Query 020376
Match_columns 327
No_of_seqs 250 out of 607
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 09:14:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020376.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020376hhsearch_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 4.1E-28 8.8E-33 203.0 10.5 111 125-240 1-113 (120)
2 COG1661 Predicted DNA-binding 99.9 6.4E-24 1.4E-28 184.6 13.9 114 123-243 7-123 (141)
3 PF02178 AT_hook: AT hook moti 96.1 0.002 4.3E-08 35.8 0.4 12 55-66 1-12 (13)
4 smart00384 AT_hook DNA binding 96.0 0.0033 7.1E-08 41.0 1.1 15 55-69 1-15 (26)
5 PF14621 RFX5_DNA_bdg: RFX5 DN 81.9 0.56 1.2E-05 43.6 0.7 20 52-71 65-85 (219)
6 PF13546 DDE_5: DDE superfamil 66.4 2.6 5.7E-05 39.2 0.9 14 54-67 230-243 (273)
7 COG1710 Uncharacterized protei 61.7 3.2 6.9E-05 36.5 0.5 20 48-67 77-97 (139)
8 PF03306 AAL_decarboxy: Alpha- 50.7 68 0.0015 30.3 7.4 101 131-235 85-196 (220)
9 COG1777 Predicted transcriptio 45.2 8.5 0.00018 36.6 0.5 23 53-75 62-89 (217)
10 CHL00037 petA cytochrome f 37.7 78 0.0017 31.8 5.8 15 89-103 186-200 (320)
11 TIGR01252 acetolac_decarb alph 30.6 2.2E+02 0.0047 27.3 7.4 87 149-240 104-201 (232)
12 KOG4565 E93 protein involved i 29.6 17 0.00036 33.9 -0.2 16 52-67 110-125 (206)
13 PF13737 DDE_Tnp_1_5: Transpos 22.8 35 0.00076 29.2 0.5 15 52-66 21-35 (112)
14 COG3527 AlsD Alpha-acetolactat 21.8 80 0.0017 30.5 2.8 100 134-237 92-202 (234)
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=99.95 E-value=4.1e-28 Score=202.98 Aligned_cols=111 Identities=32% Similarity=0.455 Sum_probs=99.3
Q ss_pred ceeEEEEEcCCCcHHHHHHHHHHhCCccEEEEEeeceeeeEEEeCCCC--CCCceeeccceeEEEeeeeeeccCCCCCcC
Q 020376 125 FTPHVITINAGEDVMMKVISFSQQGPRAICILSANGVISNVTLRQPDS--SGGTLTYEGRFEILSLSGSFMLTESQGTRS 202 (327)
Q Consensus 125 f~phVIrV~~GEDVvekI~~Faqq~~raicILSaiGaVSnVTLrq~~~--~~~t~t~eG~FEILSLsGsis~~e~g~~~~ 202 (327)
||+|++||++||||+++|++||+++.+..|+||++|+|++|+|++++. ....++|+|+|||+||+|||...++ +
T Consensus 1 ~r~~~~rl~~Gedl~~~l~~~~~~~~i~~~~is~iGsl~~~~l~~~~~~~~~~~~~~~g~~Ei~sl~G~i~~~~g----~ 76 (120)
T PF03479_consen 1 GRVFVIRLDPGEDLLESLEAFAREHGIRSGVISGIGSLSNVTLGYYDPPSYYEPLEFEGPFEIISLSGTISPEDG----K 76 (120)
T ss_dssp EEEEEEEEETTSBHHHHHHHHHHHHT-SSEEEEEEEEEEEEEEEEEETTTEEEEEEEESEEEEEEEEEEEEEETT----E
T ss_pred CcEEEEEECCCCHHHHHHHHHHHHCCCcEEEEEEEeEEeEEEEEEecccCCcceEEecccEEEEEeEEEEECCCC----C
Confidence 689999999999999999999999889889999999999999999954 3358899999999999999998555 4
Q ss_pred CCCceEEEEeCCCCcEEeeeccCccEEecceEEEEEEe
Q 020376 203 RSGGMSVSLASPDGRVVGGAVAGLLVAAGPVQVVVGSF 240 (327)
Q Consensus 203 ~~~HLHVSLA~~dG~ViGGHV~g~lIAastVEVVV~sF 240 (327)
