Query 009349
Match_columns 537
No_of_seqs 182 out of 314
Neff 5.5
Searched_HMMs 46136
Date Thu Mar 28 12:02:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009349.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009349hhsearch_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-152 4E-157 1173.6 39.6 415 103-519 42-456 (457)
2 PF01603 B56: Protein phosphat 100.0 1E-123 3E-128 990.4 28.9 407 105-516 1-409 (409)
3 PLN00122 serine/threonine prot 100.0 9.2E-36 2E-40 281.6 12.9 133 354-519 35-167 (170)
4 PLN00122 serine/threonine prot 97.7 0.00022 4.8E-09 68.4 9.5 33 90-125 35-67 (170)
5 PF01602 Adaptin_N: Adaptin N 90.8 3 6.4E-05 45.6 12.5 175 242-429 341-520 (526)
6 KOG1060 Vesicle coat complex A 84.5 12 0.00025 44.1 12.4 151 319-490 319-471 (968)
7 PF12348 CLASP_N: CLASP N term 80.6 24 0.00052 34.3 11.7 104 374-480 19-126 (228)
8 PF05918 API5: Apoptosis inhib 79.4 1.2E+02 0.0027 34.7 18.2 88 341-428 241-340 (556)
9 PF14500 MMS19_N: Dos2-interac 75.2 45 0.00097 34.3 12.2 70 342-417 121-203 (262)
10 PF08767 CRM1_C: CRM1 C termin 72.7 1.3E+02 0.0028 31.7 15.7 75 390-481 155-229 (319)
11 PF01602 Adaptin_N: Adaptin N 68.2 1.9E+02 0.004 31.6 18.3 242 212-480 245-486 (526)
12 PF04388 Hamartin: Hamartin pr 67.2 1.2E+02 0.0026 35.4 14.7 57 241-307 5-61 (668)
13 PF12460 MMS19_C: RNAPII trans 64.6 2.1E+02 0.0046 31.0 16.8 183 240-428 189-389 (415)
14 KOG0213 Splicing factor 3b, su 62.2 84 0.0018 37.3 11.8 240 174-429 569-824 (1172)
15 KOG2137 Protein kinase [Signal 58.7 1.1E+02 0.0023 36.0 11.9 161 301-476 292-457 (700)
16 smart00582 RPR domain present 56.6 16 0.00035 32.3 4.1 84 348-431 18-108 (121)
17 KOG1525 Sister chromatid cohes 56.2 4.5E+02 0.0098 33.3 17.4 281 106-428 11-302 (1266)
18 COG5215 KAP95 Karyopherin (imp 53.9 42 0.00092 38.5 7.6 105 403-517 262-389 (858)
19 PF01417 ENTH: ENTH domain; I 53.7 45 0.00098 30.0 6.6 90 387-477 25-121 (125)
20 cd03572 ENTH_epsin_related ENT 53.4 1.2E+02 0.0026 27.9 9.3 90 381-477 20-119 (122)
21 cd03562 CID CID (CTD-Interacti 52.8 46 0.00099 29.2 6.4 90 343-432 18-110 (114)
22 COG5656 SXM1 Importin, protein 52.6 4.8E+02 0.011 31.3 15.8 90 245-338 379-474 (970)
23 PF10508 Proteasom_PSMB: Prote 45.9 1.3E+02 0.0029 33.6 10.2 107 403-516 118-231 (503)
24 KOG1991 Nuclear transport rece 43.1 7.2E+02 0.016 30.6 19.1 271 149-479 197-493 (1010)
25 PF12348 CLASP_N: CLASP N term 42.9 3.2E+02 0.0069 26.4 14.2 191 250-446 17-217 (228)
26 PF08389 Xpo1: Exportin 1-like 39.6 77 0.0017 28.1 5.9 101 359-475 8-113 (148)
27 PTZ00429 beta-adaptin; Provisi 37.6 7.8E+02 0.017 29.4 18.4 138 278-428 402-541 (746)
28 cd03567 VHS_GGA VHS domain fam 36.8 3.3E+02 0.0071 25.4 9.7 79 350-428 26-111 (139)
29 cd03571 ENTH_epsin ENTH domain 36.6 91 0.002 28.6 5.8 89 386-477 22-118 (123)
30 PF12783 Sec7_N: Guanine nucle 36.6 3.4E+02 0.0073 25.4 9.9 115 376-494 36-162 (168)
31 cd07920 Pumilio Pumilio-family 36.1 4.8E+02 0.01 26.6 14.7 70 356-427 141-211 (322)
32 KOG2175 Protein predicted to b 35.5 5.2E+02 0.011 29.1 12.3 40 448-488 214-253 (458)
33 PF07539 DRIM: Down-regulated 34.0 1.8E+02 0.0039 27.2 7.5 19 254-272 83-102 (141)
34 PF08167 RIX1: rRNA processing 32.4 1.7E+02 0.0037 27.7 7.2 50 240-289 67-117 (165)
35 PF12783 Sec7_N: Guanine nucle 31.5 1.6E+02 0.0034 27.7 6.8 80 278-359 70-150 (168)
36 PF04499 SAPS: SIT4 phosphatas 29.9 4.6E+02 0.01 29.5 11.0 100 213-312 33-149 (475)
37 PF14676 FANCI_S2: FANCI solen 29.5 3E+02 0.0066 26.2 8.3 24 313-336 103-126 (158)
38 PF03378 CAS_CSE1: CAS/CSE pro 29.3 1.2E+02 0.0027 33.5 6.4 166 149-334 116-304 (435)
39 KOG4407 Predicted Rho GTPase-a 28.6 2.2E+02 0.0047 36.0 8.5 115 109-267 1162-1281(1973)
40 cd03561 VHS VHS domain family; 27.9 4.6E+02 0.01 23.8 9.3 81 348-428 23-107 (133)
41 PF12717 Cnd1: non-SMC mitotic 27.8 3.6E+02 0.0078 25.6 8.6 83 397-485 18-101 (178)
42 PF12755 Vac14_Fab1_bd: Vacuol 27.2 2.6E+02 0.0057 24.3 6.9 73 398-476 21-96 (97)
43 cd00020 ARM Armadillo/beta-cat 27.2 1.9E+02 0.0041 24.1 6.0 43 229-271 38-80 (120)
44 KOG1992 Nuclear export recepto 27.1 9.2E+02 0.02 29.3 12.9 300 168-478 448-838 (960)
45 PF12719 Cnd3: Nuclear condens 26.9 5E+02 0.011 26.7 10.2 174 303-480 4-210 (298)
46 cd03568 VHS_STAM VHS domain fa 25.7 5.5E+02 0.012 24.0 9.8 80 350-429 25-106 (144)
47 smart00324 RhoGAP GTPase-activ 25.4 4.8E+02 0.01 24.1 8.9 88 213-310 57-146 (174)
48 KOG1967 DNA repair/transcripti 24.2 5.7E+02 0.012 31.3 10.7 142 364-511 869-1025(1030)
49 PF12717 Cnd1: non-SMC mitotic 24.1 6.2E+02 0.013 23.9 11.1 49 378-426 123-172 (178)
50 PF12726 SEN1_N: SEN1 N termin 23.9 5E+02 0.011 30.5 10.5 103 214-317 496-610 (727)
51 KOG2171 Karyopherin (importin) 23.7 7.4E+02 0.016 30.8 11.7 282 149-494 752-1065(1075)
52 KOG1824 TATA-binding protein-i 23.7 9.1E+02 0.02 30.0 12.2 128 363-492 477-618 (1233)
53 cd03569 VHS_Hrs_Vps27p VHS dom 23.2 6.1E+02 0.013 23.6 9.5 79 350-428 29-109 (142)
54 cd08324 CARD_NOD1_CARD4 Caspas 22.7 76 0.0016 27.5 2.6 38 241-278 47-84 (85)
55 cd07920 Pumilio Pumilio-family 22.6 8.2E+02 0.018 24.8 14.1 23 237-262 92-114 (322)
56 PF12333 Ipi1_N: Rix1 complex 22.5 1.6E+02 0.0036 25.7 4.8 36 446-482 10-45 (102)
57 PF09059 TyeA: TyeA; InterPro 21.5 1.2E+02 0.0026 26.3 3.6 47 353-399 15-61 (87)
58 PF08578 DUF1765: Protein of u 21.5 4.7E+02 0.01 23.6 7.7 105 363-471 5-120 (126)
59 KOG2056 Equilibrative nucleosi 21.5 4.2E+02 0.0091 28.6 8.3 86 386-476 42-137 (336)
60 PF14724 mit_SMPDase: Mitochon 21.4 5.9E+02 0.013 30.5 10.2 114 361-479 371-529 (765)
61 KOG4413 26S proteasome regulat 21.4 7.3E+02 0.016 27.2 10.0 107 379-488 99-211 (524)
62 PF12290 DUF3802: Protein of u 21.2 2.1E+02 0.0046 26.1 5.2 52 341-392 39-105 (113)
63 PF06757 Ins_allergen_rp: Inse 20.4 5.5E+02 0.012 24.6 8.4 56 382-439 103-164 (179)
64 KOG1241 Karyopherin (importin) 20.3 2.1E+02 0.0046 34.0 6.2 72 403-476 258-354 (859)
No 1
>KOG2085 consensus Serine/threonine protein phosphatase 2A, regulatory subunit [Signal transduction mechanisms]
Probab=100.00 E-value=2e-152 Score=1173.61 Aligned_cols=415 Identities=56% Similarity=0.978 Sum_probs=410.9
Q ss_pred cCCCCCCCCCChHHHHHHHHHHHhcCcccccccCCCcCchhHHHHHHHHHHHHHHhhcCCCCCChHhHHHHHHHhHhhcc
Q 009349 103 VEPHLSFKDVSNTQKQNLFVSKLNLCCEVSDFSDSDKVTAEQDLKRQTLIELADFVSSGSAKFTEPAISGMCKMCSLNLF 182 (537)
Q Consensus 103 ~~~lp~l~dv~~~e~~~Lf~~Kl~~C~~ifDFsDp~~d~~~Ke~K~~tL~EL~~~v~~~~~~lte~v~~~i~~Mi~~NIF 182 (537)
+++||+|+|||++|+++||++|+++||++|||+||.+|.++||+||+||+||+||+.++++++++.+|+++++|+++|||
T Consensus 42 l~~LP~~~dv~~se~~~Lf~~Kl~~Cc~~FDF~Dp~~~~~~keikR~tL~eLvd~v~~~~~kite~~~~~vv~m~s~nif 121 (457)
T KOG2085|consen 42 LEPLPSLKDVPSSEQKELFIKKLEQCCVLFDFNDPLKDLKGKEIKRQTLLELVDDVISRRGKISEEVYSEVVKMFSVNIF 121 (457)
T ss_pred ceeCCccCcCChhHhHHHHHHHHHhhheeeeccChhhhhccchhHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHhh
Confidence 45999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCCCccchhHHHHHHHHHHHhcCCCChHHhhhcCCHHHHHHHHhhcCCCChHHHHHHHH
Q 009349 183 RVFPPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKT 262 (537)
Q Consensus 183 R~lP~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lfdSeDpRERd~Lkt 262 (537)
|++||..++++ +|+|||||++|++|||||+||++|+||++||++|+++||+|||++||++||++||||||||||+|||
T Consensus 122 R~lpp~~n~~~--~d~eedEp~le~awphLqlvye~~Lrf~~sp~~d~~vaK~yid~~FvlkLLdLFdSEDpRERe~LKT 199 (457)
T KOG2085|consen 122 RTLPPSVNPTG--FDYEEDEPVLEPAWPHLQLVYEFLLRFLESPDFDPSVAKKYIDQKFVLKLLDLFDSEDPREREFLKT 199 (457)
T ss_pred ccCCcccCCCc--CCccccCcccCCCchHHHHHHHHHHHHHhCcccCHHHHHHHhhHHHHHHHHHHhcCCChHHHHHHHH
Confidence 99999999986 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhccchHHHHHHHHHHHhHhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCcccch
Q 009349 263 VLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYH 342 (537)
Q Consensus 263 iLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~~~y~ 342 (537)
+||||||||+++|+|||++|||+||+|||||++|||||||||||||||||||+|||||||+||.|||||||++++++.||
T Consensus 200 ~LhrIygKfl~~r~firk~iNNif~~FIyEte~hnGIaELLEIlgSiIngfAlPlKEEhkiFL~rvLipLhk~k~l~~yh 279 (457)
T KOG2085|consen 200 ILHRIYGKFLVHRPFIRKSINNIFLRFIYETERHNGIAELLEILGSIINGFALPLKEEHKLFLVRVLIPLHKPKSLSLYH 279 (457)
T ss_pred HHHHHHHHHhhhHHHHHHhhcchhhhhcccccccCCHHHHHHHHHHhcCcccCcchhHHHHHHHHhhhccccCCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHH
Q 009349 343 QQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAE 422 (537)
Q Consensus 343 ~qL~~ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAE 422 (537)
+||+|||+||++|||+|++.||+||+||||+|||+||||||+||||||+.++|.+|+++++|||+|||+|++|+||||||
T Consensus 280 ~QLaYcivQfveKd~kl~~~VIrglLK~WP~tnS~KEVmFL~ElEEILe~iep~eFqk~~~PLf~qia~c~sS~HFQVAE 359 (457)
T KOG2085|consen 280 KQLAYCIVQFVEKDPKLTETVIRGLLKYWPKTNSSKEVMFLNELEEILEVIEPSEFQKIMVPLFRQIARCVSSPHFQVAE 359 (457)
T ss_pred cccceeeeeeeccCccccHHHHHHHHHhcCCCCCcceeeeHhhHHHHHHhcCHHHHHHHhHHHHHHHHHHcCChhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcChhHHHhhhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhhHHHHHH
Q 009349 423 RAHLLWNNEHILNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILCEMDEELVQACKRKLEEENSTLSVAAE 502 (537)
Q Consensus 423 rAL~~w~N~~~~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp~lF~~c~~~~~~~~~~~~~~~~ 502 (537)
|||++|||++|+++|++|+++|+|||||+||+++++|||++|+++++||+|++||||++||++|+++|++++.++++.++
T Consensus 360 raL~~wnNe~i~~Li~~n~~~ilPiiFpaLyr~sk~hWN~~i~~l~~nvlk~f~emd~~LFeec~~~y~~~~~k~~~~~~ 439 (457)
T KOG2085|consen 360 RALYLWNNEYIRSLISQNAEVILPIVFPALYRNSKSHWNQAIHNLILNVLKTFMEMDPKLFEECLALYKEDRWKEKETEE 439 (457)
T ss_pred HHHHHHhhHHHHHHHHhccceeeehhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCC
Q 009349 503 RRKLTWERLESAASFQP 519 (537)
Q Consensus 503 ~r~~~W~~l~~~A~~~~ 519 (537)
+|++.|++||++|+.++
T Consensus 440 ~re~~W~~le~~~~~~~ 456 (457)
T KOG2085|consen 440 KREETWKRLEELAAENP 456 (457)
T ss_pred HHHHHHHHHHHHHhhcC
Confidence 99999999999998753
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=1.4e-123 Score=990.45 Aligned_cols=407 Identities=55% Similarity=0.961 Sum_probs=360.5
Q ss_pred CCCCCCCCChHHHHHHHHHHHhcCcccccccCCCcCchhHHHHHHHHHHHHHHhhcCC--CCCChHhHHHHHHHhHhhcc
Q 009349 105 PHLSFKDVSNTQKQNLFVSKLNLCCEVSDFSDSDKVTAEQDLKRQTLIELADFVSSGS--AKFTEPAISGMCKMCSLNLF 182 (537)
Q Consensus 105 ~lp~l~dv~~~e~~~Lf~~Kl~~C~~ifDFsDp~~d~~~Ke~K~~tL~EL~~~v~~~~--~~lte~v~~~i~~Mi~~NIF 182 (537)
|||+|+||+++++++||++||++||++|||+||.+|.++||+||+||+||++|++++. +.++|++++++++||++|||
T Consensus 1 ~lP~l~dv~~~e~~~lf~~Kl~~C~~ifDF~d~~~d~~~Ke~K~~~L~el~~~v~~~~~~~~l~e~~~~~i~~Mi~~Nif 80 (409)
T PF01603_consen 1 PLPSLPDVPPPERQELFLKKLQQCCVIFDFSDPSSDLKEKEIKRQTLNELVDYVSNSRIQGILTEPVYPEIFNMISANIF 80 (409)
T ss_dssp ------SS-SSSCSCHTTHHHHHHHHHSTTSSSSSSHHHHHSHHHHHHHHHHHHCSSS--SSS-TTSHHHHHHHHHHHH-
T ss_pred CCCCCCCCCcHHHHHHHHHHHHHhCCEeeCCCCccchHHHHHHHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhcc
Confidence 6999999999999999999999999999999999999999999999999999999987 99999999999999999999
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCCCccchhHHHHHHHHHHHhcCCCChHHhhhcCCHHHHHHHHhhcCCCChHHHHHHHH
Q 009349 183 RVFPPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKT 262 (537)
Q Consensus 183 R~lP~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lfdSeDpRERd~Lkt 262 (537)
||+||.+.+. +|+|||+|+.||+|||||+||++|++|++++++++ +|+|||++|+.+|+++|+|||||||++||+
T Consensus 81 R~lP~~~~~~---~~~~~d~~~~e~~WpHL~~vY~il~~~i~~~~~~~--~~~~i~~~fi~~Ll~l~~S~D~rER~~lk~ 155 (409)
T PF01603_consen 81 RPLPPIPNPS---FDPDDDEPFLEPSWPHLQLVYEILLRFIESPPFDP--AKKYIDQKFIKKLLELFDSPDPRERDYLKT 155 (409)
T ss_dssp S-----SS-----S-GGG------TTHHHHHHHHHHHHHHHTSTT--C--CTTTS-HHHHHHHHHTTTSSTHHHHHHHHH
T ss_pred CCCCCccccc---CCccccccccccccHhHHHHHHHHHHHHHCccccH--HHHHcCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence 9999998874 78999999999999999999999999999999999 999999999999999999999999999999
Q ss_pred HHHHHhhhhccchHHHHHHHHHHHhHhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCcccch
Q 009349 263 VLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYH 342 (537)
Q Consensus 263 iLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~~~y~ 342 (537)
+|||||+||+++|++||++|+|+|++|+||+++|+||+|||||+|||||||++|||+||+.|+.++|+|||++++++.||
T Consensus 156 ~l~~iy~k~~~~r~~Ir~~i~~~~~~fi~e~~~~~gI~elLeil~sii~gf~~plk~eh~~fl~~vllPLh~~~~~~~y~ 235 (409)
T PF01603_consen 156 ILHRIYGKFPNLRSFIRKSINNIFYRFIYETERHNGIAELLEILGSIINGFAVPLKEEHKQFLRKVLLPLHKSPHLSSYH 235 (409)
T ss_dssp HHHHHHHH-TTTHHHHHHHHHHHHHHHHHTTS--STHHHHHHHHHHHHTT--SS--HHHHHHHHHTTGGGGGSTGGGGTH
T ss_pred HHHHHHHHhhhhHHHHHHHHHHHHHHHhcCcccccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHhcCCcHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHH
Q 009349 343 QQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAE 422 (537)
Q Consensus 343 ~qL~~ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAE 422 (537)
+||+||+++|++|||+|+..+++||+||||+||++|||+||+|+++||+.+++++|++++.++|++||+|++|+||||||
T Consensus 236 ~~L~~~~~~f~~kdp~l~~~~i~~llk~WP~t~s~Kev~FL~el~~il~~~~~~~f~~i~~~lf~~la~ci~S~h~qVAE 315 (409)
T PF01603_consen 236 QQLSYCVVQFLEKDPSLAEPVIKGLLKHWPKTNSQKEVLFLNELEEILEVLPPEEFQKIMVPLFKRLAKCISSPHFQVAE 315 (409)
T ss_dssp HHHHHHHHHHHHH-GGGHHHHHHHHHHHS-SS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHTSSSHHHHH
T ss_pred HHHHHHHHHHHHhCchhHHHHHHHHHHhCCCCCchhHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcChhHHHhhhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhhHHHHHH
Q 009349 423 RAHLLWNNEHILNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILCEMDEELVQACKRKLEEENSTLSVAAE 502 (537)
Q Consensus 423 rAL~~w~N~~~~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp~lF~~c~~~~~~~~~~~~~~~~ 502 (537)
|||++|+|+++++++++|++.|+|+|+|+|++++++|||++||++|.+|+++|+||||++|++|+++|++++++++++++
T Consensus 316 rAl~~w~n~~~~~li~~~~~~i~p~i~~~L~~~~~~HWn~~Vr~~a~~vl~~l~~~d~~lf~~~~~~~~~~~~~~~~~~~ 395 (409)
T PF01603_consen 316 RALYFWNNEYFLSLISQNSRVILPIIFPALYRNSKNHWNQTVRNLAQNVLKILMEMDPKLFDKCAQKYKEKEQKEKAREK 395 (409)
T ss_dssp HHHGGGGSHHHHHHHHCTHHHHHHHHHHHHSSTTSS-SSTTHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHSSH
T ss_pred HHHHHHCCHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhh
Q 009349 503 RRKLTWERLESAAS 516 (537)
Q Consensus 503 ~r~~~W~~l~~~A~ 516 (537)
+|+++|++|+++|+
T Consensus 396 ~r~~~W~~i~~~A~ 409 (409)
T PF01603_consen 396 KRKKKWKKIEEAAK 409 (409)
T ss_dssp HHHHHHTT-S----
T ss_pred HHHHHHHHHHHhhC
Confidence 99999999999985
No 3
>PLN00122 serine/threonine protein phosphatase 2A; Provisional
Probab=100.00 E-value=9.2e-36 Score=281.61 Aligned_cols=133 Identities=49% Similarity=0.833 Sum_probs=129.8
Q ss_pred hcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhH
Q 009349 354 DKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHI 433 (537)
Q Consensus 354 ~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~ 433 (537)
...+.++...+++|.+|||++++.||.+||++| ||||||++|||++|
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 HHhhhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 009349 434 LNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILCEMDEELVQACKRKLEEENSTLSVAAERRKLTWERLES 513 (537)
Q Consensus 434 ~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp~lF~~c~~~~~~~~~~~~~~~~~r~~~W~~l~~ 513 (537)
+++|.+|+.+|+|||||+|++++++|||++|++++++|+||||||||++|++|+++|+++++++++.+++|+++|++|++
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 HhhcCC
Q 009349 514 AASFQP 519 (537)
Q Consensus 514 ~A~~~~ 519 (537)
.|++++
T Consensus 162 ~A~~~~ 167 (170)
T PLN00122 162 AAAAKA 167 (170)
T ss_pred HHHhcc
Confidence 999876
No 4
>PLN00122 serine/threonine protein phosphatase 2A; Provisional
Probab=97.68 E-value=0.00022 Score=68.44 Aligned_cols=33 Identities=64% Similarity=0.926 Sum_probs=27.9
Q ss_pred CCCCccccccccccCCCCCCCCCChHHHHHHHHHHH
Q 009349 90 AVFPSSIMAGVEAVEPHLSFKDVSNTQKQNLFVSKL 125 (537)
Q Consensus 90 ~~~~~~~~~~~~~~~~lp~l~dv~~~e~~~Lf~~Kl 125 (537)
...+.....++| +||+|+|||++|+++||++||
T Consensus 35 ~~~~~~~~~~~e---~l~~~~~v~~s~k~~lfl~kl 67 (170)
T PLN00122 35 AVNPASVVAGYE---PLPSFRDVPNSEKQNLFVRKL 67 (170)
T ss_pred ccCCCccccccc---cccCCCCCCchHHHHHHHHHH
Confidence 444555566777 999999999999999999999
No 5
>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=90.75 E-value=3 Score=45.61 Aligned_cols=175 Identities=15% Similarity=0.213 Sum_probs=111.1
Q ss_pred HHHHHhhc-CCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhhhccCCccChHHHHHHHHHHHhccCCCchHH
Q 009349 242 IVRLLDLF-DSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEE 320 (537)
Q Consensus 242 i~~Ll~lf-dSeDpRERd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeE 320 (537)
+..|+..+ +..|+.-|..+-..+..+-.++...-.+....+.++ +.... ..-..|+...+..++... ..+++.
