Query 041109
Match_columns 467
No_of_seqs 150 out of 300
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 03:53:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041109.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041109hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2085 Serine/threonine prote 100.0 2E-141 5E-146 1068.6 36.1 405 42-450 47-454 (457)
2 PF01603 B56: Protein phosphat 100.0 5E-119 1E-123 939.7 30.6 404 41-449 3-409 (409)
3 PLN00122 serine/threonine prot 100.0 1.6E-34 3.4E-39 267.3 14.3 132 287-451 35-166 (170)
4 PF01602 Adaptin_N: Adaptin N 93.4 1.8 3.9E-05 46.5 14.5 176 174-362 340-520 (526)
5 PF05918 API5: Apoptosis inhib 87.6 12 0.00026 41.6 14.2 89 273-361 240-340 (556)
6 PF12348 CLASP_N: CLASP N term 85.1 17 0.00036 34.7 12.4 104 307-413 19-126 (228)
7 PF14500 MMS19_N: Dos2-interac 83.7 13 0.00028 37.3 11.3 165 178-350 4-203 (262)
8 PF01602 Adaptin_N: Adaptin N 81.4 81 0.0017 33.8 19.3 222 171-413 265-486 (526)
9 PF12460 MMS19_C: RNAPII trans 80.9 81 0.0018 33.5 22.7 228 146-381 163-411 (415)
10 PF04388 Hamartin: Hamartin pr 80.3 57 0.0012 37.2 16.0 158 174-395 5-165 (668)
11 KOG1060 Vesicle coat complex A 79.1 45 0.00097 38.6 14.2 147 259-424 324-472 (968)
12 PLN00122 serine/threonine prot 78.1 8.1 0.00017 36.5 7.1 29 30-58 38-67 (170)
13 PF08767 CRM1_C: CRM1 C termin 74.2 1.1E+02 0.0024 31.5 18.2 114 268-413 108-228 (319)
14 KOG2137 Protein kinase [Signal 67.8 1.3E+02 0.0029 34.4 14.5 108 293-409 350-457 (700)
15 KOG1992 Nuclear export recepto 66.0 1.4E+02 0.003 34.9 14.2 309 96-411 443-838 (960)
16 PF12348 CLASP_N: CLASP N term 64.1 1.3E+02 0.0029 28.4 15.5 176 183-361 17-201 (228)
17 PF12726 SEN1_N: SEN1 N termin 63.0 41 0.00089 38.5 9.9 100 149-250 496-610 (727)
18 PF10508 Proteasom_PSMB: Prote 60.7 1.1E+02 0.0024 33.4 12.3 131 312-450 94-232 (503)
19 KOG0213 Splicing factor 3b, su 58.1 3.7E+02 0.0079 31.5 16.3 269 140-420 596-904 (1172)
20 cd07920 Pumilio Pumilio-family 56.0 2.2E+02 0.0048 28.4 15.4 69 290-360 142-211 (322)
21 PF01417 ENTH: ENTH domain; I 51.4 53 0.0011 28.8 6.6 90 320-410 25-121 (125)
22 COG5656 SXM1 Importin, protein 49.7 4.9E+02 0.011 30.5 16.7 91 179-273 380-476 (970)
23 PF08389 Xpo1: Exportin 1-like 48.9 69 0.0015 27.8 7.0 102 292-409 8-114 (148)
24 smart00582 RPR domain present 48.5 22 0.00047 30.7 3.6 81 284-364 21-108 (121)
25 KOG1241 Karyopherin (importin) 42.3 2.4E+02 0.0052 32.8 11.2 106 335-450 257-387 (859)
26 cd03562 CID CID (CTD-Interacti 40.5 84 0.0018 26.8 6.0 86 279-364 21-109 (114)
27 PF12717 Cnd1: non-SMC mitotic 39.6 2.6E+02 0.0057 25.9 9.7 87 331-423 19-106 (178)
28 PF12783 Sec7_N: Guanine nucle 39.5 3E+02 0.0064 25.1 11.1 112 308-423 35-158 (168)
29 PF12783 Sec7_N: Guanine nucle 39.5 1.1E+02 0.0024 27.9 7.1 82 209-292 68-150 (168)
30 cd03572 ENTH_epsin_related ENT 38.0 1.7E+02 0.0038 26.1 7.7 89 315-411 21-120 (122)
31 COG5215 KAP95 Karyopherin (imp 37.9 2.5E+02 0.0054 31.8 10.2 107 334-450 260-389 (858)
32 cd03567 VHS_GGA VHS domain fam 37.4 2.8E+02 0.0061 25.1 9.1 77 285-361 28-111 (139)
33 cd03571 ENTH_epsin ENTH domain 37.4 2.5E+02 0.0055 24.9 8.7 85 319-410 22-118 (123)
34 PF12755 Vac14_Fab1_bd: Vacuol 37.3 2.6E+02 0.0056 23.7 8.5 76 331-409 21-96 (97)
35 PF12719 Cnd3: Nuclear condens 36.3 3E+02 0.0064 27.7 10.2 176 236-413 4-210 (298)
36 COG5218 YCG1 Chromosome conden 35.3 3.5E+02 0.0076 30.8 10.8 120 270-412 39-163 (885)
37 KOG1824 TATA-binding protein-i 34.1 6.4E+02 0.014 30.4 13.0 131 307-439 490-632 (1233)
38 PF07539 DRIM: Down-regulated 33.5 2.2E+02 0.0048 25.9 7.9 20 187-206 83-103 (141)
39 KOG1991 Nuclear transport rece 33.3 9.3E+02 0.02 29.0 20.0 212 144-364 409-669 (1010)
40 cd08324 CARD_NOD1_CARD4 Caspas 32.6 41 0.00089 28.2 2.6 39 173-211 46-84 (85)
41 KOG1967 DNA repair/transcripti 32.0 4.7E+02 0.01 31.2 11.5 111 296-410 868-982 (1030)
42 PF08167 RIX1: rRNA processing 31.9 1.8E+02 0.004 26.7 7.2 80 172-251 66-150 (165)
43 KOG4553 Uncharacterized conser 31.1 1E+03 0.022 29.1 14.0 167 96-288 327-528 (1398)
44 cd03561 VHS VHS domain family; 28.7 4.1E+02 0.0089 23.4 9.3 78 284-361 26-107 (133)
45 cd00020 ARM Armadillo/beta-cat 28.5 3.2E+02 0.0069 22.1 7.7 65 337-408 49-118 (120)
46 cd00020 ARM Armadillo/beta-cat 27.9 2E+02 0.0044 23.3 6.3 71 174-245 8-79 (120)
47 PF02847 MA3: MA3 domain; Int 27.6 3.6E+02 0.0079 22.5 8.5 50 170-219 33-82 (113)
48 KOG1991 Nuclear transport rece 27.4 1.2E+03 0.025 28.2 19.6 150 250-420 341-504 (1010)
49 KOG1243 Protein kinase [Genera 26.9 4.2E+02 0.0092 30.4 10.0 176 169-359 183-391 (690)
50 PF09059 TyeA: TyeA; InterPro 26.2 84 0.0018 26.5 3.4 47 287-333 16-62 (87)
51 KOG0166 Karyopherin (importin) 26.0 9.5E+02 0.021 26.8 15.3 56 158-213 137-192 (514)
52 PF02985 HEAT: HEAT repeat; I 26.0 1.4E+02 0.003 19.5 3.9 28 175-202 2-29 (31)
53 COG5593 Nucleic-acid-binding p 25.8 4.4E+02 0.0096 29.6 9.5 110 234-366 306-421 (821)
54 PLN03200 cellulose synthase-in 25.7 1.7E+03 0.036 29.5 17.7 75 170-245 485-560 (2102)
55 KOG2274 Predicted importin 9 [ 25.2 1.2E+03 0.027 27.8 19.0 214 173-454 4-241 (1005)
56 PF12290 DUF3802: Protein of u 25.2 2.1E+02 0.0045 25.4 5.7 53 273-325 38-105 (113)
57 cd03568 VHS_STAM VHS domain fa 24.8 5.3E+02 0.011 23.4 9.1 78 285-362 27-106 (144)
58 PF06757 Ins_allergen_rp: Inse 24.8 4.6E+02 0.01 24.4 8.6 57 314-372 102-164 (179)
59 PF04499 SAPS: SIT4 phosphatas 24.5 3E+02 0.0066 30.1 8.3 97 149-245 34-149 (475)
60 PF12333 Ipi1_N: Rix1 complex 24.3 1.9E+02 0.0041 24.6 5.4 38 377-415 8-45 (102)
61 PF08578 DUF1765: Protein of u 24.3 4.9E+02 0.011 22.9 8.5 102 299-404 8-120 (126)
62 PF03378 CAS_CSE1: CAS/CSE pro 23.9 9.4E+02 0.02 26.0 18.3 243 172-422 25-297 (435)
63 cd07920 Pumilio Pumilio-family 22.0 7.6E+02 0.016 24.5 10.2 17 42-58 28-44 (322)
64 PF04388 Hamartin: Hamartin pr 21.2 9.6E+02 0.021 27.5 11.7 106 295-420 39-150 (668)
65 KOG2956 CLIP-associating prote 20.9 1.2E+03 0.025 25.9 15.2 79 280-361 394-472 (516)
66 smart00324 RhoGAP GTPase-activ 20.2 6.4E+02 0.014 22.7 9.1 88 148-243 57-146 (174)
No 1
>KOG2085 consensus Serine/threonine protein phosphatase 2A, regulatory subunit [Signal transduction mechanisms]
Probab=100.00 E-value=2.3e-141 Score=1068.64 Aligned_cols=405 Identities=44% Similarity=0.833 Sum_probs=399.7
Q ss_pred CCCCCChhHHHHHHH-HHhccCccccccCCCCCchhHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHhhcCCCCC
Q 041109 42 GLQSPYDSEKEEILS-AISICNTIFTFTDPSESPEQQDLKRFKLLQLLSITKSPKKQLDDYILSHLISMISANLFRPLPP 120 (467)
Q Consensus 42 ~~~~~~~~~~~~l~~-Kl~~C~~ifDF~d~~~d~~~Ke~K~~~L~el~~~v~~~~~~l~e~i~~~i~~Mi~~NiFR~lPp 120 (467)
+..|+|.+|+++||. |+++||++|||+||..|.++|++||+||.|++||+.++++++|+.+|+++++|+++||||++||
T Consensus 47 ~~~dv~~se~~~Lf~~Kl~~Cc~~FDF~Dp~~~~~~keikR~tL~eLvd~v~~~~~kite~~~~~vv~m~s~nifR~lpp 126 (457)
T KOG2085|consen 47 SLKDVPSSEQKELFIKKLEQCCVLFDFNDPLKDLKGKEIKRQTLLELVDDVISRRGKISEEVYSEVVKMFSVNIFRTLPP 126 (457)
T ss_pred ccCcCChhHhHHHHHHHHHhhheeeeccChhhhhccchhHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHhhccCCc
Confidence 779999999999887 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCcccccCCCCCCCcchHHHHHHHHHHHhc--CCchhhhhcCCHHHHHHHHHhcCCCChHHHHHHHHHHH
Q 041109 121 PISTPITGDLPEDEELFSSPQPLWPHLQIVYDILLRLVLH--VDPKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYH 198 (467)
Q Consensus 121 ~~~~~~~~~~~~edep~~~~e~sWpHLqlVY~ill~fi~s--~d~~~~k~~id~~Fi~~Ll~lf~S~DprER~~LktiLh 198 (467)
+.++++ +|+|||||+ +|++|||||+||++|+||++| .|++.||+|||++||.+|+++||||||||||+|||+||
T Consensus 127 ~~n~~~--~d~eedEp~--le~awphLqlvye~~Lrf~~sp~~d~~vaK~yid~~FvlkLLdLFdSEDpRERe~LKT~Lh 202 (457)
T KOG2085|consen 127 SVNPTG--FDYEEDEPV--LEPAWPHLQLVYEFLLRFLESPDFDPSVAKKYIDQKFVLKLLDLFDSEDPREREFLKTILH 202 (457)
T ss_pred ccCCCc--CCccccCcc--cCCCchHHHHHHHHHHHHHhCcccCHHHHHHHhhHHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence 999877 788999999 999999999999999999999 66999999999999999999999999999999999999
Q ss_pred HHhhhhccchHHHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHhhhccCCcchhhhHHHH
Q 041109 199 RIYAKFTFYRSFMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQL 278 (467)
Q Consensus 199 rIY~kf~~~R~~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PLKeeh~~fl~~vLlPLhk~~~~~~y~~qL 278 (467)
||||||+++|+|||++|||+|++||||+++|+||+|||||+||||||||+||||||+.|+.|||||||++++++.||+||
T Consensus 203 rIygKfl~~r~firk~iNNif~~FIyEte~hnGIaELLEIlgSiIngfAlPlKEEhkiFL~rvLipLhk~k~l~~yh~QL 282 (457)
T KOG2085|consen 203 RIYGKFLVHRPFIRKSINNIFLRFIYETERHNGIAELLEILGSIINGFALPLKEEHKLFLVRVLIPLHKPKSLSLYHKQL 282 (457)
T ss_pred HHHHHHhhhHHHHHHhhcchhhhhcccccccCCHHHHHHHHHHhcCcccCcchhHHHHHHHHhhhccccCCCcccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHH
Q 041109 279 AYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERAL 358 (467)
Q Consensus 279 ~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL 358 (467)
+|||+||++|||+|++.||+||+||||+|||+||||||+||||||+.++|.+|+++++|||++||+|++|+|||||||||
T Consensus 283 aYcivQfveKd~kl~~~VIrglLK~WP~tnS~KEVmFL~ElEEILe~iep~eFqk~~~PLf~qia~c~sS~HFQVAEraL 362 (457)
T KOG2085|consen 283 AYCIVQFVEKDPKLTETVIRGLLKYWPKTNSSKEVMFLNELEEILEVIEPSEFQKIMVPLFRQIARCVSSPHFQVAERAL 362 (457)
T ss_pred ceeeeeeeccCccccHHHHHHHHHhcCCCCCcceeeeHhhHHHHHHhcCHHHHHHHhHHHHHHHHHHcCChhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041109 359 YVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKRK 438 (467)
Q Consensus 359 ~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~~~~~~~~~~~~~~~r~ 438 (467)
++|||++|+++|++|.++|+|+|||+||+++++|||++|+++++||++++||||++||++|++.|++++.+++..+++|+
T Consensus 363 ~~wnNe~i~~Li~~n~~~ilPiiFpaLyr~sk~hWN~~i~~l~~nvlk~f~emd~~LFeec~~~y~~~~~k~~~~~~~re 442 (457)
T KOG2085|consen 363 YLWNNEYIRSLISQNAEVILPIVFPALYRNSKSHWNQAIHNLILNVLKTFMEMDPKLFEECLALYKEDRWKEKETEEKRE 442 (457)
T ss_pred HHHhhHHHHHHHHhccceeeehhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 041109 439 EKWRRIETLAAA 450 (467)
Q Consensus 439 ~~W~~i~~~A~~ 450 (467)
+.|++||++|+.
T Consensus 443 ~~W~~le~~~~~ 454 (457)
T KOG2085|consen 443 ETWKRLEELAAE 454 (457)
T ss_pred HHHHHHHHHHhh
Confidence 999999999965
No 2
>PF01603 B56: Protein phosphatase 2A regulatory B subunit (B56 family); InterPro: IPR002554 Protein phosphatase 2A (PP2A) is a major intracellular protein phosphatase that regulates multiple aspects of cell growth and metabolism. The ability of this widely distributed heterotrimeric enzyme to act on a diverse array of substrates is largely controlled by the nature of its regulatory B subunit. There are multiple families of B subunits, this family is called the B56 family [].; GO: 0008601 protein phosphatase type 2A regulator activity, 0007165 signal transduction, 0000159 protein phosphatase type 2A complex; PDB: 2NYM_B 2NYL_B 2IAE_E 2NPP_B 3FGA_B 2JAK_A.
