Query 047830
Match_columns 313
No_of_seqs 249 out of 522
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 03:33:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047830.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047830hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03479 DUF296: Domain of unk 100.0 8.8E-30 1.9E-34 211.3 9.8 117 115-232 1-120 (120)
2 COG1661 Predicted DNA-binding 99.9 3.6E-24 7.9E-29 185.1 14.4 122 113-238 7-131 (141)
3 PF02178 AT_hook: AT hook moti 89.5 0.15 3.2E-06 28.4 0.6 13 88-100 1-13 (13)
4 smart00384 AT_hook DNA binding 75.1 1.9 4.2E-05 28.2 1.5 15 88-102 1-15 (26)
5 TIGR01252 acetolac_decarb alph 44.6 2.4E+02 0.0053 26.8 10.1 93 140-236 105-209 (232)
6 PF15344 FAM217: FAM217 family 43.1 8.6 0.00019 36.7 0.2 12 10-21 51-62 (233)
7 PF14869 DUF4488: Domain of un 26.0 70 0.0015 28.3 3.0 36 142-179 28-63 (133)
8 cd01817 RGS12_RBD Ubiquitin do 25.7 2.2E+02 0.0047 22.8 5.5 43 117-159 11-55 (73)
9 smart00455 RBD Raf-like Ras-bi 24.4 2.7E+02 0.0059 21.4 5.7 45 115-159 9-55 (70)
10 PF02196 RBD: Raf-like Ras-bin 23.9 3.4E+02 0.0073 20.8 6.3 43 115-159 10-54 (71)
11 PF03306 AAL_decarboxy: Alpha- 23.8 82 0.0018 29.5 3.3 113 119-236 83-207 (220)
12 cd01760 RBD Ubiquitin-like dom 22.2 1.4E+02 0.0031 23.3 3.8 37 116-152 10-48 (72)
No 1
>PF03479 DUF296: Domain of unknown function (DUF296); InterPro: IPR005175 This putative conserved domain is found in proteins that contain AT-hook motifs IPR000637 from INTERPRO, suggesting a DNA-binding function for the proteins as a whole, however, the function of this domain is unknown. Overexpression of a protein containing this domain, Q9S7C9 from SWISSPROT, in Arabidopsis thaliana causes late flowering and modified leaf development []. ; PDB: 2DT4_A 2P6Y_A 3HWU_A 3HTN_A 2NMU_A 2H6L_A 2HX0_A.
Probab=99.96 E-value=8.8e-30 Score=211.32 Aligned_cols=117 Identities=34% Similarity=0.451 Sum_probs=106.0
Q ss_pred cceEEEEecCCCcHHHHHHHHHHhcCccEEEEEEEeeeceEEEeCC--CCCCCeEEeeceeeEEeeeecccCCCCCCCCC
Q 047830 115 LRSHVMEIANGCDIMDSVSNFARRRQRGICILSGTGTVTNVTLRQP--ASPGAVVTLHGRFEILSLAGSFLPPPAPPAAS 192 (313)
Q Consensus 115 mr~hVIrL~~GeDIvesI~~FArr~~~av~VLSgiGAVsnVTLRqp--~~~~~~vtleG~FEILSLSGnisp~~~~~~~~ 192 (313)
||+|++||++||||+++|.+||+++++..|+|||+|+|++|+|+++ ...|.+++++|+|||+||+|||+..+ ..++.
