Query 029525
Match_columns 192
No_of_seqs 154 out of 1158
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 14:18:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029525.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029525hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00063 histone deacetylase; 100.0 7.6E-39 1.6E-43 285.5 3.5 155 32-188 3-164 (436)
2 COG0123 AcuC Deacetylases, inc 100.0 1.2E-37 2.6E-42 271.6 3.6 152 32-192 1-155 (340)
3 PTZ00346 histone deacetylase; 100.0 4.9E-37 1.1E-41 272.7 3.0 155 32-188 19-181 (429)
4 PF00850 Hist_deacetyl: Histon 100.0 6.3E-36 1.4E-40 258.5 -4.7 143 40-192 1-154 (311)
5 KOG1342 Histone deacetylase co 100.0 3.5E-32 7.6E-37 235.1 3.9 157 31-189 5-166 (425)
6 KOG1344 Predicted histone deac 100.0 6.3E-30 1.4E-34 209.7 9.1 173 20-192 1-173 (324)
7 KOG1343 Histone deacetylase co 99.6 1.8E-16 3.9E-21 150.3 1.4 125 53-192 464-601 (797)
8 KOG1343 Histone deacetylase co 99.5 5.5E-15 1.2E-19 140.3 0.7 158 32-190 28-192 (797)
9 PF02701 zf-Dof: Dof domain, z 65.8 2.6 5.7E-05 28.1 0.6 11 169-179 16-26 (63)
10 PF00220 Hormone_4: Neurohypop 50.5 4.2 9.2E-05 16.9 -0.3 8 172-179 1-8 (9)
11 PF13050 DUF3911: Protein of u 46.9 6.5 0.00014 26.5 0.0 10 169-178 26-35 (77)
12 PF08015 Pheromone: Fungal mat 21.3 53 0.0011 21.8 1.1 8 167-174 62-69 (69)
13 PF15545 Toxin_67: Putative to 20.8 44 0.00095 22.7 0.6 22 152-173 28-52 (70)
No 1
>PTZ00063 histone deacetylase; Provisional
Probab=100.00 E-value=7.6e-39 Score=285.48 Aligned_cols=155 Identities=21% Similarity=0.303 Sum_probs=136.5
Q ss_pred CCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeee
Q 029525 32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII 111 (192)
Q Consensus 32 ~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~ 111 (192)
++++.++||+++..|.+ +.+|||+|.|++.+.++|+++|+...++++.|++|+.++|++||+++||++|++.++....
T Consensus 3 ~~~v~~~yd~~~~~h~~--g~~HP~~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~L~~~~~~~~~ 80 (436)
T PTZ00063 3 RKRVSYFYDPDIGSYYY--GPGHPMKPQRIRMAHALILSYDLYKHMEIYRPHKSVEPELVLFHDEEYVDFLSSISPENYR 80 (436)
T ss_pred CceEEEEECccccCcCC--cCcCCcChHHHHHHHHHHHhCCCcccCeEecCCCCCHHHHHHhCCHHHHHHHHHhChhhcc
Confidence 45689999999999975 5689999999999999999999998899999999999999999999999999987654211
Q ss_pred ---eecCCceec--chhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhhh
Q 029525 112 ---IEVPPVALF--PNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184 (192)
Q Consensus 112 ---~e~~~~~~~--~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l 184 (192)
..+..++++ .|||+++++|+++++++||+|.|++.++++ +||++||||+|||++++|+|||+||||||||++|
T Consensus 81 ~~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~~~iAin~~GG~HHA~~~~A~GFC~~NdiaiAi~~L 160 (436)
T PTZ00063 81 DFTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQADICVNWSGGLHHAKRSEASGFCYINDIVLGILEL 160 (436)
