Query psy14863
Match_columns 319
No_of_seqs 183 out of 204
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 22:44:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14863.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14863hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1826|consensus 100.0 5E-39 1.1E-43 348.8 8.6 247 68-319 1971-2264(2724)
2 KOG1826|consensus 99.8 1.2E-21 2.5E-26 214.9 7.0 176 40-222 2101-2304(2724)
3 PF03378 CAS_CSE1: CAS/CSE pro 85.5 2.1 4.6E-05 43.7 6.6 70 109-178 64-149 (435)
4 PF02854 MIF4G: MIF4G domain; 75.4 50 0.0011 28.0 11.5 158 49-219 16-184 (209)
5 cd03561 VHS VHS domain family; 68.6 72 0.0016 27.0 10.2 112 74-202 1-122 (133)
6 KOG1992|consensus 66.6 47 0.001 37.3 10.3 71 109-179 586-672 (960)
7 cd03569 VHS_Hrs_Vps27p VHS dom 65.9 86 0.0019 27.2 10.2 115 74-202 5-123 (142)
8 PF14228 MOR2-PAG1_mid: Cell m 60.8 14 0.0003 42.4 5.4 50 269-318 939-988 (1120)
9 smart00288 VHS Domain present 59.2 1.1E+02 0.0024 26.0 10.2 118 74-202 1-120 (133)
10 PF14228 MOR2-PAG1_mid: Cell m 58.9 25 0.00053 40.5 6.9 70 146-215 938-1017(1120)
11 PRK15054 nitrate reductase 2 s 52.2 57 0.0012 31.2 7.2 131 160-316 19-155 (231)
12 cd03568 VHS_STAM VHS domain fa 46.2 2E+02 0.0044 25.1 10.1 118 74-202 1-119 (144)
13 PF00790 VHS: VHS domain; Int 42.9 65 0.0014 27.4 5.6 48 74-123 6-53 (140)
14 PF14225 MOR2-PAG1_C: Cell mor 37.2 3.9E+02 0.0084 25.7 10.8 75 25-102 61-143 (262)
15 KOG2346|consensus 34.7 46 0.001 35.5 4.0 40 53-92 586-625 (636)
16 smart00543 MIF4G Middle domain 26.6 4E+02 0.0086 22.6 13.8 115 47-177 14-128 (200)
17 PF03378 CAS_CSE1: CAS/CSE pro 24.5 23 0.0005 36.3 -0.2 86 205-300 48-149 (435)
18 PF13581 HATPase_c_2: Histidin 21.6 1.8E+02 0.004 23.1 4.6 49 42-90 4-52 (125)
19 cd00197 VHS_ENTH_ANTH VHS, ENT 21.5 4.4E+02 0.0094 21.2 10.3 100 75-188 2-109 (115)
20 PF14706 Tnp_DNA_bind: Transpo 20.8 1.4E+02 0.0031 22.6 3.5 38 111-148 15-53 (58)
No 1
>KOG1826|consensus
Probab=100.00 E-value=5e-39 Score=348.76 Aligned_cols=247 Identities=30% Similarity=0.429 Sum_probs=235.3
Q ss_pred hhHHHHHHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHH
Q psy14863 68 ELIDMVLDSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARY 147 (319)
Q Consensus 68 ~Li~ivldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~ 147 (319)
++.+.++|.+++...++|.|+.+.|+||++.++++|.||++|+.++|.|.|+++++++.+|++++|+|..|+.+++|.|+
T Consensus 1971 ~~~~~vlnnf~~~s~~~glgs~~lelva~t~l~l~s~nvk~vS~nlI~~~c~~~d~~~t~p~~s~Eq~v~wD~~t~L~r~ 2050 (2724)
T KOG1826|consen 1971 STSSPVLNNFVKQSKERGLGSCHLELVALTGLFLESKNVKNVSYNLIAATCASFDLNFTHPHRSPEQYVPWDTTTFLGRI 2050 (2724)
T ss_pred chhhHHHHHHHHhhhhccccchhhHHHHHHHHhhcccchhhhHHHHHHHHHHHhccccCCCCCCHhHhCCcccHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccchhhHhhhhhHHHHHHHHhhccCCchhHHhHhHhHHHH-hhhcccccHH----HHHHHHHHhhhhhhhccccc
Q psy14863 148 LLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVIRM-HTLWNDIAIM----ARYLLMLSFNNCLDVVRHLP 222 (319)
Q Consensus 148 ~l~LsF~n~l~aq~yLPEifhIVTLLi~~Gp~~vR~svhgLliNt-hSL~t~~~L~----~~~~l~~~~~~~~d~~~~~~ 222 (319)
..||||+|++++.-.+|++||.+|.+|.+||..+|.++|||++|+ ||+|++.+.. .++++++++++| ++|
T Consensus 2051 ~~mlS~sn~~~~a~~~pYl~h~ltfli~tg~~sl~~~t~~L~i~v~~al~~~~~~~~Se~~~~liRLSv~Ef-----s~p 2125 (2724)
T KOG1826|consen 2051 GKMLSESNPELTAYMFPYLLHALTFLIPTGICSLSYWTPNLYIHVYLALDEEGPENISEIFRILIRLSVREF-----SFP 2125 (2724)
T ss_pred HHHHcccChhhHHHHHHHHHhheeeeecccceeeeeccCcceeeeeecccccCchhHHHHHHHHHhhccccc-----cch
Confidence 999999999999999999999999999999999999999999999 9999999887 899999999999 999
Q ss_pred --chhheeeeeecccchhhhhhccCCCCC---------------------------------------CCCccccc-CCc
Q psy14863 223 --YLLHIVTMLVNTGPLNMRCSSHGLVIT---------------------------------------PMPSLEQH-TLW 260 (319)
Q Consensus 223 --~~l~~~~~~~~~~lsrlRkai~~ts~~---------------------------------------p~~~L~~h-~~W 260 (319)
||+||.+..+++|....|.+.+-.+.. |.-.++.. ++|
T Consensus 2126 kfYL~fg~s~lks~~~ltfr~~~~~~s~a~~~~s~~~~~l~al~tv~pt~ev~~~ai~kii~~~k~~lp~~el~~~~~s~ 2205 (2724)
T KOG1826|consen 2126 KFYLQFGWSLLKSDGRLTFRIVDEVISHALERDSENRDWLKALLTVLPTTEVANNAIQKIIAKIKSFLPSLELEAMTQSW 2205 (2724)
T ss_pred HHHHHHHHHHHHhcceeeeeeehhcccccccccchhhhhHHHHHhhcchHHHHHHHHHHHHHHHHhhCchhHHHHHHHHh
Confidence 999999999999999999888744433 34344444 899
Q ss_pred hHHHHHHHHHHHHhcccchhhhhhhhHHHHHHHHHhccCchhHHHHHHHHHHHHHhhcC
Q psy14863 261 NDIAIMARYLLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVINIIHSLL 319 (319)
Q Consensus 261 ~Ei~iL~r~~l~lsF~~~~~~q~~lPel~hivtlL~~~Gp~~~R~svh~l~iN~~hsL~ 319 (319)
+|..++.|..+..+|.+.+.+|+|+||++|||++|+++||.++|.+.|.++||+|||+.