++.|||++|++.||+++||||..+.+ ..++||+|.++
T Consensus 77 ~~~HlHisl~~~~g~v~gGHl~~g~v-~~t~Ev~i~~~ 113 (120)
T PF03479_consen 77 PFVHLHISLADPDGQVFGGHLLEGTV-FATAEVVITEL 113 (120)
T ss_dssp EEEEEEEEEE-TTSEEEEEEEEEEEE-EEEEEEEEEEE
T ss_pred CcceEEEEEECCCCeEEeeEeCCCEE-eEEEEEEEEEe
Confidence 89999999999999999999996676 67999999988
No 2
>COG1661 Predicted DNA-binding protein with PD1-like DNA-binding motif [General function prediction only]
Probab=99.91 E-value=6.4e-24 Score=184.60 Aligned_cols=114 Identities=20% Similarity=0.311 Sum_probs=104.9
Q ss_pred CCceeEEEEEcCCCcHHHHHHHHHHhCCccEEEEEeeceeeeEEEeCCCCCC---CceeeccceeEEEeeeeeeccCCCC
Q 020376 123 TNFTPHVITINAGEDVMMKVISFSQQGPRAICILSANGVISNVTLRQPDSSG---GTLTYEGRFEILSLSGSFMLTESQG 199 (327)
Q Consensus 123 ~~f~phVIrV~~GEDVvekI~~Faqq~~raicILSaiGaVSnVTLrq~~~~~---~t~t~eG~FEILSLsGsis~~e~g~ 199 (327)
..-+.|++||++|||+++.|.+||+++.+..++++|+|++++++|++++.++ .++++.|+||||||.|||..++
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 4567899999999999999999999999999999999999999999999654 5889999999999999999887
Q ss_pred CcCCCCceEEEEeCCCCcEEeeeccCccEEecceEEEEEEecCC
Q 020376 200 TRSRSGGMSVSLASPDGRVVGGAVAGLLVAAGPVQVVVGSFLPG 243 (327)
Q Consensus 200 ~~~~~~HLHVSLA~~dG~ViGGHV~g~lIAastVEVVV~sF~~~ 243 (327)
|+.|||++|++++|+++||||.++.+.. ++||+|..+...
T Consensus 84 ---p~~HlHa~l~~~~G~~~GGHL~~~~V~~-t~Ev~I~el~~~ 123 (141)
T COG1661 84 ---PFVHLHAALGDENGITLGGHLLEGEVFP-TAEVFIRELPGE 123 (141)
T ss_pred ---CcEEEEEEEecCCCcEEeeeecccEEeE-EEEEEEEEcccc
Confidence 7899999999999999999999988765 999999998433
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=96.06 E-value=0.002 Score=35.83 Aligned_cols=12 Identities=67% Similarity=1.085 Sum_probs=4.5
Q ss_pred hhccCCCCCCCC
Q 020376 55 KKKRGRPRKYGP 66 (327)
Q Consensus 55 kkKRGRPrKY~~ 66 (327)
+|+||||+|+..
T Consensus 1 ~r~RGRP~k~~~ 12 (13)
T PF02178_consen 1 KRKRGRPRKNAK 12 (13)
T ss_dssp S--SS--TT---
T ss_pred CCcCCCCccccC
Confidence 689999999864
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=95.95 E-value=0.0033 Score=40.98 Aligned_cols=15 Identities=60% Similarity=0.811 Sum_probs=13.1
Q ss_pred hhccCCCCCCCCCCC
Q 020376 55 KKKRGRPRKYGPDGT 69 (327)
Q Consensus 55 kkKRGRPrKY~~dg~ 69 (327)
|||||||||+..+..
T Consensus 1 kRkRGRPrK~~~~~~ 15 (26)
T smart00384 1 KRKRGRPRKAPKDXX 15 (26)
T ss_pred CCCCCCCCCCCCccc
Confidence 699999999988765
No 5
>PF14621 RFX5_DNA_bdg: RFX5 DNA-binding domain
Probab=81.89 E-value=0.56 Score=43.57 Aligned_cols=20 Identities=50% Similarity=0.848 Sum_probs=14.5
Q ss_pred chhhhccCCCCCC-CCCCCCc
Q 020376 52 TQEKKKRGRPRKY-GPDGTMA 71 (327)
Q Consensus 52 ~~~kkKRGRPrKY-~~dg~~~ 71 (327)
...|||||||||- |-.|...
