Query 015699
Match_columns 402
No_of_seqs 155 out of 280
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 08:45:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015699.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015699hhsearch_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-131 4E-136 984.9 28.6 329 70-401 42-370 (457)
2 PF01603 B56: Protein phosphat 100.0 1E-106 2E-111 828.0 24.6 324 72-401 1-326 (409)
3 PLN00122 serine/threonine prot 98.4 6.2E-08 1.4E-12 89.2 1.6 47 321-401 35-81 (170)
4 PLN00122 serine/threonine prot 97.6 0.00037 8E-09 64.4 9.7 25 68-92 43-67 (170)
5 PF01602 Adaptin_N: Adaptin N 88.5 6.5 0.00014 41.1 12.5 173 208-393 340-517 (526)
6 PF05918 API5: Apoptosis inhib 84.1 42 0.00092 36.8 16.0 86 307-392 240-337 (556)
7 PF14500 MMS19_N: Dos2-interac 78.6 23 0.0005 34.9 10.8 169 214-392 6-210 (262)
8 PF12348 CLASP_N: CLASP N term 75.4 69 0.0015 29.7 14.0 178 217-397 17-203 (228)
9 PF04388 Hamartin: Hamartin pr 73.1 1E+02 0.0023 34.5 15.2 151 208-380 5-161 (668)
10 PF01602 Adaptin_N: Adaptin N 62.7 1.2E+02 0.0026 31.6 12.6 162 179-359 245-407 (526)
11 smart00582 RPR domain present 55.3 24 0.00051 29.9 4.8 84 317-401 20-110 (121)
12 PF08767 CRM1_C: CRM1 C termin 55.2 2.4E+02 0.0051 28.5 13.4 71 303-392 109-186 (319)
13 PF03378 CAS_CSE1: CAS/CSE pro 53.1 57 0.0012 34.6 8.2 164 117-301 117-304 (435)
14 cd03562 CID CID (CTD-Interacti 50.6 59 0.0013 27.3 6.5 88 313-401 21-111 (114)
15 cd08324 CARD_NOD1_CARD4 Caspas 45.6 21 0.00045 29.7 2.8 40 206-245 45-84 (85)
16 COG5656 SXM1 Importin, protein 41.0 2.6E+02 0.0057 32.2 11.0 120 212-336 379-506 (970)
17 cd00020 ARM Armadillo/beta-cat 38.3 1.3E+02 0.0027 24.0 6.5 46 196-241 38-83 (120)
18 KOG1991 Nuclear transport rece 37.8 5E+02 0.011 30.7 12.8 149 177-336 343-509 (1010)
19 KOG0213 Splicing factor 3b, su 37.7 3.6E+02 0.0078 31.2 11.4 157 201-381 794-957 (1172)
20 PF03914 CBF: CBF/Mak21 family 35.0 3.3E+02 0.0072 24.3 10.2 102 115-245 3-104 (164)
21 PF04802 SMK-1: Component of I 34.5 87 0.0019 29.6 5.5 14 204-217 2-15 (193)
22 PF08167 RIX1: rRNA processing 32.0 1.8E+02 0.0038 26.4 7.0 50 207-256 67-117 (165)
23 PF12726 SEN1_N: SEN1 N termin 29.8 2.8E+02 0.0061 31.1 9.4 100 183-284 498-610 (727)
24 PTZ00429 beta-adaptin; Provisi 29.7 7.2E+02 0.016 28.4 12.6 158 179-396 5-165 (746)
25 cd04395 RhoGAP_ARHGAP21 RhoGAP 29.5 4E+02 0.0086 24.6 9.1 76 171-256 65-141 (196)
26 KOG1525 Sister chromatid cohes 29.2 1.1E+03 0.025 28.7 15.5 231 73-339 11-251 (1266)
27 cd03567 VHS_GGA VHS domain fam 28.4 4.3E+02 0.0093 23.6 9.2 76 317-392 26-108 (139)
28 PF14911 MMS22L_C: S-phase gen 28.1 7.2E+02 0.016 26.1 11.7 41 339-379 224-268 (373)
29 PF00514 Arm: Armadillo/beta-c 27.9 94 0.002 21.1 3.5 36 199-234 4-39 (41)
30 PF04499 SAPS: SIT4 phosphatas 27.0 4.4E+02 0.0095 28.4 9.9 56 181-236 34-92 (475)
31 PF12460 MMS19_C: RNAPII trans 26.9 7.3E+02 0.016 25.7 21.5 202 182-392 167-386 (415)
32 PF12783 Sec7_N: Guanine nucle 26.5 3.1E+02 0.0067 24.5 7.5 59 245-305 70-129 (168)
33 PF12348 CLASP_N: CLASP N term 25.4 3.9E+02 0.0084 24.6 8.2 109 227-340 92-210 (228)
34 KOG1824 TATA-binding protein-i 24.5 1.3E+03 0.028 27.7 15.9 72 312-392 800-878 (1233)
35 PF02985 HEAT: HEAT repeat; I 24.2 1.5E+02 0.0032 19.1 3.7 28 209-236 2-29 (31)
36 COG5593 Nucleic-acid-binding p 22.8 3.2E+02 0.007 30.3 7.7 105 266-393 303-414 (821)
37 PF06757 Ins_allergen_rp: Inse 22.4 3E+02 0.0065 25.2 6.7 47 352-401 106-158 (179)
38 PF02847 MA3: MA3 domain; Int 21.8 4.5E+02 0.0097 21.5 7.2 73 206-278 35-108 (113)
39 PF01365 RYDR_ITPR: RIH domain 21.6 48 0.001 30.9 1.3 110 172-289 70-180 (207)
40 KOG0213 Splicing factor 3b, su 21.2 5.6E+02 0.012 29.8 9.4 227 141-392 569-820 (1172)
41 cd00020 ARM Armadillo/beta-cat 20.4 2.7E+02 0.0059 22.0 5.5 71 208-279 8-79 (120)
No 1
>KOG2085 consensus Serine/threonine protein phosphatase 2A, regulatory subunit [Signal transduction mechanisms]
Probab=100.00 E-value=1.9e-131 Score=984.91 Aligned_cols=329 Identities=57% Similarity=1.000 Sum_probs=325.5
Q ss_pred ccCCCCCCCCChHHHHHHHHHHHhcCcccccccCCccChhhHHHHHHHHHHHHHHhhcCCCCCChHhHHHHHHHhHhhcc
Q 015699 70 VEPHLSFKDVSNTQKQNLFVSKLNLCCEVSDFSDSDKVTAEQDLKRQTLIELADFVSSGSAKFTEPAISGMCKMCSLNLF 149 (402)
Q Consensus 70 ~~~lp~l~dv~~~e~~~Lf~~Kl~~C~~ifDFsdp~~d~~~Ke~K~~tL~EL~~~v~~~~~~l~e~~~~~i~~Mi~~NIF 149 (402)
+++||+|+|||++|+++||++|+++||++|||+||.+|.++||+||+||+||+||+.++++++++.+|+++++|+++|||
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 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCccchhhHHHHHHHHHHhcCCCChHHHhhhcCHHHHHHHHhhcCCCChHHHHHHHH
Q 015699 150 RVFPPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKT 229 (402)
Q Consensus 150 R~lP~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lf~S~DprERd~Lkt 229 (402)
|+|||..++++ +|+|||||+.|++|||||+||++|+||++||++|+++||+|||++||++|+++||||||||||+|||
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 99999999874 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhhhhhHHHHHHHHHHHhHhhhcccCCcchHHHHHHHHHHHhccCCCchHHHHHHHHHHhhccCCCCCcccch
Q 015699 230 VLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYH 309 (402)
Q Consensus 230 iLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~e~~nGIaeLLeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk~~~l~~y~ 309 (402)
+||||||||+++|+|||++|||+||+|||||++|||||||||||||||||||+|||||||.|+.||||||||+++++.||
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 hhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCCCcHHHHH
Q 015699 310 QQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVYF 389 (402)
Q Consensus 310 ~qL~yci~qfieKDp~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~la~ci~S~hfqVAE 389 (402)
+||+|||+||++|||+|+++||+||+||||+|||+||||||+||||||+.++|.+|++||+|||+|||+|++|+||||||
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 HHHHHHhhcCCC
Q 015699 390 LFIMCMLINKRV 401 (402)
Q Consensus 390 rALm~~~~N~~~ 401 (402)
||| ++|+|+.|
T Consensus 360 raL-~~wnNe~i 370 (457)
T KOG2085|consen 360 RAL-YLWNNEYI 370 (457)
T ss_pred HHH-HHHhhHHH
Confidence 997 89999854
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=1.1e-106 Score=828.01 Aligned_cols=324 Identities=55% Similarity=0.946 Sum_probs=282.3
Q ss_pred CCCCCCCCChHHHHHHHHHHHhcCcccccccCCccChhhHHHHHHHHHHHHHHhhcCC--CCCChHhHHHHHHHhHhhcc
Q 015699 72 PHLSFKDVSNTQKQNLFVSKLNLCCEVSDFSDSDKVTAEQDLKRQTLIELADFVSSGS--AKFTEPAISGMCKMCSLNLF 149 (402)
Q Consensus 72 ~lp~l~dv~~~e~~~Lf~~Kl~~C~~ifDFsdp~~d~~~Ke~K~~tL~EL~~~v~~~~--~~l~e~~~~~i~~Mi~~NIF 149 (402)
|||+|+||+++++++||++||++||++|||+||.+|.++||+||+||+||++|+++++ +.++|++++++++||++|||
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 6999999999999999999999999999999999999999999999999999999988 99999999999999999999
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCccchhhHHHHHHHHHHhcCCCChHHHhhhcCHHHHHHHHhhcCCCChHHHHHHHH
Q 015699 150 RVFPPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKT 229 (402)
Q Consensus 150 R~lP~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lf~S~DprERd~Lkt 229 (402)
|++||.+... +|+|||+++.||+|||||+||++|++|++++++|+ +++|||++|+.+|+++|+|+|||||++|++
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 9999998873 78899999999999999999999999999999998 999999999999999999999999999999
Q ss_pred HHHHHhhhhhhhhHHHHHHHHHHHhHhhhcccCCcchHHHHHHHHHHHhccCCCchHHHHHHHHHHhhccCCCCCcccch
Q 015699 230 VLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYH 309 (402)
Q Consensus 230 iLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~e~~nGIaeLLeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk~~~l~~y~ 309 (402)
+|||||+||+++|++||++|+++|++|+||+++|+||+|||||+|||||||++|||+||+.|+.++|+|||++++++.||
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 hhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCCCcHHHHH
Q 015699 310 QQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVYF 389 (402)
Q Consensus 310 ~qL~yci~qfieKDp~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~la~ci~S~hfqVAE 389 (402)
+||+||+++|++|||+|+..+++||+||||+||++|||+||+||++||+.+++++|++++.|+|++||+|++|+||||||
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 HHHHHHhhcCCC
Q 015699 390 LFIMCMLINKRV 401 (402)
Q Consensus 390 rALm~~~~N~~~ 401 (402)
||| ++|+|+.+
T Consensus 316 rAl-~~w~n~~~ 326 (409)
T PF01603_consen 316 RAL-YFWNNEYF 326 (409)
T ss_dssp HHH-GGGGSHHH
T ss_pred HHH-HHHCCHHH
Confidence 995 89999853
No 3
>PLN00122 serine/threonine protein phosphatase 2A; Provisional
Probab=98.45 E-value=6.2e-08 Score=89.17 Aligned_cols=47 Identities=21% Similarity=0.301 Sum_probs=43.5
Q ss_pred hcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHhhcCC
Q 015699 321 DKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVYFLFIMCMLINKR 400 (402)
Q Consensus 321 eKDp~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~la~ci~S~hfqVAErALm~~~~N~~ 400 (402)
...+.++...+++|.+|||++++.||.+||++| |||||| ++|+|+.
