Query 004541
Match_columns 746
No_of_seqs 397 out of 2557
Neff 5.6
Searched_HMMs 29240
Date Tue Mar 26 17:42:52 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/004541.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1849-1853//hhsearch_pdb/004541hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3mm4_A Histidine kinase homolo 1.0 1 1 190.1 15.1 169 39-211 15-199 (206)
2 3to5_A CHEY homolog; alpha(5)b 1.0 1 1 189.4 15.6 121 86-208 11-133 (134)
3 2lpm_A Two-component response 1.0 1 1 168.7 1.2 115 85-208 6-122 (123)
4 3n0r_A Response regulator; sig 1.0 1 1 167.2 10.7 119 86-211 159-280 (286)
5 3r0j_A Possible two component 1.0 1 1 161.3 17.9 143 56-211 1-144 (250)
6 3dzd_A Transcriptional regulat 1.0 1 1 159.8 14.9 121 88-212 1-122 (368)
7 3luf_A Two-component system re 1.0 1 1 158.8 17.3 127 86-213 123-250 (259)
8 1w25_A Stalked-cell differenti 1.0 1 1 158.3 17.0 120 88-209 2-122 (459)
9 3eq2_A Probable two-component 1.0 1 1 157.4 13.6 120 86-209 4-125 (394)
10 3rqi_A Response regulator prot 1.0 1 1 156.2 13.2 122 85-210 5-127 (184)
No 1
>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A
Probab=1.00 E-value=1 Score=190.15 Aligned_cols=169 Identities=19% Similarity=0.276 Sum_probs=139.8
Q ss_pred CCCCCCCCCCEEECCCCEEEEEEEEECCCCCCCCCCCCCHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHCCC-EEEEE
Q ss_conf 94014960341202763479999841379988886631011001478961899995595679999999983899-89999
Q 004541 39 DDRLNDSSIAEDVKDGCEGAVTASAVLQMPQEQPQGAMVCWERFLHLRSLKVLLVENDDSTRHVVAALLRNCGY-EVTEA 117 (746)
Q Consensus 39 g~il~gG~Ig~~S~~G~Gs~ftv~lp~~~~~~~~~~~~~~~~~~~~~~~lrVLIVDDd~~~r~iL~~lL~~~G~-~V~~A 117 (746)
..-+|+|.|.++|++|.|++|++.+|+..+........ .........++||||||++..+..+..+|+.+|| .|..+
T Consensus 15 ~~~~hgG~i~v~S~~g~Gs~f~~~lP~~~~~~~~~~~~--~~~~~~~~~~~ILiVdDd~~~~~~l~~~L~~~g~~~v~~a 92 (206)
T 3mm4_A 15 PRGSHMASTDSESETRVKSVRTGRKPIGNPEDEQETSK--PSDDEFLRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQC 92 (206)
T ss_dssp C-----------------------------------------CTTTTTTCEEEEECSCHHHHHHHHHHHHHTTCSEEEEE
T ss_pred CCCCCCCCEEEECCCCCCCEEEECCCCCCCCCCCCCCC--CCCCCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEE
T ss_conf 55655770000035898641563168888764445667--7765455787799994999999999999987599856651
Q ss_pred CCHHHHHHHHHHC-----------CCCCCEEEECC-CCCCCHHHHHHHHHHCCC--CCCCCEEEEECCC-CHHHHHHHHH
Q ss_conf 8989999999840-----------99811999926-899998999999983028--9986499993589-9899999996
Q 004541 118 TNGLQAWKILEDL-----------TNHIDLVLTEV-MPCLSGVALLSKIMSHKT--RKNLPVIMMSSLD-SMGLVFKCLS 182 (746)
Q Consensus 118 ~dG~EALe~L~~~-----------~~~~DLVLlDi-MP~mdGiell~~IRs~~~--~~~iPIIiLSa~~-s~~~~~~al~ 182 (746)
.++.+|++.+... ...|||||+|+ ||+++|+++++.||.... .+.+|||++|+.. ......+++.
