Query psy7090
Match_columns 253
No_of_seqs 122 out of 136
Neff 4.1
Searched_HMMs 46136
Date Fri Aug 16 17:55:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7090.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7090hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10274 ParcG: Parkin co-regu 100.0 2.6E-89 5.7E-94 593.9 13.8 182 62-245 1-183 (183)
2 KOG3961|consensus 100.0 1.5E-89 3.3E-94 611.1 11.7 215 33-249 47-262 (262)
3 KOG2171|consensus 90.3 0.33 7.1E-06 52.8 4.4 121 102-234 434-557 (1075)
4 PF12460 MMS19_C: RNAPII trans 89.6 0.37 8.1E-06 46.2 3.8 98 85-189 313-411 (415)
5 PF12348 CLASP_N: CLASP N term 87.0 0.85 1.8E-05 39.1 4.0 105 109-229 15-126 (228)
6 PF08064 UME: UME (NUC010) dom 84.1 1.4 2.9E-05 35.3 3.6 69 114-186 30-98 (107)
7 KOG2171|consensus 80.6 6.2 0.00013 43.4 7.9 113 100-227 160-279 (1075)
8 PF12348 CLASP_N: CLASP N term 77.2 15 0.00033 31.4 8.0 119 100-236 95-216 (228)
9 PF12719 Cnd3: Nuclear condens 72.3 7.8 0.00017 35.5 5.3 122 99-230 64-211 (298)
10 PF08623 TIP120: TATA-binding 71.2 5.4 0.00012 35.0 3.8 75 92-167 59-145 (169)
11 smart00802 UME Domain in UVSB 70.6 6.4 0.00014 31.9 3.9 56 113-170 27-84 (107)
12 PF13513 HEAT_EZ: HEAT-like re 62.7 3.5 7.6E-05 28.0 0.8 47 120-166 8-54 (55)
13 PF05290 Baculo_IE-1: Baculovi 59.2 8.3 0.00018 33.2 2.6 18 178-195 17-34 (140)
14 KOG0212|consensus 55.1 37 0.00081 35.6 6.8 99 93-197 330-429 (675)
15 smart00185 ARM Armadillo/beta- 55.0 24 0.00051 21.8 3.6 28 141-168 13-40 (41)
16 cd00020 ARM Armadillo/beta-cat 53.9 22 0.00047 26.2 3.9 72 100-171 8-80 (120)
17 PF01417 ENTH: ENTH domain; I 53.3 34 0.00074 27.4 5.2 79 140-225 39-120 (125)
18 PF12755 Vac14_Fab1_bd: Vacuol 51.5 14 0.0003 29.2 2.5 70 98-168 26-95 (97)
19 KOG2023|consensus 51.1 24 0.00051 37.8 4.8 92 98-190 214-305 (885)
20 KOG1837|consensus 49.9 14 0.00031 42.2 3.2 79 100-181 1539-1620(1621)
21 cd03572 ENTH_epsin_related ENT 48.3 34 0.00074 28.5 4.5 74 144-224 42-117 (122)
22 PF11865 DUF3385: Domain of un 48.1 34 0.00073 29.1 4.6 49 120-168 108-156 (160)
23 PF12717 Cnd1: non-SMC mitotic 46.4 67 0.0015 27.2 6.1 89 98-191 24-112 (178)
24 cd00197 VHS_ENTH_ANTH VHS, ENT 45.8 81 0.0018 24.6 6.1 44 139-185 36-79 (115)
25 KOG1242|consensus 45.6 23 0.0005 36.7 3.7 90 97-186 370-462 (569)
26 PF02985 HEAT: HEAT repeat; I 43.4 52 0.0011 20.2 3.8 29 141-169 1-29 (31)
27 KOG2023|consensus 43.0 58 0.0013 35.1 6.1 46 142-190 478-523 (885)
28 PF13646 HEAT_2: HEAT repeats; 42.8 35 0.00077 24.4 3.4 69 101-184 1-69 (88)
29 cd03561 VHS VHS domain family; 42.7 92 0.002 25.4 6.2 94 120-229 21-115 (133)
30 PF12333 Ipi1_N: Rix1 complex 41.9 24 0.00051 28.0 2.5 57 132-191 3-60 (102)
31 PF12755 Vac14_Fab1_bd: Vacuol 41.9 34 0.00073 27.0 3.4 57 131-190 18-74 (97)
32 PF10363 DUF2435: Protein of u 37.6 12 0.00026 29.5 0.2 44 94-138 38-82 (92)
33 PF00514 Arm: Armadillo/beta-c 36.9 77 0.0017 20.3 4.0 27 142-168 14-40 (41)
34 PF11864 DUF3384: Domain of un 36.4 67 0.0015 31.6 5.2 57 122-180 275-339 (464)
35 PF08161 NUC173: NUC173 domain 36.0 1.6E+02 0.0034 26.2 7.0 79 142-236 2-80 (198)
36 KOG2956|consensus 33.2 45 0.00097 34.2 3.4 82 111-195 418-505 (516)
37 PF02671 PAH: Paired amphipath 32.1 31 0.00068 23.2 1.6 31 181-225 3-33 (47)
38 PF06953 ArsD: Arsenical resis 32.1 24 0.00051 29.5 1.1 28 111-138 49-76 (123)
39 KOG2021|consensus 31.9 68 0.0015 34.9 4.6 73 111-189 709-781 (980)
40 PF10363 DUF2435: Protein of u 30.6 1.3E+02 0.0029 23.5 5.1 69 113-182 17-86 (92)
41 PLN03076 ARF guanine nucleotid 30.5 44 0.00096 39.0 3.2 38 140-177 86-123 (1780)
42 PF12397 U3snoRNP10: U3 small 29.8 1.5E+02 0.0033 23.3 5.4 53 137-189 3-56 (121)
43 PF01602 Adaptin_N: Adaptin N 29.7 54 0.0012 31.3 3.3 27 141-167 80-106 (526)
44 cd03571 ENTH_epsin ENTH domain 28.4 1.5E+02 0.0033 24.5 5.3 81 138-225 35-117 (123)
45 cd00020 ARM Armadillo/beta-cat 27.4 89 0.0019 22.9 3.5 70 99-168 49-119 (120)
46 cd03569 VHS_Hrs_Vps27p VHS dom 27.3 93 0.002 26.1 3.9 32 140-171 41-72 (142)
47 cd03568 VHS_STAM VHS domain fa 26.9 97 0.0021 26.1 4.0 32 140-171 37-68 (144)
48 cd03567 VHS_GGA VHS domain fam 26.8 97 0.0021 26.1 4.0 29 141-169 39-67 (139)
49 PF00790 VHS: VHS domain; Int 26.3 1.1E+02 0.0023 25.2 4.1 48 120-171 26-73 (140)
50 PF03378 CAS_CSE1: CAS/CSE pro 26.3 46 0.001 33.0 2.2 56 133-190 110-165 (435)
51 PF04118 Dopey_N: Dopey, N-ter 25.0 49 0.0011 31.5 2.1 81 97-184 91-176 (307)
52 COG4899 Uncharacterized protei 23.9 17 0.00038 31.8 -1.1 55 65-121 48-104 (166)
53 KOG1062|consensus 23.8 93 0.002 33.8 4.0 67 136-206 175-243 (866)
54 KOG1562|consensus 23.7 47 0.001 32.3 1.7 74 167-247 200-274 (337)
55 KOG0212|consensus 23.6 93 0.002 32.8 3.8 96 86-186 188-293 (675)
56 smart00288 VHS Domain present 23.2 1.3E+02 0.0028 24.7 4.0 30 142-171 39-68 (133)
57 PF09324 DUF1981: Domain of un 21.7 1.2E+02 0.0025 23.3 3.2 49 118-166 37-85 (86)
58 cd08819 CARD_MDA5_2 Caspase ac 21.0 26 0.00057 28.0 -0.5 14 100-113 68-81 (88)
No 1
>PF10274 ParcG: Parkin co-regulated protein; InterPro: IPR019399 This family of proteins is transcribed anti-sense along the DNA to the Parkin gene product and the two appear to be transcribed under the same promoter. The protein has predicted alpha-helical and beta-sheet domains which suggest its function is in the ubiquitin/proteasome system []. Mutations in parkin are the genetic cause of early-onset and autosomal recessive juvenile parkinsonism.