Probab=100.00 E-value=5.1e-119 Score=939.69 Aligned_cols=404 Identities=45% Similarity=0.836 Sum_probs=356.7
Q ss_pred CCCCCCChhHHHHHHH-HHhccCccccccCCCCCchhHHHHHHHHHHHHHhhcCCC--CCCCHHHHHHHHHHHHHhhcCC
Q 041109 41 NGLQSPYDSEKEEILS-AISICNTIFTFTDPSESPEQQDLKRFKLLQLLSITKSPK--KQLDDYILSHLISMISANLFRP 117 (467)
Q Consensus 41 ~~~~~~~~~~~~~l~~-Kl~~C~~ifDF~d~~~d~~~Ke~K~~~L~el~~~v~~~~--~~l~e~i~~~i~~Mi~~NiFR~ 117 (467)
|.++++|+++++.||. ||++||++|||+||.+|.++|++||+||+||++|+++++ +.++|++++++++||++|||||
T Consensus 3 P~l~dv~~~e~~~lf~~Kl~~C~~ifDF~d~~~d~~~Ke~K~~~L~el~~~v~~~~~~~~l~e~~~~~i~~Mi~~NifR~ 82 (409)
T PF01603_consen 3 PSLPDVPPPERQELFLKKLQQCCVIFDFSDPSSDLKEKEIKRQTLNELVDYVSNSRIQGILTEPVYPEIFNMISANIFRP 82 (409)
T ss_dssp ----SS-SSSCSCHTTHHHHHHHHHSTTSSSSSSHHHHHSHHHHHHHHHHHHCSSS--SSS-TTSHHHHHHHHHHHH-S-
T ss_pred CCCCCCCcHHHHHHHHHHHHHhCCEeeCCCCccchHHHHHHHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhccCC
Confidence 3568999999998886 999999999999999999999999999999999999998 8999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCcccccCCCCCCCcchHHHHHHHHHHHhcCCchhhhhcCCHHHHHHHHHhcCCCChHHHHHHHHHH
Q 041109 118 LPPPISTPITGDLPEDEELFSSPQPLWPHLQIVYDILLRLVLHVDPKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIY 197 (467)
Q Consensus 118 lPp~~~~~~~~~~~~edep~~~~e~sWpHLqlVY~ill~fi~s~d~~~~k~~id~~Fi~~Ll~lf~S~DprER~~LktiL 197 (467)
+||.+++. .++|||+++ .|++|||||+||++|++|+++++...+++|||++|+.+|+++|+|||||||++|+++|
T Consensus 83 lP~~~~~~---~~~~~d~~~--~e~~WpHL~~vY~il~~~i~~~~~~~~~~~i~~~fi~~Ll~l~~S~D~rER~~lk~~l 157 (409)
T PF01603_consen 83 LPPIPNPS---FDPDDDEPF--LEPSWPHLQLVYEILLRFIESPPFDPAKKYIDQKFIKKLLELFDSPDPRERDYLKTIL 157 (409)
T ss_dssp ----SS-----S-GGG--------TTHHHHHHHHHHHHHHHTSTT--CCTTTS-HHHHHHHHHTTTSSTHHHHHHHHHHH
T ss_pred CCCccccc---CCccccccc--cccccHhHHHHHHHHHHHHHCccccHHHHHcCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence 99998874 567889998 9999999999999999999996544499999999999999999999999999999999
Q ss_pred HHHhhhhccchHHHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHhhhccCCcchhhhHHH
Q 041109 198 HRIYAKFTFYRSFMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQ 277 (467)
Q Consensus 198 hrIY~kf~~~R~~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PLKeeh~~fl~~vLlPLhk~~~~~~y~~q 277 (467)
||||+||+++|++||++|+++|++|+||+++|+||+|||||+|||||||++|||+||+.|+.+||+|||++++++.||+|
T Consensus 158 ~~iy~k~~~~r~~Ir~~i~~~~~~fi~e~~~~~gI~elLeil~sii~gf~~plk~eh~~fl~~vllPLh~~~~~~~y~~~ 237 (409)
T PF01603_consen 158 HRIYGKFPNLRSFIRKSINNIFYRFIYETERHNGIAELLEILGSIINGFAVPLKEEHKQFLRKVLLPLHKSPHLSSYHQQ 237 (409)
T ss_dssp HHHHHH-TTTHHHHHHHHHHHHHHHHHTTS--STHHHHHHHHHHHHTT--SS--HHHHHHHHHTTGGGGGSTGGGGTHHH
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHHHhcCcccccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHhcCCcHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHH
Q 041109 278 LAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERA 357 (467)
Q Consensus 278 L~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErA 357 (467)
|+||+++|++|||+|+..+++||+||||+||++|||+||+|+++|++.+++++|.+++.++|++||+|++|+|+||||||
T Consensus 238 L~~~~~~f~~kdp~l~~~~i~~llk~WP~t~s~Kev~FL~el~~il~~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErA 317 (409)
T PF01603_consen 238 LSYCVVQFLEKDPSLAEPVIKGLLKHWPKTNSQKEVLFLNELEEILEVLPPEEFQKIMVPLFKRLAKCISSPHFQVAERA 317 (409)
T ss_dssp HHHHHHHHHHH-GGGHHHHHHHHHHHS-SS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHTSSSHHHHHHH
T ss_pred HHHHHHHHHHhCchhHHHHHHHHHHhCCCCCchhHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041109 358 LYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKR 437 (467)
Q Consensus 358 L~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~~~~~~~~~~~~~~~r 437 (467)
|++|+|+++++++++|++.++|+++|+|++++++|||++||++|.+|+++|++|||++|++|+++++++++++++++++|
T Consensus 318 l~~w~n~~~~~li~~~~~~i~p~i~~~L~~~~~~HWn~~Vr~~a~~vl~~l~~~d~~lf~~~~~~~~~~~~~~~~~~~~r 397 (409)
T PF01603_consen 318 LYFWNNEYFLSLISQNSRVILPIIFPALYRNSKNHWNQTVRNLAQNVLKILMEMDPKLFDKCAQKYKEKEQKEKAREKKR 397 (409)
T ss_dssp HGGGGSHHHHHHHHCTHHHHHHHHHHHHSSTTSS-SSTTHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHSSHHH
T ss_pred HHHHCCHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 041109 438 KEKWRRIETLAA 449 (467)
Q Consensus 438 ~~~W~~i~~~A~ 449 (467)
+++|++|+++|+
T Consensus 398 ~~~W~~i~~~A~ 409 (409)
T PF01603_consen 398 KKKWKKIEEAAK 409 (409)
T ss_dssp HHHHTT-S----
T ss_pred HHHHHHHHHhhC
Confidence 999999999984
No 3
>PLN00122 serine/threonine protein phosphatase 2A; Provisional
Probab=100.00 E-value=1.6e-34 Score=267.26 Aligned_cols=132 Identities=37% Similarity=0.652 Sum_probs=128.4
Q ss_pred hcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhH
Q 041109 287 QKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQF 366 (467)
Q Consensus 287 ~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~ 366 (467)
...+.++...+++|.+|||++++.||.+||++| ||||||++|+|++|
T Consensus 35 ~~~~~~~~~~~e~l~~~~~v~~s~k~~lfl~kl---------------------------------VAERAL~lWnNe~i 81 (170)
T PLN00122 35 AVNPASVVAGYEPLPSFRDVPNSEKQNLFVRKL---------------------------------VAERALFLWNNDHI 81 (170)
T ss_pred ccCCCccccccccccCCCCCCchHHHHHHHHHH---------------------------------HHHHHHHHHccHHH
Confidence 467889999999999999999999999999999 99999999999999
Q ss_pred HHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041109 367 VRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKRKEKWRRIET 446 (467)
Q Consensus 367 ~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~~~~~~~~~~~~~~~r~~~W~~i~~ 446 (467)
+++|.+|+++|+|+|||+|++++++|||++|++++++|+++||||||++|++|+++|+++++++++.+++|+++|++|++
T Consensus 82 ~~LI~~N~~~IlPIifpaL~~ns~~HWN~~V~~lt~nvlK~f~emD~~LF~ec~~~~ke~~~~~~~~~~~r~~~W~~le~ 161 (170)
T PLN00122 82 VNLIAQNRQVILPIIFPALEKNTRGHWNQAVHGLTLNVRKMFSEMDPELFEECLRKFEEDEAKAKEVEEKREATWKRLEE 161 (170)
T ss_pred HHHHHHhhhhhHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHh
Q 041109 447 LAAAK 451 (467)
Q Consensus 447 ~A~~~ 451 (467)
+|+++
T Consensus 162 ~A~~~ 166 (170)
T PLN00122 162 AAAAK 166 (170)
T ss_pred HHHhc
Confidence 99763
No 4
>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=93.37 E-value=1.8 Score=46.50 Aligned_cols=176 Identities=12% Similarity=0.137 Sum_probs=117.7
Q ss_pred HHHHHHHhc-CCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhccCCCchH
Q 041109 174 FLTNLLSLF-QSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIINGFTVPLKE 252 (467)
Q Consensus 174 Fi~~Ll~lf-~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PLKe 252 (467)
.+..|+.-+ +..|+.=|..+-..+..+-.++...-.|....+-+++.. .. ..-..|+...+..++.+. ..++
T Consensus 340 Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~----~~-~~~~~~~~~~i~~ll~~~-~~~~- 412 (526)
T PF01602_consen 340 ILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEI----SG-DYVSNEIINVIRDLLSNN-PELR- 412 (526)
T ss_dssp HHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHC----TG-GGCHCHHHHHHHHHHHHS-TTTH-
T ss_pred HHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhh----cc-ccccchHHHHHHHHhhcC-hhhh-
Confidence 344455555 555666666666666666667766655555555444432 22 233566666666776663 2222
Q ss_pred HHHHHHHHHhhhccCCcchhhhHHHHHHHHHHHHhcCCC--cHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHH
Q 041109 253 EHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPA--LGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQ 330 (467)
Q Consensus 253 eh~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp~--L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~ 330 (467)
......++-+.........-.-..+|+..|.+..+. .+..+++.+...|...+..-+...|..+..+....+.++
T Consensus 413 ---~~~l~~L~~~l~~~~~~~~~~~~~wilGEy~~~~~~~~~~~~~~~~l~~~~~~~~~~vk~~ilt~~~Kl~~~~~~~~ 489 (526)
T PF01602_consen 413 ---EKILKKLIELLEDISSPEALAAAIWILGEYGELIENTESAPDILRSLIENFIEESPEVKLQILTALAKLFKRNPENE 489 (526)
T ss_dssp ---HHHHHHHHHHHTSSSSHHHHHHHHHHHHHHCHHHTTTTHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHSCSTT
T ss_pred ---HHHHHHHHHHHHHhhHHHHHHHHHhhhcccCCcccccccHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhhCCchh
Confidence 222334444444455555678899999999988887 899999999999999888888899999999987776544
Q ss_pred HHHHHHHHHHHHhHhhC--CCCHHHHHHHHHhhc
Q 041109 331 YRRLALPLCTKITKCLN--SCNSEVAERALYVWN 362 (467)
Q Consensus 331 f~~i~~~lf~~la~ci~--S~h~qVAErAL~~w~ 362 (467)
..+ .+...+..+.. |.++.|-+||..+|.
T Consensus 490 ~~~---~i~~~~~~~~~~~s~~~evr~Ra~~y~~ 520 (526)
T PF01602_consen 490 VQN---EILQFLLSLATEDSSDPEVRDRAREYLR 520 (526)
T ss_dssp HHH---HHHHHHHCHHHHS-SSHHHHHHHHHHHH
T ss_pred hHH---HHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence 433 55666667777 999999999999884
No 5
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=87.57 E-value=12 Score=41.60 Aligned_cols=89 Identities=17% Similarity=0.198 Sum_probs=52.8
Q ss_pred hhHHHHHHHHHH---HHhcCCCcHH---HHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhh
Q 041109 273 AYHRQLAYCVSQ---FVQKEPALGG---LVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCL 346 (467)
Q Consensus 273 ~y~~qL~~cv~q---f~~kdp~L~~---~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci 346 (467)
..-..+.+|+.+ |+++....+. .+.+.++-.|-......++-+|..+.++...+.+.+...++..+|..|-..+
T Consensus 240 e~Idrli~C~~~Alp~fs~~v~Sskfv~y~~~kvlP~l~~l~e~~kl~lLk~lAE~s~~~~~~d~~~~L~~i~~~L~~ym 319 (556)
T PF05918_consen 240 ESIDRLISCLRQALPFFSRGVSSSKFVNYMCEKVLPKLSDLPEDRKLDLLKLLAELSPFCGAQDARQLLPSIFQLLKKYM 319 (556)
T ss_dssp HHHHHHHHHHHHHGGG-BTTB--HHHHHHHHHHTCCCTT-----HHHHHHHHHHHHHTT----THHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHhhHHhcCCCChHHHHHHHHHHhcCChhhCChHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHHHhC
Confidence 344578888888 6666665444 3444444445555568899999999999999987778888899999986554
Q ss_pred C------CCCHHHHHHHHHhh
Q 041109 347 N------SCNSEVAERALYVW 361 (467)
Q Consensus 347 ~------S~h~qVAErAL~~w 361 (467)
= +.+|-..|..|+.+
T Consensus 320 P~~~~~~~l~fs~vEcLL~af 340 (556)
T PF05918_consen 320 PSKKTEPKLQFSYVECLLYAF 340 (556)
T ss_dssp ----------HHHHHHHHHHH
T ss_pred CCCCCCCcccchHhhHHHHHH
Confidence 3 34666777766543
No 6
>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=85.07 E-value=17 Score=34.69 Aligned_cols=104 Identities=17% Similarity=0.208 Sum_probs=65.4
Q ss_pred CCchhHhHHHHHHHHHhhcC----ChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhhh
Q 041109 307 TNCRKEVLLIGELEELVDSI----DPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIV 382 (467)
Q Consensus 307 tns~KevlFL~el~~ile~~----~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~ 382 (467)
.+=.+.+--|..+..++..- ....|......+...|+.+++|.+.+|+-.|+.++. .+.......-+..++.++
T Consensus 19 ~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~--~l~~~l~~~~~~~~~~~l 96 (228)
T PF12348_consen 19 SDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLS--DLARQLGSHFEPYADILL 96 (228)
T ss_dssp SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHH--HHHHHHGGGGHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHH--HHHHHHhHhHHHHHHHHH
Confidence 44456667778888887654 234455555566679999999999999999998884 334444455555677788
Q ss_pred HHHHHHhhccccHHHHHHHHHHHHHHHhcCH
Q 041109 383 EGMEKNLKLHWSKSVKQLTENVKVMLEQMDP 413 (467)
Q Consensus 383 ~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~ 413 (467)
|.|.+..... ++.|+..|.+++..+.+.-+
T Consensus 97 ~~Ll~~~~~~-~~~i~~~a~~~L~~i~~~~~ 126 (228)
T PF12348_consen 97 PPLLKKLGDS-KKFIREAANNALDAIIESCS 126 (228)
T ss_dssp HHHHHGGG----HHHHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHccc-cHHHHHHHHHHHHHHHHHCC
Confidence 8887654433 78999999999999888766
No 7
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=83.66 E-value=13 Score=37.27 Aligned_cols=165 Identities=16% Similarity=0.248 Sum_probs=86.5
Q ss_pred HHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhhhcc-CCccChHHHHHHHHHHHhccCCCch-----
Q 041109 178 LLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNFET-EKHCGIGELLEIWGSIINGFTVPLK----- 251 (467)
Q Consensus 178 Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi~e~-~~~~GI~ELLeil~sIIngfa~PLK----- 251 (467)
|=+-+-|+|+..|..--.+|..+-.+.... .+.+.-.+.+.+|.-+. +++.++.+.|.-+..+++--..+-.
T Consensus 4 Lg~~Ltsed~~~R~ka~~~Ls~vL~~lp~~--~L~~~ev~~L~~F~~~rl~D~~~~~~~l~gl~~L~~~~~~~~~~~~~i 81 (262)
T PF14500_consen 4 LGEYLTSEDPIIRAKALELLSEVLERLPPD--FLSRQEVQVLLDFFCSRLDDHACVQPALKGLLALVKMKNFSPESAVKI 81 (262)
T ss_pred hhhhhCCCCHHHHHHHHHHHHHHHHhCCHh--hccHHHHHHHHHHHHHHhccHhhHHHHHHHHHHHHhCcCCChhhHHHH
Confidence 334566788888887777776666655422 12222234444444333 6677777777766666632221111
Q ss_pred --------------HHHHHHHHHHhhhccCCc--chhhhHHHHHHHHHHHH--hcCCC---cHHHHHHHhhccCCCCCch
Q 041109 252 --------------EEHKLFLIRVLIPLHKSK--GMQAYHRQLAYCVSQFV--QKEPA---LGGLVARGILKYWPVTNCR 310 (467)
Q Consensus 252 --------------eeh~~fl~~vLlPLhk~~--~~~~y~~qL~~cv~qf~--~kdp~---L~~~vi~~llk~WP~tns~ 310 (467)
+..+....+++.=|.... .+....+.+.+.+.+.+ ||||. ++..+++.+++.||.
T Consensus 82 ~~~l~~~~~~q~~~q~~R~~~~~ll~~l~~~~~~~l~~~~~~fv~~~i~~~~gEkDPRnLl~~F~l~~~i~~~~~~---- 157 (262)
T PF14500_consen 82 LRSLFQNVDVQSLPQSTRYAVYQLLDSLLENHREALQSMGDDFVYGFIQLIDGEKDPRNLLLSFKLLKVILQEFDI---- 157 (262)
T ss_pred HHHHHHhCChhhhhHHHHHHHHHHHHHHHHHhHHHHHhchhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhccc----
Confidence 111111122222222111 11223345566666666 69998 567888999999993
Q ss_pred hHhHHHHHHHHHhhcCChHHHH--------HHHHHHHHHHhHhhCCCC
Q 041109 311 KEVLLIGELEELVDSIDPAQYR--------RLALPLCTKITKCLNSCN 350 (467)
Q Consensus 311 KevlFL~el~~ile~~~~~~f~--------~i~~~lf~~la~ci~S~h 350 (467)
--|.+++-+++..-=|..|. =....|=..+..|+.|.+
T Consensus 158 --~~~~e~lFd~~~cYFPI~F~pp~~dp~~IT~edLk~~L~~cl~s~~ 203 (262)
T PF14500_consen 158 --SEFAEDLFDVFSCYFPITFRPPPNDPYGITREDLKRALRNCLSSTP 203 (262)
T ss_pred --chhHHHHHHHhhheeeeeeeCCCCCCCCCCHHHHHHHHHHHhcCcH
Confidence 33455555555421122222 233456777888887654
No 8
>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=81.44 E-value=81 Score=33.78 Aligned_cols=222 Identities=14% Similarity=0.147 Sum_probs=121.2
Q ss_pred CHHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhccCCCc
Q 041109 171 DHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIINGFTVPL 250 (467)
Q Consensus 171 d~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PL 250 (467)
-...+..|+.++.|.|++=|-..-..|+.|-... .+.+...-... .++...++..--...|+++..+.+-
T Consensus 265 ~~~~~~~L~~lL~s~~~nvr~~~L~~L~~l~~~~---~~~v~~~~~~~--~~l~~~~d~~Ir~~~l~lL~~l~~~----- 334 (526)
T PF01602_consen 265 LQKAINPLIKLLSSSDPNVRYIALDSLSQLAQSN---PPAVFNQSLIL--FFLLYDDDPSIRKKALDLLYKLANE----- 334 (526)
T ss_dssp HHHHHHHHHHHHTSSSHHHHHHHHHHHHHHCCHC---HHHHGTHHHHH--HHHHCSSSHHHHHHHHHHHHHH--H-----
T ss_pred HHhhHHHHHHHhhcccchhehhHHHHHHHhhccc---chhhhhhhhhh--heecCCCChhHHHHHHHHHhhcccc-----
Confidence 3467888999999999998888777777775554 23333111111 1222222333334457777776653
Q ss_pred hHHHHHHHHHHhhhccCCcchhhhHHHHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHH
Q 041109 251 KEEHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQ 330 (467)
Q Consensus 251 Keeh~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~ 330 (467)
+...-....|+.-.+...-..|...+...+...+++.+.-..++++.+++.=-.++..-..-.+..+..++... ++.
T Consensus 335 --~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~~~~~~~~~~~~i~~ll~~~-~~~ 411 (526)
T PF01602_consen 335 --SNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEISGDYVSNEIINVIRDLLSNN-PEL 411 (526)
T ss_dssp --HHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCTGGGCHCHHHHHHHHHHHHS-TTT
T ss_pred --cchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhccccccchHHHHHHHHhhcC-hhh
Confidence 22233344444444333344588899999999999999999999988888777655555555566677776553 333
Q ss_pred HHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHh
Q 041109 331 YRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQ 410 (467)
Q Consensus 331 f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e 410 (467)
...+...+++.+.. + .+.. + ++..+|-=-.+.+.+.. .+ ..+.++..+...... =+..|+..+.+++--+..
T Consensus 412 ~~~~l~~L~~~l~~-~--~~~~-~-~~~~~wilGEy~~~~~~-~~-~~~~~~~~l~~~~~~-~~~~vk~~ilt~~~Kl~~ 483 (526)
T PF01602_consen 412 REKILKKLIELLED-I--SSPE-A-LAAAIWILGEYGELIEN-TE-SAPDILRSLIENFIE-ESPEVKLQILTALAKLFK 483 (526)
T ss_dssp HHHHHHHHHHHHTS-S--SSHH-H-HHHHHHHHHHHCHHHTT-TT-HHHHHHHHHHHHHTT-SHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHH-h--hHHH-H-HHHHHhhhcccCCcccc-cc-cHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHHHh
Confidence 44455555555554 1 2222 3 44445522222223322 11 233444444333221 145577666666555555
Q ss_pred cCH
Q 041109 411 MDP 413 (467)
Q Consensus 411 ~D~ 413 (467)
.+|
T Consensus 484 ~~~ 486 (526)
T PF01602_consen 484 RNP 486 (526)
T ss_dssp HSC
T ss_pred hCC
Confidence 554
No 9
>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=80.86 E-value=81 Score=33.45 Aligned_cols=228 Identities=14% Similarity=0.108 Sum_probs=142.4
Q ss_pred chHHHHHHHHHHHhcCCchhhhhcCCHHHHHHHHHh-cCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhhh
Q 041109 146 HLQIVYDILLRLVLHVDPKTLRDYIDHRFLTNLLSL-FQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNF 224 (467)
Q Consensus 146 HLqlVY~ill~fi~s~d~~~~k~~id~~Fi~~Ll~l-f~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi~ 224 (467)
+-.-.--++..++.+.+++..-+ -...++.+++.+ ..++|+..|......+-.+-.|+..- ..+...+...+... .
T Consensus 163 ~~~~~~~l~~~il~~l~~~~~~~-~~~~ll~~l~~~~~~~~~~~~~~~~~~~la~LvNK~~~~-~~l~~~l~~~~~~~-~ 239 (415)
T PF12460_consen 163 QQSRLVILFSAILCSLRKDVSLP-DLEELLQSLLNLALSSEDEFSRLAALQLLASLVNKWPDD-DDLDEFLDSLLQSI-S 239 (415)
T ss_pred ccccHHHHHHHHHHcCCcccCcc-CHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHcCCCCh-hhHHHHHHHHHhhh-c
Confidence 33344455667777766544322 122588888887 66778888888888888888896443 23333333333333 2
Q ss_pred ccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHhhhccCCcchhhhHHHHHHHHHHHHhcCC--------------
Q 041109 225 ETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEP-------------- 290 (467)
Q Consensus 225 e~~~~~GI~ELLeil~sIIngfa~PLKeeh~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp-------------- 290 (467)
.......-...++++.-|.+|...-..+....++ ..|+-|...+.++ ...+.....++...+
T Consensus 240 ~~~~~~~~~~~~~~~~Wi~KaLv~R~~~~~~~~~-~~L~~lL~~~~~g---~~aA~~f~il~~d~~~~l~~~~~a~vklL 315 (415)
T PF12460_consen 240 SSEDSELRPQALEILIWITKALVMRGHPLATELL-DKLLELLSSPELG---QQAAKAFGILLSDSDDVLNKENHANVKLL 315 (415)
T ss_pred ccCCcchhHHHHHHHHHHHHHHHHcCCchHHHHH-HHHHHHhCChhhH---HHHHHHHhhHhcCcHHhcCccccchhhhH
Confidence 2233333445577776666665544433333333 3366677774443 344444444444312
Q ss_pred ---CcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhc---ch
Q 041109 291 ---ALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWN---NE 364 (467)
Q Consensus 291 ---~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~---N~ 364 (467)
++...++..|+..+-.++......+|.-+..++..+|.+-+..-...|+..+-+|++.++..|-..+|.... .+
T Consensus 316 ykQR~F~~~~p~L~~~~~~~~~~~k~~yL~ALs~ll~~vP~~vl~~~l~~LlPLLlqsL~~~~~~v~~s~L~tL~~~l~~ 395 (415)
T PF12460_consen 316 YKQRFFTQVLPKLLEGFKEADDEIKSNYLTALSHLLKNVPKSVLLPELPTLLPLLLQSLSLPDADVLLSSLETLKMILEE 395 (415)
T ss_pred HhHHHHHHHHHHHHHHHhhcChhhHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHc
Confidence 233556666776666666666777888999999999999999999999999999999999988777775442 22
Q ss_pred hHHHHHhhccccchhhh
Q 041109 365 QFVRMVSSSLEDVFPVI 381 (467)
Q Consensus 365 ~~~~li~~~~~~i~Pii 381 (467)
. ..++.+|-+.++|.+
T Consensus 396 ~-~~~i~~hl~sLI~~L 411 (415)
T PF12460_consen 396 A-PELISEHLSSLIPRL 411 (415)
T ss_pred C-HHHHHHHHHHHHHHH
Confidence 2 445666666555544
No 10
>PF04388 Hamartin: Hamartin protein; InterPro: IPR007483 This family includes the hamartin protein which is thought to function as a tumour suppressor. The hamartin protein interacts with the tuberin protein IPR003913 from INTERPRO. Tuberous sclerosis complex (TSC) is an autosomal dominant disorder and is characterised by the presence of hamartomas in many organs, such as brain, skin, heart, lung, and kidney. It is caused by mutation in either TSC1 or TSC2 tumour suppressor genes. TSC1 encodes a protein, hamartin, containing two coiled-coil regions, which have been shown to mediate binding to tuberin. The TSC2 gene codes for tuberin IPR003913 from INTERPRO. These two proteins function within the same pathway(s) regulating cell cycle, cell growth, adhesion, and vesicular trafficking [].
