Query psy15588
Match_columns 461
No_of_seqs 279 out of 1132
Neff 6.3
Searched_HMMs 46136
Date Fri Aug 16 16:25:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15588.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15588hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2378|consensus 100.0 7E-113 2E-117 860.7 27.7 421 2-443 97-538 (573)
2 KOG3542|consensus 100.0 7.6E-73 1.7E-77 588.8 13.9 310 122-444 755-1070(1283)
3 cd00155 RasGEF Guanine nucleot 100.0 1.8E-49 3.9E-54 385.0 21.3 216 239-454 1-222 (237)
4 smart00147 RasGEF Guanine nucl 100.0 2.6E-49 5.6E-54 385.5 20.4 215 239-453 1-221 (242)
5 PF00617 RasGEF: RasGEF domain 100.0 3.4E-45 7.4E-50 341.5 12.3 185 240-424 1-188 (188)
6 KOG3629|consensus 100.0 2.3E-29 4.9E-34 259.3 13.8 219 235-453 207-455 (728)
7 KOG3541|consensus 99.9 1.4E-27 3.1E-32 240.3 14.9 209 240-451 206-441 (477)
8 KOG3417|consensus 99.9 1.4E-21 3.1E-26 221.0 11.3 206 235-440 207-419 (840)
9 cd01785 PDZ_GEF_RA Ubiquitin-l 99.8 4.2E-19 9.2E-24 141.1 6.0 81 124-216 1-85 (85)
10 KOG3417|consensus 99.6 7.2E-15 1.6E-19 166.8 12.1 194 243-444 609-806 (840)
11 smart00314 RA Ras association 98.5 5E-07 1.1E-11 75.0 8.1 79 125-215 2-88 (90)
12 PF00788 RA: Ras association ( 98.4 4.6E-07 1E-11 74.9 6.3 81 124-216 1-91 (93)
13 cd01768 RA RA (Ras-associating 98.3 2.5E-06 5.3E-11 70.3 7.3 63 127-201 1-67 (87)
14 cd06224 REM Guanine nucleotide 98.2 2.3E-06 4.9E-11 74.3 5.9 92 2-93 19-118 (122)
15 smart00229 RasGEFN Guanine nuc 98.2 2.2E-06 4.8E-11 75.4 5.6 78 2-80 27-110 (127)
16 PF00618 RasGEF_N: RasGEF N-te 97.6 2.3E-05 5E-10 66.5 2.1 72 2-73 24-104 (104)
17 cd01781 AF6_RA_repeat2 Ubiquit 97.2 0.0011 2.5E-08 56.4 6.9 50 127-188 3-57 (100)
18 cd01783 DAGK_delta_RA Ubiquiti 97.0 0.0026 5.5E-08 53.9 7.1 64 126-201 3-73 (97)
19 cd01775 CYR1_RA Ubiquitin doma 97.0 0.0029 6.2E-08 53.5 7.2 62 126-201 3-64 (97)
20 cd01787 GRB7_RA RA (RAS-associ 96.8 0.0043 9.4E-08 51.3 6.9 62 125-199 2-64 (85)
21 cd01784 rasfadin_RA Ubiquitin- 96.7 0.0049 1.1E-07 51.0 6.4 65 130-206 6-71 (87)
22 cd01779 Myosin_IXb_RA ubitquit 96.7 0.0086 1.9E-07 50.3 7.5 67 122-201 7-78 (105)
23 smart00295 B41 Band 4.1 homolo 95.3 0.057 1.2E-06 50.5 7.4 54 125-191 3-56 (207)
24 cd01780 PLC_epsilon_RA Ubiquit 94.7 0.088 1.9E-06 44.1 5.8 48 127-186 2-52 (93)
25 cd01778 RASSF1_RA Ubiquitin-li 94.1 0.18 3.8E-06 42.8 6.5 68 127-206 8-78 (96)
26 cd01782 AF6_RA_repeat1 Ubiquit 93.1 0.29 6.3E-06 42.3 6.2 58 137-206 37-97 (112)
27 cd01817 RGS12_RBD Ubiquitin do 89.3 0.92 2E-05 36.6 5.2 59 127-201 1-59 (73)
28 PF09379 FERM_N: FERM N-termin 89.1 1 2.2E-05 36.0 5.5 52 130-194 1-53 (80)
29 KOG4239|consensus 89.1 0.55 1.2E-05 47.6 4.7 65 129-205 207-274 (348)
30 cd01776 Rin1_RA Ubiquitin doma 89.0 1 2.2E-05 37.1 5.3 52 133-198 11-62 (87)
31 cd01777 SNX27_RA Ubiquitin dom 88.1 1.4 3E-05 36.8 5.7 51 125-187 1-52 (87)
32 cd01760 RBD Ubiquitin-like dom 87.0 1.4 3E-05 35.5 5.0 31 127-157 1-31 (72)
33 PF02196 RBD: Raf-like Ras-bin 86.1 2 4.3E-05 34.3 5.4 31 127-157 2-32 (71)
34 KOG1892|consensus 84.7 2 4.4E-05 49.4 6.5 63 127-201 236-303 (1629)
35 smart00455 RBD Raf-like Ras-bi 84.3 2.4 5.1E-05 33.8 5.1 31 127-157 1-31 (70)
36 KOG3751|consensus 82.9 2.9 6.3E-05 45.3 6.5 68 120-200 183-251 (622)
37 cd00196 UBQ Ubiquitin-like pro 72.4 6.3 0.00014 27.6 3.9 41 130-184 2-42 (69)
38 cd00153 RalGDS_RA Ubiquitin do 72.4 22 0.00048 29.6 7.4 61 126-198 3-68 (87)
39 PF14847 Ras_bdg_2: Ras-bindin 60.8 25 0.00055 30.4 5.9 49 126-186 1-49 (105)
40 PF03745 DUF309: Domain of unk 55.9 32 0.00069 26.7 5.2 54 283-336 2-60 (62)
41 KOG3784|consensus 51.7 53 0.0011 34.8 7.5 89 87-187 69-158 (407)
42 PF02192 PI3K_p85B: PI3-kinase 50.0 51 0.0011 26.9 5.7 53 137-198 1-56 (78)
43 KOG1892|consensus 40.8 45 0.00097 39.2 5.3 67 138-217 57-131 (1629)
44 cd06406 PB1_P67 A PB1 domain i 40.7 51 0.0011 27.2 4.3 70 125-211 2-73 (80)
45 PF11470 TUG-UBL1: GLUT4 regul 39.3 49 0.0011 26.0 3.9 38 132-183 3-40 (65)
46 cd01818 TIAM1_RBD Ubiquitin do 38.2 1.1E+02 0.0024 25.0 5.8 29 129-157 3-31 (77)
47 smart00143 PI3K_p85B PI3-kinas 36.4 79 0.0017 25.9 4.8 53 137-198 1-56 (78)
48 PF00794 PI3K_rbd: PI3-kinase 35.0 51 0.0011 27.9 3.8 36 122-157 13-49 (106)
49 COG3068 Uncharacterized protei 30.8 87 0.0019 29.1 4.6 72 308-380 6-88 (194)
50 cd01763 Sumo Small ubiquitin-r 28.8 2E+02 0.0043 23.4 6.1 37 121-157 7-43 (87)
51 PF03671 Ufm1: Ubiquitin fold 27.0 3.5E+02 0.0075 22.0 6.8 33 125-157 2-37 (76)
52 cd01816 Raf_RBD Ubiquitin doma 26.8 1.7E+02 0.0037 23.8 5.1 31 127-157 1-31 (74)
53 PF00564 PB1: PB1 domain; Int 21.5 2.6E+02 0.0057 21.9 5.5 56 126-195 2-57 (84)
No 1
>KOG2378|consensus
Probab=100.00 E-value=7.5e-113 Score=860.69 Aligned_cols=421 Identities=45% Similarity=0.718 Sum_probs=406.8
Q ss_pred hhhhh-hhhhHhHH---Hhhhhh--cCcccCCCCCCCCchhhhhhhhhhHHHHHHHHHHhhhcccccChhhhhHHHHHHH
Q psy15588 2 DFVRD-ATYHIVVL---KLCSAK--SFQCTFHMDSSNHDKDFILSCKRSVVQFVFRWVSVIRHVVFDDTGTMNFIQDLAS 75 (461)
Q Consensus 2 ~~~~~-~lth~vfm---~lc~~l--~y~~~~~~~~~~e~~~~~l~~KrrVl~lv~~W~~~~~~~~~~d~~~~~fl~~l~~ 75 (461)
+|++| +|||.||| |||+|| |||+++++|+|++.. +++|||||++||+||+++||++|++||++++|||+||+
T Consensus 97 t~l~DFilth~vFMp~~~lC~aL~~hy~~~p~~g~e~~~~--~~r~Kr~vl~lv~qw~aly~~~l~ed~va~~fl~~ly~ 174 (573)
T KOG2378|consen 97 TFLEDFILTHDVFMPDNQLCNALLSHYHATPYQGTEQEIT--VVRCKRRVLRLVSQWCALYGDLLQEDPVANSFLEELYC 174 (573)
T ss_pred HHHHHHHHHhhhccCcHHHHHHHHHHhccCcCCCchhhhh--hHhHHHHHHHHHHHHHHHHhhhcccChhHHHHHHHHHH
Confidence 69999 99999999 999999 999999999998885 99999999999999999999999999999999999999
Q ss_pred HHhhcchhhhhhhHHHHHHHHHHHHhhhcchhhhhcccccccCCCC--------------CCCcEEEEEeecCCCeeeEe
Q psy15588 76 EVESDSTMWSGLTEEASLMHHVMTHMKRYQDERAASAGQKWKLPPS--------------GQPIIIFRVYCADHTFCTLR 141 (461)
Q Consensus 76 ~v~~d~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--------------~~~~~~~~vy~~d~~~~~~~ 141 (461)
.|++|.++++ |+|++.++++.+++ +.+++.++|++++++|++| ++|+++|+||++||||.|++
T Consensus 175 ~V~dD~~~~~-l~E~~l~~~~~i~~--~~~~~~~~pqkk~k~L~~~f~~~d~~~tr~~v~~sDev~~~vy~~Dhsy~tl~ 251 (573)
T KOG2378|consen 175 LVIDDRRLYG-LREDILERIQSIRL--STRENNQSPQKKHKALFLQFGVLDEALTRCPVRGSDEVFCIVYLPDHSYVTLR 251 (573)
T ss_pred HHhhhHHhhh-hhHHHHHHHHHHhc--cccccccChhhhcchHHHhccchhhccccCCccCCCeeeEEEEecCceEEEEE
Confidence 9999999999 99999999998876 6788888999999999877 89999999999999999999
Q ss_pred ecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcceecCCCCCCcccccccCcccccccCCcccc
Q psy15588 142 FPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERVVFRDNDLSIPTALSLNGRIFVSPKDHLDA 221 (461)
Q Consensus 142 ~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~~~~~~~~~~~~~l~ln~r~~~~~~~~~~~ 221 (461)
+++++||+||+.++++ |+| .+++++||+|+|+||+++++|+|.+++|++++|||+|++++++.+.
T Consensus 252 ~~vs~svqEI~~~va~------------k~~---~seel~LV~v~s~GEkv~lqPnd~~v~tsL~ln~rLfv~~re~~~~ 316 (573)
T KOG2378|consen 252 IRVSASVQEILEAVAE------------KLG---YSEELILVKVSSSGEKVILQPNDRAVFTSLGLNSRLFVVNREEIDL 316 (573)
T ss_pred eechhHHHHHHHHHHH------------Hhc---cccceeEEEEccCCceeeecCCcceeeeeecccceEEEEchHhhhh
Confidence 9999999999999999 995 5778999999999999999999999999999999999999999999
Q ss_pred ccCCccccccccCCccccCCCCHHHHHHHHHHHHHHHHhcCChhhhhhhhcc-CCCCCCcCccHHHHHHHhHHHHHHHHH
Q psy15588 222 LTCISEQETYTEGMDFDLETFSAKELAFHMTLFDWDLFWSIHEYELVYHTVG-RHRFQQITANLDVFLRRFNEIQYWVIT 300 (461)
Q Consensus 222 l~pl~~~~~~~~~~~~~L~~l~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~-k~~~~~~tpnL~~~~~~fN~ls~WV~t 300 (461)
|+|+|+|++|+.| ...|..++++++|.|||.+||+||++||..|++++.++ .......+.|++.+.+|||+++.||++
T Consensus 317 LvP~peq~gpt~g-~~~l~lv~s~dlA~qLt~fdw~Lfnsih~~ElI~y~i~~q~~~~~~tanleLl~~R~neVq~wv~t 395 (573)
T KOG2378|consen 317 LVPLPEQEGPTPG-SSILHLVSSKDLAHQLTLFDWSLFNSIHENELIHYVIGGQIPCDRNTANLELLLRRFNEVQHWVAT 395 (573)
T ss_pred cCCChhhcCCCCC-cceeeeccHHHHHHHHHHHHHHHHhhhhHhHhhHhhhcccCCCCccchhHHHHHHHHhhchhhhhc
Confidence 9999999999998 56788899999999999999999999999999999998 445556899999999999999999999
Q ss_pred HHhccCChhHHHHHHHHHHHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHH
Q psy15588 301 EILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAY 380 (461)
Q Consensus 301 eIL~~~~~~~Ra~li~kFIkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~Y 380 (461)
+||.|+.+.+|+++++||||||.+|++.+|.|++|||++||++.+|+||..||+++|.++++.|+++++++||++||+.|
T Consensus 396 ei~lc~ql~kr~qllkkfiKiaal~ke~~~l~sffAV~~GL~~~avSrl~~tweklP~k~kk~~s~~enl~dP~~nhr~y 475 (573)
T KOG2378|consen 396 EILLCQQLGKRCQLLKKFIKIAALCKEGENLNSFFAVVMGLSNRAVSRLDLTWEKLPYKFKKLFSELENLLDPCRNHRTY 475 (573)
T ss_pred hhhhhcchhHHHHHHHHHHHHHHHHHhhccccchHHHhhcchhHHHHhhhcccccCchHHHhHHHHHHhcCCchhhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCccccccchhhhhhhhhcCCCCCCCCcccHHHHHHHHHHHHHHHHhhhcCCCCc
Q psy15588 381 RQAVSKLQSPVIPFMPLLLKDLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLGRP 443 (461)
Q Consensus 381 R~~l~~~~~P~IPflgl~LkDLtfi~egn~t~~dgLINf~K~r~ia~~i~~i~~~q~~~y~~~ 443 (461)
|.++++++||.|||+|+++||+||+||||++++||+|||+||||||+++|++++|+++|+++.
