DaErfgI~~v~sPRhADiLlVTG~vT~~~~e~lkk~Y 71 (148)
T COG3260 35 DAERFGIKVVNSPRHADILLVTGAVTRQMREPLKKAY 71 (148)
T ss_pred chHHheeEEeCCCccccEEEEeccccHHHHHHHHHHH
Confidence 4567888888888888899999999999999999999
No 20
>PF14484 FISNA: Fish-specific NACHT associated domain
Probab=24.28 E-value=18 Score=24.75 Aligned_cols=26 Identities=27% Similarity=0.484 Sum_probs=17.1
Q ss_pred EEEEEeCCCc-hhHHHHHHHHhhhccC
Q psy2728 114 KFVLNTDVQA-QDVRKFLASVYSKVYV 139 (139)
Q Consensus 114 KFVL~Td~~~-~~l~~~L~~IY~elYv 139 (139)
||-++.|-++ .+=...|.+||++||+
T Consensus 9 kf~~i~Eg~~~~g~~~~Ln~iYTeLyI 35 (73)
T PF14484_consen 9 KFQCIFEGNARQGESTLLNEIYTELYI 35 (73)
T ss_pred hhheeecccccCCcceeHHHhceeeeE
Confidence 4555555443 3345678999999985
No 21
>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=22.03 E-value=3.2e+02 Score=19.83 Aligned_cols=82 Identities=16% Similarity=0.273 Sum_probs=46.7
Q ss_pred eEEecCCceeeeeeeeeecccCCCCCCCccCCcchhhhhHHhHHHHHHHHhhhCCCCCCCCeEEEEeCCEEEEEeeCCCC
Q psy2728 33 LIGYDRSATPADVYRLILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTG 112 (139)
Q Consensus 33 ~~~~~~~m~v~sl~ILIy~re~~~~~~~~~~~sne~klLaG~lhSL~ais~kLsP~~~~~G~~s~eT~~ykLh~~ET~TG 112 (139)
+.+.|+.|.. ++.|-|.. .+.++...++.-+. .+.+... +..-..+..+++++ +|.-..+
T Consensus 5 i~i~n~~G~~------i~~k~y~~------~~~~~~~~~~~~~~------~~~~~~~-~~~~~i~~~~~~~~-vy~~~~d 64 (141)
T PF01217_consen 5 ILILNSQGKR------ILSKYYRD------VSEEERQKLFEKFI------KKKSSRN-SKQSPIFEHDNYRI-VYKRYSD 64 (141)
T ss_dssp EEEEETTSEE------EEEEESST------STSHHHHHHHHHHH------HHHHTSS-SSSTSEEEETTEEE-EEEEETT
T ss_pred EEEEcCCCCE------EEehhcCC------ccHHHHHHHHHHHH------HHHHhcc-cccceeeeccccee-eeEeecc
Confidence 3455666666 88999943 22334344433332 2222221 11233466788888 5555689
Q ss_pred cEEEEEeCCCchh--HHHHHHHHh
Q psy2728 113 LKFVLNTDVQAQD--VRKFLASVY 134 (139)
Q Consensus 113 lKFVL~Td~~~~~--l~~~L~~IY 134 (139)
+-|+++++.+... +-++|+.+.
T Consensus 65 l~~~~v~~~~eNel~~~e~l~~~v 88 (141)
T PF01217_consen 65 LYFVVVGDENENELLLLEFLHRLV 88 (141)
T ss_dssp EEEEEEESSTSBHHHHHHHHHHHH
T ss_pred EEEEEEeecccchHHHHHHHHHhh
Confidence 9999999977553 355666655
No 22
>TIGR02471 sucr_syn_bact_C sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial. Sucrose phosphate synthase (SPS) and sucrose phosphate phosphatase (SPP) are the last two enzymes of sucrose biosynthesis. In cyanobacteria and plants, the C-terminal region of most or all versions of SPS has a domain homologous to the known SPP. This domain may serve a binding or regulatory rather than catalytic function. Sequences in this family are bacterial C-terminal regions found in all but two of the putative bacterial sucrose phosphate synthases described by TIGR02472.
Probab=21.02 E-value=90 Score=24.33 Aligned_cols=22 Identities=14% Similarity=0.222 Sum_probs=20.0
Q ss_pred CcEEEEEeCCCchhHHHHHHHH
Q psy2728 112 GLKFVLNTDVQAQDVRKFLASV 133 (139)
Q Consensus 112 GlKFVL~Td~~~~~l~~~L~~I 133 (139)
|++||+.|......+.++++.+
T Consensus 30 gi~~viaTGR~~~~v~~~~~~l 51 (236)
T TIGR02471 30 AVGFGIATGRSVESAKSRYAKL 51 (236)
T ss_pred CceEEEEeCCCHHHHHHHHHhC
Confidence 7999999999999999998775
Done!