T Consensus 93 ~~~~eal~~l~~~~~~~~~~~~~~~~~~dlillD~~lp~~~G~el~~~lr~~~~~~~~~~piI~ls~~~~~~~~~~~~~~ 172 (206)
T 3mm4_A 93 DSGKEALRLVTEGLTQREEQGSVDKLPFDYIFMDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQ 172 (206)
T ss_dssp SSHHHHHHHHHHHHHHHHHHTCSSCCSCSEEEEESCCSSSCHHHHHHHHHHHHHTTTCCCCEEEEESSCCCHHHHHHHHH
T ss_pred CCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCCHHHHHHHHH
T ss_conf 89999999998611332111335588888899818999987999999998525642899858999799886899999996
Q ss_pred CCCCEEEECCCCHHHHHHHHHHHHHHHCC
Q ss_conf 79983992999988999999999988416
Q 004541 183 KGAVDFLVKPIRKNELKNLWQHVWRRCHS 211 (746)
Q Consensus 183 ~GAddyL~KPi~~~eL~~~L~~vlrr~~~ 211 (746)
.|+++||.||++ +|..+|++++++.+.
T Consensus 173 ~Ga~~~l~KP~~--~L~~~i~~~l~~~~~ 199 (206)
T 3mm4_A 173 AGMDAFLDKSLN--QLANVIREIESKRHL 199 (206)
T ss_dssp HTCSEEEETTCT--THHHHHHHHC-----
T ss_pred CCCCEEECCCHH--HHHHHHHHHHHHHHH
T ss_conf 798789819699--999999999866677
No 2
>3to5_A CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, phosphorylation, motor AC signaling protein; 1.65A {Vibrio cholerae}
Probab=1.00 E-value=1 Score=189.39 Aligned_cols=121 Identities=30% Similarity=0.591 Sum_probs=114.7
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCE-EEEECCHHHHHHHHHHCCCCCCEEEECC-CCCCCHHHHHHHHHHCCCCCCC
Q ss_conf 9618999955956799999999838998-9999898999999984099811999926-8999989999999830289986
Q 004541 86 RSLKVLLVENDDSTRHVVAALLRNCGYE-VTEATNGLQAWKILEDLTNHIDLVLTEV-MPCLSGVALLSKIMSHKTRKNL 163 (746)
Q Consensus 86 ~~lrVLIVDDd~~~r~iL~~lL~~~G~~-V~~A~dG~EALe~L~~~~~~~DLVLlDi-MP~mdGiell~~IRs~~~~~~i 163 (746)
+.+|||||||++.+|.++..+|+.+||. |.+|.+|.+|++.++. ..|||||+|+ ||+|+|++++++||+....+++
T Consensus 11 k~~rILiVDD~~~~r~~l~~~L~~~G~~~v~~a~~g~~al~~~~~--~~~DlillD~~MP~mdG~el~~~ir~~~~~~~i 88 (134)
T 3to5_A 11 KNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKK--GDFDFVVTDWNMPGMQGIDLLKNIRADEELKHL 88 (134)
T ss_dssp TTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHH--HCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTC
T ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHH--CCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCC
T ss_conf 998899991989999999999998699489998999999999971--899999983899999889999999838777999
Q ss_pred CEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Q ss_conf 499993589989999999679983992999988999999999988
Q 004541 164 PVIMMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRR 208 (746)
Q Consensus 164 PIIiLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr 208 (746)
|||++|++...+...+++..|+++||.|||++.+|...|+++++|
T Consensus 89 pvI~lTa~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~R 133 (134)
T 3to5_A 89 PVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKIFER 133 (134)
T ss_dssp CEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHCC-
T ss_pred EEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHC
T ss_conf 099997889999999999879999998989999999999999842
No 3
>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}
Probab=1.00 E-value=1 Score=168.72 Aligned_cols=115 Identities=23% Similarity=0.365 Sum_probs=102.6
Q ss_pred CCCCEEEEEECCHHHHHHHHHHHHHCCCEEE-EECCHHHHHHHHHHCCCCCCEEEECC-CCCCCHHHHHHHHHHCCCCCC