T Consensus 476 R~l~~km~pp~ipf~PlllkD~tf~heGnkt~v~glVNfEKmhmiA~~~Rt~r~cRS~p~~~~ 538 (573)
T KOG2378|consen 476 RLLSSKMSPPYIPFMPLLLKDLTFIHEGNKTFVDGLVNFEKMHMIAKTARTLRHCRSQPLNPG 538 (573)
T ss_pred HHHHHhcCCCCCCccchhhhhceeeccchHHHHhcchhHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence 999999999999999999999999999999999999999999999999999999999999974
No 2
>KOG3542|consensus
Probab=100.00 E-value=7.6e-73 Score=588.81 Aligned_cols=310 Identities=31% Similarity=0.522 Sum_probs=291.0
Q ss_pred CCCcEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcce----ecCCC
Q psy15588 122 GQPIIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERV----VFRDN 197 (461)
Q Consensus 122 ~~~~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~----~~~~~ 197 (461)
+++|+++|||+.||+++|+.|.++|||+|||..|.+ +|++++.+++|+||||+++.|++ .++|+
T Consensus 755 d~PdqVlrvfk~DQqs~Yi~isKdTtAkeVV~~A~~------------EF~~Ta~sd~ySLCEvsVTpeGVIKQRRLPdQ 822 (1283)
T KOG3542|consen 755 DCPDQVLRVFKNDQQSKYIPISKDTTAKEVVQLALQ------------EFNMTAGSDEYSLCEVSVTPEGVIKQRRLPDQ 822 (1283)
T ss_pred cCcHHHHHHhhccccceeEEEeccccHHHHHHHHHH------------HhccccCCCceeeEEEEecchhhhhhccCCHH
Confidence 889999999999999999999999999999999999 99999999999999999999876 57899
Q ss_pred CCCcccccccCcccccccCCccccccCCccccccccCCccccCCCCHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCCC
Q psy15588 198 DLSIPTALSLNGRIFVSPKDHLDALTCISEQETYTEGMDFDLETFSAKELAFHMTLFDWDLFWSIHEYELVYHTVGRHRF 277 (461)
Q Consensus 198 ~~~~~~~l~ln~r~~~~~~~~~~~l~pl~~~~~~~~~~~~~L~~l~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~k~~~ 277 (461)
...+++++.||||||++++...++|+|-.+.......+...++++++.++|.|||+.|+++|++|+|.||++..|.-. .
T Consensus 823 ~skLAdRIqLngRYYLKNNmetEtLcsDEdAqELlkEsQ~slLqLst~eVAtQLsmrdF~lFrnIEPTEyiDdLFKL~-S 901 (1283)
T KOG3542|consen 823 MSKLADRIQLNGRYYLKNNMETETLCSDEDAQELLKESQTSLLQLSTQEVATQLSMRDFSLFRNIEPTEYIDDLFKLD-S 901 (1283)
T ss_pred HHHHHHHhhhcceeeeccCcccCcCCCchhHHHHHHHHHHhHhhhHHHHHHHHhhhhhhhhHhcCChHHHHHHHHhhc-c
Confidence 999999999999999999999999987443322334457889999999999999999999999999999999998643 3
Q ss_pred CCcCccHHHHHHHhHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCC
Q psy15588 278 QQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLP 357 (461)
Q Consensus 278 ~~~tpnL~~~~~~fN~ls~WV~teIL~~~~~~~Ra~li~kFIkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~ 357 (461)
+..+|+|.+|.+.||+..+||++|||.+.+..+|+++|++|||||.||++++||||+|||++||+-++|.||+.||+++|
T Consensus 902 Ktg~~~LkrFE~l~NqEtfWVAsEIltE~nqlKRmKiIKhFIKiAlhCReckNFNSMFAIiSGLnla~VaRLr~tWEklp 981 (1283)
T KOG3542|consen 902 KTGSPKLKRFEQLFNQETFWVASEILTERNQLKRMKIIKHFIKIALHCRECKNFNSMFAIISGLNLAAVARLRSTWEKLP 981 (1283)
T ss_pred ccCCccHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHhcCchHHHHHHhhhHhhcc
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHhccCCCCcHHHHHHHHhh--CCCCccccccchhhhhhhhhcCCCCCCCCcccHHHHHHHHHHHHHHHHh
Q psy15588 358 SKSKKTYTELEALIDPSKNHRAYRQAVSK--LQSPVIPFMPLLLKDLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYC 435 (461)
Q Consensus 358 ~k~kk~~~~L~~L~d~s~N~~~YR~~l~~--~~~P~IPflgl~LkDLtfi~egn~t~~dgLINf~K~r~ia~~i~~i~~~ 435 (461)
+||.+++++|+.|+||++|+.+||+.++. .+||.||.+|++.|||||+||||.+++||||||+|+||||+.||.+.+.
T Consensus 982 sKYek~lqdlqdlfDPSRNMaKYRn~L~sq~~qPPiiPlfPViKKDlTFlHeGNdskvdgLvNFEKLRmIaKeIR~V~rm 1061 (1283)
T KOG3542|consen 982 SKYEKMLQDLQDLFDPSRNMAKYRNHLASQAQQPPIIPLFPVIKKDLTFLHEGNDSKVDGLVNFEKLRMIAKEIRGVMRM 1061 (1283)
T ss_pred HHHHHHHHHHHHhhCchhhHHHHHHHHHhhccCCCccccchheeccceeeecCCchhhhccccHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999975 5799999999999999999999999999999999999999999999999
Q ss_pred hhcCCCCch
Q psy15588 436 RTRHLGRPL 444 (461)
Q Consensus 436 q~~~y~~~~ 444 (461)
-+.+|++..
T Consensus 1062 sSanmdpA~ 1070 (1283)
T KOG3542|consen 1062 SSANMDPAS 1070 (1283)
T ss_pred ccCCCCHHH
Confidence 999998753
No 3
>cd00155 RasGEF Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. Guanine-nucleotide-exchange factors (GEFs) positively regulate these GTP-binding proteins in response to a variety of signals. GEFs catalyze the dissociation of GDP from the inactive GTP-binding proteins. GTP can then bind and induce structural changes that allow interaction with effectors.
Probab=100.00 E-value=1.8e-49 Score=385.05 Aligned_cols=216 Identities=38% Similarity=0.653 Sum_probs=206.5
Q ss_pred cCCCCHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCCCC-CcCccHHHHHHHhHHHHHHHHHHHhccCChhHHHHHHHH
Q psy15588 239 LETFSAKELAFHMTLFDWDLFWSIHEYELVYHTVGRHRFQ-QITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRK 317 (461)
Q Consensus 239 L~~l~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~k~~~~-~~tpnL~~~~~~fN~ls~WV~teIL~~~~~~~Ra~li~k 317 (461)
|+++||.+||+|||++|+++|++|+|.|+++..|++.... ..+|++..++++||.++.||+++|+.++++++|++++++
T Consensus 1 ~l~~d~~eiA~QlTl~~~~lf~~I~~~El~~~~~~~~~~~~~~~p~i~~~~~~~n~ls~wv~~~Il~~~~~~~R~~~i~~ 80 (237)
T cd00155 1 FLSLDPKELAEQLTLLDFELFRKIEPFELLGSLWSKKDKNIHLSPNLERFIERFNNLSNWVASEILLCTNPKKRARLLSK 80 (237)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHCCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence 5689999999999999999999999999999999876544 379999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHHHHHHhhC--CCCccccc
Q psy15588 318 MIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKL--QSPVIPFM 395 (461)
Q Consensus 318 FIkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~YR~~l~~~--~~P~IPfl 395 (461)
||+||.+|+++|||||++||++||++++|.||++||+.++++.++.|++|+.++++++||++||+.+++. ++|||||+
T Consensus 81 ~I~ia~~l~~l~Nfns~~aI~~~L~~~~I~RL~~tw~~l~~~~~~~~~~l~~l~~~~~n~~~yr~~l~~~~~~~p~IP~l 160 (237)
T cd00155 81 FIQVAKHCRELNNFNSLMAIVSALSSSPISRLKKTWEVLSSKLKKLFEELEELVDPSRNFKNYRKLLKSVGPNPPCVPFL 160 (237)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHhCCccchhHHHHHHHCCHHHHHHHHHHHHHhCcHhhHHHHHHHHHhcCCCCCCeeeh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999998 89999999
Q ss_pred cchhhhhhhhhcCCCCCCC-CcccHHHHHHHHHHHHHHHHhhhcCCCCc--hhhhhccccCC
Q psy15588 396 PLLLKDLAFTHDGNKTVVD-GLVNFEKMHMFAQTLRTLRYCRTRHLGRP--LARQRFVVPQE 454 (461)
Q Consensus 396 gl~LkDLtfi~egn~t~~d-gLINf~K~r~ia~~i~~i~~~q~~~y~~~--~~~Q~~l~~~~ 454 (461)
|++++||++++||||++++ |+|||.|+++++++++.+.+||+.||++. +.+|.|+....
T Consensus 161 g~~l~dl~~~~e~~~~~~~~~~iN~~K~~~i~~~i~~~~~~Q~~~Y~~~~~~~iq~~l~~~~ 222 (237)
T cd00155 161 GVYLKDLTFLHEGNPDFLEGNLVNFEKRRKIAEILREIRQLQSNSYELNRDEDILAFLWKLL 222 (237)
T ss_pred hHHHHHHHHHHccCCccCcCCCccHHHHHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHhcc
Confidence 9999999999999999997 99999999999999999999999999987 58888887655
No 4
>smart00147 RasGEF Guanine nucleotide exchange factor for Ras-like small GTPases.
Probab=100.00 E-value=2.6e-49 Score=385.55 Aligned_cols=215 Identities=40% Similarity=0.668 Sum_probs=204.9
Q ss_pred cCCCCHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCCCCCcCc-cHHHHHHHhHHHHHHHHHHHhccCChhHHHHHHHH
Q psy15588 239 LETFSAKELAFHMTLFDWDLFWSIHEYELVYHTVGRHRFQQITA-NLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRK 317 (461)
Q Consensus 239 L~~l~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~k~~~~~~tp-nL~~~~~~fN~ls~WV~teIL~~~~~~~Ra~li~k 317 (461)
+++++|.+||+|||++|+++|++|++.|+++..|++......+| |+..++++||.++.||+++|+.++++++|++++++
T Consensus 1 ~l~~~~~eiA~QlTl~d~~~f~~I~~~El~~~~~~~~~~~~~~p~~i~~~~~~~n~is~wv~~~Il~~~~~~~R~~~i~~ 80 (242)
T smart00147 1 LLLLDPKELAEQLTLLDFELFRKIDPSELLGSVWGKRSKKSPSPLNLERFIERFNEVSNWVATEILKQTTPKDRAELLSK 80 (242)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence 46899999999999999999999999999999998876666677 99999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHHHHHHhhCC-CCcccccc
Q psy15588 318 MIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQ-SPVIPFMP 396 (461)
Q Consensus 318 FIkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~YR~~l~~~~-~P~IPflg 396 (461)
||+||.+|.++|||||++||++||++++|.||+.||+.+++++++.|.+|+.++++++||++||+.++++. +|||||+|
T Consensus 81 fI~ia~~l~~l~Nfns~~aI~~~L~~~~I~RL~~tw~~l~~~~~~~~~~L~~l~s~~~n~~~yR~~l~~~~~~p~IP~lg 160 (242)
T smart00147 81 FIQVAKHCRELNNFNSLMAIVSALSSSPISRLKKTWEKLPSKYKKLFEELEELLSPERNFKNYREALSSCNLPPCVPFLG 160 (242)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHhCChHHhhhHHHHHHCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhcCCCCCccchH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999988 99999999
Q ss_pred chhhhhhhhhcCCCCCC-CCcccHHHHHHHHHHHHHHHHhhhcCCCCc---hhhhhccccC
Q psy15588 397 LLLKDLAFTHDGNKTVV-DGLVNFEKMHMFAQTLRTLRYCRTRHLGRP---LARQRFVVPQ 453 (461)
Q Consensus 397 l~LkDLtfi~egn~t~~-dgLINf~K~r~ia~~i~~i~~~q~~~y~~~---~~~Q~~l~~~ 453 (461)
++|+|++++++|||++. +|+|||.|+++++++|+.+..||+.+|++. +.+|.|+...
