Query psy3152
Match_columns 402
No_of_seqs 143 out of 218
Neff 4.0
Searched_HMMs 46136
Date Fri Aug 16 17:44:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3152.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3152hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2868|consensus 100.0 8.6E-46 1.9E-50 362.8 18.6 158 4-161 10-170 (335)
2 PF06058 DCP1: Dcp1-like decap 100.0 1.4E-46 3E-51 326.2 8.2 121 4-124 2-122 (122)
3 PF00568 WH1: WH1 domain; Int 97.6 0.00069 1.5E-08 57.8 10.1 94 28-122 13-109 (111)
4 cd00837 EVH1 EVH1 (Enabled, Va 97.3 0.0028 6.1E-08 53.7 10.3 93 28-122 6-102 (104)
5 smart00461 WH1 WASP homology r 96.4 0.047 1E-06 46.6 10.6 91 31-122 11-104 (106)
6 KOG3671|consensus 96.2 0.0037 8E-08 66.4 3.7 113 13-127 28-142 (569)
7 smart00160 RanBD Ran-binding d 95.4 0.19 4.1E-06 44.4 10.4 92 29-122 25-129 (130)
8 cd01205 WASP WASP-type EVH1 do 95.2 0.19 4.2E-06 43.6 9.6 95 27-122 8-103 (105)
9 cd00835 RanBD Ran-binding doma 95.1 0.28 6.1E-06 42.4 10.4 94 28-123 15-120 (122)
10 cd01207 Ena-Vasp Enabled-VASP- 94.5 0.46 1E-05 41.7 10.3 96 29-127 7-110 (111)
11 PF00638 Ran_BP1: RanBP1 domai 90.1 3.2 7E-05 35.4 9.6 95 29-125 15-121 (122)
12 cd01206 Homer Homer type EVH1 88.7 2.9 6.3E-05 37.0 8.3 95 29-126 9-109 (111)
13 KOG4693|consensus 63.1 4.2 9.1E-05 41.6 1.7 22 31-52 105-126 (392)
14 PF10781 DSRB: Dextransucrase 55.0 5.4 0.00012 31.8 0.7 15 99-113 38-52 (62)
15 PF13926 DUF4211: Domain of un 42.4 36 0.00078 30.6 4.1 33 366-398 36-74 (153)
16 PRK10708 hypothetical protein; 36.3 53 0.0011 26.3 3.6 24 49-73 29-52 (62)
17 PF14598 PAS_11: PAS domain; P 35.4 57 0.0012 27.7 4.0 50 21-71 55-105 (111)
18 PF13964 Kelch_6: Kelch motif 34.5 26 0.00057 25.0 1.6 20 28-47 25-44 (50)
19 PF14483 Cut8_M: Cut8 dimerisa 34.0 44 0.00096 24.2 2.6 29 362-390 7-35 (38)
20 PF01344 Kelch_1: Kelch motif; 31.2 32 0.0007 23.9 1.6 20 27-46 24-43 (47)
21 PF10539 Dev_Cell_Death: Devel 31.2 40 0.00086 30.7 2.5 52 49-107 2-56 (130)
22 KOG4590|consensus 30.4 1.1E+02 0.0024 32.6 5.9 124 35-160 2-135 (409)
23 smart00612 Kelch Kelch domain. 30.1 42 0.00091 22.5 2.0 19 29-47 13-31 (47)
24 PF08553 VID27: VID27 cytoplas 29.6 3.6E+02 0.0077 31.3 10.1 102 25-128 249-356 (794)
25 PF13418 Kelch_4: Galactose ox 28.2 35 0.00075 24.1 1.3 18 29-46 27-44 (49)
26 PF13415 Kelch_3: Galactose ox 26.1 43 0.00094 24.0 1.5 16 31-46 19-34 (49)
27 PF09951 DUF2185: Protein of u 26.0 61 0.0013 27.4 2.6 36 9-46 51-86 (89)
28 smart00767 DCD DCD is a plant 25.5 58 0.0013 29.8 2.5 53 48-107 3-58 (132)
29 PLN02772 guanylate kinase 22.2 1.6E+02 0.0035 31.3 5.3 56 31-111 51-108 (398)
30 PF12122 DUF3582: Protein of u 22.0 1.7E+02 0.0036 25.2 4.6 30 98-127 32-61 (101)
31 PF14784 ECIST_Cterm: C-termin 21.2 4.3E+02 0.0093 23.9 7.1 78 48-125 19-111 (126)
32 KOG1065|consensus 20.6 2.8E+02 0.0061 32.2 7.1 56 51-117 225-280 (805)
No 1
>KOG2868|consensus
Probab=100.00 E-value=8.6e-46 Score=362.77 Aligned_cols=158 Identities=42% Similarity=0.828 Sum_probs=142.0
Q ss_pred cccchhhHHHHHhcCcchHHHHhhCCcEEEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCCCCCCceeeCcCc
Q psy3152 4 LTDSEVNVSAIRRVDPMVKDLVDSATHVALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRNSPENLLEPVVKE 83 (402)
Q Consensus 4 ~t~~~lNL~VLqR~DP~I~sIL~~AshVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~s~eNfie~It~~ 83 (402)
..++++||+||+||||+|++|||+++||+||+||...++|+|++|||+||||+|+..|+++|+|+||++++||+++|+++
T Consensus 10 ~~~~a~nla~l~r~DP~ik~Ild~ashva~Y~fd~~~~eWnKtdiEGtffvY~R~~~p~~gf~i~NR~~~~nf~e~lt~d 89 (335)
T KOG2868|consen 10 FRGRALNLAVLQRIDPYIKSILDVASHVALYTFDFGANEWNKTDIEGTFFVYKRDASPRHGFLIVNRLSPDNFVEPLTKD 89 (335)
T ss_pred HhhhhhhHHHHhhhCHHHHHHHhhccceeEEEeccccchhhhccceeEEEEEEccCCCccceEeecCCChhhhhhhcCCC
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeEEeCCEEEEEcCCCcEEEEEeeccchhHHHHHHHHHHHHHhhcCCC-CCCCC-CCCCCCC-CCCCcchHHHHHHHhH
Q psy3152 84 LDLQLQNPFILYKNKQGLIYGIWFYNKEDCHRISDILQSLVKELTHTPS-SSKPN-LKPKKPV-EQMGNGLIMNMLTKAQ 160 (402)
Q Consensus 84 le~elq~~fLiyRn~~~~IyGIWFyd~ed~~rI~~ll~~lv~~~~~~~~-~~~p~-~~~~~~~-~~~~~vdI~~mLskAq 160 (402)
++|+++|+||+|||+.++||||||||++||.||+.++++++........ ...+. .++.... +..+.+||++||.||+
T Consensus 90 ~~~~~~g~fl~~rn~s~~i~glWf~d~~~~~ri~~L~~~ll~~~~~~~~~qa~~~~sss~~~~~s~~~p~~i~~m~~~a~ 169 (335)
T KOG2868|consen 90 LIFQLQGPFLLYRNESGSIYGLWFYDKNDCQRIATLLKKLLYRYGLITQNQARPANSSSQIPPNSVVAPRDIFNMLEKAK 169 (335)
T ss_pred eeeeecCcceeeeccccceeEEEecCcchHHHHHHHHHHHHHHhhhhhhhhcCcccCCccCCcccccCchhhhhhhhhcc
Confidence 9999999999999999999999999999999999999999999887665 22332 1222222 5556789999999999
Q ss_pred H
Q psy3152 161 E 161 (402)
Q Consensus 161 ~ 161 (402)
+
T Consensus 170 ~ 170 (335)
T KOG2868|consen 170 D 170 (335)
T ss_pred C
Confidence 8
No 2
>PF06058 DCP1: Dcp1-like decapping family; InterPro: IPR010334 An essential step in mRNA turnover is decapping. In yeast, two proteins have been identified that are essential for decapping, Dcp1 (this family) and Dcp2 (IPR007722 from INTERPRO). The precise role of these proteins in the decapping reaction has not been established. Evidence suggests that the Dcp1 may enhance the function of Dcp2 [].; PDB: 1Q67_A 2QKM_C 2QKL_A.