Probab=80.26 E-value=57 Score=37.21 Aligned_cols=158 Identities=25% Similarity=0.367 Sum_probs=88.7
Q ss_pred HHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhccCCCchHH
Q 041109 174 FLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIINGFTVPLKEE 253 (467)
Q Consensus 174 Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PLKee 253 (467)
-|..|+.+++|.|..+.+.+|..+++....- .-+|+ -|.+.+|..++ |-.-+++||. |.-.|-
T Consensus 5 ~~~~l~~~l~s~~~~~~~~~~~~~~~~~~~~--~~~~l----~~~l~~y~~~t----~s~~~~~il~----~~~~P~--- 67 (668)
T PF04388_consen 5 SITELLSLLESNDLSVLEEIKALLQELLNSD--REPWL----VNGLVDYYLST----NSQRALEILV----GVQEPH--- 67 (668)
T ss_pred cHHHHHHHhcCCchhhHHHHHHHHHHHhhcc--chHHH----HHHHHHHHhhc----CcHHHHHHHH----hcCCcc---
Confidence 4778999999999999999999999976652 22344 34455555444 5556677764 444342
Q ss_pred HHHHHHHHhhhccCCcchhhhHHHHHHHHHHHHhcCC-Cc-HHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHH
Q 041109 254 HKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEP-AL-GGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQY 331 (467)
Q Consensus 254 h~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp-~L-~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f 331 (467)
++.|| ..+..|+.+-+ .+ +-.++-.+++.+| +--.
T Consensus 68 ~K~~~---------------------~~l~~~~~~~~~Rl~~L~Ll~~~v~~qp----------------------~~l~ 104 (668)
T PF04388_consen 68 DKHLF---------------------DKLNDYFVKPSYRLQALTLLGHFVRSQP----------------------PWLY 104 (668)
T ss_pred HHHHH---------------------HHHHHHHcCchhHHHHHHHHHHHHhcCC----------------------chHH
Confidence 23332 23333333211 11 1122233333333 3333
Q ss_pred HHHHHHHHHHHhHhhCCCCHH-HHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHHhhccccH
Q 041109 332 RRLALPLCTKITKCLNSCNSE-VAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSK 395 (467)
Q Consensus 332 ~~i~~~lf~~la~ci~S~h~q-VAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~ 395 (467)
.-+..+||.-|-+|+.-+..- |...|+.++. .++..|...-...+|-+|...-+.+ .|+.
T Consensus 105 ~i~~t~Lf~~LLk~L~~D~~~~~~~~al~~Li--mlLP~ip~~l~~~L~~Lf~If~Rl~--~W~~ 165 (668)
T PF04388_consen 105 KILQTPLFKSLLKCLQFDTSITVVSSALLVLI--MLLPHIPSSLGPHLPDLFNIFGRLL--SWER 165 (668)
T ss_pred HHhcChhHHHHHHHHhhcccHHHHHHHHHHHH--HHhccccchhhHHHHHHHHHHHHHH--Hccc
Confidence 334568999999999885443 4445665441 2333444444556777777555543 5665
No 11
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.13 E-value=45 Score=38.56 Aligned_cols=147 Identities=17% Similarity=0.162 Sum_probs=102.0
Q ss_pred HHHhhhccCCcchhhhHHHHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHH--HHHHHHHhhcCChHHHHHHHH
Q 041109 259 IRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLL--IGELEELVDSIDPAQYRRLAL 336 (467)
Q Consensus 259 ~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlF--L~el~~ile~~~~~~f~~i~~ 336 (467)
.+.|+.|...+.-..| -+..+|-++..++|+|..+.++. |+=.++-+-++.. |+.+..++..- -..
T Consensus 324 ~kaLvrLLrs~~~vqy--vvL~nIa~~s~~~~~lF~P~lKs---Ffv~ssDp~~vk~lKleiLs~La~es-------ni~ 391 (968)
T KOG1060|consen 324 AKALVRLLRSNREVQY--VVLQNIATISIKRPTLFEPHLKS---FFVRSSDPTQVKILKLEILSNLANES-------NIS 391 (968)
T ss_pred HHHHHHHHhcCCcchh--hhHHHHHHHHhcchhhhhhhhhc---eEeecCCHHHHHHHHHHHHHHHhhhc-------cHH
Confidence 7888888888877766 56778888999999999887654 4444454444444 44444443222 234
Q ss_pred HHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCHHHH
Q 041109 337 PLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDPNLY 416 (467)
Q Consensus 337 ~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~~lf 416 (467)
.|++-+-.-+.|++++||-.|..-.. .-..+...+-+-.+..|..-.++| +..|..-+..|+++|..+||.--
T Consensus 392 ~ILrE~q~YI~s~d~~faa~aV~AiG------rCA~~~~sv~~tCL~gLv~Llssh-de~Vv~eaV~vIk~Llq~~p~~h 464 (968)
T KOG1060|consen 392 EILRELQTYIKSSDRSFAAAAVKAIG------RCASRIGSVTDTCLNGLVQLLSSH-DELVVAEAVVVIKRLLQKDPAEH 464 (968)
T ss_pred HHHHHHHHHHhcCchhHHHHHHHHHH------HHHHhhCchhhHHHHHHHHHHhcc-cchhHHHHHHHHHHHHhhChHHH
Confidence 56777888889999998888775442 222333344455556677777888 99999999999999999999776
Q ss_pred HHHHHHHH
Q 041109 417 SKCLEATE 424 (467)
Q Consensus 417 ~~~~~~~~ 424 (467)
.+...++.
T Consensus 465 ~~ii~~La 472 (968)
T KOG1060|consen 465 LEILFQLA 472 (968)
T ss_pred HHHHHHHH
Confidence 66655443
No 12
>PLN00122 serine/threonine protein phosphatase 2A; Provisional
Probab=78.10 E-value=8.1 Score=36.48 Aligned_cols=29 Identities=10% Similarity=0.109 Sum_probs=20.7
Q ss_pred CCCCCccCCCCCCCCCCChhHHHHHHH-HH
Q 041109 30 NSGSNHSSPNNNGLQSPYDSEKEEILS-AI 58 (467)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~l~~-Kl 58 (467)
.+.+++.++.-+...|+|.++++.||. ||
T Consensus 38 ~~~~~~~~e~l~~~~~v~~s~k~~lfl~kl 67 (170)
T PLN00122 38 PASVVAGYEPLPSFRDVPNSEKQNLFVRKL 67 (170)
T ss_pred CCccccccccccCCCCCCchHHHHHHHHHH
Confidence 355554433333668999999999886 99
No 13
>PF08767 CRM1_C: CRM1 C terminal; InterPro: IPR014877 CRM1 (also known as Exportin1) mediates the nuclear export of proteins bearing a leucine-rich nuclear export signal (NES). CRM1 forms a complex with the NES containing protein and the small GTPase Ran. This region forms an alpha helical structure formed by six helical hairpin motifs that are structurally similar to the HEAT repeat, but share little sequence similarity to the HEAT repeat []. ; PDB: 3M1I_C 3GB8_A 1W9C_A 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D.
Probab=74.16 E-value=1.1e+02 Score=31.46 Aligned_cols=114 Identities=13% Similarity=0.164 Sum_probs=63.3
Q ss_pred CcchhhhHHHHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHH-------hhcCChHHHHHHHHHHHH
Q 041109 268 SKGMQAYHRQLAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEEL-------VDSIDPAQYRRLALPLCT 340 (467)
Q Consensus 268 ~~~~~~y~~qL~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~i-------le~~~~~~f~~i~~~lf~ 340 (467)
.+.+......+..|....+.+|-.-.+..- +-|...+..+ +-.+++++|..+ ..
T Consensus 108 ~~~v~~I~~~vf~~Tl~MI~~d~~~yPe~r---------------~~ff~LL~~i~~~~f~~l~~lp~~~f~~~----id 168 (319)
T PF08767_consen 108 QPQVPQILEAVFECTLPMINKDFEEYPEHR---------------VNFFKLLRAINEHCFPALLQLPPEQFKLV----ID 168 (319)
T ss_dssp CCCHHHHHHHHHHHHHHHHSSTSSSSHHHH---------------HHHHHHHHHHHHHHTHHHHHS-HHHHHHH----HH
T ss_pred hhhHHHHHHHHHHHHHHHHHhhhhhChHHH---------------HHHHHHHHHHHHHhHHHHHcCCHHHHHHH----HH
Confidence 455566667777888888877644332221 1222222222 334677777755 46
Q ss_pred HHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCH
Q 041109 341 KITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDP 413 (467)
Q Consensus 341 ~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~ 413 (467)
-+..++.+++..|++.+|....+ +++-+.... ...+..++.+-...+...++.++.|.++
T Consensus 169 si~wg~kh~~~~I~~~~L~~l~~--ll~~~~~~~-----------~~~~~~F~~~y~~~il~~if~vltD~~H 228 (319)
T PF08767_consen 169 SIVWGFKHTNREISETGLNILLE--LLNNVSKTN-----------PEFANQFYQQYYLDILQDIFSVLTDSDH 228 (319)
T ss_dssp HHHHHHTSSSHHHHHHHHHHHHH--HHHHHHH-S-----------HHHHHHHHHHHHHHHHHHHHHHHHSTT-
T ss_pred HHHHHhCCCcHHHHHHHHHHHHH--HHHHHHhcC-----------HHHHHHHHHHHHHHHHHHHHHHHHCccc
Confidence 77889999999999999977632 222221100 0122334444455555666666666664
No 14
>KOG2137 consensus Protein kinase [Signal transduction mechanisms]
Probab=67.85 E-value=1.3e+02 Score=34.38 Aligned_cols=108 Identities=13% Similarity=0.090 Sum_probs=74.6
Q ss_pred HHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhh
Q 041109 293 GGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSS 372 (467)
Q Consensus 293 ~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~ 372 (467)
..+.+.-+.+. ..+-+--++++.-+.-|.++++++++..-+.| .|-+|+++...++=|++|... +.+.+.+-
T Consensus 350 ~~p~l~pi~~~--~~~~~~~l~i~e~mdlL~~Kt~~e~~~~~Ilp---lL~~S~~~~~~~iQ~~~L~~l--ptv~e~iD- 421 (700)
T KOG2137|consen 350 MLPALKPIYSA--SDPKQALLFILENMDLLKEKTPPEEVKEKILP---LLYRSLEDSDVQIQELALQIL--PTVAESID- 421 (700)
T ss_pred hhHHHHHHhcc--CCcccchhhHHhhHHHHHhhCChHHHHHHHHH---HHHHHhcCcchhhHHHHHHhh--hHHHHhcc-
Confidence 34445555554 23333446677778888899999999866655 677899999999999999887 34444443
Q ss_pred ccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHH
Q 041109 373 SLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLE 409 (467)
Q Consensus 373 ~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~ 409 (467)
-..+=..|+|.|+.....|=+..|+.-+.-++..++
T Consensus 422 -~~~vk~~ilP~l~~l~~~tt~~~vkvn~L~c~~~l~ 457 (700)
T KOG2137|consen 422 -VPFVKQAILPRLKNLAFKTTNLYVKVNVLPCLAGLI 457 (700)
T ss_pred -HHHHHHHHHHHhhcchhcccchHHHHHHHHHHHHHH
Confidence 122334556667777777889899887777777665
No 15
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=66.00 E-value=1.4e+02 Score=34.92 Aligned_cols=309 Identities=14% Similarity=0.130 Sum_probs=162.8
Q ss_pred CCCCHHHHHHHHHHHHHhhcCCCCCCC-CCCCCCCCCCcccccCC--CCCCCcchHHHHHHHHHHHhcCC---chhhhh-
Q 041109 96 KQLDDYILSHLISMISANLFRPLPPPI-STPITGDLPEDEELFSS--PQPLWPHLQIVYDILLRLVLHVD---PKTLRD- 168 (467)
Q Consensus 96 ~~l~e~i~~~i~~Mi~~NiFR~lPp~~-~~~~~~~~~~edep~~~--~e~sWpHLqlVY~ill~fi~s~d---~~~~k~- 168 (467)
+.-+-.-..++.+-+..+|-+.|-.+. +.... --.+.-...+. .-..=+||--..-.+.+++++.. .+.|..
T Consensus 443 Gvtstn~lvdv~~Ff~~~ilp~L~s~~vn~~pi-lka~aIKy~~~FR~ql~~~~lm~~~p~li~~L~a~s~vvhsYAA~a 521 (960)
T KOG1992|consen 443 GVTSTNELVDVVDFFANQILPDLLSPNVNEFPI-LKADAIKYIYTFRNQLGKEHLMALLPRLIRFLEAESRVVHSYAAIA 521 (960)
T ss_pred ceeeccccccHHHHHHHHhhHHhccCccccccc-hhhcccceeeeecccCChHHHHHHHHHHHHhccCcchHHHHHHHHH
Confidence 333344456778888888887764421 11100 00011111111 22344577777777778776611 111111
Q ss_pred -------------------cCC---HHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhc----cch-HHHHHHHH-----
Q 041109 169 -------------------YID---HRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFT----FYR-SFMRKAMN----- 216 (467)
Q Consensus 169 -------------------~id---~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~----~~R-~~Irk~i~----- 216 (467)
-+. ...+.+|+.-++.|+.-|-+|+-..+.|+.+--- ++= ..+++-..
T Consensus 522 iEkil~vre~~~~~if~~~~iap~~~~ll~nLf~a~s~p~~~EneylmKaImRii~i~~~~i~p~~~~~l~~Lteiv~~v 601 (960)
T KOG1992|consen 522 IEKLLTVRENSNAKIFGAEDIAPFVEILLTNLFKALSLPGKAENEYLMKAIMRIISILQSAIIPHAPELLRQLTEIVEEV 601 (960)
T ss_pred HHhccccccCccccccchhhcchHHHHHHHHHHHhccCCcccccHHHHHHHHHHHHhCHHhhhhhhhHHHHHHHHHHHHH
Confidence 111 3456778888899999999999999988876321 111 11221111
Q ss_pred ------HHHhhhhhcc-------CCccC---hHHHHHHHHHHHhccCCCchHHHHHH----------------------H
Q 041109 217 ------DVFLQYNFET-------EKHCG---IGELLEIWGSIINGFTVPLKEEHKLF----------------------L 258 (467)
Q Consensus 217 ------n~f~~fi~e~-------~~~~G---I~ELLeil~sIIngfa~PLKeeh~~f----------------------l 258 (467)
-.|..|.+|+ -++.| |+.+-+-|...+.+ =|.|+-..| +
T Consensus 602 ~KNPs~P~fnHYLFEsi~~li~~t~~~~~~~vs~~e~aL~p~fq~---Il~eDI~EfiPYvfQlla~lve~~~~~ip~~~ 678 (960)
T KOG1992|consen 602 SKNPSNPQFNHYLFESIGLLIRKTCKANPSAVSSLEEALFPVFQT---ILSEDIQEFIPYVFQLLAVLVEHSSGTIPDSY 678 (960)
T ss_pred hcCCCCchhHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhcCCCCchhH
Confidence 2588888887 34445 22222211111111 112222222 2
Q ss_pred HHHhhhccCCcchhhh--HHHHHHHHHHHHhcCCCcHH--HHHHHhhccCCCCCchh--HhHHHHHHHHHhhcCChHHHH
Q 041109 259 IRVLIPLHKSKGMQAY--HRQLAYCVSQFVQKEPALGG--LVARGILKYWPVTNCRK--EVLLIGELEELVDSIDPAQYR 332 (467)
Q Consensus 259 ~~vLlPLhk~~~~~~y--~~qL~~cv~qf~~kdp~L~~--~vi~~llk~WP~tns~K--evlFL~el~~ile~~~~~~f~ 332 (467)
..++-||.++.....= -+.|...+..|++++|.... .-+.+++.|+-+--++| ..-=...+..|++.+++.+..
T Consensus 679 ~~l~~~lLsp~lW~r~gNipalvrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~~~ 758 (960)
T KOG1992|consen 679 SPLFPPLLSPNLWKRSGNIPALVRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNELA 758 (960)
T ss_pred HHHHHHhcCHHHHhhcCCcHHHHHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhhhh
Confidence 2233333333322211 24667777888888888766 66777777776544433 233456788889999999887
Q ss_pred HHHHHHHHHHhHhhCCCCH-HHHHHHH---HhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHH
Q 041109 333 RLALPLCTKITKCLNSCNS-EVAERAL---YVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVML 408 (467)
Q Consensus 333 ~i~~~lf~~la~ci~S~h~-qVAErAL---~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l 408 (467)
..+..+|--+-+-+++... +-..+-. .+....+=-....+..+.|-|-+|..+.. +.|..........+.+-+
T Consensus 759 py~k~i~~llf~RlqnskT~kf~k~~~vF~~~~~ik~~~~~l~e~~d~IQ~~~fg~l~e---~~ii~~l~~i~~~~~rk~ 835 (960)
T KOG1992|consen 759 PYMKQIFGLLFQRLQNSKTEKFVKSFIVFFSLFTIKKGGLMLAEVIDGIQPGMFGMLLE---NFIIPELPKIILRVDRKI 835 (960)
T ss_pred HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhhHHHHHHHhhcchhHHHHHHH---HhccccchhhhhhhhHHH
Confidence 7776666655555555442 1111111 12222221222335556677888776654 578887777766665555
Q ss_pred Hhc
Q 041109 409 EQM 411 (467)
Q Consensus 409 ~e~ 411 (467)
+.+
T Consensus 836 ~av 838 (960)
T KOG1992|consen 836 MAV 838 (960)
T ss_pred HHH
Confidence 444
No 16
>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=64.11 E-value=1.3e+02 Score=28.43 Aligned_cols=176 Identities=9% Similarity=0.031 Sum_probs=98.7
Q ss_pred CCCChHHHHHHHHHHHHHhhhh--ccchHHHHHHHH---HHHhhhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHH
Q 041109 183 QSEDLRERDSLKNIYHRIYAKF--TFYRSFMRKAMN---DVFLQYNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLF 257 (467)
Q Consensus 183 ~S~DprER~~LktiLhrIY~kf--~~~R~~Irk~i~---n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PLKeeh~~f 257 (467)
.+.|=.+|..--+-|.++-... ...++-+...+. ..+..=+ .+.+..-+.+.+.+++.+..+....+++. ...
T Consensus 17 ~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l-~d~Rs~v~~~A~~~l~~l~~~l~~~~~~~-~~~ 94 (228)
T PF12348_consen 17 SESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQL-SDLRSKVSKTACQLLSDLARQLGSHFEPY-ADI 94 (228)
T ss_dssp T-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S--HH---HHHHHHHHHHHHHHHHGGGGHHH-HHH
T ss_pred CccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHH-hhhHHHHHHHHHHHHHHHHHHHhHhHHHH-HHH
Confidence 4566677766666666654433 222222222222 1121211 12344456677888888888776666543 444
Q ss_pred HHHHhhhccCCcchhhhHHHHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCC--hHHHHH--
Q 041109 258 LIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSID--PAQYRR-- 333 (467)
Q Consensus 258 l~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~--~~~f~~-- 333 (467)
+...|+.++.... ....+.-..|+..+++.-+-....++..+...+---|+.=-..-++-+..+++..+ ...+..