Probab=100.00 E-value=2.6e-89 Score=593.88 Aligned_cols=182 Identities=65% Similarity=1.129 Sum_probs=180.1
Q ss_pred ChhHHHhhcCCCCEEEeeCCCCCeeeeeecCCCCCCCcchhhhhccccccccchHhHHHhhHHHHHHc-CCCcccccccc
Q psy7090 62 SMFRTYYSRGDFPIAMEFKSVGNKISWKEDIKTLNYQYYLPIFFDGLRETEYPYKFFASKGIHDLLEN-GKDKIVPVLPH 140 (253)
Q Consensus 62 T~Fr~~Y~rGdlP~~i~hgs~~~~L~Wkv~~e~LDy~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~-~~~KilPvlPq 140 (253)
|+||++|+||||||+++||+.+++|+|+|++|+||||||||+||||||||+|||+|+|++|++|||++ |++||+|+|||
T Consensus 1 t~Fr~~Y~rG~lP~~i~h~~~~~~l~W~~~~e~Ldy~~~Lpif~dGL~Et~~Py~flA~~g~~dll~~~~~~kilPvlPq 80 (183)
T PF10274_consen 1 TQFRRFYERGDLPCRIDHGSVKNKLQWKVDPEKLDYHHYLPIFFDGLRETEHPYRFLARQGIKDLLERGGGEKILPVLPQ 80 (183)
T ss_pred ChHHHHHhcCCCCEEEECCCCCceeEEecChhhcchhhHHHHHHhhhhccCccHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999 88999999999
Q ss_pred chHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhhhhhcccCCCCcccccchhcccchhHHHHHH
Q psy7090 141 LILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGDLVQET 220 (253)
Q Consensus 141 LI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgdlI~eT 220 (253)
||+|||+||||||++|+|++|++||+||+++++||||||||||||||+||+||++|.|+||+||| ++++|+||+|+||
T Consensus 81 LI~plk~AL~tr~~~V~~~~L~~Lq~Lv~~~~~vG~aLvPyyrqLLp~ln~f~~k~~n~gd~i~y--~~~~~~~dlI~et 158 (183)
T PF10274_consen 81 LIIPLKRALNTRDPEVFCATLKALQQLVTSSDMVGEALVPYYRQLLPVLNLFKNKNVNLGDGIDY--RKRKNLGDLIQET 158 (183)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhcccCCCccccc--ccccchhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999 6789999999999
Q ss_pred HHHHHHhCChhHHHHhhhcCCcccc
Q psy7090 221 LQILERHGGEDACIYIKYMIPTYES 245 (253)
Q Consensus 221 L~~LE~~GG~dA~inIKymIPTYeS 245 (253)
|++||++||+|||+|||||||||||
T Consensus 159 L~~lE~~GG~dA~~nIKy~IPTYeS 183 (183)
T PF10274_consen 159 LELLERNGGPDAFINIKYMIPTYES 183 (183)
T ss_pred HHHHHHhcChhHHHHHHHhCCCCCC
Confidence 9999999999999999999999998
No 2
>KOG3961|consensus
Probab=100.00 E-value=1.5e-89 Score=611.11 Aligned_cols=215 Identities=54% Similarity=0.917 Sum_probs=211.3
Q ss_pred CccccccccccccC-CCCccCCCCCCCCCCChhHHHhhcCCCCEEEeeCCCCCeeeeeecCCCCCCCcchhhhhcccccc
Q psy7090 33 AFSLQTHQKNTITG-APPKCVPKDKTYDYTSMFRTYYSRGDFPIAMEFKSVGNKISWKEDIKTLNYQYYLPIFFDGLRET 111 (253)
Q Consensus 33 ~ft~~s~~~~~~~~-~p~~~~~f~~~~~~~T~Fr~~Y~rGdlP~~i~hgs~~~~L~Wkv~~e~LDy~~yLPiFfdGLrEt 111 (253)
+||.++.++++.+. .||++++|++++..+|+||.+|+||||||+++||+.+++|+|+|+||+|||++|||+|||||+|+
T Consensus 47 p~s~~~~~kr~~v~~~pp~~~~~~~~~~~ps~fr~~~~Rgdlpis~~~~~k~~~l~W~~~pe~Ldy~~yLp~F~dGL~e~ 126 (262)
T KOG3961|consen 47 PFSARKLHKRPVVRLGPPTINAFRERPPVPSAFRAIYSRGDLPISLEHGSKGRKLQWECDPEKLDYCPYLPLFFDGLAET 126 (262)
T ss_pred chhHhhcCCCceeccCCCCCccccccCCCccHHHHHHccCCCceecccCCCCCccccccCHHhccchHHHHHHhhhhhhc
Confidence 59999999999988 89999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhhh
Q psy7090 112 EYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLNM 191 (253)
Q Consensus 112 ~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~lnl 191 (253)
+|||+|+|+||+.|||.++++||+|||||||.|||+||+|||.||+|.+||+||+||.++++||+|||||||||||+||+
T Consensus 127 ~hpyrf~A~~Gi~DLLl~~g~kilpVLPqLI~plK~al~trd~ev~~~~Lkvlq~lv~~~~~vG~aLVPfYRQlLp~~n~ 206 (262)
T KOG3961|consen 127 DHPYRFVARQGITDLLLAGGEKILPVLPQLILPLKAALVTRDDEVICRTLKVLQQLVVSVGCVGAALVPFYRQLLPVLNT 206 (262)
T ss_pred CCCcchhhhhcHHHHHHhcccccccccHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhccccchhhhhHHHHhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccCCCCcccccchhcccchhHHHHHHHHHHHHhCChhHHHHhhhcCCcccceeec
Q psy7090 192 YKDLNKNTGDAIDYSQMKRENIGDLVQETLQILERHGGEDACIYIKYMIPTYESCILR 249 (253)
Q Consensus 192 fk~~n~n~gD~idy~q~~~~~lgdlI~eTL~~LE~~GG~dA~inIKymIPTYeSc~~~ 249 (253)
||++|+|.||+||| +|+.||||+|+|||+.||++||++|||||||||||||||.+|
T Consensus 207 ~k~~n~n~gd~idy--dk~~~igdlI~dTL~~LE~~GGpnAfINIKY~vPtYESC~~~ 262 (262)
T KOG3961|consen 207 FKNSNVNRGDGIDY--DKNRNIGDLINDTLKHLERSGGPNAFINIKYMVPTYESCCLN 262 (262)
T ss_pred hcccccccccccCc--cccccHHHHHHHHHHHHHHcCCccceeeEeeccCcchhhcCC
Confidence 99999999999999 478999999999999999999999999999999999999875
No 3
>KOG2171|consensus
Probab=90.31 E-value=0.33 Score=52.83 Aligned_cols=121 Identities=18% Similarity=0.309 Sum_probs=86.4
Q ss_pred hhhhccccccccchHhH-HHhhHHHHHH-cCCCccccccccchH-HHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccc
Q psy7090 102 PIFFDGLRETEYPYKFF-ASKGIHDLLE-NGKDKIVPVLPHLIL-PIKNALSTRNPEVICETLKVLQHLVTSSSMVGEAL 178 (253)
Q Consensus 102 PiFfdGLrEt~~PY~Fl-A~~G~~dLL~-~~~~KilPvlPqLI~-PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~AL 178 (253)
|....=+--+++|=.-- |--..-.+.+ ..++.|-|.||.|.- =++.+++.+.+.|-+.++-+| ...++..+++.
T Consensus 434 ~aL~~~ld~~~~~rV~ahAa~al~nf~E~~~~~~l~pYLd~lm~~~l~~L~~~~~~~v~e~vvtaI---asvA~AA~~~F 510 (1075)
T KOG2171|consen 434 PALIALLDSTQNVRVQAHAAAALVNFSEECDKSILEPYLDGLMEKKLLLLLQSSKPYVQEQAVTAI---ASVADAAQEKF 510 (1075)
T ss_pred HHHHHHhcccCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHH---HHHHHHHhhhh
Confidence 35555555666653211 1222233334 467899999999999 788999999999998887655 55567789999
Q ss_pred hhHHHhhchhhhhhhcccCCCCcccccchhcccchhHHHHHHHHHHHHhCChhHHH
Q psy7090 179 VPYYKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGDLVQETLQILERHGGEDACI 234 (253)
Q Consensus 179 vPyyRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgdlI~eTL~~LE~~GG~dA~i 234 (253)
+|||..++|.|.-|... .+| .-.+.++--..|++.++.+..|+++|.
T Consensus 511 ~pY~d~~Mp~L~~~L~n---~~~------~d~r~LrgktmEcisli~~AVGke~F~ 557 (1075)
T KOG2171|consen 511 IPYFDRLMPLLKNFLQN---ADD------KDLRELRGKTMECLSLIARAVGKEKFL 557 (1075)
T ss_pred HhHHHHHHHHHHHHHhC---CCc------hhhHHHHhhHHHHHHHHHHHhhhhhhh
Confidence 99999999998765542 221 123455666789999999999999875
No 4
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=89.55 E-value=0.37 Score=46.18 Aligned_cols=98 Identities=22% Similarity=0.429 Sum_probs=77.3
Q ss_pred eeeeeecCCCCCCCcchhhhhccccccccchHhHHHhhHHHHHHcCC-CccccccccchHHHHHhhcCCCHHHHHHHHHH
Q psy7090 85 KISWKEDIKTLNYQYYLPIFFDGLRETEYPYKFFASKGIHDLLENGK-DKIVPVLPHLILPIKNALSTRNPEVICETLKV 163 (253)
Q Consensus 85 ~L~Wkv~~e~LDy~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~-~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~ 163 (253)
++=||.-. |...+|.+.+|.+++...=+-..-.++--+|++-+ +-++|-+|+|++=+=.||+..|+++...+|++
T Consensus 313 klLykQR~----F~~~~p~L~~~~~~~~~~~k~~yL~ALs~ll~~vP~~vl~~~l~~LlPLLlqsL~~~~~~v~~s~L~t 388 (415)
T PF12460_consen 313 KLLYKQRF----FTQVLPKLLEGFKEADDEIKSNYLTALSHLLKNVPKSVLLPELPTLLPLLLQSLSLPDADVLLSSLET 388 (415)
T ss_pred hhHHhHHH----HHHHHHHHHHHHhhcChhhHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence 45555433 66789999999999876422222556777777755 68889999999999999999999999999999
Q ss_pred HHHHHhcCCcccccchhHHHhhchhh
Q psy7090 164 LQHLVTSSSMVGEALVPYYKQILPHL 189 (253)
Q Consensus 164 Lq~Lv~~~~~VG~ALvPyyRqlLP~l 189 (253)
|..++..+ -+++-+|...|.|.|
T Consensus 389 L~~~l~~~---~~~i~~hl~sLI~~L 411 (415)
T PF12460_consen 389 LKMILEEA---PELISEHLSSLIPRL 411 (415)
T ss_pred HHHHHHcC---HHHHHHHHHHHHHHH
Confidence 99998776 667777888888764
No 5
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=86.95 E-value=0.85 Score=39.15 Aligned_cols=105 Identities=24% Similarity=0.375 Sum_probs=69.0
Q ss_pred cccccchH--hHHHhhHHHHHHcC-----CCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhH
Q psy7090 109 RETEYPYK--FFASKGIHDLLENG-----KDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPY 181 (253)
Q Consensus 109 rEt~~PY~--FlA~~G~~dLL~~~-----~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPy 181 (253)
+|+++-+. .=|.+-++.++..+ .+.+++.+.+++..|-..++..+-.|...++..|+.|+ ...|..+-||
T Consensus 15 ~~~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~---~~l~~~~~~~ 91 (228)
T PF12348_consen 15 KESESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLA---RQLGSHFEPY 91 (228)
T ss_dssp HHT-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHH---HHHGGGGHHH
T ss_pred cCCccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHH---HHHhHhHHHH
Confidence 67766663 33455555666555 35777788888889999999999999999999998886 5678899999
Q ss_pred HHhhchhhhhhhcccCCCCcccccchhcccchhHHHHHHHHHHHHhCC
Q psy7090 182 YKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGDLVQETLQILERHGG 229 (253)
Q Consensus 182 yRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgdlI~eTL~~LE~~GG 229 (253)
..+++|.| ++.. || ..+.+.+...++|..+-++.+
T Consensus 92 ~~~~l~~L--l~~~----~~-------~~~~i~~~a~~~L~~i~~~~~ 126 (228)
T PF12348_consen 92 ADILLPPL--LKKL----GD-------SKKFIREAANNALDAIIESCS 126 (228)
T ss_dssp HHHHHHHH--HHGG----G----------HHHHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHH--HHHH----cc-------ccHHHHHHHHHHHHHHHHHCC
Confidence 99999974 3322 22 235688889999988888777
No 6
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=84.10 E-value=1.4 Score=35.27 Aligned_cols=69 Identities=26% Similarity=0.368 Sum_probs=52.9
Q ss_pred chHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhc
Q psy7090 114 PYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQIL 186 (253)
Q Consensus 114 PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlL 186 (253)
+.+--|.+|+.+|++.+++-|-++.||+..=|++||... +.=..++++...+++.=+. +.|.|..-|+.
T Consensus 30 ~ek~~~l~si~~lI~~~~~~i~~~~pQI~a~L~sal~~~--~l~~~al~~W~~fi~~L~~--~~l~~ll~~~~ 98 (107)
T PF08064_consen 30 PEKKRALRSIEELIKLGGSHISSARPQIMACLQSALEIP--ELREEALSCWNCFIKTLDE--EDLGPLLDQIF 98 (107)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhCCh--hhHHHHHHHHHHHHHHCCH--HHHHHHHHHHH
Confidence 345668899999999999999999999999999999966 6666677777777765332 55555555443
No 7
>KOG2171|consensus
Probab=80.55 E-value=6.2 Score=43.42 Aligned_cols=113 Identities=20% Similarity=0.274 Sum_probs=88.1
Q ss_pred chhhhhccccccccchHhHHHhhHHHHHHcC------CCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCc
Q psy7090 100 YLPIFFDGLRETEYPYKFFASKGIHDLLENG------KDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSM 173 (253)
Q Consensus 100 yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~------~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~ 173 (253)
++++|..|+.+-.+|-++.|.+++--+...- ..|.-++||.++.-+..-++..|.++-+.+|++|--|+ +.