T ss_pred cchhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCCCCEEeeCCCCCCCCccCCCCceeeecHHHHHHHHH
Confidence 011223444 599999999999999999999999999864 5999999999999999999999999999999999
Q ss_pred hhhc
Q 029525 185 FVQL 188 (192)
Q Consensus 185 ~~~~ 188 (192)
++.+
T Consensus 161 ~~~~ 164 (436)
T PTZ00063 161 LKYH 164 (436)
T ss_pred HHhC
Confidence 9865
No 2
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=100.00 E-value=1.2e-37 Score=271.59 Aligned_cols=152 Identities=28% Similarity=0.419 Sum_probs=138.3
Q ss_pred CCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeee
Q 029525 32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII 111 (192)
Q Consensus 32 ~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~ 111 (192)
.|++.++||+.+..|. .+.+|||+|.|++.+.++|++.++...+++++|++++.++|++||+++||++|++.+...+
T Consensus 1 ~~~~~~~~~~~~~~~~--~~~~Hpe~p~R~~~~~~~l~~~~~~~~~~~~~p~~~~~~~l~~vH~~~yv~~l~~~~~~~~- 77 (340)
T COG0123 1 MMKTALIYHPEFLEHE--PPPGHPENPDRLRLILELLESSGLPDSLELVEPRPATLEELLLVHSPDYVEFLESLSEEEG- 77 (340)
T ss_pred CCcceEeeCHHHhcCC--CCCCCCCChHHHHHHHHHHHhcCccccccccCCCcCCHHHHHhhCCHHHHHHHHHhccccc-
Confidence 3678999999999986 4678999999999999999999988888999999999999999999999999999886521
Q ss_pred eecCCceecchhhhhhcccccccccccceeeehhhhhhh---ceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhc
Q 029525 112 IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER---GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL 188 (192)
Q Consensus 112 ~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~---~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~ 188 (192)
...++.|||+++.++++|++++||+++|++.++++ .|++.|||| |||++++++|||+|||+||||++|+++
T Consensus 78 ----~~~~d~d~~~s~~~~~~a~~a~G~al~A~~~v~~g~~~~~~~~rppg-HHA~~~~a~GFC~fNn~Aiaa~~l~~~- 151 (340)
T COG0123 78 ----YGNLDGDTPVSPGTYEAARLAAGGALTAVDAVLEGEDNAFALVRPPG-HHAGRDRASGFCLFNNVAIAAKYLLKK- 151 (340)
T ss_pred ----cccccCCCccChHHHHHHHHHhhHHHHHHHHHHcCccceEEECCCCc-ccccCCCCceeeeecHHHHHHHHHHHc-
Confidence 24578999999999999999999999999999974 689999999 999999999999999999999999998
Q ss_pred ccCC
Q 029525 189 NISR 192 (192)
Q Consensus 189 g~~R 192 (192)
|++|
T Consensus 152 ~~~R 155 (340)
T COG0123 152 GVKR 155 (340)
T ss_pred CCCc
Confidence 7665
No 3
>PTZ00346 histone deacetylase; Provisional
Probab=100.00 E-value=4.9e-37 Score=272.67 Aligned_cols=155 Identities=25% Similarity=0.297 Sum_probs=131.2
Q ss_pred CCCcceE----ecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCce
Q 029525 32 IFKLPLI----YSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPN 107 (192)
Q Consensus 32 ~~~~~ii----y~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~ 107 (192)
..++.+| |.+++..+. ++.+|||+|+|++.++++|++.|+...++++.|++|+.++|++||+++||++|++...