T Consensus 1 ~r~~~~rl~~Gedl~~~l~~~~~~~~i~~~~is~iGsl~~~~l~~~~~~~~~~~~~~~g~~Ei~sl~G~i~~~~-g~~~~ 79 (120)
T PF03479_consen 1 GRVFVIRLDPGEDLLESLEAFAREHGIRSGVISGIGSLSNVTLGYYDPPSYYEPLEFEGPFEIISLSGTISPED-GKPFV 79 (120)
T ss_dssp EEEEEEEEETTSBHHHHHHHHHHHHT-SSEEEEEEEEEEEEEEEEEETTTEEEEEEEESEEEEEEEEEEEEEET-TEEEE
T ss_pred CcEEEEEECCCCHHHHHHHHHHHHCCCcEEEEEEEeEEeEEEEEEecccCCcceEEecccEEEEEeEEEEECCC-CCCcc
Confidence 7999999999999999999999999999999999999999999998 44578899999999999999999843 45789
Q ss_pred eEEEEEeCCCCcEEceecC-CceeeeeeEEEEEeeccccce
Q 047830 193 GLTIYLAGGQGQVVGGSVV-GPLVASGPVVIMAASFGNAAY 232 (313)
Q Consensus 193 HLHISLAg~dGqVvGGHL~-G~LIAAg~V~VvaaSF~n~~y 232 (313)
||||+|++.||+|+||||. |.++++.||+|+..++.+.+|
T Consensus 80 HlHisl~~~~g~v~gGHl~~g~v~~t~Ev~i~~~~~~~~~~ 120 (120)
T PF03479_consen 80 HLHISLADPDGQVFGGHLLEGTVFATAEVVITELSGINFTR 120 (120)
T ss_dssp EEEEEEE-TTSEEEEEEEEEEEEEEEEEEEEEEETTEEEEE
T ss_pred eEEEEEECCCCeEEeeEeCCCEEeEEEEEEEEEecCccccC
Confidence 9999999999999999999 889999999999998887664
No 2
>COG1661 Predicted DNA-binding protein with PD1-like DNA-binding motif [General function prediction only]
Probab=99.92 E-value=3.6e-24 Score=185.11 Aligned_cols=122 Identities=16% Similarity=0.249 Sum_probs=109.5
Q ss_pred CCcceEEEEecCCCcHHHHHHHHHHhcCccEEEEEEEeeeceEEEeCCCC---CCCeEEeeceeeEEeeeecccCCCCCC
Q 047830 113 NALRSHVMEIANGCDIMDSVSNFARRRQRGICILSGTGTVTNVTLRQPAS---PGAVVTLHGRFEILSLAGSFLPPPAPP 189 (313)
Q Consensus 113 ~~mr~hVIrL~~GeDIvesI~~FArr~~~av~VLSgiGAVsnVTLRqp~~---~~~~vtleG~FEILSLSGnisp~~~~~ 189 (313)
..-|.|++||++|+|+++.|.+||+++++.+++++|+|+|++++|++++. .|.++++.++||||||.|||+..+
T Consensus 7 ~~gr~~~~Rld~G~d~~~~l~~~a~~~~i~aa~v~~iGal~~~~l~~~~~~~~~y~~~~~~e~~EvlSL~G~i~~~~--- 83 (141)
T COG1661 7 SSGRVIALRLDPGEDLFSELEAFAEQEDIHAAVVTAIGALRDAKLRYFDPEEKEYETIPVNEPLEVLSLLGNIALDD--- 83 (141)
T ss_pred ccceEEEEEeCCCccHHHHHHHHHHhcCceEEEEEEeeeeeeeEEEEecCCCCceEEEecCCcEEEEEecceeecCC---
Confidence 45689999999999999999999999999999999999999999999874 589999999999999999999876
Q ss_pred CCCeEEEEEeCCCCcEEceecCCceeeeeeEEEEEeeccccceeeccCC
Q 047830 190 AASGLTIYLAGGQGQVVGGSVVGPLVASGPVVIMAASFGNAAYERLPLE 238 (313)
Q Consensus 190 ~~~HLHISLAg~dGqVvGGHL~G~LIAAg~V~VvaaSF~n~~yeRlP~e 238 (313)
++.|||++|++++|.++||||++..+.. +++|++-......+.|.+++
T Consensus 84 p~~HlHa~l~~~~G~~~GGHL~~~~V~~-t~Ev~I~el~~~~~~R~~d~ 131 (141)
T COG1661 84 PFVHLHAALGDENGITLGGHLLEGEVFP-TAEVFIRELPGELFRREFDP 131 (141)
T ss_pred CcEEEEEEEecCCCcEEeeeecccEEeE-EEEEEEEEccccceeEecCC
Confidence 6999999999999999999999776664 45556656778889998877
No 3
>PF02178 AT_hook: AT hook motif; InterPro: IPR017956 AT hooks are DNA-binding motifs with a preference for A/T rich regions. These motifs are found in a variety of proteins, including the high mobility group (HMG) proteins [], in DNA-binding proteins from plants [] and in hBRG1 protein, a central ATPase of the human switching/sucrose non-fermenting (SWI/SNF) remodeling complex []. High mobility group (HMG) proteins are a family of relatively low molecular weight non-histone components in chromatin []. HMG-I and HMG-Y (HMGA) are proteins of about 100 amino acid residues which are produced by the alternative splicing of a single gene. HMG-I/Y proteins bind preferentially to the minor groove of AT-rich regions in double-stranded DNA in a non-sequence specific manner [, ]. It is suggested that these proteins could function in nucleosome phasing and in the 3' end processing of mRNA transcripts. They are also involved in the transcription regulation of genes containing, or in close proximity to, AT-rich regions. ; GO: 0003677 DNA binding; PDB: 2EZE_A 2EZD_A 2EZF_A 2EZG_A.