T Consensus 160 l~~lf~q~~~d~s~~vr~~a~rA~~a~~~~~~~~~~~~~~~~~llP~~l~vl~~~i~~~d~~~a~~~l~~l~El~---e~ 236 (1075)
T KOG2171|consen 160 LLRLFSQTMTDPSSPVRVAAVRALGAFAEYLENNKSEVDKFRDLLPSLLNVLQEVIQDGDDDAAKSALEALIELL---ES 236 (1075)
T ss_pred HHHHHHHhccCCcchHHHHHHHHHHHHHHHhccchHHHHHHHHHhHHHHHHhHhhhhccchHHHHHHHHHHHHHH---hh
Confidence 8899999999999999999999887776432 26888999999999999999999999999999998886 44
Q ss_pred ccccchhHHHhhchhh-hhhhcccCCCCcccccchhcccchhHHHHHHHHHHHHh
Q psy7090 174 VGEALVPYYKQILPHL-NMYKDLNKNTGDAIDYSQMKRENIGDLVQETLQILERH 227 (253)
Q Consensus 174 VG~ALvPyyRqlLP~l-nlfk~~n~n~gD~idy~q~~~~~lgdlI~eTL~~LE~~ 227 (253)
.++-|-||+-+++... -+.+|+ .++ ..++-++-|.|-.|-++
T Consensus 237 ~pk~l~~~l~~ii~~~l~Ia~n~--~l~----------~~~R~~ALe~ivs~~e~ 279 (1075)
T KOG2171|consen 237 EPKLLRPHLSQIIQFSLEIAKNK--ELE----------NSIRHLALEFLVSLSEY 279 (1075)
T ss_pred chHHHHHHHHHHHHHHHHHhhcc--ccc----------HHHHHHHHHHHHHHHHh
Confidence 5788999999999763 344433 332 34444555555555554
No 8
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=77.15 E-value=15 Score=31.41 Aligned_cols=119 Identities=19% Similarity=0.245 Sum_probs=72.8
Q ss_pred chhhhhccccccccchHhHHHhhHHHHHHcCCCccccccccc-hHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccc
Q psy7090 100 YLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPHL-ILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEAL 178 (253)
Q Consensus 100 yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPqL-I~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~AL 178 (253)
++|.+++=+-++..-.+--|.+.+..|.+..+ +.+++ ..-+..+++++|+.+=..+++.|..++...+.-.+.+
T Consensus 95 ~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~-----~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l 169 (228)
T PF12348_consen 95 LLPPLLKKLGDSKKFIREAANNALDAIIESCS-----YSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVL 169 (228)
T ss_dssp HHHHHHHGGG---HHHHHHHHHHHHHHHTTS------H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG
T ss_pred HHHHHHHHHccccHHHHHHHHHHHHHHHHHCC-----cHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhh
Confidence 55555555566666666666667777775433 44555 7788899999999999999999988876654222444
Q ss_pred hh--HHHhhchhhhhhhcccCCCCcccccchhcccchhHHHHHHHHHHHHhCChhHHHHh
Q psy7090 179 VP--YYKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGDLVQETLQILERHGGEDACIYI 236 (253)
Q Consensus 179 vP--yyRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgdlI~eTL~~LE~~GG~dA~inI 236 (253)
-. .+.++.+.+..+-+ | .+..+++.-.+++..|-++-|+.|....
T Consensus 170 ~~~~~~~~l~~~l~~~l~------D-------~~~~VR~~Ar~~~~~l~~~~~~~a~~~~ 216 (228)
T PF12348_consen 170 QKSAFLKQLVKALVKLLS------D-------ADPEVREAARECLWALYSHFPERAESIL 216 (228)
T ss_dssp --HHHHHHHHHHHHHHHT------S-------S-HHHHHHHHHHHHHHHHHH-HHH----
T ss_pred cccchHHHHHHHHHHHCC------C-------CCHHHHHHHHHHHHHHHHHCCHhhccch
Confidence 43 45888888664332 2 3578899999999999999999886543
No 9
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=72.34 E-value=7.8 Score=35.51 Aligned_cols=122 Identities=22% Similarity=0.283 Sum_probs=88.4
Q ss_pred cchhhhhccccccccchHhHHHhhHHHHHHcCCCcccccccc---------chHHHHHhhcCCCHHHHHHHHHHHHHHHh
Q psy7090 99 YYLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPH---------LILPIKNALSTRNPEVICETLKVLQHLVT 169 (253)
Q Consensus 99 ~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPq---------LI~PiK~AL~trd~~V~~~~L~~Lq~Lv~ 169 (253)
.++++|+..+.+-+++-+-.|-+++-|++..-|..++..-+. ++--+..+|.+.|+++-..+.+.+-+|..
T Consensus 64 ~~l~l~~~~~~~~~~~v~~~al~~l~Dll~~~g~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~a~EGl~KLlL 143 (298)
T PF12719_consen 64 EHLPLFLQALQKDDEEVKITALKALFDLLLTHGIDIFDSESDNDESVDSKSLLKILTKFLDSENPELQAIAVEGLCKLLL 143 (298)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCchhccchhccCccchHhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Confidence 489999999977788899999999999998766666666664 88889999999999999999999999987
Q ss_pred cCCccc-ccc---------------hhHHHhhchhhh-hhhcccCCCCcccccchhcccchhHHHHHHHHHHHHhCCh
Q psy7090 170 SSSMVG-EAL---------------VPYYKQILPHLN-MYKDLNKNTGDAIDYSQMKRENIGDLVQETLQILERHGGE 230 (253)
Q Consensus 170 ~~~~VG-~AL---------------vPyyRqlLP~ln-lfk~~n~n~gD~idy~q~~~~~lgdlI~eTL~~LE~~GG~ 230 (253)
++-... +.+ +++.||.|.+|= .|-..+ ....+.+.+..-.|+..+-...++
T Consensus 144 ~~~i~~~~~vL~~Lll~yF~p~t~~~~~LrQ~L~~Ffp~y~~s~----------~~~Q~~l~~~f~~~l~~~~~~~~~ 211 (298)
T PF12719_consen 144 SGRISDPPKVLSRLLLLYFNPSTEDNQRLRQCLSVFFPVYASSS----------PENQERLAEAFLPTLRTLSNAPDE 211 (298)
T ss_pred cCCCCcHHHHHHHHHHHHcCcccCCcHHHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHHHHHHHHhCccc
Confidence 765555 222 236677665522 111111 112256777777788877665543
No 10
>PF08623 TIP120: TATA-binding protein interacting (TIP20); InterPro: IPR013932 TIP120 (also known as cullin-associated and neddylation-dissociated protein 1) is a TATA binding protein interacting protein that enhances transcription []. ; PDB: 4A0C_A 1U6G_C.
Probab=71.20 E-value=5.4 Score=34.96 Aligned_cols=75 Identities=20% Similarity=0.388 Sum_probs=61.4
Q ss_pred CCCCCCCcchhhhhccccccccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCC------------CHHHHHH
Q psy7090 92 IKTLNYQYYLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTR------------NPEVICE 159 (253)
Q Consensus 92 ~e~LDy~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~tr------------d~~V~~~ 159 (253)
.+.+|...++.....||.+ +|--+.++-.-+.-|...+++-+++-|.+|+.|+|+-|+++ ..|.+.+
T Consensus 59 ~~~~~~~~~~~~v~~GL~D-~~DIk~L~~~~l~kl~~~~p~~v~~~Ld~l~~~l~~~L~~k~k~~AvkQE~Ek~~E~~rs 137 (169)
T PF08623_consen 59 LSRIDISEFLDRVEAGLKD-EHDIKMLCHLMLSKLAQLAPEEVLQRLDSLVEPLRKTLSKKLKENAVKQEIEKQQELIRS 137 (169)
T ss_dssp CSSS-HHHHHHHHHHTTSS--HHHHHHHHHHHHHHHHS-HHHHHHCCTTTHHHHHHHHH----TTS-HHHHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHHhhcCC-cHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhccCCCCcccccHHHHHHHHHH
Confidence 4678888899999999999 88889999998888888899999999999999999999764 3567788
Q ss_pred HHHHHHHH
Q psy7090 160 TLKVLQHL 167 (253)
Q Consensus 160 ~L~~Lq~L 167 (253)
+|+++..|
T Consensus 138 ~lr~~~~l 145 (169)
T PF08623_consen 138 VLRAVKAL 145 (169)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 88888777
No 11
>smart00802 UME Domain in UVSB PI-3 kinase, MEI-41 and ESR-1. Characteristic domain in UVSP PI-3 kinase, MEI-41 and ESR-1. Found in nucleolar proteins. Associated with FAT, FATC, PI3_PI4_kinase modules.
Probab=70.63 E-value=6.4 Score=31.89 Aligned_cols=56 Identities=27% Similarity=0.368 Sum_probs=47.3
Q ss_pred cch--HhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhc
Q psy7090 113 YPY--KFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTS 170 (253)
Q Consensus 113 ~PY--~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~ 170 (253)
.|| +--|..++.+|++.++.-|-.++||+..=|+.||+ .+|.=..++++...+++.
T Consensus 27 ~~~~ek~~~i~ai~~lI~~~g~~i~~a~pQI~acL~saL~--~~eL~~~al~~W~~~i~~ 84 (107)
T smart00802 27 KPYNEKKRALRSIGFLIKLMGKHISSALPQIMACLQSALE--IPELRSLALRCWHVLIKT 84 (107)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHHh
Confidence 466 77889999999999889999999999999999998 666666777777777654
No 12
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=62.71 E-value=3.5 Score=28.04 Aligned_cols=47 Identities=19% Similarity=0.246 Sum_probs=36.2
Q ss_pred HhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHH
Q psy7090 120 SKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQH 166 (253)
Q Consensus 120 ~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~ 166 (253)
-.++-++.+..++.+-|.+|+++..|-..|+..+++|=..+..+|..
T Consensus 8 ~~aLg~l~~~~~~~~~~~~~~~~~~L~~~L~d~~~~VR~~A~~aLg~ 54 (55)
T PF13513_consen 8 AWALGRLAEGCPELLQPYLPELLPALIPLLQDDDDSVRAAAAWALGN 54 (55)
T ss_dssp HHHHHCTTTTTHHHHHHHHHHHHHHHHHHTTSSSHHHHHHHHHHHHC
T ss_pred HHHHhhHhcccHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 33444444556678889999999999999999999998888776643
No 13
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=59.24 E-value=8.3 Score=33.22 Aligned_cols=18 Identities=33% Similarity=0.586 Sum_probs=16.3
Q ss_pred chhHHHhhchhhhhhhcc
Q psy7090 178 LVPYYKQILPHLNMYKDL 195 (253)
Q Consensus 178 LvPyyRqlLP~lnlfk~~ 195 (253)
++||.|||.-++++|+|.
