Query psy17744
Match_columns 326
No_of_seqs 94 out of 96
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 21:49:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17744.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17744hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12317 IFT46_B_C: Intraflage 100.0 4E-114 9E-119 783.8 20.7 214 94-307 1-214 (214)
2 PF06803 DUF1232: Protein of u 43.5 8.2 0.00018 27.4 0.1 15 134-148 20-34 (40)
3 COG3339 Uncharacterized conser 35.5 11 0.00025 32.6 -0.2 15 134-148 66-80 (116)
4 PRK13828 rimM 16S rRNA-process 31.1 28 0.00061 30.6 1.5 37 129-171 123-159 (161)
5 cd00059 FH Forkhead (FH), also 30.8 33 0.00071 27.4 1.7 22 146-167 57-78 (78)
6 PF13124 DUF3963: Protein of u 29.0 41 0.0009 24.3 1.8 15 205-219 10-24 (40)
7 cd04405 RhoGAP_BRCC3-like RhoG 25.6 1.7E+02 0.0037 28.3 5.8 84 210-296 67-156 (235)
8 KOG4380|consensus 25.0 75 0.0016 30.5 3.2 65 207-277 21-85 (244)
9 KOG0952|consensus 24.8 89 0.0019 36.4 4.2 111 124-238 1004-1129(1230)
10 PF00250 Fork_head: Fork head 21.9 60 0.0013 26.7 1.7 26 146-171 57-82 (96)
11 cd01266 PH_Gab Gab (Grb2-assoc 21.5 66 0.0014 26.0 1.9 19 203-221 89-107 (108)
12 smart00339 FH FORKHEAD. FORKHE 20.5 64 0.0014 26.2 1.6 26 146-171 57-82 (89)
13 PF10170 C6_DPF: Cysteine-rich 20.4 64 0.0014 27.4 1.6 32 226-257 63-96 (97)
No 1
>PF12317 IFT46_B_C: Intraflagellar transport complex B protein 46 C terminal; InterPro: IPR022088 This entry represents proteins is found in eukaryotes. Proteins are typically between 298 and 416 amino acids in length. It is thought to be a flagellar protein of complex B and like all IFT proteins, it is required for transport of IFT particles into the flagella [].
Probab=100.00 E-value=4.4e-114 Score=783.83 Aligned_cols=214 Identities=58% Similarity=1.070 Sum_probs=212.5
Q ss_pred CCCCcccccCCCCCHHHHHHHHHhhhcCCCccCCCCccccCCCCcccccCCcccceeeeCCCCCCcccCCeeecCCCCCC
Q psy17744 94 KAYDPLEFAHLATSTDLKEMFAYIEKYTPQPIDLTYKLRPFIPDYIPAVGDIDAFIKVARPDGRPDSLGLTVLDEPCFEQ 173 (326)
Q Consensus 94 g~Y~P~~y~~L~vs~EiKeLF~yI~rYtPq~ieL~~kLkPFIPDyIPAVGDIDaFiKVpRPDg~~d~LGL~vLDEP~~~Q 173 (326)
|+|||++|+||+||+||||||+||+|||||+|+|++|||||||||||||||||||||||||||++|+|||+||||||++|
T Consensus 1 g~y~P~~y~~l~v~~EikeLF~yI~~YtPq~iel~~kLkPFiPdyiPAVGdiDaFiKVpRPD~~~d~LGL~vLDEP~~~Q 80 (214)
T PF12317_consen 1 GAYDPADYEHLPVSAEIKELFQYITRYTPQEIELDTKLKPFIPDYIPAVGDIDAFIKVPRPDGKPDNLGLTVLDEPSANQ 80 (214)
T ss_pred CCCChhhhccCCCCHHHHHHHHHHhhcCCccccCCCcccccCccccccccCcccceeccCCCCCccccCCEEecCCCccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceeeEEeeccccCCCCCCcccceeeecchhhcHHHHHHHHHHHHHHhhCCCCCceeecCCCCChHHHHHhhhHHHHHH
