Query 013009
Match_columns 451
No_of_seqs 336 out of 1933
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 20:30:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013009.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/013009hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1gcc_A Ethylene responsive ele 99.8 8.6E-20 2.9E-24 143.4 6.5 60 251-310 2-62 (63)
2 1gcc_A Ethylene responsive ele 99.8 3.2E-19 1.1E-23 140.2 5.5 58 159-217 2-62 (63)
3 3igm_B PF14_0633 protein; AP2 94.0 0.028 9.5E-07 45.8 2.6 29 155-183 3-31 (77)
4 1u3e_M HNH homing endonuclease 85.9 0.083 2.8E-06 47.6 -1.7 88 197-292 55-146 (174)
5 3eik_A Tata-box-binding protei 79.5 16 0.00055 34.8 11.2 133 159-298 76-212 (218)
6 1u3e_M HNH homing endonuclease 75.6 0.12 4.1E-06 46.6 -4.5 38 160-199 109-146 (174)
7 2z8u_A Tata-box-binding protei 71.8 41 0.0014 31.1 11.5 133 158-298 45-182 (188)
8 1mp9_A Tata-binding protein; t 71.2 45 0.0015 31.0 11.8 133 159-299 46-183 (198)
9 1ais_A TBP, protein (tata-bind 68.0 44 0.0015 30.6 10.8 132 159-298 42-178 (182)
10 3igm_B PF14_0633 protein; AP2 61.6 3.8 0.00013 33.4 2.1 28 247-276 3-31 (77)
11 1z1b_A Integrase; protein-DNA 47.3 30 0.001 32.4 6.1 41 162-205 15-55 (356)
12 1ytb_A Protein (tata binding p 44.3 1.2E+02 0.0041 27.8 9.4 133 159-298 38-174 (180)
13 1z1b_A Integrase; protein-DNA 34.1 50 0.0017 30.8 5.3 42 253-298 14-55 (356)
14 1rm1_A Tata-box binding protei 29.7 2.6E+02 0.009 26.7 9.6 133 159-298 98-234 (240)
No 1
>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A
Probab=99.79 E-value=8.6e-20 Score=143.44 Aligned_cols=60 Identities=38% Similarity=0.592 Sum_probs=55.9
Q ss_pred cccCceeeecccEEEEecccc-CceeeeeccCCCHHHHHHHHHHHHHHhcCCCcccCCCCc
Q 013009 251 KYRGVTLHKCGRWEARMGQFL-GKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAVTNFDPS 310 (451)
Q Consensus 251 kyRGV~~~k~GKW~ArI~~~~-~gK~i~LGtFdTeEEAArAYD~AAikl~G~~A~tNF~~s 310 (451)
+|+||+++++|||+|+|+.+. +++++|||+|+|+||||+|||.|+++++|..+.+|||.+
T Consensus 2 ~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~ 62 (63)
T 1gcc_A 2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR 62 (63)
T ss_dssp CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred CcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence 699999988999999997655 479999999999999999999999999999999999875
No 2
>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A
Probab=99.76 E-value=3.2e-19 Score=140.19 Aligned_cols=58 Identities=48% Similarity=0.823 Sum_probs=53.8
Q ss_pred CeEEEEEecCCCeEEEEeecC---CeEEEeCCCCCHHHHHHHHHHHHHHhcCcccCcccccc
Q 013009 159 QYRGVTFYRRTGRWESHIWDS---GKQVYLGGFDTAHAAARAYDRAAIKFRGAEADINFSIE 217 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~---GK~i~LGtFdTeEeAARAYD~Aaikl~G~~A~~NFp~s 217 (451)
+||||++ +++|||+|+|+++ |+++|||+|+|+||||+|||.|+++++|..+.+|||.+
T Consensus 2 ~yrGV~~-r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~ 62 (63)
T 1gcc_A 2 HYRGVRQ-RPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR 62 (63)
T ss_dssp CCTTEEE-ETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred CcccEee-CCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence 6999997 4689999999984 78999999999999999999999999999999999853
No 3
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=93.97 E-value=0.028 Score=45.81 Aligned_cols=29 Identities=28% Similarity=0.564 Sum_probs=25.3
Q ss_pred CCCCCeEEEEEecCCCeEEEEeecCCeEE
Q 013009 155 SRSSQYRGVTFYRRTGRWESHIWDSGKQV 183 (451)
Q Consensus 155 ~rtSgYRGV~~~r~~GKW~A~I~~~GK~i 183 (451)
...|+|.||+|+++.+.|.|.-..+|++.