T Consensus 341 l~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~l----l~~~~-~~~~~~~~~~i~~ll~~~-~~~~~~ 414 (526)
T PF01602_consen 341 LDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKL----LEISG-DYVSNEIINVIRDLLSNN-PELREK 414 (526)
T ss_dssp HHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHH----HHCTG-GGCHCHHHHHHHHHHHHS-TTTHHH
T ss_pred HHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHh----hhhcc-ccccchHHHHHHHHhhcC-hhhhHH
Confidence 34445555 555776666666666666666655544444443333 33222 222566666666777553 222222
Q ss_pred HHHHHHHHHhcccCCCCcccchhhHHHHHHHHHhcCCC--cHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHH
Q 009349 321 HKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPK--LATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEF 398 (537)
Q Consensus 321 hk~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp~--La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f 398 (537)
....|+-+...-.....-.-..+|+..|.+..+. .+..+++.+...|...+..-+...|..+..+...-+.++.
T Consensus 415 ----~l~~L~~~l~~~~~~~~~~~~~wilGEy~~~~~~~~~~~~~~~~l~~~~~~~~~~vk~~ilt~~~Kl~~~~~~~~~ 490 (526)
T PF01602_consen 415 ----ILKKLIELLEDISSPEALAAAIWILGEYGELIENTESAPDILRSLIENFIEESPEVKLQILTALAKLFKRNPENEV 490 (526)
T ss_dssp ----HHHHHHHHHTSSSSHHHHHHHHHHHHHHCHHHTTTTHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHSCSTTH
T ss_pred ----HHHHHHHHHHHhhHHHHHHHHHhhhcccCCcccccccHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhhCCchhh
Confidence 2333344433333344567788999999887777 8999999999999998887888888888888877665444
Q ss_pred HHHHHHHHHHHHHhhC--CCcHHHHHHHHHhhc
Q 009349 399 QKIMVPLFRRIGCCLN--SSHYQVAERAHLLWN 429 (537)
Q Consensus 399 ~~i~~~LF~~ia~cl~--S~hfqVAErAL~~w~ 429 (537)
.+ .+...+..+.. |.++.|-+||.++|.
T Consensus 491 ~~---~i~~~~~~~~~~~s~~~evr~Ra~~y~~ 520 (526)
T PF01602_consen 491 QN---EILQFLLSLATEDSSDPEVRDRAREYLR 520 (526)
T ss_dssp HH---HHHHHHHCHHHHS-SSHHHHHHHHHHHH
T ss_pred HH---HHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence 33 45556666667 999999999999884
No 6
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.49 E-value=12 Score=44.12 Aligned_cols=151 Identities=16% Similarity=0.168 Sum_probs=108.3
Q ss_pred HHHHHHHHHHHhcccCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHH--HHHHHHHhhCChH
Q 009349 319 EEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFI--SELEEVLEMTSMA 396 (537)
Q Consensus 319 eEhk~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL--~EleeILe~~~~~ 396 (537)
+.+++ .+.|+.|...+.-..| -+..+|-++..|+|+|..+.++ +|+=.+.-+-++..| +.+..++. ..
T Consensus 319 ~~~~i--~kaLvrLLrs~~~vqy--vvL~nIa~~s~~~~~lF~P~lK---sFfv~ssDp~~vk~lKleiLs~La~---es 388 (968)
T KOG1060|consen 319 QVTKI--AKALVRLLRSNREVQY--VVLQNIATISIKRPTLFEPHLK---SFFVRSSDPTQVKILKLEILSNLAN---ES 388 (968)
T ss_pred HHHHH--HHHHHHHHhcCCcchh--hhHHHHHHHHhcchhhhhhhhh---ceEeecCCHHHHHHHHHHHHHHHhh---hc
Confidence 44443 8999999998887776 5778899999999999998765 444555555555444 33333332 22
Q ss_pred HHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHH
Q 009349 397 EFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILC 476 (537)
Q Consensus 397 ~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~ 476 (537)
. ...|++-+-.-+.|+|++||-.|..-.. ....+...+-+-.+..|..-.++| +..|..-+-.|+++|.
T Consensus 389 n----i~~ILrE~q~YI~s~d~~faa~aV~AiG------rCA~~~~sv~~tCL~gLv~Llssh-de~Vv~eaV~vIk~Ll 457 (968)
T KOG1060|consen 389 N----ISEILRELQTYIKSSDRSFAAAAVKAIG------RCASRIGSVTDTCLNGLVQLLSSH-DELVVAEAVVVIKRLL 457 (968)
T ss_pred c----HHHHHHHHHHHHhcCchhHHHHHHHHHH------HHHHhhCchhhHHHHHHHHHHhcc-cchhHHHHHHHHHHHH
Confidence 2 2357777888889999998888765432 244445555566677788888888 9999999999999999
Q ss_pred HhCHHHHHHHHHHH
Q 009349 477 EMDEELVQACKRKL 490 (537)
Q Consensus 477 e~Dp~lF~~c~~~~ 490 (537)
.+||.--.+...+.
T Consensus 458 q~~p~~h~~ii~~L 471 (968)
T KOG1060|consen 458 QKDPAEHLEILFQL 471 (968)
T ss_pred hhChHHHHHHHHHH
Confidence 99998777666544
No 7
>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=80.59 E-value=24 Score=34.30 Aligned_cols=104 Identities=12% Similarity=0.159 Sum_probs=66.3
Q ss_pred CCChhHHHHHHHHHHHHhhC----ChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhcccccccccc
Q 009349 374 TNSQKELMFISELEEVLEMT----SMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIPLVF 449 (537)
Q Consensus 374 tns~KEvlFL~EleeILe~~----~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~PiI~ 449 (537)
.+=.+.+--|..|..++..- .++.|...+..+...|..+++|.+.+|+-.|+.++. .+.......-...++.++
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 44466677788888888655 234444445556679999999999999999998884 344445555555567788
Q ss_pred HHHHHhhhhhccHHHHHHHHHHHHHHHHhCH
Q 009349 450 PALERNTQNHWNQAVLNLTQNVRKILCEMDE 480 (537)
Q Consensus 450 paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp 480 (537)
|.|.+..... ++.|+..|.+++..+.+.-+
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 8887665443 78999999999999988766
No 8
>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=79.40 E-value=1.2e+02 Score=34.67 Aligned_cols=88 Identities=11% Similarity=0.206 Sum_probs=52.4
Q ss_pred chhhHHHHHHH---HHhcCCCcHH---HHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhh-
Q 009349 341 YHQQLTYCVVQ---FIDKDPKLAT---NAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCL- 413 (537)
Q Consensus 341 y~~qL~~ci~q---Fv~KDp~La~---~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl- 413 (537)
.-..+.+|+.+ |+.+...-+. .+.+.++-.|=......++-+|..+.|+...+.+.+-..++..+|..|-..+
T Consensus 241 ~Idrli~C~~~Alp~fs~~v~Sskfv~y~~~kvlP~l~~l~e~~kl~lLk~lAE~s~~~~~~d~~~~L~~i~~~L~~ymP 320 (556)
T PF05918_consen 241 SIDRLISCLRQALPFFSRGVSSSKFVNYMCEKVLPKLSDLPEDRKLDLLKLLAELSPFCGAQDARQLLPSIFQLLKKYMP 320 (556)
T ss_dssp HHHHHHHHHHHHGGG-BTTB--HHHHHHHHHHTCCCTT-----HHHHHHHHHHHHHTT----THHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHHHhhHHhcCCCChHHHHHHHHHHhcCChhhCChHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHHHhCC
Confidence 34567788877 5666555444 4444455444455558899999999999999988778888899999986544
Q ss_pred -----CCCcHHHHHHHHHhh
Q 009349 414 -----NSSHYQVAERAHLLW 428 (537)
Q Consensus 414 -----~S~hfqVAErAL~~w 428 (537)
.+.+|-.+|..|+.+
T Consensus 321 ~~~~~~~l~fs~vEcLL~af 340 (556)
T PF05918_consen 321 SKKTEPKLQFSYVECLLYAF 340 (556)
T ss_dssp ---------HHHHHHHHHHH
T ss_pred CCCCCCcccchHhhHHHHHH
Confidence 345677788877665
No 9
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=75.22 E-value=45 Score=34.31 Aligned_cols=70 Identities=26% Similarity=0.435 Sum_probs=45.0
Q ss_pred hhhHHHHHHHHH--hcCCC---cHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHH--------HHHHHHHHH
Q 009349 342 HQQLTYCVVQFI--DKDPK---LATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQ--------KIMVPLFRR 408 (537)
Q Consensus 342 ~~qL~~ci~qFv--~KDp~---La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~--------~i~~~LF~~ 408 (537)
.+.+.+.+.+.+ ||||. ++..+++.+++.||.. -|..++-+++..==|.+|. --...|=..
T Consensus 121 ~~~fv~~~i~~~~gEkDPRnLl~~F~l~~~i~~~~~~~------~~~e~lFd~~~cYFPI~F~pp~~dp~~IT~edLk~~ 194 (262)
T PF14500_consen 121 GDDFVYGFIQLIDGEKDPRNLLLSFKLLKVILQEFDIS------EFAEDLFDVFSCYFPITFRPPPNDPYGITREDLKRA 194 (262)
T ss_pred hhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhcccc------hhHHHHHHHhhheeeeeeeCCCCCCCCCCHHHHHHH
Confidence 345666666766 79998 5668889999999952 2556666666421122221 123467778
Q ss_pred HHHhhCCCc
Q 009349 409 IGCCLNSSH 417 (537)
Q Consensus 409 ia~cl~S~h 417 (537)
+..|+.|.+
T Consensus 195 L~~cl~s~~ 203 (262)
T PF14500_consen 195 LRNCLSSTP 203 (262)
T ss_pred HHHHhcCcH
Confidence 888888755
No 10
>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=72.73 E-value=1.3e+02 Score=31.67 Aligned_cols=75 Identities=12% Similarity=0.207 Sum_probs=46.4
Q ss_pred HhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhccccccccccHHHHHhhhhhccHHHHHHHH
Q 009349 390 LEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQ 469 (537)
Q Consensus 390 Le~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~ 469 (537)
+-.++++.|.. +..-+..++.+++..|++.+|....+ + +..... .=...+...+.+-...+-.
T Consensus 155 l~~lp~~~f~~----~idsi~wg~kh~~~~I~~~~L~~l~~--l---l~~~~~--------~~~~~~~~F~~~y~~~il~ 217 (319)
T PF08767_consen 155 LLQLPPEQFKL----VIDSIVWGFKHTNREISETGLNILLE--L---LNNVSK--------TNPEFANQFYQQYYLDILQ 217 (319)
T ss_dssp HHHS-HHHHHH----HHHHHHHHHTSSSHHHHHHHHHHHHH--H---HHHHHH---------SHHHHHHHHHHHHHHHHH
T ss_pred HHcCCHHHHHH----HHHHHHHHhCCCcHHHHHHHHHHHHH--H---HHHHHh--------cCHHHHHHHHHHHHHHHHH
Confidence 34478888865 45677888999999999999987742 2 222222 0013344556666666777
Q ss_pred HHHHHHHHhCHH
Q 009349 470 NVRKILCEMDEE 481 (537)
Q Consensus 470 ~vlkiL~e~Dp~ 481 (537)
.++.++.|.+.+
T Consensus 218 ~if~vltD~~Hk 229 (319)
T PF08767_consen 218 DIFSVLTDSDHK 229 (319)
T ss_dssp HHHHHHHSTT-G
T ss_pred HHHHHHHCcccH
Confidence 777777666643
No 11
>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=68.22 E-value=1.9e+02 Score=31.61 Aligned_cols=242 Identities=15% Similarity=0.123 Sum_probs=125.6
Q ss_pred hHHHHHHHHHHHhcCCCChHHhhhcCCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhhh
Q 009349 212 LQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVF 291 (537)
Q Consensus 212 LqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI~ 291 (537)
-.++|+....++.-++.++ .-...+..|+.++.+.|++=|-..-..|+.|-... .+.+...-..+| ++.
T Consensus 245 ~~V~~e~~~~i~~l~~~~~------~~~~~~~~L~~lL~s~~~nvr~~~L~~L~~l~~~~---~~~v~~~~~~~~--~l~ 313 (526)
T PF01602_consen 245 PSVVYEAIRLIIKLSPSPE------LLQKAINPLIKLLSSSDPNVRYIALDSLSQLAQSN---PPAVFNQSLILF--FLL 313 (526)
T ss_dssp HHHHHHHHHHHHHHSSSHH------HHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHCCHC---HHHHGTHHHHHH--HHH
T ss_pred cHHHHHHHHHHHHhhcchH------HHHhhHHHHHHHhhcccchhehhHHHHHHHhhccc---chhhhhhhhhhh--eec
Confidence 3567777766665333221 23456778889999999988887777777665443 233331111111 222
Q ss_pred ccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccC
Q 009349 292 ETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYW 371 (537)
Q Consensus 292 E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp~La~~vi~~LLk~W 371 (537)
..+...=-...|+++..+.+- +...-....|+.-.+...-..|...+...+...+++.+.-..++++.+++.=
T Consensus 314 ~~~d~~Ir~~~l~lL~~l~~~-------~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll 386 (526)
T PF01602_consen 314 YDDDPSIRKKALDLLYKLANE-------SNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLL 386 (526)
T ss_dssp CSSSHHHHHHHHHHHHHH--H-------HHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHH
T ss_pred CCCChhHHHHHHHHHhhcccc-------cchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhh
Confidence 112221123447777776642 2122233333333322222347888888888888888999999888888777
Q ss_pred CCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhccccccccccHH
Q 009349 372 PVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIPLVFPA 451 (537)
Q Consensus 372 P~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~PiI~pa 451 (537)
-.++..-.--.+..+..++... |+....+...+++.+.. -.+-. + ++..+|-=-.+...+.. .+ ..+.++..