T Consensus 17 flPYlKQL~~il~~f~nd 34 (140)
T PF05290_consen 17 FLPYLKQLRIILKMFVND 34 (140)
T ss_pred ehHHHHHHHHHHHHHhhh
Confidence 789999999999999863
No 14
>KOG0212|consensus
Probab=55.12 E-value=37 Score=35.61 Aligned_cols=99 Identities=19% Similarity=0.274 Sum_probs=68.3
Q ss_pred CCCCCCcchhhhhccccccccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCC
Q psy7090 93 KTLNYQYYLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSS 172 (253)
Q Consensus 93 e~LDy~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~ 172 (253)
+++||...+-..--=|.--.+--+.-|-+=+.-|..+.+.+++-..-++-.-+=++|.-++.+|+..+|.+|+.++.++.
T Consensus 330 ~~id~~~ii~vl~~~l~~~~~~tri~~L~Wi~~l~~~~p~ql~~h~~~if~tLL~tLsd~sd~vvl~~L~lla~i~~s~~ 409 (675)
T KOG0212|consen 330 EEIDYGSIIEVLTKYLSDDREETRIAVLNWIILLYHKAPGQLLVHNDSIFLTLLKTLSDRSDEVVLLALSLLASICSSSN 409 (675)
T ss_pred cccchHHHHHHHHHHhhcchHHHHHHHHHHHHHHHhhCcchhhhhccHHHHHHHHhhcCchhHHHHHHHHHHHHHhcCcc
Confidence 34666664433322222222222344444455555678899999999999999999999999999999999999999987
Q ss_pred cccccchhHHHhh-chhhhhhhcccC
Q psy7090 173 MVGEALVPYYKQI-LPHLNMYKDLNK 197 (253)
Q Consensus 173 ~VG~ALvPyyRql-LP~lnlfk~~n~ 197 (253)
-. +||++ +..|++|+..++
T Consensus 410 ~~------~~~~fl~sLL~~f~e~~~ 429 (675)
T KOG0212|consen 410 SP------NLRKFLLSLLEMFKEDTK 429 (675)
T ss_pred cc------cHHHHHHHHHHHHhhhhH
Confidence 66 34443 445678887543
No 15
>smart00185 ARM Armadillo/beta-catenin-like repeats. Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.
Probab=55.05 E-value=24 Score=21.80 Aligned_cols=28 Identities=21% Similarity=0.242 Sum_probs=23.3
Q ss_pred chHHHHHhhcCCCHHHHHHHHHHHHHHH
Q psy7090 141 LILPIKNALSTRNPEVICETLKVLQHLV 168 (253)
Q Consensus 141 LI~PiK~AL~trd~~V~~~~L~~Lq~Lv 168 (253)
.|.+|...|.+.|+++...++.+|..|+
T Consensus 13 ~i~~L~~ll~~~~~~i~~~a~~aL~nl~ 40 (41)
T smart00185 13 GLPALVELLKSEDEEVVKEAAWALSNLS 40 (41)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHc
Confidence 4666777788999999999999998874
No 16
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=53.90 E-value=22 Score=26.18 Aligned_cols=72 Identities=19% Similarity=0.227 Sum_probs=43.6
Q ss_pred chhhhhccccccccchHhHHHhhHHHHHHcCCCccccccc-cchHHHHHhhcCCCHHHHHHHHHHHHHHHhcC
Q psy7090 100 YLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLP-HLILPIKNALSTRNPEVICETLKVLQHLVTSS 171 (253)
Q Consensus 100 yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlP-qLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~ 171 (253)
.++.+.+=|.+.....+.-|...+..|-....+..-.++. ..+..+-..|++.|+++...++.+|..|+...
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~ 80 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGP 80 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCc
Confidence 3444444444444444444555555544432222222222 67777888889999999999999999997543
No 17
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=53.28 E-value=34 Score=27.42 Aligned_cols=79 Identities=16% Similarity=0.262 Sum_probs=48.4
Q ss_pred cchHHHHHhh---cCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhhhhhcccCCCCcccccchhcccchhHH
Q psy7090 140 HLILPIKNAL---STRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGDL 216 (253)
Q Consensus 140 qLI~PiK~AL---~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgdl 216 (253)
.++.-|..-| ..+++.++-.||.+|..|+.-| .+..+..+|.-...+....+-..--.++.|+ +.++++.
T Consensus 39 ~I~~~l~kRL~~~~~k~wr~~~KaL~ll~yLl~nG---~~~~~~~~~~~~~~I~~l~~f~~~d~~g~d~----~~~VR~~ 111 (125)
T PF01417_consen 39 EIMDVLWKRLSKSDGKNWRHVYKALTLLEYLLKNG---SERFVDELRDHIDIIRELQDFQYVDPKGKDQ----GQNVREK 111 (125)
T ss_dssp HHHHHHHHHHHSSTSSGHHHHHHHHHHHHHHHHHS----HHHHHHHHHTHHHHHGGGG---BBTTSTBH----HHHHHHH
T ss_pred HHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHC---CHHHHHHHHHHHHHHhhcceeeccCCCCccH----HHHHHHH
Confidence 3445566777 7888999999999999999876 4466666665544444333222100023333 3557777
Q ss_pred HHHHHHHHH
Q psy7090 217 VQETLQILE 225 (253)
Q Consensus 217 I~eTL~~LE 225 (253)
..+.+++|.
T Consensus 112 A~~i~~lL~ 120 (125)
T PF01417_consen 112 AKEILELLN 120 (125)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHhC
Confidence 788777764
No 18
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=51.51 E-value=14 Score=29.24 Aligned_cols=70 Identities=11% Similarity=0.309 Sum_probs=60.4
Q ss_pred CcchhhhhccccccccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHH
Q psy7090 98 QYYLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLV 168 (253)
Q Consensus 98 ~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv 168 (253)
+..+|..+.++...+.=-|+.|-+.+.++.+.+++.+++..+++.--|-+-+.-.|+.|-..+ +.|.+|+
T Consensus 26 ~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~L~kl~~D~d~~Vr~~a-~~Ld~ll 95 (97)
T PF12755_consen 26 DEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFNEIFDALCKLSADPDENVRSAA-ELLDRLL 95 (97)
T ss_pred HHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHH-HHHHHHh
Confidence 456778888999988889999999999999999999999999999999999998888877665 6665554
No 19
>KOG2023|consensus
Probab=51.11 E-value=24 Score=37.80 Aligned_cols=92 Identities=22% Similarity=0.317 Sum_probs=69.7
Q ss_pred CcchhhhhccccccccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCccccc
Q psy7090 98 QYYLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEA 177 (253)
Q Consensus 98 ~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~A 177 (253)
|.||-++|-=--..++=-|=-.=+++-=||+--.+|+.|-++.+|-=+=.--.+-|.+|--.|=+-.-.++... .--+.
T Consensus 214 D~Fle~lFalanD~~~eVRk~vC~alv~Llevr~dkl~phl~~IveyML~~tqd~dE~VALEACEFwla~aeqp-i~~~~ 292 (885)
T KOG2023|consen 214 DKFLEILFALANDEDPEVRKNVCRALVFLLEVRPDKLVPHLDNIVEYMLQRTQDVDENVALEACEFWLALAEQP-ICKEV 292 (885)
T ss_pred HHHHHHHHHHccCCCHHHHHHHHHHHHHHHHhcHHhcccchHHHHHHHHHHccCcchhHHHHHHHHHHHHhcCc-CcHHH
Confidence 34666666544344444455555677788899999999999999999888888888888766666666776654 88899
Q ss_pred chhHHHhhchhhh
Q psy7090 178 LVPYYKQILPHLN 190 (253)
Q Consensus 178 LvPyyRqlLP~ln 190 (253)
|.||+.+|.|+|-
T Consensus 293 L~p~l~kliPvLl 305 (885)
T KOG2023|consen 293 LQPYLDKLIPVLL 305 (885)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999964
No 20
>KOG1837|consensus
Probab=49.90 E-value=14 Score=42.18 Aligned_cols=79 Identities=22% Similarity=0.372 Sum_probs=70.2
Q ss_pred chhhhhccccccccch---HhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccc
Q psy7090 100 YLPIFFDGLRETEYPY---KFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGE 176 (253)
Q Consensus 100 yLPiFfdGLrEt~~PY---~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ 176 (253)
|=|+--++|.-|..-| ||.|..-++.|...-|+-.++.+||+|+-|-.-+.--|.+|=|.+-++++++ .++-||
T Consensus 1539 ~~pl~~k~l~~trss~~~~r~~ai~~~~~l~~~lge~~~~lL~q~iPfLaEL~ED~~~~Ve~~~q~li~q~---e~~lGE 1615 (1621)
T KOG1837|consen 1539 LKPLNQKILKKTRSSSRKARYLAIIQVKLLYTKLGENVIVLLPQSIPFLAELMEDEDDEVECLCQKLIRQL---EEVLGE 1615 (1621)
T ss_pred hHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHhcchhHHhhhhhhHHHHHHHhhhHHHHHHHHHHHHHHH---HHHhch
Confidence 7788889999998886 7999999999999999999999999999999999988999999988877777 678899
Q ss_pred cchhH
Q psy7090 177 ALVPY 181 (253)
Q Consensus 177 ALvPy 181 (253)
-+..|
T Consensus 1616 ~l~~y 1620 (1621)
T KOG1837|consen 1616 PLQSY 1620 (1621)
T ss_pred hhhhc
Confidence 77766
No 21
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=48.26 E-value=34 Score=28.51 Aligned_cols=74 Identities=15% Similarity=0.233 Sum_probs=47.4
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhhhhhcccCCCCcccc--cchhcccchhHHHHHHH
Q psy7090 144 PIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLNMYKDLNKNTGDAID--YSQMKRENIGDLVQETL 221 (253)
Q Consensus 144 PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~lnlfk~~n~n~gD~id--y~q~~~~~lgdlI~eTL 221 (253)
=|=+=|+.+++-|-..+|++|..|+..+ .+..+-..|+-+.+.....+-.. ..| +|..-.+.+++..+|.+
T Consensus 42 ~L~kRL~~~~~hVK~K~Lrilk~l~~~G---~~~f~~~~~~~~~~Ik~~~~f~g----~~Dp~~Gd~~~~~VR~~A~El~ 114 (122)
T cd03572 42 YLLKRLKRSSPHVKLKVLKIIKHLCEKG---NSDFKRELQRNSAQIRECANYKG----PPDPLKGDSLNEKVREEAQELI 114 (122)
T ss_pred HHHHHhcCCCCcchHHHHHHHHHHHhhC---CHHHHHHHHHhHHHHHHHHHcCC----CCCcccCcchhHHHHHHHHHHH
Confidence 3445678889999999999999999775 45666666665555544443221 122 23334466777777777
Q ss_pred HHH
Q psy7090 222 QIL 224 (253)
Q Consensus 222 ~~L 224 (253)
.++
T Consensus 115 ~~i 117 (122)
T cd03572 115 KAI 117 (122)
T ss_pred HHH
Confidence 665
No 22
>PF11865 DUF3385: Domain of unknown function (DUF3385); InterPro: IPR024585 This uncharacterised domain is is typically between 160 to 172 amino acids in length. It is found in the phosphatidylinositol kinase-related protein kinases TOR (target of rapamycin). In Saccharomyces cerevisiae the TOR proteins, TOR1 and TOR2, regulate growth in a rapamycin-sensitive manner [].