T Consensus 65 sdAKRKRGRPRKKsggsgErn 85 (219)
T PF14621_consen 65 SDAKRKRGRPRKKSGGSGERN 85 (219)
T ss_pred chhhhhcCCCccCCCCCcccc
Confidence 4689999999964 5555533
No 6
>PF13546 DDE_5: DDE superfamily endonuclease
Probab=66.44 E-value=2.6 Score=39.20 Aligned_cols=14 Identities=64% Similarity=1.099 Sum_probs=10.9
Q ss_pred hhhccCCCCCCCCC
Q 020376 54 EKKKRGRPRKYGPD 67 (327)
Q Consensus 54 ~kkKRGRPrKY~~d 67 (327)
..+|||||||||.-
T Consensus 230 ~~~~rGRPr~~g~~ 243 (273)
T PF13546_consen 230 PPPKRGRPRKYGRR 243 (273)
T ss_pred cCCCCCCCCCCCCc
Confidence 34459999999964
No 7
>COG1710 Uncharacterized protein conserved in archaea [Function unknown]
Probab=61.66 E-value=3.2 Score=36.51 Aligned_cols=20 Identities=50% Similarity=0.825 Sum_probs=15.1
Q ss_pred cCCcchhh-hccCCCCCCCCC
Q 020376 48 GLTGTQEK-KKRGRPRKYGPD 67 (327)
Q Consensus 48 ~~~~~~~k-kKRGRPrKY~~d 67 (327)
+..--++| |-|||||||.-.
T Consensus 77 gI~vIPvk~KgrGrprkyd~~ 97 (139)
T COG1710 77 GIKVIPVKLKGRGRPRKYDRN 97 (139)
T ss_pred CceEeeeeecCCCCCcccchh
Confidence 44445778 889999999763
No 8
>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=50.71 E-value=68 Score=30.27 Aligned_cols=101 Identities=15% Similarity=0.207 Sum_probs=53.0
Q ss_pred EEcCCCcHHHHHHHHHHhCCccEEEEEeeceeeeEEEeCCCCCCC-------ceeeccceeEEEeeeeee----ccCCCC
Q 020376 131 TINAGEDVMMKVISFSQQGPRAICILSANGVISNVTLRQPDSSGG-------TLTYEGRFEILSLSGSFM----LTESQG 199 (327)
Q Consensus 131 rV~~GEDVvekI~~Faqq~~raicILSaiGaVSnVTLrq~~~~~~-------t~t~eG~FEILSLsGsis----~~e~g~ 199 (327)
....-++|-+.|.+... .......+-.-|..+.+.+|-...... .+.-.-.||.-.+.|++. +.--++
T Consensus 85 ~~~~~~~l~~~l~~~~~-~~N~f~airi~G~F~~v~~Rsv~~qe~Py~~l~e~~~~Q~~f~~~ni~GTlVGf~sP~~~~g 163 (220)
T PF03306_consen 85 SPMSKEELEAKLDELLP-SKNLFYAIRIDGTFSSVKTRSVPKQEKPYPPLAEVAKNQPEFTFENIEGTLVGFYSPEYMGG 163 (220)
T ss_dssp EEEEHHHHHHHHHHHSS--TTS-EEEEEEEEEEEEEEE------SS---THHHHTT--EEEEEEEEEEEEEEEE-GGGBT
T ss_pred CCCCHHHHHHHHHHhcC-CCceEEEEEEEEEECeEEEEeccCccCCCCChhHHhccCceEEecCcEEEEEEEEcchhccc
Confidence 33445667777777665 334577788899999999996543211 111123467766666665 433222
Q ss_pred CcCCCCceEEEEeCCCCcEEeeeccCccEEecceEE
Q 020376 200 TRSRSGGMSVSLASPDGRVVGGAVAGLLVAAGPVQV 235 (327)
Q Consensus 200 ~~~~~~HLHVSLA~~dG~ViGGHV~g~lIAastVEV 235 (327)
..-+--|||..=. -+.+||||.+-.+-..+++|
T Consensus 164 i~v~G~HlHFls~---Dr~~GGHvld~~~~~~~v~~ 196 (220)
T PF03306_consen 164 INVPGFHLHFLSD---DRTFGGHVLDFELDNGTVEI 196 (220)
T ss_dssp TB-CEEEEEEEET---TSS-EEEEEEEEEEEEEEEE
T ss_pred cCCceEEEEEecC---CCCCCCCeEEEEeceEEEEE
Confidence 2223345555433 37899999975554444443
No 9
>COG1777 Predicted transcriptional regulators [Transcription]
Probab=45.22 E-value=8.5 Score=36.56 Aligned_cols=23 Identities=52% Similarity=0.709 Sum_probs=15.8
Q ss_pred hhhhccCCCCCCCC-CCC----CccCCC
Q 020376 53 QEKKKRGRPRKYGP-DGT----MALSPM 75 (327)
Q Consensus 53 ~~kkKRGRPrKY~~-dg~----~~l~p~ 75 (327)
-.|.+|||||||-- .++ +.|+|.