T Consensus 387 ~~~~~~~~~~~~~~i~~ll~~~-~~~~~~~l~~L~~~l~~---~~~~~-~-~~~~~wilGEy~~~~~~-~~-~~~~~~~~ 458 (526)
T PF01602_consen 387 EISGDYVSNEIINVIRDLLSNN-PELREKILKKLIELLED---ISSPE-A-LAAAIWILGEYGELIEN-TE-SAPDILRS 458 (526)
T ss_dssp HCTGGGCHCHHHHHHHHHHHHS-TTTHHHHHHHHHHHHTS---SSSHH-H-HHHHHHHHHHHCHHHTT-TT-HHHHHHHH
T ss_pred hhccccccchHHHHHHHHhhcC-hhhhHHHHHHHHHHHHH---hhHHH-H-HHHHHhhhcccCCcccc-cc-cHHHHHHH
Confidence 7655444444466677776553 33344455555555544 23323 3 44455532222222222 11 22333444
Q ss_pred HHHhhhhhccHHHHHHHHHHHHHHHHhCH
Q 009349 452 LERNTQNHWNQAVLNLTQNVRKILCEMDE 480 (537)
Q Consensus 452 L~~~sk~HWn~~Vr~la~~vlkiL~e~Dp 480 (537)
+...... =+..|+..+.+++--+...+|
T Consensus 459 l~~~~~~-~~~~vk~~ilt~~~Kl~~~~~ 486 (526)
T PF01602_consen 459 LIENFIE-ESPEVKLQILTALAKLFKRNP 486 (526)
T ss_dssp HHHHHTT-SHHHHHHHHHHHHHHHHHHSC
T ss_pred HHHhhcc-ccHHHHHHHHHHHHHHHhhCC
Confidence 4333211 145566666666555555554
No 12
>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=67.21 E-value=1.2e+02 Score=35.40 Aligned_cols=57 Identities=23% Similarity=0.359 Sum_probs=40.1
Q ss_pred HHHHHHhhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhhhccCCccChHHHHHHHH
Q 009349 241 FIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFG 307 (537)
Q Consensus 241 Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~e~hnGIaELLeIlg 307 (537)
-|.+|+.+++|.|..+.+.+|..+++.+.. +.-+++ -|.+..|..+| |-.-.++||.
T Consensus 5 ~~~~l~~~l~s~~~~~~~~~~~~~~~~~~~--~~~~~l----~~~l~~y~~~t----~s~~~~~il~ 61 (668)
T PF04388_consen 5 SITELLSLLESNDLSVLEEIKALLQELLNS--DREPWL----VNGLVDYYLST----NSQRALEILV 61 (668)
T ss_pred cHHHHHHHhcCCchhhHHHHHHHHHHHhhc--cchHHH----HHHHHHHHhhc----CcHHHHHHHH
Confidence 478899999999999999999999987754 222333 34455555443 4445677665
No 13
>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=64.61 E-value=2.1e+02 Score=30.98 Aligned_cols=183 Identities=14% Similarity=0.139 Sum_probs=112.1
Q ss_pred HHHHHHHhh-cCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhhhccCCccChHHHHHHHHHHHhccCCCch
Q 009349 240 LFIVRLLDL-FDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLK 318 (537)
Q Consensus 240 ~Fi~~Ll~l-fdSeDpRERd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~e~hnGIaELLeIlgSIInGfa~PLK 318 (537)
.++.+++.+ ..++|+..|...-..+-.+-.|+..- ..+...+...+..+ ........-...++++.-|.+|...-..
T Consensus 189 ~ll~~l~~~~~~~~~~~~~~~~~~~la~LvNK~~~~-~~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~Wi~KaLv~R~~ 266 (415)
T PF12460_consen 189 ELLQSLLNLALSSEDEFSRLAALQLLASLVNKWPDD-DDLDEFLDSLLQSI-SSSEDSELRPQALEILIWITKALVMRGH 266 (415)
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHcCCCCh-hhHHHHHHHHHhhh-cccCCcchhHHHHHHHHHHHHHHHHcCC
Confidence 377788876 66778888888888888888885432 23333333333332 2222333344567777666666544333
Q ss_pred HHHHHHHHHHHhcccCCCCcccchhhHHHHHHHHHhcC-----------------CCcHHHHHHHhhccCCCCCChhHHH
Q 009349 319 EEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKD-----------------PKLATNAIKGLLKYWPVTNSQKELM 381 (537)
Q Consensus 319 eEhk~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KD-----------------p~La~~vi~~LLk~WP~tns~KEvl 381 (537)
+.-..+ ...|+-|...+.++. ..+....-++... -++...++..|+..+-.++.....-
T Consensus 267 ~~~~~~-~~~L~~lL~~~~~g~---~aA~~f~il~~d~~~~l~~~~~a~vklLykQR~F~~~~p~L~~~~~~~~~~~k~~ 342 (415)
T PF12460_consen 267 PLATEL-LDKLLELLSSPELGQ---QAAKAFGILLSDSDDVLNKENHANVKLLYKQRFFTQVLPKLLEGFKEADDEIKSN 342 (415)
T ss_pred chHHHH-HHHHHHHhCChhhHH---HHHHHHhhHhcCcHHhcCccccchhhhHHhHHHHHHHHHHHHHHHhhcChhhHHH
Confidence 333333 344555666644433 2333333222221 1334455566666666655545555
Q ss_pred HHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhh
Q 009349 382 FISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLW 428 (537)
Q Consensus 382 FL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w 428 (537)
+|.=+..|+..++.+-+..-+..|+..+-+|++.++..|-..+|...
T Consensus 343 yL~ALs~ll~~vP~~vl~~~l~~LlPLLlqsL~~~~~~v~~s~L~tL 389 (415)
T PF12460_consen 343 YLTALSHLLKNVPKSVLLPELPTLLPLLLQSLSLPDADVLLSSLETL 389 (415)
T ss_pred HHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 78889999999999888888899999999999999998777777544
No 14
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=62.18 E-value=84 Score=37.28 Aligned_cols=240 Identities=15% Similarity=0.222 Sum_probs=135.9
Q ss_pred HHHhHhhccccCCCCCCCCCCCCCCCCCCCCCCCccc----hhHHHHHHHHHHHhc--CCCChHHhhhcCCHHHHHHHHh
Q 009349 174 CKMCSLNLFRVFPPKCRSNGTGGETEDEEPMFDPAWS----HLQIVYDLLLRFVSY--GSLDVKVAKKYVDHLFIVRLLD 247 (537)
Q Consensus 174 ~~Mi~~NIFR~lP~~~~~~~~~~d~eedep~~e~sWp----HLqlVYeillrfv~s--~~~d~k~ak~~id~~Fi~~Ll~ 247 (537)
++|+.+|..-.+-....| |.-+--+.++.|-|. |-..+..-|++-+-. |..|+..+ .|++....+.|+.
T Consensus 569 VR~itAlalsalaeaa~P----ygie~fDsVlkpLwkgir~hrgk~laafLkAigyliplmd~eya-~yyTrevmlil~r 643 (1172)
T KOG0213|consen 569 VRTITALALSALAEAATP----YGIEQFDSVLKPLWKGIRQHRGKELAAFLKAIGYLIPLMDAEYA-SYYTREVMLILIR 643 (1172)
T ss_pred hhhHHHHHHHHHHHhcCC----cchHHHHHHHHHHHHHHHHccChHHHHHHHHHhhccccccHHHH-HHhHHHHHHHHHH
Confidence 455555555444433333 222222236788886 777888888888765 67777665 5678888899999
Q ss_pred hcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhhhccCCccC----hHHHHHHHHHHHhccCCCchHHHHH
Q 009349 248 LFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNG----IAELLEIFGSIISGFALPLKEEHKI 323 (537)
Q Consensus 248 lfdSeDpRERd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~e~hnG----IaELLeIlgSIInGfa~PLKeEhk~ 323 (537)
-|+|||..=...+-.++.++-++--.--.|||..|--.|+...-.- +--| -..+.+.-.+|-+..-. ..
T Consensus 644 Ef~sPDeemkkivLKVv~qcc~t~Gv~~~y~r~dilp~ff~~fw~r-rmA~drr~ykqlv~ttv~ia~KvG~------~~ 716 (1172)
T KOG0213|consen 644 EFGSPDEEMKKIVLKVVKQCCATDGVEPAYIRFDILPEFFFSFWGR-RMALDRRNYKQLVDTTVEIAAKVGS------DP 716 (1172)
T ss_pred hhCCChHHHHHHHHHHHHHHhcccCCCHHHHhhhhhHHHHhhhhhh-hhhccccchhhHHHHHHHHHHHhCc------hH
Confidence 9999998777777777777777777778888888776665543321 1111 01222222233221100 01
Q ss_pred HHHHHHhcccCCCCcccchhhHHHHHHHH------HhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHH
Q 009349 324 FLCRALIPLHKPKSVGIYHQQLTYCVVQF------IDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAE 397 (537)
Q Consensus 324 Fl~rvLlPLHk~k~~~~y~~qL~~ci~qF------v~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~ 397 (537)
...|++.+|-.-+ ..|..--...+... ..-|.+|-+..++|++--+-...+.--|||+.. .-+...+ ...
T Consensus 717 ~v~R~v~~lkde~--e~yrkm~~etv~ri~~~lg~~diderleE~lidgil~Afqeqtt~d~vml~gf-g~V~~~l-g~r 792 (1172)
T KOG0213|consen 717 IVSRVVLDLKDEP--EQYRKMVAETVSRIVGRLGAADIDERLEERLIDGILYAFQEQTTEDSVMLLGF-GTVVNAL-GGR 792 (1172)
T ss_pred HHHHHhhhhcccc--HHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHhcccchhhhhhhH-HHHHHHH-hhc
Confidence 1233444433321 01111112222222 235777888888888888776666555665532 2221111 111
Q ss_pred HHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhc
Q 009349 398 FQKIMVPLFRRIGCCLNSSHYQVAERAHLLWN 429 (537)
Q Consensus 398 f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~ 429 (537)
.++...+|+.-+-.-+++...+|-.+|+.+..
T Consensus 793 ~kpylpqi~stiL~rLnnksa~vRqqaadlis 824 (1172)
T KOG0213|consen 793 VKPYLPQICSTILWRLNNKSAKVRQQAADLIS 824 (1172)
T ss_pred cccchHHHHHHHHHHhcCCChhHHHHHHHHHH
Confidence 23445667777777777888888777776554
No 15
>KOG2137 consensus Protein kinase [Signal transduction mechanisms]
Probab=58.70 E-value=1.1e+02 Score=36.01 Aligned_cols=161 Identities=15% Similarity=0.116 Sum_probs=98.6
Q ss_pred HHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCcccchhhHHHHHHHHHhcCC-----CcHHHHHHHhhccCCCCC
Q 009349 301 ELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDP-----KLATNAIKGLLKYWPVTN 375 (537)
Q Consensus 301 ELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp-----~La~~vi~~LLk~WP~tn 375 (537)
+.|+-|.-+|-+|. ++..+.++|=+|..-=.-..+-+-..-||..|.+--+ ....+.|+-+.+. ..+
T Consensus 292 ~Flk~Ls~~ip~fp------~rv~~~kiLP~L~~el~n~~~vp~~LP~v~~i~~~~s~~~~~~~~~p~l~pi~~~--~~~ 363 (700)
T KOG2137|consen 292 SFLKGLSKLIPTFP------ARVLFQKILPTLVAELVNTKMVPIVLPLVLLIAEGLSQNEFGPKMLPALKPIYSA--SDP 363 (700)
T ss_pred HHHHHHHHhhccCC------HHHHHHhhhhHHHHHhccccccccccchhhhhhhccchhhhhhhhhHHHHHHhcc--CCc
Confidence 45555555555552 3444455554443322222333333344443332211 2334455555554 222
Q ss_pred ChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhccccccccccHHHHHh
Q 009349 376 SQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIPLVFPALERN 455 (537)
Q Consensus 376 s~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~PiI~paL~~~ 455 (537)
-+=-++++.-+.-|++++++++|..-+.| .|-+|+++.-.++=|++|... +.+.+.+- -..+=-.|+|.|+..
T Consensus 364 ~~~~l~i~e~mdlL~~Kt~~e~~~~~Ilp---lL~~S~~~~~~~iQ~~~L~~l--ptv~e~iD--~~~vk~~ilP~l~~l 436 (700)
T KOG2137|consen 364 KQALLFILENMDLLKEKTPPEEVKEKILP---LLYRSLEDSDVQIQELALQIL--PTVAESID--VPFVKQAILPRLKNL 436 (700)
T ss_pred ccchhhHHhhHHHHHhhCChHHHHHHHHH---HHHHHhcCcchhhHHHHHHhh--hHHHHhcc--HHHHHHHHHHHhhcc
Confidence 34446777778888899999998764444 678899999999999999887 44555553 233334567778877
Q ss_pred hhhhccHHHHHHHHHHHHHHH
Q 009349 456 TQNHWNQAVLNLTQNVRKILC 476 (537)
Q Consensus 456 sk~HWn~~Vr~la~~vlkiL~ 476 (537)
+..|=+..|+.-+.-++..++
T Consensus 437 ~~~tt~~~vkvn~L~c~~~l~ 457 (700)
T KOG2137|consen 437 AFKTTNLYVKVNVLPCLAGLI 457 (700)
T ss_pred hhcccchHHHHHHHHHHHHHH
Confidence 888889999988888887776
No 16
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=56.57 E-value=16 Score=32.33 Aligned_cols=84 Identities=12% Similarity=0.211 Sum_probs=57.9
Q ss_pred HHHHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCCh---HH----HHHHHHHHHHHHHHhhCCCcHHH
Q 009349 348 CVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSM---AE----FQKIMVPLFRRIGCCLNSSHYQV 420 (537)
Q Consensus 348 ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~---~~----f~~i~~~LF~~ia~cl~S~hfqV 420 (537)
-+++|+-.+...+..+++.+.++-..+.+.+.+..|.-+.+|+-.... .. |.+.....|..+.......+-+=
T Consensus 18 ~lt~~~~~~~~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~k 97 (121)
T smart00582 18 TLTKWAIEHASHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRDVLGAANDETKKK 97 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence 344555555566667777777777778888899999999999965421 23 44455566666666555556677
Q ss_pred HHHHHHhhcCh
Q 009349 421 AERAHLLWNNE 431 (537)
Q Consensus 421 AErAL~~w~N~ 431 (537)
..+-+.+|...
T Consensus 98 i~kll~iW~~~ 108 (121)
T smart00582 98 IRRLLNIWEER 108 (121)
T ss_pred HHHHHHHHhcC
Confidence 77888999873
No 17
>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning]
Probab=56.23 E-value=4.5e+02 Score=33.26 Aligned_cols=281 Identities=19% Similarity=0.283 Sum_probs=130.7
Q ss_pred CCCCCCCChHHHHHHHHHHHhcCcccccccCCCcCchhHHHHHHHHHHHHHHhhcC-CCCCChHhHHHHHHHhHhhcccc
Q 009349 106 HLSFKDVSNTQKQNLFVSKLNLCCEVSDFSDSDKVTAEQDLKRQTLIELADFVSSG-SAKFTEPAISGMCKMCSLNLFRV 184 (537)
Q Consensus 106 lp~l~dv~~~e~~~Lf~~Kl~~C~~ifDFsDp~~d~~~Ke~K~~tL~EL~~~v~~~-~~~lte~v~~~i~~Mi~~NIFR~ 184 (537)
+|....++..|-.+ -++|+..|-.-+|= |+ .+ .+-+.-+.+.+-+. -.+-.+.=+..++..|=++|||=
T Consensus 11 ~~~~~~~s~~ell~-rLk~l~~~l~~~~q-d~-~~-------~~~~~pl~~~l~~~~~L~h~d~dvrllvacCvseilRi 80 (1266)
T KOG1525|consen 11 LTSLNPISKDELLK-RLKKLANCLASLDQ-DN-LD-------LASLLPLADHLIKDFLLKHKDKDVRLLVACCVSEILRI 80 (1266)
T ss_pred ccccCcccHHHHHH-HHHHHHHHHhhccc-Cc-hh-------HHHHHHHHHHHhhHHHhcCCCcChhHHHHHHHHHHHHH
Confidence 34444444444444 36788888877773 33 11 11122223333221 11112223556777788888886
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCccchhHHHHHHHHHHHhcCCCChHHhhhcCCHHH--------HHHHHhhcCCCChHH
Q 009349 185 FPPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLF--------IVRLLDLFDSEDPRE 256 (537)
Q Consensus 185 lP~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~F--------i~~Ll~lfdSeDpRE 256 (537)
.-|- -|+.++ .|.=||.++++-+.-. -|+. -.|+-+.| +. .+-+++-+|..|
T Consensus 81 ~aPe-------------aPy~~~---~lkdIf~~~~~q~~gL-~d~~--sp~f~r~~~lletl~~~k-~~l~~~l~d~~e 140 (1266)
T KOG1525|consen 81 YAPE-------------APYTDE---QLKDIFQLILSQFSGL-GDVE--SPYFKRYFYLLETLAKVK-FCLLMLLEDCQE 140 (1266)
T ss_pred hCCC-------------CCCcHH---HHHHHHHHHHHHHhhc-cCCC--CcchhhHHHHHHHHHHhH-HHheeeccchHH
Confidence 6542 233343 5666777777765421 1111 12333222 22 455666677665
Q ss_pred HHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhhhccCCccChHHHHHH-HHHHHhccCCCchHHHHHHHHHHHhcccCC
Q 009349 257 RDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEI-FGSIISGFALPLKEEHKIFLCRALIPLHKP 335 (537)
Q Consensus 257 Rd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~e~hnGIaELLeI-lgSIInGfa~PLKeEhk~Fl~rvLlPLHk~ 335 (537)
.+..+.+-+|+---..++-.--.|.+++..-|-|.+.- -.|+|.+ |..++++.---.++ -.-+-..+|-....
T Consensus 141 --~~~~~f~~f~d~~~~~~~~~v~~~~~i~~~li~e~d~v--~~e~L~~ll~~lv~~~~~~~~~--a~~la~~li~~~a~ 214 (1266)
T KOG1525|consen 141 --LVHELFRTFFDLARKGHPKKVFNMLDIAIMLITEEDTV--QSELLDVLLENLVKPGRDTIKE--ADKLASDLIERCAD 214 (1266)
T ss_pred --HHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHhhccc--hHHHHHHHHHHhccCCCCccHH--HHHHHHHHHHHhhh
Confidence 44444444443221222221112556666655544333 3455553 33344433111111 11123334444444
Q ss_pred CCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHH-hhCChHHHHHHHHHHHHHHHHhhC
Q 009349 336 KSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVL-EMTSMAEFQKIMVPLFRRIGCCLN 414 (537)
Q Consensus 336 k~~~~y~~qL~~ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeIL-e~~~~~~f~~i~~~LF~~ia~cl~ 414 (537)
.-...+.+-|..|++++-..-.++...+.+-++.+|=..- + +.++-|-.+- +.+...+..+ ...-+.+|+.+.