T Consensus 95 ~l~~Ll~~~~~~~-~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~ 173 (228)
T PF12348_consen 95 LLPPLLKKLGDSK-KFIREAANNALDAIIESCSYSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSA 173 (228)
T ss_dssp HHHHHHHGGG----HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HH
T ss_pred HHHHHHHHHcccc-HHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccc
Confidence 4456666666643 34567788888888887662233336666667776777666778888888888777 333433
Q ss_pred HHHHHHHHHhHhhCCCCHHHHHHHHHhh
Q 041109 334 LALPLCTKITKCLNSCNSEVAERALYVW 361 (467)
Q Consensus 334 i~~~lf~~la~ci~S~h~qVAErAL~~w 361 (467)
....+.+.|.+|++..+..|=+.|-..|
T Consensus 174 ~~~~l~~~l~~~l~D~~~~VR~~Ar~~~ 201 (228)
T PF12348_consen 174 FLKQLVKALVKLLSDADPEVREAARECL 201 (228)
T ss_dssp HHHHHHHHHHHHHTSS-HHHHHHHHHHH
T ss_pred hHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence 3477889999999999999988877655
No 17
>PF12726 SEN1_N: SEN1 N terminal; InterPro: IPR024481 The yeast helicase Sen1 is an RNA polymerase II termination factor for noncoding RNA genes []. The C-terminal domain of Sen1 is essential for cell growth, while the N-terminal domain appears to be dispensible []. This entry represents the N-terminal domain.
Probab=63.02 E-value=41 Score=38.50 Aligned_cols=100 Identities=13% Similarity=0.169 Sum_probs=67.7
Q ss_pred HHHHHHHHHHhc---CCchhhhhcC-CHHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHH--------
Q 041109 149 IVYDILLRLVLH---VDPKTLRDYI-DHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMN-------- 216 (467)
Q Consensus 149 lVY~ill~fi~s---~d~~~~k~~i-d~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~-------- 216 (467)
.+.+.+.+++.. .++..++..+ |+.-...++.++=|||..=++.-.++|..+|| -.+.+.-|+.-+.
T Consensus 496 ~~~~~~~~il~rls~~~~~~L~~l~~d~~~~~~i~s~lfsp~~~l~qaA~~llk~~~d-~~~R~e~i~~ll~~~~~~tL~ 574 (727)
T PF12726_consen 496 QITDLISQILERLSDFDPSHLKELLSDPDAAQAIWSLLFSPDDDLYQAAQDLLKQAFD-VDGRLEAIQALLQSNFSPTLS 574 (727)
T ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHcCcchhhHHHhheeCCChHHHHHHHHHHHHHhc-CCcHHHHHHHHHHHhHHHHHH
Confidence 344444555554 5677777777 45777789999999999999999999999998 4444444443333
Q ss_pred ---HHHhhhhhccCCccChHHHHHHHHHHHhccCCCc
Q 041109 217 ---DVFLQYNFETEKHCGIGELLEIWGSIINGFTVPL 250 (467)
Q Consensus 217 ---n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PL 250 (467)
..+.+++ +...+....-++.++..||++++-|.
T Consensus 575 ai~~~l~~~~-~~~~~~p~pr~vr~~~DIi~~Lcdp~ 610 (727)
T PF12726_consen 575 AINWSLRQLT-KLKFFEPCPRMVRCLMDIIEVLCDPV 610 (727)
T ss_pred HHHHHHHHHH-hhhhhcchHHHHHHHHHHHHHHcCCC
Confidence 3333332 22446777778888888888887775
No 18
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=60.65 E-value=1.1e+02 Score=33.44 Aligned_cols=131 Identities=14% Similarity=0.139 Sum_probs=75.5
Q ss_pred HhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhh-----hHHHH
Q 041109 312 EVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVI-----VEGME 386 (467)
Q Consensus 312 evlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii-----~~~L~ 386 (467)
..+-+++|..+...-+...-.-.-..++..|..|+.+++..||+.|..+..+= ..+.. .+..+ .+.|.
T Consensus 94 r~l~l~~l~~~~~~~~~~~~~~~~~~l~~~i~~~L~~~d~~Va~~A~~~L~~l------~~~~~-~~~~l~~~~~~~~L~ 166 (503)
T PF10508_consen 94 RRLALKQLGRIARHSEGAAQLLVDNELLPLIIQCLRDPDLSVAKAAIKALKKL------ASHPE-GLEQLFDSNLLSKLK 166 (503)
T ss_pred HHHHHHHHHHHhcCCHHHHHHhcCccHHHHHHHHHcCCcHHHHHHHHHHHHHH------hCCch-hHHHHhCcchHHHHH
Confidence 33445556665533221111112245889999999999999999998766421 11111 11112 44555
Q ss_pred HHhhccccHHHHHHHHHHHHHHHhcCHHHHHHHHHH--HHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Q 041109 387 KNLKLHWSKSVKQLTENVKVMLEQMDPNLYSKCLEA--TEIRES-AARQEEMKRKEKWRRIETLAAA 450 (467)
Q Consensus 387 ~~~~~HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~--~~~~~~-~~~~~~~~r~~~W~~i~~~A~~ 450 (467)
....+ =|..+|-.++.++-.+....+++++.|.++ +..-.. =..+.--.+..-.+-+.+.|..
T Consensus 167 ~l~~~-~~~~vR~Rv~el~v~i~~~S~~~~~~~~~sgll~~ll~eL~~dDiLvqlnalell~~La~~ 232 (503)
T PF10508_consen 167 SLMSQ-SSDIVRCRVYELLVEIASHSPEAAEAVVNSGLLDLLLKELDSDDILVQLNALELLSELAET 232 (503)
T ss_pred HHHhc-cCHHHHHHHHHHHHHHHhcCHHHHHHHHhccHHHHHHHHhcCccHHHHHHHHHHHHHHHcC
Confidence 44433 378899999999999999999999988752 111111 1112222344555556666653
No 19
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=58.10 E-value=3.7e+02 Score=31.54 Aligned_cols=269 Identities=16% Similarity=0.269 Sum_probs=151.8
Q ss_pred CCCCCc----chHHHHHHHHHHHhc----CCchhhhhcCCHHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHH
Q 041109 140 PQPLWP----HLQIVYDILLRLVLH----VDPKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFM 211 (467)
Q Consensus 140 ~e~sWp----HLqlVY~ill~fi~s----~d~~~~k~~id~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~I 211 (467)
+.|-|. |-+.+..-|++-+-. .|+.. ..|.++..+..|+.-|+|||..=...+..++.++-++--.--.||
T Consensus 596 lkpLwkgir~hrgk~laafLkAigyliplmd~ey-a~yyTrevmlil~rEf~sPDeemkkivLKVv~qcc~t~Gv~~~y~ 674 (1172)
T KOG0213|consen 596 LKPLWKGIRQHRGKELAAFLKAIGYLIPLMDAEY-ASYYTREVMLILIREFGSPDEEMKKIVLKVVKQCCATDGVEPAYI 674 (1172)
T ss_pred HHHHHHHHHHccChHHHHHHHHHhhccccccHHH-HHHhHHHHHHHHHHhhCCChHHHHHHHHHHHHHHhcccCCCHHHH
Confidence 788886 667888888888776 34443 478899999999999999998877777777777777777778889
Q ss_pred HHHHHHHHhhhhhcc----CCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHhhhccCCcchhhhHHHHHHHHHHHH-
Q 041109 212 RKAMNDVFLQYNFET----EKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFV- 286 (467)
Q Consensus 212 rk~i~n~f~~fi~e~----~~~~GI~ELLeil~sIIngfa~PLKeeh~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~- 286 (467)
|..+-..|....-.. ++.+ -..+.+.-.+|-+..- -.....|++.+|-.-+- .|..--...+...+
T Consensus 675 r~dilp~ff~~fw~rrmA~drr~-ykqlv~ttv~ia~KvG------~~~~v~R~v~~lkde~e--~yrkm~~etv~ri~~ 745 (1172)
T KOG0213|consen 675 RFDILPEFFFSFWGRRMALDRRN-YKQLVDTTVEIAAKVG------SDPIVSRVVLDLKDEPE--QYRKMVAETVSRIVG 745 (1172)
T ss_pred hhhhhHHHHhhhhhhhhhccccc-hhhHHHHHHHHHHHhC------chHHHHHHhhhhccccH--HHHHHHHHHHHHHHh
Confidence 887776665543322 1111 1122233333332110 01223344444443221 12222222222222
Q ss_pred -----hcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhh
Q 041109 287 -----QKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVW 361 (467)
Q Consensus 287 -----~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w 361 (467)
.-|.+|-+..++|++--+-...+.--|+|+..= -+...+. ...++...+|+.-+-.-+++...+|-.+|+.+.
T Consensus 746 ~lg~~diderleE~lidgil~Afqeqtt~d~vml~gfg-~V~~~lg-~r~kpylpqi~stiL~rLnnksa~vRqqaadli 823 (1172)
T KOG0213|consen 746 RLGAADIDERLEERLIDGILYAFQEQTTEDSVMLLGFG-TVVNALG-GRVKPYLPQICSTILWRLNNKSAKVRQQAADLI 823 (1172)
T ss_pred ccccccccHHHHHHHHHHHHHHHHhcccchhhhhhhHH-HHHHHHh-hccccchHHHHHHHHHHhcCCChhHHHHHHHHH
Confidence 356778888889988877766666666655432 2211111 123456667777777888888888888887554
Q ss_pred cchh----------HH--------HHHhhccccchhhhhHHHHHHhhcc----ccHHHHHHHHHHHHHHHhcCHHHHHHH
Q 041109 362 NNEQ----------FV--------RMVSSSLEDVFPVIVEGMEKNLKLH----WSKSVKQLTENVKVMLEQMDPNLYSKC 419 (467)
Q Consensus 362 ~N~~----------~~--------~li~~~~~~i~Pii~~~L~~~~~~H----Wn~~Vr~~a~~vl~~l~e~D~~lf~~~ 419 (467)
..-. .+ +-+.+.-..+++.|+.+++....-| --..++++.=.+.-+|..--.++-+.|
T Consensus 824 s~la~Vlktc~ee~~m~~lGvvLyEylgeeypEvLgsILgAikaI~nvigm~km~pPi~dllPrltPILknrheKVqen~ 903 (1172)
T KOG0213|consen 824 SSLAKVLKTCGEEKLMGHLGVVLYEYLGEEYPEVLGSILGAIKAIVNVIGMTKMTPPIKDLLPRLTPILKNRHEKVQENC 903 (1172)
T ss_pred HHHHHHHHhccHHHHHHHhhHHHHHhcCcccHHHHHHHHHHHHHHHHhccccccCCChhhhcccchHhhhhhHHHHHHHH
Confidence 3321 11 1111222335566666665554444 334455554455555544444444444
Q ss_pred H
Q 041109 420 L 420 (467)
Q Consensus 420 ~ 420 (467)
.
T Consensus 904 I 904 (1172)
T KOG0213|consen 904 I 904 (1172)
T ss_pred H
Confidence 3
No 20
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=55.97 E-value=2.2e+02 Score=28.41 Aligned_cols=69 Identities=7% Similarity=-0.019 Sum_probs=36.2
Q ss_pred CCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCH-HHHHHHHHh
Q 041109 290 PALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNS-EVAERALYV 360 (467)
Q Consensus 290 p~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~-qVAErAL~~ 360 (467)
|+-...+++.+..+|..-...+.- -.-+..+++..++++...+...+...+...+.+++- -|..+++..
T Consensus 142 ~~~~~~i~~~l~~~~~~l~~~~~G--~~vvq~~l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~ 211 (322)
T cd07920 142 PEDLQFIIDAFKGNCVALSTHPYG--CRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLEL 211 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHcCccc--cHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhc
Confidence 444445555555554433322211 122555666667777777777776666666555433 345554443
No 21
>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=51.41 E-value=53 Score=28.76 Aligned_cols=90 Identities=12% Similarity=0.150 Sum_probs=54.5
Q ss_pred HHHhhcC-ChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhc------chhHHHHHhhccccchhhhhHHHHHHhhcc
Q 041109 320 EELVDSI-DPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWN------NEQFVRMVSSSLEDVFPVIVEGMEKNLKLH 392 (467)
Q Consensus 320 ~~ile~~-~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~------N~~~~~li~~~~~~i~Pii~~~L~~~~~~H 392 (467)
.+|...+ +..++..++.-|.+|+.. -+..+..+.-.||.+.. ++.|+.-+..+...|-..---......-..
T Consensus 25 ~eIa~~t~~~~~~~~I~~~l~kRL~~-~~~k~wr~~~KaL~ll~yLl~nG~~~~~~~~~~~~~~I~~l~~f~~~d~~g~d 103 (125)
T PF01417_consen 25 AEIAQLTYNSKDCQEIMDVLWKRLSK-SDGKNWRHVYKALTLLEYLLKNGSERFVDELRDHIDIIRELQDFQYVDPKGKD 103 (125)
T ss_dssp HHHHHHTTSCHHHHHHHHHHHHHHHS-STSSGHHHHHHHHHHHHHHHHHS-HHHHHHHHHTHHHHHGGGG---BBTTSTB
T ss_pred HHHHHHHhccccHHHHHHHHHHHHHh-cCCcchhHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHhhcceeeccCCCCcc
Confidence 4444433 447888888888888844 35577888888886542 245555555554433332100000111235
Q ss_pred ccHHHHHHHHHHHHHHHh
Q 041109 393 WSKSVKQLTENVKVMLEQ 410 (467)
Q Consensus 393 Wn~~Vr~~a~~vl~~l~e 410 (467)
|...||..|..++.+|.+
T Consensus 104 ~~~~VR~~A~~i~~lL~d 121 (125)
T PF01417_consen 104 QGQNVREKAKEILELLND 121 (125)
T ss_dssp HHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHHHHHHhCC
Confidence 888999999999999965
No 22
>COG5656 SXM1 Importin, protein involved in nuclear import [Posttranslational modification, protein turnover, chaperones]
Probab=49.75 E-value=4.9e+02 Score=30.49 Aligned_cols=91 Identities=15% Similarity=0.022 Sum_probs=55.8
Q ss_pred HHhcCCCChHHHHHHHHHHHHHhhh-hccchHHHHHHHHHHHhhhhhccC---CccChHHHHHHHHHHHh--ccCCCchH
Q 041109 179 LSLFQSEDLRERDSLKNIYHRIYAK-FTFYRSFMRKAMNDVFLQYNFETE---KHCGIGELLEIWGSIIN--GFTVPLKE 252 (467)
Q Consensus 179 l~lf~S~DprER~~LktiLhrIY~k-f~~~R~~Irk~i~n~f~~fi~e~~---~~~GI~ELLeil~sIIn--gfa~PLKe 252 (467)
.+.+.|+|..=-+++...-..==.+ |++. ..-++++|-+|--... ...-..-.|+++.||++ .-..|..-
T Consensus 380 ~d~g~spdlaal~fl~~~~sKrke~Tfqgi----Lsf~~sil~qsaa~psn~dnarq~egalr~lasi~s~itk~sp~an 455 (970)
T COG5656 380 FDNGLSPDLAALFFLIISKSKRKEETFQGI----LSFLLSILGQSAATPSNIDNARQAEGALRLLASIKSFITKMSPAAN 455 (970)
T ss_pred hcCCCChhHHHHHHHHHHhcccchhhhhhH----HHHHHHHHhcccCCCCccccHHHHhhHHHHHHHHHHHhccCchHHH
Confidence 3455577766555554432221111 4443 3334666666655443 23345567899999998 33457777
Q ss_pred HHHHHHHHHhhhccCCcchhh
Q 041109 253 EHKLFLIRVLIPLHKSKGMQA 273 (467)
Q Consensus 253 eh~~fl~~vLlPLhk~~~~~~ 273 (467)
++..|....++|-.+.++.-.
T Consensus 456 ~me~fiv~hv~P~f~s~ygfL 476 (970)
T COG5656 456 VMEYFIVNHVIPAFRSNYGFL 476 (970)
T ss_pred HHHHHHHHHhhHhhcCcccch
Confidence 888899999999888887643
No 23
>PF08389 Xpo1: Exportin 1-like protein; InterPro: IPR013598 The exchange of macromolecules between the nucleus and cytoplasm takes place through nuclear pore complexes within the nuclear membrane. Active transport of large molecules through these pore complexes require carrier proteins, called karyopherins (importins and exportins), which shuttle between the two compartments. This domain is found close to the N terminus of yeast exportin 1 (Xpo1, Crm1, P14068 from SWISSPROT), as well as adjacent to the N-terminal domain of importin-beta (IPR001494 from INTERPRO). Exportin 1 is a nuclear export receptor that translocates proteins out of the nucleus; it interacts with leucine-rich nuclear export signal (NES) sequences in proteins to be transported, as well as with RanGTP [, ]. Importin-beta is a nuclear import receptor that translocates proteins into the nucleus; it interacts with RanGTP and importin-alpha, the latter binding with the nuclear localisation signal (NLS) sequences in proteins to be transported []. More information about these proteins can be found at Protein of the Month: Importins [].; PDB: 3IBV_A 3ICQ_U 3M1I_C 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 2XWU_B 2X19_B ....
Probab=48.90 E-value=69 Score=27.79 Aligned_cols=102 Identities=19% Similarity=0.224 Sum_probs=51.8
Q ss_pred cHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCC-CCHH-HHHHHHHhhcchhHHHH
Q 041109 292 LGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNS-CNSE-VAERALYVWNNEQFVRM 369 (467)
Q Consensus 292 L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S-~h~q-VAErAL~~w~N~~~~~l 369 (467)
++..+..-..+.||..++. |+..+..++.. ++.. ......+++.+.+=+.+ .+.. -.+| ...+...
T Consensus 8 l~~~l~~i~~~~~P~~Wp~----~l~~l~~~~~~-~~~~-~~~~L~iL~~l~eEi~~~~~~~~~~~r------~~~l~~~ 75 (148)
T PF08389_consen 8 LAQVLAEIAKRDWPQQWPD----FLEDLLQLLQS-SPQH-LELVLRILRILPEEITDFRRSSLSQER------RRELKDA 75 (148)
T ss_dssp HHHHHHHHHHHHTTTTSTT----HHHHHHHHHHT-THHH-HHHHHHHHHHHHHHHHTSHCCHSHHHH------HHHHHHH
T ss_pred HHHHHHHHHHHHChhhCch----HHHHHHHHhcc-chhH-HHHHHHHHHHHHHHHHhhhchhhhHHH------HHHHHHH
Confidence 3445556677788888875 66666666554 3222 23344455555544433 1100 0111 2334445
Q ss_pred HhhccccchhhhhHHHHHHhhcccc---HHHHHHHHHHHHHHH
Q 041109 370 VSSSLEDVFPVIVEGMEKNLKLHWS---KSVKQLTENVKVMLE 409 (467)
Q Consensus 370 i~~~~~~i~Pii~~~L~~~~~~HWn---~~Vr~~a~~vl~~l~ 409 (467)
+.++ +|.++..+.+....+.+ ..+...+..+++.+.
T Consensus 76 l~~~----~~~i~~~l~~~l~~~~~~~~~~~~~~~L~~l~s~i 114 (148)
T PF08389_consen 76 LRSN----SPDILEILSQILSQSSSEANEELVKAALKCLKSWI 114 (148)
T ss_dssp HHHH----HHHHHHHHHHHHHHHCHCCHHHHHHHHHHHHHHHT
T ss_pred HHHH----HHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHH
Confidence 5555 44444445555454554 566666666665543
No 24
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=48.54 E-value=22 Score=30.72 Aligned_cols=81 Identities=11% Similarity=0.153 Sum_probs=51.2
Q ss_pred HHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCCh---HH----HHHHHHHHHHHHhHhhCCCCHHHHHH
Q 041109 284 QFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDP---AQ----YRRLALPLCTKITKCLNSCNSEVAER 356 (467)
Q Consensus 284 qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~---~~----f~~i~~~lf~~la~ci~S~h~qVAEr 356 (467)
.++-.+..-+..++..+.++-..+.+.+.+..|..+.+|+-.... .. |.++....|..+.......+-+=..+
T Consensus 21 ~~~~~~~~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ki~k 100 (121)
T smart00582 21 KWAIEHASHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRDVLGAANDETKKKIRR 100 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 344344445556666666666677778899999999999865421 23 44455556666665544445555666
Q ss_pred HHHhhcch
Q 041109 357 ALYVWNNE 364 (467)
Q Consensus 357 AL~~w~N~ 364 (467)
-+.+|...
T Consensus 101 ll~iW~~~ 108 (121)
T smart00582 101 LLNIWEER 108 (121)
T ss_pred HHHHHhcC
Confidence 77888763
No 25
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=42.26 E-value=2.4e+02 Score=32.76 Aligned_cols=106 Identities=24% Similarity=0.383 Sum_probs=60.3
Q ss_pred HHHHHHHHhHhhCCCCHHHHHHHHHhhcc---hhHH------HHHhhccc------------cchhhhhHHHHHHhh---
Q 041109 335 ALPLCTKITKCLNSCNSEVAERALYVWNN---EQFV------RMVSSSLE------------DVFPVIVEGMEKNLK--- 390 (467)
Q Consensus 335 ~~~lf~~la~ci~S~h~qVAErAL~~w~N---~~~~------~li~~~~~------------~i~Pii~~~L~~~~~--- 390 (467)
...||.+....+.|+|-+||-.|+-||++ |.+- +...++.. .++|.+...|.+--.