T Consensus 19 ~~~~~~~~~~~y~~~~~~~~--~~~~HPe~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~l~~~~~ 96 (429)
T PTZ00346 19 RGRVALIDTSGYASDMNISA--FVPQHAMKPYRVLAAMEIVRSLKIDAHCRTVVPPLVKVEELMAYHTDTYLANLGLHSC 96 (429)
T ss_pred cceeEEEecCcccccccccc--CCCcCCCCHHHHHHHHHHHHhcCCcccCeeecCCCCCHHHHHHhCCHHHHHHHHHhcc
Confidence 4567899 555565554 4578999999999999999999998889999999999999999999999999987432
Q ss_pred eee--eeecCCceecchhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhh
Q 029525 108 VSI--IIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHY 183 (192)
Q Consensus 108 ~~~--~~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~ 183 (192)
... ..+.....+++|||+++++|+++++++||++.|++.++++ .+|++||||+|||+++++||||+||||||||++
T Consensus 97 ~~~~~~~~~~~~~~d~Dtpv~~~~~~~a~laaGgsl~Aa~~v~~g~~~~Ai~~pGG~HHA~~~~a~GFC~fNdvAIAa~~ 176 (429)
T PTZ00346 97 RSWLWNAETSKVFFSGDCPPVEGLMEHSIATASGTLMGAVLLNSGQVDVAVHWGGGMHHSKCGECSGFCYVNDIVLGILE 176 (429)
T ss_pred cccccccccccccccCCCCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEeCCCCcCcCCCCCCCcchHHhHHHHHHHH
Confidence 110 0111223467899999999999999999999999999864 589999999999999999999999999999999
Q ss_pred hhhhc
Q 029525 184 AFVQL 188 (192)
Q Consensus 184 l~~~~ 188 (192)
|++++
T Consensus 177 ll~~~ 181 (429)
T PTZ00346 177 LLKCH 181 (429)
T ss_pred HHHcC
Confidence 99864
No 4
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine. Histone deacetylases (HDA) catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily []. HDAs function in multi-subunit complexes, reversing the acetylation of histones by histone acetyltransferases [, ], and are also believed to deacetylate general transcription factors such as TFIIF and sequence-specific transcription factors such as p53 []. Thus, HDAs contribute to the regulation of transcription, in particular transcriptional repression []. At N-terminal tails of histones, removal of the acetyl group from the epsilon-amino group of a lysine side chain will restore its positivecharge, which may stabilise the histone-DNA interaction and prevent activating transcription factors binding to promoter elements []. HDAs play important roles in the cell cycle and differentiation, and their deregulation can contribute to the development of cancer [, ]. This entry represents the structural domain found in histone deacetylases. It consists of a 3-layer(alpha-beta-alpha) sandwich.; PDB: 4A69_A 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G 3MAX_C 3MEN_D 1T64_B ....
Probab=100.00 E-value=6.3e-36 Score=258.46 Aligned_cols=143 Identities=24% Similarity=0.383 Sum_probs=108.3
Q ss_pred cCCCceeeccccccCCCCCcchHHHHHHhhhc-CccCCCceecccccCccceEEEecHHHHhhcccCceeeeeee-cCCc
Q 029525 40 SPDYDISFLGIEKLHPFDSSKWGRICQFLSSE-GFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIE-VPPV 117 (192)
Q Consensus 40 ~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~-gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~~e-~~~~ 117 (192)
||.|. |. ++++|||+|+|++.+.+.|++. ++++. ++++.++|++||+++||+.|++.+......+ ....
T Consensus 1 ~~~~~-~~--~~~~Hpe~p~R~~~i~~~L~~~~~l~~~------~~a~~~~L~~vH~~~Yv~~l~~~~~~~~~~~~~~~~ 71 (311)