T Consensus 215 ~~~~~i~~f~~~~~~~~~s~~~~~~~~~he~i~~L~~~~p-~---ll~~vip~l~~eL~se~~~~R--l~a~~lvg~~~~ 288 (1266)
T KOG1525|consen 215 NLEDTIANFLNSCLTEYKSRQSSLKIKYHELILELWRIAP-Q---LLLAVIPQLEFELLSEQEEVR--LKAVKLVGRMFS 288 (1266)
T ss_pred hhchhHHHHHHHHHhhccccccchhhHHHHHHHHHHHhhH-H---HHHHHHHHHHHHHhcchHHHH--HHHHHHHHHHHh
Confidence 4444555566777766655555566666666777774321 1 2222222222 2233333221 234455666667
Q ss_pred CCcHHHHHHHHHhh
Q 009349 415 SSHYQVAERAHLLW 428 (537)
Q Consensus 415 S~hfqVAErAL~~w 428 (537)
.++.+.++.=-.+|
T Consensus 289 ~~~~~l~~~~~~~~ 302 (1266)
T KOG1525|consen 289 DKDSQLSETYDDLW 302 (1266)
T ss_pred cchhhhcccchHHH
Confidence 77766665444444
No 18
>COG5215 KAP95 Karyopherin (importin) beta [Intracellular trafficking and secretion]
Probab=53.90 E-value=42 Score=38.53 Aligned_cols=105 Identities=19% Similarity=0.308 Sum_probs=64.5
Q ss_pred HHHHHHHHHhhCCCcHHHHHHHHHhhcC---hhHH-Hhh-hh-------c-------cccccccccHHHHHhh----hhh
Q 009349 403 VPLFRRIGCCLNSSHYQVAERAHLLWNN---EHIL-NLV-TH-------N-------RQVIIPLVFPALERNT----QNH 459 (537)
Q Consensus 403 ~~LF~~ia~cl~S~hfqVAErAL~~w~N---~~~~-~li-~~-------n-------~~~I~PiI~paL~~~s----k~H 459 (537)
..||...++.+.|+|-+||-.|..||.. |.+. ++. .+ | ...|+|.+..-|.+-. ..-
T Consensus 262 ~aL~alt~~~mks~nd~va~qavEfWsticeEeid~~~e~~~~pe~p~qn~~fa~aav~dvlP~lL~LL~~q~ed~~~Dd 341 (858)
T COG5215 262 NALAALTGRFMKSQNDEVAIQAVEFWSTICEEEIDGEMEDKYLPEVPAQNHGFARAAVADVLPELLSLLEKQGEDYYGDD 341 (858)
T ss_pred HHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHhhhHHHHhhcccCchhhcchHHHHHHHHHHHHHHHHHhcCCCccccc
Confidence 4688899999999999999999999932 1111 111 11 1 2346777777666522 235
Q ss_pred ccHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhc
Q 009349 460 WNQAVLNLTQNVRKILCEMDEELVQACKRKLEEENSTLSVAAERRKLTWERLESAASF 517 (537)
Q Consensus 460 Wn~~Vr~la~~vlkiL~e~Dp~lF~~c~~~~~~~~~~~~~~~~~r~~~W~~l~~~A~~ 517 (537)
||.. ..|..+|.++-+.--+.--+-.-.|-++ .-|.+.|...+..+..
T Consensus 342 Wn~s--maA~sCLqlfaq~~gd~i~~pVl~FvEq--------ni~~~~w~nreaavmA 389 (858)
T COG5215 342 WNPS--MAASSCLQLFAQLKGDKIMRPVLGFVEQ--------NIRSESWANREAAVMA 389 (858)
T ss_pred cchh--hhHHHHHHHHHHHhhhHhHHHHHHHHHH--------hccCchhhhHHHHHHH
Confidence 9864 4566777777655433333222233332 2366788888877743
No 19
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=53.66 E-value=45 Score=29.95 Aligned_cols=90 Identities=17% Similarity=0.232 Sum_probs=55.9
Q ss_pred HHHHhhC-ChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhh------cChhHHHhhhhccccccccccHHHHHhhhhh
Q 009349 387 EEVLEMT-SMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLW------NNEHILNLVTHNRQVIIPLVFPALERNTQNH 459 (537)
Q Consensus 387 eeILe~~-~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w------~N~~~~~li~~n~~~I~PiI~paL~~~sk~H 459 (537)
.+|...+ +..++..++.-|.++|.. -+..+..+.-.||.+. .++.|+.-+.++...|-..--=......-..
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 4454444 458888888888888843 3557788888888765 3455655565555544332110000111235
Q ss_pred ccHHHHHHHHHHHHHHHH
Q 009349 460 WNQAVLNLTQNVRKILCE 477 (537)
Q Consensus 460 Wn~~Vr~la~~vlkiL~e 477 (537)
|...||..|..++.+|.|
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 889999999999999953
No 20
>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=53.36 E-value=1.2e+02 Score=27.86 Aligned_cols=90 Identities=16% Similarity=0.161 Sum_probs=60.5
Q ss_pred HHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcH-HHHHHHHHh---hcChhHHHhhhhccccccccccHHHHHh-
Q 009349 381 MFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHY-QVAERAHLL---WNNEHILNLVTHNRQVIIPLVFPALERN- 455 (537)
Q Consensus 381 lFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hf-qVAErAL~~---w~N~~~~~li~~n~~~I~PiI~paL~~~- 455 (537)
-.++||.++.-. ++.+|..++.-|.++|.. +|+|. .=|.+-|.. -.++.|...+.+|...|-- .....
T Consensus 20 y~~~Eia~~t~~-s~~~~~ei~d~L~kRL~~--~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~~~~Ik~----~~~f~g 92 (122)
T cd03572 20 YLYEEIAKLTRK-SVGSCQELLEYLLKRLKR--SSPHVKLKVLKIIKHLCEKGNSDFKRELQRNSAQIRE----CANYKG 92 (122)
T ss_pred HHHHHHHHHHHc-CHHHHHHHHHHHHHHhcC--CCCcchHHHHHHHHHHHhhCCHHHHHHHHHhHHHHHH----HHHcCC
Confidence 346677666544 788999999999999997 88887 334444422 2356777777777644311 11111
Q ss_pred -----hhhhccHHHHHHHHHHHHHHHH
Q 009349 456 -----TQNHWNQAVLNLTQNVRKILCE 477 (537)
Q Consensus 456 -----sk~HWn~~Vr~la~~vlkiL~e 477 (537)
.-.-+++.||..|..+++++..
T Consensus 93 ~~Dp~~Gd~~~~~VR~~A~El~~~if~ 119 (122)
T cd03572 93 PPDPLKGDSLNEKVREEAQELIKAIFS 119 (122)
T ss_pred CCCcccCcchhHHHHHHHHHHHHHHhc
Confidence 1134899999999999998864
No 21
>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=52.79 E-value=46 Score=29.21 Aligned_cols=90 Identities=16% Similarity=0.199 Sum_probs=68.3
Q ss_pred hhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhC---ChHHHHHHHHHHHHHHHHhhCCCcHH
Q 009349 343 QQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMT---SMAEFQKIMVPLFRRIGCCLNSSHYQ 419 (537)
Q Consensus 343 ~qL~~ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~---~~~~f~~i~~~LF~~ia~cl~S~hfq 419 (537)
++-..-+++++..+...+..++..+.++=-.+.+.+.+.+|.-+.+|+... ....|.....++|.....-.+..+-+
T Consensus 18 ~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~~~~~~f~~~~~~~~~~~r~ 97 (114)
T cd03562 18 QPSIQTLTKLAIENRKHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSEFLVPLFLDAYEKVDEKTRK 97 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence 344455677777777888888888888888889999999999999999765 34567777788887777655556666
Q ss_pred HHHHHHHhhcChh
Q 009349 420 VAERAHLLWNNEH 432 (537)
Q Consensus 420 VAErAL~~w~N~~ 432 (537)
=..+-+.+|....
T Consensus 98 kl~rl~~iW~~~~ 110 (114)
T cd03562 98 KLERLLNIWEERF 110 (114)
T ss_pred HHHHHHHHccCCC
Confidence 6677778887643
No 22
>COG5656 SXM1 Importin, protein involved in nuclear import [Posttranslational modification, protein turnover, chaperones]
Probab=52.60 E-value=4.8e+02 Score=31.30 Aligned_cols=90 Identities=17% Similarity=0.106 Sum_probs=57.4
Q ss_pred HHhhcCCCChHHHHHHHHHHHHHhhh-hccchHHHHHHHHHHHhHhhhccCC---ccChHHHHHHHHHHHh--ccCCCch
Q 009349 245 LLDLFDSEDPRERDCLKTVLHRIYGK-FMAHRQFIRQAVCNIIYRFVFETER---HNGIAELLEIFGSIIS--GFALPLK 318 (537)
Q Consensus 245 Ll~lfdSeDpRERd~LktiLhrIY~K-f~~~R~fIRk~I~nif~~FI~E~e~---hnGIaELLeIlgSIIn--Gfa~PLK 318 (537)
+.+.+.|+|..=-+++-++-..==.+ |++.-+| ++++|-+|--...+ ..-+.-.|.++.||++ .-..|+.
T Consensus 379 f~d~g~spdlaal~fl~~~~sKrke~TfqgiLsf----~~sil~qsaa~psn~dnarq~egalr~lasi~s~itk~sp~a 454 (970)
T COG5656 379 FFDNGLSPDLAALFFLIISKSKRKEETFQGILSF----LLSILGQSAATPSNIDNARQAEGALRLLASIKSFITKMSPAA 454 (970)
T ss_pred hhcCCCChhHHHHHHHHHHhcccchhhhhhHHHH----HHHHHhcccCCCCccccHHHHhhHHHHHHHHHHHhccCchHH
Confidence 44556688877666665443221111 5664444 66677666544333 2234567999999998 3334666
Q ss_pred HHHHHHHHHHHhcccCCCCc
Q 009349 319 EEHKIFLCRALIPLHKPKSV 338 (537)
Q Consensus 319 eEhk~Fl~rvLlPLHk~k~~ 338 (537)
-++..|+...++|-.+.++.
T Consensus 455 n~me~fiv~hv~P~f~s~yg 474 (970)
T COG5656 455 NVMEYFIVNHVIPAFRSNYG 474 (970)
T ss_pred HHHHHHHHHHhhHhhcCccc
Confidence 67889999999999888755
No 23
>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=45.93 E-value=1.3e+02 Score=33.58 Aligned_cols=107 Identities=15% Similarity=0.044 Sum_probs=68.4
Q ss_pred HHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhcc---ccccc-cccHHHHHhhhhhccHHHHHHHHHHHHHHHHh
Q 009349 403 VPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNR---QVIIP-LVFPALERNTQNHWNQAVLNLTQNVRKILCEM 478 (537)
Q Consensus 403 ~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~---~~I~P-iI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~ 478 (537)
..++..|..|+.++.-.||+.|..+..+ +..+. +.+++ -+.+.|.....+ =|..+|-.++.++-.+...
T Consensus 118 ~~l~~~i~~~L~~~d~~Va~~A~~~L~~------l~~~~~~~~~l~~~~~~~~L~~l~~~-~~~~vR~Rv~el~v~i~~~ 190 (503)
T PF10508_consen 118 NELLPLIIQCLRDPDLSVAKAAIKALKK------LASHPEGLEQLFDSNLLSKLKSLMSQ-SSDIVRCRVYELLVEIASH 190 (503)
T ss_pred ccHHHHHHHHHcCCcHHHHHHHHHHHHH------HhCCchhHHHHhCcchHHHHHHHHhc-cCHHHHHHHHHHHHHHHhc
Confidence 4688899999999999999999977643 22221 11211 124555444433 3788999999999999999
Q ss_pred CHHHHHHHHH--HHHHHHhh-HHHHHHHHHHHHHHHHHHhh
Q 009349 479 DEELVQACKR--KLEEENST-LSVAAERRKLTWERLESAAS 516 (537)
Q Consensus 479 Dp~lF~~c~~--~~~~~~~~-~~~~~~~r~~~W~~l~~~A~ 516 (537)
.+++++.|.. -+..-... ..+.---+..-.+-+.+.|.
T Consensus 191 S~~~~~~~~~sgll~~ll~eL~~dDiLvqlnalell~~La~ 231 (503)
T PF10508_consen 191 SPEAAEAVVNSGLLDLLLKELDSDDILVQLNALELLSELAE 231 (503)
T ss_pred CHHHHHHHHhccHHHHHHHHhcCccHHHHHHHHHHHHHHHc
Confidence 9999999885 22221111 11122234556666777776
No 24
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=43.11 E-value=7.2e+02 Score=30.58 Aligned_cols=271 Identities=15% Similarity=0.183 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhc------CCCCCChHhHHHHHHHhHhhccccCCCCCCCCCCCCCCCCCCCCCCCccc-------hhHHH
Q 009349 149 QTLIELADFVSS------GSAKFTEPAISGMCKMCSLNLFRVFPPKCRSNGTGGETEDEEPMFDPAWS-------HLQIV 215 (537)
Q Consensus 149 ~tL~EL~~~v~~------~~~~lte~v~~~i~~Mi~~NIFR~lP~~~~~~~~~~d~eedep~~e~sWp-------HLqlV 215 (537)
.+++-|+..+.+ ...-+..+.+..-++.+-.-+=||+|.-.-+ .|||+ .++|| -+.+.
T Consensus 197 el~klIlKifks~~~~~LP~~L~~~~~f~~W~~l~l~i~~rpvP~E~l~----~d~e~-----R~~~~wwK~KKWa~~~L 267 (1010)
T KOG1991|consen 197 ELQKLILKIFKSLIYYELPLELSAPETFTSWMELFLSILNRPVPVEVLS----LDPED-----RSSWPWWKCKKWALHIL 267 (1010)
T ss_pred HHHHHHHHHHHHHHHHhCCHHhhCchhHHHHHHHHHHHHcCCCChhccc----CChhh-----cccccchhhHHHHHHHH
Q ss_pred HHHHHHHHhcCCCC--hHHhhhcCCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhhhcc
Q 009349 216 YDLLLRFVSYGSLD--VKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFET 293 (537)
Q Consensus 216 Yeillrfv~s~~~d--~k~ak~~id~~Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI~E~ 293 (537)
|.+|.||-.-.... -+..+.++...|+..+++ ++-.+...+-. +-+.--.+-+.+.+|+.+.
T Consensus 268 ~Rlf~Ryg~~~~~~~~y~~Fa~~f~~n~~~~ile---------------~~lk~l~~~~~-~~yls~rvl~~~l~fl~~~ 331 (1010)
T KOG1991|consen 268 NRLFERYGSPSLVVPEYKEFAQMFLKNFAQGILE---------------VFLKILEQWRQ-QLYLSDRVLYYLLNFLEQC 331 (1010)
T ss_pred HHHHHHhCCccccchhhHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHh-cccCCHHHHHHHHHHHHHh
Q ss_pred CCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccCCC
Q 009349 294 ERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYWPV 373 (537)
Q Consensus 294 e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp~La~~vi~~LLk~WP~ 373 (537)
-.|.-..-++ |+--..++..+++||.+..-- .+.| .+.|| ...+|.=..+|--
T Consensus 332 Vs~~~twkll--------------~PHl~~ii~~vIFPlmc~~d~---deel-------we~DP---~EYiR~~~Di~ed 384 (1010)
T KOG1991|consen 332 VSHASTWKLL--------------KPHLQVIIQDVIFPLMCFNDE---DEEL-------WEEDP---YEYIRKKFDIFED 384 (1010)
T ss_pred ccHHHHHHHh--------------hhHHHHHHHHhhhhhcCCCcc---cHHH-------HhcCH---HHHHHhcCchhcc
Q ss_pred CCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCC----CcHHHHHHHHHhhcChhHHHhhhhccc-------
Q 009349 374 TNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNS----SHYQVAERAHLLWNNEHILNLVTHNRQ------- 442 (537)
Q Consensus 374 tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S----~hfqVAErAL~~w~N~~~~~li~~n~~------- 442 (537)
..|+ -+--+..+..+..+-..+.|++++.=+..++.+...+ .+..-.|-||.+..+-- +.+.+.+.
T Consensus 385 ~~sp-~~Aa~~~l~~~~~KR~ke~l~k~l~F~~~Il~~~~~~~~~~~~~rqkdGAL~~vgsl~--~~L~K~s~~~~~mE~ 461 (1010)
T KOG1991|consen 385 GYSP-DTAALDFLTTLVSKRGKETLPKILSFIVDILTRYKEASPPNKNPRQKDGALRMVGSLA--SILLKKSPYKSQMEY 461 (1010)
T ss_pred cCCC-cHHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhhcccCCCccChhhhhhHHHHHHHHH--HHHccCCchHHHHHH
Q ss_pred cccccccHHHHHhhhhhccHHHHHHHHHHHHHHHHhC
Q 009349 443 VIIPLVFPALERNTQNHWNQAVLNLTQNVRKILCEMD 479 (537)
Q Consensus 443 ~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~D 479 (537)
.+.+-+||.+.... --.|..|+-++..+.++|
T Consensus 462 flv~hVfP~f~s~~-----g~Lrarac~vl~~~~~~d 493 (1010)
T KOG1991|consen 462 FLVNHVFPEFQSPY-----GYLRARACWVLSQFSSID 493 (1010)
T ss_pred HHHHHhhHhhcCch-----hHHHHHHHHHHHHHHhcc
No 25
>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=42.89 E-value=3.2e+02 Score=26.40 Aligned_cols=191 Identities=12% Similarity=0.046 Sum_probs=97.4
Q ss_pred CCCChHHHHHHHHHHHHHhhhh--ccchHHHHHHHH---HHHhHhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHH
Q 009349 250 DSEDPRERDCLKTVLHRIYGKF--MAHRQFIRQAVC---NIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIF 324 (537)
Q Consensus 250 dSeDpRERd~LktiLhrIY~Kf--~~~R~fIRk~I~---nif~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~F 324 (537)
.+.|=.+|..--+-|.++-..- ...++-+...+. ..+..-+. +.+..-..+.+.+++.+..+....+++. ...
T Consensus 17 ~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~-d~Rs~v~~~A~~~l~~l~~~l~~~~~~~-~~~ 94 (228)
T PF12348_consen 17 SESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLS-DLRSKVSKTACQLLSDLARQLGSHFEPY-ADI 94 (228)
T ss_dssp T-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S--HH---HHHHHHHHHHHHHHHHGGGGHHH-HHH
T ss_pred CccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHh-hhHHHHHHHHHHHHHHHHHHHhHhHHHH-HHH
Confidence 4566667666555555553322 222222222222 12222111 2233345677778887777665554443 334
Q ss_pred HHHHHhcccCCCCcccchhhHHHHHHHHHhcCCCcHHHH-HHHhhccCCCCCChhHHHHHHHHHHHHhhCC--hHHHHH-
Q 009349 325 LCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNA-IKGLLKYWPVTNSQKELMFISELEEVLEMTS--MAEFQK- 400 (537)
Q Consensus 325 l~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp~La~~v-i~~LLk~WP~tns~KEvlFL~EleeILe~~~--~~~f~~- 400 (537)
+...|+.+..... ....+.-..|+..+++.-+ ....+ +..+...+---|+.=-..-+.-+..+++..+ ...+..