T Consensus 35 ~~~~~~~~~~~e~l~~~~~v~~s~k~~lfl~kl---------------------------------VAERAL-~lWnNe~ 80 (170)
T PLN00122 35 AVNPASVVAGYEPLPSFRDVPNSEKQNLFVRKL---------------------------------VAERAL-FLWNNDH 80 (170)
T ss_pred ccCCCccccccccccCCCCCCchHHHHHHHHHH---------------------------------HHHHHH-HHHccHH
Confidence 467889999999999999999999999999999 999995 8999987
Q ss_pred C
Q 015699 401 V 401 (402)
Q Consensus 401 ~ 401 (402)
|
T Consensus 81 i 81 (170)
T PLN00122 81 I 81 (170)
T ss_pred H
Confidence 5
No 4
>PLN00122 serine/threonine protein phosphatase 2A; Provisional
Probab=97.62 E-value=0.00037 Score=64.42 Aligned_cols=25 Identities=60% Similarity=0.865 Sum_probs=23.2
Q ss_pred ccccCCCCCCCCChHHHHHHHHHHH
Q 015699 68 EAVEPHLSFKDVSNTQKQNLFVSKL 92 (402)
Q Consensus 68 ~~~~~lp~l~dv~~~e~~~Lf~~Kl 92 (402)
..+++||+|+|||++++++||++||
T Consensus 43 ~~~e~l~~~~~v~~s~k~~lfl~kl 67 (170)
T PLN00122 43 AGYEPLPSFRDVPNSEKQNLFVRKL 67 (170)
T ss_pred cccccccCCCCCCchHHHHHHHHHH
Confidence 3359999999999999999999999
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=88.51 E-value=6.5 Score=41.06 Aligned_cols=173 Identities=14% Similarity=0.170 Sum_probs=110.4
Q ss_pred HHHHHHhhc-CCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhhhcccCCcchHHHHHHHHHHHhccCCCchH
Q 015699 208 FIVRLLDLF-DSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKE 286 (402)
Q Consensus 208 Fi~~Ll~lf-~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~e~~nGIaeLLeIlgSIInGFa~PLKe 286 (402)
.+..|+.-+ +..|+.-|..+-..+..+-.++..--.+....+.+++. ... ..-..|....+..++... ..+++
T Consensus 340 Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~----~~~-~~~~~~~~~~i~~ll~~~-~~~~~ 413 (526)
T PF01602_consen 340 ILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLE----ISG-DYVSNEIINVIRDLLSNN-PELRE 413 (526)
T ss_dssp HHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHH----CTG-GGCHCHHHHHHHHHHHHS-TTTHH
T ss_pred HHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhh----hcc-ccccchHHHHHHHHhhcC-hhhhH
Confidence 344555555 55677777777777777777776655555444444442 221 222556666666677663 22322
Q ss_pred HHHHHHHHHhhccCCCCCcccchhhHHHHHHHHHhcCCC--cHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHH
Q 015699 287 EHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPK--LATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAE 364 (402)
Q Consensus 287 Ehk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfieKDp~--L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~e 364 (402)
.- .+.|+-+...-.....-.-..+|+-.|.+..+. .+..+++.+.+.|...+..-+...|..+..+....+.++
T Consensus 414 ~~----l~~L~~~l~~~~~~~~~~~~~wilGEy~~~~~~~~~~~~~~~~l~~~~~~~~~~vk~~ilt~~~Kl~~~~~~~~ 489 (526)
T PF01602_consen 414 KI----LKKLIELLEDISSPEALAAAIWILGEYGELIENTESAPDILRSLIENFIEESPEVKLQILTALAKLFKRNPENE 489 (526)
T ss_dssp HH----HHHHHHHHTSSSSHHHHHHHHHHHHHHCHHHTTTTHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHSCSTT
T ss_pred HH----HHHHHHHHHHhhHHHHHHHHHhhhcccCCcccccccHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhhCCchh
Confidence 22 333333333334444667788999999877776 888999999999998877777788888888887776544
Q ss_pred HHHHHHHHHHHHHHhhC--CCcHHHHHHHHH
Q 015699 365 FQKIMVPLFRRIGCCLN--SSHYQVYFLFIM 393 (402)
Q Consensus 365 f~~i~~plf~~la~ci~--S~hfqVAErALm 393 (402)
..+ .+...+..+.. |.++.|-+||.+
T Consensus 490 ~~~---~i~~~~~~~~~~~s~~~evr~Ra~~ 517 (526)
T PF01602_consen 490 VQN---EILQFLLSLATEDSSDPEVRDRARE 517 (526)
T ss_dssp HHH---HHHHHHHCHHHHS-SSHHHHHHHHH
T ss_pred hHH---HHHHHHHHHhccCCCCHHHHHHHHH
Confidence 433 55556666667 999999999964
No 6
>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=84.13 E-value=42 Score=36.80 Aligned_cols=86 Identities=10% Similarity=0.190 Sum_probs=52.0
Q ss_pred cchhhHHHHHHH---HHhcCCCcHH---HHHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhh
Q 015699 307 IYHQQLTYCVVQ---FIDKDPKLAT---NAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCL 380 (402)
Q Consensus 307 ~y~~qL~yci~q---fieKDp~L~~---~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~la~ci 380 (402)
..-.++.+|+.+ |..+....+. .+.+.++-.|=......++-+|.-+.|+...+...+-..++.++|..|-..+
T Consensus 240 e~Idrli~C~~~Alp~fs~~v~Sskfv~y~~~kvlP~l~~l~e~~kl~lLk~lAE~s~~~~~~d~~~~L~~i~~~L~~ym 319 (556)
T PF05918_consen 240 ESIDRLISCLRQALPFFSRGVSSSKFVNYMCEKVLPKLSDLPEDRKLDLLKLLAELSPFCGAQDARQLLPSIFQLLKKYM 319 (556)
T ss_dssp HHHHHHHHHHHHHGGG-BTTB--HHHHHHHHHHTCCCTT-----HHHHHHHHHHHHHTT----THHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHhhHHhcCCCChHHHHHHHHHHhcCChhhCChHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHHHhC
Confidence 445678888888 6666655444 4444455445555568899999999999999988888899999999996554
Q ss_pred C------CCcHHHHHHHH
Q 015699 381 N------SSHYQVYFLFI 392 (402)
Q Consensus 381 ~------S~hfqVAErAL 392 (402)
= +.+|-..|..|
T Consensus 320 P~~~~~~~l~fs~vEcLL 337 (556)
T PF05918_consen 320 PSKKTEPKLQFSYVECLL 337 (556)
T ss_dssp ----------HHHHHHHH
T ss_pred CCCCCCCcccchHhhHHH
Confidence 3 34566677654
No 7
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=78.64 E-value=23 Score=34.88 Aligned_cols=169 Identities=20% Similarity=0.287 Sum_probs=86.8
Q ss_pred hhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhh-hcccCCcchHHHHHHHHHHHhccCCCchHHHHHHH
Q 015699 214 DLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFV-FETERHNGIAELLEIFGSIISGFALPLKEEHKIFL 292 (402)
Q Consensus 214 ~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi-~e~e~~nGIaeLLeIlgSIInGFa~PLKeEhk~fl 292 (402)
+-+.|+|+..|..--.+|..+-.+..... .=++.+ +.+.+|. .--+++.++.+.|.-+..+++-=..+ ++....++
T Consensus 6 ~~Ltsed~~~R~ka~~~Ls~vL~~lp~~~-L~~~ev-~~L~~F~~~rl~D~~~~~~~l~gl~~L~~~~~~~-~~~~~~i~ 82 (262)
T PF14500_consen 6 EYLTSEDPIIRAKALELLSEVLERLPPDF-LSRQEV-QVLLDFFCSRLDDHACVQPALKGLLALVKMKNFS-PESAVKIL 82 (262)
T ss_pred hhhCCCCHHHHHHHHHHHHHHHHhCCHhh-ccHHHH-HHHHHHHHHHhccHhhHHHHHHHHHHHHhCcCCC-hhhHHHHH
Confidence 34557888888777777766666554321 112233 3333332 22256666766676666666322111 11122221
Q ss_pred HHH--------------------hhccCCC--CCcccchhhHHHHHHHHH--hcCCC---cHHHHHHHhhccCCCCCchh
Q 015699 293 CRA--------------------LIPLHKP--KSVGIYHQQLTYCVVQFI--DKDPK---LATNAIKGLLKYWPVTNSQK 345 (402)
Q Consensus 293 ~~v--------------------LlPLHk~--~~l~~y~~qL~yci~qfi--eKDp~---L~~~vi~~LLk~WP~tns~K 345 (402)
..+ |.=|... ..+......+.+.+++.+ ||||. ++..+++.+++.||. .
T Consensus 83 ~~l~~~~~~q~~~q~~R~~~~~ll~~l~~~~~~~l~~~~~~fv~~~i~~~~gEkDPRnLl~~F~l~~~i~~~~~~-~--- 158 (262)
T PF14500_consen 83 RSLFQNVDVQSLPQSTRYAVYQLLDSLLENHREALQSMGDDFVYGFIQLIDGEKDPRNLLLSFKLLKVILQEFDI-S--- 158 (262)
T ss_pred HHHHHhCChhhhhHHHHHHHHHHHHHHHHHhHHHHHhchhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhccc-c---
Confidence 111 1111111 011223456777778886 99998 567888999999995 2
Q ss_pred HHHHHHHHHHHHhc------CChH-H-HHHHHHHHHHHHHHhhCCCcHHHHHHHH
Q 015699 346 ELMFISELEEVLEM------TSMA-E-FQKIMVPLFRRIGCCLNSSHYQVYFLFI 392 (402)
Q Consensus 346 EvlFL~EleeiLe~------~~~~-e-f~~i~~plf~~la~ci~S~hfqVAErAL 392 (402)
-|..|+-+++.. .+|. + ..--..-|=..|-.|+.|.+ +.|+-|+
T Consensus 159 --~~~e~lFd~~~cYFPI~F~pp~~dp~~IT~edLk~~L~~cl~s~~-~fa~~~~ 210 (262)
T PF14500_consen 159 --EFAEDLFDVFSCYFPITFRPPPNDPYGITREDLKRALRNCLSSTP-LFAPFAF 210 (262)
T ss_pred --hhHHHHHHHhhheeeeeeeCCCCCCCCCCHHHHHHHHHHHhcCcH-hhHHHHH
Confidence 344555555532 1221 1 11122345566777887644 4566653
No 8
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=75.43 E-value=69 Score=29.69 Aligned_cols=178 Identities=12% Similarity=0.025 Sum_probs=98.6
Q ss_pred CCCChHHHHHHHHHHHHHhhhh--hhhhHHHHHHHH---HHHhHhhhcccCCcchHHHHHHHHHHHhccCCCchHHHHHH
Q 015699 217 DSEDPRERDCLKTVLHRIYGKF--MAHRQFIRQAVC---NIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIF 291 (402)
Q Consensus 217 ~S~DprERd~LktiLhrIY~Kf--~~~R~~IRk~i~---nif~~fi~e~e~~nGIaeLLeIlgSIInGFa~PLKeEhk~f 291 (402)
.+.|=.+|..--+-|.++-... ....+-+-..+. ..+..-+ .+.+..-+.+.+.+++.+..+....++.. -..