T PF00850_consen 1 HPQYQ-HQ--LGDGHPESPERLESIVEALKESYGLLPR------RPATDEELLRVHDPEYVDFLESASKEAKEEEEAGSP 71 (311)
T ss_dssp ----T-T---CCTTSSSCTHHHHHHHHHHHHTTTGGGG----------HHHHTTTS-HHHHHHHHHHHHHTSGCTHHHHH
T ss_pred CCccc-CC--CCCCcCCCHHHHHHHHHHHHHhcCCCCC------CCCCHHHHHHcCCHHHHHHHHHhccccccccccccc
Confidence 56776 43 5678999999999999999886 76543 9999999999999999999998775322111 0000
Q ss_pred ---e-e-cchhhhhhcccccccccccceeeehhhhhh----hceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhc
Q 029525 118 ---A-L-FPNCLVQRKVLYPFRKQVGGTILAAKLAKE----RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL 188 (192)
Q Consensus 118 ---~-~-~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~----~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~ 188 (192)
. + +.|||+++++++++++++||++.|++.+++ ++||++|||| |||.+++++|||+||||||||+||++++
T Consensus 72 ~~~~~~~~~dt~~~~~~~~~a~~a~g~~l~a~~~v~~g~~~~~~a~~rppg-HHA~~~~a~GFC~~Nnvaiaa~~l~~~~ 150 (311)
T PF00850_consen 72 EFPNILDDGDTPISPGSWEAARLAAGGTLEAADAVLSGEIKNAFALVRPPG-HHAERDRAMGFCYFNNVAIAAKYLRKKY 150 (311)
T ss_dssp HHCCBTSSSSSEBCTTHHHHHHHHHHHHHHHHHHHHTTSSSEEEEEESS---TT-BTTBBBTTBSS-HHHHHHHHHHHTT
T ss_pred ccccccCCCCcceehHHHHHHHHHHHHHHHHHHhhhcccccceeeecCccc-cccCcCcCcceeeeccHHHHHHHHhhcc
Confidence 0 1 578999999999999999999999999994 4799999999 9999999999999999999999999988
Q ss_pred ccCC
Q 029525 189 NISR 192 (192)
Q Consensus 189 g~~R 192 (192)
|++|
T Consensus 151 ~~~r 154 (311)
T PF00850_consen 151 GLKR 154 (311)
T ss_dssp TTSS
T ss_pred ccce
Confidence 8887
No 5
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=99.97 E-value=3.5e-32 Score=235.13 Aligned_cols=157 Identities=25% Similarity=0.329 Sum_probs=140.2
Q ss_pred CCCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeee
Q 029525 31 PIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI 110 (192)
Q Consensus 31 ~~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~ 110 (192)
.+.++.+.|+++-... .++.+||++|.|++....++..+||...+++..|..|+.+|+.++|+.+||++|+..++...
T Consensus 5 ~k~~V~y~yd~~vg~~--~Yg~~hpmkP~R~~mth~Lv~~YgL~k~M~i~~p~~a~~~dm~~FHt~eYi~fL~~V~p~n~ 82 (425)
T KOG1342|consen 5 IKRRVSYFYDPDVGNF--HYGQGHPMKPHRIRMTHSLVLNYGLYKKMEIYRPDKASAQDMTRFHTDEYINFLQSVTPENM 82 (425)
T ss_pred CCceEEEEecCccccc--cccCCCCCCcceehhhhHHHHhcchhhceeeccCCCCCHHHHHhhchHHHHHHHhhCCcccc
Confidence 4667888899888754 46789999999999999999999999999999999999999999999999999999887543
Q ss_pred e---eecCCceecchhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhhhh
Q 029525 111 I---IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF 185 (192)
Q Consensus 111 ~---~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~ 185 (192)
. .++..++++.|||+++++|+.+++++||+|.||+.+..+ .+|+||+||+|||++++|+|||++|||++||..|+
T Consensus 83 ~~~~~~~~~fNvg~DCPvF~gL~~fC~~~~GgSl~aa~kLn~~~~dIaINW~GGlHHAKK~eASGFCYvNDIVL~ILeLl 162 (425)
T KOG1342|consen 83 ETFNKELKQFNVGEDCPVFDGLYDYCQLYTGGSLNAAQKLNRGECDIAINWAGGLHHAKKSEASGFCYVNDIVLGILELL 162 (425)
T ss_pred cccchHHHhcCCCCCCccccCHHHHHHHhcccchHHHHHhCCCCceEEEecCcccccccccccCcceeehHHHHHHHHHH
Confidence 1 233456788999999999999999999999999988753 59999999999999999999999999999999999
Q ss_pred hhcc
Q 029525 186 VQLN 189 (192)
Q Consensus 186 ~~~g 189 (192)
|.+.