T Consensus 95 ~l~~Ll~~~~~~~-~~i~~~a~~~L~~i~~~~~-~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~ 172 (228)
T PF12348_consen 95 LLPPLLKKLGDSK-KFIREAANNALDAIIESCS-YSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKS 172 (228)
T ss_dssp HHHHHHHGGG----HHHHHHHHHHHHHHHTTS--H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--H
T ss_pred HHHHHHHHHcccc-HHHHHHHHHHHHHHHHHCC-cHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhccc
Confidence 4556666655542 2345667778888887655 32333 6666666666666555667778888888776 344433
Q ss_pred -HHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhccccccc
Q 009349 401 -IMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIP 446 (537)
Q Consensus 401 -i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~P 446 (537)
....+.+.|.+|++..+..|=+.|-..|. .+...+.+....++-
T Consensus 173 ~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~--~l~~~~~~~a~~~~~ 217 (228)
T PF12348_consen 173 AFLKQLVKALVKLLSDADPEVREAARECLW--ALYSHFPERAESILS 217 (228)
T ss_dssp HHHHHHHHHHHHHHTSS-HHHHHHHHHHHH--HHHHHH-HHH-----
T ss_pred chHHHHHHHHHHHCCCCCHHHHHHHHHHHH--HHHHHCCHhhccchh
Confidence 34788899999999999999888876653 233344444444443
No 26
>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=39.57 E-value=77 Score=28.10 Aligned_cols=101 Identities=15% Similarity=0.246 Sum_probs=56.2
Q ss_pred cHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCC-CcHH-HHHHHHHhhcChhHHHh
Q 009349 359 LATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNS-SHYQ-VAERAHLLWNNEHILNL 436 (537)
Q Consensus 359 La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S-~hfq-VAErAL~~w~N~~~~~l 436 (537)
++..+..-..+.||..++. |+.++-.++.. ++... .....+++.+.+=+.+ .+-. -.+| ...+...
T Consensus 8 l~~~l~~i~~~~~P~~Wp~----~l~~l~~~~~~-~~~~~-~~~L~iL~~l~eEi~~~~~~~~~~~r------~~~l~~~ 75 (148)
T PF08389_consen 8 LAQVLAEIAKRDWPQQWPD----FLEDLLQLLQS-SPQHL-ELVLRILRILPEEITDFRRSSLSQER------RRELKDA 75 (148)
T ss_dssp HHHHHHHHHHHHTTTTSTT----HHHHHHHHHHT-THHHH-HHHHHHHHHHHHHHHTSHCCHSHHHH------HHHHHHH
T ss_pred HHHHHHHHHHHHChhhCch----HHHHHHHHhcc-chhHH-HHHHHHHHHHHHHHHhhhchhhhHHH------HHHHHHH
Confidence 5666777888899999987 77777777655 34443 2344555555554443 1111 1112 3344445
Q ss_pred hhhccccccccccHHHHHhhhhhcc---HHHHHHHHHHHHHH
Q 009349 437 VTHNRQVIIPLVFPALERNTQNHWN---QAVLNLTQNVRKIL 475 (537)
Q Consensus 437 i~~n~~~I~PiI~paL~~~sk~HWn---~~Vr~la~~vlkiL 475 (537)
+.++. |.+++.+.+....+.+ ..+...+..+++.+
T Consensus 76 l~~~~----~~i~~~l~~~l~~~~~~~~~~~~~~~L~~l~s~ 113 (148)
T PF08389_consen 76 LRSNS----PDILEILSQILSQSSSEANEELVKAALKCLKSW 113 (148)
T ss_dssp HHHHH----HHHHHHHHHHHHHHCHCCHHHHHHHHHHHHHHH
T ss_pred HHHHH----HHHHHHHHHHHHhhccccHHHHHHHHHHHHHHH
Confidence 55554 4445555555555554 56666666665554
No 27
>PTZ00429 beta-adaptin; Provisional
Probab=37.61 E-value=7.8e+02 Score=29.39 Aligned_cols=138 Identities=11% Similarity=0.173 Sum_probs=80.0
Q ss_pred HHHHHHHHHhHhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCc--ccchhhHHHHHHHHHhc
Q 009349 278 IRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSV--GIYHQQLTYCVVQFIDK 355 (537)
Q Consensus 278 IRk~I~nif~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~--~~y~~qL~~ci~qFv~K 355 (537)
....+-+.+.+++.....+ +.|.+.++..|++.+. -+ + .+.+.+-.++. ..+ +.=...+.+++.+|.+.
T Consensus 402 ~a~~cV~~Ll~ll~~~~~~--v~e~i~vik~IlrkyP--~~--~--il~~L~~~~~~-~~i~e~~AKaaiiWILGEy~~~ 472 (746)
T PTZ00429 402 VAPDCANLLLQIVDRRPEL--LPQVVTAAKDIVRKYP--EL--L--MLDTLVTDYGA-DEVVEEEAKVSLLWMLGEYCDF 472 (746)
T ss_pred HHHHHHHHHHHHhcCCchh--HHHHHHHHHHHHHHCc--cH--H--HHHHHHHhhcc-cccccHHHHHHHHHHHHhhHhh
Confidence 3444556666777443222 6678888888887763 11 1 11222211111 111 11123456677888765
Q ss_pred CCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhh
Q 009349 356 DPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLW 428 (537)
Q Consensus 356 Dp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w 428 (537)
-+. +..+++.+++.|---++.=+...|.-...++-..+ .+.+..+..+++..+ -.+.+..|=.||.++|
T Consensus 473 I~~-a~~~L~~~i~~f~~E~~~VqlqlLta~vKlfl~~p-~~~~~~l~~vL~~~t--~~~~d~DVRDRA~~Y~ 541 (746)
T PTZ00429 473 IEN-GKDIIQRFIDTIMEHEQRVQLAILSAAVKMFLRDP-QGMEPQLNRVLETVT--THSDDPDVRDRAFAYW 541 (746)
T ss_pred Hhh-HHHHHHHHHhhhccCCHHHHHHHHHHHHHHHhcCc-HHHHHHHHHHHHHHH--hcCCChhHHHHHHHHH
Confidence 443 67788788888877666656666666666665544 444555545554332 2478999999999999
No 28
>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=36.76 E-value=3.3e+02 Score=25.40 Aligned_cols=79 Identities=13% Similarity=0.125 Sum_probs=60.4
Q ss_pred HHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHH-HHHHHHHHHhhC------CCcHHHHH
Q 009349 350 VQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIM-VPLFRRIGCCLN------SSHYQVAE 422 (537)
Q Consensus 350 ~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~-~~LF~~ia~cl~------S~hfqVAE 422 (537)
...+..+|.-+...++.|.|-=-..|+.-++.-|..++.++..+.+.-...+. .....-+.+.++ ..|..|-+
T Consensus 26 cD~In~~~~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~Fl~el~kl~~~k~~~~~~~~~Vk~ 105 (139)
T cd03567 26 CEQINKEPEGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKFRFLNELIKLVSPKYLGSRTSEKVKT 105 (139)
T ss_pred HHHHHcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHHHHHHHHHhccccCCCCCCHHHHH
Confidence 44567889999999999999888888888999999999999999876655554 344445555553 36889999
Q ss_pred HHHHhh
Q 009349 423 RAHLLW 428 (537)
Q Consensus 423 rAL~~w 428 (537)
+.|.+.
T Consensus 106 kil~li 111 (139)
T cd03567 106 KIIELL 111 (139)
T ss_pred HHHHHH
Confidence 987553
No 29
>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=36.63 E-value=91 Score=28.57 Aligned_cols=89 Identities=18% Similarity=0.244 Sum_probs=53.8
Q ss_pred HHHHHhhC-ChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhc------ChhHHHhhhhccccccccccHHHH-Hhhh
Q 009349 386 LEEVLEMT-SMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWN------NEHILNLVTHNRQVIIPLVFPALE-RNTQ 457 (537)
Q Consensus 386 leeILe~~-~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~------N~~~~~li~~n~~~I~PiI~paL~-~~sk 457 (537)
+.+|...+ +.++|..|+.-|.+||... ..+...+-.||.+.. .+.++.-+.++...| ..+-.--| ....
T Consensus 22 m~eIa~~t~~~~~~~~Im~~l~kRL~~~--~k~WR~vyKaL~lleyLl~nGse~vv~~~r~~~~~i-~~L~~F~~~d~~g 98 (123)
T cd03571 22 MAEIARATYNYVEFQEIMSMLWKRLNDK--GKNWRHVYKALTLLEYLLKNGSERVVDDARENLYII-RTLKDFQYIDENG 98 (123)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHHHHHhc--cccHHHHHHHHHHHHHHHHhCCHHHHHHHHHhHHHH-HhhccceeeCCCC
Confidence 34444433 6788999999999999865 567777888887662 233333333332222 11100000 1112
Q ss_pred hhccHHHHHHHHHHHHHHHH
Q 009349 458 NHWNQAVLNLTQNVRKILCE 477 (537)
Q Consensus 458 ~HWn~~Vr~la~~vlkiL~e 477 (537)
.-|-..||..|.+++.+|.|
T Consensus 99 ~d~G~~VR~ka~~i~~Ll~D 118 (123)
T cd03571 99 KDQGINVREKAKEILELLED 118 (123)
T ss_pred CchhHHHHHHHHHHHHHhCC
Confidence 35999999999999999964
No 30
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=36.56 E-value=3.4e+02 Score=25.36 Aligned_cols=115 Identities=14% Similarity=0.232 Sum_probs=75.2
Q ss_pred ChhHHHHHHHHHHHHhhCC-----h---HHHHH-HHHHHHHHHHHhhCCCcHHHHHHHHHhhcC--hhHHHhhhhccccc
Q 009349 376 SQKELMFISELEEVLEMTS-----M---AEFQK-IMVPLFRRIGCCLNSSHYQVAERAHLLWNN--EHILNLVTHNRQVI 444 (537)
Q Consensus 376 s~KEvlFL~EleeILe~~~-----~---~~f~~-i~~~LF~~ia~cl~S~hfqVAErAL~~w~N--~~~~~li~~n~~~I 444 (537)
....++=|.-|+.+|+.-. . ..|.. +...+|..|.+.+.+++++|.++++.+.-+ .++...++.-.+.+
T Consensus 36 ~~~k~l~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~l~~~Ll~~~~~~~~~i~~~slri~~~l~~~~~~~Lk~ele~~ 115 (168)
T PF12783_consen 36 ERSKLLSLELLESILENHGSVFRSSEEHPSLINLLKDDLCPALLKNLSSSDFPIFSRSLRIFLTLLSRFRSHLKLELEVF 115 (168)
T ss_pred HHHHHHHHHHHHHHHHhCHHHHhCCcchHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566777888886532 1 24433 448999999999999999999999855432 23344445555666
Q ss_pred cccccHHHHHhhh-hhccHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHH
Q 009349 445 IPLVFPALERNTQ-NHWNQAVLNLTQNVRKILCEMDEELVQACKRKLEEEN 494 (537)
Q Consensus 445 ~PiI~paL~~~sk-~HWn~~Vr~la~~vlkiL~e~Dp~lF~~c~~~~~~~~ 494 (537)
++.++-.+..... ..| -|.++..+++-+.. ||.+.-+.=.+|..+.
T Consensus 116 l~~i~~~il~~~~~~~~---~k~~~Le~l~~l~~-~p~~l~~lf~NYDCd~ 162 (168)
T PF12783_consen 116 LSHIILRILESDNSSLW---QKELALEILRELCK-DPQFLVDLFVNYDCDL 162 (168)
T ss_pred HHHHHHHHHccCCCcHH---HHHHHHHHHHHHHh-ChhHHHHHHHHcCCCC
Confidence 6665554444333 356 57778888888884 8887777666665543
No 31
>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=36.14 E-value=4.8e+02 Score=26.55 Aligned_cols=70 Identities=10% Similarity=0.014 Sum_probs=37.3
Q ss_pred CCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcH-HHHHHHHHh
Q 009349 356 DPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHY-QVAERAHLL 427 (537)
Q Consensus 356 Dp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hf-qVAErAL~~ 427 (537)
+|+-...+++.+..+|..-...|.- -.-++.+++..++++...++..+...+...+..++- -|...++..
T Consensus 141 ~~~~~~~i~~~l~~~~~~l~~~~~G--~~vvq~~l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~ 211 (322)
T cd07920 141 PPEDLQFIIDAFKGNCVALSTHPYG--CRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLEL 211 (322)
T ss_pred CHHHHHHHHHHHHHHHHHHHcCccc--cHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhc
Confidence 3444555566666555433222211 123566667677777777777666666666655443 344444433
No 32
>KOG2175 consensus Protein predicted to be involved in carbohydrate metabolism [Carbohydrate transport and metabolism]
Probab=35.49 E-value=5.2e+02 Score=29.09 Aligned_cols=40 Identities=18% Similarity=0.242 Sum_probs=33.2
Q ss_pred ccHHHHHhhhhhccHHHHHHHHHHHHHHHHhCHHHHHHHHH
Q 009349 448 VFPALERNTQNHWNQAVLNLTQNVRKILCEMDEELVQACKR 488 (537)
Q Consensus 448 I~paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp~lF~~c~~ 488 (537)
|++++...-+.- +..+|..+..++..+.|++|.+...-+.
T Consensus 214 i~~~le~~~~~~-d~~~r~~~~di~~~~ve~~~~~i~~~~~ 253 (458)
T KOG2175|consen 214 ILDALEYVLKMP-DTQVRSAATDILARLVEMSPSMIRSFTL 253 (458)
T ss_pred hHHHHHHHhcCC-cchhhHHHHHHHHHHHhcCHHHHHHHHH
Confidence 566676666666 8899999999999999999999887553
No 33
>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=33.99 E-value=1.8e+02 Score=27.18 Aligned_cols=19 Identities=42% Similarity=0.600 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHH-hhhhc
Q 009349 254 PRERDCLKTVLHRI-YGKFM 272 (537)
Q Consensus 254 pRERd~LktiLhrI-Y~Kf~ 272 (537)
+..|+.+-.++.|| |||..
T Consensus 83 ~ehR~~l~pvvlRILygk~~ 102 (141)
T PF07539_consen 83 EEHRPELMPVVLRILYGKMQ 102 (141)
T ss_pred HHHHhHHHHHHHHHHHHHHh
Confidence 77888888888887 77754
No 34
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=32.37 E-value=1.7e+02 Score=27.65 Aligned_cols=50 Identities=16% Similarity=0.352 Sum_probs=32.0
Q ss_pred HHHHHHHhhcCCCChHH-HHHHHHHHHHHhhhhccchHHHHHHHHHHHhHh
Q 009349 240 LFIVRLLDLFDSEDPRE-RDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRF 289 (537)
Q Consensus 240 ~Fi~~Ll~lfdSeDpRE-Rd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~F 289 (537)
.++..|+..+.++||.- .+.....|.+||..--+.-.+.|......+-.|
T Consensus 67 ~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~~~~~~p~l~Rei~tp~l~~~ 117 (165)
T PF08167_consen 67 QWLRALLSILEKPDPPSVLEAAIITLTRLFDLIRGKPTLTREIATPNLPKF 117 (165)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcCCCchHHHHhhccHHHH
Confidence 46677777777766654 666777777777665555555666655544444
No 35
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=31.50 E-value=1.6e+02 Score=27.65 Aligned_cols=80 Identities=18% Similarity=0.391 Sum_probs=50.3
Q ss_pred HHHHHHHHHhHhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCcccchhh-HHHHHHHHHhcC
Q 009349 278 IRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQ-LTYCVVQFIDKD 356 (537)
Q Consensus 278 IRk~I~nif~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~~~y~~q-L~~ci~qFv~KD 356 (537)
+|..+-..+.+-.... ...=..-.|+|+..++..|..-||.|-..|+..++.|+..++..+.=++. ...++..++ +|
T Consensus 70 lk~~l~~~Ll~~~~~~-~~~i~~~slri~~~l~~~~~~~Lk~ele~~l~~i~~~il~~~~~~~~~k~~~Le~l~~l~-~~ 147 (168)
T PF12783_consen 70 LKDDLCPALLKNLSSS-DFPIFSRSLRIFLTLLSRFRSHLKLELEVFLSHIILRILESDNSSLWQKELALEILRELC-KD 147 (168)
T ss_pred HHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHH-hC
Confidence 4444444444444332 22223345889999999999999999999999999999887765222333 334444444 45
Q ss_pred CCc
Q 009349 357 PKL 359 (537)
Q Consensus 357 p~L 359 (537)
|.+
T Consensus 148 p~~ 150 (168)
T PF12783_consen 148 PQF 150 (168)
T ss_pred hhH
Confidence 553
No 36
>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=29.85 E-value=4.6e+02 Score=29.47 Aligned_cols=100 Identities=17% Similarity=0.264 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHhcCC--CChHHhhhcCCHHHHHHHHhhcC-CCChHHHHHHHHHHHHHhhhhc----------c----ch
Q 009349 213 QIVYDLLLRFVSYGS--LDVKVAKKYVDHLFIVRLLDLFD-SEDPRERDCLKTVLHRIYGKFM----------A----HR 275 (537)
Q Consensus 213 qlVYeillrfv~s~~--~d~k~ak~~id~~Fi~~Ll~lfd-SeDpRERd~LktiLhrIY~Kf~----------~----~R 275 (537)
..+-|+|+|+|.... ....+..=.-++.+|.+|++.|+ +.|+......-.+|..|..... + .|
T Consensus 33 ~~ImDlLLklIs~d~~~~~~~ilewL~~q~LI~~Li~~L~p~~~~~~q~naa~~L~aII~is~n~~~~~~~~igpn~L~r 112 (475)
T PF04499_consen 33 PAIMDLLLKLISTDKPESPTGILEWLAEQNLIPRLIDLLSPSYSSDVQSNAADFLKAIIRISRNAPQNEQSSIGPNPLTR 112 (475)
T ss_pred cHHHHHHHHHHccCcccchHHHHHHHHHhCHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccccCCCccHHHH
Confidence 368899999998543 22233333346889999999998 5555566666666666643321 1 23
Q ss_pred HHHHHHHHHHHhHhhhccCCccChHHHHHHHHHHHhc
Q 009349 276 QFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISG 312 (537)
Q Consensus 276 ~fIRk~I~nif~~FI~E~e~hnGIaELLeIlgSIInG 312 (537)
......+-..+.+++.+...-.++.-.+.|+-.+|+.