T Consensus 17 ~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l-~d~Rs~v~~~A~~~l~~l~~~l~~~~~~~-~~~ 94 (228)
T PF12348_consen 17 SESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQL-SDLRSKVSKTACQLLSDLARQLGSHFEPY-ADI 94 (228)
T ss_dssp T-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S--HH---HHHHHHHHHHHHHHHHGGGGHHH-HHH
T ss_pred CccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHH-hhhHHHHHHHHHHHHHHHHHHHhHhHHHH-HHH
Confidence 5566667666666666655444 222222222222 1121211 12334446677888888888877766553 444
Q ss_pred HHHHhhccCCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCC--hHHHHH--
Q 015699 292 LCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTS--MAEFQK-- 367 (402)
Q Consensus 292 l~~vLlPLHk~~~l~~y~~qL~yci~qfieKDp~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~--~~ef~~-- 367 (402)
+...|+-+..... ....+.-..|+..+++.-+-....++..+...+---|+.=-..-+.-+..+++..+ ...+..
T Consensus 95 ~l~~Ll~~~~~~~-~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~ 173 (228)
T PF12348_consen 95 LLPPLLKKLGDSK-KFIREAANNALDAIIESCSYSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSA 173 (228)
T ss_dssp HHHHHHHGGG----HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HH
T ss_pred HHHHHHHHHcccc-HHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccc
Confidence 5567777766643 35677778888888876551223336666666665555555666778888888777 344443
Q ss_pred HHHHHHHHHHHhhCCCcHHHHHHHHHHHhh
Q 015699 368 IMVPLFRRIGCCLNSSHYQVYFLFIMCMLI 397 (402)
Q Consensus 368 i~~plf~~la~ci~S~hfqVAErALm~~~~ 397 (402)
....+.+.+.+|++..+..|=+.|--+||.
T Consensus 174 ~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~ 203 (228)
T PF12348_consen 174 FLKQLVKALVKLLSDADPEVREAARECLWA 203 (228)
T ss_dssp HHHHHHHHHHHHHTSS-HHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence 347788899999999999998888766663
No 9
>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=73.10 E-value=1e+02 Score=34.47 Aligned_cols=151 Identities=21% Similarity=0.255 Sum_probs=82.2
Q ss_pred HHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhhhcccCCcchHHHHHHHHHHHhccCCCchHH
Q 015699 208 FIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEE 287 (402)
Q Consensus 208 Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~e~~nGIaeLLeIlgSIInGFa~PLKeE 287 (402)
-|.+|+.+++|.|..+.+.+|..+++.... ..-+|+. +.+.+|..+ .|-.-.++||. |+..|-
T Consensus 5 ~~~~l~~~l~s~~~~~~~~~~~~~~~~~~~--~~~~~l~----~~l~~y~~~----t~s~~~~~il~----~~~~P~--- 67 (668)
T PF04388_consen 5 SITELLSLLESNDLSVLEEIKALLQELLNS--DREPWLV----NGLVDYYLS----TNSQRALEILV----GVQEPH--- 67 (668)
T ss_pred cHHHHHHHhcCCchhhHHHHHHHHHHHhhc--cchHHHH----HHHHHHHhh----cCcHHHHHHHH----hcCCcc---
Confidence 478899999999999999999999977654 2223443 344444433 34456777776 555553
Q ss_pred HHHHHHHHhhccCCCCCcccchhhHHHHHHHHHhcCCCcHH-----HHHHHhhccCCCCCchhHHH-HHHHHHHHHhcCC
Q 015699 288 HKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLAT-----NAIKGLLKYWPVTNSQKELM-FISELEEVLEMTS 361 (402)
Q Consensus 288 hk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfieKDp~L~~-----~vi~~LLk~WP~tns~KEvl-FL~EleeiLe~~~ 361 (402)
+|.||.++==-+.++ .|.-+....+..|+.++|.-.- +++.-|||.==...+.--|. =|.-|.-+|+.++
T Consensus 68 ~K~~~~~l~~~~~~~----~~Rl~~L~Ll~~~v~~qp~~l~~i~~t~Lf~~LLk~L~~D~~~~~~~~al~~LimlLP~ip 143 (668)
T PF04388_consen 68 DKHLFDKLNDYFVKP----SYRLQALTLLGHFVRSQPPWLYKILQTPLFKSLLKCLQFDTSITVVSSALLVLIMLLPHIP 143 (668)
T ss_pred HHHHHHHHHHHHcCc----hhHHHHHHHHHHHHhcCCchHHHHhcChhHHHHHHHHhhcccHHHHHHHHHHHHHHhcccc
Confidence 233332211111121 2444444555566666554222 22333343333333322211 1334444556663
Q ss_pred hHHHHHHHHHHHHHHHHhh
Q 015699 362 MAEFQKIMVPLFRRIGCCL 380 (402)
Q Consensus 362 ~~ef~~i~~plf~~la~ci 380 (402)
.........||.++++.+
T Consensus 144 -~~l~~~L~~Lf~If~Rl~ 161 (668)
T PF04388_consen 144 -SSLGPHLPDLFNIFGRLL 161 (668)
T ss_pred -chhhHHHHHHHHHHHHHH
Confidence 445667777888887776
No 10
>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=62.73 E-value=1.2e+02 Score=31.63 Aligned_cols=162 Identities=15% Similarity=0.158 Sum_probs=83.9
Q ss_pred hhHHHHHHHHHHhcCCCChHHHhhhcCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhhh
Q 015699 179 LQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVF 258 (402)
Q Consensus 179 LqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi~ 258 (402)
-.++|+....++.-++.+. .-...+..|+.++.+.|++=|-..-..|+.|-.+. .+.+...-..+| ++.
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 3577777776665333221 34567888899999999988888777777766554 223321111111 222
Q ss_pred cccCCcchH-HHHHHHHHHHhccCCCchHHHHHHHHHHhhccCCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhcc
Q 015699 259 ETERHNGIA-ELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKY 337 (402)
Q Consensus 259 e~e~~nGIa-eLLeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfieKDp~L~~~vi~~LLk~ 337 (402)
++....|. ..|+++..+.+--+ ..-....|+.-.+...-..|...+...+....++.+.-.+++++.+++.
T Consensus 314 -~~~d~~Ir~~~l~lL~~l~~~~n-------~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~l 385 (526)
T PF01602_consen 314 -YDDDPSIRKKALDLLYKLANESN-------VKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKL 385 (526)
T ss_dssp -CSSSHHHHHHHHHHHHHH--HHH-------HHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHH
T ss_pred -CCCChhHHHHHHHHHhhcccccc-------hhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHh
Confidence 11112233 24666666655221 1112222222222222223677777777777777777777777776665
Q ss_pred CCCCCchhHHHHHHHHHHHHhc
Q 015699 338 WPVTNSQKELMFISELEEVLEM 359 (402)
Q Consensus 338 WP~tns~KEvlFL~EleeiLe~ 359 (402)
=-.++..-.--.+..+..++..
T Consensus 386 l~~~~~~~~~~~~~~i~~ll~~ 407 (526)
T PF01602_consen 386 LEISGDYVSNEIINVIRDLLSN 407 (526)
T ss_dssp HHCTGGGCHCHHHHHHHHHHHH
T ss_pred hhhccccccchHHHHHHHHhhc
Confidence 5543333333334445555544
No 11
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=55.29 E-value=24 Score=29.88 Aligned_cols=84 Identities=10% Similarity=0.141 Sum_probs=52.8
Q ss_pred HHHHhcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCCh-------HHHHHHHHHHHHHHHHhhCCCcHHHHH
Q 015699 317 VQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSM-------AEFQKIMVPLFRRIGCCLNSSHYQVYF 389 (402)
Q Consensus 317 ~qfieKDp~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~-------~ef~~i~~plf~~la~ci~S~hfqVAE 389 (402)
++|+-.+..-+..++..+.++=..+.+.+.+..|.-+.+|+-.... ..|.++....|..+.......+-+-..
T Consensus 20 t~~~~~~~~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ki~ 99 (121)
T smart00582 20 TKWAIEHASHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRDVLGAANDETKKKIR 99 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 3343334444556666666666667777888999999999975422 244455555666666655434445555
Q ss_pred HHHHHHhhcCCC
Q 015699 390 LFIMCMLINKRV 401 (402)
Q Consensus 390 rALm~~~~N~~~ 401 (402)
+ +..+|.+.+|
T Consensus 100 k-ll~iW~~~~i 110 (121)
T smart00582 100 R-LLNIWEERGI 110 (121)
T ss_pred H-HHHHHhcCCC
Confidence 5 4689987654
No 12
>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=55.15 E-value=2.4e+02 Score=28.48 Aligned_cols=71 Identities=11% Similarity=0.101 Sum_probs=43.6
Q ss_pred CCcccchhhHHHHHHHHHhcCCCcHHH-------HHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHH
Q 015699 303 KSVGIYHQQLTYCVVQFIDKDPKLATN-------AIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRR 375 (402)
Q Consensus 303 ~~l~~y~~qL~yci~qfieKDp~L~~~-------vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~ 375 (402)
+.+......+..|....+.+|-.=.+. .++.+.++=| +.+-.++++.|..+ ..-
T Consensus 109 ~~v~~I~~~vf~~Tl~MI~~d~~~yPe~r~~ff~LL~~i~~~~f---------------~~l~~lp~~~f~~~----ids 169 (319)
T PF08767_consen 109 PQVPQILEAVFECTLPMINKDFEEYPEHRVNFFKLLRAINEHCF---------------PALLQLPPEQFKLV----IDS 169 (319)
T ss_dssp CCHHHHHHHHHHHHHHHHSSTSSSSHHHHHHHHHHHHHHHHHHT---------------HHHHHS-HHHHHHH----HHH
T ss_pred hhHHHHHHHHHHHHHHHHHhhhhhChHHHHHHHHHHHHHHHHhH---------------HHHHcCCHHHHHHH----HHH
Confidence 445555677778888888776553322 2233332211 12344788888744 456
Q ss_pred HHHhhCCCcHHHHHHHH
Q 015699 376 IGCCLNSSHYQVYFLFI 392 (402)
Q Consensus 376 la~ci~S~hfqVAErAL 392 (402)
+.-++.+++..|++.+|
T Consensus 170 i~wg~kh~~~~I~~~~L 186 (319)
T PF08767_consen 170 IVWGFKHTNREISETGL 186 (319)
T ss_dssp HHHHHTSSSHHHHHHHH
T ss_pred HHHHhCCCcHHHHHHHH
Confidence 67788899999999986
No 13
>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=53.05 E-value=57 Score=34.59 Aligned_cols=164 Identities=14% Similarity=0.212 Sum_probs=90.7
Q ss_pred HHHHHHHHhh-cCCCCCChHhHHHHHHHhHhhcccCCCCCCCC------CCCCCCCCCCCC--------------CCCCc
Q 015699 117 TLIELADFVS-SGSAKFTEPAISGMCKMCSLNLFRVFPPKCRS------NGTGGETEDEEP--------------MFDPA 175 (402)
Q Consensus 117 tL~EL~~~v~-~~~~~l~e~~~~~i~~Mi~~NIFR~lP~~~~~------~~~~~d~eedep--------------~~e~s 175 (402)
+|-.....|= +.-.-+.+-+++-+-.|++.+-=-++|+.... +...++...-.| -.-.+
T Consensus 117 ~L~P~f~~ILq~dV~EF~PYvfQIla~Lle~~~~~~~p~~y~~L~~~Ll~p~lWe~~gniPalvrLL~a~i~k~~~~i~~ 196 (435)
T PF03378_consen 117 ALFPPFQEILQQDVQEFIPYVFQILAQLLELRPSSPLPDAYKQLFPPLLSPALWERRGNIPALVRLLQAYIKKDPSFIVA 196 (435)
T ss_dssp HHHHHHHHHHHTT-TTTHHHHHHHHHHHHHHSS--S--TTTGGGHHHHTSGGGGGSTTTHHHHHHHHHHHHHHHGGG---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHcCcchhccCCCcCcHHHHHHHHHHhCchhhcc
Confidence 4444444432 33356788888888888888662244443311 000111111111 12245
Q ss_pred cchhhHHHHHHHHHHhcCCCChHHHhhhcCHHHHHHHHhhcCCCChH-HHHHHHHHHHHHhhhhhhhhH--HHHHHHHHH
Q 015699 176 WSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPR-ERDCLKTVLHRIYGKFMAHRQ--FIRQAVCNI 252 (402)
Q Consensus 176 WpHLqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lf~S~Dpr-ERd~LktiLhrIY~Kf~~~R~--~IRk~i~ni 252 (402)
..||+-|+.+|.+++.+...|...+ ..+..++..+ +++ =..|+++|+.-++.+....|. |+++-+ -.