T Consensus 62 ie~~~Rg~~rKYY~Is~~~rleV~lsp~ 89 (217)
T COG1777 62 IEKIPRGRPRKYYMISRNLRLEVTLSPN 89 (217)
T ss_pred ccccccCCCcceeeccCCeEEEEEecCc
Confidence 46888899999954 454 445553
No 10
>CHL00037 petA cytochrome f
Probab=37.69 E-value=78 Score=31.79 Aligned_cols=15 Identities=47% Similarity=0.811 Sum_probs=13.2
Q ss_pred CCCCCCCCCCCCCCc
Q 020376 89 SGKRGRGRVSGHESK 103 (327)
Q Consensus 89 ~~kr~Rgr~~p~gs~ 103 (327)
-..||||.-.|.|+|
T Consensus 186 GgNRGRGQvyP~G~K 200 (320)
T CHL00037 186 GGNRGRGQIYPDGSK 200 (320)
T ss_pred ccccCccccCCCCcc
Confidence 368999999999998
No 11
>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=30.61 E-value=2.2e+02 Score=27.27 Aligned_cols=87 Identities=16% Similarity=0.313 Sum_probs=50.7
Q ss_pred CCccEEEEEeeceeeeEEEeCCCC-CC--C----ceeeccceeEEEeeeeee----ccCCCCCcCCCCceEEEEeCCCCc
Q 020376 149 GPRAICILSANGVISNVTLRQPDS-SG--G----TLTYEGRFEILSLSGSFM----LTESQGTRSRSGGMSVSLASPDGR 217 (327)
Q Consensus 149 ~~raicILSaiGaVSnVTLrq~~~-~~--~----t~t~eG~FEILSLsGsis----~~e~g~~~~~~~HLHVSLA~~dG~ 217 (327)
.....+-+-.-|..++|..|-.-. +. . .+.=.-.||+-...|++. +.--+|.. ..++|+-+-+. -|
T Consensus 104 ~~N~f~Airi~G~F~~v~~Rsvp~Q~kPy~~l~e~~~~Q~~f~~~nv~GTlvGF~sP~~~~gi~--v~G~HlHFisd-Dr 180 (232)
T TIGR01252 104 GKNVFYAIRITGEFPKVQTRTVPKQEKPYPPFVEVVKGQPEFHFDNVTGTIVGFWTPAYAKGIN--VAGYHLHFISE-DR 180 (232)
T ss_pred CCccEEEEEEEEEeceeEEEecCCCCCCCcCHHHHhcCCceEEEeccEEEEEEEecchhccccC--CceEEEEEecC-CC
Confidence 455688889999999999996432 21 1 111133488877777765 33322222 33444444443 36
Q ss_pred EEeeeccCccEEecceEEEEEEe
Q 020376 218 VVGGAVAGLLVAAGPVQVVVGSF 240 (327)
Q Consensus 218 ViGGHV~g~lIAastVEVVV~sF 240 (327)
-+||||.+-.+. .+.|-|..+
T Consensus 181 ~~GGHVld~~~~--~~~~~i~~~ 201 (232)
T TIGR01252 181 TFGGHVLDYIID--NGTLEIGQI 201 (232)
T ss_pred CCCcceeEEEee--eeEEEEeec
Confidence 789999975544 444444444
No 12
>KOG4565 consensus E93 protein involved in programmed cell death, putative transcription regulator [Transcription]
Probab=29.55 E-value=17 Score=33.89 Aligned_cols=16 Identities=50% Similarity=0.843 Sum_probs=13.2
Q ss_pred chhhhccCCCCCCCCC
Q 020376 52 TQEKKKRGRPRKYGPD 67 (327)
Q Consensus 52 ~~~kkKRGRPrKY~~d 67 (327)
-.-+|||||-|+|.-.