Probab=48.06 E-value=34 Score=29.11 Aligned_cols=49 Identities=22% Similarity=0.199 Sum_probs=37.0
Q ss_pred HhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHH
Q psy7090 120 SKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLV 168 (253)
Q Consensus 120 ~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv 168 (253)
.+.+..+++.-+.|.+|.+||+|+++=+.+.+-++..-+..++-|..|+
T Consensus 108 v~ai~~If~~l~~~cv~~L~~viP~~l~~i~~~~~~~~e~~~~qL~~lv 156 (160)
T PF11865_consen 108 VQAIMYIFKSLGLKCVPYLPQVIPIFLRVIRTCPDSLREFYFQQLADLV 156 (160)
T ss_pred HHHHHHHHHhcCcCchhHHHHHhHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 3444444545667889999999999999999888888877766666554
No 23
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=46.35 E-value=67 Score=27.19 Aligned_cols=89 Identities=19% Similarity=0.255 Sum_probs=66.6
Q ss_pred CcchhhhhccccccccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCccccc
Q psy7090 98 QYYLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEA 177 (253)
Q Consensus 98 ~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~A 177 (253)
++|+|.++..|+.....-|--|...+..|+..+--|+= +++..-+=.+|.-.|++|-..|...+..+.... -+..
T Consensus 24 e~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k---~~l~~~~l~~l~D~~~~Ir~~A~~~~~e~~~~~--~~~~ 98 (178)
T PF12717_consen 24 EPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVK---GQLFSRILKLLVDENPEIRSLARSFFSELLKKR--NPNI 98 (178)
T ss_pred HhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeeh---hhhhHHHHHHHcCCCHHHHHHHHHHHHHHHHhc--cchH
Confidence 67999999999999888888888999999887655544 555555557888999999999999888886441 3444
Q ss_pred chhHHHhhchhhhh
Q psy7090 178 LVPYYKQILPHLNM 191 (253)
Q Consensus 178 LvPyyRqlLP~lnl 191 (253)
+..++-.++-.||-
T Consensus 99 i~~~~~e~i~~l~~ 112 (178)
T PF12717_consen 99 IYNNFPELISSLNN 112 (178)
T ss_pred HHHHHHHHHHHHhC
Confidence 55555555555553
No 24
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=45.80 E-value=81 Score=24.62 Aligned_cols=44 Identities=23% Similarity=0.349 Sum_probs=35.5
Q ss_pred ccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhh
Q psy7090 139 PHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQI 185 (253)
Q Consensus 139 PqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRql 185 (253)
...+.-|+.-|+++|+.++-.||.+|..|+.-+ |+....+.+.-
T Consensus 36 ~~~~~~l~kRl~~~~~~~~lkaL~lLe~lvkN~---g~~f~~~i~~~ 79 (115)
T cd00197 36 KEAVDAIKKRINNKNPHVVLKALTLLEYCVKNC---GERFHQEVASN 79 (115)
T ss_pred HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHc---cHHHHHHHHHh
Confidence 456778999999999999999999999998765 66666665543
No 25
>KOG1242|consensus
Probab=45.56 E-value=23 Score=36.66 Aligned_cols=90 Identities=24% Similarity=0.367 Sum_probs=66.9
Q ss_pred CCcchhhhhccccccccchHhHHHhhHHHHHH--cCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcc
Q psy7090 97 YQYYLPIFFDGLRETEYPYKFFASKGIHDLLE--NGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMV 174 (253)
Q Consensus 97 y~~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~--~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~V 174 (253)
.+-..|+.--||.|..-.-.=-+.+=+..|-. ..+..+-|.||+|++-+|.++.|-+|||=..+.++|-.|+.--..+
T Consensus 370 LalmvpiL~R~l~eRst~~kr~t~~IidNm~~LveDp~~lapfl~~Llp~lk~~~~d~~PEvR~vaarAL~~l~e~~g~~ 449 (569)
T KOG1242|consen 370 LALMVPILKRGLAERSTSIKRKTAIIIDNMCKLVEDPKDLAPFLPSLLPGLKENLDDAVPEVRAVAARALGALLERLGEV 449 (569)
T ss_pred HHHHHHHHHHHHhhccchhhhhHHHHHHHHHHhhcCHHHHhhhHHHHhhHHHHHhcCCChhHHHHHHHHHHHHHHHHHhh
Confidence 34578999999999888776444444555543 3567899999999999999999999999999999886666544444
Q ss_pred c-ccchhHHHhhc
Q psy7090 175 G-EALVPYYKQIL 186 (253)
Q Consensus 175 G-~ALvPyyRqlL 186 (253)
+ +.++|-.-..+
T Consensus 450 ~f~d~~p~l~e~~ 462 (569)
T KOG1242|consen 450 SFDDLIPELSETL 462 (569)
T ss_pred cccccccHHHHhh
Confidence 4 66666554444
No 26
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=43.45 E-value=52 Score=20.22 Aligned_cols=29 Identities=21% Similarity=0.259 Sum_probs=24.0
Q ss_pred chHHHHHhhcCCCHHHHHHHHHHHHHHHh
Q psy7090 141 LILPIKNALSTRNPEVICETLKVLQHLVT 169 (253)
Q Consensus 141 LI~PiK~AL~trd~~V~~~~L~~Lq~Lv~ 169 (253)
|++.+...|+..+++|=.++.+.|..+++
T Consensus 1 llp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 1 LLPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 46778899999999999999999888753
No 27
>KOG2023|consensus
Probab=43.03 E-value=58 Score=35.05 Aligned_cols=46 Identities=28% Similarity=0.332 Sum_probs=33.5
Q ss_pred hHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhh
Q psy7090 142 ILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLN 190 (253)
Q Consensus 142 I~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~ln 190 (253)
..+|.+-|--.|..|=+++-- +.++..+-.|+.|||||-+||.-|-
T Consensus 478 L~~ll~~llD~NK~VQEAAcs---AfAtleE~A~~eLVp~l~~IL~~l~ 523 (885)
T KOG2023|consen 478 LEGLLRRLLDSNKKVQEAACS---AFATLEEEAGEELVPYLEYILDQLV 523 (885)
T ss_pred HHHHHHHHhcccHHHHHHHHH---HHHHHHHhccchhHHHHHHHHHHHH
Confidence 345555566677777777644 4555678899999999999998753
No 28
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=42.77 E-value=35 Score=24.38 Aligned_cols=69 Identities=16% Similarity=0.219 Sum_probs=41.0
Q ss_pred hhhhhccccccccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchh
Q psy7090 101 LPIFFDGLRETEYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVP 180 (253)
Q Consensus 101 LPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvP 180 (253)
+|.+++-|.+.++|+ .+.-.-+.|..-+ -|+.+..|..+|++.|+.|-..+..+|-.+ + .+..++
T Consensus 1 i~~L~~~l~~~~~~~---vr~~a~~~L~~~~------~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i---~---~~~~~~ 65 (88)
T PF13646_consen 1 IPALLQLLQNDPDPQ---VRAEAARALGELG------DPEAIPALIELLKDEDPMVRRAAARALGRI---G---DPEAIP 65 (88)
T ss_dssp HHHHHHHHHTSSSHH---HHHHHHHHHHCCT------HHHHHHHHHHHHTSSSHHHHHHHHHHHHCC---H---HHHTHH
T ss_pred CHHHHHHHhcCCCHH---HHHHHHHHHHHcC------CHhHHHHHHHHHcCCCHHHHHHHHHHHHHh---C---CHHHHH
Confidence 355566664444444 2333444443222 126788899999999999998887766544 2 344555
Q ss_pred HHHh
Q psy7090 181 YYKQ 184 (253)
Q Consensus 181 yyRq 184 (253)
.+.+
T Consensus 66 ~L~~ 69 (88)
T PF13646_consen 66 ALIK 69 (88)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 5544
No 29
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=42.72 E-value=92 Score=25.38 Aligned_cols=94 Identities=18% Similarity=0.167 Sum_probs=53.9
Q ss_pred HhhHHHHHHcCCCcccccccc-chHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhhhhhcccCC
Q psy7090 120 SKGIHDLLENGKDKIVPVLPH-LILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLNMYKDLNKN 198 (253)
Q Consensus 120 ~~G~~dLL~~~~~KilPvlPq-LI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~lnlfk~~n~n 198 (253)
...+-|++... +.-|+ .+..||.=|+++|+.+...||.+|..++.-.+---...+--...+.....++.+.
T Consensus 21 il~icd~I~~~-----~~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~fl~~l~~l~~~~--- 92 (133)
T cd03561 21 NLELCDLINLK-----PNGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKEFLLELVKIAKNS--- 92 (133)
T ss_pred HHHHHHHHhCC-----CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHHHHHHHHHHhCCC---
Confidence 33455666543 22332 3678999999999999999999999998764221111121222233333333332
Q ss_pred CCcccccchhcccchhHHHHHHHHHHHHhCC
Q psy7090 199 TGDAIDYSQMKRENIGDLVQETLQILERHGG 229 (253)
Q Consensus 199 ~gD~idy~q~~~~~lgdlI~eTL~~LE~~GG 229 (253)
+ .....+++.|.+.++.....-+
T Consensus 93 --~------~~~~~Vk~kil~ll~~W~~~f~ 115 (133)
T cd03561 93 --P------KYDPKVREKALELILAWSESFG 115 (133)
T ss_pred --C------CCCHHHHHHHHHHHHHHHHHhc
Confidence 0 1235567777777777665444
No 30
>PF12333 Ipi1_N: Rix1 complex component involved in 60S ribosome maturation; InterPro: IPR024679 This domain is found in IPI1, which is a component of the Rix1 complex involved in pre-rRNA-processing [, ]. It is also found in testis-expressed sequence 10 protein, a nuclear membrane protein, which is a component of the MLL1/MLL complex [].
Probab=41.90 E-value=24 Score=27.96 Aligned_cols=57 Identities=26% Similarity=0.477 Sum_probs=45.4
Q ss_pred CccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchh-HHHhhchhhhh
Q psy7090 132 DKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVP-YYKQILPHLNM 191 (253)
Q Consensus 132 ~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvP-yyRqlLP~lnl 191 (253)
+.+-|.+|.++.-|+.|+-+=+++|=..+++.|..|+.- .++.+++ +..++|+-+.-
T Consensus 3 ~~l~p~~~~l~~~i~sAMTHi~~~Ir~dsl~~L~~lL~~---~p~~~~~~~~~kil~~f~~ 60 (102)
T PF12333_consen 3 ELLSPFFPLLMLYISSAMTHISPDIREDSLKFLDLLLEH---APDELCSGGWVKILPNFLD 60 (102)
T ss_pred HHHHhHHHHHHHHHHHHHHhCCHHHHHhHHHHHHHHHHH---CChHhHhhhHHHHHHHHHH
Confidence 457799999999999999999999999999999999854 4555343 56666666443
No 31
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=41.88 E-value=34 Score=27.03 Aligned_cols=57 Identities=16% Similarity=0.369 Sum_probs=48.2
Q ss_pred CCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhh
Q psy7090 131 KDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLN 190 (253)
Q Consensus 131 ~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~ln 190 (253)
+..+-+.++++|.|+=+.++..|..|=-.+.+.|-.++ ...++++.+||-+|...|.