T Consensus 197 ~~~l~~iLgvFQkLi~sk~~D~~gF------~LL~~iv~~~---p~~~l~~yl~~I~~lll~RLq~skT~kf~~~fv-~F 266 (435)
T PF03378_consen 197 NNQLEPILGVFQKLIASKANDHYGF------DLLESIVENL---PPEALEPYLKQIFTLLLTRLQSSKTEKFVKRFV-VF 266 (435)
T ss_dssp -S-CHHHHHHHHHHHT-TTCHHHHH------HHHHHHHHHS----HHHHGGGHHHHHHHHHHHHHHC--HHHHHHHH-HH
T ss_pred hhhHHHHHHHHHHHHCCCCcchHHH------HHHHHHHHHC---CHHHHHHHHHHHHHHHHHHHhhCCcHHHHHHHH-HH
Confidence 6899999999999999977765422 2455555544 332 246899999888888766655 454444 22
Q ss_pred HhHhhhcccCCcchHHHHHHHHHHHhccCCCchHHHHHHHHHHhhccCC
Q 015699 253 IYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHK 301 (402)
Q Consensus 253 f~~fi~e~e~~nGIaeLLeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk 301 (402)
+.-|+. ..|...+.+++.+|-.|. ...++.++++|-.+
T Consensus 267 ~~~~~~----~~g~~~li~~id~IQ~gl-------F~~il~~v~lp~~~ 304 (435)
T PF03378_consen 267 LSLFAI----KYGPDFLIQTIDSIQPGL-------FGMILEKVWLPDLQ 304 (435)
T ss_dssp HHHHHH----HH-HHHHHHHHHTTSTTH-------HHHHHHHTHHHHGG
T ss_pred HHHHHH----HcCHHHHHHHHHHhcCCc-------HHHHHHHHhcCchh
Confidence 222222 138889999999998885 35667788888443
No 14
>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=50.57 E-value=59 Score=27.27 Aligned_cols=88 Identities=13% Similarity=0.129 Sum_probs=62.7
Q ss_pred HHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHHHHHhhCCCcHHHHH
Q 015699 313 TYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMT---SMAEFQKIMVPLFRRIGCCLNSSHYQVYF 389 (402)
Q Consensus 313 ~yci~qfieKDp~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~---~~~ef~~i~~plf~~la~ci~S~hfqVAE 389 (402)
..-+++++..+..-+..++..+.++=-.+.+.+.+.+|.-+.+|+-.+ -...|.....++|....+-.+..+-+=..
T Consensus 21 I~~lt~~a~~~~~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~~~~~~f~~~~~~~~~~~r~kl~ 100 (114)
T cd03562 21 IQTLTKLAIENRKHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSEFLVPLFLDAYEKVDEKTRKKLE 100 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 344566666666777788888888888888889999999999999765 34567777788887777644444444444
Q ss_pred HHHHHHhhcCCC
Q 015699 390 LFIMCMLINKRV 401 (402)
Q Consensus 390 rALm~~~~N~~~ 401 (402)
| |+..|.+-++
T Consensus 101 r-l~~iW~~~~~ 111 (114)
T cd03562 101 R-LLNIWEERFV 111 (114)
T ss_pred H-HHHHccCCCC
Confidence 5 5688887654
No 15
>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=45.64 E-value=21 Score=29.73 Aligned_cols=40 Identities=15% Similarity=0.315 Sum_probs=36.0
Q ss_pred HHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHH
Q 015699 206 HLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFI 245 (402)
Q Consensus 206 ~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~I 245 (402)
+.=+.+|+++..|--....++...+|+..|+-|..+|||+
T Consensus 45 qdkmRkLld~v~akG~~~k~~F~~iL~e~~~~y~~~~~~~ 84 (85)
T cd08324 45 PDKVRKILDLVQSKGEEVSEYFLYLLQQLADAYVDLRPWL 84 (85)
T ss_pred HHHHHHHHHHHHhcCchHHHHHHHHHHHHHHhhhhhhccc
Confidence 4456789999999999999999999999999999999985
No 16
>COG5656 SXM1 Importin, protein involved in nuclear import [Posttranslational modification, protein turnover, chaperones]
Probab=40.96 E-value=2.6e+02 Score=32.16 Aligned_cols=120 Identities=16% Similarity=0.073 Sum_probs=75.6
Q ss_pred HHhhcCCCChHHHHHHHHHHHHHhhh-hhhhhHHHHHHHHHHHhHhhhcccC-Cc--chHHHHHHHHHHHh--ccCCCch
Q 015699 212 LLDLFDSEDPRERDCLKTVLHRIYGK-FMAHRQFIRQAVCNIIYRFVFETER-HN--GIAELLEIFGSIIS--GFALPLK 285 (402)
Q Consensus 212 Ll~lf~S~DprERd~LktiLhrIY~K-f~~~R~~IRk~i~nif~~fi~e~e~-~n--GIaeLLeIlgSIIn--GFa~PLK 285 (402)
+.+.+.|+|-.--+++..+-..==.+ |++ |..-++++|-++--...+ -| -+.-.|.++.||++ .-..|+.
T Consensus 379 f~d~g~spdlaal~fl~~~~sKrke~Tfqg----iLsf~~sil~qsaa~psn~dnarq~egalr~lasi~s~itk~sp~a 454 (970)
T COG5656 379 FFDNGLSPDLAALFFLIISKSKRKEETFQG----ILSFLLSILGQSAATPSNIDNARQAEGALRLLASIKSFITKMSPAA 454 (970)
T ss_pred hhcCCCChhHHHHHHHHHHhcccchhhhhh----HHHHHHHHHhcccCCCCccccHHHHhhHHHHHHHHHHHhccCchHH
Confidence 45667888887766665443211111 333 455567888777654433 12 24448999999999 4556777
Q ss_pred HHHHHHHHHHhhccCCCCCcccchhhHHHHHHHHH--hcCCCcHHHHHHHhhc
Q 015699 286 EEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFI--DKDPKLATNAIKGLLK 336 (402)
Q Consensus 286 eEhk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfi--eKDp~L~~~vi~~LLk 336 (402)
.+...|+...++|-.+.++.- -..+-.+-+..|- =||+.++-...++..+
T Consensus 455 n~me~fiv~hv~P~f~s~ygf-L~Srace~is~~eeDfkd~~ill~aye~t~n 506 (970)
T COG5656 455 NVMEYFIVNHVIPAFRSNYGF-LKSRACEFISTIEEDFKDNGILLEAYENTHN 506 (970)
T ss_pred HHHHHHHHHHhhHhhcCcccc-hHHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence 789999999999999987653 3334444444442 2677776666665543
No 17
>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=38.32 E-value=1.3e+02 Score=24.00 Aligned_cols=46 Identities=15% Similarity=0.057 Sum_probs=36.5
Q ss_pred ChHHHhhhcCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhh
Q 015699 196 DVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAH 241 (402)
Q Consensus 196 d~k~ak~~id~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~ 241 (402)
++...+.+++...+..|+.++++.|++=|...-.+|.++-......
T Consensus 38 ~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~ 83 (120)
T cd00020 38 NNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDN 83 (120)
T ss_pred CHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHH
Confidence 3556667777789999999999999999999999998886554433
No 18
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=37.76 E-value=5e+02 Score=30.67 Aligned_cols=149 Identities=22% Similarity=0.301 Sum_probs=0.0
Q ss_pred chhh-HHHHHHHHHHhcCCCC--------hHHHhhhcCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhh-hhhhHHHH
Q 015699 177 SHLQ-IVYDLLLRFVSYGSLD--------VKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKF-MAHRQFIR 246 (402)
Q Consensus 177 pHLq-lVYeillrfv~s~~~d--------~k~ak~~id~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf-~~~R~~IR 246 (402)
|||| ++-++..-.+--.+-| .+..++++| +.+-+.|||..=.+++-+.- .|- -..-+-|-
T Consensus 343 PHl~~ii~~vIFPlmc~~d~deelwe~DP~EYiR~~~D------i~ed~~sp~~Aa~~~l~~~~----~KR~ke~l~k~l 412 (1010)
T KOG1991|consen 343 PHLQVIIQDVIFPLMCFNDEDEELWEEDPYEYIRKKFD------IFEDGYSPDTAALDFLTTLV----SKRGKETLPKIL 412 (1010)
T ss_pred hHHHHHHHHhhhhhcCCCcccHHHHhcCHHHHHHhcCc------hhcccCCCcHHHHHHHHHHH----HhcchhhhhhHH
Q ss_pred HHHHHHHhHhhhcc---cCCcchHHHHHHHHHHHh--ccCCCchHHHHHHHHHHhhccCCCCCcccchhhHHHHHHHHH-
Q 015699 247 QAVCNIIYRFVFET---ERHNGIAELLEIFGSIIS--GFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFI- 320 (402)
Q Consensus 247 k~i~nif~~fi~e~---e~~nGIaeLLeIlgSIIn--GFa~PLKeEhk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfi- 320 (402)
.-+.+||-+|.-.+ ....-..-.|.++||+.. -=..|.|.+...|+.+.++|..++ .++.-..+-.+.+.+|.