Probab=100.00 E-value=1.4e-46 Score=326.19 Aligned_cols=121 Identities=47% Similarity=0.975 Sum_probs=113.2
Q ss_pred cccchhhHHHHHhcCcchHHHHhhCCcEEEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCCCCCCceeeCcCc
Q psy3152 4 LTDSEVNVSAIRRVDPMVKDLVDSATHVALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRNSPENLLEPVVKE 83 (402)
Q Consensus 4 ~t~~~lNL~VLqR~DP~I~sIL~~AshVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~s~eNfie~It~~ 83 (402)
+++.+|||+||||+||+|++||++|+|||||+||.++++|+|+||||+||||+|+..|+|+|+||||++++||+++|+++
T Consensus 2 ~~~~~lnl~vL~r~Dp~I~~Il~~a~~v~vY~f~~~~~~W~K~~iEG~LFv~~r~~~p~~~~~vlNR~~~~n~~~~i~~~ 81 (122)
T PF06058_consen 2 RTRNELNLRVLQRYDPSIESILDTASHVVVYKFDHETNEWEKTDIEGTLFVYKRSSSPRYGLIVLNRRSTENFVEPITPD 81 (122)
T ss_dssp HHHHHHHHHHHHHC-TTEEEEEEEEEEEEEEEEETTTTEEEEEEEEEEEEEEEEETTS-ECEEEEESSSS--EEEEE-SG
T ss_pred chHHHHhHHHHhhhCchHHHHHhhCCeEEEEeecCCCCcEeecCcEeeEEEEEeecccceEEEEecCCCCCceeeecCCC
Confidence 57889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeEEeCCEEEEEcCCCcEEEEEeeccchhHHHHHHHHHHH
Q psy3152 84 LDLQLQNPFILYKNKQGLIYGIWFYNKEDCHRISDILQSLV 124 (402)
Q Consensus 84 le~elq~~fLiyRn~~~~IyGIWFyd~ed~~rI~~ll~~lv 124 (402)
++++++++||+||+++++|||||||+++||+||+++|++||
T Consensus 82 ~~~e~~~~~l~~r~~~~~I~GiWf~~~~d~~ri~~~l~~lv 122 (122)
T PF06058_consen 82 LDFELQDPYLIYRNDNQEIYGIWFYDDEDRQRIYNLLQRLV 122 (122)
T ss_dssp GGEEEETTEEEEEETTTEEEEEEESSHHHHHHHHHHHHHH-
T ss_pred cEEEEeCCEEEEEcCCceEEEEEEEeHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999885
No 3
>PF00568 WH1: WH1 domain; InterPro: IPR000697 The EVH1 (WH1, RanBP1-WASP) domain is found in multi-domain proteins implicated in a diverse range of signalling, nuclear transport and cytoskeletal events. This domain of around 115 amino acids is present in species ranging from yeast to mammals. Many EVH1-containing proteins associate with actin-based structures and play a role in cytoskeletal organisation. EVH1 domains recognise and bind the proline-rich motif FPPPP with low-affinity, further interactions then form between flanking residues [][]. WASP family proteins contain a EVH1 (WH1) in their N-terminals which bind proline-rich sequences in the WASP interacting protein. Proteins of the RanBP1 family contain a WH1 domain in their N-terminal region, which seems to bind a different sequence motif present in the C-terminal part of RanGTP protein [,]. Tertiary structure of the WH1 domain of the Mena protein revealed structure similarities with the pleckstrin homology (PH) domain. The overall fold consists of a compact parallel beta-sandwich, closed along one edge by a long alpha-helix. A highly conserved cluster of three surface-exposed aromatic side-chains forms the recognition site for the molecules target ligands. [].; GO: 0005515 protein binding; PDB: 1I2H_A 1DDV_A 1DDW_A 1EGX_A 3SYX_A 1TJ6_B 1XOD_B 1EVH_A 1I7A_B 2JP2_A ....
Probab=97.58 E-value=0.00069 Score=57.75 Aligned_cols=94 Identities=12% Similarity=0.269 Sum_probs=72.9
Q ss_pred CCcEEEEEeeCCCCC-ccccCceeeEEEEEeCCCCceEEEEecCCCCC-CceeeCcCcceeEEeCC-EEEEEcCCCcEEE
Q psy3152 28 ATHVALYSFNGHKSE-WDKTNIEGALFVYRRVESPLYSMFILNRNSPE-NLLEPVVKELDLQLQNP-FILYKNKQGLIYG 104 (402)
Q Consensus 28 AshVvVY~Fd~~tne-WeKtdIEGtLFVy~Rs~~P~y~liILNR~s~e-Nfie~It~~le~elq~~-fLiyRn~~~~IyG 104 (402)
++-|-||..|+.++. |.+....|.+-+++....-.|.|.+..-.+-. =|-..|.+++++...-+ |..++.++. ++|
T Consensus 13 ~~vA~v~~~~p~~~~~W~~~~~~g~v~~v~d~~~~~y~I~~~~~~~~~~v~e~~l~~~~~Y~~~~~~Fh~f~~~~~-~~G 91 (111)
T PF00568_consen 13 TAVAQVYQADPDTKRQWSPVKGTGVVCFVKDNSRRSYFIRLYDLQDGKVVWEQELYPGFVYTKARPFFHQFEDDDC-VYG 91 (111)
T ss_dssp EEEEEEEEEETTTSESEEESSSEEEEEEEEETTTTEEEEEEEETTTTEEEEEEEESTT-EEEEESSSEEEEEETTC-EEE
T ss_pred EEEEEEEEEEcCCCCcEeeCCeEEEEEEEEECCCCEEEEEEEEccccEEEEEeEecCCCEEEeCCCcEEEEEeCCe-EEE
Confidence 467889999988777 99999999999998877666777776644222 22236999999986544 668898765 999
Q ss_pred EEeeccchhHHHHHHHHH
Q psy3152 105 IWFYNKEDCHRISDILQS 122 (402)
Q Consensus 105 IWFyd~ed~~rI~~ll~~ 122 (402)
|=|-+++|+..+.+.+++
T Consensus 92 LnF~se~eA~~F~~~v~~ 109 (111)
T PF00568_consen 92 LNFASEEEADQFYKKVQE 109 (111)
T ss_dssp EEESSHHHHHHHHHHHHH
T ss_pred EecCCHHHHHHHHHHHhc
Confidence 999999999999887764
No 4
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=97.30 E-value=0.0028 Score=53.70 Aligned_cols=93 Identities=14% Similarity=0.339 Sum_probs=73.3
Q ss_pred CCcEEEEEeeCCCCCcccc-CceeeEEEEEeCCCCceEEEEecCCCCCCce--eeCcCcceeEEeCC-EEEEEcCCCcEE
Q psy3152 28 ATHVALYSFNGHKSEWDKT-NIEGALFVYRRVESPLYSMFILNRNSPENLL--EPVVKELDLQLQNP-FILYKNKQGLIY 103 (402)
Q Consensus 28 AshVvVY~Fd~~tneWeKt-dIEGtLFVy~Rs~~P~y~liILNR~s~eNfi--e~It~~le~elq~~-fLiyRn~~~~Iy 103 (402)
++-|.||.+|+.+++|.+. +..|.+-+|+-...--|.|.+..=.+ .-.+ ..|.+++++...-+ |..++.+ ..++
T Consensus 6 ~~~a~v~~~~~~~~~W~~~~~~~g~v~~~~d~~~~~y~i~~~~~~~-~~vv~~~~l~~~~~y~~~~~~Fh~w~~~-~~~~ 83 (104)
T cd00837 6 TAVAQVYTADPSTGKWVPASGGTGAVSLVKDSTRNTYRIRGVDIQD-QKVIWNQEIYKGLKYTQATPFFHQWEDD-NCVY 83 (104)
T ss_pred EEEEEEEEECCCCCceEECCCCeEEEEEEEECCCCEEEEEEEecCC-CeEEEEEEecCCcEEeecCCeEEEEEcC-CcEE
Confidence 4678999999999999998 78899999998766667666655444 4444 46888998876555 4577876 6799
Q ss_pred EEEeeccchhHHHHHHHHH
Q psy3152 104 GIWFYNKEDCHRISDILQS 122 (402)
Q Consensus 104 GIWFyd~ed~~rI~~ll~~ 122 (402)
||=|-+++|...+.+.+.+
T Consensus 84 GL~F~se~eA~~F~~~v~~ 102 (104)
T cd00837 84 GLNFASEEEAAQFRKKVLE 102 (104)
T ss_pred EEeeCCHHHHHHHHHHHHh
Confidence 9999999999998887764
No 5
>smart00461 WH1 WASP homology region 1. Region of the Wiskott-Aldrich syndrome protein (WASp) that contains point mutations in the majority of patients with WAS. Unknown function. Ena-like WH1 domains bind polyproline-containing peptides, and that Homer contains a WH1 domain.