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e~g~rr 31 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYDGASRR 31 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEETTEEE
T ss_pred CCCCCCCcEEeecCCceEEEEEecCCeEe
Confidence 46799999999999999999999998753
No 4
>1u3e_M HNH homing endonuclease; HNH catalytic motif, helix-turn-helix DNA binding domain, PR complex, DNA binding protein-DNA complex; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3 d.285.1.1
Probab=85.87 E-value=0.083 Score=47.63 Aligned_cols=88 Identities=9% Similarity=-0.026 Sum_probs=55.4
Q ss_pred HHHHHHHHhcCccc---Cccccc-cchhhhhhhhcccchhhhhhhhccccCCCCCCCccccCceeeecccEEEEeccccC
Q 013009 197 AYDRAAIKFRGAEA---DINFSI-EDYEDDLKQMSNLTKEEFVHVLRRQSTGFPRGSSKYRGVTLHKCGRWEARMGQFLG 272 (451)
Q Consensus 197 AYD~Aaikl~G~~A---~~NFp~-sdYeeeLkqLr~LSKEE~VaaLRRqS~G~~r~sSkyRGV~~~k~GKW~ArI~~~~~ 272 (451)
++...+..|.|... ..++-- .-....+..|+.+|..|......+.+. . ..++||.+.+.++|.+.| .+.
T Consensus 55 vHrlVa~~f~~~~~~~~~v~H~dg~k~nn~~~NL~~~t~~eN~~~~~~~~~----~-~~~~g~~~~~~~k~~~vi--~~~ 127 (174)
T 1u3e_M 55 VHRLVAIHFCEGYEEGLVVDHKDGNKDNNLSTNLRWVTQKINVENQMSRGT----L-NVSKAQQIAKIKNQKPII--VIS 127 (174)
T ss_dssp HHHHHHHHHCTTCCTTCEEEETTSCTTCCCGGGEEEECHHHHHHHHHHHTC----C-CCHHHHHHHHHHTCCCEE--EEC
T ss_pred eHHHHHHHhcCCCCCCCEEEcCCCCCCCCCHHHcEECCHHHHhhcccccCc----c-cceeeeeeccCCCCceEE--EEc
Confidence 55665666766432 122211 112346778888888888776554431 1 124677663356788888 445
Q ss_pred ceeeeeccCCCHHHHHHHHH
Q 013009 273 KKYVYLGLFDTEVEAARAYD 292 (451)
Q Consensus 273 gK~i~LGtFdTeEEAArAYD 292 (451)
+..+||.|+|.+|||++|.
T Consensus 128 -~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 128 -PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp -TTSCEEEESCHHHHHHHHT
T ss_pred -CCceEEeeCCHHHHHHHHC
Confidence 5678999999999999963
No 5
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C
Probab=79.52 E-value=16 Score=34.79 Aligned_cols=133 Identities=15% Similarity=0.158 Sum_probs=84.5
Q ss_pred CeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhcCcccC---ccccccchhhhhhhhcccchhhhh
Q 013009 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAEAD---INFSIEDYEDDLKQMSNLTKEEFV 235 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~G~~A~---~NFp~sdYeeeLkqLr~LSKEE~V 235 (451)
+|-||.++-+.-+=.+-|+..||-+..|. .++++|..|.++.+..+....-. .+|.+........--..+..+.+.