Q ss_conf 8961899995595679999999983899899-99898999999984099811999926-899998999999983028998
Q 004541 85 LRSLKVLLVENDDSTRHVVAALLRNCGYEVT-EATNGLQAWKILEDLTNHIDLVLTEV-MPCLSGVALLSKIMSHKTRKN 162 (746)
Q Consensus 85 ~~~lrVLIVDDd~~~r~iL~~lL~~~G~~V~-~A~dG~EALe~L~~~~~~~DLVLlDi-MP~mdGiell~~IRs~~~~~~ 162 (746)
.+.+|||||||++.++..+..+|+.+||+|+ +|.+|.+|++++++ ..|||||+|+ ||+|+|+++++.||+ ++
T Consensus 6 ~r~~rILiVdD~~~~~~~l~~~L~~~G~~v~~~a~~g~eAl~~~~~--~~~DlvllDi~mP~~~G~el~~~lr~----~~ 79 (123)
T 2lpm_A 6 ERRLRVLVVEDESMIAMLIEDTLCELGHEVAATASRMQEALDIARK--GQFDIAIIDVNLDGEPSYPVADILAE----RN 79 (123)
T ss_dssp CCCCCEEEESSSTTTSHHHHHHHHHHCCCCCBCSCCHHHHHHHHHH--CCSSEEEECSSSSSCCSHHHHHHHHH----TC
T ss_pred CCCCEEEEEECCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHH--CCCCEEEEECCCCCCCHHHHHHHHHC----CC
T ss_conf 8988899996989999999999998799899998999999999983--79989999458999989999999972----89
Q ss_pred CCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Q ss_conf 6499993589989999999679983992999988999999999988
Q 004541 163 LPVIMMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRR 208 (746)
Q Consensus 163 iPIIiLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr 208 (746)
+|||++|++.+... ...+|+.+||.|||++.+|..+|.+++++
T Consensus 80 ipvI~lTa~~~~~~---~~~~g~~~yl~KP~~~~~L~~~l~~~~~~ 122 (123)
T 2lpm_A 80 VPFIFATGYGSKGL---DTRYSNIPLLTKPFLDSELEAVLVQISKE 122 (123)
T ss_dssp CSSCCBCTTCTTSC---CSSSCSCSCBCSSSSHHHHHHHHSTTCSC
T ss_pred CCEEEEECCCCHHH---HHHCCCCCEEECCCCHHHHHHHHHHHHHH
T ss_conf 98999966865998---97479875897989999999999999803
No 4
>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A
Probab=1.00 E-value=1 Score=167.22 Aligned_cols=119 Identities=19% Similarity=0.294 Sum_probs=109.1
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCEEE-EECCHHHHHHHHHHCCCCCCEEEECC-CC-CCCHHHHHHHHHHCCCCCC
Q ss_conf 961899995595679999999983899899-99898999999984099811999926-89-9998999999983028998
Q 004541 86 RSLKVLLVENDDSTRHVVAALLRNCGYEVT-EATNGLQAWKILEDLTNHIDLVLTEV-MP-CLSGVALLSKIMSHKTRKN 162 (746)
Q Consensus 86 ~~lrVLIVDDd~~~r~iL~~lL~~~G~~V~-~A~dG~EALe~L~~~~~~~DLVLlDi-MP-~mdGiell~~IRs~~~~~~ 162 (746)
...+||||||++.++..+..+|+..||.|. .|.+|.+|++.+.. ..|||||+|+ || +|+|+++++.||... +
T Consensus 159 l~~rILvVdD~~~~~~~l~~~L~~~g~~v~~~a~~g~eAl~~~~~--~~~dlvl~D~~MPd~mdG~e~~~~ir~~~---~ 233 (286)
T 3n0r_A 159 LATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTR--RTPGLVLADIQLADGSSGIDAVKDILGRM---D 233 (286)
T ss_dssp CCCEEEEECCSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH--CCCSEEEEESCCTTSCCTTTTTHHHHHHT---T
T ss_pred CCCCEEEECCCHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHH--CCCCEEEECCCCCCCCCHHHHHHHHHHCC---C
T ss_conf 778679982998899999999640583288786999999999870--79999998278999987999999987369---9
Q ss_pred CCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHCC
Q ss_conf 6499993589989999999679983992999988999999999988416
Q 004541 163 LPVIMMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRRCHS 211 (746)
Q Consensus 163 iPIIiLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr~~~ 211 (746)
+|||++|++. +...+++..|+++||.||+.+.+|...|..++.+...