T Consensus 113 ~L~S~~~v~~Ll~~mL~~~~~s~lvn~v~IlieLIRk 149 (475)
T PF04499_consen 113 QLVSEETVEKLLDIMLNSQGGSSLVNGVSILIELIRK 149 (475)
T ss_pred HHhChHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHh
Confidence 3344444455566666533455566666666666643
No 37
>PF14676 FANCI_S2: FANCI solenoid 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=29.46 E-value=3e+02 Score=26.22 Aligned_cols=24 Identities=38% Similarity=0.348 Sum_probs=18.0
Q ss_pred cCCCchHHHHHHHHHHHhcccCCC
Q 009349 313 FALPLKEEHKIFLCRALIPLHKPK 336 (537)
Q Consensus 313 fa~PLKeEhk~Fl~rvLlPLHk~k 336 (537)
+-..+..++...+.+++.||.+..
T Consensus 103 ~l~~lp~~~a~~ll~Al~PLi~~s 126 (158)
T PF14676_consen 103 YLSFLPGDVAIGLLRALLPLIKFS 126 (158)
T ss_dssp GTTTS-HHHHHHHHHHHHHHHTT-
T ss_pred HHHhCCHHHHHHHHHHHHHHHhcC
Confidence 445567778888999999999985
No 38
>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=29.27 E-value=1.2e+02 Score=33.47 Aligned_cols=166 Identities=13% Similarity=0.203 Sum_probs=88.3
Q ss_pred HHHHHHHHHh-hcCCCCCChHhHHHHHHHhHhhccccCCCCCCC------CCCCCCCCCCCC--------------CCCC
Q 009349 149 QTLIELADFV-SSGSAKFTEPAISGMCKMCSLNLFRVFPPKCRS------NGTGGETEDEEP--------------MFDP 207 (537)
Q Consensus 149 ~tL~EL~~~v-~~~~~~lte~v~~~i~~Mi~~NIFR~lP~~~~~------~~~~~d~eedep--------------~~e~ 207 (537)
+.|...+..| ++.-.-+.+-+++-+-.|++.+-=-++|+.... ....++...-.| -.-.
T Consensus 116 ~~L~P~f~~ILq~dV~EF~PYvfQIla~Lle~~~~~~~p~~y~~L~~~Ll~p~lWe~~gniPalvrLL~a~i~k~~~~i~ 195 (435)
T PF03378_consen 116 EALFPPFQEILQQDVQEFIPYVFQILAQLLELRPSSPLPDAYKQLFPPLLSPALWERRGNIPALVRLLQAYIKKDPSFIV 195 (435)
T ss_dssp HHHHHHHHHHHHTT-TTTHHHHHHHHHHHHHHSS--S--TTTGGGHHHHTSGGGGGSTTTHHHHHHHHHHHHHHHGGG--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHcCcchhccCCCcCcHHHHHHHHHHhCchhhc
Confidence 3444444444 345566888888888888888662234443211 000111111112 1224
Q ss_pred ccchhHHHHHHHHHHHhcCCCChHHhhhcCCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhccch--HHHHHHHHHH
Q 009349 208 AWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHR--QFIRQAVCNI 285 (537)
Q Consensus 208 sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~~~R--~fIRk~I~ni 285 (537)
+-.||+-|+.+|.+++.|...|..-. ..+..++..+.-+ .=..|+++|+.-++.+....| .|+++-+ +
T Consensus 196 ~~~~l~~iLgvFQkLi~sk~~D~~gF------~LL~~iv~~~p~~--~l~~yl~~I~~lll~RLq~skT~kf~~~fv--~ 265 (435)
T PF03378_consen 196 ANNQLEPILGVFQKLIASKANDHYGF------DLLESIVENLPPE--ALEPYLKQIFTLLLTRLQSSKTEKFVKRFV--V 265 (435)
T ss_dssp --S-CHHHHHHHHHHHT-TTCHHHHH------HHHHHHHHHS-HH--HHGGGHHHHHHHHHHHHHHC--HHHHHHHH--H
T ss_pred chhhHHHHHHHHHHHHCCCCcchHHH------HHHHHHHHHCCHH--HHHHHHHHHHHHHHHHHhhCCcHHHHHHHH--H
Confidence 55899999999999999977664321 2445555554321 124578888877777665433 3444443 2
Q ss_pred HhHhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccC
Q 009349 286 IYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHK 334 (537)
Q Consensus 286 f~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk 334 (537)
|+.++- ...|...+.+++.+|..|. ...++.++++|-.+
T Consensus 266 F~~~~~---~~~g~~~li~~id~IQ~gl-------F~~il~~v~lp~~~ 304 (435)
T PF03378_consen 266 FLSLFA---IKYGPDFLIQTIDSIQPGL-------FGMILEKVWLPDLQ 304 (435)
T ss_dssp HHHHHH---HHH-HHHHHHHHHTTSTTH-------HHHHHHHTHHHHGG
T ss_pred HHHHHH---HHcCHHHHHHHHHHhcCCc-------HHHHHHHHhcCchh
Confidence 333221 1239999999999998885 24466788888443
No 39
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=28.55 E-value=2.2e+02 Score=36.02 Aligned_cols=115 Identities=14% Similarity=0.170 Sum_probs=65.2
Q ss_pred CCCCChHHHHHHHHHHHhcCcccccccCCCcCchh---HHHHHHHHHHHHHHhhcCCCCCChHhHHHHHHHhHhhccccC
Q 009349 109 FKDVSNTQKQNLFVSKLNLCCEVSDFSDSDKVTAE---QDLKRQTLIELADFVSSGSAKFTEPAISGMCKMCSLNLFRVF 185 (537)
Q Consensus 109 l~dv~~~e~~~Lf~~Kl~~C~~ifDFsDp~~d~~~---Ke~K~~tL~EL~~~v~~~~~~lte~v~~~i~~Mi~~NIFR~l 185 (537)
|.|+|....++..=--++.||.+..=- . -+... -.--..++.+|-+.+++...
T Consensus 1162 l~dCP~~~~n~yVP~iV~~C~~vVEt~-G-l~~vGIYRIPGN~AAIs~l~E~ln~~~f---------------------- 1217 (1973)
T KOG4407|consen 1162 LADCPTGSCNDYVPMIVQACVCVVETY-G-LDTVGIYRIPGNTAAISALKESLNNRGF---------------------- 1217 (1973)
T ss_pred cccCCcccccccchHHHHHHHHHHhhc-C-ccceeEEecCCcHHHHHHHHHHHhcccc----------------------
Confidence 789999988888888889999877511 0 00000 00012334444444433221
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCccchhHHHHHHHHHHHhcCCCChH-HhhhcCCHHHHHHHHhhcCCCChHHHHH-HHHH
Q 009349 186 PPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGSLDVK-VAKKYVDHLFIVRLLDLFDSEDPRERDC-LKTV 263 (537)
Q Consensus 186 P~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~~d~k-~ak~~id~~Fi~~Ll~lfdSeDpRERd~-Lkti 263 (537)
. -|....|+-|.-+.+|-.+|--|+.+-+ +|- -++.|++ +|+-=+-+|+-||-. |+.+
T Consensus 1218 -----------~--~~v~~~DdrWrDvNVVSSLLK~F~RkLP-epL~t~~~Y~~------FIeAnrk~~~l~Rl~~Lr~l 1277 (1973)
T KOG4407|consen 1218 -----------L--SKVESLDDRWRDVNVVSSLLKMFLRKLP-EPLLTDKLYPF------FIEANRKSTHLNRLHKLRNL 1277 (1973)
T ss_pred -----------c--hhhhccccchhhhHHHHHHHHHHHHhCC-cccccccchhh------hhhhcccccHHHHHHHHHHH
Confidence 1 1233578899999999998888887521 110 1234444 555556677777754 5556
Q ss_pred HHHH
Q 009349 264 LHRI 267 (537)
Q Consensus 264 LhrI 267 (537)
||.+
T Consensus 1278 ~~~L 1281 (1973)
T KOG4407|consen 1278 LRKL 1281 (1973)
T ss_pred HHhC
Confidence 6544
No 40
>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=27.90 E-value=4.6e+02 Score=23.77 Aligned_cols=81 Identities=15% Similarity=0.123 Sum_probs=59.6
Q ss_pred HHHHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHH-HHHHHHHHhhC---CCcHHHHHH
Q 009349 348 CVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMV-PLFRRIGCCLN---SSHYQVAER 423 (537)
Q Consensus 348 ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~-~LF~~ia~cl~---S~hfqVAEr 423 (537)
=+...+..++.-+..+++.|.|.==..|+.-+..-|.-++.++..+++.-...+.. .....+.+.+. ..|.+|-++
T Consensus 23 ~icd~I~~~~~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~fl~~l~~l~~~~~~~~~~Vk~k 102 (133)
T cd03561 23 ELCDLINLKPNGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKEFLLELVKIAKNSPKYDPKVREK 102 (133)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHHHHHHHHHHhCCCCCCCHHHHHH
Confidence 34445677788888888888777777899999999999999999987755555544 44444555554 468999999
Q ss_pred HHHhh
Q 009349 424 AHLLW 428 (537)
Q Consensus 424 AL~~w 428 (537)
++.+.
T Consensus 103 il~ll 107 (133)
T cd03561 103 ALELI 107 (133)
T ss_pred HHHHH
Confidence 88664
No 41
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=27.79 E-value=3.6e+02 Score=25.55 Aligned_cols=83 Identities=13% Similarity=0.221 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHH
Q 009349 397 EFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILC 476 (537)
Q Consensus 397 ~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~ 476 (537)
.|..++.|....+..|+.+++..|=..|+..... |+.++.-.+=+.++..+.... .==|+.||+.|...+.-+.
T Consensus 18 r~~~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~-----Li~~d~ik~k~~l~~~~l~~l-~D~~~~Ir~~A~~~~~e~~ 91 (178)
T PF12717_consen 18 RYPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSH-----LILEDMIKVKGQLFSRILKLL-VDENPEIRSLARSFFSELL 91 (178)
T ss_pred hCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHH-----HHHcCceeehhhhhHHHHHHH-cCCCHHHHHHHHHHHHHHH
Confidence 3567778889999999999999999999987743 444333222233322222222 2228899999999998888
Q ss_pred Hh-CHHHHHH
Q 009349 477 EM-DEELVQA 485 (537)
Q Consensus 477 e~-Dp~lF~~ 485 (537)
.. +|..+..
T Consensus 92 ~~~~~~~i~~ 101 (178)
T PF12717_consen 92 KKRNPNIIYN 101 (178)
T ss_pred HhccchHHHH
Confidence 87 6665544
No 42
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=27.18 E-value=2.6e+02 Score=24.34 Aligned_cols=73 Identities=16% Similarity=0.190 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhccccc---cccccHHHHHhhhhhccHHHHHHHHHHHHH
Q 009349 398 FQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVI---IPLVFPALERNTQNHWNQAVLNLTQNVRKI 474 (537)
Q Consensus 398 f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I---~PiI~paL~~~sk~HWn~~Vr~la~~vlki 474 (537)
..+....|.+-+-.|++.++.+|=..|..-.-| +.+..+..+ ++-||++|.+.... =++.||+.|..+-+.
T Consensus 21 ~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~n-----i~k~~~~~~l~~f~~IF~~L~kl~~D-~d~~Vr~~a~~Ld~l 94 (97)
T PF12755_consen 21 ISKYLDEILPPVLKCFDDQDSRVRYYACEALYN-----ISKVARGEILPYFNEIFDALCKLSAD-PDENVRSAAELLDRL 94 (97)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHcC-CchhHHHHHHHHHHH
Confidence 455555666666689999999998888754432 333333344 45677777775533 366788777666555
Q ss_pred HH
Q 009349 475 LC 476 (537)
Q Consensus 475 L~ 476 (537)
|.
T Consensus 95 lk 96 (97)
T PF12755_consen 95 LK 96 (97)
T ss_pred hc
Confidence 53
No 43
>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=27.18 E-value=1.9e+02 Score=24.05 Aligned_cols=43 Identities=16% Similarity=0.070 Sum_probs=34.3
Q ss_pred ChHHhhhcCCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhh
Q 009349 229 DVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKF 271 (537)
Q Consensus 229 d~k~ak~~id~~Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf 271 (537)
++...+.+++...+..|+.+++++|++=|...-..|.++-...
T Consensus 38 ~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~ 80 (120)
T cd00020 38 NNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGP 80 (120)
T ss_pred CHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCc
Confidence 3555666677788899999999999999999889998885444
No 44
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.11 E-value=9.2e+02 Score=29.32 Aligned_cols=300 Identities=15% Similarity=0.166 Sum_probs=157.0
Q ss_pred HhHHHHHHHhHhhccccCCCCC-CCCCCCCCCCCCCC----C-CCCccchhHHHHHHHHHHHhcCC-CChHHhhhcCC--
Q 009349 168 PAISGMCKMCSLNLFRVFPPKC-RSNGTGGETEDEEP----M-FDPAWSHLQIVYDLLLRFVSYGS-LDVKVAKKYVD-- 238 (537)
Q Consensus 168 ~v~~~i~~Mi~~NIFR~lP~~~-~~~~~~~d~eedep----~-~e~sWpHLqlVYeillrfv~s~~-~d~k~ak~~id-- 238 (537)
.-..++.+-+..+|-+.|-.+. +..+ ..- .|+.- + ..+.=+||--..-.+.||+++.. .-.+.|..+++
T Consensus 448 n~lvdv~~Ff~~~ilp~L~s~~vn~~p-ilk-a~aIKy~~~FR~ql~~~~lm~~~p~li~~L~a~s~vvhsYAA~aiEki 525 (960)
T KOG1992|consen 448 NELVDVVDFFANQILPDLLSPNVNEFP-ILK-ADAIKYIYTFRNQLGKEHLMALLPRLIRFLEAESRVVHSYAAIAIEKL 525 (960)
T ss_pred cccccHHHHHHHHhhHHhccCcccccc-chh-hcccceeeeecccCChHHHHHHHHHHHHhccCcchHHHHHHHHHHHhc
Confidence 3456778888888887775421 2111 000 11111 1 24455677777777888877622 11222222221
Q ss_pred ---------------------HHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhcc----chH-HHHHHH----------
Q 009349 239 ---------------------HLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMA----HRQ-FIRQAV---------- 282 (537)
Q Consensus 239 ---------------------~~Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~~----~R~-fIRk~I---------- 282 (537)
...+.+|+.-++.++.-|-+||-..+-|+++--.. +-+ .+++-.
T Consensus 526 l~vre~~~~~if~~~~iap~~~~ll~nLf~a~s~p~~~EneylmKaImRii~i~~~~i~p~~~~~l~~Lteiv~~v~KNP 605 (960)
T KOG1992|consen 526 LTVRENSNAKIFGAEDIAPFVEILLTNLFKALSLPGKAENEYLMKAIMRIISILQSAIIPHAPELLRQLTEIVEEVSKNP 605 (960)
T ss_pred cccccCccccccchhhcchHHHHHHHHHHHhccCCcccccHHHHHHHHHHHHhCHHhhhhhhhHHHHHHHHHHHHHhcCC
Confidence 23456677888899999999998888888753211 111 111111
Q ss_pred -HHHHhHhhhccC-------CccC---hHHHHHHHHHHHhccCCCchHHHHH----------------------HHHHHH
Q 009349 283 -CNIIYRFVFETE-------RHNG---IAELLEIFGSIISGFALPLKEEHKI----------------------FLCRAL 329 (537)
Q Consensus 283 -~nif~~FI~E~e-------~hnG---IaELLeIlgSIInGfa~PLKeEhk~----------------------Fl~rvL 329 (537)
+-.|+.|.+|+- .++| |+.+-+-|-..+ ..=|.|+-.. .+..++
T Consensus 606 s~P~fnHYLFEsi~~li~~t~~~~~~~vs~~e~aL~p~f---q~Il~eDI~EfiPYvfQlla~lve~~~~~ip~~~~~l~ 682 (960)
T KOG1992|consen 606 SNPQFNHYLFESIGLLIRKTCKANPSAVSSLEEALFPVF---QTILSEDIQEFIPYVFQLLAVLVEHSSGTIPDSYSPLF 682 (960)
T ss_pred CCchhHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCchhHHHHH
Confidence 126777887742 3444 111111111000 0001111111 223333
Q ss_pred hcccCCCCcc--cchhhHHHHHHHHHhcCCCcHH--HHHHHhhccCCCCCChh--HHHHHHHHHHHHhhCChHHHHHHHH
Q 009349 330 IPLHKPKSVG--IYHQQLTYCVVQFIDKDPKLAT--NAIKGLLKYWPVTNSQK--ELMFISELEEVLEMTSMAEFQKIMV 403 (537)
Q Consensus 330 lPLHk~k~~~--~y~~qL~~ci~qFv~KDp~La~--~vi~~LLk~WP~tns~K--EvlFL~EleeILe~~~~~~f~~i~~ 403 (537)
-||..+.... -==+.|...+..|+.+++.... .-+.++|-|.-+--.+| ..-=...+..|++.+++.+....+.