T Consensus 161 ~~l~dl~~~~~~~~~~~~~~~iNf~k~~~i~~~i~~~~~~Q~~~y~~~~~~~~iq~~l~~~ 221 (242)
T smart00147 161 VLLKDLTFIDEGNPDFLENGLVNFEKRRKIAEILREIRQLQSQPYNLRPNRSDIQSLLQQL 221 (242)
T ss_pred HHHHHHHHHHccCcccccCCcccHHHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHH
Confidence 99999999999999998 799999999999999999999999999875 4577887764
No 5
>PF00617 RasGEF: RasGEF domain; InterPro: IPR001895 Ras proteins are membrane-associated molecular switches that bind GTP and GDP and slowly hydrolyze GTP to GDP []. The balance between the GTP bound (active) and GDP bound (inactive) states is regulated by the opposite action of proteins activating the GTPase activity and that of proteins which promote the loss of bound GDP and the uptake of fresh GTP [, ]. The latter proteins are known as guanine-nucleotide dissociation stimulators (GDSs) (or also as guanine-nucleotide releasing (or exchange) factors (GRFs)). Proteins that act as GDS can be classified into at least two families, on the basis of sequence similarities, the CDC24 family (see IPR001331 from INTERPRO) and the CDC25 family. The size of the proteins of the CDC25 family range from 309 residues (LTE1) to 1596 residues (sos). The sequence similarity shared by all these proteins is limited to a region of about 250 amino acids generally located in their C-terminal section (currently the only exceptions are sos and ralGDS where this domain makes up the central part of the protein). This domain has been shown, in CDC25 an SCD25, to be essential for the activity of these proteins.; GO: 0005085 guanyl-nucleotide exchange factor activity, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IJE_S 3T6G_A 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=100.00 E-value=3.4e-45 Score=341.50 Aligned_cols=185 Identities=38% Similarity=0.665 Sum_probs=171.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCCCCC-cCccHHHHHHHhHHHHHHHHHHHhccCChhHHHHHHHHH
Q psy15588 240 ETFSAKELAFHMTLFDWDLFWSIHEYELVYHTVGRHRFQQ-ITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKM 318 (461)
Q Consensus 240 ~~l~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~k~~~~~-~tpnL~~~~~~fN~ls~WV~teIL~~~~~~~Ra~li~kF 318 (461)
++++|.+||+|||++|+++|.+|+|.|++...|++.+... .+|++..++++||.++.||+.+||.++++++|++++++|
T Consensus 1 ~~~~~~~iA~qlt~~~~~lf~~I~~~e~~~~~~~~~~~~~~~~~~i~~~~~~~n~ls~wv~~~Il~~~~~~~R~~~i~~~ 80 (188)
T PF00617_consen 1 LDIDPEEIARQLTLLDSELFRKIKPSELLYSVWSKSDKKENQSPNINKLIDRFNKLSNWVISEILSQPDPEERAKIIEKF 80 (188)
T ss_dssp -CS-HHHHHHHHHHHHHHHHHTSSHHHHHGGGGGSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHhcCCCCCCccChhHHHHHHHhhhHHHHHHHHhhccccHHHHHHHHHHH
Confidence 4789999999999999999999999999999998754332 589999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHHHHHHhhCCC-Cccccccc
Q psy15588 319 IKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQS-PVIPFMPL 397 (461)
Q Consensus 319 IkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~YR~~l~~~~~-P~IPflgl 397 (461)
|+||.+|.++|||||++||++||++++|.||++||+.++++.++.+++|+.++++++||++||.+++++++ |||||+|+
T Consensus 81 I~va~~l~~l~Nf~s~~aI~~~L~s~~i~rL~~tw~~l~~~~~~~~~~l~~l~~~~~~~~~yr~~~~~~~~~~~IP~lg~ 160 (188)
T PF00617_consen 81 IQVAKKLYELGNFNSLMAILSALNSSSIQRLKKTWKSLSKKSKKTFEELESLFSPSNNYKNYREALKKCNPQPCIPFLGI 160 (188)
T ss_dssp HHHHHHHHHTTBHHHHHHHHHHHTSHHHHT-HHHHHTSHHHHHHHHHHHHHHTHHHHHHHHHHHHHHTSTSSSSB--HHH
T ss_pred HhHHHHHHHhcCchHHHHHHHHhccccccchhhhhhhhHHHHHHHHHHHHhhcccchhhHHHHHhhcccccCceecccHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999888 99999999
Q ss_pred hhhhhhhhhcCCCCCCCC-cccHHHHHH
Q psy15588 398 LLKDLAFTHDGNKTVVDG-LVNFEKMHM 424 (461)
Q Consensus 398 ~LkDLtfi~egn~t~~dg-LINf~K~r~ 424 (461)
+++|+++++||+|+++++ +|||+|+|+
T Consensus 161 ~l~dl~~~~~~~~~~~~~~liN~~K~r~ 188 (188)
T PF00617_consen 161 FLKDLIFIEEGNPDFIDDGLINFEKCRK 188 (188)
T ss_dssp HHHHHHHHHHHS-SECTTTCEEHHHHHH
T ss_pred HHHHHHHHHhcCCCCCCCccCCcccccC
Confidence 999999999999999976 999999985
No 6
>KOG3629|consensus
Probab=99.96 E-value=2.3e-29 Score=259.25 Aligned_cols=219 Identities=21% Similarity=0.366 Sum_probs=198.3
Q ss_pred CccccCCCCHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCCCC-CcCccHHHHHHHhHHHHHHHHHHHhccC-ChhHHH
Q psy15588 235 MDFDLETFSAKELAFHMTLFDWDLFWSIHEYELVYHTVGRHRFQ-QITANLDVFLRRFNEIQYWVITEILLVT-SLNKRV 312 (461)
Q Consensus 235 ~~~~L~~l~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~k~~~~-~~tpnL~~~~~~fN~ls~WV~teIL~~~-~~~~Ra 312 (461)
..+++..++...||+|||++|.+||.++-|+..++++|++.+.. ..+|.+.+-+..||.++.-|+++||..+ .+..||
T Consensus 207 ~~~dv~~f~~d~iAEQLT~~DA~LFk~l~phqClGcvWs~Rd~~ghl~ptvrATi~QFN~vs~~Vvssilg~~lrp~qRA 286 (728)
T KOG3629|consen 207 KMFDVGKFNCDQIAEQLTFWDAALFKELLPHQCLGCVWSKRDTAGHLVPTVRATIEQFNSVSQRVVSSILGPDLRPEQRA 286 (728)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHHHHHhhhHhcccceeccCCCcccccchHHHHHHHHHHHHHHHHHHhhCCCCCcHHHH
Confidence 35678889999999999999999999999999999999976543 5799999999999999999999999974 678999
Q ss_pred HHHHHHHHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHHHHHHhhC-----
Q psy15588 313 QILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKL----- 387 (461)
Q Consensus 313 ~li~kFIkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~YR~~l~~~----- 387 (461)
++|+|||.||.+|+-++||.|+.||+++|++.+|.||+.+|..+|......|++|.++++-++|+..-|+.+-+.
T Consensus 287 kiieKWI~iA~E~rllknfssl~avvsalqs~pihrlk~aw~~v~rdsls~f~els~ifse~~n~~~sReLL~qeGtsks 366 (728)
T KOG3629|consen 287 KIIEKWIDIARECRLLKNFSSLKAVVSALQSEPIHRLKSAWNSVPRDSISQFRELSSIFSEDGNQGNSRELLIQEGTSKS 366 (728)
T ss_pred HHHHHHHHHHHHHHHHhhhccceeeeccccccHHHHHHhhhccCchhHHHHHHHHHhhcccccCCcchhHHHHHhccccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999887431
Q ss_pred ------------------CCCccccccchhhhhhhhhcCCCCCC-CCcccHHHHHHHHHHHHHHHHhhhc--CCCCch--
Q psy15588 388 ------------------QSPVIPFMPLLLKDLAFTHDGNKTVV-DGLVNFEKMHMFAQTLRTLRYCRTR--HLGRPL-- 444 (461)
Q Consensus 388 ------------------~~P~IPflgl~LkDLtfi~egn~t~~-dgLINf~K~r~ia~~i~~i~~~q~~--~y~~~~-- 444 (461)
....|||+|.||+||+.+++..+++. +|+|||+|.|+-.+++..++.+|+. .|++.|
T Consensus 367 spLe~s~k~a~~r~qr~~~qGtVPyLGtFLtDLvMlDtA~~d~~e~glINFeKRRkEFeVla~lrllQsaar~Ynl~pd~ 446 (728)
T KOG3629|consen 367 SPLEASPKRAHARWQRQDKQGTVPYLGTFLTDLVMLDTAMNDYPEEGLINFEKRRKEFEVLAKLRLLQSAARHYNLHPDE 446 (728)
T ss_pred CCCCcchhhhhhhhhhccCCcccchHHHHHHHHHHHhhcccCCcccccchHhhhhHHHHHHHHHHHHHHHhhccCCCchH
Confidence 13479999999999999999998888 6999999999999999999999884 677654
Q ss_pred hhhhccccC
Q psy15588 445 ARQRFVVPQ 453 (461)
Q Consensus 445 ~~Q~~l~~~ 453 (461)
.++.||.-+
T Consensus 447 ~f~aWf~~l 455 (728)
T KOG3629|consen 447 EFGAWFQVL 455 (728)
T ss_pred HHHHHHHhc
Confidence 777777543
No 7
>KOG3541|consensus
Probab=99.95 E-value=1.4e-27 Score=240.27 Aligned_cols=209 Identities=26% Similarity=0.346 Sum_probs=183.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCC-------------CCCcCccHHHHHHHhHHHHHHHHHHHhccC
Q psy15588 240 ETFSAKELAFHMTLFDWDLFWSIHEYELVYHTVGRHR-------------FQQITANLDVFLRRFNEIQYWVITEILLVT 306 (461)
Q Consensus 240 ~~l~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~k~~-------------~~~~tpnL~~~~~~fN~ls~WV~teIL~~~ 306 (461)
...++.++|+|||.++..-+..|.+.|++..+-+... .-...-.+++++++||+++..+++|||...
T Consensus 206 ~c~dal~laqqlt~Ie~~rls~i~~EelvqiL~sdp~sei~~~~~~~l~~k~~~~ysie~y~~wfn~Lsa~~Atevlk~~ 285 (477)
T KOG3541|consen 206 KCVDALDLAQQLTHIESCRLSLIPHEELVQILDSDPESEILESLVGLLAMKFPYDYSIERYMSWFNHLSALCATEVLKAA 285 (477)
T ss_pred ccccHHHHHHHHHHHHHHHHhccCHHHHHHHHhcCcHHHHHHHhhhhhhccCcccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999999998865432210 001234699999999999999999999998
Q ss_pred ChhHHHHHHHHHHHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHHHHHHhh
Q psy15588 307 SLNKRVQILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSK 386 (461)
Q Consensus 307 ~~~~Ra~li~kFIkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~YR~~l~~ 386 (461)
.-+.|++++++||++|.+|.++|||||+|||+.|++-++|.||++||.++. ...|+.|+.=+||+.||-+||.+++.