Probab=89.52 E-value=0.15 Score=28.40 Aligned_cols=13 Identities=46% Similarity=0.851 Sum_probs=4.2
Q ss_pred CCCCCCCCCCCCC
Q 047830 88 RRPRGRPAGSKNK 100 (313)
Q Consensus 88 rrpRGRP~GSknK 100 (313)
+|+||||+.+.+|
T Consensus 1 ~r~RGRP~k~~~~ 13 (13)
T PF02178_consen 1 KRKRGRPRKNAKK 13 (13)
T ss_dssp S--SS--TT----
T ss_pred CCcCCCCccccCC
Confidence 5899999987654
No 4
>smart00384 AT_hook DNA binding domain with preference for A/T rich regions. Small DNA-binding motif first described in the high mobility group non-histone chromosomal protein HMG-I(Y).
Probab=75.12 E-value=1.9 Score=28.22 Aligned_cols=15 Identities=33% Similarity=0.687 Sum_probs=11.7
Q ss_pred CCCCCCCCCCCCCCC
Q 047830 88 RRPRGRPAGSKNKPK 102 (313)
Q Consensus 88 rrpRGRP~GSknKpk 102 (313)
+|+||||+.+++...
T Consensus 1 kRkRGRPrK~~~~~~ 15 (26)
T smart00384 1 KRKRGRPRKAPKDXX 15 (26)
T ss_pred CCCCCCCCCCCCccc
Confidence 589999998776643
No 5
>TIGR01252 acetolac_decarb alpha-acetolactate decarboxylase. Puruvate can be fermented to 2,3-butanediol. It is first converted to alpha-acetolactate by alpha-acetolactate synthase, then decarboxylated to acetoin by this enzyme. Acetoin can be reduced in some species to 2,3-butanediol by acetoin reductase.
Probab=44.61 E-value=2.4e+02 Score=26.75 Aligned_cols=93 Identities=17% Similarity=0.300 Sum_probs=58.0
Q ss_pred CccEEEEEEEeeeceEEEeCCCC---CCCe----EEeeceeeEEeeeeccc----CCC-CCCCCCeEEEEEeCCCCcEEc
Q 047830 140 QRGICILSGTGTVTNVTLRQPAS---PGAV----VTLHGRFEILSLAGSFL----PPP-APPAASGLTIYLAGGQGQVVG 207 (313)
Q Consensus 140 ~~av~VLSgiGAVsnVTLRqp~~---~~~~----vtleG~FEILSLSGnis----p~~-~~~~~~HLHISLAg~dGqVvG 207 (313)
....+-+-..|..++|+.|-.-. +|.. +.=.-.||+-..+||+. |.- .+-...++|+-+-+.| +.+|
T Consensus 105 ~N~f~Airi~G~F~~v~~Rsvp~Q~kPy~~l~e~~~~Q~~f~~~nv~GTlvGF~sP~~~~gi~v~G~HlHFisdD-r~~G 183 (232)
T TIGR01252 105 KNVFYAIRITGEFPKVQTRTVPKQEKPYPPFVEVVKGQPEFHFDNVTGTIVGFWTPAYAKGINVAGYHLHFISED-RTFG 183 (232)
T ss_pred CccEEEEEEEEEeceeEEEecCCCCCCCcCHHHHhcCCceEEEeccEEEEEEEecchhccccCCceEEEEEecCC-CCCC
Confidence 45688889999999999998432 3432 22355688877777775 321 1112345555555444 5579
Q ss_pred eecCCceeeeeeEEEEEeeccccceeecc
Q 047830 208 GSVVGPLVASGPVVIMAASFGNAAYERLP 236 (313)
Q Consensus 208 GHL~G~LIAAg~V~VvaaSF~n~~yeRlP 236 (313)
|||....+..+ .|-++.|.+... +||
T Consensus 184 GHVld~~~~~~--~~~i~~~~~~~~-~lP 209 (232)
T TIGR01252 184 GHVLDYIIDNG--TLEIGQIQEFNL-QLP 209 (232)
T ss_pred cceeEEEeeee--EEEEeecccEEE-eCC
Confidence 99999887654 444444555444 667
No 6
>PF15344 FAM217: FAM217 family
Probab=43.14 E-value=8.6 Score=36.71 Aligned_cols=12 Identities=58% Similarity=1.237 Sum_probs=11.0
Q ss_pred CCCCCCCCCcCc
Q 047830 10 PLPPPFHTRDIH 21 (313)
Q Consensus 10 ~~~~~~~~~~~~ 21 (313)
-|||||+|=|||
T Consensus 51 FLPPPFNSwDL~ 62 (233)
T PF15344_consen 51 FLPPPFNSWDLH 62 (233)
T ss_pred CCCCCCcchhHH
Confidence 499999999998
No 7
>PF14869 DUF4488: Domain of unknown function (DUF4488)
Probab=26.01 E-value=70 Score=28.30 Aligned_cols=36 Identities=36% Similarity=0.429 Sum_probs=29.4
Q ss_pred cEEEEEEEeeeceEEEeCCCCCCCeEEeeceeeEEeee
Q 047830 142 GICILSGTGTVTNVTLRQPASPGAVVTLHGRFEILSLA 179 (313)