T Consensus 76 ~Fpglv~Rl~~Pk~t~LIF~SGKiV~TGA-kS~e~a~~A~~ki~~~L~~lG~~v~~~~fkIqNIvas~dl~f~I~Le~la 154 (218)
T 3eik_A 76 RFAAVIMRIREPKTTALIFASGKMVITGA-KSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLA 154 (218)
T ss_dssp TCSSEEEEETTTTEEEEECTTSEEEEEEE-SSHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEEEEEEEECSSCBCHHHHH
T ss_pred cCceEEEEecCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCcccccceEEEEEEEEECCCcCcHHHHH
Confidence 46688877788888999999999888886 56889999988887766432211 233222111111111122233444
Q ss_pred hhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 236 HVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 236 aaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
...+..... ....|-|+.++- .-|=..-| +..||-+..|. .+++|+..|++.-.-.|
T Consensus 155 ~~~~~~~~Y---EPE~fPGliyR~~~pkvt~lI--F~SGKiviTGa-ks~~d~~~A~~~I~p~L 212 (218)
T 3eik_A 155 YAHSNYCSY---EPELFPGLIYRMVKPKIVLLI--FVSGKIVLTGA-KVRDDIYQAFNNIYPVL 212 (218)
T ss_dssp HHSTTTEEC---CTTTSSSEEEEETTTTEEEEE--CTTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred HhccCCcEE---CCccCceEEEEcCCCCEEEEE--eCCCeEEEEec-CCHHHHHHHHHHHHHHH
Confidence 333332221 224678888774 45677777 88999998887 77999999998766544
No 6
>1u3e_M HNH homing endonuclease; HNH catalytic motif, helix-turn-helix DNA binding domain, PR complex, DNA binding protein-DNA complex; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3 d.285.1.1
Probab=75.57 E-value=0.12 Score=46.56 Aligned_cols=38 Identities=8% Similarity=0.008 Sum_probs=31.7
Q ss_pred eEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHH
Q 013009 160 YRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYD 199 (451)
Q Consensus 160 YRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD 199 (451)
++||.+ +..++|.+.|... +.++||.|.|.+|||++|.
T Consensus 109 ~~g~~~-~~~~k~~~vi~~~-~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 109 SKAQQI-AKIKNQKPIIVIS-PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp HHHHHH-HHHHTCCCEEEEC-TTSCEEEESCHHHHHHHHT
T ss_pred eeeeee-ccCCCCceEEEEc-CCceEEeeCCHHHHHHHHC
Confidence 467876 6677899999888 7788999999999999864
No 7
>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein, transcription factor, transcription regulation; 1.90A {Methanococcus jannaschii}
Probab=71.77 E-value=41 Score=31.10 Aligned_cols=133 Identities=16% Similarity=0.190 Sum_probs=78.2
Q ss_pred CCeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Ccc-c-Cccccccchhhhhhhhcccchhh
Q 013009 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAE-A-DINFSIEDYEDDLKQMSNLTKEE 233 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~-A-~~NFp~sdYeeeLkqLr~LSKEE 233 (451)
.+|-||.++-+.-+=.+-|+..||-+--|.. ++++|..|..+.+..+. |-. . ..+|.+..-.....--..+..+.