T Consensus 2206 s~~ti~~k~~v~~~~~s~lls~m~l~eil~~vs~lidv~~k~l~s~~~qlLm~~~~~~l 2264 (2724)
T KOG1826|consen 2206 SELTILVKISVHVFFESSLLSQMYLPEILFIVSLLIDVGPKELRSSLHQLLMNVCHSLL 2264 (2724)
T ss_pred hcchhhhcchhhhhhhhhhhhhchHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999973
No 2
>KOG1826|consensus
Probab=99.84 E-value=1.2e-21 Score=214.87 Aligned_cols=176 Identities=22% Similarity=0.325 Sum_probs=163.4
Q ss_pred CCCchhHHHHHHHHHHH-----------HHHHHHhh-chhhhHHHHHHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhH
Q psy14863 40 HPNSTTITRTTRLLTSI-----------LGYFYVSL-LVPELIDMVLDSFLQRSLESGVNSTVVEILADTAVALASANVQ 107 (319)
Q Consensus 40 ~~~~~tISRi~RlL~~L-----------l~~~w~l~-~~~~Li~ivldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~ 107 (319)
-.+|+.+|++.|.+.+| +.+.|... .++++.+.++||.+.+|.+++.++++|-.. +.+++ ++.+
T Consensus 2101 ~~~~~~~Se~~~~liRLSv~Efs~pkfYL~fg~s~lks~~~ltfr~~~~~~s~a~~~~s~~~~~l~a--l~tv~--pt~e 2176 (2724)
T KOG1826|consen 2101 EEGPENISEIFRILIRLSVREFSFPKFYLQFGWSLLKSDGRLTFRIVDEVISHALERDSENRDWLKA--LLTVL--PTTE 2176 (2724)
T ss_pred ccCchhHHHHHHHHHhhccccccchHHHHHHHHHHHHhcceeeeeeehhcccccccccchhhhhHHH--HHhhc--chHH
Confidence 46899999999999998 66667655 899999999999999999999999999875 66666 4556
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCCccc-cCChHHHHHHHHHHHHhhccchhhHhhhhhHHHHHHHHhhccCCchhHHhHh
Q psy14863 108 LVAKKIIVRLCRVLEKTGATPMPSLEQ-HTLWNDIAIMARYLLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSH 186 (319)
Q Consensus 108 lV~gkIIsRLrk~i~~Ts~~Ps~~L~~-h~~W~EI~IL~R~~l~LsF~n~l~aq~yLPEifhIVTLLi~~Gp~~vR~svh 186 (319)
|+..+|-|++..+. ++.|+..+++ .++|+|..+++|+.+..+|.+.+..|+|+|||+|||++|+++||.++|++.|
T Consensus 2177 -v~~~ai~kii~~~k--~~lp~~el~~~~~s~s~~ti~~k~~v~~~~~s~lls~m~l~eil~~vs~lidv~~k~l~s~~~ 2253 (2724)
T KOG1826|consen 2177 -VANNAIQKIIAKIK--SFLPSLELEAMTQSWSELTILVKISVHVFFESSLLSQMYLPEILFIVSLLIDVGPKELRSSLH 2253 (2724)
T ss_pred -HHHHHHHHHHHHHH--hhCchhHHHHHHHHhhcchhhhcchhhhhhhhhhhhhchHHHHHHHHHHHHHhhhhhhhhHHH
Confidence 88899999999998 7999999998 7799999999999999999999999999999999999999999999999999
Q ss_pred HhHHHH-hhhcccccHH--------------HHHHHHHHhhhhhhhccccc
Q psy14863 187 GLVIRM-HTLWNDIAIM--------------ARYLLMLSFNNCLDVVRHLP 222 (319)
Q Consensus 187 gLliNt-hSL~t~~~L~--------------~~~~l~~~~~~~~d~~~~~~ 222 (319)
.++||+ ||+.|+.+++ ++||+++..+|.+||||.||
T Consensus 2254 qlLm~~~~~~lt~~q~~lr~~s~l~~alfw~A~q~lq~de~~~y~~G~aLl 2304 (2724)
T KOG1826|consen 2254 QLLMNVCHSLLTNSQLPLRHRSNLDEALFWFAHQKLQFDEGFSYDKGRALL 2304 (2724)
T ss_pred HHHHHHHHHHHhccCcccCCCCcHHHHHHHHHHHHHhhhhhccccchhHHH
Confidence 999999 9999999988 99999999999999999999
No 3
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=85.48 E-value=2.1 Score=43.71 Aligned_cols=70 Identities=26% Similarity=0.524 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHHHHH------hhccchh----------hHhhhhhHHHHHHHH
Q psy14863 109 VAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARYLLM------LSFNNCL----------DVVRHLPYLLHIVTM 172 (319)
Q Consensus 109 V~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~~l~------LsF~n~l----------~aq~yLPEifhIVTL 172 (319)
.+..++.+|..+++..+.+|++.-..|-.|.-|++|+|++.. -.|++.+ +++-|.|++|-|.+.