T Consensus 413 ~F~~~Il~~~~~~~~~~~~~rqkdGAL~~vgsl~~~L~K~s~~~~~mE~flv~hVfP~f~s-~~g~Lrarac~vl~~~~~ 491 (1010)
T KOG1991|consen 413 SFIVDILTRYKEASPPNKNPRQKDGALRMVGSLASILLKKSPYKSQMEYFLVNHVFPEFQS-PYGYLRARACWVLSQFSS 491 (1010)
T ss_pred HHHHHHHHhhcccCCCccChhhhhhHHHHHHHHHHHHccCCchHHHHHHHHHHHhhHhhcC-chhHHHHHHHHHHHHHHh
Q ss_pred --hcCCCcHHHHHHHhhc
Q 015699 321 --DKDPKLATNAIKGLLK 336 (402)
Q Consensus 321 --eKDp~L~~~vi~~LLk 336 (402)
=||+......++.-.+
T Consensus 492 ~df~d~~~l~~ale~t~~ 509 (1010)
T KOG1991|consen 492 IDFKDPNNLSEALELTHN 509 (1010)
T ss_pred ccCCChHHHHHHHHHHHH
No 19
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=37.73 E-value=3.6e+02 Score=31.24 Aligned_cols=157 Identities=18% Similarity=0.265 Sum_probs=84.2
Q ss_pred hhhcCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHH-HHHHHHHHHhHhhhcccCCcchHHHHHHHHHHHhc
Q 015699 201 KKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQF-IRQAVCNIIYRFVFETERHNGIAELLEIFGSIISG 279 (402)
Q Consensus 201 k~~id~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~-IRk~i~nif~~fi~e~e~~nGIaeLLeIlgSIInG 279 (402)
|+|+. ..+..++-+++++-+.-|++-.+++.+|-.-.-..... .-...++++|.|+-| +++.-.+.+|.-+.+|.|-
T Consensus 794 kpylp-qi~stiL~rLnnksa~vRqqaadlis~la~Vlktc~ee~~m~~lGvvLyEylge-eypEvLgsILgAikaI~nv 871 (1172)
T KOG0213|consen 794 KPYLP-QICSTILWRLNNKSAKVRQQAADLISSLAKVLKTCGEEKLMGHLGVVLYEYLGE-EYPEVLGSILGAIKAIVNV 871 (1172)
T ss_pred ccchH-HHHHHHHHHhcCCChhHHHHHHHHHHHHHHHHHhccHHHHHHHhhHHHHHhcCc-ccHHHHHHHHHHHHHHHHh
Confidence 55554 57888999999999999998888777665311111111 334568899999966 3444444555555666663
Q ss_pred -----cCCCchHHHHHHHHHHhhccCCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccCCCCCchhHHHHH-HHH
Q 015699 280 -----FALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFI-SEL 353 (402)
Q Consensus 280 -----Fa~PLKeEhk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfieKDp~L~~~vi~~LLk~WP~tns~KEvlFL-~El 353 (402)
-..|.|. . .--|.|..|.++=.. -..||. ++..+-.-=|.--+.+|-|=+ -||
T Consensus 872 igm~km~pPi~d----l-lPrltPILknrheKV----qen~Id------------Lvg~IadrgpE~v~aREWMRIcfeL 930 (1172)
T KOG0213|consen 872 IGMTKMTPPIKD----L-LPRLTPILKNRHEKV----QENCID------------LVGTIADRGPEYVSAREWMRICFEL 930 (1172)
T ss_pred ccccccCCChhh----h-cccchHhhhhhHHHH----HHHHHH------------HHHHHHhcCcccCCHHHHHHHHHHH
Confidence 3455543 2 234566666643221 122432 222233333444445554332 244
Q ss_pred HHHHhcCChHHHHHHHHHHHHHHHHhhC
Q 015699 354 EEVLEMTSMAEFQKIMVPLFRRIGCCLN 381 (402)
Q Consensus 354 eeiLe~~~~~ef~~i~~plf~~la~ci~ 381 (402)
-++|-.. ..+..+-.+--|-.||+.+.
T Consensus 931 lelLkah-kK~iRRaa~nTfG~IakaIG 957 (1172)
T KOG0213|consen 931 LELLKAH-KKEIRRAAVNTFGYIAKAIG 957 (1172)
T ss_pred HHHHHHH-HHHHHHHHHhhhhHHHHhcC
Confidence 4444333 33445555555555665543
No 20
>PF03914 CBF: CBF/Mak21 family; InterPro: IPR005612 This domain is present in the CAATT-binding protein which is essential for growth and necessary for 60S ribosomal subunit biogenesis. Other proteins containing this domain stimulate transcription from the HSP70 promoter.
Probab=35.01 E-value=3.3e+02 Score=24.34 Aligned_cols=102 Identities=15% Similarity=0.139 Sum_probs=64.5
Q ss_pred HHHHHHHHHHhhcCCCCCChHhHHHHHHHhHhhcccCCCCCCCCCCCCCCCCCCCCCCCCccchhhHHHHHHHHHHhcCC
Q 015699 115 RQTLIELADFVSSGSAKFTEPAISGMCKMCSLNLFRVFPPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGS 194 (402)
Q Consensus 115 ~~tL~EL~~~v~~~~~~l~e~~~~~i~~Mi~~NIFR~lP~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~ 194 (402)
.+||..|.+.++.. +.-...-|..++.++- ++-.-.. . + .. .++..++.+++.+..
T Consensus 3 i~al~~l~~l~~~~-n~d~~~FY~~LY~~L~----~p~~~~~-~-------~-~~----------~~~l~lL~~~l~~~~ 58 (164)
T PF03914_consen 3 IQALFLLFQLLSGQ-NIDLDRFYRALYSLLL----DPELFSS-S-------D-KS----------ALLLNLLDKSLKSDH 58 (164)
T ss_pred HHHHHHHHHHHHcC-CCcHHHHHHHHHHHHc----chhhccc-c-------c-hH----------HHHHHHHHHHHcccC
Confidence 56788887766654 3334556666666652 1111000 0 0 00 156777777776666
Q ss_pred CChHHHhhhcCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHH
Q 015699 195 LDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFI 245 (402)
Q Consensus 195 ~d~k~ak~~id~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~I 245 (402)
++.. ....||+||+...-.-++..--.+..+++.+..++...+..|
T Consensus 59 ~~~~-----rvaAFiKRLl~~sl~~~~~~~~~~L~~i~~ll~~~p~l~~ll 104 (164)
T PF03914_consen 59 LPIQ-----RVAAFIKRLLQLSLHLPPSFALAILALIRKLLKRHPNLKSLL 104 (164)
T ss_pred CcHH-----HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCHHHHHHh
Confidence 5554 445699999999888888888888888887776666555544
No 21
>PF04802 SMK-1: Component of IIS longevity pathway SMK-1; InterPro: IPR006887 This is a conserved region which characterises a number of eukaryotic proteins of unknown function.
Probab=34.48 E-value=87 Score=29.64 Aligned_cols=14 Identities=43% Similarity=0.759 Sum_probs=11.0
Q ss_pred cCHHHHHHHHhhcC
Q 015699 204 VDHLFIVRLLDLFD 217 (402)
Q Consensus 204 id~~Fi~~Ll~lf~ 217 (402)
.+..++.+|+++|+
T Consensus 2 ~~~~Yi~kL~~lF~ 15 (193)
T PF04802_consen 2 ENENYIKKLLDLFH 15 (193)
T ss_pred cchHHHHHHHHHHH
Confidence 35678999999994
No 22
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=32.04 E-value=1.8e+02 Score=26.38 Aligned_cols=50 Identities=16% Similarity=0.352 Sum_probs=32.2
Q ss_pred HHHHHHHhhcCCCChHH-HHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHh
Q 015699 207 LFIVRLLDLFDSEDPRE-RDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRF 256 (402)
Q Consensus 207 ~Fi~~Ll~lf~S~DprE-Rd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~f 256 (402)
.++..|+..+..+|+.- +...-..|.+||..--+.-.+.|+.....+-.|
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 36677777776666654 667777888888655555555666555544444
No 23
>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=29.84 E-value=2.8e+02 Score=31.15 Aligned_cols=100 Identities=13% Similarity=0.135 Sum_probs=68.8
Q ss_pred HHHHHHHHhc-CCCChHHHhhhcC-HHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHH-----------HHH
Q 015699 183 YDLLLRFVSY-GSLDVKVAKKYVD-HLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIR-----------QAV 249 (402)
Q Consensus 183 Yeillrfv~s-~~~d~k~ak~~id-~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IR-----------k~i 249 (402)
-+.+.++++. .++++...+..+. +.-+.-++.++=|||..=++.-.++|..+|| -.+.+--|+ .+|
T Consensus 498 ~~~~~~il~rls~~~~~~L~~l~~d~~~~~~i~s~lfsp~~~l~qaA~~llk~~~d-~~~R~e~i~~ll~~~~~~tL~ai 576 (727)
T PF12726_consen 498 TDLISQILERLSDFDPSHLKELLSDPDAAQAIWSLLFSPDDDLYQAAQDLLKQAFD-VDGRLEAIQALLQSNFSPTLSAI 576 (727)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHcCcchhhHHHhheeCCChHHHHHHHHHHHHHhc-CCcHHHHHHHHHHHhHHHHHHHH
Confidence 3334444443 4678888777665 5667778999999999999999999999998 333333333 445
Q ss_pred HHHHhHhhhcccCCcchHHHHHHHHHHHhccCCCc
Q 015699 250 CNIIYRFVFETERHNGIAELLEIFGSIISGFALPL 284 (402)
Q Consensus 250 ~nif~~fi~e~e~~nGIaeLLeIlgSIInGFa~PL 284 (402)
+..+.+++. ...+.....++.++..||++++-|.
T Consensus 577 ~~~l~~~~~-~~~~~p~pr~vr~~~DIi~~Lcdp~ 610 (727)
T PF12726_consen 577 NWSLRQLTK-LKFFEPCPRMVRCLMDIIEVLCDPV 610 (727)
T ss_pred HHHHHHHHh-hhhhcchHHHHHHHHHHHHHHcCCC
Confidence 555555442 3446667778888888888888774
No 24
>PTZ00429 beta-adaptin; Provisional
Probab=29.74 E-value=7.2e+02 Score=28.44 Aligned_cols=158 Identities=11% Similarity=0.093 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHhcCCCChHHHhhhcC---HHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhH
Q 015699 179 LQIVYDLLLRFVSYGSLDVKVAKKYVD---HLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYR 255 (402)
Q Consensus 179 LqlVYeillrfv~s~~~d~k~ak~~id---~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~ 255 (402)
|.=|-|-+.+=+..+..+. +|+. ..=+..|-..|+|.|.++| +..+.+|+.-.+
T Consensus 5 ~~~~~~~~~~~~~~~~~~~----~~f~~~~kge~~ELr~~L~s~~~~~k---k~alKkvIa~mt---------------- 61 (746)
T PTZ00429 5 LRKARERIQRKLEETKTGS----KYFAQTRRGEGAELQNDLNGTDSYRK---KAAVKRIIANMT---------------- 61 (746)
T ss_pred HHHHHHHHHHHhhcCCCcc----ccccccccchHHHHHHHHHCCCHHHH---HHHHHHHHHHHH----------------
Q ss_pred hhhcccCCcchHHHHHHHHHHHhccCCCchHHHHHHHHHHhhccCCCCCcccchhhHHHHHHHHHhcCCCcHHHHHHHhh
Q 015699 256 FVFETERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLL 335 (402)
Q Consensus 256 fi~e~e~~nGIaeLLeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfieKDp~L~~~vi~~LL 335 (402)
.| .+.-.++..+++-++.+ +-+.|.+..=.|.-+ +.-++.++-.++..+.||-.=..+.+|++-
T Consensus 62 --------~G-~DvS~LF~dVvk~~~S~-d~elKKLvYLYL~~y------a~~~pelalLaINtl~KDl~d~Np~IRaLA 125 (746)
T PTZ00429 62 --------MG-RDVSYLFVDVVKLAPST-DLELKKLVYLYVLST------ARLQPEKALLAVNTFLQDTTNSSPVVRALA 125 (746)
T ss_pred --------CC-CCchHHHHHHHHHhCCC-CHHHHHHHHHHHHHH------cccChHHHHHHHHHHHHHcCCCCHHHHHHH
Q ss_pred ccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHh
Q 015699 336 KYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVYFLFIMCML 396 (402)
Q Consensus 336 k~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~la~ci~S~hfqVAErALm~~~ 396 (402)
|..+..-....+...+..-|-+|+.+.|--|--.|+||+.