T Consensus 286 kk~~rsamlef~iD~arec~nignfnSmmai~~~lnL~avarlkktw~kv~---taK~e~lehqmdps~nflsyr~t~Ka 362 (477)
T KOG3541|consen 286 KKQTRSAMLEFLIDLARECFNIGNFNSMMAIGPGLNLNAVARLKKTWIKVR---TAKFEALEHQMDPSSNFLSYRLTDKA 362 (477)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccchhhhhhccCCCCchHHHHHHHHHHHH---HHHHHHHHhcCCchhhhHHHHHHHHH
Confidence 889999999999999999999999999999999999999999999999984 35688899999999999999999864
Q ss_pred C---------CC--CccccccchhhhhhhhhcCCCCCC-CCcccHHHHHHHHHHHHHHHHhhhc--CCCCchhhhhccc
Q psy15588 387 L---------QS--PVIPFMPLLLKDLAFTHDGNKTVV-DGLVNFEKMHMFAQTLRTLRYCRTR--HLGRPLARQRFVV 451 (461)
Q Consensus 387 ~---------~~--P~IPflgl~LkDLtfi~egn~t~~-dgLINf~K~r~ia~~i~~i~~~q~~--~y~~~~~~Q~~l~ 451 (461)
. .+ -.|||+.++|||+-+++++.+.+. ||.|||.|+..|+.-+|++...+.. ||...+.++.|+-
T Consensus 363 a~wrs~sang~~ekaviPff~l~Lkdl~~i~~~h~~~l~Nghinf~k~~~i~~qlr~v~~W~~v~c~fek~p~v~syll 441 (477)
T KOG3541|consen 363 AKWRSPSANGAPEKAVIPFFTLFLKDLLDISARHRLFLPNGHINFLKFVGIEGQLRTVELWSGVACPFEKVPNVNSYLL 441 (477)
T ss_pred HhhcCccccCCCccccccchhhhHHHHHHHHhhhcccCCCchhHHHHHHhHHhhhhhhhhhhcccchHhhCchHHhHHh
Confidence 2 22 369999999999999999999987 8999999999999999999999875 7777888887764
No 8
>KOG3417|consensus
Probab=99.85 E-value=1.4e-21 Score=221.04 Aligned_cols=206 Identities=26% Similarity=0.393 Sum_probs=193.7
Q ss_pred CccccCCCCHHHHHHHHHH-HHHHHHhcCChhhhhhhhccCCCCCCcCccHHHHHHHhHHHHHHHHHHHhccCChhHHHH
Q psy15588 235 MDFDLETFSAKELAFHMTL-FDWDLFWSIHEYELVYHTVGRHRFQQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQ 313 (461)
Q Consensus 235 ~~~~L~~l~~~elA~QLTl-~d~~LF~~I~~~Ell~~~~~k~~~~~~tpnL~~~~~~fN~ls~WV~teIL~~~~~~~Ra~ 313 (461)
..+.+...++.++|+|+|. +|...|+.|.+.|++...|.+......+||+..++.++|.++.||..+|+..+.++.|+.
T Consensus 207 ~~f~~~~~~~~e~~~~lt~lle~~~~~~iq~~e~~~~~~~~~~~~~~~P~~~~~~~~~~~~s~wv~~~il~~e~l~~r~~ 286 (840)
T KOG3417|consen 207 RIFDFLRLTPRELSEQLTSLLESPDFRKIQPFELLSQSWLKKDKKINSPNIESSTSRFNHLSSWVEQEILNAEQLEERAE 286 (840)
T ss_pred eeeeccccchhhhccccccccccccccccCHHHHHHhhhhhcccccCCCchhhhhhcccchHHHHHHHHhccccHHHHHH
Confidence 3578899999999999996 999999999999999999988876678999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHHHHHHhhCCC-Ccc
Q psy15588 314 ILRKMIKLAAYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQS-PVI 392 (461)
Q Consensus 314 li~kFIkIA~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~YR~~l~~~~~-P~I 392 (461)
++.+||++|.+..+++|||+++++++|+++++++||++||..++.+.++.+..+..++...+|++.||..+..+.. |||
T Consensus 287 ~~~~~L~~a~~~~el~n~~~~~~~v~~~~~s~i~~L~~t~~~l~~~~~~~~~~~~~~~~~~~~~~~yr~~l~~~~~~~~i 366 (840)
T KOG3417|consen 287 VILHFLEVAAKLSELNNLNSLMEVVSGLQSSPISRLKKTGSYLSSEIKKKLILLTELTSLLDNVQNYRRYLQSCNISPCI 366 (840)
T ss_pred hhHHHHHHhhhhhhccccccHHHHHhccccchhhhhhhhhccccccchhhhhhHHHHhhcchHHHHHHHHhhhcccCccc
Confidence 9999999999999999999999999999999999999999999997777777888887777799999999999998 999
Q ss_pred ccccchhhh-hhhhhcCCCCCCC--C--cccHHHHHHHHHHHHHHHHhhhcCC
Q psy15588 393 PFMPLLLKD-LAFTHDGNKTVVD--G--LVNFEKMHMFAQTLRTLRYCRTRHL 440 (461)
Q Consensus 393 Pflgl~LkD-Ltfi~egn~t~~d--g--LINf~K~r~ia~~i~~i~~~q~~~y 440 (461)
|++|+++.| +..+++++|++.. | .++|.|+..++++++.+..+++..+
T Consensus 367 p~~~~~l~d~~~~l~~~~p~~~~~~~~~e~~~~~~~~~~~i~~elq~l~~~~~ 419 (840)
T KOG3417|consen 367 PILGVYLLDSLVKLNEALPTKLLRIGERELSFSKLKVLLEIISELQDLQNKEL 419 (840)
T ss_pred cccccccHHHHHhhhhcCCccccccccccccchhhhHHHHHHHHHHHHhcccc
Confidence 999999999 9999999999874 4 8999999999999999999998775
No 9
>cd01785 PDZ_GEF_RA Ubiquitin-like domain of PDZ_GEF_RA. PDZ_GEF_RA PDZ-GEF is a guanine nucleotide exchange factor (GEF) characterised by the presence of a PSD-95/DlgA/ZO-1 (PDZ) domain, a Ras-association (RA) domain and a region related to a cyclic nucleotide binding domain (RCBD). RA-GEF exchanges nucleotides of both Rap1 and Rap2, but is also thought to mediate cAMP-induced Ras activation. The RA domain interacts with Rap1 and also contributes to the membrane localization of RA-GEF. This domain may function in a positive feedback loop.
Probab=99.77 E-value=4.2e-19 Score=141.12 Aligned_cols=81 Identities=25% Similarity=0.338 Sum_probs=75.7
Q ss_pred CcEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcce----ecCCCCC
Q psy15588 124 PIIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERV----VFRDNDL 199 (461)
Q Consensus 124 ~~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~----~~~~~~~ 199 (461)
||+++|||++|||++|+.+.++|||+|||+.|.+ +||+.+.+++++||||+++.+++ +++++..
T Consensus 1 pd~VlkvykaDQt~kyili~K~Tta~evv~lal~------------eFgi~~~s~~~sLceVtV~~~g~IKQrRLPdql~ 68 (85)
T cd01785 1 PDHVLKVYKADQTCKYLLIYKETTAHEVVMLALQ------------EFGITAPSSNFSLCEVSVTPGGVIKQRRLPDQLQ 68 (85)
T ss_pred CcceEEEEecCcceeEEEEeccccHHHHHHHHHH------------HhCCCCCccceEEEEEEecCCceeeeccCCHHHH
Confidence 6899999999999999999999999999999999 99999999999999999987764 5789999
Q ss_pred CcccccccCcccccccC
Q psy15588 200 SIPTALSLNGRIFVSPK 216 (461)
Q Consensus 200 ~~~~~l~ln~r~~~~~~ 216 (461)
+++.+|++|||||++++
T Consensus 69 ~La~RI~Ln~RYYLKnN 85 (85)
T cd01785 69 NLAERIQLSSRYYLKNN 85 (85)
T ss_pred HHHHhhcccceEEeccC
Confidence 99999999999999864
No 10
>KOG3417|consensus
Probab=99.58 E-value=7.2e-15 Score=166.77 Aligned_cols=194 Identities=23% Similarity=0.380 Sum_probs=161.6
Q ss_pred CHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCCCCCcCccHHHHHHHhHHHHHHHHHHHhccCChhHHHHHHHHHHHHH
Q psy15588 243 SAKELAFHMTLFDWDLFWSIHEYELVYHTVGRHRFQQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLA 322 (461)
Q Consensus 243 ~~~elA~QLTl~d~~LF~~I~~~Ell~~~~~k~~~~~~tpnL~~~~~~fN~ls~WV~teIL~~~~~~~Ra~li~kFIkIA 322 (461)
.+.+++.++|+++..++..+...+... |.+.+.....++...+...++..++|+.+.|........| ||.++
T Consensus 609 ~~~~~~~~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~s------~~~~~ 680 (840)
T KOG3417|consen 609 KSAEIACQLTLLDAILTMEICIPRSLL--WAKVQNEEKSKKDLAFTETFNLVSFWSSTIILTQQPAKRS------FIHVA 680 (840)
T ss_pred hHHHHHhhhhhhhhHhhhchhhhhHHH--HhhhhhcccccchHHHHHHHhhhhhhhHHhhhccccccch------hHHHH
Confidence 677889999999999888887766553 4444444567888999999999999999999988777777 99999
Q ss_pred HHHHhcCCchhHHHHHhcccccccccchHhhccCChhhHHHHHHHHhccCCCCcHHHHHHH-HhhCCCCccccccchhhh
Q psy15588 323 AYCKEYRNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQA-VSKLQSPVIPFMPLLLKD 401 (461)
Q Consensus 323 ~~c~~l~Nfns~~AI~~gL~~~aV~RL~~TWe~l~~k~kk~~~~L~~L~d~s~N~~~YR~~-l~~~~~P~IPflgl~LkD 401 (461)
.+|+.++||.++++|.++|.++++.|+..+|....++....+..+..++...+|+..||.+ .+...+||+||+|++|+|
T Consensus 681 ~~~~~~~~~~~l~~~~s~l~s~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~cvP~~~~~l~d 760 (840)
T KOG3417|consen 681 KFCKIMKNFRTLMNINSALASSPIHRSTPLWRLEWPKDIREFSALSPLVIDKSNSSTYRRALLSVPEPPCVPFLGVILQD 760 (840)
T ss_pred hhhhhhCchhhhhHHHHHhccchhhhcchhhcccchhhHHHhhccccchhcccccHHHHHHHhcCCCCCCcCceeEEeec
Confidence 9999999999999999999999999999999999999988888888877666666555555 556889999999999999
Q ss_pred hhhhhcCCCCCCCCc---ccHHHHHHHHHHHHHHHHhhhcCCCCch
Q psy15588 402 LAFTHDGNKTVVDGL---VNFEKMHMFAQTLRTLRYCRTRHLGRPL 444 (461)
Q Consensus 402 Ltfi~egn~t~~dgL---INf~K~r~ia~~i~~i~~~q~~~y~~~~ 444 (461)
+||+|+|||++.++. +||.|+..+..+++.+..++...|..++
T Consensus 761 ltf~~~gnpd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 (840)
T KOG3417|consen 761 LTFVHTGNPDYLDSVVNHGKFDKRTNIKDIVQEVQKFQYVGYKVNP 806 (840)
T ss_pred ceeecCCCCCccccccchhHHHHHHHHHHHHHHHHHhcccccccCc
Confidence 999999999998865 5566666777788888888776555543
No 11
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=98.50 E-value=5e-07 Score=75.05 Aligned_cols=79 Identities=29% Similarity=0.421 Sum_probs=63.1
Q ss_pred cEEEEEeecC---CCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcceecCCCCCCc
Q psy15588 125 IIIFRVYCAD---HTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERVVFRDNDLSI 201 (461)
Q Consensus 125 ~~~~~vy~~d---~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~~~~~~~~~~ 201 (461)
..++|||..| .+|+++.++.++||++|+..+++ |+++.+.+++|+|+++...|..+.+.+++..+
T Consensus 2 ~~~lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~------------k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl 69 (90)
T smart00314 2 TFVLRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLE------------KFHLTDDPEEYVLVEVLPDGKERVLPDDENPL 69 (90)
T ss_pred ceEEEEecccCCCCcEEEEEECCCCCHHHHHHHHHH------------HhCCCCCcccEEEEEEeCCcEEEEeCCCCcce
Confidence 4589999999 99999999999999999999999 99997778999999997667677777777665
Q ss_pred cccc-----ccCccccccc
Q psy15588 202 PTAL-----SLNGRIFVSP 215 (461)
Q Consensus 202 ~~~l-----~ln~r~~~~~ 215 (461)
.-.. +.+.|+++..