T Consensus 64 ~~~~il~~L~~il~~v~kNPsnP~FnHylFEsi~~lir~~~~~~~~~v~~~E~~L~P~f~~ILq~dV~EF~PYvfQIla~ 143 (435)
T PF03378_consen 64 IAVEILQHLTAILKEVSKNPSNPRFNHYLFESIGALIRFVCEADPEAVSQFEEALFPPFQEILQQDVQEFIPYVFQILAQ 143 (435)
T ss_dssp GHHHHHHHHHHHHHHHHTS---HHHHHHHHHHHHHHHHHS-GGGHH---HHHHHHHHHHHHHHHTT-TTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhCCCCcchhhhHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999999999999999999999999999999553 2455433 245699999999999
Q ss_pred hhccCC
Q psy14863 173 LVNTGP 178 (319)
Q Consensus 173 Li~~Gp 178 (319)
|...+|
T Consensus 144 Lle~~~ 149 (435)
T PF03378_consen 144 LLELRP 149 (435)
T ss_dssp HHHHSS
T ss_pred HHHcCC
Confidence 999998
No 4
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=75.42 E-value=50 Score=28.03 Aligned_cols=158 Identities=14% Similarity=0.108 Sum_probs=96.7
Q ss_pred HHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcCCC
Q psy14863 49 TTRLLTSILGYFYVSLLVPELIDMVLDSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEKTGATP 128 (319)
Q Consensus 49 i~RlL~~Ll~~~w~l~~~~~Li~ivldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~~P 128 (319)
...+...+....|.. +++..+.+++.+++.|.+.. ......|.+...+..-....+++.++.++.+.+.+.. +
T Consensus 16 ~~~~~~~l~~~~~~~--~~~~~~~i~~~i~~~a~~~~---~~~~~~a~l~~~l~~~~~~~f~~~ll~~~~~~f~~~~--~ 88 (209)
T PF02854_consen 16 FESIIDELIKLNWSD--DPETLKEIVKLIFEKAVEEP---NFSPLYARLCAALNSRFPSEFRSLLLNRCQEEFEERY--S 88 (209)
T ss_dssp HHHHHHHHHHHHHHS--CHHHHHHHHHHHHHHHHHSG---GGHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHT---
T ss_pred HHHHHHHHHHHHhhc--cHHHHHHHHHHHhhhhhcCc---hHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHhh--h
Confidence 344466666777766 78899999999999999876 5666777777777544442477899999998888644 1
Q ss_pred CCCcc--ccCChHHHHHHHHHHHHhhccchhhHhhhhhHHHHHHHHhhccCCch-------hHH-hHhHhHHHH-hhhcc
Q psy14863 129 MPSLE--QHTLWNDIAIMARYLLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLN-------MRC-SSHGLVIRM-HTLWN 197 (319)
Q Consensus 129 s~~L~--~h~~W~EI~IL~R~~l~LsF~n~l~aq~yLPEifhIVTLLi~~Gp~~-------vR~-svhgLliNt-hSL~t 197 (319)
....+ +...|....-++||...|+-..-+... .++.++-.+...+... .+- .+-.++-++ .-+-.
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~fl~eL~~~~vv~~~----~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~ 164 (209)
T PF02854_consen 89 NEELEENRQSSKQRRRGNIRFLAELFNFGVVSEK----IIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKKLEN 164 (209)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSCHH----HHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHhhhhhHHHhhHhhccccch----hHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHHHhc
Confidence 22222 255788889999999988864443322 4555666666665541 111 122222222 33321
Q ss_pred cccHHHHHHHHHHhhhhhhhcc
Q psy14863 198 DIAIMARYLLMLSFNNCLDVVR 219 (319)
Q Consensus 198 ~~~L~~~~~l~~~~~~~~d~~~ 219 (319)
.-...+.++..++.+|+.-.