T Consensus 18 ~~~~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~---k~~~~~~l~~f~~IF~~L~ 74 (97)
T PF12755_consen 18 GKDISKYLDEILPPVLKCFDDQDSRVRYYACEALYNIS---KVARGEILPYFNEIFDALC 74 (97)
T ss_pred hHhHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 44588899999999999999999999888888777775 4557888999999998855
No 32
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=37.65 E-value=12 Score=29.45 Aligned_cols=44 Identities=25% Similarity=0.587 Sum_probs=35.3
Q ss_pred CCCCCcchhhhhccccccccchHhH-HHhhHHHHHHcCCCcccccc
Q psy7090 94 TLNYQYYLPIFFDGLRETEYPYKFF-ASKGIHDLLENGKDKIVPVL 138 (253)
Q Consensus 94 ~LDy~~yLPiFfdGLrEt~~PY~Fl-A~~G~~dLL~~~~~KilPvl 138 (253)
..+.+..|.+|.+.|++. +||.|+ |.+|+..|....++.++|.|
T Consensus 38 ~~~~~~il~l~l~~L~d~-DsyVYL~aI~~L~~La~~~p~~vl~~L 82 (92)
T PF10363_consen 38 VIDIPKILDLFLSQLKDE-DSYVYLNAIKGLAALADRHPDEVLPIL 82 (92)
T ss_pred hhhHHHHHHHHHHHcCCC-CchHHHHHHHHHHHHHHHChHHHHHHH
Confidence 356677899999988775 899998 58999999988877777654
No 33
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=36.85 E-value=77 Score=20.32 Aligned_cols=27 Identities=33% Similarity=0.426 Sum_probs=23.0
Q ss_pred hHHHHHhhcCCCHHHHHHHHHHHHHHH
Q psy7090 142 ILPIKNALSTRNPEVICETLKVLQHLV 168 (253)
Q Consensus 142 I~PiK~AL~trd~~V~~~~L~~Lq~Lv 168 (253)
|.+|-.-|.+.|++|...++-+|.-|+
T Consensus 14 i~~Lv~ll~~~~~~v~~~a~~al~nl~ 40 (41)
T PF00514_consen 14 IPPLVQLLKSPDPEVQEEAAWALGNLA 40 (41)
T ss_dssp HHHHHHHTTSSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHh
Confidence 667777888999999999999988774
No 34
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=36.43 E-value=67 Score=31.60 Aligned_cols=57 Identities=25% Similarity=0.372 Sum_probs=38.9
Q ss_pred hHHHHHH----cCCCccccc---cc-cchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchh
Q psy7090 122 GIHDLLE----NGKDKIVPV---LP-HLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVP 180 (253)
Q Consensus 122 G~~dLL~----~~~~KilPv---lP-qLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvP 180 (253)
|.-..|. +.+++-+|- -| -++.-++.||..+++-|-..+|..++.|+. .-.|..|..
T Consensus 275 GAv~~l~~ll~~~~~~~~~~l~~~~~~vl~sl~~al~~~~~~v~~eIl~~i~~ll~--~~~~~~l~~ 339 (464)
T PF11864_consen 275 GAVFFLRMLLWGSGEQGYPSLPFSPSSVLPSLLNALKSNSPRVDYEILLLINRLLD--GKYGRELSE 339 (464)
T ss_pred hHHHHHHHHHhccccCCcceecccHHHHHHHHHHHHhCCCCeehHHHHHHHHHHHh--Hhhhhhhcc
Confidence 6666554 333344443 33 377889999999999999999999999985 334444433
No 35
>PF08161 NUC173: NUC173 domain; InterPro: IPR012978 This is the central domain of a novel family of hypothetical nucleolar proteins [].
Probab=35.99 E-value=1.6e+02 Score=26.22 Aligned_cols=79 Identities=24% Similarity=0.280 Sum_probs=59.4
Q ss_pred hHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhhhhhcccCCCCcccccchhcccchhHHHHHHH
Q psy7090 142 ILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGDLVQETL 221 (253)
Q Consensus 142 I~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgdlI~eTL 221 (253)
+.-+..+|+-+-......+|+++..|. +..|++-.|++..+|-.+.-.++.. +-...+-+++++
T Consensus 2 ~~~~e~~L~~~y~~aw~~vl~v~s~lf---~~lg~~~~~~l~~~L~~l~~lr~~~-------------~f~~~~~~e~~l 65 (198)
T PF08161_consen 2 CATLESLLSYRYQHAWPEVLNVLSALF---EKLGERSSPLLKPILKTLGDLRESE-------------DFSFRKELEQVL 65 (198)
T ss_pred HHHHHHHhCcchHHHHHHHHHHHHHHH---HHHhhhccHHHHHHHHHHHHHHcCC-------------CcchHHHHHHHH
Confidence 445678899999999999999988886 5678888899988888777544321 133455578888
Q ss_pred HHHHHhCChhHHHHh
Q psy7090 222 QILERHGGEDACIYI 236 (253)
Q Consensus 222 ~~LE~~GG~dA~inI 236 (253)
...=+.-|++.+-.+
T Consensus 66 gaAi~amGpe~vL~~ 80 (198)
T PF08161_consen 66 GAAIRAMGPEQVLSI 80 (198)
T ss_pred HHHHHHCCHHHHHHH
Confidence 888888999988653
No 36
>KOG2956|consensus
Probab=33.20 E-value=45 Score=34.20 Aligned_cols=82 Identities=21% Similarity=0.326 Sum_probs=61.5
Q ss_pred cccchHhHHHhhHHHHHHc-CCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCccc-ccchhHHHhhc--
Q psy7090 111 TEYPYKFFASKGIHDLLEN-GKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVG-EALVPYYKQIL-- 186 (253)
Q Consensus 111 t~~PY~FlA~~G~~dLL~~-~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG-~ALvPyyRqlL-- 186 (253)
-++|-.-++.+....|.++ ..+-+++++|-+++-+=.|-++..-.|=..+.=.|=++| ..|| +++-||++||=
T Consensus 418 ~D~~~~~~~iKm~Tkl~e~l~~EeL~~ll~diaP~~iqay~S~SS~VRKtaVfCLVamv---~~vG~~~mePhL~~Lt~s 494 (516)
T KOG2956|consen 418 ADEPRAVAVIKMLTKLFERLSAEELLNLLPDIAPCVIQAYDSTSSTVRKTAVFCLVAMV---NRVGMEEMEPHLEQLTSS 494 (516)
T ss_pred CcchHHHHHHHHHHHHHhhcCHHHHHHhhhhhhhHHHHHhcCchHHhhhhHHHhHHHHH---HHHhHHhhhhHhhhccHH
Confidence 4667666777777777776 457899999999999999999888776666554444454 7899 99999999873
Q ss_pred --hhhhhhhcc
Q psy7090 187 --PHLNMYKDL 195 (253)
Q Consensus 187 --P~lnlfk~~ 195 (253)
-.+++|.++
T Consensus 495 k~~LlqlYinR 505 (516)
T KOG2956|consen 495 KLNLLQLYINR 505 (516)
T ss_pred HHHHHHHHHHH
Confidence 335666654
No 37
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=32.14 E-value=31 Score=23.23 Aligned_cols=31 Identities=26% Similarity=0.426 Sum_probs=21.1
Q ss_pred HHHhhchhhhhhhcccCCCCcccccchhcccchhHHHHHHHHHHH
Q psy7090 181 YYKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGDLVQETLQILE 225 (253)
Q Consensus 181 yyRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgdlI~eTL~~LE 225 (253)
-|+++|-+|+.|++.. .+..+++++.-.+|+
T Consensus 3 ~Y~~FL~il~~y~~~~--------------~~~~~v~~~v~~Ll~ 33 (47)
T PF02671_consen 3 VYNEFLKILNDYKKGR--------------ISRSEVIEEVSELLR 33 (47)
T ss_dssp HHHHHHHHHHHHHCTC--------------SCHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHhcC--------------CCHHHHHHHHHHHHc
Confidence 3889999999988642 345566666555553
No 38
>PF06953 ArsD: Arsenical resistance operon trans-acting repressor ArsD; InterPro: IPR010712 This family consists of several bacterial arsenical resistance operon trans-acting repressor ArsD proteins. ArsD is a trans-acting repressor of the arsRDABC operon that confers resistance to arsenicals and antimonials in Escherichia coli. It possesses two-pairs of vicinal cysteine residues, Cys(12)-Cys(13) and Cys(112)-Cys(113), that potentially form separate binding sites for the metalloids that trigger dissociation of ArsD from the operon. However, as a homodimer it has four vicinal cysteine pairs [].; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent, 0046685 response to arsenic-containing substance; PDB: 3MWH_A 3KGK_A 3KTB_B.
Probab=32.07 E-value=24 Score=29.51 Aligned_cols=28 Identities=18% Similarity=0.451 Sum_probs=23.0
Q ss_pred cccchHhHHHhhHHHHHHcCCCcccccc
Q psy7090 111 TEYPYKFFASKGIHDLLENGKDKIVPVL 138 (253)
Q Consensus 111 t~~PY~FlA~~G~~dLL~~~~~KilPvl 138 (253)
+.+|-.|+.-+.+.++|+..|..+||+.
T Consensus 49 ~~~P~aF~~n~~V~~~L~~~G~e~LPit 76 (123)
T PF06953_consen 49 AQNPQAFVENPEVNQLLQTEGAEALPIT 76 (123)
T ss_dssp TT-TTHHHHSHHHHHHHHHH-GGG-SEE
T ss_pred ccCHHHHHhCHHHHHHHHHcCcccCCEE
Confidence 6899999999999999999999999974
No 39
>KOG2021|consensus
Probab=31.89 E-value=68 Score=34.94 Aligned_cols=73 Identities=21% Similarity=0.286 Sum_probs=51.1
Q ss_pred cccchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhh
Q psy7090 111 TEYPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHL 189 (253)
Q Consensus 111 t~~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~l 189 (253)
..+|-|--.+--++-|+..=|++++|.||++|--| |++-|+.=+.-.|-.|.+|. -.--.++-+.+-|++|++
T Consensus 709 k~E~iRsavrft~hRmI~~lg~~vlPfipklie~l---L~s~d~kEmvdfl~flsQLi---hkfk~~~~~ilnqmlppl 781 (980)
T KOG2021|consen 709 KFENIRSAVRFTFHRMIPILGNKVLPFIPKLIELL---LSSTDLKEMVDFLGFLSQLI---HKFKTDCYQILNQMLPPL 781 (980)
T ss_pred ccchhHHHHHHHHHHHHHhcchhhhcchHHHHHHH---HhcCCHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 34555556666778888888999999999999876 66666665555555555553 223367777888888774
No 40
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=30.61 E-value=1.3e+02 Score=23.51 Aligned_cols=69 Identities=19% Similarity=0.187 Sum_probs=43.8
Q ss_pred cchHhHHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCc-ccccchhHH
Q psy7090 113 YPYKFFASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSM-VGEALVPYY 182 (253)
Q Consensus 113 ~PY~FlA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~-VG~ALvPyy 182 (253)
-|-|--|-.....|++... -.+--+|+++.=+...|...|+=|.-++.++|-.|+...+- |=+.|+..|
T Consensus 17 ~PvRa~gL~~L~~Li~~~~-~~~~~~~~il~l~l~~L~d~DsyVYL~aI~~L~~La~~~p~~vl~~L~~~y 86 (92)
T PF10363_consen 17 PPVRAHGLVLLRKLIESKS-EPVIDIPKILDLFLSQLKDEDSYVYLNAIKGLAALADRHPDEVLPILLDEY 86 (92)
T ss_pred cchHHHHHHHHHHHHHcCC-cchhhHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHChHHHHHHHHHHH
Confidence 4444444555566666555 33334688888899999999999997776666666544432 334444444
No 41
>PLN03076 ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
Probab=30.52 E-value=44 Score=38.98 Aligned_cols=38 Identities=26% Similarity=0.457 Sum_probs=33.8
Q ss_pred cchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCccccc
Q psy7090 140 HLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEA 177 (253)
Q Consensus 140 qLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~A 177 (253)
.++.|++.|..|+++.++..+|..||+|..-+-..|+.