Probab=96.39 E-value=0.047 Score=46.62 Aligned_cols=91 Identities=13% Similarity=0.307 Sum_probs=64.5
Q ss_pred EEEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCCCCCCce--eeCcCcceeEEeCCEE-EEEcCCCcEEEEEe
Q psy3152 31 VALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRNSPENLL--EPVVKELDLQLQNPFI-LYKNKQGLIYGIWF 107 (402)
Q Consensus 31 VvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~s~eNfi--e~It~~le~elq~~fL-iyRn~~~~IyGIWF 107 (402)
++|-.|+..++.|.+.+..|.+-|+.-.....|-|-|.-+++.+-.+ ..|.+++.+...-+|. .++. ...++||=|
T Consensus 11 avV~~y~~~~~~W~~~~~gg~~~~~~~~~~~~~~~ri~~~~~~~~vv~e~ely~~~~y~~~~~~Fh~f~~-~~~~~GLnF 89 (106)
T smart00461 11 AVVQLYDADTKKWVPTGEGGAANLVIDKNQRSYFFRIVGIKGQDKVIWNQELYKNFKYNQATPTFHQWAD-DKCVYGLNF 89 (106)
T ss_pred EEEEEEeCCCCCeEECCCCCEEEEEEEecCCeEEEEEEEecCCCeEEEEEeccCCCEEeecCCceEEEEe-CCeEEEeec
Confidence 45555666677899999988666666544455555555555542222 4688899987666655 6676 578999999
Q ss_pred eccchhHHHHHHHHH
Q psy3152 108 YNKEDCHRISDILQS 122 (402)
Q Consensus 108 yd~ed~~rI~~ll~~ 122 (402)
.+++|...+.+.+.+
T Consensus 90 ~se~EA~~F~~~v~~ 104 (106)
T smart00461 90 ASEEEAKKFRKKVLK 104 (106)
T ss_pred CCHHHHHHHHHHHHh
Confidence 999999998877653
No 6
>KOG3671|consensus
Probab=96.23 E-value=0.0037 Score=66.40 Aligned_cols=113 Identities=16% Similarity=0.200 Sum_probs=80.9
Q ss_pred HHHhcCcchHHHHhhCCcEEEEEeeCCCCCccccCceeeEEEEEeCCCCce--EEEEecCCCCCCceeeCcCcceeEEeC
Q psy3152 13 AIRRVDPMVKDLVDSATHVALYSFNGHKSEWDKTNIEGALFVYRRVESPLY--SMFILNRNSPENLLEPVVKELDLQLQN 90 (402)
Q Consensus 13 VLqR~DP~I~sIL~~AshVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y--~liILNR~s~eNfie~It~~le~elq~ 90 (402)
.|+++-+. +-.+..++-|-||.=+...++|.|++.-|.|.+++-...-.| +||=++-.. --|-..|...|++...-
T Consensus 28 ~lf~~lgk-~~~~l~aAVVqLY~a~p~~~~W~~~~~~Gal~lVkD~~~rsyFlrl~di~~~r-liWdqELY~nf~y~q~r 105 (569)
T KOG3671|consen 28 TLFKLLGK-KCKTLAAAVVQLYKAYPDPNHWNKTGLCGALCLVKDNAQRSYFLRLVDIVNNR-LIWDQELYQNFEYRQPR 105 (569)
T ss_pred HHHHHhcc-chhhHHHHHHHHHhhcCChhhhccccCceeEEEeeccccceeeeEEeeecCce-eeehHHhhhhceeccCc
Confidence 45555555 444445667889999888899999999999999998765433 333222222 34556788888888766
Q ss_pred CEEEEEcCCCcEEEEEeeccchhHHHHHHHHHHHHHh
Q psy3152 91 PFILYKNKQGLIYGIWFYNKEDCHRISDILQSLVKEL 127 (402)
Q Consensus 91 ~fLiyRn~~~~IyGIWFyd~ed~~rI~~ll~~lv~~~ 127 (402)
.|+.-=-.+.+..||-|.+++||+.+.+.+++.+..-
T Consensus 106 ~ffhtFegddc~aGLnF~~E~EA~~F~k~V~~r~~~~ 142 (569)
T KOG3671|consen 106 TFFHTFEGDDCQAGLNFASEEEAQKFRKKVQDRICHR 142 (569)
T ss_pred cceeeeccccceeeecccCHHHHHHHHHHHHHHhhhh
Confidence 6664333556799999999999999999888766554
No 7
>smart00160 RanBD Ran-binding domain. Domain of apporximately 150 residues that stabilises the GTP-bound form of Ran (the Ras-like nuclear small GTPase).
Probab=95.40 E-value=0.19 Score=44.37 Aligned_cols=92 Identities=18% Similarity=0.433 Sum_probs=69.4
Q ss_pred CcEEEEEeeCCCCCccccCceeeEEEEEeCCC-CceEEEEecCCCCCCcee--eCcCcceeEEeC---CEEEE-E--cC-
Q psy3152 29 THVALYSFNGHKSEWDKTNIEGALFVYRRVES-PLYSMFILNRNSPENLLE--PVVKELDLQLQN---PFILY-K--NK- 98 (402)
Q Consensus 29 shVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~-P~y~liILNR~s~eNfie--~It~~le~elq~---~fLiy-R--n~- 98 (402)
..|-||.|+..+++|.-.|+ |.|.|...... -+|+|+ |-|.+...++. .|.+++.++... +.+++ . .+
T Consensus 25 ~r~KL~~~~~~~~~WkerG~-G~lki~~~~~~~~~~Riv-mR~~~~~kv~lN~~i~~~~~~~~~~~~~~~~~~~~~d~~d 102 (130)
T smart00160 25 ARAKLYRFANDKKEWKERGV-GDLKILKSKDNGGKVRIV-MRRDGVLKVCANHPIFKSMTLKPLAGSNRALKWTPEDFAD 102 (130)
T ss_pred EEeEEEEEcCCCCCCeeccE-EEEEEEEcCCCCCeEEEE-EEECCCceEEeccEecCCcEEeecCCCcceEEEeeeecCC
Confidence 56889999988999999998 99999888766 567664 55666666665 478888887553 45544 2 11
Q ss_pred ---CCcEEEEEeeccchhHHHHHHHHH
Q psy3152 99 ---QGLIYGIWFYNKEDCHRISDILQS 122 (402)
Q Consensus 99 ---~~~IyGIWFyd~ed~~rI~~ll~~ 122 (402)
....|.|=|-+.++++.+.+.+++
T Consensus 103 ~~~~~~~~~irfk~~e~a~~f~~~~~e 129 (130)
T smart00160 103 DIPKLVLYAVRFKTKEEADSFKNIFEE 129 (130)
T ss_pred CCCceEEEEEEeCCHHHHHHHHHHHHh
Confidence 248899999999999998887763
No 8
>cd01205 WASP WASP-type EVH1 domain. WASP-type EVH1 domain. Wiskott-Aldrich syndrome (WAS) is an X-linked recessive disease, characterized by eczema, immunodeficiency, and thrombocytopenia. The majority of patients with WAS, or a milder version of the disorder, X-linked thrombocytopenia (XLT), have point mutations in the EVH1 domain of WASP (Wiskott-Aldrich syndrome protein). WASP is an actin regulatory protein consisting of an N-terminal EVH1 domain, a basic region, a GTP binding domain, a proline rich region and a WH2 acidic region. Yeast members lack the GTP binding domain. WASP binds a 25 residue proline rich motif from the WASP Interacting Protein (WIP) via its N-terminal EVH1 domain.