T Consensus 165 --~~~~~~~l~~~~~~~~~~~~ 184 (209)
T PF02854_consen 165 --SEESPKALDEIFERLQKYAN 184 (209)
T ss_dssp --CHHHHHHHHHHHHHHHHHHH
T ss_pred --CCCchhHHHHHHHHHHHHHH
Confidence 12345667777766655443
No 5
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=68.61 E-value=72 Score=26.98 Aligned_cols=112 Identities=12% Similarity=0.091 Sum_probs=68.7
Q ss_pred HHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHHHHHhhc
Q psy14863 74 LDSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARYLLMLSF 153 (319)
Q Consensus 74 ldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~~l~LsF 153 (319)
+++.|..|.+...+.++|+.+..+.-.+.+... -++..+.-|+|-|.. .+|...+ --+.++-++.-
T Consensus 1 v~~~I~kATs~~~~~~D~~~il~icd~I~~~~~--~~k~a~raL~krl~~--~n~~vql----------~AL~lLd~~vk 66 (133)
T cd03561 1 VTSLIERATSPSLEEPDWALNLELCDLINLKPN--GPKEAARAIRKKIKY--GNPHVQL----------LALTLLELLVK 66 (133)
T ss_pred ChHHHHHHcCcccCCccHHHHHHHHHHHhCCCC--CHHHHHHHHHHHHcC--CCHHHHH----------HHHHHHHHHHH
Confidence 468899999999999999976666555554422 245777778877763 3443211 11222333333
Q ss_pred cch------hhHhhhhhHHHHHHHHhhc--cCCchhHHhHhHhHHHH-hhhccc-ccHH
Q psy14863 154 NNC------LDVVRHLPYLLHIVTMLVN--TGPLNMRCSSHGLVIRM-HTLWND-IAIM 202 (319)
Q Consensus 154 ~n~------l~aq~yLPEifhIVTLLi~--~Gp~~vR~svhgLliNt-hSL~t~-~~L~ 202 (319)
|.+ +-...||-|+.- ++.+ ..+..+|.-+-.++-+- .++... +.++
T Consensus 67 Ncg~~f~~~i~s~~fl~~l~~---l~~~~~~~~~~Vk~kil~ll~~W~~~f~~~~~~~~ 122 (133)
T cd03561 67 NCGKPFHLQVADKEFLLELVK---IAKNSPKYDPKVREKALELILAWSESFGGHSEDLP 122 (133)
T ss_pred hCChHHHHHHhhHHHHHHHHH---HhCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccch
Confidence 322 223346666444 4434 57888999999999888 877765 4444
No 6
>KOG1992|consensus
Probab=66.59 E-value=47 Score=37.33 Aligned_cols=71 Identities=18% Similarity=0.385 Sum_probs=59.1
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHHHHHhh------ccchhh----------HhhhhhHHHHHHHH
Q psy14863 109 VAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARYLLMLS------FNNCLD----------VVRHLPYLLHIVTM 172 (319)
Q Consensus 109 V~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~~l~Ls------F~n~l~----------aq~yLPEifhIVTL 172 (319)
.++.++.+|-+++.+.+.+|++.-..|-.+.-||+++|..-.-. |+..+. .+-|+|+.|.+.+.
T Consensus 586 ~~~~~l~~Lteiv~~v~KNPs~P~fnHYLFEsi~~li~~t~~~~~~~vs~~e~aL~p~fq~Il~eDI~EfiPYvfQlla~ 665 (960)
T KOG1992|consen 586 HAPELLRQLTEIVEEVSKNPSNPQFNHYLFESIGLLIRKTCKANPSAVSSLEEALFPVFQTILSEDIQEFIPYVFQLLAV 665 (960)
T ss_pred hhhHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999765433 554443 56699999999999
Q ss_pred hhccCCc
Q psy14863 173 LVNTGPL 179 (319)
Q Consensus 173 Li~~Gp~ 179 (319)
|+-.-..
T Consensus 666 lve~~~~ 672 (960)
T KOG1992|consen 666 LVEHSSG 672 (960)
T ss_pred HHHhcCC
Confidence 9854433
No 7
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=65.89 E-value=86 Score=27.20 Aligned_cols=115 Identities=12% Similarity=0.101 Sum_probs=74.7
Q ss_pred HHHHHHHhhhcCCCCcchHH---HHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHHHHH
Q psy14863 74 LDSFLQRSLESGVNSTVVEI---LADTAVALASANVQLVAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARYLLM 150 (319)
Q Consensus 74 ldE~I~~Ald~g~gs~~~Ei---ia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~~l~ 150 (319)
+|+.|..|.+.....++|+. ++|.+.+ -.. -+...+.-|+|-|. +.+|.-.+- ...=+..+++=|-.
T Consensus 5 ~~~~I~kATs~~l~~~dw~~ileicD~In~---~~~--~~k~a~ral~krl~--~~n~~vql~---AL~LLe~~vkNCG~ 74 (142)
T cd03569 5 FDELIEKATSELLGEPDLASILEICDMIRS---KDV--QPKYAMRALKKRLL--SKNPNVQLY---ALLLLESCVKNCGT 74 (142)
T ss_pred HHHHHHHHcCcccCccCHHHHHHHHHHHhC---CCC--CHHHHHHHHHHHHc--CCChHHHHH---HHHHHHHHHHHCCH
Confidence 78999999999999999998 6666543 221 23567777777776 344442221 12222233332211
Q ss_pred hhccchhhHhhhhhHHHHHHHHhhccCCchhHHhHhHhHHHH-hhhcccccHH
Q psy14863 151 LSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVIRM-HTLWNDIAIM 202 (319)
Q Consensus 151 LsF~n~l~aq~yLPEifhIVTLLi~~Gp~~vR~svhgLliNt-hSL~t~~~L~ 202 (319)
-|..-+-...|+-|+.-+++ +..+..||.-+-.++-+- .++...+.++
T Consensus 75 -~fh~evas~~fl~~l~~l~~---~~~~~~Vk~kil~li~~W~~~f~~~~~l~ 123 (142)
T cd03569 75 -HFHDEVASREFMDELKDLIK---TTKNEEVRQKILELIQAWALAFRNKPQLK 123 (142)
T ss_pred -HHHHHHhhHHHHHHHHHHHc---ccCCHHHHHHHHHHHHHHHHHhCCCcccH
Confidence 13244556669998777665 488999999999999999 8887665555
No 8
>PF14228 MOR2-PAG1_mid: Cell morphogenesis central region