T Consensus 257 ~~alfaitl~amks~~deValQaiEFWsticeEEiD~~~e~~e~~d~~~~p~~~~fa~~a~~~v~P~Ll~~L~kqde~~d 336 (859)
T KOG1241|consen 257 EQALFAITLAAMKSDNDEVALQAIEFWSTICEEEIDLAIEYGEAVDQGLPPSSKYFARQALQDVVPVLLELLTKQDEDDD 336 (859)
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCchhhHHHHHHHhHhhHHHHHHHHhCCCCcc
Confidence 34489999999999999999999999995 3332 22233333 566766666655211
Q ss_pred -ccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041109 391 -LHWSKSVKQLTENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKRKEKWRRIETLAAA 450 (467)
Q Consensus 391 -~HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~~~~~~~~~~~~~~~r~~~W~~i~~~A~~ 450 (467)
.-||.. ..|..+|.+ |.+|..+.-..---.=-++.-+...|+..+.++-+
T Consensus 337 ~DdWnp~--kAAg~CL~l--------~A~~~~D~Iv~~Vl~Fiee~i~~pdwr~reaavmA 387 (859)
T KOG1241|consen 337 DDDWNPA--KAAGVCLML--------FAQCVGDDIVPHVLPFIEENIQNPDWRNREAAVMA 387 (859)
T ss_pred cccCcHH--HHHHHHHHH--------HHHHhcccchhhhHHHHHHhcCCcchhhhhHHHHH
Confidence 249964 445555543 33443322111000111222345678777766644
No 26
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=40.55 E-value=84 Score=26.82 Aligned_cols=86 Identities=13% Similarity=0.196 Sum_probs=57.9
Q ss_pred HHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCC---hHHHHHHHHHHHHHHhHhhCCCCHHHHH
Q 041109 279 AYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSID---PAQYRRLALPLCTKITKCLNSCNSEVAE 355 (467)
Q Consensus 279 ~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~---~~~f~~i~~~lf~~la~ci~S~h~qVAE 355 (467)
..-+++++..+..-+..++..+.++=-++.+.+.+.+|..+.+|+.... ...|.....++|.....-.+..+-+=..
T Consensus 21 I~~lt~~a~~~~~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~~~~~~f~~~~~~~~~~~r~kl~ 100 (114)
T cd03562 21 IQTLTKLAIENRKHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSEFLVPLFLDAYEKVDEKTRKKLE 100 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 3334566666666777777777777777888999999999999997653 3456666677776555544444444444
Q ss_pred HHHHhhcch
Q 041109 356 RALYVWNNE 364 (467)
Q Consensus 356 rAL~~w~N~ 364 (467)
+-+.+|...
T Consensus 101 rl~~iW~~~ 109 (114)
T cd03562 101 RLLNIWEER 109 (114)
T ss_pred HHHHHccCC
Confidence 566777654
No 27
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=39.61 E-value=2.6e+02 Score=25.86 Aligned_cols=87 Identities=20% Similarity=0.264 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHh
Q 041109 331 YRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQ 410 (467)
Q Consensus 331 f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e 410 (467)
+..++.|....+..|+.+++..|=..|+... ..++.+..-.+=+.++..+......- |++||+.|...+.-+..
T Consensus 19 ~~~~ve~~~~~l~~~L~D~~~~VR~~al~~L-----s~Li~~d~ik~k~~l~~~~l~~l~D~-~~~Ir~~A~~~~~e~~~ 92 (178)
T PF12717_consen 19 YPNLVEPYLPNLYKCLRDEDPLVRKTALLVL-----SHLILEDMIKVKGQLFSRILKLLVDE-NPEIRSLARSFFSELLK 92 (178)
T ss_pred CcHHHHhHHHHHHHHHCCCCHHHHHHHHHHH-----HHHHHcCceeehhhhhHHHHHHHcCC-CHHHHHHHHHHHHHHHH
Q ss_pred c-CHHHHHHHHHHH
Q 041109 411 M-DPNLYSKCLEAT 423 (467)
Q Consensus 411 ~-D~~lf~~~~~~~ 423 (467)
. +|..+....-+.
T Consensus 93 ~~~~~~i~~~~~e~ 106 (178)
T PF12717_consen 93 KRNPNIIYNNFPEL 106 (178)
T ss_pred hccchHHHHHHHHH
No 28
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=39.52 E-value=3e+02 Score=25.08 Aligned_cols=112 Identities=20% Similarity=0.288 Sum_probs=73.1
Q ss_pred CchhHhHHHHHHHHHhhcCCh--------HHH-HHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcc--hhHHHHHhhcccc
Q 041109 308 NCRKEVLLIGELEELVDSIDP--------AQY-RRLALPLCTKITKCLNSCNSEVAERALYVWNN--EQFVRMVSSSLED 376 (467)
Q Consensus 308 ns~KevlFL~el~~ile~~~~--------~~f-~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N--~~~~~li~~~~~~ 376 (467)
.....++=|+.++.+++.-++ ..+ ..+...+|..+.+.+.|+++.|.++++.+..+ .++...+..-.+.
T Consensus 35 ~~~~k~l~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~l~~~Ll~~~~~~~~~i~~~slri~~~l~~~~~~~Lk~ele~ 114 (168)
T PF12783_consen 35 DERSKLLSLELLESILENHGSVFRSSEEHPSLINLLKDDLCPALLKNLSSSDFPIFSRSLRIFLTLLSRFRSHLKLELEV 114 (168)
T ss_pred hHHHHHHHHHHHHHHHHhCHHHHhCCcchHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556667888888764321 133 34557899999999999999999999865433 3344555555566
Q ss_pred chhhhhHHHHHHhh-ccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Q 041109 377 VFPVIVEGMEKNLK-LHWSKSVKQLTENVKVMLEQMDPNLYSKCLEAT 423 (467)
Q Consensus 377 i~Pii~~~L~~~~~-~HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~~ 423 (467)
+++.++-.+.+... ..| -|.++..+++-+-. ||.+.-+.=.+|
T Consensus 115 ~l~~i~~~il~~~~~~~~---~k~~~Le~l~~l~~-~p~~l~~lf~NY 158 (168)
T PF12783_consen 115 FLSHIILRILESDNSSLW---QKELALEILRELCK-DPQFLVDLFVNY 158 (168)
T ss_pred HHHHHHHHHHccCCCcHH---HHHHHHHHHHHHHh-ChhHHHHHHHHc
Confidence 77777665544333 246 57778888877764 776665554444
No 29
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=39.51 E-value=1.1e+02 Score=27.93 Aligned_cols=82 Identities=15% Similarity=0.321 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHhhhccCCcchhhhHHH-HHHHHHHHHh
Q 041109 209 SFMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIINGFTVPLKEEHKLFLIRVLIPLHKSKGMQAYHRQ-LAYCVSQFVQ 287 (467)
Q Consensus 209 ~~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIngfa~PLKeeh~~fl~~vLlPLhk~~~~~~y~~q-L~~cv~qf~~ 287 (467)
..+|..+-..+.+..-... +.=..-.|+++..++..|..-||.|-..|+..++.|+..++..+.=++. ...++..++
T Consensus 68 ~~lk~~l~~~Ll~~~~~~~-~~i~~~slri~~~l~~~~~~~Lk~ele~~l~~i~~~il~~~~~~~~~k~~~Le~l~~l~- 145 (168)
T PF12783_consen 68 NLLKDDLCPALLKNLSSSD-FPIFSRSLRIFLTLLSRFRSHLKLELEVFLSHIILRILESDNSSLWQKELALEILRELC- 145 (168)
T ss_pred HHHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHH-
Confidence 3344444444444444322 3333445899999999999999999999999999999887765222333 334444445
Q ss_pred cCCCc
Q 041109 288 KEPAL 292 (467)
Q Consensus 288 kdp~L 292 (467)
+||.+
T Consensus 146 ~~p~~ 150 (168)
T PF12783_consen 146 KDPQF 150 (168)
T ss_pred hChhH
Confidence 35543
No 30
>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=37.98 E-value=1.7e+02 Score=26.06 Aligned_cols=89 Identities=11% Similarity=0.109 Sum_probs=58.4
Q ss_pred HHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCH-HHHHHHHHhh---cchhHHHHHhhccccchhhhhHHHHH-H-
Q 041109 315 LIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNS-EVAERALYVW---NNEQFVRMVSSSLEDVFPVIVEGMEK-N- 388 (467)
Q Consensus 315 FL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~-qVAErAL~~w---~N~~~~~li~~~~~~i~Pii~~~L~~-~- 388 (467)
.++||.++.-. ++..+..++.-|.++|.. +|+|. .=|.+-|... -++.|...+..+...|- .+.. .
T Consensus 21 ~~~Eia~~t~~-s~~~~~ei~d~L~kRL~~--~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~~~~Ik-----~~~~f~g 92 (122)
T cd03572 21 LYEEIAKLTRK-SVGSCQELLEYLLKRLKR--SSPHVKLKVLKIIKHLCEKGNSDFKRELQRNSAQIR-----ECANYKG 92 (122)
T ss_pred HHHHHHHHHHc-CHHHHHHHHHHHHHHhcC--CCCcchHHHHHHHHHHHhhCCHHHHHHHHHhHHHHH-----HHHHcCC
Confidence 45566665444 778999999999999998 78887 3344544332 23567777777663211 1111 0
Q ss_pred -----hhccccHHHHHHHHHHHHHHHhc
Q 041109 389 -----LKLHWSKSVKQLTENVKVMLEQM 411 (467)
Q Consensus 389 -----~~~HWn~~Vr~~a~~vl~~l~e~ 411 (467)
.-.-+++.||..|..+++++..-
T Consensus 93 ~~Dp~~Gd~~~~~VR~~A~El~~~if~~ 120 (122)
T cd03572 93 PPDPLKGDSLNEKVREEAQELIKAIFSY 120 (122)
T ss_pred CCCcccCcchhHHHHHHHHHHHHHHhcc
Confidence 11348899999999999988653
No 31
>COG5215 KAP95 Karyopherin (importin) beta [Intracellular trafficking and secretion]
Probab=37.89 E-value=2.5e+02 Score=31.84 Aligned_cols=107 Identities=20% Similarity=0.262 Sum_probs=0.0
Q ss_pred HHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchh-------------h--hhHHHHHHhhc-------
Q 041109 334 LALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFP-------------V--IVEGMEKNLKL------- 391 (467)
Q Consensus 334 i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~P-------------i--i~~~L~~~~~~------- 391 (467)
+...||...++.+.|+|-+||-.|..||+.--=.++=-..-..-+| + ++|.|.+...+
T Consensus 260 mE~aL~alt~~~mks~nd~va~qavEfWsticeEeid~~~e~~~~pe~p~qn~~fa~aav~dvlP~lL~LL~~q~ed~~~ 339 (858)
T COG5215 260 MENALAALTGRFMKSQNDEVAIQAVEFWSTICEEEIDGEMEDKYLPEVPAQNHGFARAAVADVLPELLSLLEKQGEDYYG 339 (858)
T ss_pred HHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHhhhHHHHhhcccCchhhcchHHHHHHHHHHHHHHHHHhcCCCccc
Q ss_pred -cccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041109 392 -HWSKSVKQLTENVKVMLEQMDPNLYSKCLEATEIRESAARQEEMKRKEKWRRIETLAAA 450 (467)
Q Consensus 392 -HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~~~~~~~~~~~~~~~r~~~W~~i~~~A~~ 450 (467)
-||...-..++- ++|.+...++-.+---.=.+..-|.+.|...+..+-+
T Consensus 340 DdWn~smaA~sCL----------qlfaq~~gd~i~~pVl~FvEqni~~~~w~nreaavmA 389 (858)
T COG5215 340 DDWNPSMAASSCL----------QLFAQLKGDKIMRPVLGFVEQNIRSESWANREAAVMA 389 (858)
T ss_pred cccchhhhHHHHH----------HHHHHHhhhHhHHHHHHHHHHhccCchhhhHHHHHHH
No 32
>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=37.42 E-value=2.8e+02 Score=25.14 Aligned_cols=77 Identities=12% Similarity=0.127 Sum_probs=60.1
Q ss_pred HHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHH-HHHHHHhHhhC------CCCHHHHHHH
Q 041109 285 FVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLAL-PLCTKITKCLN------SCNSEVAERA 357 (467)
Q Consensus 285 f~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~-~lf~~la~ci~------S~h~qVAErA 357 (467)
.+..+|.-+...++.|.|-=-..|+.-+..-|..++.++..++..-...+.. .....+.+.++ ..|..|-+++
T Consensus 28 ~In~~~~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~Fl~el~kl~~~k~~~~~~~~~Vk~ki 107 (139)
T cd03567 28 QINKEPEGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKFRFLNELIKLVSPKYLGSRTSEKVKTKI 107 (139)
T ss_pred HHHcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHHHHHHHHHhccccCCCCCCHHHHHHH
Confidence 3467888888999999988888898999999999999999998877666663 34445566663 3688999998
Q ss_pred HHhh
Q 041109 358 LYVW 361 (467)
Q Consensus 358 L~~w 361 (467)
|.+.
T Consensus 108 l~li 111 (139)
T cd03567 108 IELL 111 (139)
T ss_pred HHHH
Confidence 8653
No 33
>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=37.37 E-value=2.5e+02 Score=24.94 Aligned_cols=85 Identities=14% Similarity=0.196 Sum_probs=53.4
Q ss_pred HHHHhhc-CChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhh----cc--hhHHHHHhhccccchhhhhHHHH-----
Q 041109 319 LEELVDS-IDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVW----NN--EQFVRMVSSSLEDVFPVIVEGME----- 386 (467)
Q Consensus 319 l~~ile~-~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w----~N--~~~~~li~~~~~~i~Pii~~~L~----- 386 (467)
+.+|... -+.++|..++..|.+||+.. ..+...+-.||.+. .| +.++.-+.++... +..|.
T Consensus 22 m~eIa~~t~~~~~~~~Im~~l~kRL~~~--~k~WR~vyKaL~lleyLl~nGse~vv~~~r~~~~~-----i~~L~~F~~~ 94 (123)
T cd03571 22 MAEIARATYNYVEFQEIMSMLWKRLNDK--GKNWRHVYKALTLLEYLLKNGSERVVDDARENLYI-----IRTLKDFQYI 94 (123)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHHHHHhc--cccHHHHHHHHHHHHHHHHhCCHHHHHHHHHhHHH-----HHhhccceee
Confidence 3444443 35678999999999999876 56777888888554 22 3333333333321 11121
Q ss_pred HHhhccccHHHHHHHHHHHHHHHh
Q 041109 387 KNLKLHWSKSVKQLTENVKVMLEQ 410 (467)
Q Consensus 387 ~~~~~HWn~~Vr~~a~~vl~~l~e 410 (467)
.....-|-..||..|.+++.+|.+
T Consensus 95 d~~g~d~G~~VR~ka~~i~~Ll~D 118 (123)
T cd03571 95 DENGKDQGINVREKAKEILELLED 118 (123)
T ss_pred CCCCCchhHHHHHHHHHHHHHhCC
Confidence 011225899999999999999965
No 34
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=37.29 E-value=2.6e+02 Score=23.71 Aligned_cols=76 Identities=16% Similarity=0.176 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHH
Q 041109 331 YRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLE 409 (467)
Q Consensus 331 f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~ 409 (467)
..+....|.+-+-.|++.++.+|=..|..-+-|- .+......-..++-||++|.+.+. ==++.||+.|..+-++|.
T Consensus 21 ~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni--~k~~~~~~l~~f~~IF~~L~kl~~-D~d~~Vr~~a~~Ld~llk 96 (97)
T PF12755_consen 21 ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNI--SKVARGEILPYFNEIFDALCKLSA-DPDENVRSAAELLDRLLK 96 (97)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHc-CCchhHHHHHHHHHHHhc
Confidence 5556666666677999999999988777544332 222222221235667777776543 336778888876665553
No 35
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=36.29 E-value=3e+02 Score=27.72 Aligned_cols=176 Identities=14% Similarity=0.120 Sum_probs=103.1
Q ss_pred HHHHHHHHhccCCCchHHHH--HHHHHHhhhccCCcchhhhHHHHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHh
Q 041109 236 LEIWGSIINGFTVPLKEEHK--LFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEV 313 (467)
Q Consensus 236 Leil~sIIngfa~PLKeeh~--~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~Kev 313 (467)
|.|++........++.+... ..+...++|-..+... .-...=..|+..++--|.+++...+.-+.+---.....=.+
T Consensus 4 L~i~~~lL~~~~~~~~~~~~l~~ll~~lI~P~v~~~~~-~vR~~al~cLGl~~Lld~~~a~~~l~l~~~~~~~~~~~v~~ 82 (298)
T PF12719_consen 4 LSITQSLLENVSSSLSPNISLESLLDSLILPAVQSSDP-AVRELALKCLGLCCLLDKELAKEHLPLFLQALQKDDEEVKI 82 (298)
T ss_pred HHHHHHHHHhccccCCCcchHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHhCCHHHHH
Confidence 55556666655555555433 6777888888888877 34556677888888888888887777766666555666666
Q ss_pred HHHHHHHHHhhcCChHHHHHHH--------HHHHHHHhHhhCCCCHHHHHHHH----Hh-----hcc-hhHHH-HHh---
Q 041109 314 LLIGELEELVDSIDPAQYRRLA--------LPLCTKITKCLNSCNSEVAERAL----YV-----WNN-EQFVR-MVS--- 371 (467)
Q Consensus 314 lFL~el~~ile~~~~~~f~~i~--------~~lf~~la~ci~S~h~qVAErAL----~~-----w~N-~~~~~-li~--- 371 (467)
.-|+-+.+++..-+.+.+.... ..+.+.+.+.+.|.+-.|-..|. .+ +.+ +.++. ++.
T Consensus 83 ~al~~l~Dll~~~g~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~a~EGl~KLlL~~~i~~~~~vL~~Lll~yF 162 (298)
T PF12719_consen 83 TALKALFDLLLTHGIDIFDSESDNDESVDSKSLLKILTKFLDSENPELQAIAVEGLCKLLLSGRISDPPKVLSRLLLLYF 162 (298)
T ss_pred HHHHHHHHHHHHcCchhccchhccCccchHhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence 7777777777665555544433 36667777777776633322221 21 222 22222 221
Q ss_pred -----h--ccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCH
Q 041109 372 -----S--SLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDP 413 (467)
Q Consensus 372 -----~--~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~ 413 (467)
+ .-+.++-+.||..-..+..| ...+......++..+.+...
T Consensus 163 ~p~t~~~~~LrQ~L~~Ffp~y~~s~~~~-Q~~l~~~f~~~l~~~~~~~~ 210 (298)
T PF12719_consen 163 NPSTEDNQRLRQCLSVFFPVYASSSPEN-QERLAEAFLPTLRTLSNAPD 210 (298)
T ss_pred CcccCCcHHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHHHHHHHhCcc
Confidence 1 12335555666555444444 45555556666666555543
No 36
>COG5218 YCG1 Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=35.30 E-value=3.5e+02 Score=30.84 Aligned_cols=120 Identities=13% Similarity=0.240 Sum_probs=78.2
Q ss_pred chhhhHHHHHHHHHHH--HhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhC
Q 041109 270 GMQAYHRQLAYCVSQF--VQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLN 347 (467)
Q Consensus 270 ~~~~y~~qL~~cv~qf--~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~ 347 (467)
.-..|...+...+... +.|+|+.++.+++++.++.- ..+..- |+. ..++.+.|+.+-+.+.