T Consensus 45 ~~fpgli~Rl~~Pk~t~lIF~SGKiv~TGAk-S~e~a~~a~~~~~~~L~~lg~~~~~~~~~~I~NIVas~~l~~~i~L~~ 123 (188)
T 2z8u_A 45 EQFPGLVCRLSVPKVALLIFRSGKVNCTGAK-SKEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDD 123 (188)
T ss_dssp ----CEEEEETTTTEEEEECTTSEEEEEEES-SHHHHHHHHHHHHHHHHHTTCCCCSSCCCEEEEEEEEEECSSCCCHHH
T ss_pred CCcccEEEEcCCCcEEEEEeCCCeEEEecCC-CHHHHHHHHHHHHHHHHhcCCCccccCceEEEEEEEEEecCCccCHHH
Confidence 3577888777778889999999998877764 55677777777654443 321 1 13333222111111011222333
Q ss_pred hhhhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 234 FVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 234 ~VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
+...++ .... ...+|-|+.++- .-|-.+-| +..||-+..|. .+++|+..|+++....|
T Consensus 124 la~~~~-~~eY---ePe~fPgliyR~~~Pk~t~lI--F~SGKiviTGa-ks~~~~~~A~~~i~~~L 182 (188)
T 2z8u_A 124 IALMVE-GTEY---EPEQFPGLVYRLDDPKVVVLI--FGSGKVVITGL-KSEEDAKRALKKILDTI 182 (188)
T ss_dssp HHHHST-TEEE---CTTTSSSEEEEEETTEEEEEE--CTTSEEEEESC-SCHHHHHHHHHHHHHHH
T ss_pred HHhhCc-CcEE---CCccCceEEEEeCCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 333322 1111 234788988873 45777777 88999998885 56788999988866555
No 8
>1mp9_A Tata-binding protein; transcription regulation, DNA-binding protein, transcription factor, DNA binding protein; 2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1 d.129.1.1
Probab=71.21 E-value=45 Score=31.03 Aligned_cols=133 Identities=18% Similarity=0.211 Sum_probs=81.6
Q ss_pred CeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhcC--cc-c-Cccccccchhhhhhhhcccchhhh
Q 013009 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRG--AE-A-DINFSIEDYEDDLKQMSNLTKEEF 234 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~G--~~-A-~~NFp~sdYeeeLkqLr~LSKEE~ 234 (451)
+|-||.++-+.-+=.+-|+..||-+--|.. ++++|..|..+.+..+.. -. . ..+|.+..-.....--..+..+.+
T Consensus 46 ~fpgli~Rl~~Pk~t~lIF~SGKiv~TGak-S~e~a~~a~~~i~~~L~~lG~~~~~~~~~~I~NIVas~~l~~~i~L~~l 124 (198)
T 1mp9_A 46 QFPGLIFRLESPKITSLIFKSGKMVVTGAK-STDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDKA 124 (198)
T ss_dssp TCSSEEEEETTTTEEEEECTTSEEEEECCS-SHHHHHHHHHHHHHHHHHTTCCCSSCCEEEEEEEEEEEECSSEECHHHH
T ss_pred cccceEEEcCCCceEEEEeCCCeEEEeccC-CHHHHHHHHHHHHHHHHHcCCcccCcCceEEEEEEEEeeCCCccCHHHH
Confidence 467888777777889999999998888875 556777777776655432 21 1 133332221111111111223333
Q ss_pred hhhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHhc
Q 013009 235 VHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCN 299 (451)
Q Consensus 235 VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~ 299 (451)
...+ +.... ...+|-|+.++- .-|-.+-| +..||-+..|. .+++++..|.++....|.
T Consensus 125 a~~~-~~~~Y---ePe~fPgliyR~~~Pk~t~lI--F~SGKiviTGa-ks~~~~~~A~~~i~~~L~ 183 (198)
T 1mp9_A 125 AFLL-ENNMY---EPEQFPGLIYRMDEPRVVLLI--FSSGKMVITGA-KREDEVHKAVKKIFDKLV 183 (198)
T ss_dssp HHHS-SSEEC---CTTTCSSEEEEETTTTEEEEE--CTTSEEEEEEE-SSHHHHHHHHHHHHHHHH
T ss_pred Hhhc-CCcEE---CCccCCeEEEEeCCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 3322 22211 234788988874 45777888 88999998885 567789999988776663
No 9
>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A
Probab=67.95 E-value=44 Score=30.64 Aligned_cols=132 Identities=17% Similarity=0.186 Sum_probs=80.6
Q ss_pred CeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Ccc-c-Cccccccchhhhhhhhcccchhhh
Q 013009 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAE-A-DINFSIEDYEDDLKQMSNLTKEEF 234 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~-A-~~NFp~sdYeeeLkqLr~LSKEE~ 234 (451)
+|-||.++-+.-+=.+.|+..||-+--|. .++++|..|..+.+..+. |.. . ..+|.+..-.....--..+..+.+