Probab=60.77 E-value=14 Score=42.39 Aligned_cols=50 Identities=32% Similarity=0.538 Sum_probs=45.6
Q ss_pred HHHHHhcccchhhhhhhhHHHHHHHHHhccCchhHHHHHHHHHHHHHhhc
Q psy14863 269 YLLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVINIIHSL 318 (319)
Q Consensus 269 ~~l~lsF~~~~~~q~~lPel~hivtlL~~~Gp~~~R~svh~l~iN~~hsL 318 (319)
|+.-+..+..-+...+||-++|++.++.|.-...+|..--.+++|++|+|
T Consensus 939 fL~dl~~~~~~~~~~~lP~LLH~~~~~lDH~~~~V~e~a~~lL~~Li~~l 988 (1120)
T PF14228_consen 939 FLVDLAVEPDEDLREHLPLLLHVIFVLLDHYTPLVQEQARELLVNLIHSL 988 (1120)
T ss_pred HHHHHHcCCcchHhhhhHHHHHHHHHcccCCChHHHHHHHHHHHHHHHHH
Confidence 45556677888899999999999999999999999999999999999997
No 9
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=59.21 E-value=1.1e+02 Score=25.96 Aligned_cols=118 Identities=13% Similarity=0.125 Sum_probs=73.9
Q ss_pred HHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHHHHHhhc
Q psy14863 74 LDSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARYLLMLSF 153 (319)
Q Consensus 74 ldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~~l~LsF 153 (319)
+|..|..|.+.....++|+.+.++.=.+.+-. .-+...+.-|+|-|. +.+|...+- ...=+-.+++=|- --|
T Consensus 1 ~~~~i~kATs~~l~~~dw~~~l~icD~i~~~~--~~~k~a~r~l~krl~--~~n~~v~l~---AL~lLe~~vkNcg-~~f 72 (133)
T smart00288 1 VERLIDKATSPSLLEEDWELILEICDLINSTP--DGPKDAVRLLKKRLN--NKNPHVALL---ALTLLDACVKNCG-SKF 72 (133)
T ss_pred ChhHHHHHcCcCCCCcCHHHHHHHHHHHhCCC--ccHHHHHHHHHHHHc--CCCHHHHHH---HHHHHHHHHHHCC-HHH
Confidence 47889999999999999997766655554442 134667777887777 344432211 1212222222221 123
Q ss_pred cchhhHhhhhhHHHHHHHHhhccCCch-hHHhHhHhHHHH-hhhcccccHH
Q psy14863 154 NNCLDVVRHLPYLLHIVTMLVNTGPLN-MRCSSHGLVIRM-HTLWNDIAIM 202 (319)
Q Consensus 154 ~n~l~aq~yLPEifhIVTLLi~~Gp~~-vR~svhgLliNt-hSL~t~~~L~ 202 (319)
...+....|+-|+..+++ +..+.. +|.-+-.++-+- .++...+.++
T Consensus 73 ~~ev~s~~fl~~L~~l~~---~~~~~~~Vk~kil~li~~W~~~f~~~~~~~ 120 (133)
T smart00288 73 HLEVASKEFLNELVKLIK---PKYPLPLVKKRILELIQEWADAFKNDPDLS 120 (133)
T ss_pred HHHHHhHHHHHHHHHHHc---CCCCcHHHHHHHHHHHHHHHHHHcCCCCch
Confidence 344445558888876554 455544 999999999999 9888777766
No 10
>PF14228 MOR2-PAG1_mid: Cell morphogenesis central region
Probab=58.87 E-value=25 Score=40.47 Aligned_cols=70 Identities=19% Similarity=0.243 Sum_probs=56.7
Q ss_pred HHHHHhhccchhhHhhhhhHHHHHHHHhhccCCchhHHhHhHhHHHH-hhhcccc---------cHHHHHHHHHHhhhhh
Q psy14863 146 RYLLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVIRM-HTLWNDI---------AIMARYLLMLSFNNCL 215 (319)
Q Consensus 146 R~~l~LsF~n~l~aq~yLPEifhIVTLLi~~Gp~~vR~svhgLliNt-hSL~t~~---------~L~~~~~l~~~~~~~~ 215 (319)
=|+.-+..+.......+||-++|++.++.|.-...||..--++++|. |+|..+. ....++.++..++|-+
T Consensus 938 ifL~dl~~~~~~~~~~~lP~LLH~~~~~lDH~~~~V~e~a~~lL~~Li~~l~~~~~~l~e~~~s~~~~~~~i~~li~~l~ 1017 (1120)
T PF14228_consen 938 IFLVDLAVEPDEDLREHLPLLLHVIFVLLDHYTPLVQEQARELLVNLIHSLAPSKLELPEVDDSDSEQKQSIKSLIEFLR 1017 (1120)
T ss_pred HHHHHHHcCCcchHhhhhHHHHHHHHHcccCCChHHHHHHHHHHHHHHHHHhccccccccccccchhhHHHHHHHHHHHH
Confidence 35566667788888889999999999999999999999999999999 9997643 2235666777776653
No 11
>PRK15054 nitrate reductase 2 subunit delta; Provisional
Probab=52.19 E-value=57 Score=31.16 Aligned_cols=131 Identities=12% Similarity=0.076 Sum_probs=90.2
Q ss_pred hhhhhHHHHHHHHhhccCCchhHHhHhHhHHHH-hhhcccccHHHHHHHHHHhhhhhhhccccc----chhheeeeeecc
Q psy14863 160 VRHLPYLLHIVTMLVNTGPLNMRCSSHGLVIRM-HTLWNDIAIMARYLLMLSFNNCLDVVRHLP----YLLHIVTMLVNT 234 (319)
Q Consensus 160 q~yLPEifhIVTLLi~~Gp~~vR~svhgLliNt-hSL~t~~~L~~~~~l~~~~~~~~d~~~~~~----~~l~~~~~~~~~ 234 (319)
+..+||+...+.= -| .-+... .-++..+.+..|..--.+||+. |.+. +..||=||+.|+
T Consensus 19 ~~~~~e~~~~l~~--------~~----~~L~~f~~~l~~~~l~dlQ~~YV~tFD~~----R~~sLyL~~hvhGdsRdRGq 82 (231)
T PRK15054 19 WECKEDALALIRR--------DA----PMLTDFTRNLLNAPLLDKQAEWCEVFDRG----RTTSLLLFEHVHAESRDRGQ 82 (231)
T ss_pred HhhhHHHHHHHHH--------HH----HHHHHHHHHHHcCCHHHHHHHHHHHhCCC----CCCCceeeeeecCCchHHHH
Confidence 4567776665521 12 234455 6677777777555555566554 5555 889999999999
Q ss_pred cchhhhhhccCCCCCCC-CcccccCCchHHHHHHHHHHHHhcccchhhhhhhhHHHHHHHHHhccCchhHHHHHHHHHHH
Q psy14863 235 GPLNMRCSSHGLVITPM-PSLEQHTLWNDIAIMARYLLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVIN 313 (319)
Q Consensus 235 ~lsrlRkai~~ts~~p~-~~L~~h~~W~Ei~iL~r~~l~lsF~~~~~~q~~lPel~hivtlL~~~Gp~~~R~svh~l~iN 313 (319)
+..++...+..-=+.|. +-|+|| +.+++.|+-... +-.++..|-++-||+.+|. +-..=|.|-|.-++.