Q psy17744 174 SDPAILNLQLRQSSKCPTSSKATIIKKVEDADKNKKAIDRWIKDIGDLHKNKPPPSVHYSRGMPDLDNLMQEWSNDVEQT 253 (326)
Q Consensus 174 SDptvL~LqLR~~~k~~~~~~~~~Vksie~aeknpk~Id~WI~sI~eLHrsKPp~tV~Ys~~MPDId~LMQeWP~e~Ee~ 253 (326)
|||+||+||||+.+|+++..++++|+|||+|+||||+||+||++|+||||+||++||||+++|||||+||||||++||++
T Consensus 81 Sdp~vl~lqLr~~~~~~~~~~~~~v~sie~ae~n~k~Id~WI~~i~elHr~kp~~tV~Y~~~mPdId~LMqeWP~e~Ee~ 160 (214)
T PF12317_consen 81 SDPTVLDLQLRSISKQANGDKDVPVKSIENAEKNPKEIDKWIESIEELHRSKPPPTVHYSKPMPDIDTLMQEWPPEFEEL 160 (214)
T ss_pred CCCceEEEeeecccccccccccceecchhchhhCHHHHHHHHHHHHHHHhcCCCCceecCCCCCCHHHHHHHCcHHHHHH
Confidence 99999999999999998888899999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCCCCCCCCCHHHHHHHHHhhcCCCCCCChhhHHHHHHHHHHHHhhCcch
Q psy17744 254 ISEVGLPPEDLDCDLTTYIDLMAAILDIPRFESRIETLHVIFSLYAAIQSSSNQ 307 (326)
Q Consensus 254 L~~~~lP~a~lD~~L~eYvdiiC~iLDIPV~~s~IeSLHvLFsLY~efknsqhF 307 (326)
|++++||+|++||||++||||||++||||||+|||||||||||||+||||||||
T Consensus 161 L~~~~lP~a~lD~~L~~Yv~iiC~ilDIPv~~~~IeSLH~LFsLy~efk~~qhF 214 (214)
T PF12317_consen 161 LKKVGLPTAELDCSLEEYVDIICAILDIPVYKSRIESLHVLFSLYLEFKNSQHF 214 (214)
T ss_pred HhhcCCCccccCCCHHHHHHHHHHHhCCccCccHHHHHHHHHHHHHHHhhccCC
Confidence 999999999999999999999999999999999999999999999999999999
No 2
>PF06803 DUF1232: Protein of unknown function (DUF1232); InterPro: IPR010652 This family represents a conserved region of approximately 60 residues within a number of hypothetical bacterial and archaeal proteins of unknown function.
Probab=43.48 E-value=8.2 Score=27.44 Aligned_cols=15 Identities=47% Similarity=1.041 Sum_probs=12.9
Q ss_pred CCCCcccccCCcccc
Q psy17744 134 FIPDYIPAVGDIDAF 148 (326)
Q Consensus 134 FIPDyIPAVGDIDaF 148 (326)
+|||++|-+|=+|-.
T Consensus 20 ~iPD~~p~~G~lDD~ 34 (40)
T PF06803_consen 20 LIPDFIPVIGYLDDA 34 (40)
T ss_pred hCCCccccccHHHHH
Confidence 599999999988854
No 3
>COG3339 Uncharacterized conserved protein [Function unknown]
Probab=35.45 E-value=11 Score=32.59 Aligned_cols=15 Identities=47% Similarity=1.054 Sum_probs=13.1
Q ss_pred CCCCcccccCCcccc
Q psy17744 134 FIPDYIPAVGDIDAF 148 (326)
Q Consensus 134 FIPDyIPAVGDIDaF 148 (326)
+||||+|.+|=+|-.
T Consensus 66 iIPD~lp~iG~iDDi 80 (116)
T COG3339 66 IIPDFLPVIGFIDDI 80 (116)
T ss_pred hchhhhhccchHHHH
Confidence 699999999988854
No 4
>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional
Probab=31.11 E-value=28 Score=30.64 Aligned_cols=37 Identities=19% Similarity=0.197 Sum_probs=29.4
Q ss_pred CccccCCCCcccccCCcccceeeeCCCCCCcccCCeeecCCCC
Q psy17744 129 YKLRPFIPDYIPAVGDIDAFIKVARPDGRPDSLGLTVLDEPCF 171 (326)
Q Consensus 129 ~kLkPFIPDyIPAVGDIDaFiKVpRPDg~~d~LGL~vLDEP~~ 171 (326)
..|-||+.+||+.|=--.-+|.|-.|+ ||.-+|||..