Probab=95.21 E-value=0.19 Score=43.65 Aligned_cols=95 Identities=15% Similarity=0.269 Sum_probs=74.0
Q ss_pred hCCcEEEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCCCC-CCceeeCcCcceeEEeCCEEEEEcCCCcEEEE
Q psy3152 27 SATHVALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRNSP-ENLLEPVVKELDLQLQNPFILYKNKQGLIYGI 105 (402)
Q Consensus 27 ~AshVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~s~-eNfie~It~~le~elq~~fLiyRn~~~~IyGI 105 (402)
.++-|-||.=.+..++|.++ ..|.|-+++-...--|-|=|..-++- -=|-..|..++++...-+|+.-=-..+.+.||
T Consensus 8 ~~aVvqlY~a~p~~~~W~~~-~~Gvl~~vkD~~~~sy~lrl~D~~~~~v~weqElY~~f~y~~~r~fFhtFe~d~c~~GL 86 (105)
T cd01205 8 ATAVVQLYKAYPDPGRWTKT-LTGAVCLVKDNVQKSYFIRLFDIKANRIIWEQELYDNFEYQQPRPFFHTFEGDDCVVGL 86 (105)
T ss_pred EEEEEEEEEecCCCCeeEEE-eEEEEEEEEECCCCEEEEEEEEccCCcEEEEEEcccCcEEccCCCcEEEEeccCcEEEE
Confidence 35678899987778999999 99999999876554455555555552 23456789999999888887655566999999
Q ss_pred EeeccchhHHHHHHHHH
Q psy3152 106 WFYNKEDCHRISDILQS 122 (402)
Q Consensus 106 WFyd~ed~~rI~~ll~~ 122 (402)
=|-|++|...+.+.+.+
T Consensus 87 ~Fade~EA~~F~k~v~~ 103 (105)
T cd01205 87 NFADETEAAEFRKKVLD 103 (105)
T ss_pred EECCHHHHHHHHHHHHh
Confidence 99999999998876653
No 9
>cd00835 RanBD Ran-binding domain. Ran-binding domain; This domain of approximately 150 residues shares structural similarity to the PH domain, but lacks detectable sequence similarity. Ran is a Ras-like nuclear small GTPase, which regulates receptor-mediated transport between the nucleus and the cytoplasm. RanGTP hydrolysis is stimulated by RanGAP together with the Ran-binding domain containing acessory proteins RanBP1 and RanBP2. These accessory proteins stabilize the active GTP-bound form of Ran . The Ran-binding domain is found in multiple copies in Nuclear pore complex proteins.
Probab=95.12 E-value=0.28 Score=42.38 Aligned_cols=94 Identities=18% Similarity=0.402 Sum_probs=71.0
Q ss_pred CCcEEEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCCCCCCcee--eCcCcceeEEeC---CEEEEE--c---
Q psy3152 28 ATHVALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRNSPENLLE--PVVKELDLQLQN---PFILYK--N--- 97 (402)
Q Consensus 28 AshVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~s~eNfie--~It~~le~elq~---~fLiyR--n--- 97 (402)
...|-||.|+..+++|...|+ |+|.|......-+|++++ -|.++..++. .|.+++.++..+ .+++|- +
T Consensus 15 ~~r~KLy~~~~~~~~WkerG~-G~lki~~~k~~~~~Rivm-R~d~~~kv~lN~~i~~~~~~~~~~~~~k~~~~~~~d~~~ 92 (122)
T cd00835 15 SVRAKLYRFDDETKEWKERGV-GELKILKHKDTGKYRLLM-RRDQVLKLCLNHKLVPGMKLQPMGNSDKSIVWAAMDFSD 92 (122)
T ss_pred EEEeEEEEEcCCCCCCeeceE-EEEEEEEcCCCCcEEEEE-EeCCccEEEEeeEecCCcEEeecCCCCcEEEEEeeecCC
Confidence 346899999988899999886 899999887666777654 4445555554 478999999885 677663 2
Q ss_pred --CCCcEEEEEeeccchhHHHHHHHHHH
Q psy3152 98 --KQGLIYGIWFYNKEDCHRISDILQSL 123 (402)
Q Consensus 98 --~~~~IyGIWFyd~ed~~rI~~ll~~l 123 (402)
..-..|.|=|-++++++++.+.++..
T Consensus 93 ~~~~~~~~~lrfk~~~~a~~f~~~~~~~ 120 (122)
T cd00835 93 DEPKPETFAIRFKTEEIADEFKEAIEEA 120 (122)
T ss_pred CCCcEEEEEEEECCHHHHHHHHHHHHHh
Confidence 13468999999999999988877654
No 10
>cd01207 Ena-Vasp Enabled-VASP-type homology (EVH1) domain. Enabled-VASP-type homology (EVH1) domain. The EVH1 domain binds to other proteins at proline rich sequences. It is found in proteins involved in cytoskeletal reorganization such as Enabled and VASP. Ena-VASP type EVH1 domains specifically recognize FPPPP motifs in the focal adhesion proteins zyxin and vinculin, and the ActA surface protein of Listeria monocytogenes. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=94.54 E-value=0.46 Score=41.71 Aligned_cols=96 Identities=18% Similarity=0.412 Sum_probs=69.7
Q ss_pred CcEEEEEeeCCCCCccccCce--e--eEEEEEeCCCCceEEEEecCC-CCCCce--eeCcCcceeEEeCC-EEEEEcCCC
Q psy3152 29 THVALYSFNGHKSEWDKTNIE--G--ALFVYRRVESPLYSMFILNRN-SPENLL--EPVVKELDLQLQNP-FILYKNKQG 100 (402)
Q Consensus 29 shVvVY~Fd~~tneWeKtdIE--G--tLFVy~Rs~~P~y~liILNR~-s~eNfi--e~It~~le~elq~~-fLiyRn~~~ 100 (402)
.-+.|..||+.++.|.-.+-- | .+-||.....--|++ .-|+ .-+-++ -.|.+++.+...-+ |.-||.. .
T Consensus 7 ~rA~Vm~~d~~tk~W~P~~~~~~~ls~V~~~~~~~~~~yrI--vg~~~~~~~~v~e~~l~~~l~y~k~~p~Fh~w~~~-~ 83 (111)
T cd01207 7 ARASVMVYDDSNKKWVPAGGGSQGFSRVQIYHHPRNNTFRV--VGRKLQDHQVVINCAIVKGLKYNQATPTFHQWRDA-R 83 (111)
T ss_pred EEEEeeEEcCCCCcEEcCCCCCCCcceEEEEEcCCCCEEEE--EEeecCCCcEEEEEEecCCceeeecCCcceeeecC-C
Confidence 457888999999999997653 5 567777654444443 3433 223333 36889998865555 5578876 4
Q ss_pred cEEEEEeeccchhHHHHHHHHHHHHHh
Q psy3152 101 LIYGIWFYNKEDCHRISDILQSLVKEL 127 (402)
Q Consensus 101 ~IyGIWFyd~ed~~rI~~ll~~lv~~~ 127 (402)
.+|||=|-+++|..++...|.+-++.+
T Consensus 84 ~v~GLnF~Se~eA~~F~~~v~~Al~~L 110 (111)
T cd01207 84 QVYGLNFGSKEDATMFASAMLSALEVL 110 (111)
T ss_pred eEEeeccCCHHHHHHHHHHHHHHHHhh
Confidence 899999999999999999998888765
No 11
>PF00638 Ran_BP1: RanBP1 domain; InterPro: IPR000156 Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran Binding Protein 1 (RanBP1) has guanine nucleotide dissociation inhibitory activity, specific for the GTP form of Ran and also functions to stimulate Ran GTPase activating protein(GAP)-mediated GTP hydrolysis by Ran. RanBP1 contributes to maintaining the gradient of RanGTP across the nuclear envelope high (GDI activity) or the cytoplasmic levels of RanGTP low (GAP cofactor) []. All RanBP1 proteins contain an approx 150 amino acid residue Ran binding domain. Ran BP1 binds directly to RanGTP with high affinity. There are four sites of contact between Ran and the Ran binding domain. One of these involves binding of the C-terminal segment of Ran to a groove on the Ran binding domain that is analogous to the surface utilised in the EVH1-peptide interaction []. Nup358 contains four Ran binding domains. The structure of the first of these is known [].; GO: 0046907 intracellular transport; PDB: 2Y8F_A 2Y8G_B 2CRF_A 1XKE_A 1RRP_D 2EC1_A 3M1I_B 1K5D_E 3OAN_A 3N7C_A ....