T Consensus 83 AmvdL~~~Y~~~G~~~~~~ELPDy-----LPl~LEfla~~~---~~~a~~~L~~~~~iLe~L~--~rL~~~~SpYa~l~~ 152 (231)
T PRK15054 83 AMVDLLAEYEKVGLQLDCRELPDY-----LPLYLEYLSVLP---DDQAKEGLLNVAPILALLG--GRLKQREAPWYALFD 152 (231)
T ss_pred HHHHHHHHHHHcCCCCCCCcCcch-----HHHHHHHHhcCC---hHHHHHHHHHHHHHHHHHH--HHHHHcCCChHHHHH
Confidence 99999999999988886 569987 455666655443 4557778899999998874 334555566777666
Q ss_pred HHh
Q psy14863 314 IIH 316 (319)
Q Consensus 314 ~~h 316 (319)
.+-
T Consensus 153 all 155 (231)
T PRK15054 153 ALL 155 (231)
T ss_pred HHH
Confidence 553
No 12
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=46.21 E-value=2e+02 Score=25.05 Aligned_cols=118 Identities=13% Similarity=0.118 Sum_probs=72.6
Q ss_pred HHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHHHHHhhc
Q psy14863 74 LDSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARYLLMLSF 153 (319)
Q Consensus 74 ldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~~l~LsF 153 (319)
+|+.|..|.+....+++|+.+.++.=.+.+-.. -+...+.-|+|-|+ +.+|.-.+- ...=+-.+++=|-. -|
T Consensus 1 ~e~~iekATse~l~~~dw~~il~icD~I~~~~~--~~k~a~ral~KRl~--~~n~~v~l~---AL~LLe~~vkNCG~-~f 72 (144)
T cd03568 1 FDDLVEKATDEKLTSENWGLILDVCDKVKSDEN--GAKDCLKAIMKRLN--HKDPNVQLR---ALTLLDACAENCGK-RF 72 (144)
T ss_pred ChHHHHHHcCccCCCcCHHHHHHHHHHHhcCCc--cHHHHHHHHHHHHc--CCCHHHHHH---HHHHHHHHHHHCCH-HH
Confidence 478999999999999999966555444443321 24566777777776 334432211 11111222222211 12
Q ss_pred cchhhHhhhhhHHHHHHHHhhccCCchhHHhHhHhHHHH-hhhcccccHH
Q psy14863 154 NNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVIRM-HTLWNDIAIM 202 (319)
Q Consensus 154 ~n~l~aq~yLPEifhIVTLLi~~Gp~~vR~svhgLliNt-hSL~t~~~L~ 202 (319)
...+-..-|+-|+.-+ +-+..+..||.-+-+++-+- +++...+.++
T Consensus 73 h~evask~Fl~eL~kl---~~~~~~~~Vk~kil~li~~W~~~f~~~~~l~ 119 (144)
T cd03568 73 HQEVASRDFTQELKKL---INDRVHPTVKEKLREVVKQWADEFKNDPSLS 119 (144)
T ss_pred HHHHhhHHHHHHHHHH---hcccCCHHHHHHHHHHHHHHHHHhCCCcccH
Confidence 2344455688885444 44558999999999999999 9998777665
No 13
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=42.88 E-value=65 Score=27.44 Aligned_cols=48 Identities=13% Similarity=0.156 Sum_probs=33.7
Q ss_pred HHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhh
Q psy14863 74 LDSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEK 123 (319)
Q Consensus 74 ldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~ 123 (319)
+++.|..|.+....++||+.+.++.=.+.+.. .-++..+.-|+|-|..