T Consensus 42 ~fpgli~Rl~~P~~t~lIF~SGKiv~TGa-kS~~~~~~a~~~i~~~L~~lG~~~~~~~~~~I~NIVas~~l~~~i~L~~l 120 (182)
T 1ais_A 42 EFPGIICHLDDPKVALLIFSSGKLVVTGA-KSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVV 120 (182)
T ss_dssp TCSSEEEECSSSCCEEEECTTSEEEEEEE-SSHHHHHHHHHHHHHHHHHTTCCCSSSCEEEEEEEEEEEECSSCCCHHHH
T ss_pred ccccEEEEcCCCcEEEEEeCCCeEEEecC-CCHHHHHHHHHHHHHHHHHcCCCcccccceEEEEEEEEEEcCCccCHHHH
Confidence 46688776666777899999998776664 677888888888665553 322 1 234432221111110111223333
Q ss_pred hhhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 235 VHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 235 VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
...++ .... ...+|-|+.++- .-+-.+-| +..||-+..|. .+++++..|.++....|
T Consensus 121 a~~~~-~~~Y---ePe~fpgli~R~~~pk~~~lI--F~SGKiviTGa-ks~~~~~~a~~~i~~~L 178 (182)
T 1ais_A 121 ALTLP-NCEY---EPEQFPGVIYRVKEPKSVILL--FSSGKIVCSGA-KSEADAWEAVRKLLREL 178 (182)
T ss_dssp HHHST-TEEC---CTTTCSSEEEEETTTTEEEEE--CTTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred HhhCC-CCEE---CCccCceEEEEeCCCcEEEEE--ecCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 33222 2211 234788988774 45777788 88999998885 56788999998877665
No 10
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=61.60 E-value=3.8 Score=33.37 Aligned_cols=28 Identities=32% Similarity=0.415 Sum_probs=20.9
Q ss_pred CCCccccCceeee-cccEEEEeccccCceee
Q 013009 247 RGSSKYRGVTLHK-CGRWEARMGQFLGKKYV 276 (451)
Q Consensus 247 r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i 276 (451)
..+|+|.||+|.+ .+.|.|.- ..++++.
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W--~e~g~rr 31 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFF--YDGASRR 31 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEE--EETTEEE
T ss_pred CCCCCCCcEEeecCCceEEEEE--ecCCeEe
Confidence 3568999999997 68999987 3455544
No 11
>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP: d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3*
Probab=47.33 E-value=30 Score=32.37 Aligned_cols=41 Identities=22% Similarity=0.203 Sum_probs=30.3
Q ss_pred EEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHh
Q 013009 162 GVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKF 205 (451)
Q Consensus 162 GV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl 205 (451)
||+ .+..|.|.......||++.+|. |..+|-.+...+...+
T Consensus 15 ~v~-~~~~g~~~~r~~~~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 15 NLY-IRNNGYYCYRDPRTGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TEE-EETTTEEEEECTTTCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred cce-ecCCCeEEEEeecCCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 465 3677899988888899999996 8877776666554443
No 12
>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex, transcription/DNA complex; HET: DNA; 1.80A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1 PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A* 1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A* 1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E* ...
Probab=44.31 E-value=1.2e+02 Score=27.76 Aligned_cols=133 Identities=17% Similarity=0.170 Sum_probs=77.9
Q ss_pred CeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc-Cccccccchhhhhhhhcccchhhhh
Q 013009 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA-DINFSIEDYEDDLKQMSNLTKEEFV 235 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~A-~~NFp~sdYeeeLkqLr~LSKEE~V 235 (451)
.|-||.++-+.-+=.+-|+..||-+--|. .++++|..|.+..+..+. |... ..||.+........--..+..+.+.
