Query 030306
Match_columns 179
No_of_seqs 108 out of 873
Neff 6.3
Searched_HMMs 29240
Date Mon Mar 25 19:00:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030306.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/030306hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3ulx_A Stress-induced transcri 100.0 8.4E-53 2.9E-57 336.8 14.9 144 3-169 18-173 (174)
2 1ut7_A No apical meristem prot 100.0 2.6E-52 8.8E-57 333.3 12.5 145 2-169 19-170 (171)
3 4dox_A Coat protein; all helix 30.8 16 0.00055 29.6 1.1 21 2-22 157-178 (226)
4 1cmb_A Met APO-repressor; DNA- 23.4 81 0.0028 22.0 3.5 37 7-50 50-89 (104)
5 1ldd_A APC2WHB, anaphase promo 21.3 48 0.0016 22.1 1.9 26 2-27 38-64 (74)
6 1q1v_A DEK protein; winged-hel 12.2 1.3E+02 0.0046 19.5 2.3 20 7-26 11-30 (70)
7 3g1g_A GAG polyprotein, capsid 10.1 1.4E+02 0.0046 20.6 1.8 20 7-26 62-81 (87)
8 2fl7_A Regulatory protein SIR3 8.0 5.2E+02 0.018 20.7 4.8 44 112-162 48-91 (232)
9 2la3_A Uncharacterized protein 7.2 2.2E+02 0.0077 22.1 2.2 27 17-48 47-75 (191)
10 3lqv_P Splicing factor 3B subu 6.8 1.8E+02 0.0062 17.0 1.1 6 9-14 24-29 (39)
No 1
>3ulx_A Stress-induced transcription factor NAC1; NAC family, stress-responsive, DNA binding protein; 2.60A {Oryza sativa subsp} SCOP: b.143.1.1
Probab=100.00 E-value=8.4e-53 Score=336.77 Aligned_cols=144 Identities=33% Similarity=0.563 Sum_probs=124.7
Q ss_pred CCccCCChHHHHHH-HHHhhcCCCCCCCCCceeeccC--CCCCCcCccchhhhhccccccccCCCCCCCCCCceEEEeec
Q 030306 3 TDPYNPFDQSLIKQ-LNNKIIDEPVEFPDLITTEIND--HHPADFFPGSLLRAFCTSFNNVQLPKGGDRDREKGCYVLTP 79 (179)
Q Consensus 3 g~RF~PTDeELI~~-L~~Ki~g~pl~~~~~~I~~~Dv--~~Pw~~Lp~~~~~~~~~~~~~~~~~~g~~~~~~~~wyFFs~ 79 (179)
||||+|||||||.| |++|+.|.++ +..+|+++|| +|||+ ||+.+. .++++|||||+
T Consensus 18 GfRF~PTDeELV~~YL~~K~~g~~~--~~~~I~evDvy~~~Pw~-Lp~~~~------------------~g~~ewYFFs~ 76 (174)
T 3ulx_A 18 GFRFHPTDDELVEHYLCRKAAGQRL--PVPIIAEVDLYKFDPWD-LPERAL------------------FGAREWYFFTP 76 (174)
T ss_dssp TCCCCCCHHHHHHHTHHHHHHTCCC--SSSCCEECCGGGSCGGG-SGGGCS------------------SCSSEEEEEEE
T ss_pred cceeCCCHHHHHHHHHHHHhcCCCC--CcCeeeecccccCCchh-hhhhhc------------------cCCceEEEEec
Confidence 99999999999999 9999999999 7789999999 99999 998764 44689999999
Q ss_pred cccccCCCCCccccccceeeeecCcccceEeCCCCcEEEEEEeeeeeCCCCCCCCCcCeEEEEEEeCCCCC---------
Q 030306 80 KHLLYGLTWLPERRAKNGYWKPYGYIDGRIFGACGKLVAIKQSFTFHEPGENIGRKTDWNMTEYRLLKHSC--------- 150 (179)
Q Consensus 80 ~~~k~~~g~R~~R~~~~G~Wk~~G~~~~~I~~~~g~~vG~kk~l~Fy~g~~~~~~kT~W~M~EY~l~~~~~--------- 150 (179)
+.+|+++|.|++|+|++||||++| ++++|.+ .|.+||+||+|+||.|+++++.+|+|+||||+|..+..