T Consensus 6 ~~~li~kATs~~~~~~Dw~~~l~icD~i~~~~--~~~kea~~~l~krl~~ 53 (140)
T PF00790_consen 6 ITELIEKATSESLPSPDWSLILEICDLINSSP--DGAKEAARALRKRLKH 53 (140)
T ss_dssp HHHHHHHHT-TTSSS--HHHHHHHHHHHHTST--THHHHHHHHHHHHHTT
T ss_pred HHHHHHHHhCcCCCCCCHHHHHHHHHHHHcCC--ccHHHHHHHHHHHHhC
Confidence 68999999999999999997776655554442 2456778888888873
No 14
>PF14225 MOR2-PAG1_C: Cell morphogenesis C-terminal
Probab=37.16 E-value=3.9e+02 Score=25.70 Aligned_cols=75 Identities=24% Similarity=0.193 Sum_probs=45.6
Q ss_pred chhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHhh-c--hhhhHHHHHHHHHHHhhhcCCCC-----cchHHHHH
Q psy14863 25 NFHFALVGHLMKGYRHPNSTTITRTTRLLTSILGYFYVSL-L--VPELIDMVLDSFLQRSLESGVNS-----TVVEILAD 96 (319)
Q Consensus 25 ~~~~~~v~~~~~~~~~~~~~tISRi~RlL~~Ll~~~w~l~-~--~~~Li~ivldE~I~~Ald~g~gs-----~~~Eiia~ 96 (319)
+|. ++...++||+| .+.+...+.++|..|...-...+ . ++++.-.++-.+=......+.++ +.+..+|+
T Consensus 61 ~f~-Glq~Ll~KGL~--Ss~t~e~tl~lL~~L~~~~~~~lig~~~~rll~~~la~LP~ll~~~d~~~~i~~~~~~~~~A~ 137 (262)
T PF14225_consen 61 NFE-GLQPLLLKGLR--SSSTYELTLRLLSRLTPLPDDPLIGDSQSRLLFLLLALLPRLLHAFDDPNPIQPDQECIEIAE 137 (262)
T ss_pred Cch-hHHHHHhCccC--CCCcHHHHHHHHHHHhcCCCccccCCCCccHHHHHHHHHHHHHHHhcccccccccHHHHHHHH
Confidence 444 47777999999 56677999999999977633322 1 23555555554444333333333 45555566
Q ss_pred HHHHhh
Q psy14863 97 TAVALA 102 (319)
Q Consensus 97 i~vsLs 102 (319)
.++.++
T Consensus 138 ~La~~a 143 (262)
T PF14225_consen 138 ALAQVA 143 (262)
T ss_pred HHHHHH
Confidence 655554
No 15
>KOG2346|consensus
Probab=34.75 E-value=46 Score=35.52 Aligned_cols=40 Identities=13% Similarity=0.148 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhhchhhhHHHHHHHHHHHhhhcCCCCcchH
Q psy14863 53 LTSILGYFYVSLLVPELIDMVLDSFLQRSLESGVNSTVVE 92 (319)
Q Consensus 53 L~~Ll~~~w~l~~~~~Li~ivldE~I~~Ald~g~gs~~~E 92 (319)
-.+|+.+.|-...|+.+++.++||+|..|.++-.+--..|
T Consensus 586 c~fLq~~L~~~V~DE~~v~~llDevi~sA~~RC~Dpvp~e 625 (636)
T KOG2346|consen 586 CQFLQAPLKEAVEDEAAVDFLLDEVIVSASERCLDPVPLE 625 (636)
T ss_pred HHHHHHHHHHHhchHHHHHHHHHHHHHHHHHcCCCCcCCC
Confidence 4566888999999999999999999999999877654443
No 16
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=26.63 E-value=4e+02 Score=22.61 Aligned_cols=115 Identities=17% Similarity=0.176 Sum_probs=75.4
Q ss_pred HHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcC
Q psy14863 47 TRTTRLLTSILGYFYVSLLVPELIDMVLDSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEKTGA 126 (319)
Q Consensus 47 SRi~RlL~~Ll~~~w~l~~~~~Li~ivldE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~ 126 (319)
+.+..+...|..+.|. +++..+.+++.+.+.|.+.. ......|..+..+.....+ +++.++.++.+.+.+.
T Consensus 14 ~n~~~~~~~l~~~~~~---~~~~~~~l~~~i~~~~~~~~---~~~~~ya~L~~~l~~~~~~-f~~~ll~~~~~~f~~~-- 84 (200)
T smart00543 14 SNFESIIKELLKLNNS---DKNLRKYILELIFEKAVEEP---NFIPAYARLCALLNAKNPD-FGSLLLERLQEEFEKG-- 84 (200)
T ss_pred HHHHHHHHHHHHHHcc---CHHHHHHHHHHHHHHHHcCc---chHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH--
Confidence 3444445666666664 36788888888888888664 4455667777777654444 7789999999887753
Q ss_pred CCCCCccccCChHHHHHHHHHHHHhhccchhhHhhhhhHHHHHHHHhhccC
Q psy14863 127 TPMPSLEQHTLWNDIAIMARYLLMLSFNNCLDVVRHLPYLLHIVTMLVNTG 177 (319)
Q Consensus 127 ~Ps~~L~~h~~W~EI~IL~R~~l~LsF~n~l~aq~yLPEifhIVTLLi~~G 177 (319)
....+...|....-++||...|+=..-+... .++.++--+...+
T Consensus 85 ---~e~~~~~~~~~~~~~i~fl~eL~~~~~i~~~----~i~~~l~~ll~~~ 128 (200)
T smart00543 85 ---LESEEESDKQRRLGLVRFLGELYNFQVLTSK----IILELLKELLNDL 128 (200)
T ss_pred ---HHHHHHHhhhhHHhHHHHHHHHHHcccCcHH----HHHHHHHHHHhcc
Confidence 1122245788888899988887654433332 5666666666654
No 17
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=24.54 E-value=23 Score=36.27 Aligned_cols=86 Identities=20% Similarity=0.316 Sum_probs=55.5
Q ss_pred HHHHHHhhhhhhhcccccchhheeeeeecccchhhhhhccCCCCCCCCcccccCCchHHHHHHHHHHH------Hhcccc
Q psy14863 205 YLLMLSFNNCLDVVRHLPYLLHIVTMLVNTGPLNMRCSSHGLVITPMPSLEQHTLWNDIAIMARYLLM------LSFNNC 278 (319)
Q Consensus 205 ~~l~~~~~~~~d~~~~~~~~l~~~~~~~~~~lsrlRkai~~ts~~p~~~L~~h~~W~Ei~iL~r~~l~------lsF~~~ 278 (319)
+.++.++...+|. ..|+ .+.++.++=.-+...+-+|++.--.|..+.-|++++|++.. -.|++.