T Consensus 683 ~~lLsp~lW~r~gNipalvrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~~~py~k 762 (960)
T KOG1992|consen 683 PPLLSPNLWKRSGNIPALVRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNELAPYMK 762 (960)
T ss_pred HHhcCHHHHhhcCCcHHHHHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhhhhHHHH
Confidence 3444433221 1124566677778888887665 55666666666533332 2223456788889999998887777
Q ss_pred HHHHHHHHhhCCCcHHHHHH----H---HHhhcChhHHHhhhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHH
Q 009349 404 PLFRRIGCCLNSSHYQVAER----A---HLLWNNEHILNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILC 476 (537)
Q Consensus 404 ~LF~~ia~cl~S~hfqVAEr----A---L~~w~N~~~~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~ 476 (537)
.+|--+-+-++++. .|+ - +.+....+=-....+....|-|-+|..+. .+.|......+...+.+-++
T Consensus 763 ~i~~llf~Rlqnsk---T~kf~k~~~vF~~~~~ik~~~~~l~e~~d~IQ~~~fg~l~---e~~ii~~l~~i~~~~~rk~~ 836 (960)
T KOG1992|consen 763 QIFGLLFQRLQNSK---TEKFVKSFIVFFSLFTIKKGGLMLAEVIDGIQPGMFGMLL---ENFIIPELPKIILRVDRKIM 836 (960)
T ss_pred HHHHHHHHHHhccC---cHHHHHHHHHHHHHHHHHhhhHHHHHHHhhcchhHHHHHH---HHhccccchhhhhhhhHHHH
Confidence 77766666666654 233 1 11222222222344556677777777764 36777777776666655554
Q ss_pred Hh
Q 009349 477 EM 478 (537)
Q Consensus 477 e~ 478 (537)
.+
T Consensus 837 av 838 (960)
T KOG1992|consen 837 AV 838 (960)
T ss_pred HH
Confidence 43
No 45
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=26.91 E-value=5e+02 Score=26.70 Aligned_cols=174 Identities=14% Similarity=0.204 Sum_probs=84.0
Q ss_pred HHHHHHHHhccCCCchHHHH--HHHHHHHhcccCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCChhHH
Q 009349 303 LEIFGSIISGFALPLKEEHK--IFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKEL 380 (537)
Q Consensus 303 LeIlgSIInGfa~PLKeEhk--~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp~La~~vi~~LLk~WP~tns~KEv 380 (537)
|.|.+........++.+... ..+...++|-........ ...=..|+..|+--|.+++...+.-+.+---.....=.+
T Consensus 4 L~i~~~lL~~~~~~~~~~~~l~~ll~~lI~P~v~~~~~~v-R~~al~cLGl~~Lld~~~a~~~l~l~~~~~~~~~~~v~~ 82 (298)
T PF12719_consen 4 LSITQSLLENVSSSLSPNISLESLLDSLILPAVQSSDPAV-RELALKCLGLCCLLDKELAKEHLPLFLQALQKDDEEVKI 82 (298)
T ss_pred HHHHHHHHHhccccCCCcchHHHHHHHHHHHHhcCCCHHH-HHHHHHHHHHHHHhChHHHHHHHHHHHHHHHhCCHHHHH
Confidence 44455555444444444322 455666667766665533 233346666666666666666555555444333333344
Q ss_pred HHHHHHHHHHhhCChHHHHHHH--------HHHHHHHHHhhCCCc-----------------------HHHHHHHHHhhc
Q 009349 381 MFISELEEVLEMTSMAEFQKIM--------VPLFRRIGCCLNSSH-----------------------YQVAERAHLLWN 429 (537)
Q Consensus 381 lFL~EleeILe~~~~~~f~~i~--------~~LF~~ia~cl~S~h-----------------------fqVAErAL~~w~ 429 (537)
.-|+-+-+++-.-+.+.|.... ..+.+.+.+.+.+.+ ..|-.+-+..|=
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 4555555555433333332222 244444555555444 222222233333
Q ss_pred ChhHHHhhhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHHHhCH
Q 009349 430 NEHILNLVTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILCEMDE 480 (537)
Q Consensus 430 N~~~~~li~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp 480 (537)
|+.-.+ .+.-+.++.+.||+.-..+..| ...+......++..+.+...
T Consensus 163 ~p~t~~--~~~LrQ~L~~Ffp~y~~s~~~~-Q~~l~~~f~~~l~~~~~~~~ 210 (298)
T PF12719_consen 163 NPSTED--NQRLRQCLSVFFPVYASSSPEN-QERLAEAFLPTLRTLSNAPD 210 (298)
T ss_pred CcccCC--cHHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHHHHHHHhCcc
Confidence 222111 0122445566677665555545 45666666666666665543
No 46
>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=25.71 E-value=5.5e+02 Score=23.95 Aligned_cols=80 Identities=15% Similarity=0.170 Sum_probs=59.8
Q ss_pred HHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHH-HHHHHHHHHhhCC-CcHHHHHHHHHh
Q 009349 350 VQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIM-VPLFRRIGCCLNS-SHYQVAERAHLL 427 (537)
Q Consensus 350 ~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~-~~LF~~ia~cl~S-~hfqVAErAL~~ 427 (537)
...+..++.-+..+++.|.|-==..|+.-+..-|..++.++..++..--+.+. ..+...+.+.++. .|.+|-++++.+
T Consensus 25 cD~I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask~Fl~eL~kl~~~~~~~~Vk~kil~l 104 (144)
T cd03568 25 CDKVKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASRDFTQELKKLINDRVHPTVKEKLREV 104 (144)
T ss_pred HHHHhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHhcccCCHHHHHHHHHH
Confidence 34566677777788877777666689999999999999999998875554443 3455566666666 899999998866
Q ss_pred hc
Q 009349 428 WN 429 (537)
Q Consensus 428 w~ 429 (537)
..
T Consensus 105 i~ 106 (144)
T cd03568 105 VK 106 (144)
T ss_pred HH
Confidence 53
No 47
>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=25.37 E-value=4.8e+02 Score=24.10 Aligned_cols=88 Identities=16% Similarity=0.193 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHhcCCCChHHhhhcCCHHHHHHHHhhcCCCChHHH-HHHHHHHHHHhhhhccchHHHHHHHHHHHhHhh-
Q 009349 213 QIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRER-DCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFV- 290 (537)
Q Consensus 213 qlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lfdSeDpRER-d~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI- 290 (537)
..|..+|.+|+.+-+ ...|+..+...+++...+.|..|| ..++.++ .+......-+.+.+-..|.+..
T Consensus 57 ~~va~~lK~~Lr~Lp------~pli~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~Lp~~~~~~L~~l~~~l~~i~~ 126 (174)
T smart00324 57 HDVAGLLKLFLRELP------EPLIPYELYEEFIEAAKVEDETERLRALRELI----SLLPPANRATLRYLLAHLNRVAE 126 (174)
T ss_pred HHHHHHHHHHHHhCC------CccCCHHHHHHHHHHHhCCCHHHHHHHHHHHH----HHCCHHHHHHHHHHHHHHHHHHh
Confidence 378889999987532 256788888888888887777665 3444444 4444433334444555555554
Q ss_pred hccCCccChHHHHHHHHHHH
Q 009349 291 FETERHNGIAELLEIFGSII 310 (537)
Q Consensus 291 ~E~e~hnGIaELLeIlgSII 310 (537)
++..+.-++.-|-.++|..+
T Consensus 127 ~~~~n~M~~~nLa~~f~P~l 146 (174)
T smart00324 127 HSEENKMTARNLAIVFGPTL 146 (174)
T ss_pred ccccCCCCHHHHHHHHhccc
Confidence 22234444555666666554
No 48
>KOG1967 consensus DNA repair/transcription protein Mms19 [Replication, recombination and repair; Transcription]
Probab=24.17 E-value=5.7e+02 Score=31.31 Aligned_cols=142 Identities=16% Similarity=0.133 Sum_probs=88.5
Q ss_pred HHHhhccCC-CCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhh---cChhHHHhhhh
Q 009349 364 IKGLLKYWP-VTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLW---NNEHILNLVTH 439 (537)
Q Consensus 364 i~~LLk~WP-~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w---~N~~~~~li~~ 439 (537)
+-.++.+.- .+.++|- ++|.-+..+|..++-+...+-+..|+..|-+|++-+..-|--.++... --+. -.++..
T Consensus 869 vP~l~~~~~t~~~~~K~-~yl~~LshVl~~vP~~vllp~~~~LlPLLLq~Ls~~D~~v~vstl~~i~~~l~~~-~tL~t~ 946 (1030)
T KOG1967|consen 869 VPILVSKFETAPGSQKH-NYLEALSHVLTNVPKQVLLPQFPMLLPLLLQALSMPDVIVRVSTLRTIPMLLTES-ETLQTE 946 (1030)
T ss_pred HHHHHHHhccCCccchh-HHHHHHHHHHhcCCHHhhccchhhHHHHHHHhcCCCccchhhhHhhhhhHHHHhc-cccchH
Confidence 334444444 3444554 477788888888888777888899999999999998888733344333 2111 123455
Q ss_pred ccccccccccHHHHHhhhhhcc--HHHHHHHHHHHHHHHHh---------CHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 009349 440 NRQVIIPLVFPALERNTQNHWN--QAVLNLTQNVRKILCEM---------DEELVQACKRKLEEENSTLSVAAERRKLTW 508 (537)
Q Consensus 440 n~~~I~PiI~paL~~~sk~HWn--~~Vr~la~~vlkiL~e~---------Dp~lF~~c~~~~~~~~~~~~~~~~~r~~~W 508 (537)
+-.+++| .+...+..|=| ..||..|.+.|.+|-+. -|++-.....-..+++..-.++....+..|
T Consensus 947 ~~~Tlvp----~lLsls~~~~n~~~~VR~~ALqcL~aL~~~~P~~~l~~fr~~Vl~al~k~LdDkKRlVR~eAv~tR~~W 1022 (1030)
T KOG1967|consen 947 HLSTLVP----YLLSLSSDNDNNMMVVREDALQCLNALTRRLPTKSLLSFRPLVLRALIKILDDKKRLVRKEAVDTRQNW 1022 (1030)
T ss_pred HHhHHHH----HHHhcCCCCCcchhHHHHHHHHHHHHHhccCCCcccccccHHHHHHhhhccCcHHHHHHHHHHHHhhhh
Confidence 5555544 45566666655 89999999999999982 223333322222334444444555667888
Q ss_pred HHH
Q 009349 509 ERL 511 (537)
Q Consensus 509 ~~l 511 (537)
-.|
T Consensus 1023 ~~l 1025 (1030)
T KOG1967|consen 1023 YML 1025 (1030)
T ss_pred hhc
Confidence 765
No 49
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=24.06 E-value=6.2e+02 Score=23.94 Aligned_cols=49 Identities=8% Similarity=-0.010 Sum_probs=29.1
Q ss_pred hHHHHHHHHHHHHhhCC-hHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHH
Q 009349 378 KELMFISELEEVLEMTS-MAEFQKIMVPLFRRIGCCLNSSHYQVAERAHL 426 (537)
Q Consensus 378 KEvlFL~EleeILe~~~-~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~ 426 (537)
.+--+-.-+..+++.++ +.+-..+...|+.++..+.....-++...+++
T Consensus 123 ~~~~~~~I~~fll~~i~~d~~~~~l~~kl~~~~~~~~~~~~~~~~~d~~~ 172 (178)
T PF12717_consen 123 SREKRKKIYKFLLDFIDKDKQKESLVEKLCQRFLNAVVDEDERVLRDILY 172 (178)
T ss_pred CHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHcccccHHHHHHHHH
Confidence 33345555666677776 66666777788888877664333344444443
No 50
>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=23.89 E-value=5e+02 Score=30.45 Aligned_cols=103 Identities=12% Similarity=0.113 Sum_probs=65.1
Q ss_pred HHHHHHHHHHhc-CCCChHHhhhcCC-HHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHhHhh-
Q 009349 214 IVYDLLLRFVSY-GSLDVKVAKKYVD-HLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFV- 290 (537)
Q Consensus 214 lVYeillrfv~s-~~~d~k~ak~~id-~~Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~~~R~fIRk~I~nif~~FI- 290 (537)
.+.+.+.++++. .+++|..++..+. +.-..-++.++=|+|+.=++.-.++|..+|| -.+.+.-|+..+.+.+-..+
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 344444444443 4678887777765 4456778889999999999999999999998 44444445444444333222
Q ss_pred ---------hccCCccChHHHHHHHHHHHhccCCCc
Q 009349 291 ---------FETERHNGIAELLEIFGSIISGFALPL 317 (537)
Q Consensus 291 ---------~E~e~hnGIaELLeIlgSIInGfa~PL 317 (537)
-+...+....-++.++..||++++-|.
T Consensus 575 ai~~~l~~~~~~~~~~p~pr~vr~~~DIi~~Lcdp~ 610 (727)
T PF12726_consen 575 AINWSLRQLTKLKFFEPCPRMVRCLMDIIEVLCDPV 610 (727)
T ss_pred HHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHcCCC
Confidence 122345555666666666666666653
No 51
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.72 E-value=7.4e+02 Score=30.84 Aligned_cols=282 Identities=15% Similarity=0.178 Sum_probs=135.7
Q ss_pred HHHHHHHHHhhc-CCCCCChHhHHHHHHHhHhhccccCCCCCCC----CCCCCCCCCCCCCCCCccchhHHHHHHHHHHH
Q 009349 149 QTLIELADFVSS-GSAKFTEPAISGMCKMCSLNLFRVFPPKCRS----NGTGGETEDEEPMFDPAWSHLQIVYDLLLRFV 223 (537)
Q Consensus 149 ~tL~EL~~~v~~-~~~~lte~v~~~i~~Mi~~NIFR~lP~~~~~----~~~~~d~eedep~~e~sWpHLqlVYeillrfv 223 (537)
..|..+.+.+.. |...|.|+-+.++..-+..++--.+-..... ..+.+|-+|+|-+.|..=.-+.-+-+++-+.+
T Consensus 752 ~vl~~f~~~i~~~G~~~L~~~~~~~~~~~~~~~~l~~~~~~~~r~~~~~eed~d~~eee~~~e~d~~ll~~i~~i~~~l~ 831 (1075)
T KOG2171|consen 752 EILESFAECIEVMGDNCLNEDGLEALLGGLLAQLLQHFKRMQDRQEEDDEEDDDIEEEEDLDEQDAYLLDAISDILAALA 831 (1075)
T ss_pred HHHHHHHHHHHhcCcccCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 333333333333 5678888877777776666654333221111 11223333333344333334445556666665
Q ss_pred hcCCCChHHhhhcCCHH---HHHHHHhhcCCCChHHHHHHHHHHHHHhhhhc-------------------cchHHHHHH
Q 009349 224 SYGSLDVKVAKKYVDHL---FIVRLLDLFDSEDPRERDCLKTVLHRIYGKFM-------------------AHRQFIRQA 281 (537)
Q Consensus 224 ~s~~~d~k~ak~~id~~---Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~-------------------~~R~fIRk~ 281 (537)
+. + |.-+... |.-.++.++.+..+.||..--.++--+....- +--+=+|++
T Consensus 832 k~--~-----k~~f~p~f~~~~p~iv~~l~~~~~~~r~~av~~~~d~ie~~~~a~~~~~~~~~p~~~~~~~d~~pEVRqa 904 (1075)
T KOG2171|consen 832 KA--L-----KGSFLPFFENFLPLIVKLLKSKKTVARQWAVCIFDDLIEGCGEASAKYKERFLPLVLEALQDSDPEVRQA 904 (1075)
T ss_pred HH--c-----cccccHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHcCCCCHHHHHH
Confidence 42 2 2223333 45667889999999999887666655543211 111222333
Q ss_pred HHH---HHhHhhhccCCccChHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcccCCCCcccchhhHHHHHHHHHhcCCC
Q 009349 282 VCN---IIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPK 358 (537)
Q Consensus 282 I~n---if~~FI~E~e~hnGIaELLeIlgSIInGfa~PLKeEhk~Fl~rvLlPLHk~k~~~~y~~qL~~ci~qFv~KDp~ 358 (537)
+.. +..+|.-+. +-+=+.+++++|+-++.-.-. ..||+..- ......||-..+-..|.
T Consensus 905 AsYGiGvlaq~~g~~-y~~v~~~~l~~L~~~iq~~~a-r~Ee~~~a-----------------teNa~gaiaki~~~~~~ 965 (1075)
T KOG2171|consen 905 AAYGMGVLAQFGGED-YAPVCSEALPLLVQVLQPPLA-RTEENRRA-----------------TENAIGAIAKILLFNPN 965 (1075)
T ss_pred HHHHHHHHHHHcCcc-hHHHHHHHHHHHHHHHcChhh-hhHHHhHH-----------------HHHHHHHHHHHHHhCCc
Confidence 321 111221111 112234555555554432111 02333321 23455666655555544
Q ss_pred cH--HHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHh
Q 009349 359 LA--TNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNL 436 (537)
Q Consensus 359 La--~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~l 436 (537)
.+ +.|+-.++..=|..... .--++++..|+..+.+.|-.|.-. +
T Consensus 966 ~i~vdqvl~~~l~~LPl~~D~----------------------eEa~~iy~~l~~L~e~n~p~v~~~-----~------- 1011 (1075)
T KOG2171|consen 966 RIPVDQVLPAWLSWLPLKEDK----------------------EEAVPIYTFLSDLYESNHPIVLGP-----N------- 1011 (1075)
T ss_pred cCcHHHHHHHHHHhCCCccch----------------------hhhhhHHHHHHHHHHhCCCeeeCC-----C-------
Confidence 33 34444444444443321 123578888998888888654321 1
Q ss_pred hhhccccccccccHHHHHhhhhhccHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHH
Q 009349 437 VTHNRQVIIPLVFPALERNTQNHWNQAVLNLTQNVRKILCEMDEELVQACKRKLEEEN 494 (537)
Q Consensus 437 i~~n~~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp~lF~~c~~~~~~~~ 494 (537)
.+|...|+.++..++....-.+=+... ...+++|.+.. .+..|.+|...+..+.
T Consensus 1012 -n~~ip~i~~v~~~~~~~~~~~~~~~~~--r~~~ilkq~~~-~~~~~~~~~~~L~~~~ 1065 (1075)
T KOG2171|consen 1012 -NQNIPKILSVCAESLADKKIEPRSTLA--RVIEILKQFLA-PPSQFAALLATLPPDQ 1065 (1075)
T ss_pred -cccchHHHHHHHhhhhccCCCccchHH--HHHHHHHHHhc-CHHHHHHHHHhCCHHH
Confidence 112233333333333333333333333 44566666655 7788888887666554
No 52
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=23.70 E-value=9.1e+02 Score=29.96 Aligned_cols=128 Identities=12% Similarity=0.107 Sum_probs=89.6
Q ss_pred HHHHhhccCCC--CCChhHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhc
Q 009349 363 AIKGLLKYWPV--TNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHN 440 (537)
Q Consensus 363 vi~~LLk~WP~--tns~KEvlFL~EleeILe~~~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n 440 (537)
.+-|+..-.|- +.+++.+.-|..+-.+|-..+|+.|.+...++-..+..|+.-+.+||+-.||-+. ..++..|..-
T Consensus 477 lvpgI~~~l~DkSsss~~ki~~L~fl~~~L~s~~p~~fhp~~~~Ls~~v~~aV~d~fyKisaEAL~v~--~~lvkvirpl 554 (1233)
T KOG1824|consen 477 LVPGIIYSLNDKSSSSNLKIDALVFLYSALISHPPEVFHPHLSALSPPVVAAVGDPFYKISAEALLVC--QQLVKVIRPL 554 (1233)
T ss_pred cchhhhhhcCCccchHHHHHHHHHHHHHHHhcCChhhcccchhhhhhHHHHHhcCchHhhhHHHHHHH--HHHHHHhccc
Confidence 34455555553 4446777778888888999999999999999999999999999999999999887 3566666432
Q ss_pred c--------ccccccccHHHHHhhhhhccHHHHHHHHHHHHHH----HHhCHHHHHHHHHHHHH
Q 009349 441 R--------QVIIPLVFPALERNTQNHWNQAVLNLTQNVRKIL----CEMDEELVQACKRKLEE 492 (537)
Q Consensus 441 ~--------~~I~PiI~paL~~~sk~HWn~~Vr~la~~vlkiL----~e~Dp~lF~~c~~~~~~ 492 (537)
. ..+=+++--.+.+-..+-=++.||..|..++.++ -|++..--..|+..+-+
T Consensus 555 ~~~~~~d~~~~v~~m~~~tl~rL~a~d~DqeVkeraIscmgq~i~~fgD~l~~eL~~~L~il~e 618 (1233)
T KOG1824|consen 555 QPPSSFDASPYVKTMYDCTLQRLKATDSDQEVKERAISCMGQIIANFGDFLGNELPRTLPILLE 618 (1233)
T ss_pred CCCccCCCChhHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence 2 2222333334445555667899999998876654 45555555556555443
No 53
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=23.25 E-value=6.1e+02 Score=23.56 Aligned_cols=79 Identities=13% Similarity=0.123 Sum_probs=56.4
Q ss_pred HHHHhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHHHHH-HHHHHHHHHhhC-CCcHHHHHHHHHh
Q 009349 350 VQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIM-VPLFRRIGCCLN-SSHYQVAERAHLL 427 (537)
Q Consensus 350 ~qFv~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~~i~-~~LF~~ia~cl~-S~hfqVAErAL~~ 427 (537)
...+..++.-+...++.|.|-==..|+.-+..-|..++.++..+...-...+. ..+...+.+.++ ..|.+|-++++.+
T Consensus 29 cD~In~~~~~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas~~fl~~l~~l~~~~~~~~Vk~kil~l 108 (142)
T cd03569 29 CDMIRSKDVQPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVASREFMDELKDLIKTTKNEEVRQKILEL 108 (142)
T ss_pred HHHHhCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHHcccCCHHHHHHHHHH
Confidence 34466777777788887777766688899999999999999888765444433 334444555554 6899999998865
Q ss_pred h
Q 009349 428 W 428 (537)
Q Consensus 428 w 428 (537)
.