Probab=90.07 E-value=3.2 Score=35.38 Aligned_cols=95 Identities=19% Similarity=0.421 Sum_probs=61.8
Q ss_pred CcEEEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCCCCCCcee--eCcCcceeEEeC---CEEEE-E-c---C
Q psy3152 29 THVALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRNSPENLLE--PVVKELDLQLQN---PFILY-K-N---K 98 (402)
Q Consensus 29 shVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~s~eNfie--~It~~le~elq~---~fLiy-R-n---~ 98 (402)
..|-||.|+..+++|...|+ |.|.|......-.|+|++-+- +...++. .|.+++.++... ..+++ . . +
T Consensus 15 ~r~Kl~~~~~~~~~W~erG~-G~l~i~~~k~~~~~RlvmR~d-~~~kv~lN~~i~~~m~~~~~~~~~~~~~~~~~~~~~~ 92 (122)
T PF00638_consen 15 VRAKLYRFDKEDKEWKERGV-GTLKILKHKETGKYRLVMRRD-GTGKVLLNHPIFKGMKLKPMKGSEKSLVWTAIDYADE 92 (122)
T ss_dssp EEEEEEEEETTTTEEEEEEE-EEEEEEEETTSCEEEEEEEET-TTTEEEEEEE--TTC-EEESTTTTTEEEEEEEECTTS
T ss_pred EEEEEEEEeCCCCCccccce-eEEEEEEccCCcceEEEEEEc-ccCceeEEEEecCCceecccccCCcEEEEEeccccCC
Confidence 35899999988999977775 888888776555666655444 4444543 478888886544 33433 1 1 1
Q ss_pred --CCcEEEEEeeccchhHHHHHHHHHHHH
Q psy3152 99 --QGLIYGIWFYNKEDCHRISDILQSLVK 125 (402)
Q Consensus 99 --~~~IyGIWFyd~ed~~rI~~ll~~lv~ 125 (402)
.-..|-|=|-+.++++.+.+.+.+..+
T Consensus 93 ~~~~~~~~irf~~~e~a~~f~~~i~e~~~ 121 (122)
T PF00638_consen 93 EGKPETYLIRFKSAEDADEFKKKIEEAKE 121 (122)
T ss_dssp SSEEEEEEEE-SSHHHHHHHHHHHHHHHH
T ss_pred CCceEEEEEEECCHHHHHHHHHHHHHHhc
Confidence 235777888888999998888876544
No 12
>cd01206 Homer Homer type EVH1 domain. Homer type EVH1 domain. Homer is a synaptic scaffolding protein, involved in neuronal signaling. It contains an EVH1 domain, which binds to both neurotransmitter receptors, such as the metabotropic glutamate receptor (mGluR) and to other scaffolding proteins via PPXXF motifs, in order to target them to the synaptic junction. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=88.68 E-value=2.9 Score=36.97 Aligned_cols=95 Identities=8% Similarity=0.290 Sum_probs=70.4
Q ss_pred CcEEEEEeeCCCC-CccccCcee-eEEEEEeCCCCceEEEEecCCCCCCcee--eCcCcceeEEeCC-EEEEEcCC-CcE
Q psy3152 29 THVALYSFNGHKS-EWDKTNIEG-ALFVYRRVESPLYSMFILNRNSPENLLE--PVVKELDLQLQNP-FILYKNKQ-GLI 102 (402)
Q Consensus 29 shVvVY~Fd~~tn-eWeKtdIEG-tLFVy~Rs~~P~y~liILNR~s~eNfie--~It~~le~elq~~-fLiyRn~~-~~I 102 (402)
+-+.|+.||+.++ .|.-.+-.+ ++-+|.-.....|++|= +.+. ..++ .|++++.+...-+ |==+|+.+ ..+
T Consensus 9 arA~V~~yd~~tKk~WvPs~~~~~~V~~y~~~~~ntfRIi~--~~~~-~~iINc~i~~~~~y~kas~~FhQWrD~R~~tV 85 (111)
T cd01206 9 TRAHVFQIDPKTKKNWIPASKHAVTVSYFYDSTRNVYRIIS--VGGT-KAIINSTITPNMTFTKTSQKFGQWADSRANTV 85 (111)
T ss_pred eeeEEEEECCCCcceeEeCCCCceeEEEEecCCCcEEEEEE--ecCc-EEEEeccccCCcceeeccccccccccccccee
Confidence 5678888998765 999877421 45566666667788776 3343 3333 5888888875544 66888887 599
Q ss_pred EEEEeeccchhHHHHHHHHHHHHH
Q psy3152 103 YGIWFYNKEDCHRISDILQSLVKE 126 (402)
Q Consensus 103 yGIWFyd~ed~~rI~~ll~~lv~~ 126 (402)
|||=|-+++|.+++++.+++.++.
T Consensus 86 yGLnF~Sk~ea~~F~~~f~~~~~~ 109 (111)
T cd01206 86 YGLGFSSEQQLTKFAEKFQEVKEA 109 (111)
T ss_pred eecccCCHHHHHHHHHHHHHHHHh
Confidence 999999999999999999877653
No 13
>KOG4693|consensus
Probab=63.12 E-value=4.2 Score=41.57 Aligned_cols=22 Identities=32% Similarity=0.718 Sum_probs=20.0
Q ss_pred EEEEEeeCCCCCccccCceeeE
Q psy3152 31 VALYSFNGHKSEWDKTNIEGAL 52 (402)
Q Consensus 31 VvVY~Fd~~tneWeKtdIEGtL 52 (402)
-+||.||++++.|.|..|||++
T Consensus 105 N~Ly~fDp~t~~W~~p~v~G~v 126 (392)
T KOG4693|consen 105 NLLYEFDPETNVWKKPEVEGFV 126 (392)
T ss_pred ceeeeeccccccccccceeeec
Confidence 3699999999999999999965
No 14
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=55.04 E-value=5.4 Score=31.76 Aligned_cols=15 Identities=40% Similarity=0.997 Sum_probs=11.4
Q ss_pred CCcEEEEEeeccchh
Q psy3152 99 QGLIYGIWFYNKEDC 113 (402)
Q Consensus 99 ~~~IyGIWFyd~ed~ 113 (402)
.+---|||||++.++
T Consensus 38 ~dYP~GiWFFNE~~~ 52 (62)
T PF10781_consen 38 EDYPAGIWFFNEKDS 52 (62)
T ss_pred CcCCcceEEEecCCC
Confidence 345569999999775
No 15
>PF13926 DUF4211: Domain of unknown function (DUF4211)
Probab=42.43 E-value=36 Score=30.56 Aligned_cols=33 Identities=30% Similarity=0.509 Sum_probs=27.3
Q ss_pred CHHHHHHHHHHHHhc--ChHHHHHHH----HHHHhhhhh
Q psy3152 366 TKNQIVQAVSHLLKH--DADFVNKLH----EAYLNSFKD 398 (402)
Q Consensus 366 ~~~ql~~a~~~li~~--d~~f~~~~h----eay~~~~~~ 398 (402)
.++.|.-.+.|||.+ |++|+..++ +-|+.++.+
T Consensus 36 ~k~~F~~~ve~lv~~aldp~f~~~l~~~~de~fl~a~~~ 74 (153)
T PF13926_consen 36 LKEHFKIYVEWLVSNALDPDFLQELEDERDEYFLPALKK 74 (153)
T ss_pred HHHHHHHHHHHHHHHHcCHHHHHHHhhhhHHHHHHHHHH
Confidence 466777778888754 999999999 999999876
No 16
>PRK10708 hypothetical protein; Provisional
Probab=36.34 E-value=53 Score=26.34 Aligned_cols=24 Identities=21% Similarity=0.559 Sum_probs=15.2
Q ss_pred eeeEEEEEeCCCCceEEEEecCCCC
Q psy3152 49 EGALFVYRRVESPLYSMFILNRNSP 73 (402)
Q Consensus 49 EGtLFVy~Rs~~P~y~liILNR~s~ 73 (402)
||+||++.....|. ++-..|-.+-
T Consensus 29 EG~MyLvaL~dYP~-GiWFFNE~~~ 52 (62)
T PRK10708 29 EGTMYLVSLEDYPL-GIWFFNEAGH 52 (62)
T ss_pred CcEEEEEEcCcCCC-ceEEEeccCC
Confidence 67888887777775 4444554443
No 17
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=35.36 E-value=57 Score=27.65 Aligned_cols=50 Identities=14% Similarity=0.300 Sum_probs=37.2
Q ss_pred hHHHHhhCCcE-EEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCC
Q psy3152 21 VKDLVDSATHV-ALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRN 71 (402)
Q Consensus 21 I~sIL~~AshV-vVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~ 71 (402)
.++++..-..+ .+|.|-..++.|.....++.+|.-.....|.| |+..|+.