T Consensus 39 t~~~f~~~flr~vn~IL~~Kk~~si~dRil~fl~~f~~---------------Y~~~~d-peg-~~~V~~~~~h~lRg~e 101 (885)
T COG5218 39 TAHEFSEEFLRVVNTILACKKNPSIPDRILSFLKRFFE---------------YDMPDD-PEG-EELVAGTFYHLLRGTE 101 (885)
T ss_pred HHHhhHHHHHHHHHHhhccccCCCcHHHHHHHHHHHHH---------------hcCCCC-hhh-hHHHHHHHHHHHhccc
Confidence 3344455555555555 47888899999888876543 122222 222 6678899999999999
Q ss_pred CCCHHHHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHH-hhcc--ccHHHHHHHHHHHHHHHhcC
Q 041109 348 SCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKN-LKLH--WSKSVKQLTENVKVMLEQMD 412 (467)
Q Consensus 348 S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~-~~~H--Wn~~Vr~~a~~vl~~l~e~D 412 (467)
|+.-.|--|.+.+. .++.++.+.|=..++..|... ++.- --++||--|..+|.-+.+|-
T Consensus 102 skdk~VR~r~lqil------a~~~d~v~eIDe~l~N~L~ekl~~R~~DRE~~VR~eAv~~L~~~Qe~~ 163 (885)
T COG5218 102 SKDKKVRKRSLQIL------ALLSDVVREIDEVLANGLLEKLSERLFDREKAVRREAVKVLCYYQEME 163 (885)
T ss_pred CcchhHHHHHHHHH------HHHHHhcchHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhcc
Confidence 99999999999875 244555554444555544332 2222 35678888888888887664
No 37
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=34.14 E-value=6.4e+02 Score=30.38 Aligned_cols=131 Identities=12% Similarity=0.036 Sum_probs=0.0
Q ss_pred CCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccc--------cch
Q 041109 307 TNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLE--------DVF 378 (467)
Q Consensus 307 tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~--------~i~ 378 (467)
+.+.+.+.-|..+-.++-..+|+.|.+...++-..+..|+.-+-+||+-+||.+. ..+++.+..-.. .+=
T Consensus 490 sss~~ki~~L~fl~~~L~s~~p~~fhp~~~~Ls~~v~~aV~d~fyKisaEAL~v~--~~lvkvirpl~~~~~~d~~~~v~ 567 (1233)
T KOG1824|consen 490 SSSNLKIDALVFLYSALISHPPEVFHPHLSALSPPVVAAVGDPFYKISAEALLVC--QQLVKVIRPLQPPSSFDASPYVK 567 (1233)
T ss_pred chHHHHHHHHHHHHHHHhcCChhhcccchhhhhhHHHHHhcCchHhhhHHHHHHH--HHHHHHhcccCCCccCCCChhHH
Q ss_pred hhhhHHHHHHhhccccHHHHHHHHHHHHH----HHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041109 379 PVIVEGMEKNLKLHWSKSVKQLTENVKVM----LEQMDPNLYSKCLEATEIRESAARQEEMKRKE 439 (467)
Q Consensus 379 Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~----l~e~D~~lf~~~~~~~~~~~~~~~~~~~~r~~ 439 (467)
+++.-.+.+-..+-=++.||..|..++.+ |.|++..--..|+.-+.++-.++..+...-+.
T Consensus 568 ~m~~~tl~rL~a~d~DqeVkeraIscmgq~i~~fgD~l~~eL~~~L~il~eRl~nEiTRl~AvkA 632 (1233)
T KOG1824|consen 568 TMYDCTLQRLKATDSDQEVKERAISCMGQIIANFGDFLGNELPRTLPILLERLGNEITRLTAVKA 632 (1233)
T ss_pred HHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhchhHHHHHHHH
No 38
>PF07539 DRIM: Down-regulated in metastasis; InterPro: IPR011430 These eukaryotic proteins include DRIM (Down-Regulated In Metastasis) (O75691 from SWISSPROT), which is differentially expressed in metastatic and non-metastatic human breast carcinoma cells []. It is believed to be involved in processing of non-coding RNA [].
Probab=33.54 E-value=2.2e+02 Score=25.85 Aligned_cols=20 Identities=30% Similarity=0.385 Sum_probs=15.9
Q ss_pred hHHHHHHHHHHHHH-hhhhcc
Q 041109 187 LRERDSLKNIYHRI-YAKFTF 206 (467)
Q Consensus 187 prER~~LktiLhrI-Y~kf~~ 206 (467)
+..|..+-.++.|| |||...
T Consensus 83 ~ehR~~l~pvvlRILygk~~~ 103 (141)
T PF07539_consen 83 EEHRPELMPVVLRILYGKMQS 103 (141)
T ss_pred HHHHhHHHHHHHHHHHHHHhh
Confidence 78899999988886 887543
No 39
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.26 E-value=9.3e+02 Score=28.97 Aligned_cols=212 Identities=16% Similarity=0.180 Sum_probs=109.0
Q ss_pred CcchHHHHHHHHHHHhcCCc-h-hhhhcCCHHHHHHHHHhcCCCChHHHHHHHHHH-HHHhhhhccchHHHHHHHHHHHh
Q 041109 144 WPHLQIVYDILLRLVLHVDP-K-TLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIY-HRIYAKFTFYRSFMRKAMNDVFL 220 (467)
Q Consensus 144 WpHLqlVY~ill~fi~s~d~-~-~~k~~id~~Fi~~Ll~lf~S~DprER~~LktiL-hrIY~kf~~~R~~Irk~i~n~f~ 220 (467)
=+-++.+|+||.++.++..+ + ..++.=--.-+..|.+.+.-..|-+ +.+..+| ..++.-|.+-=.|+|.....++-
T Consensus 409 ~k~l~F~~~Il~~~~~~~~~~~~~rqkdGAL~~vgsl~~~L~K~s~~~-~~mE~flv~hVfP~f~s~~g~Lrarac~vl~ 487 (1010)
T KOG1991|consen 409 PKILSFIVDILTRYKEASPPNKNPRQKDGALRMVGSLASILLKKSPYK-SQMEYFLVNHVFPEFQSPYGYLRARACWVLS 487 (1010)
T ss_pred hhHHHHHHHHHHhhcccCCCccChhhhhhHHHHHHHHHHHHccCCchH-HHHHHHHHHHhhHhhcCchhHHHHHHHHHHH
Confidence 34688999999998877221 1 1122111234555665555555433 3333333 33555565555667777777777
Q ss_pred hhhhcc-CCccChHHHHHHHHHHHhccC----CCchHHHHHHHH---------------------HHhhhccCCcchhhh
Q 041109 221 QYNFET-EKHCGIGELLEIWGSIINGFT----VPLKEEHKLFLI---------------------RVLIPLHKSKGMQAY 274 (467)
Q Consensus 221 ~fi~e~-~~~~GI~ELLeil~sIIngfa----~PLKeeh~~fl~---------------------~vLlPLhk~~~~~~y 274 (467)
.|-.+. ...+-. ++++-...||+. +|.+-|-..-++ .-||-|.+ .|
T Consensus 488 ~~~~~df~d~~~l---~~ale~t~~~l~~d~~lPV~VeAalALq~fI~~~~~~~e~~~~hvp~~mq~lL~L~n-----e~ 559 (1010)
T KOG1991|consen 488 QFSSIDFKDPNNL---SEALELTHNCLLNDNELPVRVEAALALQSFISNQEQADEKVSAHVPPIMQELLKLSN-----EV 559 (1010)
T ss_pred HHHhccCCChHHH---HHHHHHHHHHhccCCcCchhhHHHHHHHHHHhcchhhhhhHhhhhhHHHHHHHHHHH-----hc
Confidence 766443 333333 344444444443 677754333221 11111111 11
Q ss_pred -HHHHHHHHHHHHhcCCC------------cHHHHHHHhhcc--CCCCCchhHhH---HHHHHHHHhhcCC--hHHHHHH
Q 041109 275 -HRQLAYCVSQFVQKEPA------------LGGLVARGILKY--WPVTNCRKEVL---LIGELEELVDSID--PAQYRRL 334 (467)
Q Consensus 275 -~~qL~~cv~qf~~kdp~------------L~~~vi~~llk~--WP~tns~Kevl---FL~el~~ile~~~--~~~f~~i 334 (467)
...|+.|+..++.+-+. |+..+++-+-.- ---+..-|++. +|+-|+.|+..++ |+-+..+
T Consensus 560 End~Lt~vme~iV~~fseElsPfA~eL~q~La~~F~k~l~~~~~~~~~~ddk~iaA~GiL~Ti~Til~s~e~~p~vl~~l 639 (1010)
T KOG1991|consen 560 ENDDLTNVMEKIVCKFSEELSPFAVELCQNLAETFLKVLQTSEDEDESDDDKAIAASGILRTISTILLSLENHPEVLKQL 639 (1010)
T ss_pred chhHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHhccCCCCccchHHHHHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence 12444444444443332 333333333320 11244566665 6677777777774 4456666
Q ss_pred HHHHHHHHhHhhCCCCHHHHHHHHHhhcch
Q 041109 335 ALPLCTKITKCLNSCNSEVAERALYVWNNE 364 (467)
Q Consensus 335 ~~~lf~~la~ci~S~h~qVAErAL~~w~N~ 364 (467)
...+...+...+.+.=..+-|.++.+-++-
T Consensus 640 e~~~l~vi~~iL~~~i~dfyeE~~ei~~~~ 669 (1010)
T KOG1991|consen 640 EPIVLPVIGFILKNDITDFYEELLEIVSSL 669 (1010)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHhhh
Confidence 666666677777777777777776555443
No 40
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. 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 protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form hom
Probab=32.56 E-value=41 Score=28.23 Aligned_cols=39 Identities=13% Similarity=0.247 Sum_probs=35.2
Q ss_pred HHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHH
Q 041109 173 RFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFM 211 (467)
Q Consensus 173 ~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~I 211 (467)
.=+.+|+++..|--....++...+|+..|+-+..+|+|.
T Consensus 46 dkmRkLld~v~akG~~~k~~F~~iL~e~~~~y~~~~~~~ 84 (85)
T cd08324 46 DKVRKILDLVQSKGEEVSEYFLYLLQQLADAYVDLRPWL 84 (85)
T ss_pred HHHHHHHHHHHhcCchHHHHHHHHHHHHHHhhhhhhccc
Confidence 345679999999999999999999999999999999985
No 41
>KOG1967 consensus DNA repair/transcription protein Mms19 [Replication, recombination and repair; Transcription]
Probab=31.96 E-value=4.7e+02 Score=31.21 Aligned_cols=111 Identities=8% Similarity=-0.005 Sum_probs=77.0
Q ss_pred HHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcch--hHHHHHhhc
Q 041109 296 VARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNE--QFVRMVSSS 373 (467)
Q Consensus 296 vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~--~~~~li~~~ 373 (467)
++-.++.+.-.....-...++.-+..++..+|-+...+-...|+..|-+|++-+..-|--.++..+.-- ..-.++..+
T Consensus 868 ivP~l~~~~~t~~~~~K~~yl~~LshVl~~vP~~vllp~~~~LlPLLLq~Ls~~D~~v~vstl~~i~~~l~~~~tL~t~~ 947 (1030)
T KOG1967|consen 868 IVPILVSKFETAPGSQKHNYLEALSHVLTNVPKQVLLPQFPMLLPLLLQALSMPDVIVRVSTLRTIPMLLTESETLQTEH 947 (1030)
T ss_pred hHHHHHHHhccCCccchhHHHHHHHHHHhcCCHHhhccchhhHHHHHHHhcCCCccchhhhHhhhhhHHHHhccccchHH
Confidence 444455555533334445678888888888888888888999999999999998888744444333211 112355667
Q ss_pred cccchhhhhHHHHHHhhcccc--HHHHHHHHHHHHHHHh
Q 041109 374 LEDVFPVIVEGMEKNLKLHWS--KSVKQLTENVKVMLEQ 410 (467)
Q Consensus 374 ~~~i~Pii~~~L~~~~~~HWn--~~Vr~~a~~vl~~l~e 410 (467)
-.+++|.+ ...++.|=| ..||..|.+.|.+|.+
T Consensus 948 ~~Tlvp~l----Lsls~~~~n~~~~VR~~ALqcL~aL~~ 982 (1030)
T KOG1967|consen 948 LSTLVPYL----LSLSSDNDNNMMVVREDALQCLNALTR 982 (1030)
T ss_pred HhHHHHHH----HhcCCCCCcchhHHHHHHHHHHHHHhc
Confidence 77777764 445555654 8999999999999999
No 42
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=31.85 E-value=1.8e+02 Score=26.75 Aligned_cols=80 Identities=10% Similarity=0.165 Sum_probs=44.5
Q ss_pred HHHHHHHHHhcCCCChHH-HHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhhhcc----CCccChHHHHHHHHHHHhcc
Q 041109 172 HRFLTNLLSLFQSEDLRE-RDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNFET----EKHCGIGELLEIWGSIINGF 246 (467)
Q Consensus 172 ~~Fi~~Ll~lf~S~DprE-R~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi~e~----~~~~GI~ELLeil~sIIngf 246 (467)
..++..|+..++++||.- .......|.+||..--+.-.+.|.....-+-.|+--- +......+.|+.+...+.-+
T Consensus 66 ~~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~~~~~~p~l~Rei~tp~l~~~i~~ll~l~~~~~~~~~~l~~L~~ll~~~ 145 (165)
T PF08167_consen 66 SQWLRALLSILEKPDPPSVLEAAIITLTRLFDLIRGKPTLTREIATPNLPKFIQSLLQLLQDSSCPETALDALATLLPHH 145 (165)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcCCCchHHHHhhccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHC
Confidence 356677777777766654 6677777888887666666666665554444332111 11223344445554544444
Q ss_pred CCCch
Q 041109 247 TVPLK 251 (467)
Q Consensus 247 a~PLK 251 (467)
....+
T Consensus 146 ptt~r 150 (165)
T PF08167_consen 146 PTTFR 150 (165)
T ss_pred Ccccc
Confidence 44443
No 43
>KOG4553 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.08 E-value=1e+03 Score=29.12 Aligned_cols=167 Identities=19% Similarity=0.179 Sum_probs=80.7
Q ss_pred CCCCHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCcccccCCCCCCCcchHHHHHHHHHHHhcCCchhhhhcCCHHHH
Q 041109 96 KQLDDYILSHLISMISANLFRPLPPPISTPITGDLPEDEELFSSPQPLWPHLQIVYDILLRLVLHVDPKTLRDYIDHRFL 175 (467)
Q Consensus 96 ~~l~e~i~~~i~~Mi~~NiFR~lPp~~~~~~~~~~~~edep~~~~e~sWpHLqlVY~ill~fi~s~d~~~~k~~id~~Fi 175 (467)
..+..+...++++|=++|=--=.| -|+ + .|.-|-| .+|-..++|.|.+-- .-+.+.+.+.+
T Consensus 327 ~~l~~~~l~A~~dm~~~~~~~w~~------------~e~-~---Ee~~~~~-~iv~~~ilrvVkn~~--~er~hv~~sl~ 387 (1398)
T KOG4553|consen 327 IQLCLDRLDAMMDMKKTFQKLWKI------------GEQ-A---EECLWMS-DIVCGRILRVVKNQL--SERLHVNESLR 387 (1398)
T ss_pred hhhhHHHHHHHHHHHHHHhhhccc------------ccc-H---HHHHHHH-HHHHHHHHHHHHhhh--hhhhhcchHHH
Confidence 456666667777776655211111 011 0 2333544 788888888886621 23455566666
Q ss_pred HHHHHhcCCCCh--------------HHHHH---HHHHHHHHhhhhccchHHHHHHHH-HHHhhhhhccCCccChHHHHH
Q 041109 176 TNLLSLFQSEDL--------------RERDS---LKNIYHRIYAKFTFYRSFMRKAMN-DVFLQYNFETEKHCGIGELLE 237 (467)
Q Consensus 176 ~~Ll~lf~S~Dp--------------rER~~---LktiLhrIY~kf~~~R~~Irk~i~-n~f~~fi~e~~~~~GI~ELLe 237 (467)
....-++.|=|+ .-|-. ..-++.+|-+--......+|..|. .++.+++... .-..+..+++
T Consensus 388 ~~gf~ll~S~~l~~Vl~g~~~q~~dskgrv~~g~~~kL~~~ill~~fk~Hdm~r~eileq~~kRi~s~~-~~S~~~i~id 466 (1398)
T KOG4553|consen 388 RIGFRLLISLMLLLVLPGYQKQVVDSKGRVADGCTLKLLSRILLIIFKQHDMDRGEILEQLFKRIASSS-NNSSALILID 466 (1398)
T ss_pred HHhhHHHHhhhhhhcccchhhcccccccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhc-cccchHHHHH
Confidence 555555555222 11111 223333333322222222232222 2344444431 1122333444
Q ss_pred HHHHHHhccCCC-----------------chHHHHHHHHHHhhhccCCcchhhhHHHHHHHHHHHHhc
Q 041109 238 IWGSIINGFTVP-----------------LKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQK 288 (467)
Q Consensus 238 il~sIIngfa~P-----------------LKeeh~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~k 288 (467)
.++-++...++- +.-+...++.++++||+|. .++|-.|...-+.|
T Consensus 467 ll~~lv~~~sL~~l~~s~~v~Elfdy~~fm~g~is~rLi~aviPLiK~------S~~lRDalIlVLrK 528 (1398)
T KOG4553|consen 467 LLRELVRKCSLEILNNSKLVDELFDYVCFMRGDISVRLIRAVIPLIKT------SPQLRDALILVLRK 528 (1398)
T ss_pred HHHHHHHhcchHHHhhhHHHHHHHHHHHhccchHHHHHHHHHHHHHhc------CHHHHHHHHHHHHH
Confidence 555444433321 2225667889999999986 45666666655554
No 44
>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=28.68 E-value=4.1e+02 Score=23.44 Aligned_cols=78 Identities=22% Similarity=0.180 Sum_probs=59.1
Q ss_pred HHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHH-HHHHHHhHhhC---CCCHHHHHHHHH
Q 041109 284 QFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLAL-PLCTKITKCLN---SCNSEVAERALY 359 (467)
Q Consensus 284 qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~-~lf~~la~ci~---S~h~qVAErAL~ 359 (467)
-.+..++.-+..+++.|.|.==..|+.-+..-|..++.++..+++.-...+.. .....+.+.+. ..+.+|-++++.
T Consensus 26 d~I~~~~~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~fl~~l~~l~~~~~~~~~~Vk~kil~ 105 (133)
T cd03561 26 DLINLKPNGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKEFLLELVKIAKNSPKYDPKVREKALE 105 (133)
T ss_pred HHHhCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence 34456677777888888777777899999999999999999998866666665 44455556665 468899999886
Q ss_pred hh
Q 041109 360 VW 361 (467)
Q Consensus 360 ~w 361 (467)
+.
T Consensus 106 ll 107 (133)
T cd03561 106 LI 107 (133)
T ss_pred HH
Confidence 65
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=28.47 E-value=3.2e+02 Score=22.09 Aligned_cols=65 Identities=17% Similarity=0.164 Sum_probs=41.0
Q ss_pred HHHHHHhHhhCCCCHHHHHHHHHhhcchh-----HHHHHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHH
Q 041109 337 PLCTKITKCLNSCNSEVAERALYVWNNEQ-----FVRMVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVML 408 (467)
Q Consensus 337 ~lf~~la~ci~S~h~qVAErAL~~w~N~~-----~~~li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l 408 (467)
.++..+..++++++..|.+.|+..+.|=- ....+. ...++|.+...+... +..++..+..++.-|
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~--~~g~l~~l~~~l~~~-----~~~~~~~a~~~l~~l 118 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVL--EAGGVPKLVNLLDSS-----NEDIQKNATGALSNL 118 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHHH--HCCChHHHHHHHhcC-----CHHHHHHHHHHHHHh
Confidence 67788888888999999999887665431 111111 122566665554322 667787777777654
No 46
>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=27.95 E-value=2e+02 Score=23.31 Aligned_cols=71 Identities=14% Similarity=-0.014 Sum_probs=40.2
Q ss_pred HHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHH-HHHHHHhhhhhccCCccChHHHHHHHHHHHhc
Q 041109 174 FLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRK-AMNDVFLQYNFETEKHCGIGELLEIWGSIING 245 (467)
Q Consensus 174 Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk-~i~n~f~~fi~e~~~~~GI~ELLeil~sIIng 245 (467)
.+..|++++++.|++-|...-..|..+-......+..+.+ .+-..+..++... .+.-....+..++.+..+
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~-~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSE-DEEVVKAALWALRNLAAG 79 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCC-CHHHHHHHHHHHHHHccC
Confidence 5667888888888888888888888876653333333322 3334444444332 233334445555555444
No 47
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=27.58 E-value=3.6e+02 Score=22.48 Aligned_cols=50 Identities=10% Similarity=0.205 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHH
Q 041109 170 IDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVF 219 (467)
Q Consensus 170 id~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f 219 (467)
.-+.|+..++..--.+...+|++.-.++.+++.+-.....-+.+++...+
T Consensus 33 ~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~~~~~~~gf~~~l 82 (113)
T PF02847_consen 33 QHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLISKEQFQEGFEDLL 82 (113)
T ss_dssp GHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence 34467777777766668888888888888888765555555555555444
No 48
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.41 E-value=1.2e+03 Score=28.22 Aligned_cols=150 Identities=13% Similarity=0.125 Sum_probs=82.7
Q ss_pred chHHHHHHHHHHhhhccCCcchhhhHHHHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChH
Q 041109 250 LKEEHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPA 329 (467)
Q Consensus 250 LKeeh~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~ 329 (467)
+|+-...++..|++||.+..--.. -..+.|| ...+|.=..+|--..|+. +.-+..+..+..+-..+
T Consensus 341 l~PHl~~ii~~vIFPlmc~~d~de----------elwe~DP---~EYiR~~~Di~ed~~sp~-~Aa~~~l~~~~~KR~ke 406 (1010)
T KOG1991|consen 341 LKPHLQVIIQDVIFPLMCFNDEDE----------ELWEEDP---YEYIRKKFDIFEDGYSPD-TAALDFLTTLVSKRGKE 406 (1010)
T ss_pred hhhHHHHHHHHhhhhhcCCCcccH----------HHHhcCH---HHHHHhcCchhcccCCCc-HHHHHHHHHHHHhcchh
Confidence 345556677899999987654321 1223444 233333344444333322 22234445555666667
Q ss_pred HHHHHHHHHHHHHhHhhC----CCCHHHHHHHHHhhcchhHHHHHhhcc-------ccchhhhhHHHHHHhhccccHHHH
Q 041109 330 QYRRLALPLCTKITKCLN----SCNSEVAERALYVWNNEQFVRMVSSSL-------EDVFPVIVEGMEKNLKLHWSKSVK 398 (467)
Q Consensus 330 ~f~~i~~~lf~~la~ci~----S~h~qVAErAL~~w~N~~~~~li~~~~-------~~i~Pii~~~L~~~~~~HWn~~Vr 398 (467)
.|.+++.=+..++.+... -.+..-.+-||.+..+-. +.+.+.+ .-+++.++|.+... ..-.|
T Consensus 407 ~l~k~l~F~~~Il~~~~~~~~~~~~~rqkdGAL~~vgsl~--~~L~K~s~~~~~mE~flv~hVfP~f~s~-----~g~Lr 479 (1010)
T KOG1991|consen 407 TLPKILSFIVDILTRYKEASPPNKNPRQKDGALRMVGSLA--SILLKKSPYKSQMEYFLVNHVFPEFQSP-----YGYLR 479 (1010)
T ss_pred hhhhHHHHHHHHHHhhcccCCCccChhhhhhHHHHHHHHH--HHHccCCchHHHHHHHHHHHhhHhhcCc-----hhHHH
Confidence 776665554444443333 356677788887776533 4443322 23566667755433 23467
Q ss_pred HHHHHHHHHHHhcC---HHHHHHHH
Q 041109 399 QLTENVKVMLEQMD---PNLYSKCL 420 (467)
Q Consensus 399 ~~a~~vl~~l~e~D---~~lf~~~~ 420 (467)
..|+-++..+.++| +..+.++.