Q Consensus 142 av~VLSgiGAVsnVTLRqp~~~~~~vtleG~FEILSLS 179 (313)
..=|||.-|+..|+++.. .+.++++..|.||+.|=+
T Consensus 28 ~lKilS~Dgtf~Ni~~~~--~~~aiIt~~GtY~~~sD~ 63 (133)
T PF14869_consen 28 VLKILSDDGTFVNITMIP--KSGAIITGYGTYEQPSDN 63 (133)
T ss_pred cEEEEcCCCcEEEEEEeC--CCCcEEEEeEEEEEcCCc
Confidence 467999999999999932 245899999999998743
No 8
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=25.65 E-value=2.2e+02 Score=22.83 Aligned_cols=43 Identities=23% Similarity=0.208 Sum_probs=31.0
Q ss_pred eEEEEecCCCcHHHHHHHHHHhcCc--cEEEEEEEeeeceEEEeC
Q 047830 117 SHVMEIANGCDIMDSVSNFARRRQR--GICILSGTGTVTNVTLRQ 159 (313)
Q Consensus 117 ~hVIrL~~GeDIvesI~~FArr~~~--av~VLSgiGAVsnVTLRq 159 (313)
.=++.+.+|+-|.+.|...|++++. ..|.+.-.|.=.-+.+.+
T Consensus 11 ~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~~~q 55 (73)
T cd01817 11 TTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLVLDQ 55 (73)
T ss_pred eEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccccCC
Confidence 3478899999999999999999974 455555555544444444
No 9
>smart00455 RBD Raf-like Ras-binding domain.
Probab=24.43 E-value=2.7e+02 Score=21.39 Aligned_cols=45 Identities=18% Similarity=0.345 Sum_probs=33.1
Q ss_pred cceEEEEecCCCcHHHHHHHHHHhcCc--cEEEEEEEeeeceEEEeC
Q 047830 115 LRSHVMEIANGCDIMDSVSNFARRRQR--GICILSGTGTVTNVTLRQ 159 (313)
Q Consensus 115 mr~hVIrL~~GeDIvesI~~FArr~~~--av~VLSgiGAVsnVTLRq 159 (313)
=+...+.+.+|.-|.+.|...|++++. ..|.|.-.|.=.-+.+.+
T Consensus 9 ~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ldl~~ 55 (70)
T smart00455 9 NQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLDLNQ 55 (70)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCcceecCC
Confidence 366789999999999999999999974 466666666323333333
No 10
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=23.93 E-value=3.4e+02 Score=20.83 Aligned_cols=43 Identities=21% Similarity=0.308 Sum_probs=32.2
Q ss_pred cceEEEEecCCCcHHHHHHHHHHhcC--ccEEEEEEEeeeceEEEeC
Q 047830 115 LRSHVMEIANGCDIMDSVSNFARRRQ--RGICILSGTGTVTNVTLRQ 159 (313)
Q Consensus 115 mr~hVIrL~~GeDIvesI~~FArr~~--~av~VLSgiGAVsnVTLRq 159 (313)
-+.-++.+.+|+-|-+.|...|++++ ...|.+--+| .+-.|-+
T Consensus 10 ~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~--~~k~l~~ 54 (71)
T PF02196_consen 10 GQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVG--EKKPLDW 54 (71)
T ss_dssp TEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEE--EEEEE-T
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcC--CCccccC
Confidence 35668999999999999999999997 4577777777 4444444
No 11
>PF03306 AAL_decarboxy: Alpha-acetolactate decarboxylase; InterPro: IPR005128 Alpha-acetolactate decarboxylase plays a dual role in the cell: (i) it catalyzes the second step of the acetoin pathway, (S)-2-hydroxy-2-methyl-3-oxobutanoate = (R)-2-acetoin + CO2 and thus potentially the internal pH of cells and (ii) it controls the pool of alpha-acetolactate during leucine and valine synthesis.; GO: 0047605 acetolactate decarboxylase activity, 0019751 polyol metabolic process, 0005789 endoplasmic reticulum membrane; PDB: 1XV2_B.