T Consensus 163 K~h~ 166 (425)
T KOG1342|consen 163 KYHK 166 (425)
T ss_pred HhCC
Confidence 8653
No 6
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics]
Probab=99.96 E-value=6.3e-30 Score=209.73 Aligned_cols=173 Identities=58% Similarity=1.034 Sum_probs=163.2
Q ss_pred cccccceeeecCCCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHH
Q 029525 20 RILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYL 99 (192)
Q Consensus 20 ~~~~~~~~~~~~~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv 99 (192)
+++|+++++.+|..+++|+|++.|...+.++...||++..++..+.+.|.+.++++.-.+++|..++.++|++||+.+|+
T Consensus 1 ~v~~~kly~~vp~~k~pIvyS~~Y~i~FmGlEkLHPFDa~Kwg~v~kfL~~~~~l~d~~lvEp~e~t~e~L~rvHtr~YL 80 (324)
T KOG1344|consen 1 EVVWVKLYDAVPAGKLPIVYSRNYAIRFMGLEKLHPFDAAKWGHVHKFLCAMNLLTDETLVEPNEATKEDLLRVHTRKYL 80 (324)
T ss_pred CceeeeecccCccccccEEecCccceeecchhhcCcCcccchhHHHHHHHHhccccccccccCcccCHHHHHhHhhHHHH
Confidence 36899999999999999999999999988888999999999999999999999998888999999999999999999999
Q ss_pred hhcccCceeeeeeecCCceecchhhhhhcccccccccccceeeehhhhhhhceeEeecCCcccccCCCCCeeeEechhhh
Q 029525 100 KSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISL 179 (192)
Q Consensus 100 ~~l~~~~~~~~~~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~~~a~~rppG~HHA~~~~a~GFC~fNnvAI 179 (192)
+.++..-..+.+.|+|...+.|.|++....+...++-+||++.|++++++.|+|+|..|||||+..++++|||.|.|+.+
T Consensus 81 kslr~s~~vA~I~EiP~v~flPn~~iqrk~LrPlR~QagGtilA~kLAle~GWAINvGGGFHHcss~rGGGFC~yADItl 160 (324)
T KOG1344|consen 81 KSLRWSIKVAQITEIPFVGFLPNCIIQRKLLRPLRLQAGGTILAAKLALERGWAINVGGGFHHCSSSRGGGFCAYADITL 160 (324)
T ss_pred HHhhccceeeEEEeccccccCchhhhhhhhccceeeccCceeehhhhhhhcCeEEeecCccceeccCCCCceeehhhHHH
Confidence 99999888888889998888899999999999999999999999999999999999999999999999999999999999
Q ss_pred hHhhhhhhcccCC
Q 029525 180 CIHYAFVQLNISR 192 (192)
Q Consensus 180 Aa~~l~~~~g~~R 192 (192)
|+..|-++..++|
T Consensus 161 ~I~~lFer~~isr 173 (324)
T KOG1344|consen 161 AIFFLFERKAISR 173 (324)
T ss_pred HHHHHHhhhhhhh
Confidence 9999987765544
No 7
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=99.60 E-value=1.8e-16 Score=150.33 Aligned_cols=125 Identities=22% Similarity=0.281 Sum_probs=87.3
Q ss_pred cCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeee---e----eecCCceecchhhh
Q 029525 53 LHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI---I----IEVPPVALFPNCLV 125 (192)
Q Consensus 53 ~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~---~----~e~~~~~~~~d~~~ 125 (192)
+|++.|.|. .-.+. .|++..|+.+ |+.++|+.||+.+||..+...-..+. . .++...+.++|+.+
T Consensus 464 ~~~~~p~r~---~t~~~-~gl~~~c~r~----at~~el~~vHs~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~dt~~ 535 (797)
T KOG1343|consen 464 RSPESPARF---TTGLH-TGLLGKCERI----ATLEELQLVHSEAHVLLYGSRKLLGDLSLKFESRLPCGGIGVDSDTWW 535 (797)
T ss_pred CCcccchhh---hcccc-cccccccccc----cchhhhhhcccchhhcccchhhhcccccchhhhhccccceeecccHHH
Confidence 689999992 22222 7888888776 99999999999999999662111100 0 01112233455554
Q ss_pred hhcccccccccccceeeehhhhhh------hceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhcccCC
Q 029525 126 QRKVLYPFRKQVGGTILAAKLAKE------RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR 192 (192)