T Consensus 123 e~LIP~v~~~V~~VDl~~~~I~v~~pe------GLl~~~~~~~ 159 (161)
T PRK13828 123 TLLLPFTRAVVPTVDLAAGRVVADPPA------EIEGDEPPEP 159 (161)
T ss_pred EEEEeccccccCeEECCCCEEEEeCCc------cccCCCCCCC
Confidence 459999999999886666789998877 6777777753
No 5
>cd00059 FH Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as monomers, are also found in the Hepatocyte nuclear factor (HNF) proteins, which provide tissue-specific gene regulation. The structure contains 2 flexible loops or "wings" in the C-terminal region, hence the term winged helix.
Probab=30.85 E-value=33 Score=27.39 Aligned_cols=22 Identities=32% Similarity=0.471 Sum_probs=15.8
Q ss_pred ccceeeeCCCCCCcccCCeeec
Q psy17744 146 DAFIKVARPDGRPDSLGLTVLD 167 (326)
Q Consensus 146 DaFiKVpRPDg~~d~LGL~vLD 167 (326)
..|+||||+.+..-.-+++.||
T Consensus 57 ~~F~kv~r~~~~~gkg~~W~i~ 78 (78)
T cd00059 57 KCFVKVPREPDEPGKGSYWTLD 78 (78)
T ss_pred cceEECCCCCCCCCCCCeeeeC
Confidence 6899999996555555565554
No 6
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=29.02 E-value=41 Score=24.34 Aligned_cols=15 Identities=27% Similarity=0.767 Sum_probs=12.4
Q ss_pred hhcHHHHHHHHHHHH
Q psy17744 205 DKNKKAIDRWIKDIG 219 (326)
Q Consensus 205 eknpk~Id~WI~sI~ 219 (326)
|+.=.+|.+||.+|.
T Consensus 10 eryfddiqkwirnit 24 (40)
T PF13124_consen 10 ERYFDDIQKWIRNIT 24 (40)
T ss_pred HHHHHHHHHHHHHHH
Confidence 566678999999985
No 7
>cd04405 RhoGAP_BRCC3-like RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain and an N-terminal DEP (Disheveled, Egl-10, and Pleckstrin) domain. The function(s) of BRCC3 and DEPDC7 are unknown. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=25.62 E-value=1.7e+02 Score=28.31 Aligned_cols=84 Identities=21% Similarity=0.281 Sum_probs=58.9
Q ss_pred HHHHHHHHHHHHhhCCCCCceee-cCCCCChHHHHHhhhHHHHHHhhh--cCCCCCCCCCCHHHHHHHHHhhcCCCC---
Q psy17744 210 AIDRWIKDIGDLHKNKPPPSVHY-SRGMPDLDNLMQEWSNDVEQTISE--VGLPPEDLDCDLTTYIDLMAAILDIPR--- 283 (326)
Q Consensus 210 ~Id~WI~sI~eLHrsKPp~tV~Y-s~~MPDId~LMQeWP~e~Ee~L~~--~~lP~a~lD~~L~eYvdiiC~iLDIPV--- 283 (326)
.++.||.+--+.-..-|-..|.- ++++++-.+.+-.|-..+-+.+.+ ..||..=|- ..|.++.|+|++.=+
T Consensus 67 ~~~~Wl~aA~~CLe~~Pd~~~~~~~~~~y~~~~~~~~~e~dv~~ti~qyf~~LpEPLLT---~~l~~~~~~I~~ll~~~~ 143 (235)
T cd04405 67 QLDHWLLSAMDCLANWPDQLVVDVSRPLYSQHDMLSGFKRLLFKTIAKYYGQLKEPLLT---FHLFDIFVGILELLGNGK 143 (235)
T ss_pred cCcHHHHHHHHHHHhCCcccccccccccccccccccchHHHHHHHHHHHHhcCCCccCc---chHHHHHHHHHHHhcCcc
Confidence 79999999888877777655554 788888777778888877777664 346653332 356677777777523
Q ss_pred CCChhhHHHHHHH
Q psy17744 284 FESRIETLHVIFS 296 (326)
Q Consensus 284 ~~s~IeSLHvLFs 296 (326)
..-.+||+.++|=
T Consensus 144 ~e~aleAlQl~~l 156 (235)
T cd04405 144 EEVALEALQLCLL 156 (235)
T ss_pred HHHHHHHHHHHHH
Confidence 3458899888873
No 8
>KOG4380|consensus
Probab=25.02 E-value=75 Score=30.48 Aligned_cols=65 Identities=14% Similarity=0.234 Sum_probs=45.6
Q ss_pred cHHHHHHHHHHHHHHhhCCCCCceeecCCCCChHHHHHhhhHHHHHHhhhcCCCCCCCCCCHHHHHHHHHh
Q psy17744 207 NKKAIDRWIKDIGDLHKNKPPPSVHYSRGMPDLDNLMQEWSNDVEQTISEVGLPPEDLDCDLTTYIDLMAA 277 (326)