T Consensus 77 r~~ky~~g~R~nR~t~~G~WkatG-~dk~I~~-~g~~vG~KktLvFy~g~~p~g~kT~WvMhEY~L~~~~~~~~~~~~~~ 154 (174)
T 3ulx_A 77 RDRKYPNGSRPNRAAGNGYWKATG-ADKPVAP-RGRTLGIKKALVFYAGKAPRGVKTDWIMHEYRLADAGRAAAGAKKGS 154 (174)
T ss_dssp CCC-----CCSCEEETTEEEEECS-CCEEECC-SSSCCEEEEEEEEEESSTTSCEEEEEEEEEEEECSCC----------
T ss_pred cccccCCCCCceeecCCceEccCC-CCcEEee-CCcEEEEEEEEEEecCCCCCCCcCCeEEEEEEeCCCCCcccccccCC
Confidence 999999999999999999999999 9999985 48999999999999999999999999999999998642
Q ss_pred CCCCCEEEEEEEEcCCccC
Q 030306 151 TSLDSWVLCKIYWESEIIE 169 (179)
Q Consensus 151 ~~~~~~VLCrI~~k~~~~~ 169 (179)
...++|||||||+|++..+
T Consensus 155 ~~~~~wVlCrvf~K~~~~~ 173 (174)
T 3ulx_A 155 LRLDDWVLCRLYNKKNEWE 173 (174)
T ss_dssp -CCSSEEEEEEEESCC---
T ss_pred CCCCCEEEEEEEEcCCCcC
Confidence 1357899999999987654
No 2
>1ut7_A No apical meristem protein; transcription regulation, transcription, transcription factor, DNA binding, abscisic acid response, NAC domain; 1.9A {Arabidopsis thaliana} SCOP: b.143.1.1 PDB: 1ut4_A 4dul_A 3swp_A 3swm_A
Probab=100.00 E-value=2.6e-52 Score=333.28 Aligned_cols=145 Identities=34% Similarity=0.515 Sum_probs=121.8
Q ss_pred CCCccCCChHHHHHH-HHHhhcCCCCCCCCCceeeccC--CCCCCcCccchhhhhccccccccCCCCCCCCCCceEEEee
Q 030306 2 ETDPYNPFDQSLIKQ-LNNKIIDEPVEFPDLITTEIND--HHPADFFPGSLLRAFCTSFNNVQLPKGGDRDREKGCYVLT 78 (179)
Q Consensus 2 ~g~RF~PTDeELI~~-L~~Ki~g~pl~~~~~~I~~~Dv--~~Pw~~Lp~~~~~~~~~~~~~~~~~~g~~~~~~~~wyFFs 78 (179)
-||||+|||||||.| |++|+.|.++ +..+|+++|| +|||+ ||+... .++++|||||
T Consensus 19 pGfRF~PTDeELv~~YL~~K~~g~~~--~~~~I~e~Diy~~~Pw~-Lp~~~~------------------~g~~ewyFFs 77 (171)
T 1ut7_A 19 PGFRFYPTDEELMVQYLCRKAAGYDF--SLQLIAEIDLYKFDPWV-LPNKAL------------------FGEKEWYFFS 77 (171)
T ss_dssp TTEEECCCHHHHHHHTHHHHHTTCCC--SSCCSEECCGGGSCGGG-HHHHSS------------------SCSSEEEEEE
T ss_pred CcceeCCChHHHHHHHHHHHhcCCCC--CCCeEeecccccCChhH-hhchhh------------------cCCccEEEEe
Confidence 389999999999999 9999999999 7789999999 99999 998764 4578999999
Q ss_pred ccccccCCCCCccccccceeeeecCcccceEeCCCCcEEEEEEeeeeeCCCCCCCCCcCeEEEEEEeCCCCC----CCCC
Q 030306 79 PKHLLYGLTWLPERRAKNGYWKPYGYIDGRIFGACGKLVAIKQSFTFHEPGENIGRKTDWNMTEYRLLKHSC----TSLD 154 (179)
Q Consensus 79 ~~~~k~~~g~R~~R~~~~G~Wk~~G~~~~~I~~~~g~~vG~kk~l~Fy~g~~~~~~kT~W~M~EY~l~~~~~----~~~~ 154 (179)
++.+|+++|.|++|+|++||||++| ++++|.. +|.+||+||+|+||.|+.+++.+|+|+||||+|..... ...+
T Consensus 78 ~r~~k~~~g~R~~R~t~~G~Wk~tG-~~k~I~~-~~~~vG~KktLvFy~g~~p~g~kT~WvMhEY~l~~~~~~~~~~~~~ 155 (171)
T 1ut7_A 78 PRDRKYPNGSRPNRVAGSGYWKATG-TDKIIST-EGQRVGIKKALVFYIGKAPKGTKTNWIMHEYRLIEPSRRNGSTKLD 155 (171)
T ss_dssp ECCC-------CCEEETTEEEEEEE-EEEEEEE-TTEEEEEEEEEEEEESSTTSCEEEEEEEEEEEECCCC--------C
T ss_pred ccccccCCCCcccccCCCCEEeccC-CCceEEe-cCcEEEEEEEEEEEcCcCCCCCcCCeEEEEEEcCCCccccCcccCC
Confidence 9999999999999999999999999 9999985 57999999999999999999999999999999998742 2468
Q ss_pred CEEEEEEEEcCCccC
Q 030306 155 SWVLCKIYWESEIIE 169 (179)
Q Consensus 155 ~~VLCrI~~k~~~~~ 169 (179)
+|||||||+|+.+.+
T Consensus 156 ~~VlCrv~~k~~~~~ 170 (171)
T 1ut7_A 156 DWVLCRIYKKQSSAQ 170 (171)
T ss_dssp CEEEEEEEECC----
T ss_pred CEEEEEEEEcCCCCC
Confidence 999999999987754
No 3
>4dox_A Coat protein; all helix capsid protein, virus capsid structure, viral PROT; 2.70A {Papaya mosaic virus}
Probab=30.85 E-value=16 Score=29.63 Aligned_cols=21 Identities=14% Similarity=0.165 Sum_probs=15.6
Q ss_pred CCCccCCChHHHHHH-HHHhhc
Q 030306 2 ETDPYNPFDQSLIKQ-LNNKII 22 (179)
Q Consensus 2 ~g~RF~PTDeELI~~-L~~Ki~ 22 (179)
+|..+.||++|+|.| ..+++.