T Consensus 480 arac~vl~~~~~~df~d~~~l~~al 504 (1010)
T KOG1991|consen 480 ARACWVLSQFSSIDFKDPNNLSEAL 504 (1010)
T ss_pred HHHHHHHHHHHhccCCChHHHHHHH
Confidence 88888888888776 55554443
No 49
>KOG1243 consensus Protein kinase [General function prediction only]
Probab=26.93 E-value=4.2e+02 Score=30.41 Aligned_cols=176 Identities=15% Similarity=0.167 Sum_probs=103.8
Q ss_pred cCCHHHHHHHHHhcCCC------ChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhhhccCC-----ccChHHHHH
Q 041109 169 YIDHRFLTNLLSLFQSE------DLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYNFETEK-----HCGIGELLE 237 (467)
Q Consensus 169 ~id~~Fi~~Ll~lf~S~------DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi~e~~~-----~~GI~ELLe 237 (467)
++|.-.+..|+.-+-+. |.+-++.+...+|-+|.|-++.-..-|.. ..+|+.+.+. .|+--+++.
T Consensus 183 s~D~~~Lg~li~el~ng~~~~~~~~~~~~~ipk~~~~~~~k~~~~~~~~r~n----~~~~~~~~~~~~gff~n~fvd~~~ 258 (690)
T KOG1243|consen 183 SIDSWGLGCLIEELFNGSLLTKTDLSNTGKIPKALIELYCKKLGATELKRPN----KLRFILECRLLGGFFRNDFVDTLL 258 (690)
T ss_pred chhhhhHHHHHHHHhCcccCcchhhhccCccchhHHHHHHHHhccccccccc----hhhHHHHHHhccccccchHHHHHH
Confidence 45666666666655555 77777777777777775544443333332 2233333221 122222222
Q ss_pred HHHHHHhccCCCchHH--HHHHH---------------HHHhhhccCCcch-----hhhHHHHHHHHHHHHhcCCCcHHH
Q 041109 238 IWGSIINGFTVPLKEE--HKLFL---------------IRVLIPLHKSKGM-----QAYHRQLAYCVSQFVQKEPALGGL 295 (467)
Q Consensus 238 il~sIIngfa~PLKee--h~~fl---------------~~vLlPLhk~~~~-----~~y~~qL~~cv~qf~~kdp~L~~~ 295 (467)
+| +.++||++ -..|+ .+.++|+.-...- ..|-..|..|..-+ ...+ .-..
T Consensus 259 fL------eel~lks~~eK~~Ff~~L~~~l~~~pe~i~~~kvlp~Ll~~~~~g~a~~~~ltpl~k~~k~l-d~~e-yq~~ 330 (690)
T KOG1243|consen 259 FL------EELRLKSVEEKQKFFSGLIDRLDNFPEEIIASKVLPILLAALEFGDAASDFLTPLFKLGKDL-DEEE-YQVR 330 (690)
T ss_pred HH------HhcccCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhccccchhhhhHHHHhhhhc-cccc-cccc
Confidence 22 23444432 22232 4455554433321 22333344443322 2222 4456
Q ss_pred HHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHH
Q 041109 296 VARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALY 359 (467)
Q Consensus 296 vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~ 359 (467)
++-.|++-+-..+.+--+..|.-++...+.+++++.. .++|.+++..+.+.+--+-|.++.
T Consensus 331 i~p~l~kLF~~~Dr~iR~~LL~~i~~~i~~Lt~~~~~---d~I~phv~~G~~DTn~~Lre~Tlk 391 (690)
T KOG1243|consen 331 IIPVLLKLFKSPDRQIRLLLLQYIEKYIDHLTKQILN---DQIFPHVALGFLDTNATLREQTLK 391 (690)
T ss_pred hhhhHHHHhcCcchHHHHHHHHhHHHHhhhcCHHhhc---chhHHHHHhhcccCCHHHHHHHHH
Confidence 7777888888899999999999999999999988765 567999999999999888888763
No 50
>PF09059 TyeA: TyeA; InterPro: IPR015144 This domain is composed of two pairs of parallel alpha-helices, and interacts with the bacterial protein YopN via hydrophobic residues located on the helices. Association of TyeA with the C terminus of YopN is accompanied by conformational changes in both polypeptides that create order out of disorder: the resulting structure then serves as an impediment to type III secretion of YopN []. ; PDB: 1XL3_D.
Probab=26.16 E-value=84 Score=26.50 Aligned_cols=47 Identities=13% Similarity=0.235 Sum_probs=34.6
Q ss_pred hcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHH
Q 041109 287 QKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRR 333 (467)
Q Consensus 287 ~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~ 333 (467)
...+.+...-+..+..-=+..++..+|.|+.++-+++..+|.+-|..
T Consensus 16 ~eq~Wi~~~~i~~l~~~~~~~d~e~qI~Flrel~~l~r~~Pv~vF~D 62 (87)
T PF09059_consen 16 VEQRWIGPSQIERLAEALGLPDIEQQILFLRELKELFRLMPVDVFND 62 (87)
T ss_dssp HHSTT--HHHHHHHHHCT--SSHHHHHHHHHHHHHHHHTS-GGGSS-
T ss_pred hcCcCcCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHCcHHhcCC
Confidence 45577777888888888889999999999999999999888666543
No 51
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.99 E-value=9.5e+02 Score=26.76 Aligned_cols=56 Identities=11% Similarity=0.087 Sum_probs=45.2
Q ss_pred HhcCCchhhhhcCCHHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHH
Q 041109 158 VLHVDPKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRK 213 (467)
Q Consensus 158 i~s~d~~~~k~~id~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk 213 (467)
|.+-....-+-.++..=+--++.++.|++.+=|++---.|-.|-|.-..+|-++.+
T Consensus 137 IAsgtse~T~~vv~agavp~fi~Ll~s~~~~v~eQavWALgNIagds~~~Rd~vl~ 192 (514)
T KOG0166|consen 137 IASGTSEQTKVVVDAGAVPIFIQLLSSPSADVREQAVWALGNIAGDSPDCRDYVLS 192 (514)
T ss_pred HhcCchhhccccccCCchHHHHHHhcCCcHHHHHHHHHHHhccccCChHHHHHHHh
Confidence 44444444556677777777999999999999999999999999999998888765
No 52
>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=25.96 E-value=1.4e+02 Score=19.47 Aligned_cols=28 Identities=21% Similarity=0.211 Sum_probs=22.1
Q ss_pred HHHHHHhcCCCChHHHHHHHHHHHHHhh
Q 041109 175 LTNLLSLFQSEDLRERDSLKNIYHRIYA 202 (467)
Q Consensus 175 i~~Ll~lf~S~DprER~~LktiLhrIY~ 202 (467)
+-.++.++.++|++-|...-..|..|..
T Consensus 2 lp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 2 LPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 3457888999999999999888888754
No 53
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=25.79 E-value=4.4e+02 Score=29.59 Aligned_cols=110 Identities=19% Similarity=0.273 Sum_probs=76.5
Q ss_pred HHHHHHHHHHhccCCCchHHHH----HHHHHHhhhccCCcchhhhHHHHHHHHH--HHHhcCCCcHHHHHHHhhccCCCC
Q 041109 234 ELLEIWGSIINGFTVPLKEEHK----LFLIRVLIPLHKSKGMQAYHRQLAYCVS--QFVQKEPALGGLVARGILKYWPVT 307 (467)
Q Consensus 234 ELLeil~sIIngfa~PLKeeh~----~fl~~vLlPLhk~~~~~~y~~qL~~cv~--qf~~kdp~L~~~vi~~llk~WP~t 307 (467)
-|.+++-+|...|..-+.+||. ....+.++-+-|.++.+.-..- ..+. ..-+|+..+...|+.|+-|-.|..
T Consensus 306 ~lv~vyf~~f~kfl~n~~ke~~~~s~~leek~~~~~~Knk~s~K~~k~--e~~rkev~~eknS~~~savLtG~nRa~pfa 383 (821)
T COG5593 306 KLVKVYFSIFRKFLENIPKEHRVNSNILEEKLVIGLGKNKGSEKICKT--EIIRKEVHTEKNSFYGSAVLTGCNRAGPFA 383 (821)
T ss_pred HHHHHHHHHHHHHHhcCchhhcccchhHHHHHHhhhccCCCCcccccH--HHHHHHHHHhhhhHHHHHHHhcccccCchh
Confidence 3467889999998888878886 5666778888888777654321 1111 233688889999999999999932
Q ss_pred CchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhH
Q 041109 308 NCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQF 366 (467)
Q Consensus 308 ns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~ 366 (467)
.+..+.|..-+..+|++.- +.+|-+.++|+.+.+.+..
T Consensus 384 -----------------~l~~~~~~~Hm~tlfkith----~~~fnts~qalmli~q~~~ 421 (821)
T COG5593 384 -----------------LLFRNAVKSHMMTLFKITH----EFLFNTSEQALMLIDQEFY 421 (821)
T ss_pred -----------------hhhHHHHHHHHHHHHhhhh----hhhhhHHHHHHHHHHHHHH
Confidence 3445567777777777765 4457788888877765543
No 54
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=25.66 E-value=1.7e+03 Score=29.48 Aligned_cols=75 Identities=7% Similarity=0.051 Sum_probs=45.3
Q ss_pred CCHHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHH-HHHHHHhhhhhccCCccChHHHHHHHHHHHhc
Q 041109 170 IDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRK-AMNDVFLQYNFETEKHCGIGELLEIWGSIING 245 (467)
Q Consensus 170 id~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk-~i~n~f~~fi~e~~~~~GI~ELLeil~sIIng 245 (467)
++..-|-.|+.++.|+|++-|..--..|.++-..--+.|..|.. ..-..+.+++.. ..+.+..+.++.+.+++.+
T Consensus 485 ieaGaIP~LV~LL~s~~~~iqeeAawAL~NLa~~~~qir~iV~~aGAIppLV~LL~s-gd~~~q~~Aa~AL~nLi~~ 560 (2102)
T PLN03200 485 TAAGGIPPLVQLLETGSQKAKEDSATVLWNLCCHSEDIRACVESAGAVPALLWLLKN-GGPKGQEIAAKTLTKLVRT 560 (2102)
T ss_pred HHCCCHHHHHHHHcCCCHHHHHHHHHHHHHHhCCcHHHHHHHHHCCCHHHHHHHHhC-CCHHHHHHHHHHHHHHHhc
Confidence 34566888999999999999999999888876532223333321 111223343322 2445556666666666554
No 55
>KOG2274 consensus Predicted importin 9 [Intracellular trafficking, secretion, and vesicular transport; Nuclear structure]
Probab=25.18 E-value=1.2e+03 Score=27.82 Aligned_cols=214 Identities=19% Similarity=0.192 Sum_probs=115.3
Q ss_pred HHHHHHHHhcCCCChHHHHHHHHHHHHH-----hhhh-----------ccchHHHHHHHHHHHhhhhhccCCccChHHHH
Q 041109 173 RFLTNLLSLFQSEDLRERDSLKNIYHRI-----YAKF-----------TFYRSFMRKAMNDVFLQYNFETEKHCGIGELL 236 (467)
Q Consensus 173 ~Fi~~Ll~lf~S~DprER~~LktiLhrI-----Y~kf-----------~~~R~~Irk~i~n~f~~fi~e~~~~~GI~ELL 236 (467)
+-|..++.-..|+|+.=|.+-.+=+... ||+. ++.| +..-=.+.+||.+.=.++ -
T Consensus 4 ~~ii~~L~~~ls~d~~vr~~AE~~l~qle~~~~f~~aL~~va~~~~~sl~lR----Q~A~v~L~~yie~hW~~~-----~ 74 (1005)
T KOG2274|consen 4 QAIIELLSGSLSADQNVRSQAETQLKQLELTEGFGVALAEVAANKDASLPLR----QIALVLLKRYIEKHWSPN-----F 74 (1005)
T ss_pred HHHHHHHHhhcCCChhHHHHHHHHHhccccchHHHHHHHHHHhCcccCchHH----HHHHHHHHHHHHHhCCCh-----H
Confidence 4466777888899999998887766542 1111 1112 111123344443321111 0
Q ss_pred HHHHHHHhccCCCc--hHHHHHHHHHHhhhccCCcchhhhHHHHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhH
Q 041109 237 EIWGSIINGFTVPL--KEEHKLFLIRVLIPLHKSKGMQAYHRQLAYCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVL 314 (467)
Q Consensus 237 eil~sIIngfa~PL--Keeh~~fl~~vLlPLhk~~~~~~y~~qL~~cv~qf~~kdp~L~~~vi~~llk~WP~tns~Kevl 314 (467)
| .|--|. .++-|.+.+..|+-+|- ..-..--+..+||+++...-| ||
T Consensus 75 E-------~fr~~~~~~e~~K~~IRe~Ll~~l~-~sn~ki~~~vay~is~Ia~~D--------------~P--------- 123 (1005)
T KOG2274|consen 75 E-------AFRYPLIVSEEVKALIREQLLNLLD-DSNSKIRSAVAYAISSIAAVD--------------YP--------- 123 (1005)
T ss_pred h-------hccCCCcccHHHHHHHHHHHHhhhh-ccccccchHHHHHHHHHHhcc--------------Cc---------
Confidence 0 111222 35667777777777777 555555667777777665443 44
Q ss_pred HHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhhccccchhhhhHHHHHHhhc--c
Q 041109 315 LIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSSSLEDVFPVIVEGMEKNLKL--H 392 (467)
Q Consensus 315 FL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~~~~~i~Pii~~~L~~~~~~--H 392 (467)
+++. .++..|-+|++|.|.+=.-.||.+|+. -.-.+..+-...+.|+.++.+++.-+- -
T Consensus 124 --------------d~Wp----Elv~~i~~~l~~~n~n~i~~am~vL~e-l~~ev~~ee~~~~~~~~l~~m~~~f~~~~~ 184 (1005)
T KOG2274|consen 124 --------------DEWP----ELVPFILKLLSSGNENSIHGAMRVLAE-LSDEVDVEEMFFVGPVSLAEMYRIFALTIV 184 (1005)
T ss_pred --------------hhhH----HHHHHHHHHHhccchhhhhhHHHHHHH-HHHHHHHHHHhcccccchhhhhhhhhhccc
Confidence 3333 456667777777776666677777742 112233333445667777777764332 2
Q ss_pred ccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhcCC
Q 041109 393 WSKSVKQLTENVKVMLEQMDPNLYSKCLEATEIRESA----ARQEEMKRKEKWRRIETLAAAKKQN 454 (467)
Q Consensus 393 Wn~~Vr~~a~~vl~~l~e~D~~lf~~~~~~~~~~~~~----~~~~~~~r~~~W~~i~~~A~~~~~~ 454 (467)
-+.+.|-.+.. -++|.+|+......++. ++.--......|..+....-+....
T Consensus 185 ~s~~~~~~aa~---------~~lf~sc~~li~~~~e~~~~~~~~~~s~~l~~~~~~l~h~l~~~~g 241 (1005)
T KOG2274|consen 185 YSIITRLGAAR---------GKLFTSCLTLITNVEEVWAEHVKVFLSQILNQFMDILEHPLQRNDG 241 (1005)
T ss_pred cchhHHHHhhh---------hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccc
Confidence 23333322222 36788888765544322 2333345677788877776554333
No 56
>PF12290 DUF3802: Protein of unknown function (DUF3802); InterPro: IPR020979 This family of proteins is found in bacteria and are typically between 114 and 143 amino acids in length. There is a conserved KNLFD sequence motif. The annotation with this family suggests that it may be the B subunit of bacterial type IIA DNA topoisomerase but there is no evidence to support this annotation.
Probab=25.16 E-value=2.1e+02 Score=25.36 Aligned_cols=53 Identities=15% Similarity=0.255 Sum_probs=41.9
Q ss_pred hhHHHHHHHHHHHHhcCCCcHHHHH---------------HHhhccCCCCCchhHhHHHHHHHHHhhc
Q 041109 273 AYHRQLAYCVSQFVQKEPALGGLVA---------------RGILKYWPVTNCRKEVLLIGELEELVDS 325 (467)
Q Consensus 273 ~y~~qL~~cv~qf~~kdp~L~~~vi---------------~~llk~WP~tns~KevlFL~el~~ile~ 325 (467)
.+..+++.=+..+|+++|.|...+= .-|-+.|-+--+..|+.||+|...++-.
T Consensus 38 ~vee~ia~~im~vc~Qnp~L~~~~R~~iirE~Daiv~DLeEVLa~V~~~~aT~eQ~~Fi~Ef~~LiKN 105 (113)
T PF12290_consen 38 VVEEQIASQIMAVCEQNPELEFSQRFQIIREADAIVYDLEEVLASVWNQKATNEQIAFIEEFIGLIKN 105 (113)
T ss_pred HHHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 4577899999999999999975432 2345789999999999999998877643
No 57
>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=24.79 E-value=5.3e+02 Score=23.41 Aligned_cols=78 Identities=13% Similarity=0.103 Sum_probs=59.1
Q ss_pred HHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHH-HHHHHhHhhCC-CCHHHHHHHHHhhc
Q 041109 285 FVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALP-LCTKITKCLNS-CNSEVAERALYVWN 362 (467)
Q Consensus 285 f~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~-lf~~la~ci~S-~h~qVAErAL~~w~ 362 (467)
.+..++.-+..+++.|.|-==..|+.-+..-|..++.++..++..-...++.. +...+.+.++. .|..|-++++.+..
T Consensus 27 ~I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask~Fl~eL~kl~~~~~~~~Vk~kil~li~ 106 (144)
T cd03568 27 KVKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASRDFTQELKKLINDRVHPTVKEKLREVVK 106 (144)
T ss_pred HHhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHhcccCCHHHHHHHHHHHH
Confidence 34456777777777777666668999999999999999999987665555443 45566666666 89999999887653
No 58
>PF06757 Ins_allergen_rp: Insect allergen related repeat, nitrile-specifier detoxification; InterPro: IPR010629 This entry represents several insect specific allergen repeats. These repeats are commonly found in various proteins from cockroaches, fruit flies and mosquitos. It has been suggested that the repeat sequences have evolved by duplication of an ancestral amino acid domain, which may have arisen from the mitochondrial energy transfer proteins []. This family exemplifies a case of novel gene evolution. The case in point is the arms-race between plants and their infective insective herbivores in the area of the glucosinolate-myrosinase system. Brassicas have developed the glucosinolate-myrosinase system as chemical defence mechanism against the insects, and consequently the insects have adapted to produce a detoxifying molecule, nitrile-specifier protein (NSP). NSP is present in the Pieris rapae (Cabbage white butterfly). NSP is structurally different from and has no amino acid homology to any known detoxifying enzymes, and it appears to have arisen by a process of domain and gene duplication of a sequence of unknown function that is widespread in insect species and referred to as insect-allergen-repeat protein. Thus this family is found either as a single domain or as a multiple repeat-domain [].