T Consensus 55 ~~~~~~~g~~~~~~yR~~~k~g~~vwvqt~~~~~~n~~~~~~~~-Iv~~n~v 105 (111)
T PF14598_consen 55 HREVLQKGQSVSPYYRFRTKNGGYVWVQTKATLFYNPWTSKPEF-IVCTNTV 105 (111)
T ss_dssp HHHHHHHSSEEEEEEEEE-TTSSEEEEEEEEEEEEETTTTCEEE-EEEEEEE
T ss_pred HHHHhhCCCcCcceEEEEecCCcEEEEEEEEEEEECCCCCCccE-EEEEEEE
Confidence 44555554434 48999999999999999999999777777765 6677764
No 18
>PF13964 Kelch_6: Kelch motif
Probab=34.49 E-value=26 Score=25.01 Aligned_cols=20 Identities=5% Similarity=0.287 Sum_probs=16.1
Q ss_pred CCcEEEEEeeCCCCCccccC
Q psy3152 28 ATHVALYSFNGHKSEWDKTN 47 (402)
Q Consensus 28 AshVvVY~Fd~~tneWeKtd 47 (402)
...-.||.||.++++|++..
T Consensus 25 ~~~~~v~~yd~~t~~W~~~~ 44 (50)
T PF13964_consen 25 KYSNDVERYDPETNTWEQLP 44 (50)
T ss_pred CccccEEEEcCCCCcEEECC
Confidence 34567899999999999853
No 19
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=34.02 E-value=44 Score=24.19 Aligned_cols=29 Identities=17% Similarity=0.385 Sum_probs=24.6
Q ss_pred CCCCCHHHHHHHHHHHHhcChHHHHHHHH
Q psy3152 362 IEPLTKNQIVQAVSHLLKHDADFVNKLHE 390 (402)
Q Consensus 362 ~~~l~~~ql~~a~~~li~~d~~f~~~~he 390 (402)
++.|+++||+.-|.-++..+|+.-..|+.
T Consensus 7 LE~Ld~~qL~~lL~~l~~~HPei~~~i~~ 35 (38)
T PF14483_consen 7 LETLDKDQLQSLLQSLCERHPEIQQEIRS 35 (38)
T ss_dssp HTTS-HHHHHHHHHHHHHHSTHHHHHHHT
T ss_pred HHHcCHHHHHHHHHHHHHhChhHHHHHHh
Confidence 36799999999999999999999888763
No 20
>PF01344 Kelch_1: Kelch motif; InterPro: IPR006652 Kelch is a 50-residue motif, named after the Drosophila mutant in which it was first identified []. This sequence motif represents one beta-sheet blade, and several of these repeats can associate to form a beta-propeller. For instance, the motif appears 6 times in Drosophila egg-chamber regulatory protein, creating a 6-bladed beta-propeller. The motif is also found in mouse protein MIPP [] and in a number of poxviruses. In addition, kelch repeats have been recognised in alpha- and beta-scruin [, ], and in galactose oxidase from the fungus Dactylium dendroides [, ]. The structure of galactose oxidase reveals that the repeated sequence corresponds to a 4-stranded anti-parallel beta-sheet motif that forms the repeat unit in a super-barrel structural fold []. The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila []. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase []. This entry represents a type of kelch sequence motif that comprises one beta-sheet blade.; GO: 0005515 protein binding; PDB: 2XN4_A 2WOZ_A 3II7_A 4ASC_A 1U6D_X 1ZGK_A 2FLU_X 2VPJ_A 2DYH_A 1X2R_A ....
Probab=31.24 E-value=32 Score=23.88 Aligned_cols=20 Identities=5% Similarity=0.356 Sum_probs=16.7
Q ss_pred hCCcEEEEEeeCCCCCcccc
Q psy3152 27 SATHVALYSFNGHKSEWDKT 46 (402)
Q Consensus 27 ~AshVvVY~Fd~~tneWeKt 46 (402)
......+|.||..++.|++.
T Consensus 24 ~~~~~~v~~yd~~~~~W~~~ 43 (47)
T PF01344_consen 24 NQPTNSVEVYDPETNTWEEL 43 (47)
T ss_dssp SSBEEEEEEEETTTTEEEEE
T ss_pred CceeeeEEEEeCCCCEEEEc
Confidence 45567899999999999874
No 21
>PF10539 Dev_Cell_Death: Development and cell death domain; InterPro: IPR013989 The DCD (Development and Cell Death) domain is found in plant proteins involved in development and cell death. The DCD domain is an ~130 amino acid long stretch that contains several mostly invariable motifs. These include a FGLP and a LFL motif at the N terminus and a PAQV and a PLxE motif towards the C terminus of the domain. The DCD domain is present in proteins with different architectures. Some of these proteins contain additional recognizable motifs, like the KELCH repeats or the ParB domain []. Biological studies indicate a role of these proteins in phytohormone response, embryo development and programmed cell death by pathogens or ozone. The predicted secondary structure of the DCD domain is mostly composed of beta strands and confined by an alpha-helix at the N- and at the C terminus []. Proteins known to contain a DCD domain are listed below: Carrot B2 protein. Pea Gda-1 protein. Soybean N-rich protein (NRP).
Probab=31.22 E-value=40 Score=30.66 Aligned_cols=52 Identities=19% Similarity=0.461 Sum_probs=38.8
Q ss_pred eeeEEEEEeCCCC---ceEEEEecCCCCCCceeeCcCcceeEEeCCEEEEEcCCCcEEEEEe
Q psy3152 49 EGALFVYRRVESP---LYSMFILNRNSPENLLEPVVKELDLQLQNPFILYKNKQGLIYGIWF 107 (402)
Q Consensus 49 EGtLFVy~Rs~~P---~y~liILNR~s~eNfie~It~~le~elq~~fLiyRn~~~~IyGIWF 107 (402)
-|.+|+|.....+ +++++=|.+... ++++.|.+++ +..+|--+...+||||=
T Consensus 2 gG~IF~Cn~~T~~ECf~~~lFGLP~~~~-~~V~~I~pG~------~LFLfn~~~r~L~Gife 56 (130)
T PF10539_consen 2 GGFIFMCNNKTKPECFRRQLFGLPAGHK-DFVKKIKPGM------PLFLFNYSDRKLYGIFE 56 (130)
T ss_pred ceEEEEECCCCHHHHHhcccccCChhhh-hHHheeCCCC------EEEEEEcCCCEEEEEEE
Confidence 4899999998766 477777777644 4778888887 44567777788888874
No 22
>KOG4590|consensus
Probab=30.44 E-value=1.1e+02 Score=32.64 Aligned_cols=124 Identities=14% Similarity=0.298 Sum_probs=82.5
Q ss_pred EeeCCCCCccccCceeeE----EEEEeCCCCceEEEEecCCCC--CCcee-eCcCccee-EEeCCEEEEEcCCCcEEEEE
Q psy3152 35 SFNGHKSEWDKTNIEGAL----FVYRRVESPLYSMFILNRNSP--ENLLE-PVVKELDL-QLQNPFILYKNKQGLIYGIW 106 (402)
Q Consensus 35 ~Fd~~tneWeKtdIEGtL----FVy~Rs~~P~y~liILNR~s~--eNfie-~It~~le~-elq~~fLiyRn~~~~IyGIW 106 (402)
.||..++.|.-.+.-|.= .+|..-..+-|++ |.+|... ...+. .|.+++.+ +.+.-|--||.+ ..||||=
T Consensus 2 ~ydd~~k~W~p~g~g~~~~s~V~~~~h~~~n~frV-vg~k~qdd~~vVlnC~I~kGlkYnkatptFHqWR~a-rqvyGLn 79 (409)
T KOG4590|consen 2 TYDDSQKGWLPAGGGGAALSKVRIYHHTSGNTFRV-VGRKSQDDQQVVLNCLILKGLKYNKATPTFHQWRDA-RQVYGLT 79 (409)
T ss_pred cccccccccccccccCcccceeEEEeeccCCceeE-EeeecccCcccccccccccCcceeecccchhhhhhh-hhhhccc
Confidence 478889999998877654 4555555565543 4455543 22222 37777764 466667788988 8999999
Q ss_pred eeccchhHHHHHHHHHHHHHhhcCCCCCCCC--CCCCCCCCCCCcchHHHHHHHhH
Q psy3152 107 FYNKEDCHRISDILQSLVKELTHTPSSSKPN--LKPKKPVEQMGNGLIMNMLTKAQ 160 (402)
Q Consensus 107 Fyd~ed~~rI~~ll~~lv~~~~~~~~~~~p~--~~~~~~~~~~~~vdI~~mLskAq 160 (402)
|-.++|-..+...+-.-++.+........++ .....++..-...+++.-++.-+
T Consensus 80 Fqs~~DA~~Fa~~~~~A~e~l~~g~~~p~~~~q~~~~~n~~s~~e~~~~~~~~~~~ 135 (409)
T KOG4590|consen 80 FQSEQDARAFARGVPVAIEALSGGTPEPPPQPQPWPVTNGPSQSEDPVQTRLTRMS 135 (409)
T ss_pred ccChhhhhhhhhhhhhhhhhhccCCCCCCCcCCCCCCCCCCCcccccchhhhhhhh
Confidence 9999999999998888888888877633332 12223332223457777666444
No 23
>smart00612 Kelch Kelch domain.