T Consensus 234 ~piI~lT~~~--~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~~~~~ 280 (286)
T 3n0r_A 234 VPVIFITAFP--ERLLTGERPEPTFLITKPFQPETVKAAIGQALFFHPR 280 (286)
T ss_dssp CCEEEEESCG--GGGCCSSSCCCSSEEESSCCHHHHHHHHHHHHHHSCC
T ss_pred CCEEEEECCH--HHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHCCC
T ss_conf 9889995887--8999998479767986999999999999999874775
No 5
>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis}
Probab=1.00 E-value=1 Score=161.28 Aligned_cols=143 Identities=22% Similarity=0.339 Sum_probs=122.5
Q ss_pred EEEEEEEEECCCCCCCCCCCCCHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCC
Q ss_conf 47999984137998888663101100147896189999559567999999998389989999898999999984099811
Q 004541 56 EGAVTASAVLQMPQEQPQGAMVCWERFLHLRSLKVLLVENDDSTRHVVAALLRNCGYEVTEATNGLQAWKILEDLTNHID 135 (746)
Q Consensus 56 Gs~ftv~lp~~~~~~~~~~~~~~~~~~~~~~~lrVLIVDDd~~~r~iL~~lL~~~G~~V~~A~dG~EALe~L~~~~~~~D 135 (746)
|++|++.+|+..+.... ......++||||||++..+..+..+|+..||+|..+.++.+|++.+.. ..||
T Consensus 1 Gs~~~~~~~~~~~~~~~---------~~~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~--~~~d 69 (250)
T 3r0j_A 1 GTHMRKGVDLVTAGTPG---------ENTTPEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARE--TRPD 69 (250)
T ss_dssp ----------------------------CCSSCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH--HCCS
T ss_pred CCCCCCCCCEEECCCCC---------CCCCCCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHH--CCCC
T ss_conf 97544551101104899---------888887559999798999999999999779899998999999999973--7999
Q ss_pred EEEECC-CCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHCC
Q ss_conf 999926-8999989999999830289986499993589989999999679983992999988999999999988416
Q 004541 136 LVLTEV-MPCLSGVALLSKIMSHKTRKNLPVIMMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRRCHS 211 (746)
Q Consensus 136 LVLlDi-MP~mdGiell~~IRs~~~~~~iPIIiLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr~~~ 211 (746)
|||+|+ ||+++|+++++.||.. .+.+|||++|+..+......++..|+++||.||+...+|...|+.++++...