T Consensus 157 ~GLiR~PT~~E~iA~~t~K~ia 178 (226)
T 4dox_A 157 SGLTRSPTQEERIANATNKQVH 178 (226)
T ss_dssp TCCSSCCCHHHHHHHHTC----
T ss_pred CCCCCCCCHHHHHHHHHHHHHH
Confidence 689999999999999 666554
No 4
>1cmb_A Met APO-repressor; DNA-binding regulatory protein; 1.80A {Escherichia coli} SCOP: a.43.1.5 PDB: 1cma_A 1cmc_A* 1mjl_A* 1mj2_A 1mjk_A* 1mjm_A 1mjo_A* 1mjp_A 1mjq_A*
Probab=23.41 E-value=81 Score=22.01 Aligned_cols=37 Identities=14% Similarity=0.369 Sum_probs=29.8
Q ss_pred CCChHHHHHH-HHHhhcCCCCCCCCCceeeccC--CCCCCcCccchh
Q 030306 7 NPFDQSLIKQ-LNNKIIDEPVEFPDLITTEIND--HHPADFFPGSLL 50 (179)
Q Consensus 7 ~PTDeELI~~-L~~Ki~g~pl~~~~~~I~~~Dv--~~Pw~~Lp~~~~ 50 (179)
|-|..||++- ...-..|+|| |. +.|+ ..|.+ +|....
T Consensus 50 HATNSELLCEAFLHA~TGQPL--P~----D~Dl~Kd~~d~-iP~~ak 89 (104)
T 1cmb_A 50 HATNSELLCEAFLHAFTGQPL--PD----DADLRKERSDE-IPEAAK 89 (104)
T ss_dssp CCSHHHHHHHHHHHHHHCCCC--CC----GGGGBTTSCSC-SCHHHH
T ss_pred hcccHHHHHHHHHHHhcCCCC--CC----chhhhhcCCcc-chHHHH
Confidence 5688999999 8888999999 53 5688 77888 887765
No 5
>1ldd_A APC2WHB, anaphase promoting complex; ubiquitin, ligase, ubiquitination, ring finger, winged-helix; 2.00A {Saccharomyces cerevisiae} SCOP: a.4.5.34
Probab=21.26 E-value=48 Score=22.10 Aligned_cols=26 Identities=23% Similarity=0.078 Sum_probs=22.0
Q ss_pred CCCccCC-ChHHHHHHHHHhhcCCCCC
Q 030306 2 ETDPYNP-FDQSLIKQLNNKIIDEPVE 27 (179)
Q Consensus 2 ~g~RF~P-TDeELI~~L~~Ki~g~pl~ 27 (179)
.|+.|.. |++||-.+|..++....+.