T Consensus 86 ~i~~pl~lac~s~~~ki~~~ALdcl~KLis~~~i~~~~ 123 (1780)
T PLN03076 86 LILSPLINACGTGSAKIVDPALDCIQKLIAHGYLRGEA 123 (1780)
T ss_pred HHHHHHHHHHcCCCccHHHHHHHHHHHHHHHhhcCCCC
Confidence 47899999999999999999999999999877776643
No 42
>PF12397 U3snoRNP10: U3 small nucleolar RNA-associated protein 10 ; InterPro: IPR022125 This domain family is found in eukaryotes, and is approximately 120 amino acids in length. The family is found in association with PF08146 from PFAM. This family is the protein associated with U3 snoRNA which is involved in the processing of pre-rRNA.
Probab=29.82 E-value=1.5e+02 Score=23.34 Aligned_cols=53 Identities=21% Similarity=0.387 Sum_probs=44.6
Q ss_pred ccccchHHHHHhhc-CCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhh
Q psy7090 137 VLPHLILPIKNALS-TRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHL 189 (253)
Q Consensus 137 vlPqLI~PiK~AL~-trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~l 189 (253)
+++++.+.+-.+|. +..+|....+.-++-.|+...++--+.+..-.+.++...
T Consensus 3 ~l~~lLP~l~~~L~~s~~~d~~~a~ymIl~~La~k~~L~~~~l~~l~~~i~~~~ 56 (121)
T PF12397_consen 3 ILPRLLPFLLKGLKSSSSPDLQAAAYMILSVLASKVPLSDEVLNALMESILKNW 56 (121)
T ss_pred HHHHHHHHHHHHHccCCcHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHhcc
Confidence 46788888999999 889999999999999999988888887777777766543
No 43
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 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 N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=29.74 E-value=54 Score=31.34 Aligned_cols=27 Identities=22% Similarity=0.428 Sum_probs=14.1
Q ss_pred chHHHHHhhcCCCHHHHHHHHHHHHHH
Q psy7090 141 LILPIKNALSTRNPEVICETLKVLQHL 167 (253)
Q Consensus 141 LI~PiK~AL~trd~~V~~~~L~~Lq~L 167 (253)
.|-.|++.|++.|+.+.+.||+.|-.+
T Consensus 80 ~~n~l~kdl~~~n~~~~~lAL~~l~~i 106 (526)
T PF01602_consen 80 IINSLQKDLNSPNPYIRGLALRTLSNI 106 (526)
T ss_dssp HHHHHHHHHCSSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhcCCCHHHHHHHHhhhhhh
Confidence 444555555555555555555555444
No 44
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=28.40 E-value=1.5e+02 Score=24.47 Aligned_cols=81 Identities=20% Similarity=0.286 Sum_probs=49.2
Q ss_pred cccchHHHHHhhcCC--CHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhhhhhcccCCCCcccccchhcccchhH
Q psy7090 138 LPHLILPIKNALSTR--NPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLNMYKDLNKNTGDAIDYSQMKRENIGD 215 (253)
Q Consensus 138 lPqLI~PiK~AL~tr--d~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~lnlfk~~n~n~gD~idy~q~~~~~lgd 215 (253)
.+.++.-|.+.|+.. +...+-.+|.+|..|+.-+ -+..+..+|.-+..+...++-.---.++.| .+.++++
T Consensus 35 ~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nG---se~vv~~~r~~~~~i~~L~~F~~~d~~g~d----~G~~VR~ 107 (123)
T cd03571 35 FQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNG---SERVVDDARENLYIIRTLKDFQYIDENGKD----QGINVRE 107 (123)
T ss_pred HHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhC---CHHHHHHHHHhHHHHHhhccceeeCCCCCc----hhHHHHH
Confidence 345556667777655 8888999999999999876 456777777766665532211100001223 3355666
Q ss_pred HHHHHHHHHH
Q psy7090 216 LVQETLQILE 225 (253)
Q Consensus 216 lI~eTL~~LE 225 (253)
...+.+++|+
T Consensus 108 ka~~i~~Ll~ 117 (123)
T cd03571 108 KAKEILELLE 117 (123)
T ss_pred HHHHHHHHhC
Confidence 6666666654
No 45
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=27.40 E-value=89 Score=22.86 Aligned_cols=70 Identities=16% Similarity=0.126 Sum_probs=44.8
Q ss_pred cchhhhhccccccccchHhHHHhhHHHHHHcCCCcc-ccccccchHHHHHhhcCCCHHHHHHHHHHHHHHH
Q psy7090 99 YYLPIFFDGLRETEYPYKFFASKGIHDLLENGKDKI-VPVLPHLILPIKNALSTRNPEVICETLKVLQHLV 168 (253)
Q Consensus 99 ~yLPiFfdGLrEt~~PY~FlA~~G~~dLL~~~~~Ki-lPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv 168 (253)
..+|.+.+=|....+.-+.-|...+..|....+... .-+-..++.-+-..|++.|.++...++.+|..|+
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~~~~~~~~a~~~l~~l~ 119 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSSNEDIQKNATGALSNLA 119 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHHHhcCCHHHHHHHHHHHHHhh
Confidence 345666665665555555555666666665443221 2222446777778888889999999998888774
No 46
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=27.34 E-value=93 Score=26.06 Aligned_cols=32 Identities=25% Similarity=0.334 Sum_probs=28.5
Q ss_pred cchHHHHHhhcCCCHHHHHHHHHHHHHHHhcC
Q psy7090 140 HLILPIKNALSTRNPEVICETLKVLQHLVTSS 171 (253)
Q Consensus 140 qLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~ 171 (253)
..+..||+=|+++|+.|...||.+|..+|.-.
T Consensus 41 ~a~ral~krl~~~n~~vql~AL~LLe~~vkNC 72 (142)
T cd03569 41 YAMRALKKRLLSKNPNVQLYALLLLESCVKNC 72 (142)
T ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHHHHHHC
Confidence 46788999999999999999999999998753
No 47
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=26.94 E-value=97 Score=26.11 Aligned_cols=32 Identities=19% Similarity=0.326 Sum_probs=28.3
Q ss_pred cchHHHHHhhcCCCHHHHHHHHHHHHHHHhcC
Q psy7090 140 HLILPIKNALSTRNPEVICETLKVLQHLVTSS 171 (253)
Q Consensus 140 qLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~ 171 (253)
..+..||+=|+++|+.|...||.+|..+|.-.
T Consensus 37 ~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNC 68 (144)
T cd03568 37 DCLKAIMKRLNHKDPNVQLRALTLLDACAENC 68 (144)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHC
Confidence 45778999999999999999999999998754
No 48
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=26.83 E-value=97 Score=26.07 Aligned_cols=29 Identities=10% Similarity=0.189 Sum_probs=26.6
Q ss_pred chHHHHHhhcCCCHHHHHHHHHHHHHHHh
Q psy7090 141 LILPIKNALSTRNPEVICETLKVLQHLVT 169 (253)
Q Consensus 141 LI~PiK~AL~trd~~V~~~~L~~Lq~Lv~ 169 (253)
-+..||+=|+++|+.|...||.+|..+|+
T Consensus 39 a~rai~krl~~~n~~v~l~AL~LLe~~vk 67 (139)
T cd03567 39 AVRLLAHKIQSPQEKEALQALTVLEACMK 67 (139)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 56789999999999999999999999987
No 49
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=26.32 E-value=1.1e+02 Score=25.17 Aligned_cols=48 Identities=25% Similarity=0.327 Sum_probs=34.8
Q ss_pred HhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcC
Q psy7090 120 SKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSS 171 (253)
Q Consensus 120 ~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~ 171 (253)
...+-|++....+-. --.+.-||+-|.++||.+...||.+|..+|.-.
T Consensus 26 ~l~icD~i~~~~~~~----kea~~~l~krl~~~~~~vq~~aL~lld~lvkNc 73 (140)
T PF00790_consen 26 ILEICDLINSSPDGA----KEAARALRKRLKHGNPNVQLLALTLLDALVKNC 73 (140)
T ss_dssp HHHHHHHHHTSTTHH----HHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHcCCccH----HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcC
Confidence 334566665542111 234677999999999999999999999999754
No 50
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=26.28 E-value=46 Score=32.96 Aligned_cols=56 Identities=23% Similarity=0.331 Sum_probs=42.6
Q ss_pred ccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhh
Q psy7090 133 KIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLN 190 (253)
Q Consensus 133 KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~ln 190 (253)
-+-.+-+.|.+|+..-|+..=.|-+--++++|..|+..++ ++.+-+.|++|+|.|-
T Consensus 110 ~v~~~E~~L~P~f~~ILq~dV~EF~PYvfQIla~Lle~~~--~~~~p~~y~~L~~~Ll 165 (435)
T PF03378_consen 110 AVSQFEEALFPPFQEILQQDVQEFIPYVFQILAQLLELRP--SSPLPDAYKQLFPPLL 165 (435)
T ss_dssp ---HHHHHHHHHHHHHHHTT-TTTHHHHHHHHHHHHHHSS----S--TTTGGGHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC--CCCCcHHHHHHHHHHc
Confidence 3445677888999999988778999999999999999988 7899999999999965
No 51
>PF04118 Dopey_N: Dopey, N-terminal; InterPro: IPR007249 DopA is the founding member of the Dopey family and is required for correct cell morphology and spatiotemporal organisation of multicellular structures in the filamentous fungus Emericella nidulans (Aspergillus nidulans). DopA homologues are found in mammals. Saccharomyces cerevisiae DOP1 is essential for viability and, affects cellular morphogenesis [].
Probab=24.99 E-value=49 Score=31.47 Aligned_cols=81 Identities=31% Similarity=0.417 Sum_probs=55.6
Q ss_pred CCcchhhhhccccccccchHhHHHh-hHHHHHHc----CCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcC
Q psy7090 97 YQYYLPIFFDGLRETEYPYKFFASK-GIHDLLEN----GKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSS 171 (253)
Q Consensus 97 y~~yLPiFfdGLrEt~~PY~FlA~~-G~~dLL~~----~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~ 171 (253)
+..-|+++.-||-..- +|.-+..+ -+-++++. =+..+.|+++-+|.-|=-+|...+-|++..++++|..+.