Probab=30.12 E-value=42 Score=22.50 Aligned_cols=19 Identities=5% Similarity=0.267 Sum_probs=15.7
Q ss_pred CcEEEEEeeCCCCCccccC
Q psy3152 29 THVALYSFNGHKSEWDKTN 47 (402)
Q Consensus 29 shVvVY~Fd~~tneWeKtd 47 (402)
....++.||+.+++|++..
T Consensus 13 ~~~~v~~yd~~~~~W~~~~ 31 (47)
T smart00612 13 RLKSVEVYDPETNKWTPLP 31 (47)
T ss_pred eeeeEEEECCCCCeEccCC
Confidence 4567899999999998754
No 24
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=29.64 E-value=3.6e+02 Score=31.32 Aligned_cols=102 Identities=12% Similarity=0.161 Sum_probs=70.9
Q ss_pred HhhCCcEEEEEeeCCCCCccccCceeeEEEEEeCCCCceEEEEecCCCCCCceeeCcCcceeEEeCCEE--EEEc----C
Q psy3152 25 VDSATHVALYSFNGHKSEWDKTNIEGALFVYRRVESPLYSMFILNRNSPENLLEPVVKELDLQLQNPFI--LYKN----K 98 (402)
Q Consensus 25 L~~AshVvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~y~liILNR~s~eNfie~It~~le~elq~~fL--iyRn----~ 98 (402)
+.....|.||-||..+..|+-.+-.=..-|++-.. =.|.|.|-+... .-+...|..+++....-.++ ||.. +
T Consensus 249 ~~~~~~~~L~l~d~~~~~f~lq~~~v~~~i~~~~~-~~y~l~i~~~~~-~~l~~~v~s~mNp~F~~e~lSFiFN~~~~~~ 326 (794)
T PF08553_consen 249 ILASESAELYLYDPPTGKFVLQDSSVTAKIIETGK-WEYWLQIEGKDK-IWLGQPVSSDMNPVFNFEHLSFIFNYYTEDG 326 (794)
T ss_pred eeeeeeEEEEEEcCCCceEEEecCcEEEEEEEcCC-eEEEEEEecCCc-eEEeeeccCCcCeEEEcceeEEEEEeEcCCC
Confidence 44567899999999999999876544455555433 247777766542 23567888898877777766 3322 2
Q ss_pred CCcEEEEEeeccchhHHHHHHHHHHHHHhh
Q psy3152 99 QGLIYGIWFYNKEDCHRISDILQSLVKELT 128 (402)
Q Consensus 99 ~~~IyGIWFyd~ed~~rI~~ll~~lv~~~~ 128 (402)
....+-|=|.+.+++.++.+.+.+++=+-.
T Consensus 327 ~~~sw~lkF~~~~~~~~F~~~~~~~l~E~~ 356 (794)
T PF08553_consen 327 SAYSWLLKFKDQEDYERFQEKFMKCLWENL 356 (794)
T ss_pred ceEEEEEEeCCHHHHHHHHHHHHHHHHHHh
Confidence 346677779999999999987777665533
No 25
>PF13418 Kelch_4: Galactose oxidase, central domain; PDB: 2UVK_B.
Probab=28.21 E-value=35 Score=24.14 Aligned_cols=18 Identities=17% Similarity=0.438 Sum_probs=12.4
Q ss_pred CcEEEEEeeCCCCCcccc
Q psy3152 29 THVALYSFNGHKSEWDKT 46 (402)
Q Consensus 29 shVvVY~Fd~~tneWeKt 46 (402)
.+--+|.||.++++|++.
T Consensus 27 ~~~d~~~~d~~~~~W~~~ 44 (49)
T PF13418_consen 27 PLNDLWIFDIETNTWTRL 44 (49)
T ss_dssp E---EEEEETTTTEEEE-
T ss_pred ccCCEEEEECCCCEEEEC
Confidence 344679999999999886
No 26
>PF13415 Kelch_3: Galactose oxidase, central domain
Probab=26.12 E-value=43 Score=23.98 Aligned_cols=16 Identities=13% Similarity=0.517 Sum_probs=14.1
Q ss_pred EEEEEeeCCCCCcccc
Q psy3152 31 VALYSFNGHKSEWDKT 46 (402)
Q Consensus 31 VvVY~Fd~~tneWeKt 46 (402)
--+|.||..+++|++.
T Consensus 19 nd~~~~~~~~~~W~~~ 34 (49)
T PF13415_consen 19 NDVWVFDLDTNTWTRI 34 (49)
T ss_pred cCEEEEECCCCEEEEC
Confidence 4589999999999987
No 27
>PF09951 DUF2185: Protein of unknown function (DUF2185); InterPro: IPR018689 This domain has no known function.
Probab=25.96 E-value=61 Score=27.43 Aligned_cols=36 Identities=17% Similarity=0.334 Sum_probs=29.5
Q ss_pred hhHHHHHhcCcchHHHHhhCCcEEEEEeeCCCCCcccc
Q psy3152 9 VNVSAIRRVDPMVKDLVDSATHVALYSFNGHKSEWDKT 46 (402)
Q Consensus 9 lNL~VLqR~DP~I~sIL~~AshVvVY~Fd~~tneWeKt 46 (402)
..|+.+-++||.|..||+. +.-+.|..+...+ |.+.
T Consensus 51 ~~ln~i~~idp~i~~ll~~-p~Gt~~er~e~g~-~~~v 86 (89)
T PF09951_consen 51 VDLNTILNIDPSIIPLLDA-PYGTAFERDEDGE-FYEV 86 (89)
T ss_pred EeHHHHHhhChHHHHHhcC-CCCceEEECCCCC-EEEe
Confidence 4789999999999999985 7778888885554 9874
No 28
>smart00767 DCD DCD is a plant specific domain in proteins involved in development and programmed cell death. The domain is shared by several proteins in the Arabidopsis and the rice genomes, which otherwise show a different protein architecture. Biological studies indicate a role of these proteins in phytohormone response, embryo development and programmed cell death by pathogens or ozone.