T Consensus 38 ~fpgli~R~~~Pk~~~lIF~SGKiv~TGa-ks~e~~~~a~~~i~~~L~~lg~~~~~~~~~i~NIvas~dl~~~I~Le~la 116 (180)
T 1ytb_A 38 RFAAVIMRIREPKTTALIFASGKMVVTGA-KSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLA 116 (180)
T ss_dssp TCSSEEEEETTTTEEEEECTTSEEEEEEE-SSHHHHHHHHHHHHHHHHHHTCCCCCEEEEEEEEEEEEECSSCBCHHHHH
T ss_pred ccCCEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCcccccceEEEEEEEEECCCccCHHHHH
Confidence 46688877778888999999999887776 456778888777655543 3211 2344332211111111122233333
Q ss_pred hhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 236 HVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 236 aaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
......... ....|-|+.++- .-|=..-| +..||-+..|. .+++|+..|++.-.-.|
T Consensus 117 ~~~~~~~~Y---EPE~fPGliyR~~~pkv~~lI--F~SGkivitGa-k~~~~~~~a~~~i~p~L 174 (180)
T 1ytb_A 117 FSHGTFSSY---EPELFPGLIYRMVKPKIVLLI--FVSGKIVLTGA-KQREEIYQAFEAIYPVL 174 (180)
T ss_dssp HHTTTTEEC---CTTTCSSEEEECSSSCCEEEE--CTTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred HhcccceEE---CCccCCcEEEEeCCCcEEEEE--ecCCeEEEEec-CCHHHHHHHHHHHHHHH
Confidence 322222211 234677888763 33455566 78899888885 56778888887755443
No 13
>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP: d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3*
Probab=34.08 E-value=50 Score=30.83 Aligned_cols=42 Identities=17% Similarity=0.014 Sum_probs=30.6
Q ss_pred cCceeeecccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 253 RGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 253 RGV~~~k~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
.||..++.|.|..+. ...||++.+|. |..||..+...+...+
T Consensus 14 ~~v~~~~~g~~~~r~--~~~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 14 PNLYIRNNGYYCYRD--PRTGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TTEEEETTTEEEEEC--TTTCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred ccceecCCCeEEEEe--ecCCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 467666778999887 45788899996 8888877666554444
No 14
>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1
Probab=29.73 E-value=2.6e+02 Score=26.73 Aligned_cols=133 Identities=17% Similarity=0.170 Sum_probs=78.7
Q ss_pred CeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc-Cccccccchhhhhhhhcccchhhhh
Q 013009 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA-DINFSIEDYEDDLKQMSNLTKEEFV 235 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~A-~~NFp~sdYeeeLkqLr~LSKEE~V 235 (451)
.|-||.++-+.-+-.+-|+..||-+--|. .++++|..|....+..+. |... ..||.+........--..+..+.+.
T Consensus 98 ~Fpgli~Rl~~Pk~t~lIF~SGKiV~TGa-ks~e~a~~A~~~i~~~L~~lg~~~~~~~f~IqNIVas~dl~f~I~Le~la 176 (240)
T 1rm1_A 98 RFAAVIMRIREPKTTALIFASGKMVVTGA-KSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLA 176 (240)
T ss_dssp TCSEEEEEEETTEEEEEEETTSEEEEEEE-SSHHHHHHHHHHHHHHHHHHTCCCCCEEEEEEEEEEEEECSSCBCHHHHH
T ss_pred ccceEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCcccCcceEEEEEEEEeCCCccCHHHHH
Confidence 46799877778888999999999888886 456677777777554443 3221 2344432221111111123333343
Q ss_pred hhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 236 HVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 236 aaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
..+...... ....|-|+.++- .-+-...| +..||-+..|. .+++|+..|++.-.-.|
T Consensus 177 ~~~~~~~~Y---EPE~fPGLiyR~~~pkvvllI--F~SGKIviTGa-K~~~~~~~Ai~~i~p~L 234 (240)
T 1rm1_A 177 FSHGTFSSY---EPELFPGLIYRMVKPKIVLLI--FVSGKIVLTGA-KQREEIYQAFEAIYPVL 234 (240)
T ss_dssp HHTTTTEEE---ETTTEEEEEEEETTTTEEEEE--CTTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred HhchhccEE---CCccCCceEEEeCCCcEEEEE--ecCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 332222111 123677888764 34566666 88899888885 56778888887755443
Done!