T Consensus 91 L~~dl~i~~~GLfpl~-~~asi~Vkp~lL~i~e~~~lpL~~~L~p~l~~li~slLpGLede~sE~~~~~~~ll~~l~--- 166 (307)
T PF04118_consen 91 LAQDLPIYSPGLFPLF-SYASIQVKPQLLDIYEKYYLPLGPALRPCLKGLILSLLPGLEDEGSEFFDRTLKLLDKLK--- 166 (307)
T ss_pred HHhhcHHHHHHHHHHH-HHHHHhhHHHHHHHHHHHhcCccHHHHHHHHHHHHHhccccccCCchHHHHHHHHHHHHH---
Confidence 3445566666664332 12222222 34455552 234999999999999999999999999999999999884
Q ss_pred CcccccchhHHHh
Q psy7090 172 SMVGEALVPYYKQ 184 (253)
Q Consensus 172 ~~VG~ALvPyyRq 184 (253)
..||+. ||.|
T Consensus 167 ~~v~~~---~F~~ 176 (307)
T PF04118_consen 167 EAVGDK---YFWQ 176 (307)
T ss_pred HhcChh---HHHH
Confidence 567877 5555
No 52
>COG4899 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.87 E-value=17 Score=31.82 Aligned_cols=55 Identities=15% Similarity=0.416 Sum_probs=45.1
Q ss_pred HHHhhcCCCCEEEeeCCCCCeeeee--ecCCCCCCCcchhhhhccccccccchHhHHHh
Q psy7090 65 RTYYSRGDFPIAMEFKSVGNKISWK--EDIKTLNYQYYLPIFFDGLRETEYPYKFFASK 121 (253)
Q Consensus 65 r~~Y~rGdlP~~i~hgs~~~~L~Wk--v~~e~LDy~~yLPiFfdGLrEt~~PY~FlA~~ 121 (253)
.+++-|.-|||-|+-+ +.++.|- |+.|.=||..||-.|.||.-+.-+|=.|+++.
T Consensus 48 ~r~FIr~~lpIPi~G~--~~~l~yG~WveVe~~~f~~Yl~~yydn~e~~v~~~~~~nrl 104 (166)
T COG4899 48 KRHFIRSNLPIPIDGG--KKKLDYGGWVEVEHSDFMTYLNLYYDNVEKKVRIPGFLNRL 104 (166)
T ss_pred cceeeeecccceecCc--cceeccceEEEEeHHHHHHHHHHHhcCcccccchhhHhhcc
Confidence 3567788999988633 4688887 67788999999999999999999998887653
No 53
>KOG1062|consensus
Probab=23.82 E-value=93 Score=33.84 Aligned_cols=67 Identities=18% Similarity=0.439 Sum_probs=50.0
Q ss_pred cccccchHHHHHhhcCCCHHHHHHHHHHHHHHHhcCCcccccchhHHHhhchhhh-hhhcc-cCCCCcccccc
Q psy7090 136 PVLPHLILPIKNALSTRNPEVICETLKVLQHLVTSSSMVGEALVPYYKQILPHLN-MYKDL-NKNTGDAIDYS 206 (253)
Q Consensus 136 PvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlLP~ln-lfk~~-n~n~gD~idy~ 206 (253)
...--.+++-|+.|..+|+-|+.+++..+..|..- ++..+-|||.+.|-|= +.|+. +.+.--..||.
T Consensus 175 ~l~e~f~~~~~~lL~ek~hGVL~~~l~l~~e~c~~----~~~~l~~fr~l~~~lV~iLk~l~~~~yspeydv~ 243 (866)
T KOG1062|consen 175 DLVEHFVIAFRKLLCEKHHGVLIAGLHLITELCKI----SPDALSYFRDLVPSLVKILKQLTNSGYSPEYDVH 243 (866)
T ss_pred hHHHHhhHHHHHHHhhcCCceeeeHHHHHHHHHhc----CHHHHHHHHHHHHHHHHHHHHHhcCCCCCccCcc
Confidence 34445678999999999999999999999999754 6688999999888754 33333 33455556664
No 54
>KOG1562|consensus
Probab=23.69 E-value=47 Score=32.34 Aligned_cols=74 Identities=23% Similarity=0.117 Sum_probs=45.4
Q ss_pred HHhcCCcccccchhHHHhhchhhhhhhcccCCCCcccccchhc-ccchhHHHHHHHHHHHHhCChhHHHHhhhcCCcccc
Q psy7090 167 LVTSSSMVGEALVPYYKQILPHLNMYKDLNKNTGDAIDYSQMK-RENIGDLVQETLQILERHGGEDACIYIKYMIPTYES 245 (253)
Q Consensus 167 Lv~~~~~VG~ALvPyyRqlLP~lnlfk~~n~n~gD~idy~q~~-~~~lgdlI~eTL~~LE~~GG~dA~inIKymIPTYeS 245 (253)
++.||+.||+|..-|.+..-.-++ +. --||++--.|.- -.=..+.|.|..+.--..+---|+.. ..||||.|
T Consensus 200 i~dssdpvgpa~~lf~~~~~~~v~---~a--Lk~dgv~~~q~ec~wl~~~~i~e~r~~~~~~f~~t~ya~--ttvPTyps 272 (337)
T KOG1562|consen 200 ITDSSDPVGPACALFQKPYFGLVL---DA--LKGDGVVCTQGECMWLHLDYIKEGRSFCYVIFDLTAYAI--TTVPTYPS 272 (337)
T ss_pred EEecCCccchHHHHHHHHHHHHHH---Hh--hCCCcEEEEecceehHHHHHHHHHHHhHHHhcCccceee--ecCCCCcc
Confidence 367899999998776664333332 11 125555544320 01236778887776666666555554 68999998
Q ss_pred ee
Q psy7090 246 CI 247 (253)
Q Consensus 246 c~ 247 (253)
-.
T Consensus 273 g~ 274 (337)
T KOG1562|consen 273 GR 274 (337)
T ss_pred ce
Confidence 54
No 55
>KOG0212|consensus
Probab=23.56 E-value=93 Score=32.81 Aligned_cols=96 Identities=23% Similarity=0.407 Sum_probs=66.2
Q ss_pred eeeeecC---CCCCCCcchhhhhcccc----ccccchHhHHHhhHHHHHHc---CCCccccccccchHHHHHhhcCCCHH
Q psy7090 86 ISWKEDI---KTLNYQYYLPIFFDGLR----ETEYPYKFFASKGIHDLLEN---GKDKIVPVLPHLILPIKNALSTRNPE 155 (253)
Q Consensus 86 L~Wkv~~---e~LDy~~yLPiFfdGLr----Et~~PY~FlA~~G~~dLL~~---~~~KilPvlPqLI~PiK~AL~trd~~ 155 (253)
+.|-.-+ ..+++--|||-|+|||- +..+--+-++..-..|.|.. .++-. =-++.|.-+-.-+.+.+++
T Consensus 188 v~Wl~~Lds~P~~~m~~yl~~~ldGLf~~LsD~s~eVr~~~~t~l~~fL~eI~s~P~s~--d~~~~i~vlv~~l~ss~~~ 265 (675)
T KOG0212|consen 188 VSWLYVLDSVPDLEMISYLPSLLDGLFNMLSDSSDEVRTLTDTLLSEFLAEIRSSPSSM--DYDDMINVLVPHLQSSEPE 265 (675)
T ss_pred HHHHHHHhcCCcHHHHhcchHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHhcCcccc--CcccchhhccccccCCcHH
Confidence 6787433 36777789999999974 44444555666677777753 11110 1233333444567899999
Q ss_pred HHHHHHHHHHHHHhcCCcccccchhHHHhhc
Q psy7090 156 VICETLKVLQHLVTSSSMVGEALVPYYKQIL 186 (253)
Q Consensus 156 V~~~~L~~Lq~Lv~~~~~VG~ALvPyyRqlL 186 (253)
+-..+|.-||..|..+ |.+++||+--+|
T Consensus 266 iq~~al~Wi~efV~i~---g~~~l~~~s~il 293 (675)
T KOG0212|consen 266 IQLKALTWIQEFVKIP---GRDLLLYLSGIL 293 (675)
T ss_pred HHHHHHHHHHHHhcCC---Ccchhhhhhhhh
Confidence 9999999999999665 999999997744
No 56
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=23.16 E-value=1.3e+02 Score=24.68 Aligned_cols=30 Identities=27% Similarity=0.408 Sum_probs=26.7
Q ss_pred hHHHHHhhcCCCHHHHHHHHHHHHHHHhcC
Q psy7090 142 ILPIKNALSTRNPEVICETLKVLQHLVTSS 171 (253)
Q Consensus 142 I~PiK~AL~trd~~V~~~~L~~Lq~Lv~~~ 171 (253)
+..||.=|+++|+.+...||.+|..+|.-.
T Consensus 39 ~r~l~krl~~~n~~v~l~AL~lLe~~vkNc 68 (133)
T smart00288 39 VRLLKKRLNNKNPHVALLALTLLDACVKNC 68 (133)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHC
Confidence 567899999999999999999999998753
No 57
>PF09324 DUF1981: Domain of unknown function (DUF1981); InterPro: IPR015403 This domain is functionally uncharacterised and found in various plant and yeast protein transport proteins. It is noramlly associated with and C-termianl to the SEC7 domain. The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ].
Probab=21.66 E-value=1.2e+02 Score=23.31 Aligned_cols=49 Identities=10% Similarity=0.177 Sum_probs=40.9
Q ss_pred HHHhhHHHHHHcCCCccccccccchHHHHHhhcCCCHHHHHHHHHHHHH
Q psy7090 118 FASKGIHDLLENGKDKIVPVLPHLILPIKNALSTRNPEVICETLKVLQH 166 (253)
Q Consensus 118 lA~~G~~dLL~~~~~KilPvlPqLI~PiK~AL~trd~~V~~~~L~~Lq~ 166 (253)
+..+.+..|++..+++|-.--+.+..-|+.|.+..+.+++..|.+.++.
T Consensus 37 ~il~ci~qil~~~~~~i~SGW~~if~il~~aa~~~~e~lv~~af~~~~~ 85 (86)
T PF09324_consen 37 LILECILQILQSRGENIKSGWKVIFSILRAAAKDNDESLVRLAFQIVQL 85 (86)
T ss_pred HHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHhCCCccHHHHHHHHHhh
Confidence 4456677777777788888889999999999999999999999888764
No 58
>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei
Probab=20.98 E-value=26 Score=28.00 Aligned_cols=14 Identities=43% Similarity=0.738 Sum_probs=13.3
Q ss_pred chhhhhcccccccc
Q psy7090 100 YLPIFFDGLRETEY 113 (253)
Q Consensus 100 yLPiFfdGLrEt~~ 113 (253)
|.|.|.++||||+|
T Consensus 68 aF~~Fl~aLreT~~ 81 (88)
T cd08819 68 WFSKFLQALRETEH 81 (88)
T ss_pred HHHHHHHHHHHcCc
Confidence 99999999999987
Done!