Q Consensus 207 npk~Id~WI~sI~eLHrsKPp~tV~Ys~~MPDId~LMQeWP~e~Ee~L~~~~lP~a~lD~~L~eYvdiiC~ 277 (326)
.-.+|.+.|--+++-|-.- --.+.+..|-||-. ..||-+||+.|..++-|- --||=.+-+|.+.+
T Consensus 21 D~~E~R~~IV~~E~~~ir~--~~~~~~~~m~~~~~--s~W~~~~EKY~~~~~~P~--~~~~R~~AID~~L~ 85 (244)
T KOG4380|consen 21 DETEFRNFIVWLEDQKIRH--YKIEDRGNLRNIHS--SDWPKFFEKYLRDVNCPF--KIQDRQEAIDWLLG 85 (244)
T ss_pred chHHHHHHheehhhhhhhh--hchhhhhhhccccc--ccchHHHHHHHHHcCCCc--ccccHHHHHHHHHH
Confidence 3346776666666555321 13478888999988 899999999999999883 24666666666554
No 9
>KOG0952|consensus
Probab=24.75 E-value=89 Score=36.37 Aligned_cols=111 Identities=24% Similarity=0.340 Sum_probs=74.0
Q ss_pred ccCCCCccccCCCCcccccCCcccceeeeCC-CCCCc---------ccCCeeecCCCCCCCC-ceeeEEee-ccccCCCC
Q psy17744 124 PIDLTYKLRPFIPDYIPAVGDIDAFIKVARP-DGRPD---------SLGLTVLDEPCFEQSD-PAILNLQL-RQSSKCPT 191 (326)
Q Consensus 124 ~ieL~~kLkPFIPDyIPAVGDIDaFiKVpRP-Dg~~d---------~LGL~vLDEP~~~QSD-ptvL~LqL-R~~~k~~~ 191 (326)
.|+++-+-. || ++||-+.|++|--|-- ||+.- .++|.|+||=++.-+| -.||.+.. |...+.+.
T Consensus 1004 ~ie~tgd~~---pd-~~~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~rgPVle~ivsr~n~~s~~ 1079 (1230)
T KOG0952|consen 1004 VIELTGDVT---PD-VKAVREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGEDRGPVLEVIVSRMNYISSQ 1079 (1230)
T ss_pred eEeccCccC---CC-hhheecCceEEcccccccCccccccchhhhccccceeecccccccCCCcceEEEEeeccccCccc
Confidence 445555443 56 7888888888754432 66655 7999999999988888 66787755 55554444
Q ss_pred CCcccceeeecchhhcHHHHHHHHHHHHH--H-hhCCCCCceeecCCCCC
Q psy17744 192 SSKATIIKKVEDADKNKKAIDRWIKDIGD--L-HKNKPPPSVHYSRGMPD 238 (326)
Q Consensus 192 ~~~~~~Vksie~aeknpk~Id~WI~sI~e--L-HrsKPp~tV~Ys~~MPD 238 (326)
..+.+.+-.+-+|-.|.+++..|.+.... . +--+|-|.-.|-...|.
T Consensus 1080 t~~~vr~~glsta~~na~dla~wl~~~~~~nf~~svrpvp~~~~i~gfp~ 1129 (1230)
T KOG0952|consen 1080 TEEPVRYLGLSTALANANDLADWLNIKDMYNFRPSVRPVPLEVHIDGFPG 1129 (1230)
T ss_pred cCcchhhhhHhhhhhccHHHHHHhCCCCcCCCCcccccCCceEeecCCCc
Confidence 44555566677888899999999988766 1 11224444445555555
No 10
>PF00250 Fork_head: Fork head domain; InterPro: IPR001766 The fork head protein of Drosophila melanogaster, a transcription factor that promotes terminal rather than segmental development, contains neither homeodomains nor zinc-fingers characteristic of other transcription factors []. Instead, it contains a distinct type of DNA-binding region, containing around 100 amino acids, which has since been identified in a number of transcription factors (including D. melanogaster FD1-5, mammalian HNF-3, human HTLF, Saccharomyces cerevisiae HCM1, etc.). This is referred to as the fork head domain but is also known as a 'winged helix' [, , ]. The fork head domain binds B-DNA as a monomer [], but shows no similarity to previously identified DNA-binding motifs. Although the domain is found in several different transcription factors, a common function is their involvement in early developmental decisions of cell fates during embryogenesis [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2UZK_A 2K86_A 1JXS_A 2C6Y_A 2A3S_A 2D2W_A 2KIU_A 1VTN_C 2A07_J 2AS5_F ....