T Consensus 126 ---------------------LRtLs~Ir~~~i~e~l~~~lkk~L~D~~pYVRKtAalai~ 165 (746)
T PTZ00429 126 ---------------------VRTMMCIRVSSVLEYTLEPLRRAVADPDPYVRKTAAMGLG 165 (746)
T ss_pred ---------------------HHHHHcCCcHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
No 25
>cd04395 RhoGAP_ARHGAP21 RhoGAP_ARHGAP21: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP21-like proteins. ArhGAP21 is a multi-domain protein, containing RhoGAP, PH and PDZ domains, and is believed to play a role in the organization of the cell-cell junction complex. It has been shown to function as a GAP of Cdc42 and RhoA, and to interact with alpha-catenin and Arf6. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=29.50 E-value=4e+02 Score=24.63 Aligned_cols=76 Identities=20% Similarity=0.327 Sum_probs=46.7
Q ss_pred CCCCccchhhHHHHHHHHHHhcCCCChHHHhhhcCHHHHHHHHhhcCCCChHHH-HHHHHHHHHHhhhhhhhhHHHHHHH
Q 015699 171 MFDPAWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRER-DCLKTVLHRIYGKFMAHRQFIRQAV 249 (402)
Q Consensus 171 ~~e~sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lf~S~DprER-d~LktiLhrIY~Kf~~~R~~IRk~i 249 (402)
..++.|.-...|-.+|.+|+.+-+ ...++..+...++..-..+|+.|| ..++.++. +.......+-+.+
T Consensus 65 ~~~~~~~d~~~va~llK~flr~Lp------~pli~~~~~~~~i~~~~~~~~~~~i~~l~~~i~----~LP~~n~~~L~~l 134 (196)
T cd04395 65 LQDPRWRDVNVVSSLLKSFFRKLP------EPLFTNELYPDFIEANRIEDPVERLKELRRLIH----SLPDHHYETLKHL 134 (196)
T ss_pred ccccccccHHHHHHHHHHHHHhCC------CccCCHHHHHHHHHHHcCCCHHHHHHHHHHHHH----HCCHHHHHHHHHH
Confidence 345566556678888888887522 256777777777777777888777 45666654 5544433333444
Q ss_pred HHHHhHh
Q 015699 250 CNIIYRF 256 (402)
Q Consensus 250 ~nif~~f 256 (402)
-..|.+.
T Consensus 135 ~~~L~~v 141 (196)
T cd04395 135 IRHLKTV 141 (196)
T ss_pred HHHHHHH
Confidence 4444443
No 26
>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning]
Probab=29.22 E-value=1.1e+03 Score=28.74 Aligned_cols=231 Identities=18% Similarity=0.252 Sum_probs=117.4
Q ss_pred CCCCCCCChHHHHHHHHHHHhcCcccccccCCccChhhHHHHHHHHHHHHHHhhcC-CCCCChHhHHHHHHHhHhhcccC
Q 015699 73 HLSFKDVSNTQKQNLFVSKLNLCCEVSDFSDSDKVTAEQDLKRQTLIELADFVSSG-SAKFTEPAISGMCKMCSLNLFRV 151 (402)
Q Consensus 73 lp~l~dv~~~e~~~Lf~~Kl~~C~~ifDFsdp~~d~~~Ke~K~~tL~EL~~~v~~~-~~~l~e~~~~~i~~Mi~~NIFR~ 151 (402)
+|.+..++-.|..+. ++|+..|-.-+|=++ .+ .+-+.-+.+.+.+. -.+=.+.=+..++..+=++|||=
T Consensus 11 ~~~~~~~s~~ell~r-Lk~l~~~l~~~~qd~--~~-------~~~~~pl~~~l~~~~~L~h~d~dvrllvacCvseilRi 80 (1266)
T KOG1525|consen 11 LTSLNPISKDELLKR-LKKLANCLASLDQDN--LD-------LASLLPLADHLIKDFLLKHKDKDVRLLVACCVSEILRI 80 (1266)
T ss_pred ccccCcccHHHHHHH-HHHHHHHHhhcccCc--hh-------HHHHHHHHHHHhhHHHhcCCCcChhHHHHHHHHHHHHH
Confidence 444555555555543 578888877766433 11 11122223332221 01112223456777778888886
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCccchhhHHHHHHHHHHhcCCCChHHHhhhcCHH--------HHHHHHhhcCCCChHH
Q 015699 152 FPPKCRSNGTGGETEDEEPMFDPAWSHLQIVYDLLLRFVSYGSLDVKVAKKYVDHL--------FIVRLLDLFDSEDPRE 223 (402)
Q Consensus 152 lP~~~~~~~~~~d~eedep~~e~sWpHLqlVYeillrfv~s~~~d~k~ak~~id~~--------Fi~~Ll~lf~S~DprE 223 (402)
.-|-- |+.++ .|.=||.++++-+.-. -|.. .+|+-+. ++. .+-+++-+|..|
T Consensus 81 ~aPea-------------Py~~~---~lkdIf~~~~~q~~gL-~d~~--sp~f~r~~~lletl~~~k-~~l~~~l~d~~e 140 (1266)
T KOG1525|consen 81 YAPEA-------------PYTDE---QLKDIFQLILSQFSGL-GDVE--SPYFKRYFYLLETLAKVK-FCLLMLLEDCQE 140 (1266)
T ss_pred hCCCC-------------CCcHH---HHHHHHHHHHHHHhhc-cCCC--CcchhhHHHHHHHHHHhH-HHheeeccchHH
Confidence 55421 23333 4555777777665421 1111 2333332 344 666777777765
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhhhcccCCcchHHHHHH-HHHHHhccCCCchHHHHHHHHHHhhccCCC
Q 015699 224 RDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNGIAELLEI-FGSIISGFALPLKEEHKIFLCRALIPLHKP 302 (402)
Q Consensus 224 Rd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~e~~nGIaeLLeI-lgSIInGFa~PLKeEhk~fl~~vLlPLHk~ 302 (402)
.+..+.+-+|.=.-..++-.--.|.+++...|-|.+.- -.|+|.+ |..++++----.++ -.-+...+|-....
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 45555555554332222222222667766666554433 2355443 34455544211111 22223444444444
Q ss_pred CCcccchhhHHHHHHHHHhcCCCcHHHHHHHhhccCC
Q 015699 303 KSVGIYHQQLTYCVVQFIDKDPKLATNAIKGLLKYWP 339 (402)
Q Consensus 303 ~~l~~y~~qL~yci~qfieKDp~L~~~vi~~LLk~WP 339 (402)
.-...+.+-|..|++++-.--.++...+.+-++.+|=
T Consensus 215 ~~~~~i~~f~~~~~~~~~s~~~~~~~~~he~i~~L~~ 251 (1266)
T KOG1525|consen 215 NLEDTIANFLNSCLTEYKSRQSSLKIKYHELILELWR 251 (1266)
T ss_pred hhchhHHHHHHHHHhhccccccchhhHHHHHHHHHHH
Confidence 4445666667888887776666677777777888885
No 27
>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=28.43 E-value=4.3e+02 Score=23.58 Aligned_cols=76 Identities=13% Similarity=0.125 Sum_probs=57.6
Q ss_pred HHHHhcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHH-HHHHHHHHHhhC------CCcHHHHH
Q 015699 317 VQFIDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIM-VPLFRRIGCCLN------SSHYQVYF 389 (402)
Q Consensus 317 ~qfieKDp~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~-~plf~~la~ci~------S~hfqVAE 389 (402)
...+..++.-+...++.|.|-=-..|+.-++.-|.-|+.++..|...--..+. ......+.+.++ ..|..|-+
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 45567889988999999998877778777777799999999999875545554 344456666664 26889999
Q ss_pred HHH
Q 015699 390 LFI 392 (402)
Q Consensus 390 rAL 392 (402)
++|
T Consensus 106 kil 108 (139)
T cd03567 106 KII 108 (139)
T ss_pred HHH
Confidence 986
No 28
>PF14911 MMS22L_C: S-phase genomic integrity recombination mediator, C-terminal
Probab=28.13 E-value=7.2e+02 Score=26.08 Aligned_cols=41 Identities=17% Similarity=0.242 Sum_probs=23.8
Q ss_pred CCCCchhHHHHHHHHHHHH----hcCChHHHHHHHHHHHHHHHHh
Q 015699 339 PVTNSQKELMFISELEEVL----EMTSMAEFQKIMVPLFRRIGCC 379 (402)
Q Consensus 339 P~tns~KEvlFL~EleeiL----e~~~~~ef~~i~~plf~~la~c 379 (402)
|..+...-+.||.++-+=+ +.........+..++++.+-.|
T Consensus 224 p~p~l~~vL~fl~~Ll~~~~~~~~~~~~~~~~~~lp~lL~c~~~v 268 (373)
T PF14911_consen 224 PPPRLASVLAFLQQLLKRLQRQNENQILTLLRLVLPSLLECLMLV 268 (373)
T ss_pred CCCcHHHHHHHHHHHHHhcCcccchhHHHHHHHhhHHHHHHHhhc
Confidence 5566666666666665554 2233344555666666666655
No 29
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=27.85 E-value=94 Score=21.12 Aligned_cols=36 Identities=22% Similarity=0.209 Sum_probs=28.6
Q ss_pred HHhhhcCHHHHHHHHhhcCCCChHHHHHHHHHHHHH
Q 015699 199 VAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRI 234 (402)
Q Consensus 199 ~ak~~id~~Fi~~Ll~lf~S~DprERd~LktiLhrI 234 (402)
..+..++...|..|+.++.++|+.=|...-..|..|
T Consensus 4 ~~~~i~~~g~i~~Lv~ll~~~~~~v~~~a~~al~nl 39 (41)
T PF00514_consen 4 NKQAIVEAGGIPPLVQLLKSPDPEVQEEAAWALGNL 39 (41)
T ss_dssp HHHHHHHTTHHHHHHHHTTSSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHcccHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 344556677899999999999999998887777654
No 30
>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=27.02 E-value=4.4e+02 Score=28.38 Aligned_cols=56 Identities=23% Similarity=0.341 Sum_probs=37.2
Q ss_pred HHHHHHHHHHhcCCCC--hHHHhhhcCHHHHHHHHhhcC-CCChHHHHHHHHHHHHHhh
Q 015699 181 IVYDLLLRFVSYGSLD--VKVAKKYVDHLFIVRLLDLFD-SEDPRERDCLKTVLHRIYG 236 (402)
Q Consensus 181 lVYeillrfv~s~~~d--~k~ak~~id~~Fi~~Ll~lf~-S~DprERd~LktiLhrIY~ 236 (402)
.+-|+|+|+|.....+ ..+..=.-++.+|.+|++.|+ +-|+......-.+|..|..