T Consensus 70 ~~~~~~~~~~~~~~f~lr~ 88 (90)
T smart00314 70 QLQKLWPRRGPNLRFVLRK 88 (90)
T ss_pred EehhhCCCCCCcEEEEEEe
Confidence 3322 2345555544
No 12
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=98.43 E-value=4.6e-07 Score=74.89 Aligned_cols=81 Identities=33% Similarity=0.486 Sum_probs=64.6
Q ss_pred CcEEEEEeecCCC----eeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEe-eecCcceecCCCC
Q psy15588 124 PIIIFRVYCADHT----FCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEV-KSTGERVVFRDND 198 (461)
Q Consensus 124 ~~~~~~vy~~d~~----~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v-~~~~e~~~~~~~~ 198 (461)
|..++|||..|.+ |+++.++.++||+||+..+++ |+|+...+++|+|+++ ...|..+.+.+++
T Consensus 1 ~~~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~------------k~~l~~~~~~y~L~~~~~~~~~er~L~~~E 68 (93)
T PF00788_consen 1 DSGVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALE------------KFGLAEDPSDYCLVEVEESGGEERPLDDDE 68 (93)
T ss_dssp CEEEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHH------------HTTTSSSGGGEEEEEEECTTTEEEEETTTS
T ss_pred CCeEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHH------------HhCCCCCCCCEEEEEEEcCCCEEEEcCCCC
Confidence 4578999999999 999999999999999999999 9999778899999855 4456667888888
Q ss_pred CCccccccc-----CcccccccC
Q psy15588 199 LSIPTALSL-----NGRIFVSPK 216 (461)
Q Consensus 199 ~~~~~~l~l-----n~r~~~~~~ 216 (461)
..+.-.... +.|++++.+
T Consensus 69 ~pl~i~~~~~~~~~~~~f~lr~~ 91 (93)
T PF00788_consen 69 CPLQIQLQWPKDSQNSRFVLRRK 91 (93)
T ss_dssp BHHHHHHTTSSGTTTEEEEEEEC
T ss_pred chHHHHHhCccccCceEEEEEEc
Confidence 776444333 455555544
No 13
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=98.28 E-value=2.5e-06 Score=70.35 Aligned_cols=63 Identities=32% Similarity=0.474 Sum_probs=54.9
Q ss_pred EEEEeecC---CCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeec-CcceecCCCCCCc
Q psy15588 127 IFRVYCAD---HTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKST-GERVVFRDNDLSI 201 (461)
Q Consensus 127 ~~~vy~~d---~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~-~e~~~~~~~~~~~ 201 (461)
++|||..| .+|++++++.++|+++|+..+++ |+++..++++|+|++|..+ ++...+.|++..+
T Consensus 1 ~ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~------------k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~pl 67 (87)
T cd01768 1 VLRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLK------------KFGLDDDPEDYALVEVLGDGGLERLLLPDECPL 67 (87)
T ss_pred CEEEeCCcCCCccEEEEEECCCCCHHHHHHHHHH------------HhCCcCCcccEEEEEEECCceEEEEeCCCCChH
Confidence 47899999 99999999999999999999999 9999778899999999765 4566777777664
No 14
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=98.21 E-value=2.3e-06 Score=74.31 Aligned_cols=92 Identities=13% Similarity=0.184 Sum_probs=73.9
Q ss_pred hhhhh-hhhhHhHH---Hhhhhh--cCcccCCCCC--CCCchhhhhhhhhhHHHHHHHHHHhhhcccccChhhhhHHHHH
Q psy15588 2 DFVRD-ATYHIVVL---KLCSAK--SFQCTFHMDS--SNHDKDFILSCKRSVVQFVFRWVSVIRHVVFDDTGTMNFIQDL 73 (461)
Q Consensus 2 ~~~~~-~lth~vfm---~lc~~l--~y~~~~~~~~--~~e~~~~~l~~KrrVl~lv~~W~~~~~~~~~~d~~~~~fl~~l 73 (461)
.|+.+ ++||..|| +|+..| .|...++.+. .+...+.....|+||+.++.+|+..|...++.|+.....|+++
T Consensus 19 ~f~~~FllTyrsF~s~~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~Wv~~~~~df~~d~~l~~~l~~F 98 (122)
T cd06224 19 SFVSTFLLTYRSFTTPTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVENYPYDFFDDEELLELLEEF 98 (122)
T ss_pred HHHHHHHHHhhhhCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHHH
Confidence 58888 99999999 999999 7776665442 2233355667799999999999999999999999999999999
Q ss_pred HHHHhhcchhhhhhhHHHHH
Q psy15588 74 ASEVESDSTMWSGLTEEASL 93 (461)
Q Consensus 74 ~~~v~~d~~~~~~l~~~~~~ 93 (461)
...+..+....+.+++.+..
T Consensus 99 ~~~~~~~~~~~~~~~~~l~~ 118 (122)
T cd06224 99 LNRLVQEGALLQELKKLLRK 118 (122)
T ss_pred HHHHcccHHHHHHHHHHHHH
Confidence 99999887566665555443
No 15
>smart00229 RasGEFN Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif. A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this domain N-terminal to the RasGef (Cdc25-like) domain. The recent crystal structureof Sos shows that this domain is alpha-helical and plays a "purely structural role" (Nature 394, 337-343).
Probab=98.20 E-value=2.2e-06 Score=75.36 Aligned_cols=78 Identities=15% Similarity=0.104 Sum_probs=63.4
Q ss_pred hhhhh-hhhhHhHH---Hhhhhh--cCcccCCCCCCCCchhhhhhhhhhHHHHHHHHHHhhhcccccChhhhhHHHHHHH
Q psy15588 2 DFVRD-ATYHIVVL---KLCSAK--SFQCTFHMDSSNHDKDFILSCKRSVVQFVFRWVSVIRHVVFDDTGTMNFIQDLAS 75 (461)
Q Consensus 2 ~~~~~-~lth~vfm---~lc~~l--~y~~~~~~~~~~e~~~~~l~~KrrVl~lv~~W~~~~~~~~~~d~~~~~fl~~l~~ 75 (461)
.|+++ +|||..|+ +|+..| .|...++.. ..++.......|.||+.++.+|+..|...|.+||....+|++++.
T Consensus 27 ~f~~~Flltyr~F~tp~~ll~~L~~rf~~~~~~~-~~~~~~~~~~~~~rv~~~l~~Wv~~~~~dF~~~~~l~~~l~~f~~ 105 (127)
T smart00229 27 FFVETFLLTYRSFITTQELLQLLLYRYNAIPPES-WVERKVNPLRVKNRVLNILRHWVENYWQDFEDDPKLILRLLEFLD 105 (127)
T ss_pred HHHHHHHHHhhhhCCHHHHHHHHHHHhCCCCcHH-HHHHHhhHHHHHHHHHHHHHHHHHHCCcccccCHHHHHHHHHHHH
Confidence 48888 99999999 999999 666555431 112334445678999999999999999988888899999999999
Q ss_pred HHhhc
Q psy15588 76 EVESD 80 (461)
Q Consensus 76 ~v~~d 80 (461)
.+..+
T Consensus 106 ~~~~~ 110 (127)
T smart00229 106 LVDQE 110 (127)
T ss_pred HHhhC
Confidence 88777
No 16
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=97.65 E-value=2.3e-05 Score=66.51 Aligned_cols=72 Identities=14% Similarity=0.145 Sum_probs=51.7
Q ss_pred hhhhh-hhhhHhHH---Hhhhhh--cCcccCCCCCCCC---chhhhhhhhhhHHHHHHHHHHhhhcccccChhhhhHHHH
Q psy15588 2 DFVRD-ATYHIVVL---KLCSAK--SFQCTFHMDSSNH---DKDFILSCKRSVVQFVFRWVSVIRHVVFDDTGTMNFIQD 72 (461)
Q Consensus 2 ~~~~~-~lth~vfm---~lc~~l--~y~~~~~~~~~~e---~~~~~l~~KrrVl~lv~~W~~~~~~~~~~d~~~~~fl~~ 72 (461)
.|+++ +|||..|+ +|+..| .|+..+..|.+.+ ..+-.-..|.||+.++..|+..|..-+.+||.....|++
T Consensus 24 ~f~~~FllTyr~F~tp~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~Wi~~~~~df~~~~~l~~~l~~ 103 (104)
T PF00618_consen 24 EFVDTFLLTYRSFTTPEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYWIENYPDDFRDDPELLEKLKQ 103 (104)
T ss_dssp HHHHHHHHHHHHCS-HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHHHHHHCCCCHH-HHHHHHHHH
T ss_pred HHHHHHHHHhHhhCCHHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHHHHHChHhhCCCHHHHHHHHc
Confidence 58889 99999999 999999 7865555443222 222334467799999999999999999999986666655
Q ss_pred H
Q psy15588 73 L 73 (461)
Q Consensus 73 l 73 (461)
+
T Consensus 104 F 104 (104)
T PF00618_consen 104 F 104 (104)
T ss_dssp H
T ss_pred C
Confidence 3
No 17
>cd01781 AF6_RA_repeat2 Ubiquitin domain of AT-6, second repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=97.20 E-value=0.0011 Score=56.39 Aligned_cols=50 Identities=34% Similarity=0.533 Sum_probs=43.3
Q ss_pred EEEEee----cCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCC-CCCeEEEEeeec
Q psy15588 127 IFRVYC----ADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVS-PSDLLLVEVKST 188 (461)
Q Consensus 127 ~~~vy~----~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Lv~v~~~ 188 (461)
++|||- +.-.|++|.+..++||++||..|.+ |+|+... +++|+||+|...
T Consensus 3 ~LKIYg~~L~~~~~YKSIlvt~~~~a~~vV~eALe------------KygL~~e~p~~Y~LveV~~~ 57 (100)
T cd01781 3 TLKIYGGSLVPTRPYKTILLSINDNADRIVGEALE------------KYGLEKSDPDDYCLVEVSND 57 (100)
T ss_pred eEEEcCCcccCCCCeEEEEecCCccHHHHHHHHHH------------HhCCCccCccceEEEEEecc
Confidence 466763 6778999999999999999999999 9999665 789999999755
No 18
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=97.00 E-value=0.0026 Score=53.94 Aligned_cols=64 Identities=16% Similarity=0.274 Sum_probs=49.7
Q ss_pred EEEEEee----cCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcC-CCCCeEEEEeeecC--cceecCCCC
Q psy15588 126 IIFRVYC----ADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLV-SPSDLLLVEVKSTG--ERVVFRDND 198 (461)
Q Consensus 126 ~~~~vy~----~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Lv~v~~~~--e~~~~~~~~ 198 (461)
-.+|||- ..-.|+++.+.++||+++||..|.+ +||+.+ .++++.|+||.-+. -.+++.+++
T Consensus 3 g~iKVY~G~L~~~~~y~sv~V~~~tt~~dvv~eaL~------------kfGl~~~~~~~y~LvEV~ld~gv~ER~l~~~E 70 (97)
T cd01783 3 EVVKVYPGWLRVGVAYVSIRVNKDTTVQDVILEVLP------------LFGLQAECPESFRLIEVLLDRGVVERTVLPQE 70 (97)
T ss_pred ceEEEecCccccCcceEEEEecccchHHHHHHHHHH------------HhCcccCCccccEEEEEEecCCeeeeeCCCcc
Confidence 3577775 4677999999999999999999999 999965 56899999996432 235566666
Q ss_pred CCc
Q psy15588 199 LSI 201 (461)
Q Consensus 199 ~~~ 201 (461)
..+
T Consensus 71 ~Pl 73 (97)
T cd01783 71 KPL 73 (97)
T ss_pred ChH
Confidence 554
No 19
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=96.99 E-value=0.0029 Score=53.45 Aligned_cols=62 Identities=27% Similarity=0.357 Sum_probs=46.9
Q ss_pred EEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcceecCCCCCCc
Q psy15588 126 IIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERVVFRDNDLSI 201 (461)
Q Consensus 126 ~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~~~~~~~~~~ 201 (461)
..+|||++|.||.|+..|.++|+.|++..+.. |+.+... +++.|+= ...|-..++.|.+..+
T Consensus 3 y~IRIFr~D~Tf~Tls~~l~tTv~eli~~L~r------------K~~l~~~-~ny~l~l-~~~~l~RvL~p~ErPl 64 (97)
T cd01775 3 YCIRVFRSDGTFTTLSCPLNTTVSELIPQLAK------------KFYLPSG-GNYQLSL-KKHDLSRVLRPTEKPL 64 (97)
T ss_pred eEEEEEecCCcEEEEEcCCcCcHHHHHHHHHH------------hhcCCCC-CCeEEEE-EECCeeeecCCcCCcH
Confidence 57899999999999999999999999999999 8876443 5666533 2344455565655543
No 20
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=96.83 E-value=0.0043 Score=51.33 Aligned_cols=62 Identities=23% Similarity=0.218 Sum_probs=50.1
Q ss_pred cEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeec-CcceecCCCCC
Q psy15588 125 IIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKST-GERVVFRDNDL 199 (461)
Q Consensus 125 ~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~-~e~~~~~~~~~ 199 (461)
+.++|||..|-|.++|.+...+||++|.+.+++ |.+. ....+++|||.... +-.+.+.+.+.