T Consensus 38 ~~~~~~~it~~eL~~fL~~~v~e~kL~ 64 (74)
T 1ldd_A 38 KDWGYNRITLQQLEGYLNTLADEGRLK 64 (74)
T ss_dssp GGGCCTTCCHHHHHHHHHHHHHTTSEE
T ss_pred CCCCCCcCCHHHHHHHHHHHHhCCeEE
Confidence 3677888 9999999999999988773
No 6
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1
Probab=12.20 E-value=1.3e+02 Score=19.47 Aligned_cols=20 Identities=15% Similarity=0.333 Sum_probs=16.4
Q ss_pred CCChHHHHHHHHHhhcCCCC
Q 030306 7 NPFDQSLIKQLNNKIIDEPV 26 (179)
Q Consensus 7 ~PTDeELI~~L~~Ki~g~pl 26 (179)
-|||+||...++.=+...+|
T Consensus 11 ~Psd~ei~~~I~~IL~~aDL 30 (70)
T 1q1v_A 11 PPTDEELKETIKKLLASANL 30 (70)
T ss_dssp CCCHHHHHHHHHHHHTTSCG
T ss_pred CcCHHHHHHHHHHHHHhCCH
Confidence 59999999988777777666
No 7
>3g1g_A GAG polyprotein, capsid protein; alpha-helical bundle, virion, viral protein, retrovirus; 2.01A {Rous sarcoma virus}
Probab=10.06 E-value=1.4e+02 Score=20.61 Aligned_cols=20 Identities=15% Similarity=0.182 Sum_probs=11.6
Q ss_pred CCChHHHHHHHHHhhcCCCC
Q 030306 7 NPFDQSLIKQLNNKIIDEPV 26 (179)
Q Consensus 7 ~PTDeELI~~L~~Ki~g~pl 26 (179)
-|+.+|||.|+..|..-.||
T Consensus 62 ~~~~~e~Ik~~l~~~~~~~~ 81 (87)
T 3g1g_A 62 LTTPGEIIKYVLDRQKTAPL 81 (87)
T ss_dssp CCSHHHHHHHHHHHHC----
T ss_pred CCChHHHHHHHHHHhhcCCc
Confidence 37789999995455544454
No 8
>2fl7_A Regulatory protein SIR3; ORC, silencing, chromatin, transcription; 1.85A {Saccharomyces cerevisiae} PDB: 2fvu_A 3tu4_K*
Probab=8.03 E-value=5.2e+02 Score=20.67 Aligned_cols=44 Identities=16% Similarity=0.135 Sum_probs=25.6
Q ss_pred CCCcEEEEEEeeeeeCCCCCCCCCcCeEEEEEEeCCCCCCCCCCEEEEEEE
Q 030306 112 ACGKLVAIKQSFTFHEPGENIGRKTDWNMTEYRLLKHSCTSLDSWVLCKIY 162 (179)
Q Consensus 112 ~~g~~vG~kk~l~Fy~g~~~~~~kT~W~M~EY~l~~~~~~~~~~~VLCrI~ 162 (179)
.+|..++.-.+.+.+.+. ......-+.+|.++... +.+|+|+++
T Consensus 48 ~Dg~~~~~GDsVlv~~~~--~~sysv~LI~eIrl~t~-----~n~vei~v~ 91 (232)
T 2fl7_A 48 SDGLSFGKGESVIFNDNV--TETYSVYLIHEIRLNTL-----NNVVEIWVF 91 (232)
T ss_dssp TTCCEECTTCEEEEEETT--TTEEEEEEEEEEEC----------CCEEEEE
T ss_pred cCCcEEeCCCEEEEecCC--CCceEEEEEEEEEecCC-----CceEEEEEE
Confidence 456666666665554432 34456889999999884 348888775
No 9
>2la3_A Uncharacterized protein; ATP binding, CTP binding, structural genomics, PSI-biology, structure initiative; NMR {Streptococcus pneumoniae}
Probab=7.23 E-value=2.2e+02 Score=22.07 Aligned_cols=27 Identities=26% Similarity=0.252 Sum_probs=19.9
Q ss_pred HHHhhcCCCCCCCCCceeeccC--CCCCCcCccc
Q 030306 17 LNNKIIDEPVEFPDLITTEIND--HHPADFFPGS 48 (179)
Q Consensus 17 L~~Ki~g~pl~~~~~~I~~~Dv--~~Pw~~Lp~~ 48 (179)
....+.|.+. ...|.|+|| +|| + +...
T Consensus 47 VWn~L~g~~~---~~~i~DiDviYFD~-d-~s~e 75 (191)
T 2la3_A 47 IWNLLSDKSP---FDHETDIDVIFFDP-D-FSYE 75 (191)
T ss_dssp HHGGGTTSCT---TCCCSEEEEEECCT-T-SCHH
T ss_pred HHHHhcCCCC---CCCCCceeEEEECC-C-CCHH
Confidence 5667777775 256899999 999 8 7543
No 10
>3lqv_P Splicing factor 3B subunit 1; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_P 2f9j_P
Probab=6.79 E-value=1.8e+02 Score=16.99 Aligned_cols=6 Identities=33% Similarity=0.224 Sum_probs=3.8
Q ss_pred ChHHHH
Q 030306 9 FDQSLI 14 (179)
Q Consensus 9 TDeELI 14 (179)
|||||=
T Consensus 24 tDEeLD 29 (39)
T 3lqv_P 24 SDEELD 29 (39)
T ss_dssp CHHHHH
T ss_pred CHHHHH
Confidence 677663
Done!