Probab=21.89 E-value=60 Score=26.67 Aligned_cols=26 Identities=23% Similarity=0.391 Sum_probs=19.3
Q ss_pred ccceeeeCCCCCCcccCCeeecCCCC
Q psy17744 146 DAFIKVARPDGRPDSLGLTVLDEPCF 171 (326)
Q Consensus 146 DaFiKVpRPDg~~d~LGL~vLDEP~~ 171 (326)
+.|.||||..+....-+++.||+-+.
T Consensus 57 ~~F~kv~~~~~~~gkg~~W~i~~~~~ 82 (96)
T PF00250_consen 57 KCFVKVPRDPSEPGKGSYWTIDPEAI 82 (96)
T ss_dssp TTEEEESCCTSSSSSSEEEEE-CTHH
T ss_pred ceeeecCcCCCCCCCceeEEeCHHHH
Confidence 68999999666666677889988654
No 11
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display str
Probab=21.54 E-value=66 Score=26.00 Aligned_cols=19 Identities=26% Similarity=0.473 Sum_probs=16.2
Q ss_pred chhhcHHHHHHHHHHHHHH
Q psy17744 203 DADKNKKAIDRWIKDIGDL 221 (326)
Q Consensus 203 ~aeknpk~Id~WI~sI~eL 221 (326)
=++.+..+.+.||..|.+|
T Consensus 89 l~A~s~ee~~~Wi~~I~~~ 107 (108)
T cd01266 89 LVAKNEEEMTLWVNCICKL 107 (108)
T ss_pred EEECCHHHHHHHHHHHHhh
Confidence 3567889999999999876
No 12
>smart00339 FH FORKHEAD. FORKHEAD, also known as a "winged helix"
Probab=20.54 E-value=64 Score=26.21 Aligned_cols=26 Identities=35% Similarity=0.459 Sum_probs=20.2
Q ss_pred ccceeeeCCCCCCcccCCeeecCCCC
Q psy17744 146 DAFIKVARPDGRPDSLGLTVLDEPCF 171 (326)
Q Consensus 146 DaFiKVpRPDg~~d~LGL~vLDEP~~ 171 (326)
.+|+||+|+.+.+..=+++.||+.+.
T Consensus 57 ~~F~kv~~~~~~~gkg~~W~i~~~~~ 82 (89)
T smart00339 57 DCFVKVPREGDRPGKGSYWTLDPDAE 82 (89)
T ss_pred hceeecCcCCCCCCCCCEEEECccHH
Confidence 68999999765555677889988764
No 13
>PF10170 C6_DPF: Cysteine-rich domain; InterPro: IPR018785 This entry represents the N-terminal approximately 100 amino acids of a family of proteins found in a range of organisms, including human, chicken and Drosophila [, , ]. It contains between six and eight highly conserved cysteine residues and a characteristic DPF sequence motif. One member is putatively named as receptor for egg jelly protein but this could not confirmed.
Probab=20.39 E-value=64 Score=27.38 Aligned_cols=32 Identities=9% Similarity=0.379 Sum_probs=28.0
Q ss_pred CCCceeecCC--CCChHHHHHhhhHHHHHHhhhc
Q psy17744 226 PPPSVHYSRG--MPDLDNLMQEWSNDVEQTISEV 257 (326)
Q Consensus 226 Pp~tV~Ys~~--MPDId~LMQeWP~e~Ee~L~~~ 257 (326)
+.-++.|+|. +|=...=++.||+|+.+-|.|-
T Consensus 63 ~~CSlFYtkrFC~pC~~~~~~~FP~eiq~~l~K~ 96 (97)
T PF10170_consen 63 QDCSLFYTKRFCLPCVKRNLKAFPPEIQKDLEKR 96 (97)
T ss_pred CCccEEeeCceeHHHHHHHHHHCCHHHHHHHHcc
Confidence 3468999999 8999999999999999988763
Done!