T Consensus 2 k~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~------------K~h~-~~~~~W~LvE~~P~l~lER~~EDHE~ 64 (85)
T cd01787 2 KQVVKVYSEDGASKSLEVDERMTARDVCQLLVD------------KNHC-QDDSSWTLVEHLPHLQLERLFEDHEL 64 (85)
T ss_pred ceEEEEEecCCCeeEEEEcCCCcHHHHHHHHHH------------HhCC-CCCCCeEEEEecchhhhhhhccchHH
Confidence 579999999999999999999999999999999 8865 56789999998654 22344444443
No 21
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=96.72 E-value=0.0049 Score=51.00 Aligned_cols=65 Identities=17% Similarity=0.262 Sum_probs=58.4
Q ss_pred EeecC-CCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcceecCCCCCCcccccc
Q psy15588 130 VYCAD-HTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERVVFRDNDLSIPTALS 206 (461)
Q Consensus 130 vy~~d-~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~~~~~~~~~~~~~l~ 206 (461)
+|-|- .|-..++|.-.+|++||+++.++ ||.+..++.+++|-+|..+||++.+++.|..+-.++-
T Consensus 6 ~f~P~~gs~~~v~VsS~~tt~eVI~~LL~------------KFkv~~~p~~FALy~vh~~Ge~rkL~d~E~PL~~Rll 71 (87)
T cd01784 6 VFTPAYGSVTNVRINSTMTTPQVLKLLLN------------KFKIENSAEEFALYIVHTSGEKRKLKATDYPLIARVL 71 (87)
T ss_pred EeCCCCCceeEEEEecCCCHHHHHHHHHH------------hccccCCHHHeEEEEEeeCCCEEECCCcCCCeehhhh
Confidence 67777 78899999999999999999999 9988888899999999999999999999998866664
No 22
>cd01779 Myosin_IXb_RA ubitquitin-like domain of Myosin_IXb_RA. Myosin_IXb_RA RasGTP binding domain from guanine nucleotide exchange factors. In some proteins the domain acts as a RasGTP effector (AF6, canoe and RalGDS, for example), but in other cases it may not bind to RasGTP at all.
Probab=96.66 E-value=0.0086 Score=50.26 Aligned_cols=67 Identities=21% Similarity=0.297 Sum_probs=55.7
Q ss_pred CCCcEEEEEee----cCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeec-CcceecCC
Q psy15588 122 GQPIIIFRVYC----ADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKST-GERVVFRD 196 (461)
Q Consensus 122 ~~~~~~~~vy~----~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~-~e~~~~~~ 196 (461)
++.+..++||- --.+|+-+.+.+++||.+|+..++. .+|+ ....-|+|+||+.+ ||..++.|
T Consensus 7 ~~~~~~l~IyP~~~a~~~~~C~v~a~k~sTAa~VI~~~i~------------~L~L-d~tk~YvLaEVkEsGgEEwvL~p 73 (105)
T cd01779 7 EDAEYHLHIYPQLIAESTISCRVTATKDSTAADVIDDVIA------------SLQL-DGTKCYVLAEVKESGGEEWVLDP 73 (105)
T ss_pred ccccEEEEEccCCCCCCceEeEeEeccCCcHHHHHHHHHH------------HhCc-CccccEEEEEeeccCCeeeecCc
Confidence 45567778885 2566999999999999999999999 9988 44578999999866 78899999
Q ss_pred CCCCc
Q psy15588 197 NDLSI 201 (461)
Q Consensus 197 ~~~~~ 201 (461)
.|..+
T Consensus 74 ~D~pv 78 (105)
T cd01779 74 TDSPV 78 (105)
T ss_pred ccCce
Confidence 98866
No 23
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=95.31 E-value=0.057 Score=50.54 Aligned_cols=54 Identities=20% Similarity=0.226 Sum_probs=47.9
Q ss_pred cEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcc
Q psy15588 125 IIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGER 191 (461)
Q Consensus 125 ~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~ 191 (461)
.+.++||.+|.+.+++.+..++||+||+..+++ ++|+ ...+.++|..+...++.
T Consensus 3 ~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~------------~~~l-~~~~~F~L~~~~~~~~~ 56 (207)
T smart00295 3 PRVLKVYLLDGTTLEFEVDSSTTAEELLETVCR------------KLGI-RESEYFGLQFEDPDEDL 56 (207)
T ss_pred cEEEEEEecCCCEEEEEECCCCCHHHHHHHHHH------------HhCC-CccceeEEEEEcCCCCc
Confidence 568999999999999999999999999999999 9999 55789999998765443
No 24
>cd01780 PLC_epsilon_RA Ubiquitin-like domain of Phosphatidylinositide-specific phospholipase. PLC_epsilon_RA Phosphatidylinositide-specific phospholipase C (PLC) is a signaling enzyme that hydrolyzes membrane phospholipids to generate inositol triphosphate. PLC-epsilon represents a novel forth class of PLC that has a PLC catalytic core domain, a CDC25 guanine nucleotide exchange factor domain and two RA (Ras-association) domains of which the second is critical for Ras activation of the enzyme.
Probab=94.66 E-value=0.088 Score=44.12 Aligned_cols=48 Identities=29% Similarity=0.335 Sum_probs=39.7
Q ss_pred EEEEee--cCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcC-cCCCCCeEEEEee
Q psy15588 127 IFRVYC--ADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGL-LVSPSDLLLVEVK 186 (461)
Q Consensus 127 ~~~vy~--~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Lv~v~ 186 (461)
++-||. +|++|..++++...||++|++.|.. |.+- ...+++++|+|=.
T Consensus 2 ~v~V~~vs~dqP~~il~a~~~STa~Dvi~Qal~------------KA~rs~~~~~~fVLvEEv 52 (93)
T cd01780 2 LVCVHNVSPDQPYAILRAPRVSTAQDVIQQTLC------------KARRSNPNPSDFVLVEEV 52 (93)
T ss_pred EEEEecCCCCCCeeEEEccccccHHHHHHHHHH------------HhccCCCCccceEEEEEe
Confidence 455777 7999999999999999999999999 7764 2356789998753
No 25
>cd01778 RASSF1_RA Ubiquitin-like domain of RASSF1 tumour supproessor protein. RASSF1 (also known as RASSF3 and NORE1) is a tumour suppressor protein with a C-terminal Ras-associating (RA) domain that binds Ras. RASSF1 also binds the proapoptotic protein kinase MST1 and is thus thought to regulate the proapoptotic signalling pathway. RASSF1 also associates with microtubule-associated proteins like MAP1B and regulates tubulin polymerization. RASSF1 also binds CDC20 and regulates mitosis by inhibiting the anaphase-promoting complex and preventing degradation of cyclin A and cyclin B until the spindle checkpoint becomes fully operational.
Probab=94.08 E-value=0.18 Score=42.79 Aligned_cols=68 Identities=16% Similarity=0.176 Sum_probs=56.4
Q ss_pred EEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEe-eecCcc--eecCCCCCCccc
Q psy15588 127 IFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEV-KSTGER--VVFRDNDLSIPT 203 (461)
Q Consensus 127 ~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v-~~~~e~--~~~~~~~~~~~~ 203 (461)
-.-.|.|-+|-+-++|.-.+|++||+.+.++ ||.+...+.+++|-++ -.+|++ +.+++.+..+--
T Consensus 8 ~~sf~lp~~s~k~v~IsS~tTt~eVI~~LL~------------KF~v~~nP~kFALYe~~h~~ge~~~rkL~d~E~PL~~ 75 (96)
T cd01778 8 STSLPLPKDTAKHLHISSKTTVREVIEALLK------------KFLVVDNPRKFALFEREHRTGQVYLRKLSDDECPLYL 75 (96)
T ss_pred EEEEeccCCceeEEEEecCCcHHHHHHHHHH------------hheeccCCcceEEEEEEecCCcEEEEECCCCCCCeEe
Confidence 3456778899999999999999999999999 9998888899999875 555776 778888887755
Q ss_pred ccc
Q psy15588 204 ALS 206 (461)
Q Consensus 204 ~l~ 206 (461)
++.
T Consensus 76 rL~ 78 (96)
T cd01778 76 RLL 78 (96)
T ss_pred eEe
Confidence 553
No 26
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=93.08 E-value=0.29 Score=42.28 Aligned_cols=58 Identities=22% Similarity=0.262 Sum_probs=48.1
Q ss_pred eeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCc---CCCCCeEEEEeeecCcceecCCCCCCcccccc
Q psy15588 137 FCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLL---VSPSDLLLVEVKSTGERVVFRDNDLSIPTALS 206 (461)
Q Consensus 137 ~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~Lv~v~~~~e~~~~~~~~~~~~~~l~ 206 (461)
-+-++|.-.+|++||+++.++ ||... -+.++++|-+|..+||...+++.+..+-.+|.
T Consensus 37 tK~VrVsS~~tt~eVI~~LLe------------KFk~d~~~~s~p~FALYevh~nGe~RKL~d~E~PL~~RL~ 97 (112)
T cd01782 37 TKCIRVSSTATTRDVIDTLSE------------KFRPDMRMLSNPTYSLYEVHENGEERRLLDDEKPLVVQLN 97 (112)
T ss_pred EEEEEEecCCCHHHHHHHHHH------------HhcccccccCCcceEEEEEecCCceEEcCCcCCCeEEeec
Confidence 466899999999999999999 88632 23459999999889999999999998866664
No 27
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=89.32 E-value=0.92 Score=36.61 Aligned_cols=59 Identities=20% Similarity=0.250 Sum_probs=43.6
Q ss_pred EEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcceecCCCCCCc
Q psy15588 127 IFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERVVFRDNDLSI 201 (461)
Q Consensus 127 ~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~~~~~~~~~~ 201 (461)
.|+||-||++...+.+....|.+|++.-+.+ +-|+. .+...+..+ ++++.+--++|.+.
T Consensus 1 ~crV~LPdg~~T~V~vrpG~ti~d~L~klle------------kRgl~--~~~~~vf~~--g~~k~l~~~qD~~~ 59 (73)
T cd01817 1 LCRVILPDGSTTVVPTRPGESIRDLLSGLCE------------KRGIN--YAAVDLFLV--GGDKPLVLDQDSSV 59 (73)
T ss_pred CcEEECCCCCeEEEEecCCCCHHHHHHHHHH------------HcCCC--hhHEEEEEe--cCCcccccCCccce
Confidence 4899999999999999999999999999999 77652 233333333 44566655666554
No 28
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=89.10 E-value=1 Score=35.97 Aligned_cols=52 Identities=25% Similarity=0.233 Sum_probs=41.8
Q ss_pred EeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEE-eeecCcceec
Q psy15588 130 VYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVE-VKSTGERVVF 194 (461)
Q Consensus 130 vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~-v~~~~e~~~~ 194 (461)
|.-+|.|..++.+..++|+++++..+++ ++|| ...+-+.|.- ...+|+..-+
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~------------~l~l-~e~~~FgL~~~~~~~~~~~wL 53 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCD------------KLGL-KEKEYFGLQYQVDKDGEHHWL 53 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHH------------HHTT-SSGGGEEEEE-EBTTSSEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHH------------HcCC-CCccEEEEEEeecCCCcceec
Confidence 5678999999999999999999999999 9988 4567788877 4444554433
No 29
>KOG4239|consensus
Probab=89.10 E-value=0.55 Score=47.57 Aligned_cols=65 Identities=17% Similarity=0.304 Sum_probs=56.0
Q ss_pred EEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcc---eecCCCCCCccccc
Q psy15588 129 RVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGER---VVFRDNDLSIPTAL 205 (461)
Q Consensus 129 ~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~---~~~~~~~~~~~~~l 205 (461)
-+|-+-.|.+-++|.-.||+.||+...+. ||-+..++.+++|-++-..||+ ..+++.|..+--+|
T Consensus 207 SfflPa~svk~vrInStttt~eVI~~LLk------------KF~Ved~P~kFALy~~~~~geqv~~~kLkd~d~PL~~RL 274 (348)
T KOG4239|consen 207 SFFLPADSVKNVRINSTTTTREVIKLLLK------------KFRVEDNPQKFALYERHESGEQVKLTKLKDDDYPLILRL 274 (348)
T ss_pred eeecccccceeEEecccccHHHHHHHHHH------------HHeecCCHhheeeeEEeecCchhhheecccccccHHHHH
Confidence 58887669999999999999999999999 9988888999999999999999 56667777664444
No 30
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=88.96 E-value=1 Score=37.14 Aligned_cols=52 Identities=19% Similarity=0.116 Sum_probs=41.8
Q ss_pred cCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcceecCCCC
Q psy15588 133 ADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERVVFRDND 198 (461)
Q Consensus 133 ~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~~~~~~~ 198 (461)
+-.|.+||.++..+|+++|....|+ ||.+ ..++++.|.-+. +|+...+.|+.
T Consensus 11 sgct~KTL~V~P~~tt~~vc~lcA~------------Kf~V-~qPe~y~LFl~v-dg~~~qLadd~ 62 (87)
T cd01776 11 SGCTGKTLLVRPYITTEDVCQLCAE------------KFKV-TQPEEYSLFLFV-EETWQQLAPDT 62 (87)
T ss_pred CCceeeeeecCCCCcHHHHHHHHHH------------Hhcc-CChhheeEEEEE-CCcEEEcCccc
Confidence 4578999999999999999999999 9976 457899998885 46655554443
No 31
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=88.09 E-value=1.4 Score=36.78 Aligned_cols=51 Identities=25% Similarity=0.276 Sum_probs=42.4
Q ss_pred cEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCC-CCCeEEEEeee
Q psy15588 125 IIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVS-PSDLLLVEVKS 187 (461)
Q Consensus 125 ~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Lv~v~~ 187 (461)
++-++|+-+|.+-.++++.++.++++|.++++. ++|+... ..=++|.+|..