T Consensus 34 ~ImDlLLklIs~d~~~~~~~ilewL~~q~LI~~Li~~L~p~~~~~~q~naa~~L~aII~ 92 (475)
T PF04499_consen 34 AIMDLLLKLISTDKPESPTGILEWLAEQNLIPRLIDLLSPSYSSDVQSNAADFLKAIIR 92 (475)
T ss_pred HHHHHHHHHHccCcccchHHHHHHHHHhCHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 5889999999864322 222333347899999999997 4455555556666655554
No 31
>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=26.87 E-value=7.3e+02 Score=25.71 Aligned_cols=202 Identities=15% Similarity=0.146 Sum_probs=120.2
Q ss_pred HHHHHHHHHhcCCCChHHHhhhcCHHHHHHHHhh-cCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhhhcc
Q 015699 182 VYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDL-FDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFET 260 (402)
Q Consensus 182 VYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~l-f~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~ 260 (402)
.--++..++.+ +++++.-+ -...++.+++.+ ..++|+..|...-..+-.+-.||..-- .+...+...+... ...
T Consensus 167 ~~~l~~~il~~--l~~~~~~~-~~~~ll~~l~~~~~~~~~~~~~~~~~~~la~LvNK~~~~~-~l~~~l~~~~~~~-~~~ 241 (415)
T PF12460_consen 167 LVILFSAILCS--LRKDVSLP-DLEELLQSLLNLALSSEDEFSRLAALQLLASLVNKWPDDD-DLDEFLDSLLQSI-SSS 241 (415)
T ss_pred HHHHHHHHHHc--CCcccCcc-CHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHcCCCChh-hHHHHHHHHHhhh-ccc
Confidence 33455566665 33332222 122478888887 577888899888888888888864432 3444444433333 122
Q ss_pred cCCcchHHHHHHHHHHHhccCCCchHHHHHHHHHHhhccCCCCCcccchhhHHHHHHHHHhc-C----------------
Q 015699 261 ERHNGIAELLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQFIDK-D---------------- 323 (402)
Q Consensus 261 e~~nGIaeLLeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk~~~l~~y~~qL~yci~qfieK-D---------------- 323 (402)
.....-...++++.-|.+|...-..+.-..+ ...|+-|...+.++. ..+.....++.. |
T Consensus 242 ~~~~~~~~~~~~~~Wi~KaLv~R~~~~~~~~-~~~L~~lL~~~~~g~---~aA~~f~il~~d~~~~l~~~~~a~vklLyk 317 (415)
T PF12460_consen 242 EDSELRPQALEILIWITKALVMRGHPLATEL-LDKLLELLSSPELGQ---QAAKAFGILLSDSDDVLNKENHANVKLLYK 317 (415)
T ss_pred CCcchhHHHHHHHHHHHHHHHHcCCchHHHH-HHHHHHHhCChhhHH---HHHHHHhhHhcCcHHhcCccccchhhhHHh
Confidence 2222334567777777766554443333333 334555666644332 222222222222 0
Q ss_pred CCcHHHHHHHhhccCCCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHH
Q 015699 324 PKLATNAIKGLLKYWPVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVYFLFI 392 (402)
Q Consensus 324 p~L~~~vi~~LLk~WP~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~la~ci~S~hfqVAErAL 392 (402)
-++...++..|+..+-.++.....-+|-=+..++..++.+-...-+..|+-.+-+|++.++-.|-..+|
T Consensus 318 QR~F~~~~p~L~~~~~~~~~~~k~~yL~ALs~ll~~vP~~vl~~~l~~LlPLLlqsL~~~~~~v~~s~L 386 (415)
T PF12460_consen 318 QRFFTQVLPKLLEGFKEADDEIKSNYLTALSHLLKNVPKSVLLPELPTLLPLLLQSLSLPDADVLLSSL 386 (415)
T ss_pred HHHHHHHHHHHHHHHhhcChhhHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence 133455565666655555554445667788889999999999988999999999999999987776665
No 32
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=26.49 E-value=3.1e+02 Score=24.47 Aligned_cols=59 Identities=20% Similarity=0.397 Sum_probs=42.7
Q ss_pred HHHHHHHHHhHhhhcccCCcchHH-HHHHHHHHHhccCCCchHHHHHHHHHHhhccCCCCCc
Q 015699 245 IRQAVCNIIYRFVFETERHNGIAE-LLEIFGSIISGFALPLKEEHKIFLCRALIPLHKPKSV 305 (402)
Q Consensus 245 IRk~i~nif~~fi~e~e~~nGIae-LLeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk~~~l 305 (402)
+|..+-..+.+-..... ..|.+ .|.++..+++.|..-||.|-..|+..++.|+..++..
T Consensus 70 lk~~l~~~Ll~~~~~~~--~~i~~~slri~~~l~~~~~~~Lk~ele~~l~~i~~~il~~~~~ 129 (168)
T PF12783_consen 70 LKDDLCPALLKNLSSSD--FPIFSRSLRIFLTLLSRFRSHLKLELEVFLSHIILRILESDNS 129 (168)
T ss_pred HHHHHHHHHHHHHhhhh--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCC
Confidence 44444444444443322 34444 5999999999999999999999999999998877665
No 33
>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=25.43 E-value=3.9e+02 Score=24.62 Aligned_cols=109 Identities=20% Similarity=0.321 Sum_probs=57.5
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHHHHHHhHhhhcccCCcc-hHHH-HHHHHHHHhccCCCchHHHHHHHHHHhhccCC--C
Q 015699 227 LKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFETERHNG-IAEL-LEIFGSIISGFALPLKEEHKIFLCRALIPLHK--P 302 (402)
Q Consensus 227 LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~e~~nG-IaeL-LeIlgSIInGFa~PLKeEhk~fl~~vLlPLHk--~ 302 (402)
+..++--+..+......+||.+..+.+..++. +++ ...+ +.++....+.=+...+.+--.++. .++.-+. .
T Consensus 92 ~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~----~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~-~~l~~~~~~~ 166 (228)
T PF12348_consen 92 ADILLPPLLKKLGDSKKFIREAANNALDAIIE----SCSYSPKILLEILSQGLKSKNPQVREECAEWLA-IILEKWGSDS 166 (228)
T ss_dssp HHHHHHHHHHGGG---HHHHHHHHHHHHHHHT----TS-H--HHHHHHHHHHTT-S-HHHHHHHHHHHH-HHHTT-----
T ss_pred HHHHHHHHHHHHccccHHHHHHHHHHHHHHHH----HCCcHHHHHHHHHHHHHhCCCHHHHHHHHHHHH-HHHHHccchH
Confidence 44445555566667777888888888877663 223 3344 566555555555445555444433 4444444 2
Q ss_pred CCccc--chhhHHHHHHHHH-hcCCC---cHHHHHHHhhccCCC
Q 015699 303 KSVGI--YHQQLTYCVVQFI-DKDPK---LATNAIKGLLKYWPV 340 (402)
Q Consensus 303 ~~l~~--y~~qL~yci~qfi-eKDp~---L~~~vi~~LLk~WP~ 340 (402)
..+.. +..++..++...+ +.|+. -+..++..+.++||.
T Consensus 167 ~~l~~~~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~~~~~ 210 (228)
T PF12348_consen 167 SVLQKSAFLKQLVKALVKLLSDADPEVREAARECLWALYSHFPE 210 (228)
T ss_dssp GGG--HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHHH-H
T ss_pred hhhcccchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCH
Confidence 33322 2367778888776 44444 466788888899984
No 34
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=24.52 E-value=1.3e+03 Score=27.74 Aligned_cols=72 Identities=22% Similarity=0.297 Sum_probs=54.6
Q ss_pred HHHHHHHHH----hcCCCcHHHHHHHhhccCCCCCchhHHHH---HHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCCCc
Q 015699 312 LTYCVVQFI----DKDPKLATNAIKGLLKYWPVTNSQKELMF---ISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSH 384 (402)
Q Consensus 312 L~yci~qfi----eKDp~L~~~vi~~LLk~WP~tns~KEvlF---L~EleeiLe~~~~~ef~~i~~plf~~la~ci~S~h 384 (402)
++.|+-+.. +|.+.++...+..+.+ |+++.++.+.= |+|+..-....+..++.. .+++|++|+|
T Consensus 800 iA~cvA~Lt~~~~~~s~s~a~kl~~~~~s--~~s~~~ikvfa~LslGElgr~~~~s~~~e~~~-------~iieaf~sp~ 870 (1233)
T KOG1824|consen 800 IAKCVAALTCACPQKSKSLATKLIQDLQS--PKSSDSIKVFALLSLGELGRRKDLSPQNELKD-------TIIEAFNSPS 870 (1233)
T ss_pred HHHHHHHHHHhccccchhHHHHHHHHHhC--CCCchhHHHHHHhhhhhhccCCCCCcchhhHH-------HHHHHcCCCh
Confidence 677877664 6778899999999998 99999998865 455555445555555543 5899999999
Q ss_pred HHHHHHHH
Q 015699 385 YQVYFLFI 392 (402)
Q Consensus 385 fqVAErAL 392 (402)
-.|--+|-
T Consensus 871 edvksAAs 878 (1233)
T KOG1824|consen 871 EDVKSAAS 878 (1233)
T ss_pred HHHHHHHH
Confidence 99977773
No 35
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=24.17 E-value=1.5e+02 Score=19.10 Aligned_cols=28 Identities=25% Similarity=0.355 Sum_probs=21.7
Q ss_pred HHHHHhhcCCCChHHHHHHHHHHHHHhh
Q 015699 209 IVRLLDLFDSEDPRERDCLKTVLHRIYG 236 (402)
Q Consensus 209 i~~Ll~lf~S~DprERd~LktiLhrIY~ 236 (402)
+-.++.++.+++++-|+..-..|..|..
T Consensus 2 lp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 2 LPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 3457788889999999999988877764
No 36
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=22.78 E-value=3.2e+02 Score=30.32 Aligned_cols=105 Identities=18% Similarity=0.240 Sum_probs=76.0
Q ss_pred hHH-HHHHHHHHHhccCCCchHHHH----HHHHHHhhccCCCCCcccchhhHHHHHHH--HHhcCCCcHHHHHHHhhccC
Q 015699 266 IAE-LLEIFGSIISGFALPLKEEHK----IFLCRALIPLHKPKSVGIYHQQLTYCVVQ--FIDKDPKLATNAIKGLLKYW 338 (402)
Q Consensus 266 Iae-LLeIlgSIInGFa~PLKeEhk----~fl~~vLlPLHk~~~l~~y~~qL~yci~q--fieKDp~L~~~vi~~LLk~W 338 (402)
+|- |.+++-+|+.-|..-+..||. .+..+.++-+-|.++...-..- ..+.. .-+|+..+...|+.|+-|-.