T Consensus 109 i 109 (142)
T cd03569 109 I 109 (142)
T ss_pred H
Confidence 4
No 54
>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=22.66 E-value=76 Score=27.53 Aligned_cols=38 Identities=16% Similarity=0.376 Sum_probs=34.4
Q ss_pred HHHHHHhhcCCCChHHHHHHHHHHHHHhhhhccchHHH
Q 009349 241 FIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFI 278 (537)
Q Consensus 241 Fi~~Ll~lfdSeDpRERd~LktiLhrIY~Kf~~~R~fI 278 (537)
=+.+|+++..|--....++...+|+.+|+-|..+||++
T Consensus 47 kmRkLld~v~akG~~~k~~F~~iL~e~~~~y~~~~~~~ 84 (85)
T cd08324 47 KVRKILDLVQSKGEEVSEYFLYLLQQLADAYVDLRPWL 84 (85)
T ss_pred HHHHHHHHHHhcCchHHHHHHHHHHHHHHhhhhhhccc
Confidence 45678889999999999999999999999999999974
No 55
>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=22.63 E-value=8.2e+02 Score=24.85 Aligned_cols=23 Identities=17% Similarity=0.169 Sum_probs=12.8
Q ss_pred CCHHHHHHHHhhcCCCChHHHHHHHH
Q 009349 237 VDHLFIVRLLDLFDSEDPRERDCLKT 262 (537)
Q Consensus 237 id~~Fi~~Ll~lfdSeDpRERd~Lkt 262 (537)
.-...+.++++... +.+|+.+..
T Consensus 92 ~g~~vlqkll~~~~---~~~~~~i~~ 114 (322)
T cd07920 92 YGCRVIQKLLESIS---EEQISLLVK 114 (322)
T ss_pred hhHHHHHHHHHhcC---HHHHHHHHH
Confidence 44456677777665 555544433
No 56
>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=22.53 E-value=1.6e+02 Score=25.74 Aligned_cols=36 Identities=14% Similarity=0.208 Sum_probs=30.2
Q ss_pred ccccHHHHHhhhhhccHHHHHHHHHHHHHHHHhCHHH
Q 009349 446 PLVFPALERNTQNHWNQAVLNLTQNVRKILCEMDEEL 482 (537)
Q Consensus 446 PiI~paL~~~sk~HWn~~Vr~la~~vlkiL~e~Dp~l 482 (537)
|.+...+ .++-+|=+.+||.-+..++.+|+|.-|..
T Consensus 10 ~~l~~~i-~sAMTHi~~~Ir~dsl~~L~~lL~~~p~~ 45 (102)
T PF12333_consen 10 PLLMLYI-SSAMTHISPDIREDSLKFLDLLLEHAPDE 45 (102)
T ss_pred HHHHHHH-HHHHHhCCHHHHHhHHHHHHHHHHHCChH
Confidence 3344443 67789999999999999999999999988
No 57
>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=21.50 E-value=1.2e+02 Score=26.33 Aligned_cols=47 Identities=15% Similarity=0.385 Sum_probs=35.8
Q ss_pred HhcCCCcHHHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCChHHHH
Q 009349 353 IDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQ 399 (537)
Q Consensus 353 v~KDp~La~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~~~f~ 399 (537)
+...+-+...-|..+..-=+...+..+|.||.|+-+++..++.+-|.
T Consensus 15 L~eq~Wi~~~~i~~l~~~~~~~d~e~qI~Flrel~~l~r~~Pv~vF~ 61 (87)
T PF09059_consen 15 LVEQRWIGPSQIERLAEALGLPDIEQQILFLRELKELFRLMPVDVFN 61 (87)
T ss_dssp HHHSTT--HHHHHHHHHCT--SSHHHHHHHHHHHHHHHHTS-GGGSS
T ss_pred HhcCcCcCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHCcHHhcC
Confidence 45667888888888988889999999999999999999988766553
No 58
>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=21.48 E-value=4.7e+02 Score=23.65 Aligned_cols=105 Identities=20% Similarity=0.216 Sum_probs=59.5
Q ss_pred HHHHhhccCCCCCChhHHHHHHHHHHHHhhCCh------HHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHh
Q 009349 363 AIKGLLKYWPVTNSQKELMFISELEEVLEMTSM------AEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNL 436 (537)
Q Consensus 363 vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~------~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~l 436 (537)
+++.+.+==|.-++.+-...++-+++.+..... +.|. -.-.++-+-+.++|.|.++--|++.+.=| .-..
T Consensus 5 ~~~~~~~kTs~yd~~~~~~~~d~l~~~i~~~~~~~~~~~~~~d--w~fwl~~i~~ml~s~n~~~~~r~l~fLyn--~w~~ 80 (126)
T PF08578_consen 5 ILKAIAKKTSIYDSNAVFLLLDLLEEFIFQFDSYNPSLPDFFD--WDFWLDGIRMMLESDNVQSEIRALSFLYN--IWDL 80 (126)
T ss_pred HHHHHHHhCCcccHHHHHHHHHHHHHHHHHHHhhcccCCcccC--HHHHHHHHHHHHhCCCHHHHHHHHHHHHH--HHHH
Confidence 344444444555566666666777777654332 2221 13455667777889999999999954422 1222
Q ss_pred hh-hccccc---cccccH-HHHHhhhhhccHHHHHHHHHH
Q 009349 437 VT-HNRQVI---IPLVFP-ALERNTQNHWNQAVLNLTQNV 471 (537)
Q Consensus 437 i~-~n~~~I---~PiI~p-aL~~~sk~HWn~~Vr~la~~v 471 (537)
+. +.++.+ .-.++. .....-=.|||+.||..=...
T Consensus 81 ~~~~~~~~~~~~~~~Ll~~~~f~~lF~HW~~~VR~~f~~L 120 (126)
T PF08578_consen 81 FPSESRRKISLCLDWLLSEKWFFKLFLHWSPMVRSYFHRL 120 (126)
T ss_pred cChhHHHHHHHHHHHHcCchHHHHHHhcCCHHHHHHHHHH
Confidence 32 223332 444444 333444679999999765544
No 59
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=21.46 E-value=4.2e+02 Score=28.61 Aligned_cols=86 Identities=19% Similarity=0.302 Sum_probs=51.6
Q ss_pred HHHHHhhC-ChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHhh------cChhHHHhhhhcccccccc-ccHH-HH-Hh
Q 009349 386 LEEVLEMT-SMAEFQKIMVPLFRRIGCCLNSSHYQVAERAHLLW------NNEHILNLVTHNRQVIIPL-VFPA-LE-RN 455 (537)
Q Consensus 386 leeILe~~-~~~~f~~i~~~LF~~ia~cl~S~hfqVAErAL~~w------~N~~~~~li~~n~~~I~Pi-I~pa-L~-~~ 455 (537)
|.+|.+.. +..+|..||.-|.+|+.. .-.+...+-.||.+. ..+.+ +...+..++.| +... -| ..
T Consensus 42 m~eIA~~ty~~~e~~eIm~vi~kRl~d--~gknWR~VyKaLtlleyLl~~GSErv---~~~~ren~~~I~tL~~Fq~iD~ 116 (336)
T KOG2056|consen 42 MAEIAQATYNFVEYQEIMDVLWKRLND--SGKNWRHVYKALTLLEYLLKNGSERV---VDETRENIYTIETLKDFQYIDE 116 (336)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHHHhh--ccchHHHHHHHHHHHHHHHhcCcHHH---HHHHHhhhHHHHHHhhceeeCC
Confidence 44555444 789999999999999553 235666666666554 23333 33334444332 1111 01 11
Q ss_pred hhhhccHHHHHHHHHHHHHHH
Q 009349 456 TQNHWNQAVLNLTQNVRKILC 476 (537)
Q Consensus 456 sk~HWn~~Vr~la~~vlkiL~ 476 (537)
.-.-|-..||.+|.+++.+|.
T Consensus 117 ~G~dqG~nVRkkak~l~~LL~ 137 (336)
T KOG2056|consen 117 DGKDQGLNVRKKAKELLSLLE 137 (336)
T ss_pred CCccchHHHHHHHHHHHHHhc
Confidence 223488889999999999995
No 60
>PF14724 mit_SMPDase: Mitochondrial-associated sphingomyelin phosphodiesterase
Probab=21.39 E-value=5.9e+02 Score=30.49 Aligned_cols=114 Identities=17% Similarity=0.283 Sum_probs=71.4
Q ss_pred HHHHHHhhccCCCCCChhHHHHHHHHHHHHhhCCh--------------------HHHHHHH-------HHHHHHHHHh-
Q 009349 361 TNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSM--------------------AEFQKIM-------VPLFRRIGCC- 412 (537)
Q Consensus 361 ~~vi~~LLk~WP~tns~KEvlFL~EleeILe~~~~--------------------~~f~~i~-------~~LF~~ia~c- 412 (537)
-.+++..+.|||...|- -.-+|--|..++| +.+...+ ..+|..+...
T Consensus 371 Y~FL~~~f~~wPLdsSF-----r~VLE~WLSYIQPWRY~~~~~~~~~~~~~~~~~~~W~~FV~~Nl~~YT~lf~~fl~R~ 445 (765)
T PF14724_consen 371 YRFLRHCFDHWPLDSSF-----RVVLELWLSYIQPWRYTPEKQSPQSESQDRPVSERWAPFVLENLLFYTSLFQGFLPRF 445 (765)
T ss_pred HHHHHHhccCCCChHHH-----HHHHHHHHHhhCCeecCCccCCCccccccccchHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 35678889999999874 3345545654432 1222211 2344433332
Q ss_pred h----CC-CcHHHHHHHHHhhcChhHHHhhhhcccccccc------------ccHHHHHhhhhhccHHHHHHHHHHHHHH
Q 009349 413 L----NS-SHYQVAERAHLLWNNEHILNLVTHNRQVIIPL------------VFPALERNTQNHWNQAVLNLTQNVRKIL 475 (537)
Q Consensus 413 l----~S-~hfqVAErAL~~w~N~~~~~li~~n~~~I~Pi------------I~paL~~~sk~HWn~~Vr~la~~vlkiL 475 (537)
+ .+ -|.++..|.+.+++-+.+..++.+.-+....- +.|..-..--..|+..+.+.+..|..-+
T Consensus 446 ~r~Dl~~~~na~ml~RvakVfsQ~~L~~~l~~~E~l~~~~~~~~~~~~~~~~~~~~~~~S~~s~~~~~~t~~~~~vkshv 525 (765)
T PF14724_consen 446 LRLDLSSPKNALMLFRVAKVFSQPNLAEMLQNGEQLFLEPEHGFPHRQHRVNLTPSKSGSFLSSWNPAVTDASFKVKSHV 525 (765)
T ss_pred HhcccccchhHHHHHHHHHHhCchhHHHHHHHHHHHhcCCccccCCCccccccCcccCCCcccCCCccchhHHHHHHHHH
Confidence 2 22 46788899999999999999987665544432 1122222223679999999999999888
Q ss_pred HHhC
Q 009349 476 CEMD 479 (537)
Q Consensus 476 ~e~D 479 (537)
+++.
T Consensus 526 ~~Le 529 (765)
T PF14724_consen 526 YELE 529 (765)
T ss_pred Hhhh
Confidence 8884
No 61
>KOG4413 consensus 26S proteasome regulatory complex, subunit PSMD5 [Posttranslational modification, protein turnover, chaperones]
Probab=21.35 E-value=7.3e+02 Score=27.16 Aligned_cols=107 Identities=15% Similarity=0.161 Sum_probs=71.6
Q ss_pred HHHHHHHHHHHHhhCChHHHHHHH----HHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhhcccccccc--ccHHH
Q 009349 379 ELMFISELEEVLEMTSMAEFQKIM----VPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTHNRQVIIPL--VFPAL 452 (537)
Q Consensus 379 EvlFL~EleeILe~~~~~~f~~i~----~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~n~~~I~Pi--I~paL 452 (537)
.++-+..+..|+|.++......+. ..++++|-.|+-.++-.||..|..-...- .++-..-..|||. +-|--
T Consensus 99 KiLackqigcilEdcDtnaVseillvvNaeilklildcIggeddeVAkAAiesikri---alfpaaleaiFeSellDdlh 175 (524)
T KOG4413|consen 99 KILACKQIGCILEDCDTNAVSEILLVVNAEILKLILDCIGGEDDEVAKAAIESIKRI---ALFPAALEAIFESELLDDLH 175 (524)
T ss_pred hhhhHhhhhHHHhcCchhhHHHHHHHhhhhHHHHHHHHHcCCcHHHHHHHHHHHHHH---HhcHHHHHHhcccccCChHH
Confidence 455677888999999876666654 47999999999999999999998655431 2222333344442 11111
Q ss_pred HHhhhhhccHHHHHHHHHHHHHHHHhCHHHHHHHHH
Q 009349 453 ERNTQNHWNQAVLNLTQNVRKILCEMDEELVQACKR 488 (537)
Q Consensus 453 ~~~sk~HWn~~Vr~la~~vlkiL~e~Dp~lF~~c~~ 488 (537)
.+|..---|.-+|-..+..+--+..+.|..-++|..
T Consensus 176 lrnlaakcndiaRvRVleLIieifSiSpesaneckk 211 (524)
T KOG4413|consen 176 LRNLAAKCNDIARVRVLELIIEIFSISPESANECKK 211 (524)
T ss_pred HhHHHhhhhhHHHHHHHHHHHHHHhcCHHHHhHhhh
Confidence 233334456777777777777777788888888864
No 62
>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=21.24 E-value=2.1e+02 Score=26.11 Aligned_cols=52 Identities=15% Similarity=0.367 Sum_probs=41.1
Q ss_pred chhhHHHHHHHHHhcCCCcHHHHH---------------HHhhccCCCCCChhHHHHHHHHHHHHhh
Q 009349 341 YHQQLTYCVVQFIDKDPKLATNAI---------------KGLLKYWPVTNSQKELMFISELEEVLEM 392 (537)
Q Consensus 341 y~~qL~~ci~qFv~KDp~La~~vi---------------~~LLk~WP~tns~KEvlFL~EleeILe~ 392 (537)
+..+++.=+..+|+++|.|...+= .-|-+.|-+--+..|+.||.|...++-.
T Consensus 39 vee~ia~~im~vc~Qnp~L~~~~R~~iirE~Daiv~DLeEVLa~V~~~~aT~eQ~~Fi~Ef~~LiKN 105 (113)
T PF12290_consen 39 VEEQIASQIMAVCEQNPELEFSQRFQIIREADAIVYDLEEVLASVWNQKATNEQIAFIEEFIGLIKN 105 (113)
T ss_pred HHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 577888888999999999876432 3456789999999999999988777643
No 63
>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=20.38 E-value=5.5e+02 Score=24.57 Aligned_cols=56 Identities=18% Similarity=0.359 Sum_probs=40.7
Q ss_pred HHHHHHHHHhhCChHHHHHHH------HHHHHHHHHhhCCCcHHHHHHHHHhhcChhHHHhhhh
Q 009349 382 FISELEEVLEMTSMAEFQKIM------VPLFRRIGCCLNSSHYQVAERAHLLWNNEHILNLVTH 439 (537)
Q Consensus 382 FL~EleeILe~~~~~~f~~i~------~~LF~~ia~cl~S~hfqVAErAL~~w~N~~~~~li~~ 439 (537)
+=+-+.+++..+|-+++..+. .+.|+.+-+.+.|+.||-.-.+ +|+|+.+..++..
T Consensus 103 ~~g~~~di~~~lP~~~l~aL~~~K~~~s~~F~~f~~~l~S~ef~~~~~~--~~~~~~~~~~~~~ 164 (179)
T PF06757_consen 103 LNGFVDDILALLPRDKLRALYEEKLATSPEFAEFVEALRSPEFQQLYNA--LWASPEFQRLLNE 164 (179)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHcCHHHHHHHHH--HHcCHHHHHHHHH
Confidence 344555566666666665553 5899999999999999866554 6899998777653
No 64
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.34 E-value=2.1e+02 Score=34.00 Aligned_cols=72 Identities=21% Similarity=0.369 Sum_probs=46.6
Q ss_pred HHHHHHHHHhhCCCcHHHHHHHHHhhcC---hhHH------Hhhhhccc------------cccccccHHHHHhh----h
Q 009349 403 VPLFRRIGCCLNSSHYQVAERAHLLWNN---EHIL------NLVTHNRQ------------VIIPLVFPALERNT----Q 457 (537)
Q Consensus 403 ~~LF~~ia~cl~S~hfqVAErAL~~w~N---~~~~------~li~~n~~------------~I~PiI~paL~~~s----k 457 (537)
..||.+....+.|+|-+||-.|+.||.+ |.+- ..+.++.. .++|.+...|.+-- .
T Consensus 258 ~alfaitl~amks~~deValQaiEFWsticeEEiD~~~e~~e~~d~~~~p~~~~fa~~a~~~v~P~Ll~~L~kqde~~d~ 337 (859)
T KOG1241|consen 258 QALFAITLAAMKSDNDEVALQAIEFWSTICEEEIDLAIEYGEAVDQGLPPSSKYFARQALQDVVPVLLELLTKQDEDDDD 337 (859)
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCchhhHHHHHHHhHhhHHHHHHHHhCCCCccc
Confidence 3499999999999999999999999993 3332 22233333 56666666665421 1
Q ss_pred hhccHHHHHHHHHHHHHHH
Q 009349 458 NHWNQAVLNLTQNVRKILC 476 (537)
Q Consensus 458 ~HWn~~Vr~la~~vlkiL~ 476 (537)
.-||.. ..|-.+|.++-
T Consensus 338 DdWnp~--kAAg~CL~l~A 354 (859)
T KOG1241|consen 338 DDWNPA--KAAGVCLMLFA 354 (859)
T ss_pred ccCcHH--HHHHHHHHHHH
Confidence 249964 44555555543
Done!