Probab=25.46 E-value=58 Score=29.78 Aligned_cols=53 Identities=19% Similarity=0.333 Sum_probs=39.6
Q ss_pred ceeeEEEEEeCCCC---ceEEEEecCCCCCCceeeCcCcceeEEeCCEEEEEcCCCcEEEEEe
Q psy3152 48 IEGALFVYRRVESP---LYSMFILNRNSPENLLEPVVKELDLQLQNPFILYKNKQGLIYGIWF 107 (402)
Q Consensus 48 IEGtLFVy~Rs~~P---~y~liILNR~s~eNfie~It~~le~elq~~fLiyRn~~~~IyGIWF 107 (402)
.-|.+|+|..+..+ +++++=|.+... ++++.|.+++- ..+|--+...+|||+-
T Consensus 3 lgG~IF~Cn~~T~~Ecf~~~lFGLP~~~~-~~V~~IkpG~~------LFLfn~~~r~L~Gife 58 (132)
T smart00767 3 LGGYIFMCNNDTKEECFRRQLFGLPRGYR-DFVRNIKPGLP------LFLYNYDTRKLHGIFE 58 (132)
T ss_pred cceEEEEeCCCCHHHHHhcccccCChhhh-hhhheeCCCCE------EEEEecCCceeeeEEE
Confidence 56999999998876 578888885544 48899988873 4566667777888653
No 29
>PLN02772 guanylate kinase
Probab=22.25 E-value=1.6e+02 Score=31.33 Aligned_cols=56 Identities=20% Similarity=0.439 Sum_probs=38.2
Q ss_pred EEEEEeeCCCCCccccCceeeEEEEEeCCCCc--eEEEEecCCCCCCceeeCcCcceeEEeCCEEEEEcCCCcEEEEEee
Q psy3152 31 VALYSFNGHKSEWDKTNIEGALFVYRRVESPL--YSMFILNRNSPENLLEPVVKELDLQLQNPFILYKNKQGLIYGIWFY 108 (402)
Q Consensus 31 VvVY~Fd~~tneWeKtdIEGtLFVy~Rs~~P~--y~liILNR~s~eNfie~It~~le~elq~~fLiyRn~~~~IyGIWFy 108 (402)
-.||-||..++.|.+.-|.|+- ..|+ |+.+|+|. +..|+++.....=-.|||-
T Consensus 51 ~~v~i~D~~t~~W~~P~V~G~~------P~~r~GhSa~v~~~-------------------~rilv~~~~~~~~~~~w~l 105 (398)
T PLN02772 51 IGVQILDKITNNWVSPIVLGTG------PKPCKGYSAVVLNK-------------------DRILVIKKGSAPDDSIWFL 105 (398)
T ss_pred ceEEEEECCCCcEecccccCCC------CCCCCcceEEEECC-------------------ceEEEEeCCCCCccceEEE
Confidence 4789999999999998888752 2222 66677663 4567777554444678887
Q ss_pred ccc
Q psy3152 109 NKE 111 (402)
Q Consensus 109 d~e 111 (402)
+-.
T Consensus 106 ~~~ 108 (398)
T PLN02772 106 EVD 108 (398)
T ss_pred EcC
Confidence 654
No 30
>PF12122 DUF3582: Protein of unknown function (DUF3582); InterPro: IPR022732 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents the N-terminal domain of membrane-bound serine endopeptidases belonging to MEROPS peptidase family S54 (rhomboid-1, clan ST). This domain contains a conserved ASW sequence motif and a single completely conserved residue F that may be functionally important. The tertiary structure of the GlpG protein from Escherichia coli has been determined []. The GlpG protein has six transmembrane domains (other members of the family are predicted to have seven), with the N- and C-terminal ends anchored in the cytoplasm. One transmembrane domain is shorter than the rest, creating an internal, aqueous cavity just below the membrane surface and it is here were proteolysis occurs. There is also a membrane-embedded loop between the first and second transmembrane domains which is postulated to act as a gate controlling substrate access to the active site. No other family of serine peptidases is known to have active site residues within transmembrane domains (although transmembrane active sites are known for aspartic peptidase and metallopeptidases), and the GlpG protein has the type structure for clan ST.; GO: 0004252 serine-type endopeptidase activity, 0016021 integral to membrane; PDB: 3UBB_A 3B45_A 3B44_A 2NRF_A 3TXT_A 2O7L_A 2XTU_A 2IRV_A 2XOW_A 2XTV_A ....
Probab=22.05 E-value=1.7e+02 Score=25.24 Aligned_cols=30 Identities=10% Similarity=0.340 Sum_probs=21.6
Q ss_pred CCCcEEEEEeeccchhHHHHHHHHHHHHHh
Q psy3152 98 KQGLIYGIWFYNKEDCHRISDILQSLVKEL 127 (402)
Q Consensus 98 ~~~~IyGIWFyd~ed~~rI~~ll~~lv~~~ 127 (402)
+++..+.||..|+++.+++...+.+.+.+-
T Consensus 32 ~~~~~~~lwl~de~~~~~a~~el~~Fl~nP 61 (101)
T PF12122_consen 32 EGQGQFALWLHDEEHLEQAEQELEEFLQNP 61 (101)
T ss_dssp SSSE--EEEES-GGGHHHHHHHHHHHHHS-
T ss_pred CCCCceEEEEeCHHHHHHHHHHHHHHHHCC
Confidence 667889999999999999888887666654
No 31
>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein
Probab=21.22 E-value=4.3e+02 Score=23.88 Aligned_cols=78 Identities=15% Similarity=0.273 Sum_probs=46.1
Q ss_pred ceeeEEEEEeCCCCceEEEEecCCCCCCcee-eCcCcc--eeEEeC------------CEEEEEcCCCcEEEEEeeccch
Q psy3152 48 IEGALFVYRRVESPLYSMFILNRNSPENLLE-PVVKEL--DLQLQN------------PFILYKNKQGLIYGIWFYNKED 112 (402)
Q Consensus 48 IEGtLFVy~Rs~~P~y~liILNR~s~eNfie-~It~~l--e~elq~------------~fLiyRn~~~~IyGIWFyd~ed 112 (402)
|||++.||-|+..=.|-+.--.-+-.+.+.. ++.++. .+.... .+=+..-+.|.||++......+
T Consensus 19 VEGPf~vwLrd~~V~YfvLradp~p~~~~~~~d~Dd~~~~~~p~~~~~~~~~~~~~~~~~~vheq~dGti~Amc~tg~~~ 98 (126)
T PF14784_consen 19 VEGPFSVWLRDKCVYYFVLRADPKPPEEFEKEDIDDVSNLYYPFWLDKEIDRGNWDEKKFSVHEQEDGTIFAMCMTGTSD 98 (126)
T ss_pred EECCcEEEEcCceEEEEEEeCCCCCccccccccCCCcccccccccccCcccccccccCCcceeEeccceEEEEEeccCCC
Confidence 8999999999855444332223333333221 233221 111111 1223334568999999999999
Q ss_pred hHHHHHHHHHHHH
Q psy3152 113 CHRISDILQSLVK 125 (402)
Q Consensus 113 ~~rI~~ll~~lv~ 125 (402)
.+-+.+.|..|.+
T Consensus 99 ~~sL~~WI~~Lq~ 111 (126)
T PF14784_consen 99 KDSLLSWIRGLQE 111 (126)
T ss_pred HHHHHHHHHHHHh
Confidence 9999888876655
No 32
>KOG1065|consensus
Probab=20.62 E-value=2.8e+02 Score=32.18 Aligned_cols=56 Identities=21% Similarity=0.381 Sum_probs=41.3
Q ss_pred eEEEEEeCCCCceEEEEecCCCCCCceeeCcCcceeEEeCCEEEEEcCCCcEEEEEeeccchhHHHH
Q psy3152 51 ALFVYRRVESPLYSMFILNRNSPENLLEPVVKELDLQLQNPFILYKNKQGLIYGIWFYNKEDCHRIS 117 (402)
Q Consensus 51 tLFVy~Rs~~P~y~liILNR~s~eNfie~It~~le~elq~~fLiyRn~~~~IyGIWFyd~ed~~rI~ 117 (402)
++|+|-|...-.+|+++||-.++|-+..+ .++|.||.- +.|+-+.||-...-+.+.
T Consensus 225 Pfymcle~~~~~~GVflLnSNamEv~~~p----------~p~L~YR~i-GGilD~y~flGptPe~vv 280 (805)
T KOG1065|consen 225 PFYLCLEDDSGAHGVFLLNSNAMEVTLRP----------GPSLTYRTI-GGILDFYVFLGPTPEGVV 280 (805)
T ss_pred cceeEeeccCCCceEEEeccCCceEEecc----------CCeeEEEee-cceEEEEEecCCChHHHH
Confidence 56777776655668899998876644443 899999985 478888999888555544
Done!