T Consensus 1 ~V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~------------kl~L~~e~~~YFaLFev~~ 52 (87)
T cd01777 1 DVELRIALPDKATVTVRVRKNATTDQVYQALVA------------KAGMDSYTQNYFALFEVIN 52 (87)
T ss_pred CeEEEEEccCCCEEEEEEEEcccHHHHHHHHHH------------HhCCCHHHHhheeeeEEec
Confidence 356899999999999999999999999999999 9987432 23477888844
No 32
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=86.97 E-value=1.4 Score=35.46 Aligned_cols=31 Identities=13% Similarity=0.222 Sum_probs=29.6
Q ss_pred EEEEeecCCCeeeEeecccCCHHHHHHHHHH
Q psy15588 127 IFRVYCADHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 127 ~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
.|+||-||.+...+.+....|++|++..+.+
T Consensus 1 ~~~V~LPng~~t~V~vrpg~ti~d~L~~~c~ 31 (72)
T cd01760 1 LCRVYLPNGQRTVVPVRPGMSVRDVLAKACK 31 (72)
T ss_pred CEEEECcCCCeEEEEECCCCCHHHHHHHHHH
Confidence 3789999999999999999999999999999
No 33
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=86.05 E-value=2 Score=34.29 Aligned_cols=31 Identities=13% Similarity=0.073 Sum_probs=29.0
Q ss_pred EEEEeecCCCeeeEeecccCCHHHHHHHHHH
Q psy15588 127 IFRVYCADHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 127 ~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
.|+||-||.+...+.+....|++|.++.+.+
T Consensus 2 ~~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~ 32 (71)
T PF02196_consen 2 TCRVHLPNGQRTVVQVRPGMTIRDALSKACK 32 (71)
T ss_dssp EEEEEETTTEEEEEEE-TTSBHHHHHHHHHH
T ss_pred eEEEECCCCCEEEEEEcCCCCHHHHHHHHHH
Confidence 5899999999999999999999999999999
No 34
>KOG1892|consensus
Probab=84.74 E-value=2 Score=49.44 Aligned_cols=63 Identities=21% Similarity=0.432 Sum_probs=53.8
Q ss_pred EEEEe----ecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcC-CCCCeEEEEeeecCcceecCCCCCCc
Q psy15588 127 IFRVY----CADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLV-SPSDLLLVEVKSTGERVVFRDNDLSI 201 (461)
Q Consensus 127 ~~~vy----~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Lv~v~~~~e~~~~~~~~~~~ 201 (461)
-+||| |+|-.|+||.+.+...|+-+|..+++ |+|+-. .+.+++++.|++++.+.++.+.+..+
T Consensus 236 tLkiYg~sl~p~~PYktiLlsi~d~Ad~~v~eaLe------------KYGLEk~~p~~yci~~vnsD~~e~ilDddECPL 303 (1629)
T KOG1892|consen 236 TLKIYGDSLKPNIPYKTILLSITDPADFAVAEALE------------KYGLEKENPKDYCIARVNSDAKEIILDDDECPL 303 (1629)
T ss_pred eeEEeccccCCCCcceeeeeecCChHHHHHHHHHH------------HhcccccCCCceEEEEecCCcceeeccCccCcH
Confidence 67888 58999999999999999999999999 999854 56789999999999888876655544
No 35
>smart00455 RBD Raf-like Ras-binding domain.
Probab=84.33 E-value=2.4 Score=33.82 Aligned_cols=31 Identities=13% Similarity=0.104 Sum_probs=29.7
Q ss_pred EEEEeecCCCeeeEeecccCCHHHHHHHHHH
Q psy15588 127 IFRVYCADHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 127 ~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
.|+||-||.+...+.+....|++|++..+.+
T Consensus 1 ~~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~ 31 (70)
T smart00455 1 TCKVHLPDNQRTVVKVRPGKTVRDALAKALK 31 (70)
T ss_pred CeEEECCCCCEEEEEECCCCCHHHHHHHHHH
Confidence 3789999999999999999999999999999
No 36
>KOG3751|consensus
Probab=82.87 E-value=2.9 Score=45.29 Aligned_cols=68 Identities=24% Similarity=0.211 Sum_probs=52.2
Q ss_pred CCCCCcEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEee-ecCcceecCCCC
Q psy15588 120 PSGQPIIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVK-STGERVVFRDND 198 (461)
Q Consensus 120 ~~~~~~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~-~~~e~~~~~~~~ 198 (461)
.....++++|||.-|-+.+.+.|.-..||++|.+..++ |-.. ...++++|||.- .-+-.+++.|.+
T Consensus 183 ~a~vrklvVKvfseDgasksL~Vder~tardV~~lL~e------------KnH~-~~d~~W~LvEh~P~L~iER~fEDHE 249 (622)
T KOG3751|consen 183 EAKVRKLVVKVFSEDGASKSLLVDERMTARDVCQLLAE------------KNHC-ADDEDWCLVEHYPHLQIERVFEDHE 249 (622)
T ss_pred cccccceeEEEEccCCceeeEeecccccHHHHHHHHHH------------hhhh-hcccceeeeeecchhhhhhhhhhHH
Confidence 34667899999999999999999999999999999999 6543 456899999972 223344455544
Q ss_pred CC
Q psy15588 199 LS 200 (461)
Q Consensus 199 ~~ 200 (461)
..
T Consensus 250 lV 251 (622)
T KOG3751|consen 250 LV 251 (622)
T ss_pred HH
Confidence 43
No 37
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=72.43 E-value=6.3 Score=27.59 Aligned_cols=41 Identities=29% Similarity=0.382 Sum_probs=34.1
Q ss_pred EeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEE
Q psy15588 130 VYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVE 184 (461)
Q Consensus 130 vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~ 184 (461)
|+..|.+...+.+..++|+++++..+.+ ++| .+++++.|+.
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~------------~~~--~~~~~~~l~~ 42 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAK------------KLG--LPPEQQRLLV 42 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHH------------HHC--cChHHeEEEE
Confidence 5666889999999999999999999999 886 4566777754
No 38
>cd00153 RalGDS_RA Ubiquitin domain of RalGDS-like factor (RLF) and related proteins. This CD represents the C-terminal Ras-associating (RA) domain of three closely related guanine-nucleotide exchange factors (GEF's), Ral guanine nucleotide dissociation stimulator (RalGDS), RalGDS-like (RGL), and RalGDS-like factor (RLF). The RalGDS proteins are downstream effectors of the Ras-related protein Ral, providing a mechanism for Ral activation by extracellular signals. The RA domain is structurally similar to ubiquitin and exists in a number of other signalling proteins including AF6, rasfadin, SNX27, CYR1, and STE50.
Probab=72.42 E-value=22 Score=29.57 Aligned_cols=61 Identities=28% Similarity=0.328 Sum_probs=43.9
Q ss_pred EEEEEeecCCC----eeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCC-CCCeEEEEeeecCcceecCCCC
Q psy15588 126 IIFRVYCADHT----FCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVS-PSDLLLVEVKSTGERVVFRDND 198 (461)
Q Consensus 126 ~~~~vy~~d~~----~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Lv~v~~~~e~~~~~~~~ 198 (461)
.++||-.-++. |++|.+.-..-+-.|++.|.+ |.++.+. +++|.|+.+=+.+...+++++.
T Consensus 3 ~iIRVs~e~~~~gn~YKSIlltsqDktP~VI~ral~------------Khnl~~~~~~~Y~L~Q~Lp~d~El~iP~~a 68 (87)
T cd00153 3 YIIRVSLEDDNQGNLYKSILLTSQDKAPQVIRRAME------------KHNLESEVAEDYELVQVLPGDRELVIPDNA 68 (87)
T ss_pred EEEEEEeecCCCcceEEEEEEecCCcCHHHHHHHHH------------HhCCCcCCccceEEEEEcCCCceEeccCCC
Confidence 35556554333 899998877777788888888 9998765 8999999996645555554443
No 39
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=60.80 E-value=25 Score=30.36 Aligned_cols=49 Identities=20% Similarity=0.247 Sum_probs=34.8
Q ss_pred EEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEee
Q psy15588 126 IIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVK 186 (461)
Q Consensus 126 ~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~ 186 (461)
++++|--.|-|.+++-|.--.+|+||+.-|+. |||+.+...++...-++
T Consensus 1 hvi~~I~~dG~tk~VNV~~c~~a~eI~~rvLK------------Kfg~~~~~~~~~~~v~d 49 (105)
T PF14847_consen 1 HVIRFILEDGSTKTVNVSGCFNAQEIKRRVLK------------KFGLPEHPRNYCFYVLD 49 (105)
T ss_dssp -EEEEEETTTEEEEEE--S--HHHHHHHHHHH------------HHTSS--CCCEEEEEE-
T ss_pred CEEEEECCCCcEEEEEECCCCCHHHHHHHHHH------------HcCCccccccceEEEec
Confidence 36678888999999999999999999999999 99986655666655443
No 40
>PF03745 DUF309: Domain of unknown function (DUF309); InterPro: IPR005500 This family consists of eubacterial and archaebacterial proteins of unknown function. The proteins contain a motif HXXXEXX(W/Y) where X can be any amino acid. This motif is likely to be functionally important and may be involved in metal binding.; PDB: 2CXD_B 2CWY_A 2IJQ_B.
Probab=55.94 E-value=32 Score=26.72 Aligned_cols=54 Identities=19% Similarity=0.167 Sum_probs=41.3
Q ss_pred cHHHHHHHhHHHHHHHHHHHhcc---CChhHHHHHHHHHHHHHHHH--HhcCCchhHHH
Q psy15588 283 NLDVFLRRFNEIQYWVITEILLV---TSLNKRVQILRKMIKLAAYC--KEYRNINALFA 336 (461)
Q Consensus 283 nL~~~~~~fN~ls~WV~teIL~~---~~~~~Ra~li~kFIkIA~~c--~~l~Nfns~~A 336 (461)
.+...+..||.=-+|-+.|++-+ .....+..+++-+|++|..+ ...||..+...
T Consensus 2 ~~~~~~~l~n~g~f~EaHEvlE~~W~~~~~~~~~~lqglIq~A~a~~h~~~gn~~gA~~ 60 (62)
T PF03745_consen 2 ALEEGIELFNAGDFFEAHEVLEELWKAAPGPERDFLQGLIQLAVALYHLRRGNPRGARR 60 (62)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHCCCT-CCHHHHHHHHHHHHHHHHHHHCTSHHHHHH
T ss_pred HHHHHHHHHcCCCHHHhHHHHHHHHHHCCcchHHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence 46778899999999999999865 22334889999999999888 46777776643
No 41
>KOG3784|consensus
Probab=51.73 E-value=53 Score=34.76 Aligned_cols=89 Identities=17% Similarity=0.113 Sum_probs=56.7
Q ss_pred hhHHHHHHHHHHHHhhhcchhhhhcccccccCCCCCCCcEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhh
Q psy15588 87 LTEEASLMHHVMTHMKRYQDERAASAGQKWKLPPSGQPIIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTS 166 (461)
Q Consensus 87 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~ 166 (461)
+++.-..+++.++..++++.-..+-.-+...+-.+.+.++-+.|..+|-+-.+++..++.|+.+++.+|+.
T Consensus 69 ~~~rr~~leqylqa~~q~~~l~~s~~~~~fL~~~q~~~~v~l~v~lpng~~i~i~~~~s~tt~~vl~~v~~--------- 139 (407)
T KOG3784|consen 69 LDSRRRGLEQYLQAVCQDPVLARSELVQKFLMRAQPMEEVELDVFLPNGEKITINCLVSDTASLVLKSVCR--------- 139 (407)
T ss_pred hHHHHHHHHHHHHHHhcCccccchhhhhHHHHhccccceeEEEEEccCCceEEEEEEecccHHHHHHHHHh---------
Confidence 33333444555554444444332211111122223567788999999999999999999999999999999
Q ss_pred hhhhhcCcCCC-CCeEEEEeee
Q psy15588 167 AAEKLGLLVSP-SDLLLVEVKS 187 (461)
Q Consensus 167 ~~~~~~~~~~~-~~~~Lv~v~~ 187 (461)
|+|+.+.. .-++|..|..