Q Consensus 126 ~~~~~~~a~~aaGg~l~aa~~~l~------~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~g~~R 192 (192)
+ ...++|++..+++.+++ .|||++|||| |||.+..+||||+|||+|||+++++..+.++|
T Consensus 536 ~------~~~ssga~~~av~~v~~~~~~~~~g~avvRppG-Hha~~~~a~gfc~fn~vaiaak~l~~~~~~~r 601 (797)
T KOG1343|consen 536 N------ELHSSGAARLAVGCVIELAFKVASGFAVVRPPG-HHAEASTAMGFCFFNSVAIAAKLLQQRSKASR 601 (797)
T ss_pred H------HHHHHHHHHHhcchhhhhhhhhhcceeEecCCc-cccccCCcceeeeecchhhhhHHhhhhhhhcc
Confidence 4 44555555555554422 3899999999 99999999999999999999999998874443
No 8
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=99.48 E-value=5.5e-15 Score=140.29 Aligned_cols=158 Identities=15% Similarity=0.105 Sum_probs=124.2
Q ss_pred CCCcceEecCCCceeeccccccC-CCCCcchHHHHHHhhhcCccCCCceecc-cccCccceEEEecHHHHhhcccCceee
Q 029525 32 IFKLPLIYSPDYDISFLGIEKLH-PFDSSKWGRICQFLSSEGFLDKNCIVEP-LEASKEDLLVVHSESYLKSLQSSPNVS 109 (192)
Q Consensus 32 ~~~~~iiy~~~~~~h~~~~~~~H-pe~p~R~~~i~~~L~~~gl~~~~~~~~p-~~a~~e~l~~vH~~~Yv~~l~~~~~~~ 109 (192)
.+.+.++|++.+..|.......| ++.++|++.+.+.+.+.++...+.+..+ +.+++++++.+|+++|++.+.......
T Consensus 28 ~~~~~l~~~~~~~~h~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~v~~ke~~~~~~~t~~~~ 107 (797)
T KOG1343|consen 28 QIQKQLLFAEFQKQHENQQELLEKEEKLERLRQIEEELERHRLEQPLLILRNKREAKESAVASVHVKEKLQEFLLSKKMT 107 (797)
T ss_pred hhhhhhhhhhhhhhhhcccccccchhhhhHHHHHHHHhhccCCccccccccchhhcccchhcccccHHHHHHHHhhhhhc
Confidence 56789999999999953222334 4889999999999999998877766555 899999999999999999998766211
Q ss_pred eeeecCC-ceecchhhhhhcccccccccccceeeehhhhh----hhceeEeecCCcccccCCCCCeeeEechhhhhHhhh
Q 029525 110 IIIEVPP-VALFPNCLVQRKVLYPFRKQVGGTILAAKLAK----ERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184 (192)
Q Consensus 110 ~~~e~~~-~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l----~~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l 184 (192)
....... ..-.+..++++.++..+..++|+.+...+.++ .++++.+|||| |||.++...|||+|||||++++..
T Consensus 108 ~e~~l~~~~~~~~~~~~~~~s~~~a~~a~~~~~~~~~~~~~~~~~n~~a~v~p~~-hhsep~~~~~~cl~n~Va~~~~~~ 186 (797)
T KOG1343|consen 108 AEEGLNHSSSRYPSLYYTSASHSSADQASGSLSGSYKAVLAGKASNGKADFRPPG-HHSEPNLKVGFCLFNNVAERRSSP 186 (797)
T ss_pred chhhhhcccCCCCcceecCCchhhhcccCcccccccccccCCcccCccCcCCCCC-CccccchhcchhHHHHHHHHhhcc
Confidence 1000100 01245677888899999999999999777765 36899999999 999999999999999999999987
Q ss_pred hhhccc
Q 029525 185 FVQLNI 190 (192)
Q Consensus 185 ~~~~g~ 190 (192)
..++.+
T Consensus 187 ~~~~~~ 192 (797)
T KOG1343|consen 187 LLRRKK 192 (797)
T ss_pred cccccc
Confidence 766543
No 9
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=65.84 E-value=2.6 Score=28.06 Aligned_cols=11 Identities=36% Similarity=0.848 Sum_probs=8.2
Q ss_pred CeeeEechhhh
Q 029525 169 GGFCAYADISL 179 (192)
Q Consensus 169 ~GFC~fNnvAI 179 (192)
-=||||||--+
T Consensus 16 TKFcYyNNy~~ 26 (63)
T PF02701_consen 16 TKFCYYNNYNL 26 (63)
T ss_pred CEEEeecCCCC
Confidence 35999999643
No 10