T Consensus 110 KqpRkKRGrYRqYd~e 125 (206)
T KOG4565|consen 110 KQPRKKRGRYRQYDKE 125 (206)
T ss_pred cCccccccchhhhhHH
Confidence 3568999999999764
No 13
>PF13737 DDE_Tnp_1_5: Transposase DDE domain
Probab=22.75 E-value=35 Score=29.18 Aligned_cols=15 Identities=40% Similarity=0.835 Sum_probs=12.0
Q ss_pred chhhhccCCCCCCCC
Q 020376 52 TQEKKKRGRPRKYGP 66 (327)
Q Consensus 52 ~~~kkKRGRPrKY~~ 66 (327)
.+...|||||++|-.
T Consensus 21 ~~~~~kRGr~~~ySD 35 (112)
T PF13737_consen 21 APPRGKRGRPPRYSD 35 (112)
T ss_pred cCCCCCCCCCcccch
Confidence 456789999999954
No 14
>COG3527 AlsD Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.84 E-value=80 Score=30.50 Aligned_cols=100 Identities=17% Similarity=0.242 Sum_probs=55.5
Q ss_pred CCCcHHHHHHHHHHhCCccEEEEEeeceeeeEEEeCCCCCCC-------ceeeccceeEEEee----eeeeccCCCCCcC
Q 020376 134 AGEDVMMKVISFSQQGPRAICILSANGVISNVTLRQPDSSGG-------TLTYEGRFEILSLS----GSFMLTESQGTRS 202 (327)
Q Consensus 134 ~GEDVvekI~~Faqq~~raicILSaiGaVSnVTLrq~~~~~~-------t~t~eG~FEILSLs----Gsis~~e~g~~~~ 202 (327)
.-||+.+.|..+..-.+. .|-+...|.-..|..|..-.... ...-.=-||.=... |.+.+....+-.-
T Consensus 92 s~e~~~~~i~~~~~s~Nl-F~aiki~G~F~~v~~R~vp~q~~py~p~~e~~~~QPvf~~Env~GtiVGf~tP~~~~Gl~v 170 (234)
T COG3527 92 SSEDVFSGISGTMDSENL-FYAIKITGIFKYVHVRMVPKQTPPYTPLAEVVKIQPVFEFENVKGTIVGFWTPEYFEGLAV 170 (234)
T ss_pred cHHHHHHHhhcccCCCce-EEEEEEeccccceEEEEEeccCCCCccHhhhhccCCceEEeecCceEEEecChHHhccccc
Confidence 446899999888765443 45556667667776664322210 11111123443344 4445544333222
Q ss_pred CCCceEEEEeCCCCcEEeeeccCccEEecceEEEE
Q 020376 203 RSGGMSVSLASPDGRVVGGAVAGLLVAAGPVQVVV 237 (327)
Q Consensus 203 ~~~HLHVSLA~~dG~ViGGHV~g~lIAastVEVVV 237 (327)
.--|+|+ . .|++.+||||..-.+-.++|||-.
T Consensus 171 ~GyHlHF--i-tDdrtfGGHV~D~~~~~~~veI~~ 202 (234)
T COG3527 171 AGYHLHF--I-TDDRTFGGHVLDFEIENGEVEIGA 202 (234)
T ss_pred CceEEEE--e-ecCccccceEEEEEeeeEEEEEee
Confidence 3335554 4 488999999987666666666543
Done!