T Consensus 48 k~iMRvl~~~~e~--~~p~--------~~~il~~L~~il~~v~kNPsnP~FnHylFEsi~~lir~~~~~~~~~v~~~E~~ 117 (435)
T PF03378_consen 48 KCIMRVLSVLQED--ILPI--------AVEILQHLTAILKEVSKNPSNPRFNHYLFESIGALIRFVCEADPEAVSQFEEA 117 (435)
T ss_dssp HHHHHHHHHSTTT--TGGG--------HHHHHHHHHHHHHHHHTS---HHHHHHHHHHHHHHHHHS-GGGHH---HHHHH
T ss_pred HHHHHHHHHhHHH--HHHH--------HHHHHHHHHHHHHHHHhCCCCcchhhhHHHHHHHHHHhccCCChhHHHHHHHH
Confidence 4466666665443 2342 22234444444555666788999999999999999999553 245533
Q ss_pred h----------hhhhhhhHHHHHHHHHhccCc
Q psy14863 279 L----------DVVRHLPYLLHIVTMLVNTGP 300 (319)
Q Consensus 279 ~----------~~q~~lPel~hivtlL~~~Gp 300 (319)
+ +++-|.|++|-|.+.|...+|
T Consensus 118 L~P~f~~ILq~dV~EF~PYvfQIla~Lle~~~ 149 (435)
T PF03378_consen 118 LFPPFQEILQQDVQEFIPYVFQILAQLLELRP 149 (435)
T ss_dssp HHHHHHHHHHTT-TTTHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 2 478999999999999999988
No 18
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=21.64 E-value=1.8e+02 Score=23.14 Aligned_cols=49 Identities=12% Similarity=0.184 Sum_probs=32.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHhhhcCCCCcc
Q psy14863 42 NSTTITRTTRLLTSILGYFYVSLLVPELIDMVLDSFLQRSLESGVNSTV 90 (319)
Q Consensus 42 ~~~tISRi~RlL~~Ll~~~w~l~~~~~Li~ivldE~I~~Ald~g~gs~~ 90 (319)
.++.+..+.+.+..+..-+...-.+-.-+.++++|.+.-|++||.....
T Consensus 4 ~~~~i~~~r~~~~~~~~~~~~~~~~~~~~~lav~E~~~Nav~H~~~~~~ 52 (125)
T PF13581_consen 4 DPEDIREARAFLREFLERLGLPEEDRDDLELAVSEALTNAVEHGYPGDP 52 (125)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 3455566655555555443333345567889999999999999996544
No 19
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=21.52 E-value=4.4e+02 Score=21.24 Aligned_cols=100 Identities=10% Similarity=0.014 Sum_probs=60.2
Q ss_pred HHHHHHhhhcCCCCcchHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhhhcCCCCCCccccCChHHHHHHHHHHHHhhcc
Q psy14863 75 DSFLQRSLESGVNSTVVEILADTAVALASANVQLVAKKIIVRLCRVLEKTGATPMPSLEQHTLWNDIAIMARYLLMLSFN 154 (319)
Q Consensus 75 dE~I~~Ald~g~gs~~~Eiia~i~vsLsS~~v~lV~gkIIsRLrk~i~~Ts~~Ps~~L~~h~~W~EI~IL~R~~l~LsF~ 154 (319)
+..|..|.+...-+++|+.+.++.-...+.. + -+..+++-|++-|+ ++.|.++-=-+..+-++--|
T Consensus 2 ~~~v~~AT~~~~~~p~~~~i~~i~d~~~~~~-~-~~~~~~~~l~kRl~------------~~~~~~~lkaL~lLe~lvkN 67 (115)
T cd00197 2 EKTVEKATSNENMGPDWPLIMEICDLINETN-V-GPKEAVDAIKKRIN------------NKNPHVVLKALTLLEYCVKN 67 (115)
T ss_pred hHHHHHHcCCCCCCCCHHHHHHHHHHHHCCC-c-cHHHHHHHHHHHhc------------CCcHHHHHHHHHHHHHHHHH
Confidence 5678899999999999997777755554332 2 34577777777665 34787776666666666665
Q ss_pred chhhHhhhhhHHHHHHHHhh-----ccC---CchhHHhHhHh
Q psy14863 155 NCLDVVRHLPYLLHIVTMLV-----NTG---PLNMRCSSHGL 188 (319)
Q Consensus 155 n~l~aq~yLPEifhIVTLLi-----~~G---p~~vR~svhgL 188 (319)
.+-..+.++..=-|..-++- -.| +..+|..+-.|
T Consensus 68 ~g~~f~~~i~~~~~~~~l~~~~~~~~~~~~~~~~Vr~k~~~l 109 (115)
T cd00197 68 CGERFHQEVASNDFAVELLKFDKSKLLGDDVSTNVREKAIEL 109 (115)
T ss_pred ccHHHHHHHHHhHHHHHHHHhhccccccCCCChHHHHHHHHH
Confidence 55444444433333333321 122 45666655544
No 20
>PF14706 Tnp_DNA_bind: Transposase DNA-binding; PDB: 3ECP_A 4DM0_A 1MUS_A 1MUH_A 1MM8_A.
Probab=20.84 E-value=1.4e+02 Score=22.57 Aligned_cols=38 Identities=24% Similarity=0.449 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhhhcCCCCCCccc-cCChHHHHHHHHHH
Q psy14863 111 KKIIVRLCRVLEKTGATPMPSLEQ-HTLWNDIAIMARYL 148 (319)
Q Consensus 111 gkIIsRLrk~i~~Ts~~Ps~~L~~-h~~W~EI~IL~R~~ 148 (319)
.++-.||.++.++-...|..++++ ...|.++..--||.
T Consensus 15 ~Rl~~Rl~~l~~~la~~p~~Sip~a~~~wa~tkaAYRF~ 53 (58)
T PF14706_consen 15 KRLTRRLVKLAESLAEKPGASIPQACQDWAETKAAYRFF 53 (58)
T ss_dssp HHHHHHHHHHHHHHHHTTTS-HHHHTT-HHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHCCCCccchhccCHHHHHHHHHhh
Confidence 467788999988888999999999 77999999877764
Done!