>PF00220 Hormone_4: Neurohypophysial hormones, N-terminal Domain; InterPro: IPR022423 Oxytocin (or ocytocin) and vasopressin [] are small (nine amino acid residues), structurally and functionally related neurohypophysial peptide hormones. Oxytocin causes contraction of the smooth muscle of the uterus and of the mammary gland while vasopressin has a direct antidiuretic action on the kidney and also causes vasoconstriction of the peripheral vessels. Like the majority of active peptides, both hormones are synthesized as larger protein precursors that are enzymatically converted to their mature forms. Peptides belonging to this family are also found in birds, fish, reptiles and amphibians (mesotocin, isotocin, valitocin, glumitocin, aspargtocin, vasotocin, seritocin, asvatocin, phasvatocin), in worms (annetocin), octopi (cephalotocin), locust (locupressin or neuropeptide F1/F2) and in molluscs (conopressins G and S) []. The pattern developed to detect this category of peptides spans their entire sequence and includes four invariant amino acid residues. .; GO: 0005185 neurohypophyseal hormone activity, 0005576 extracellular region
Probab=50.51 E-value=4.2 Score=16.87 Aligned_cols=8 Identities=13% Similarity=0.513 Sum_probs=5.7
Q ss_pred eEechhhh
Q 029525 172 CAYADISL 179 (192)
Q Consensus 172 C~fNnvAI 179 (192)
|||+|+-+
T Consensus 1 C~i~nCP~ 8 (9)
T PF00220_consen 1 CYIRNCPI 8 (9)
T ss_pred CccccCCC
Confidence 78888644
No 11
>PF13050 DUF3911: Protein of unknown function (DUF3911)
Probab=46.90 E-value=6.5 Score=26.53 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=8.0
Q ss_pred CeeeEechhh
Q 029525 169 GGFCAYADIS 178 (192)
Q Consensus 169 ~GFC~fNnvA 178 (192)
.|||-|||-+
T Consensus 26 kgfckf~nyv 35 (77)
T PF13050_consen 26 KGFCKFNNYV 35 (77)
T ss_pred ccccccCCEE
Confidence 5899999853
No 12
>PF08015 Pheromone: Fungal mating-type pheromone; InterPro: IPR012597 This family corresponds to mating-type pheromone proteins. The homobasidiomycetes, or mushroom fungi, have arguably the most complex mating system of all known organisms. Many species possess a mating system known as bifactorial incompatibility, where two unlinked loci control the mating-type of an individual incompatibility loci (the A and B mating-type loci). Each A mating-type sublocus encodes a pair of divergently transcribed homeodomain transcription factors while the genes responsible for B mating-type activity encode lipopeptide pheromones and G-protein -coupled pheromone receptors [].; GO: 0000772 mating pheromone activity, 0016020 membrane
Probab=21.29 E-value=53 Score=21.84 Aligned_cols=8 Identities=38% Similarity=1.028 Sum_probs=6.4
Q ss_pred CCCeeeEe
Q 029525 167 EGGGFCAY 174 (192)
Q Consensus 167 ~a~GFC~f 174 (192)
...|||++
T Consensus 62 ~~~~fCVI 69 (69)
T PF08015_consen 62 GAGAFCVI 69 (69)
T ss_pred CceEEEeC
Confidence 67789985
No 13
>PF15545 Toxin_67: Putative toxin 67
Probab=20.84 E-value=44 Score=22.65 Aligned_cols=22 Identities=18% Similarity=0.198 Sum_probs=17.8
Q ss_pred eeEeecCCc---ccccCCCCCeeeE
Q 029525 152 WAINVGGGF---HHCSADEGGGFCA 173 (192)
Q Consensus 152 ~a~~rppG~---HHA~~~~a~GFC~ 173 (192)
-.+-.|||+ |+-+...+.||||
T Consensus 28 ~~iRlPpG~~LAH~rg~ea~kGy~Y 52 (70)
T PF15545_consen 28 KSIRLPPGKELAHWRGFEAKKGYGY 52 (70)
T ss_pred ceecCCCchhhhhhhccccccCcce
Confidence 466778886 8888888999998
Done!