Probab=23.85 E-value=82 Score=29.54 Aligned_cols=113 Identities=17% Similarity=0.271 Sum_probs=58.2
Q ss_pred EEEecCCCcHHHHHHHHHHhcCccEEEEEEEeeeceEEEeCCCC---CCC----eEEeeceeeEEeeeeccc----CCCC
Q 047830 119 VMEIANGCDIMDSVSNFARRRQRGICILSGTGTVTNVTLRQPAS---PGA----VVTLHGRFEILSLAGSFL----PPPA 187 (313)
Q Consensus 119 VIrL~~GeDIvesI~~FArr~~~av~VLSgiGAVsnVTLRqp~~---~~~----~vtleG~FEILSLSGnis----p~~~ 187 (313)
+.....-++|.+.|.+..... .....+-.-|..+.|++|-... +|. ++.-+-.||.--++||+. |.--
T Consensus 83 ~~~~~~~~~l~~~l~~~~~~~-N~f~airi~G~F~~v~~Rsv~~qe~Py~~l~e~~~~Q~~f~~~ni~GTlVGf~sP~~~ 161 (220)
T PF03306_consen 83 LDSPMSKEELEAKLDELLPSK-NLFYAIRIDGTFSSVKTRSVPKQEKPYPPLAEVAKNQPEFTFENIEGTLVGFYSPEYM 161 (220)
T ss_dssp -EEEEEHHHHHHHHHHHSS-T-TS-EEEEEEEEEEEEEEE------SS---THHHHTT--EEEEEEEEEEEEEEEE-GGG
T ss_pred cCCCCCHHHHHHHHHHhcCCC-ceEEEEEEEEEECeEEEEeccCccCCCCChhHHhccCceEEecCcEEEEEEEEcchhc
Confidence 344455567777777666533 4477788899999999998432 232 122344677766777764 3211
Q ss_pred -CCCCCeEEEEEeCCCCcEEceecCCceeeeeeEEEEEeeccccceeecc
Q 047830 188 -PPAASGLTIYLAGGQGQVVGGSVVGPLVASGPVVIMAASFGNAAYERLP 236 (313)
Q Consensus 188 -~~~~~HLHISLAg~dGqVvGGHL~G~LIAAg~V~VvaaSF~n~~yeRlP 236 (313)
.-...++|+-+-+. -+.+||||....+..+.|.|-. +.+... +||
T Consensus 162 ~gi~v~G~HlHFls~-Dr~~GGHvld~~~~~~~v~~~~--~~~~~l-~lP 207 (220)
T PF03306_consen 162 GGINVPGFHLHFLSD-DRTFGGHVLDFELDNGTVEIDV--FDDFEL-ELP 207 (220)
T ss_dssp BTTB-CEEEEEEEET-TSS-EEEEEEEEEEEEEEEEEE---SEEEE-E--
T ss_pred cccCCceEEEEEecC-CCCCCCCeEEEEeceEEEEEEe--cCCEEE-ECc
Confidence 11123444444433 3568999999887665555544 444433 556
No 12
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=22.16 E-value=1.4e+02 Score=23.31 Aligned_cols=37 Identities=16% Similarity=0.260 Sum_probs=29.2
Q ss_pred ceEEEEecCCCcHHHHHHHHHHhcCc--cEEEEEEEeee
Q 047830 116 RSHVMEIANGCDIMDSVSNFARRRQR--GICILSGTGTV 152 (313)
Q Consensus 116 r~hVIrL~~GeDIvesI~~FArr~~~--av~VLSgiGAV 152 (313)
+.-++.+.+|+-|.+.|...|++++. ..|.|--.|.-
T Consensus 10 ~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~~~ 48 (72)
T cd01760 10 QRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLGLD 48 (72)
T ss_pred CeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEecCC
Confidence 45688999999999999999999974 45655555544
Done!