T Consensus 303 van~lv~vyf~~f~kfl~n~~ke~~~~s~~leek~~~~~~Knk~s~K~~k~--e~~rkev~~eknS~~~savLtG~nRa~ 380 (821)
T COG5593 303 VANKLVKVYFSIFRKFLENIPKEHRVNSNILEEKLVIGLGKNKGSEKICKT--EIIRKEVHTEKNSFYGSAVLTGCNRAG 380 (821)
T ss_pred HHHHHHHHHHHHHHHHHhcCchhhcccchhHHHHHHhhhccCCCCcccccH--HHHHHHHHHhhhhHHHHHHHhcccccC
Confidence 443 678999999999888888886 6777888999888877654221 11221 23788899999999999999
Q ss_pred CCCCchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHH
Q 015699 339 PVTNSQKELMFISELEEVLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVYFLFIM 393 (402)
Q Consensus 339 P~tns~KEvlFL~EleeiLe~~~~~ef~~i~~plf~~la~ci~S~hfqVAErALm 393 (402)
|.. .+....|..-|..+|++.- +.+|-+.+.|||
T Consensus 381 pfa-----------------~l~~~~~~~Hm~tlfkith----~~~fnts~qalm 414 (821)
T COG5593 381 PFA-----------------LLFRNAVKSHMMTLFKITH----EFLFNTSEQALM 414 (821)
T ss_pred chh-----------------hhhHHHHHHHHHHHHhhhh----hhhhhHHHHHHH
Confidence 942 2345667777778887764 556788888876
No 37
>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=22.37 E-value=3e+02 Score=25.25 Aligned_cols=47 Identities=13% Similarity=0.275 Sum_probs=32.8
Q ss_pred HHHHHHhcCChHHHHHHH------HHHHHHHHHhhCCCcHHHHHHHHHHHhhcCCC
Q 015699 352 ELEEVLEMTSMAEFQKIM------VPLFRRIGCCLNSSHYQVYFLFIMCMLINKRV 401 (402)
Q Consensus 352 EleeiLe~~~~~ef~~i~------~plf~~la~ci~S~hfqVAErALm~~~~N~~~ 401 (402)
-+.+++..++-+++..+. .+.|+.+-+.+.|+.||..-.+ +|+|+++
T Consensus 106 ~~~di~~~lP~~~l~aL~~~K~~~s~~F~~f~~~l~S~ef~~~~~~---~~~~~~~ 158 (179)
T PF06757_consen 106 FVDDILALLPRDKLRALYEEKLATSPEFAEFVEALRSPEFQQLYNA---LWASPEF 158 (179)
T ss_pred HHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHcCHHHHHHHHH---HHcCHHH
Confidence 334444445555544433 4889999999999999998887 5787754
No 38
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=21.82 E-value=4.5e+02 Score=21.49 Aligned_cols=73 Identities=11% Similarity=0.204 Sum_probs=40.1
Q ss_pred HHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhh-hcccCCcchHHHHHHHHHHHh
Q 015699 206 HLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFV-FETERHNGIAELLEIFGSIIS 278 (402)
Q Consensus 206 ~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi-~e~e~~nGIaeLLeIlgSIIn 278 (402)
+.|+..++..--.+...+|++.-.++.+++.+-......+.++....+...= .+...+.+..-+-++++..|.
T Consensus 35 ~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~~~~~~~gf~~~l~~l~Dl~~D~P~~~~~la~~~~~~i~ 108 (113)
T PF02847_consen 35 HEVVKVILECALEEKKSYREYYSKLLSHLCKRKLISKEQFQEGFEDLLESLEDLELDIPKAPEYLAKFLARLIA 108 (113)
T ss_dssp HHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhHhhhccccchHHHHHHHHHHHHHHH
Confidence 4567777766545588888888888888886555444555555554443221 111234444444444444443
No 39
>PF01365 RYDR_ITPR: RIH domain; InterPro: IPR000699 Ryanodine and Inositol 1,4,5-trisphosphate (IP3) receptors are intracellular Ca2+-release channels. They become activated upon binding of their respective ligands, Ca2+ and IP3, opening an intrgral Ca2+ channel. Ryanodine receptor activation is a key component of muscular contraction, their activation allowing release of Ca2+ from the sarcoplasmic reticulum. Mutations in the ryanodine receptor lead to malignant hyperthermia susceptibility the and central core disease of muscle.; GO: 0005262 calcium channel activity, 0070588 calcium ion transmembrane transport, 0016020 membrane; PDB: 1N4K_A 2XOA_A 3UJ0_B 3UJ4_A 3T8S_A.
Probab=21.65 E-value=48 Score=30.87 Aligned_cols=110 Identities=19% Similarity=0.219 Sum_probs=31.5
Q ss_pred CCCccchh-hHHHHHHHHHHhcCCCChHHHhhhcCHHHHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHH
Q 015699 172 FDPAWSHL-QIVYDLLLRFVSYGSLDVKVAKKYVDHLFIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVC 250 (402)
Q Consensus 172 ~e~sWpHL-qlVYeillrfv~s~~~d~k~ak~~id~~Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~ 250 (402)
.+..|..+ ..+|.+|..|.....-+.....++++.- +..+.......|.. ..++|..||..-..+=.-+...--
T Consensus 70 ~~~~~~~l~~~~~~lL~~f~~~n~~NQ~~l~~~~~~l-~~~~~~~~~~~~~~----~~d~l~~i~~dN~~L~~~i~e~~I 144 (207)
T PF01365_consen 70 KDSSFKELFRLCYRLLRQFCRGNRENQKYLFKHLDFL-ISIFMQLQIGYGLG----ALDVLTEIFRDNPELCESISEEHI 144 (207)
T ss_dssp GGHCHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH------HHCCCH-TTHH----HHHHHHHHHTT-------------
T ss_pred hccHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHhHH-HHHHHHhhccCCch----HHHHHHHHHHCcHHHHHHhhHHHH
Confidence 46788876 7999999999976444444444444411 22222222334433 344555555533322111222222
Q ss_pred HHHhHhhhcccCCcchHHHHHHHHHHHhccCCCchHHHH
Q 015699 251 NIIYRFVFETERHNGIAELLEIFGSIISGFALPLKEEHK 289 (402)
Q Consensus 251 nif~~fi~e~e~~nGIaeLLeIlgSIInGFa~PLKeEhk 289 (402)
+.|.+++. .|.--+..|++|++|...-..|++....
T Consensus 145 ~~~i~ll~---~~gr~~~~L~~L~~lc~~~g~pI~~nQ~ 180 (207)
T PF01365_consen 145 EKFIELLR---KHGRQPRYLDFLSSLCVCNGNPIPENQN 180 (207)
T ss_dssp ---------------------------------------
T ss_pred HHHHHHHH---HcCCChHHHHHHhhhcccCCcCCHHHHH
Confidence 34445553 3333456899999887755567776553
No 40
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=21.18 E-value=5.6e+02 Score=29.80 Aligned_cols=227 Identities=17% Similarity=0.243 Sum_probs=127.8
Q ss_pred HHHhHhhcccCCCCCCCCCCCCCCCCCCCCCCCCccc----hhhHHHHHHHHHHhc--CCCChHHHhhhcCHHHHHHHHh
Q 015699 141 CKMCSLNLFRVFPPKCRSNGTGGETEDEEPMFDPAWS----HLQIVYDLLLRFVSY--GSLDVKVAKKYVDHLFIVRLLD 214 (402)
Q Consensus 141 ~~Mi~~NIFR~lP~~~~~~~~~~d~eedep~~e~sWp----HLqlVYeillrfv~s--~~~d~k~ak~~id~~Fi~~Ll~ 214 (402)
++|+.+|-.-.+-....+ |.-+--+.++.|-|. |-..+..-|++-+-. |..|+..| .|.+...++.|+.
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 455555554444332222 222222246778886 778888888887765 77787665 5678888999999
Q ss_pred hcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhHhhhcc----cCCcchHHHHHHHHH---------HHhccC
Q 015699 215 LFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQAVCNIIYRFVFET----ERHNGIAELLEIFGS---------IISGFA 281 (402)
Q Consensus 215 lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk~i~nif~~fi~e~----e~~nGIaeLLeIlgS---------IInGFa 281 (402)
-|+|||..=...+..++.++-++--.--.|||..|-..|...--.- ++.|- ..|.+.-.+ ||+..-
T Consensus 644 Ef~sPDeemkkivLKVv~qcc~t~Gv~~~y~r~dilp~ff~~fw~rrmA~drr~y-kqlv~ttv~ia~KvG~~~~v~R~v 722 (1172)
T KOG0213|consen 644 EFGSPDEEMKKIVLKVVKQCCATDGVEPAYIRFDILPEFFFSFWGRRMALDRRNY-KQLVDTTVEIAAKVGSDPIVSRVV 722 (1172)
T ss_pred hhCCChHHHHHHHHHHHHHHhcccCCCHHHHhhhhhHHHHhhhhhhhhhccccch-hhHHHHHHHHHHHhCchHHHHHHh
Confidence 9999998777776677777766666666778766654443322111 11111 122333333 344444
Q ss_pred CCchHHHHHHHHHHhhccCCCCCcccchhhHHHHHHHH------HhcCCCcHHHHHHHhhccCCCCCchhHHHHHHHHHH
Q 015699 282 LPLKEEHKIFLCRALIPLHKPKSVGIYHQQLTYCVVQF------IDKDPKLATNAIKGLLKYWPVTNSQKELMFISELEE 355 (402)
Q Consensus 282 ~PLKeEhk~fl~~vLlPLHk~~~l~~y~~qL~yci~qf------ieKDp~L~~~vi~~LLk~WP~tns~KEvlFL~Elee 355 (402)
.+||.|..+| ..--...+... ..-|.+|-+..++|++--.-...+.--|||+.. .-
T Consensus 723 ~~lkde~e~y-----------------rkm~~etv~ri~~~lg~~diderleE~lidgil~Afqeqtt~d~vml~gf-g~ 784 (1172)
T KOG0213|consen 723 LDLKDEPEQY-----------------RKMVAETVSRIVGRLGAADIDERLEERLIDGILYAFQEQTTEDSVMLLGF-GT 784 (1172)
T ss_pred hhhccccHHH-----------------HHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHhcccchhhhhhhH-HH
Confidence 4455443322 11112222222 245777888888888887776555555666532 21
Q ss_pred HHhcCChHHHHHHHHHHHHHHHHhhCCCcHHHHHHHH
Q 015699 356 VLEMTSMAEFQKIMVPLFRRIGCCLNSSHYQVYFLFI 392 (402)
Q Consensus 356 iLe~~~~~ef~~i~~plf~~la~ci~S~hfqVAErAL 392 (402)
+...+ -.-.++...+++.-+-.-+++...+|-.+|+
T Consensus 785 V~~~l-g~r~kpylpqi~stiL~rLnnksa~vRqqaa 820 (1172)
T KOG0213|consen 785 VVNAL-GGRVKPYLPQICSTILWRLNNKSAKVRQQAA 820 (1172)
T ss_pred HHHHH-hhccccchHHHHHHHHHHhcCCChhHHHHHH
Confidence 21111 0111333445555555556777777777774
No 41
>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=20.37 E-value=2.7e+02 Score=21.97 Aligned_cols=71 Identities=13% Similarity=0.088 Sum_probs=37.8
Q ss_pred HHHHHHhhcCCCChHHHHHHHHHHHHHhhhhhhhhHHHHH-HHHHHHhHhhhcccCCcchHHHHHHHHHHHhc
Q 015699 208 FIVRLLDLFDSEDPRERDCLKTVLHRIYGKFMAHRQFIRQ-AVCNIIYRFVFETERHNGIAELLEIFGSIISG 279 (402)
Q Consensus 208 Fi~~Ll~lf~S~DprERd~LktiLhrIY~Kf~~~R~~IRk-~i~nif~~fi~e~e~~nGIaeLLeIlgSIInG 279 (402)
.+..|++++.+.+++-|...-..|..+-......+..+.+ .+-..+..++.. ..+.-....+..|+.+..+
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~-~~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKS-EDEEVVKAALWALRNLAAG 79 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhC-CCHHHHHHHHHHHHHHccC
Confidence 5667778888888888888888887666543333333221 223334343332 1222233345555555444
Done!