T Consensus 140 ---kl~l~~e~i~~f~lFlvr~ 158 (407)
T KOG3784|consen 140 ---KLGLPDELIGYFGLFLVRD 158 (407)
T ss_pred ---hcCCchHhhhheeeeEEec
Confidence 99875422 3456666643
No 42
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=49.97 E-value=51 Score=26.93 Aligned_cols=53 Identities=26% Similarity=0.336 Sum_probs=38.2
Q ss_pred eeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCc---CCCCCeEEEEeeecCcceecCCCC
Q psy15588 137 FCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLL---VSPSDLLLVEVKSTGERVVFRDND 198 (461)
Q Consensus 137 ~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~Lv~v~~~~e~~~~~~~~ 198 (461)
|.+++++.++|..+|...+-+ -|.++.+. +..++|+.+-|+..||+-.+-+..
T Consensus 1 ~i~l~~~~~~Tl~~iK~~lw~---------~A~~~PL~~~L~~~~~Y~F~~in~~ae~EEl~DEs 56 (78)
T PF02192_consen 1 LIPLRVSRDATLSEIKEELWE---------EAKKYPLFSLLKDPSSYIFSCINQFAEQEELYDES 56 (78)
T ss_dssp EEEEEEETT-BHHHHHHHHHH---------HGGGSTTCCCS--GGGEEEEEEBTTSCEEEE--TT
T ss_pred CeEEEccCcCcHHHHHHHHHH---------HHHhCChHHHhCCCCcEEEEEecCCCccceeEcch
Confidence 467899999999999998777 34456553 466899999999999987665544
No 43
>KOG1892|consensus
Probab=40.79 E-value=45 Score=39.17 Aligned_cols=67 Identities=24% Similarity=0.338 Sum_probs=45.0
Q ss_pred eeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCc---CCCCCeEEEEeeecCcceecCCCCCCcccccc-----cCc
Q psy15588 138 CTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLL---VSPSDLLLVEVKSTGERVVFRDNDLSIPTALS-----LNG 209 (461)
Q Consensus 138 ~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~Lv~v~~~~e~~~~~~~~~~~~~~l~-----ln~ 209 (461)
+-||+.-++|+++|+...++ ||-=. -+...|+|-||..+|||.+ -.++..+--.|. -.|
T Consensus 57 KCiRVsStATt~dVidtL~E------------KFrPDmrMLS~p~YsLyEVH~nGERrL-~~dEKPLvVQLnWhkDDREG 123 (1629)
T KOG1892|consen 57 KCIRVSSTATTQDVIDTLAE------------KFRPDMRMLSSPKYSLYEVHVNGERRL-DIDEKPLVVQLNWHKDDREG 123 (1629)
T ss_pred heeEecccccHHHHHHHHHH------------HhCcchhhhcCCCceeeeeecCccccc-CcccCceEEEeccccccccc
Confidence 55799999999999999999 55210 2567899999999999544 333333322221 236
Q ss_pred ccccccCC
Q psy15588 210 RIFVSPKD 217 (461)
Q Consensus 210 r~~~~~~~ 217 (461)
|+.+++.+
T Consensus 124 RFlLKn~~ 131 (1629)
T KOG1892|consen 124 RFLLKNEN 131 (1629)
T ss_pred eeeeeccc
Confidence 77766543
No 44
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=40.66 E-value=51 Score=27.17 Aligned_cols=70 Identities=16% Similarity=0.232 Sum_probs=44.3
Q ss_pred cEEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEee--ecCcceecCCCCCCcc
Q psy15588 125 IIIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVK--STGERVVFRDNDLSIP 202 (461)
Q Consensus 125 ~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~--~~~e~~~~~~~~~~~~ 202 (461)
..++||+--+ -.-|++|.+.+-+++...+++ |+++. ++...| ..+ .+|+.+.+.++|...+
T Consensus 2 ~~vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~------------kLkl~--~e~i~L-sYkde~s~~~v~l~d~dle~a 64 (80)
T cd06406 2 SYVVKVHFKY--TVAIQVARGLSYATLLQKISS------------KLELP--AEHITL-SYKSEASGEDVILSDTNMEDV 64 (80)
T ss_pred CeEEEEEEEE--EEEEEcCCCCCHHHHHHHHHH------------HhCCC--chhcEE-EeccCCCCCccCcChHHHHHH
Confidence 3688999887 677899999999999999988 99763 344443 232 3355555533333222
Q ss_pred cccccCccc
Q psy15588 203 TALSLNGRI 211 (461)
Q Consensus 203 ~~l~ln~r~ 211 (461)
=+..-|+|+
T Consensus 65 ws~~~~~~l 73 (80)
T cd06406 65 WSQAKDGCL 73 (80)
T ss_pred HHhhcCCeE
Confidence 233344554
No 45
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=39.34 E-value=49 Score=26.03 Aligned_cols=38 Identities=26% Similarity=0.315 Sum_probs=24.4
Q ss_pred ecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEE
Q psy15588 132 CADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLV 183 (461)
Q Consensus 132 ~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv 183 (461)
..+..-.++.+.+++|..+|+..|.+ ++|+.. +++.|.
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~------------k~~l~~--~~~~L~ 40 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACK------------KFGLDP--SSYDLK 40 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHH------------HTT--G--GG-EEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHH------------HcCCCc--cceEEE
Confidence 34556678899999999999999999 998633 366664
No 46
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=38.22 E-value=1.1e+02 Score=25.03 Aligned_cols=29 Identities=17% Similarity=0.094 Sum_probs=27.2
Q ss_pred EEeecCCCeeeEeecccCCHHHHHHHHHH
Q psy15588 129 RVYCADHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 129 ~vy~~d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
.|..+|....++.+..++|+.||+.+|..
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk 31 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACK 31 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHH
Confidence 47889999999999999999999999998
No 47
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=36.36 E-value=79 Score=25.91 Aligned_cols=53 Identities=34% Similarity=0.362 Sum_probs=38.9
Q ss_pred eeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcC---cCCCCCeEEEEeeecCcceecCCCC
Q psy15588 137 FCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGL---LVSPSDLLLVEVKSTGERVVFRDND 198 (461)
Q Consensus 137 ~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~Lv~v~~~~e~~~~~~~~ 198 (461)
+.+++++.++|-++|.+.+-+ .|+++.+ -+.+++|..+-|+..||.-.+-+.+
T Consensus 1 ~i~l~v~~~aTl~~IK~~lw~---------~A~~~Pl~~~L~d~~~Y~F~~in~~~e~ee~~DEt 56 (78)
T smart00143 1 LVTLRVLREATLSTIKHELFK---------QARKMPLGQLLQDESSYIFVSVNQTAEIEEFFDET 56 (78)
T ss_pred CeeEEccccccHHHHHHHHHH---------HHHhCCHHHHhCCccceEEEeecCCcccccccccc
Confidence 357899999999999998877 2233433 2467899999999888886554433
No 48
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=35.04 E-value=51 Score=27.89 Aligned_cols=36 Identities=19% Similarity=0.164 Sum_probs=31.1
Q ss_pred CCCcEEEEEeec-CCCeeeEeecccCCHHHHHHHHHH
Q psy15588 122 GQPIIIFRVYCA-DHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 122 ~~~~~~~~vy~~-d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
....+.+.||-. +++..++.+..++|+.+++..+..
T Consensus 13 ~~~~i~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~ 49 (106)
T PF00794_consen 13 QNNKIKVSVHFENSQQSFTFQVDPNSTPEELIAQALK 49 (106)
T ss_dssp SSSEEEEEEEETTCSEEEEEEEETTS-HHHHHHHHHH
T ss_pred CCCeEEEEEEEcCCCcEEEEEECCCCCHHHHHHHHHH
Confidence 345788999998 888999999999999999999988
No 49
>COG3068 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.76 E-value=87 Score=29.14 Aligned_cols=72 Identities=24% Similarity=0.475 Sum_probs=51.6
Q ss_pred hhHHHHHHHHHHHH---HHHH-HhcCCchhHHHHHhccccccccc--chHhhccCChhhH-----HHHHHHHhccCCCCc
Q psy15588 308 LNKRVQILRKMIKL---AAYC-KEYRNINALFAVLMGLSNVAVSR--LSLTWDKLPSKSK-----KTYTELEALIDPSKN 376 (461)
Q Consensus 308 ~~~Ra~li~kFIkI---A~~c-~~l~Nfns~~AI~~gL~~~aV~R--L~~TWe~l~~k~k-----k~~~~L~~L~d~s~N 376 (461)
+.+|..-++-|-+| |.-| +-+-||. +|.-..++..+.++| |...|+.+.-|.. ..+++|+.++-.++.
T Consensus 6 ih~RLE~lEsWQhiTFmAcLCERM~PNy~-~FCq~~e~~~~~~Yr~ILdlvWE~ltVK~aKvNFe~QLEKLE~~IP~~dd 84 (194)
T COG3068 6 IHLRLERLESWQHVTFMACLCERMYPNYA-MFCQQTEFGDGQIYRRILDLVWETLTVKDAKVNFESQLEKLEEAIPSADD 84 (194)
T ss_pred HHHHHHhcchHHHHHHHHHHHHHhCccHH-HHHHHhcccccHHHHHHHHHHHHHhhhcccccchHHHHHHHHHhCCCcch
Confidence 45566666655443 4556 5677886 566778888988876 5778998876644 467899999988888
Q ss_pred HHHH
Q psy15588 377 HRAY 380 (461)
Q Consensus 377 ~~~Y 380 (461)
|..|
T Consensus 85 ~~~y 88 (194)
T COG3068 85 FDLY 88 (194)
T ss_pred hhhh
Confidence 8766
No 50
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=28.84 E-value=2e+02 Score=23.44 Aligned_cols=37 Identities=8% Similarity=0.043 Sum_probs=33.2
Q ss_pred CCCCcEEEEEeecCCCeeeEeecccCCHHHHHHHHHH
Q psy15588 121 SGQPIIIFRVYCADHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 121 ~~~~~~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
+++..+.++|=..+....++.+..++|.+.|+...++
T Consensus 7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~ 43 (87)
T cd01763 7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQ 43 (87)
T ss_pred CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHH
Confidence 3677888999888889999999999999999999998
No 51
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=26.96 E-value=3.5e+02 Score=22.01 Aligned_cols=33 Identities=18% Similarity=0.277 Sum_probs=27.5
Q ss_pred cEEEEEeec---CCCeeeEeecccCCHHHHHHHHHH
Q psy15588 125 IIIFRVYCA---DHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 125 ~~~~~vy~~---d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
++-+||+.. -.+|+.+.+|-++.-.-|+.-|++
T Consensus 2 kvtfKI~ltsDp~~p~kv~sVPE~apftaVlkfaAe 37 (76)
T PF03671_consen 2 KVTFKITLTSDPKLPYKVISVPEEAPFTAVLKFAAE 37 (76)
T ss_dssp EEEEEEEESTSSTS-EEEEEEETTSBHHHHHHHHHH
T ss_pred cEEEEEEEccCCCCcceEEecCCCCchHHHHHHHHH
Confidence 467888874 456999999999999999999999
No 52
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=26.81 E-value=1.7e+02 Score=23.78 Aligned_cols=31 Identities=13% Similarity=0.184 Sum_probs=28.7
Q ss_pred EEEEeecCCCeeeEeecccCCHHHHHHHHHH
Q psy15588 127 IFRVYCADHTFCTLRFPVNATAEQIKTSAAE 157 (461)
Q Consensus 127 ~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~ 157 (461)
++++|-|++....+-+....|+++.+.-++.
T Consensus 1 ~ir~~LPnqQrT~V~vrpG~tl~daL~KaLk 31 (74)
T cd01816 1 LIRVFLPNKQRTVVNVRPGMTLRDALAKALK 31 (74)
T ss_pred CeeEECCCCCeEEEEecCCcCHHHHHHHHHH
Confidence 3789999999999999999999999888887
No 53
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=21.50 E-value=2.6e+02 Score=21.91 Aligned_cols=56 Identities=20% Similarity=0.352 Sum_probs=42.5
Q ss_pred EEEEEeecCCCeeeEeecccCCHHHHHHHHHHHHHHHHhhhhhhhhcCcCCCCCeEEEEeeecCcceecC
Q psy15588 126 IIFRVYCADHTFCTLRFPVNATAEQIKTSAAEKLAEQIKTSAAEKLGLLVSPSDLLLVEVKSTGERVVFR 195 (461)
Q Consensus 126 ~~~~vy~~d~~~~~~~~~~~~t~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lv~v~~~~e~~~~~ 195 (461)
+.+|++--+.....+.++.+.|-.++...+.+ ++|.. .+++.|.=....|+.+.+.
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~------------~~~~~--~~~~~l~Y~D~dgD~V~i~ 57 (84)
T PF00564_consen 2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIRE------------KFGLL--DEDFQLKYKDEDGDLVTIS 57 (84)
T ss_dssp EEEEEEETTEEEEEEEECSTSHHHHHHHHHHH------------HHTTS--TSSEEEEEEETTSSEEEES
T ss_pred EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHH------------HhCCC--CccEEEEeeCCCCCEEEeC
Confidence 45778777777778899999999999999999 89742 4667776556667666553
Done!