Probab=24.77 E-value=4.6e+02 Score=24.44 Aligned_cols=57 Identities=19% Similarity=0.335 Sum_probs=41.0
Q ss_pred HHHHHHHHHhhcCChHHHHHHHH------HHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHHhh
Q 041109 314 LLIGELEELVDSIDPAQYRRLAL------PLCTKITKCLNSCNSEVAERALYVWNNEQFVRMVSS 372 (467)
Q Consensus 314 lFL~el~~ile~~~~~~f~~i~~------~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li~~ 372 (467)
-+=+.+.+++..+|-+++..+.. +.|+..-+.+.|+.||-.-.+ +|+|+.+..++..
T Consensus 102 g~~g~~~di~~~lP~~~l~aL~~~K~~~s~~F~~f~~~l~S~ef~~~~~~--~~~~~~~~~~~~~ 164 (179)
T PF06757_consen 102 GLNGFVDDILALLPRDKLRALYEEKLATSPEFAEFVEALRSPEFQQLYNA--LWASPEFQRLLNE 164 (179)
T ss_pred CHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHcCHHHHHHHHH--HHcCHHHHHHHHH
Confidence 34455666666677777765544 689999999999999855554 5788888777643
No 59
>PF04499 SAPS: SIT4 phosphatase-associated protein; InterPro: IPR007587 The SAPS family consists of proteins that associate with the SIT4 phosphatase protein []. This association is required for SIT4's role in G1 cyclin transcription and for bud formation in yeast.
Probab=24.53 E-value=3e+02 Score=30.12 Aligned_cols=97 Identities=13% Similarity=0.248 Sum_probs=61.5
Q ss_pred HHHHHHHHHHhcCC---chhhhhcC-CHHHHHHHHHhcC-CCChHHHHHHHHHHHHHhhhhc----------c----chH
Q 041109 149 IVYDILLRLVLHVD---PKTLRDYI-DHRFLTNLLSLFQ-SEDLRERDSLKNIYHRIYAKFT----------F----YRS 209 (467)
Q Consensus 149 lVY~ill~fi~s~d---~~~~k~~i-d~~Fi~~Ll~lf~-S~DprER~~LktiLhrIY~kf~----------~----~R~ 209 (467)
.+-|+|+|+|...+ +.-.-.++ ++++|.+|++.|+ +-|+......-.+|..|..... + .|.
T Consensus 34 ~ImDlLLklIs~d~~~~~~~ilewL~~q~LI~~Li~~L~p~~~~~~q~naa~~L~aII~is~n~~~~~~~~igpn~L~r~ 113 (475)
T PF04499_consen 34 AIMDLLLKLISTDKPESPTGILEWLAEQNLIPRLIDLLSPSYSSDVQSNAADFLKAIIRISRNAPQNEQSSIGPNPLTRQ 113 (475)
T ss_pred HHHHHHHHHHccCcccchHHHHHHHHHhCHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccccCCCccHHHHH
Confidence 57899999998522 33344555 6899999999998 5566666667777666644321 1 244
Q ss_pred HHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhc
Q 041109 210 FMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIING 245 (467)
Q Consensus 210 ~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIng 245 (467)
.....+-..+++++.+..+-.++.-.+.|+-.+|+.
T Consensus 114 L~S~~~v~~Ll~~mL~~~~~s~lvn~v~IlieLIRk 149 (475)
T PF04499_consen 114 LVSEETVEKLLDIMLNSQGGSSLVNGVSILIELIRK 149 (475)
T ss_pred HhChHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHh
Confidence 444555566667777544455555666666666653
No 60
>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=24.33 E-value=1.9e+02 Score=24.65 Aligned_cols=38 Identities=16% Similarity=0.258 Sum_probs=32.1
Q ss_pred chhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCHHH
Q 041109 377 VFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDPNL 415 (467)
Q Consensus 377 i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~~l 415 (467)
.+|.+...+ .++-+|=+.+||.-+..+|.+|++.-|..
T Consensus 8 ~~~~l~~~i-~sAMTHi~~~Ir~dsl~~L~~lL~~~p~~ 45 (102)
T PF12333_consen 8 FFPLLMLYI-SSAMTHISPDIREDSLKFLDLLLEHAPDE 45 (102)
T ss_pred HHHHHHHHH-HHHHHhCCHHHHHhHHHHHHHHHHHCChH
Confidence 455566655 56788999999999999999999999988
No 61
>PF08578 DUF1765: Protein of unknown function (DUF1765); InterPro: IPR013887 This entry represents a conserved region found in hypothetical proteins from fungi, mycetozoa and entamoebidae.
Probab=24.27 E-value=4.9e+02 Score=22.86 Aligned_cols=102 Identities=24% Similarity=0.211 Sum_probs=55.3
Q ss_pred HhhccCCCCCchhHhHHHHHHHHHhhcCCh------HHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcchhHHHHH-h
Q 041109 299 GILKYWPVTNCRKEVLLIGELEELVDSIDP------AQYRRLALPLCTKITKCLNSCNSEVAERALYVWNNEQFVRMV-S 371 (467)
Q Consensus 299 ~llk~WP~tns~KevlFL~el~~ile~~~~------~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~~~~~li-~ 371 (467)
.+.+-=|.=++.+-...++-+++.+..+.. ..|. -.-.++-+-+.++|.|.++--|++.+.=|- -..+ .
T Consensus 8 ~~~~kTs~yd~~~~~~~~d~l~~~i~~~~~~~~~~~~~~d--w~fwl~~i~~ml~s~n~~~~~r~l~fLyn~--w~~~~~ 83 (126)
T PF08578_consen 8 AIAKKTSIYDSNAVFLLLDLLEEFIFQFDSYNPSLPDFFD--WDFWLDGIRMMLESDNVQSEIRALSFLYNI--WDLFPS 83 (126)
T ss_pred HHHHhCCcccHHHHHHHHHHHHHHHHHHHhhcccCCcccC--HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--HHHcCh
Confidence 333333444555555666666666644332 1111 123456677778899999999999654332 1122 1
Q ss_pred hccccc---hhhhhH-HHHHHhhccccHHHHHHHHHH
Q 041109 372 SSLEDV---FPVIVE-GMEKNLKLHWSKSVKQLTENV 404 (467)
Q Consensus 372 ~~~~~i---~Pii~~-~L~~~~~~HWn~~Vr~~a~~v 404 (467)
+.++.+ .-.+.. ......=.|||+.||..=...
T Consensus 84 ~~~~~~~~~~~~Ll~~~~f~~lF~HW~~~VR~~f~~L 120 (126)
T PF08578_consen 84 ESRRKISLCLDWLLSEKWFFKLFLHWSPMVRSYFHRL 120 (126)
T ss_pred hHHHHHHHHHHHHcCchHHHHHHhcCCHHHHHHHHHH
Confidence 222222 444443 333344569999999765544
No 62
>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=23.94 E-value=9.4e+02 Score=25.99 Aligned_cols=243 Identities=14% Similarity=0.193 Sum_probs=124.3
Q ss_pred HHHHHHHHHhcCCCChHHHHHHHHHHHHHhh----hhccchHHHHHHHHHHHhhhhhccCCccChHHHHHHHHHHHhccC
Q 041109 172 HRFLTNLLSLFQSEDLRERDSLKNIYHRIYA----KFTFYRSFMRKAMNDVFLQYNFETEKHCGIGELLEIWGSIINGFT 247 (467)
Q Consensus 172 ~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~----kf~~~R~~Irk~i~n~f~~fi~e~~~~~GI~ELLeil~sIIngfa 247 (467)
...+.+|+.+++.++..|=+++-..+.|+.. ...+.-.-+...+.+++..-..+..++.--.=+-|.+|.+|+-.
T Consensus 25 ~~ll~~Lf~~i~~~~s~ENeylMk~iMRvl~~~~e~~~p~~~~il~~L~~il~~v~kNPsnP~FnHylFEsi~~lir~~- 103 (435)
T PF03378_consen 25 QQLLQNLFALIEKPGSAENEYLMKCIMRVLSVLQEDILPIAVEILQHLTAILKEVSKNPSNPRFNHYLFESIGALIRFV- 103 (435)
T ss_dssp HHHHHHHHHHHHTT-STC-HHHHHHHHHHHHHSTTTTGGGHHHHHHHHHHHHHHHHTS---HHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHhcCCCccchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCCcchhhhHHHHHHHHHHhc-
Confidence 5677888888888888999999888888744 23444444555566665554444444444444566666666642
Q ss_pred CCchHHHHHHHHHHhhhccC---CcchhhhHHHHHHHHHHHHhcCC--CcHH---HHHHHhh--ccCCCCCchhHhHHHH
Q 041109 248 VPLKEEHKLFLIRVLIPLHK---SKGMQAYHRQLAYCVSQFVQKEP--ALGG---LVARGIL--KYWPVTNCRKEVLLIG 317 (467)
Q Consensus 248 ~PLKeeh~~fl~~vLlPLhk---~~~~~~y~~qL~~cv~qf~~kdp--~L~~---~vi~~ll--k~WP~tns~KevlFL~ 317 (467)
..-.++...-|...|+|... .+.+..|.+--..++.+.++..| .+.+ ..+..|+ ..|- ....--...+
T Consensus 104 ~~~~~~~v~~~E~~L~P~f~~ILq~dV~EF~PYvfQIla~Lle~~~~~~~p~~y~~L~~~Ll~p~lWe--~~gniPalvr 181 (435)
T PF03378_consen 104 CEADPEAVSQFEEALFPPFQEILQQDVQEFIPYVFQILAQLLELRPSSPLPDAYKQLFPPLLSPALWE--RRGNIPALVR 181 (435)
T ss_dssp -GGGHH---HHHHHHHHHHHHHHHTT-TTTHHHHHHHHHHHHHHSS--S--TTTGGGHHHHTSGGGGG--STTTHHHHHH
T ss_pred cCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHcCcchhc--cCCCcCcHHH
Confidence 23334555566777777654 34556677766666677777777 2221 2223333 3453 2233344555
Q ss_pred HHHHHhhcCChHHH-HHHHHHHHHHHhHhhCCCCHHHHHHHHHhhcch--hH-HHHHhhccccchhhhhHHHHHHhhccc
Q 041109 318 ELEELVDSIDPAQY-RRLALPLCTKITKCLNSCNSEVAERALYVWNNE--QF-VRMVSSSLEDVFPVIVEGMEKNLKLHW 393 (467)
Q Consensus 318 el~~ile~~~~~~f-~~i~~~lf~~la~ci~S~h~qVAErAL~~w~N~--~~-~~li~~~~~~i~Pii~~~L~~~~~~HW 393 (467)
.+...+..-+..-. ..-..+++-..-+|++|.... ..|..+.+.- ++ .+.+..+-..|+-+++.-|.. +++
T Consensus 182 LL~a~i~k~~~~i~~~~~l~~iLgvFQkLi~sk~~D--~~gF~LL~~iv~~~p~~~l~~yl~~I~~lll~RLq~-skT-- 256 (435)
T PF03378_consen 182 LLQAYIKKDPSFIVANNQLEPILGVFQKLIASKAND--HYGFDLLESIVENLPPEALEPYLKQIFTLLLTRLQS-SKT-- 256 (435)
T ss_dssp HHHHHHHHHGGG----S-CHHHHHHHHHHHT-TTCH--HHHHHHHHHHHHHS-HHHHGGGHHHHHHHHHHHHHH-C----
T ss_pred HHHHHHHhCchhhcchhhHHHHHHHHHHHHCCCCcc--hHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHhh-CCc--
Confidence 55655554433322 245667888888888885422 1233333211 00 012334444455555554432 222
Q ss_pred cHHHH------------HHHHHHHHHHHhcCHHHHHHHHHH
Q 041109 394 SKSVK------------QLTENVKVMLEQMDPNLYSKCLEA 422 (467)
Q Consensus 394 n~~Vr------------~~a~~vl~~l~e~D~~lf~~~~~~ 422 (467)
.+-++ .-+..+...+..+-+.+|....++
T Consensus 257 ~kf~~~fv~F~~~~~~~~g~~~li~~id~IQ~glF~~il~~ 297 (435)
T PF03378_consen 257 EKFVKRFVVFLSLFAIKYGPDFLIQTIDSIQPGLFGMILEK 297 (435)
T ss_dssp HHHHHHHHHHHHHHHHHH-HHHHHHHHHTTSTTHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCHHHHHHHHHHhcCCcHHHHHHH
Confidence 12222 234445566667777778777665
No 63
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=22.04 E-value=7.6e+02 Score=24.53 Aligned_cols=17 Identities=35% Similarity=0.409 Sum_probs=9.7
Q ss_pred CCCCCChhHHHHHHHHH
Q 041109 42 GLQSPYDSEKEEILSAI 58 (467)
Q Consensus 42 ~~~~~~~~~~~~l~~Kl 58 (467)
..+..++++++.++..+
T Consensus 28 ~l~~~~~~~~~~i~~~l 44 (322)
T cd07920 28 KLEEATPEEKELIFDEI 44 (322)
T ss_pred HhccCCHHHHHHHHHHH
Confidence 44445566666666653
No 64
>PF04388 Hamartin: Hamartin protein; InterPro: IPR007483 This family includes the hamartin protein which is thought to function as a tumour suppressor. The hamartin protein interacts with the tuberin protein IPR003913 from INTERPRO. Tuberous sclerosis complex (TSC) is an autosomal dominant disorder and is characterised by the presence of hamartomas in many organs, such as brain, skin, heart, lung, and kidney. It is caused by mutation in either TSC1 or TSC2 tumour suppressor genes. TSC1 encodes a protein, hamartin, containing two coiled-coil regions, which have been shown to mediate binding to tuberin. The TSC2 gene codes for tuberin IPR003913 from INTERPRO. These two proteins function within the same pathway(s) regulating cell cycle, cell growth, adhesion, and vesicular trafficking [].
Probab=21.16 E-value=9.6e+02 Score=27.49 Aligned_cols=106 Identities=18% Similarity=0.267 Sum_probs=69.6
Q ss_pred HHHHHhhccCCCCCchhHhHHHHHHHHHhhcC-ChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHHhhc-----chhHHH
Q 041109 295 LVARGILKYWPVTNCRKEVLLIGELEELVDSI-DPAQYRRLALPLCTKITKCLNSCNSEVAERALYVWN-----NEQFVR 368 (467)
Q Consensus 295 ~vi~~llk~WP~tns~KevlFL~el~~ile~~-~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~~w~-----N~~~~~ 368 (467)
+++.+|+.|.=.|+|+.-+ +||-.+ +| --..+|..|..|+..+++.+. ||.++. .+-.+.
T Consensus 39 ~l~~~l~~y~~~t~s~~~~-------~il~~~~~P-----~~K~~~~~l~~~~~~~~~Rl~--~L~Ll~~~v~~qp~~l~ 104 (668)
T PF04388_consen 39 WLVNGLVDYYLSTNSQRAL-------EILVGVQEP-----HDKHLFDKLNDYFVKPSYRLQ--ALTLLGHFVRSQPPWLY 104 (668)
T ss_pred HHHHHHHHHHhhcCcHHHH-------HHHHhcCCc-----cHHHHHHHHHHHHcCchhHHH--HHHHHHHHHhcCCchHH
Confidence 7788888888889988754 333322 22 112468999999999887754 554442 222222
Q ss_pred HHhhccccchhhhhHHHHHHhhccccHHHHHHHHHHHHHHHhcCHHHHHHHH
Q 041109 369 MVSSSLEDVFPVIVEGMEKNLKLHWSKSVKQLTENVKVMLEQMDPNLYSKCL 420 (467)
Q Consensus 369 li~~~~~~i~Pii~~~L~~~~~~HWn~~Vr~~a~~vl~~l~e~D~~lf~~~~ 420 (467)
.|.++ -+|+.|.++.+.==+.++...|..+|-||.-+=|......+
T Consensus 105 ~i~~t------~Lf~~LLk~L~~D~~~~~~~~al~~LimlLP~ip~~l~~~L 150 (668)
T PF04388_consen 105 KILQT------PLFKSLLKCLQFDTSITVVSSALLVLIMLLPHIPSSLGPHL 150 (668)
T ss_pred HHhcC------hhHHHHHHHHhhcccHHHHHHHHHHHHHHhccccchhhHHH
Confidence 23222 35667777777777899999999999999987775444433
No 65
>KOG2956 consensus CLIP-associating protein [General function prediction only]
Probab=20.94 E-value=1.2e+03 Score=25.94 Aligned_cols=79 Identities=14% Similarity=0.233 Sum_probs=62.8
Q ss_pred HHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHhHHHHHHHHHhhcCChHHHHHHHHHHHHHHhHhhCCCCHHHHHHHHH
Q 041109 280 YCVSQFVQKEPALGGLVARGILKYWPVTNCRKEVLLIGELEELVDSIDPAQYRRLALPLCTKITKCLNSCNSEVAERALY 359 (467)
Q Consensus 280 ~cv~qf~~kdp~L~~~vi~~llk~WP~tns~KevlFL~el~~ile~~~~~~f~~i~~~lf~~la~ci~S~h~qVAErAL~ 359 (467)
.|.+..-+.+|..--.++.-++-- .+-++-++-|+++..+++-++-++...++..+-.-+.+..+|...-|=..|.+
T Consensus 394 d~~~~las~~P~~~I~~i~~~Ilt---~D~~~~~~~iKm~Tkl~e~l~~EeL~~ll~diaP~~iqay~S~SS~VRKtaVf 470 (516)
T KOG2956|consen 394 DCLTTLASHLPLQCIVNISPLILT---ADEPRAVAVIKMLTKLFERLSAEELLNLLPDIAPCVIQAYDSTSSTVRKTAVF 470 (516)
T ss_pred HHHHHHHhhCchhHHHHHhhHHhc---CcchHHHHHHHHHHHHHhhcCHHHHHHhhhhhhhHHHHHhcCchHHhhhhHHH
Confidence 445555556665544444333322 67788899999999999999999999999999999999999999999998887
Q ss_pred hh
Q 041109 360 VW 361 (467)
Q Consensus 360 ~w 361 (467)
.+
T Consensus 471 CL 472 (516)
T KOG2956|consen 471 CL 472 (516)
T ss_pred hH
Confidence 76
No 66
>smart00324 RhoGAP GTPase-activator protein for Rho-like GTPases. GTPase activator proteins towards Rho/Rac/Cdc42-like small GTPases. etter domain limits and outliers.
Probab=20.18 E-value=6.4e+02 Score=22.67 Aligned_cols=88 Identities=11% Similarity=0.105 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHhc-CCchhhhhcCCHHHHHHHHHhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhhhh-hc
Q 041109 148 QIVYDILLRLVLH-VDPKTLRDYIDHRFLTNLLSLFQSEDLRERDSLKNIYHRIYAKFTFYRSFMRKAMNDVFLQYN-FE 225 (467)
Q Consensus 148 qlVY~ill~fi~s-~d~~~~k~~id~~Fi~~Ll~lf~S~DprER~~LktiLhrIY~kf~~~R~~Irk~i~n~f~~fi-~e 225 (467)
..|..+|.+|+.+ ++ ..|+..+...+++...+.|..+|. ..++.+..+......-+.+.+-..|.... +.
T Consensus 57 ~~va~~lK~~Lr~Lp~-----pli~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~Lp~~~~~~L~~l~~~l~~i~~~~ 128 (174)
T smart00324 57 HDVAGLLKLFLRELPE-----PLIPYELYEEFIEAAKVEDETERL---RALRELISLLPPANRATLRYLLAHLNRVAEHS 128 (174)
T ss_pred HHHHHHHHHHHHhCCC-----ccCCHHHHHHHHHHHhCCCHHHHH---HHHHHHHHHCCHHHHHHHHHHHHHHHHHHhcc
Confidence 4688889999987 44 467888888888888887776652 23344444444443334445555555554 33
Q ss_pred cCCccChHHHHHHHHHHH
Q 041109 226 TEKHCGIGELLEIWGSII 243 (467)
Q Consensus 226 ~~~~~GI~ELLeil~sII 243 (467)
..+..++.-|-.++|..+
T Consensus 129 ~~n~M~~~nLa~~f~P~l 146 (174)
T smart00324 129 EENKMTARNLAIVFGPTL 146 (174)
T ss_pred ccCCCCHHHHHHHHhccc
Confidence 334445555554544433
Done!