T Consensus 70 lvllD~~lp~~~g~~~~~~lr~~--~~~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~Kp~~~~~L~~~i~~~~~~~~~ 144 (250)
T 3r0j_A 70 AVILDVXMPGMDGFGVLRRLRAD--GIDAPALFLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRRAGK 144 (250)
T ss_dssp EEEEESCCSSSCHHHHHHHHHHT--TCCCCEEEEECSTTHHHHHHHHTSTTCEEEESSCCHHHHHHHHHHHHHHHCC
T ss_pred EEEEECCCCCCCHHHHHHHHHHC--CCCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHCC
T ss_conf 99990788898899999999836--9998789997799989999999769758985799999999999999975103
No 6
>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A
Probab=1.00 E-value=1 Score=159.75 Aligned_cols=121 Identities=24% Similarity=0.382 Sum_probs=113.0
Q ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCCEEEECC-CCCCCHHHHHHHHHHCCCCCCCCEE
Q ss_conf 189999559567999999998389989999898999999984099811999926-8999989999999830289986499
Q 004541 88 LKVLLVENDDSTRHVVAALLRNCGYEVTEATNGLQAWKILEDLTNHIDLVLTEV-MPCLSGVALLSKIMSHKTRKNLPVI 166 (746)
Q Consensus 88 lrVLIVDDd~~~r~iL~~lL~~~G~~V~~A~dG~EALe~L~~~~~~~DLVLlDi-MP~mdGiell~~IRs~~~~~~iPII 166 (746)
.+||||||++..+..+..+|+..||.|..+.++.+|++.+.. ..|||||+|+ ||+|+|+++++.|+.. .+.+|||
T Consensus 1 ~~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~--~~~DlvllDi~mP~~dG~ell~~lr~~--~~~~pvI 76 (368)
T 3dzd_A 1 KRVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKE--LFFPVIVLDVWMPDGDGVNFIDFIKEN--SPDSVVI 76 (368)
T ss_dssp CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH--BCCSEEEEESEETTEETTTHHHHHHHH--CTTCEEE
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHH--CCCCEEEEECCCCCCCHHHHHHHHHHH--CCCCEEE
T ss_conf 989999699999999999999769989997999999999971--899889995999999899999999962--9998499
Q ss_pred EEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 9935899899999996799839929999889999999999884169
Q 004541 167 MMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRRCHSS 212 (746)
Q Consensus 167 iLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr~~~~ 212 (746)
++|++.+.+...+++..|+++||.||++..+|...|++++.+....
T Consensus 77 ~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~~~~ 122 (368)
T 3dzd_A 77 VITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFEEYSKK 122 (368)
T ss_dssp EEECSSCCHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHHSCC
T ss_pred EEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHHHH
T ss_conf 9968899999999996592057717998899999999999874332
No 7
>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A*
Probab=1.00 E-value=1 Score=158.83 Aligned_cols=127 Identities=30% Similarity=0.448 Sum_probs=116.3
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCCEEEECC-CCCCCHHHHHHHHHHCCCCCCCC
Q ss_conf 96189999559567999999998389989999898999999984099811999926-89999899999998302899864
Q 004541 86 RSLKVLLVENDDSTRHVVAALLRNCGYEVTEATNGLQAWKILEDLTNHIDLVLTEV-MPCLSGVALLSKIMSHKTRKNLP 164 (746)
Q Consensus 86 ~~lrVLIVDDd~~~r~iL~~lL~~~G~~V~~A~dG~EALe~L~~~~~~~DLVLlDi-MP~mdGiell~~IRs~~~~~~iP 164 (746)
..++||||||++..+..+...|+..||.|..+.++.+|++.+.. ...|||||+|+ ||+++|++++++||+......+|
T Consensus 123 ~~~~ILivDD~~~~~~~l~~~L~~~~~~v~~a~~~~eal~~l~~-~~~~dlvllD~~mP~~dG~~l~~~lr~~~~~~~~~ 201 (259)
T 3luf_A 123 QQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQ-HPAIRLVLVDYYMPEIDGISLVRMLRERYSKQQLA 201 (259)
T ss_dssp TTCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-CTTEEEEEECSCCSSSCHHHHHHHHHHHCCTTTSE
T ss_pred CCCCEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHC-CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCE
T ss_conf 77748999297889999999998759579994899999999961-99988899817899999999999998126778976
Q ss_pred EEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf 9999358998999999967998399299998899999999998841699
Q 004541 165 VIMMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRRCHSSS 213 (746)
Q Consensus 165 IIiLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr~~~~~ 213 (746)
||++|+........+++..|+++||.||+.+.+|...+++++++.....
T Consensus 202 ii~~s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~~~~~ 250 (259)
T 3luf_A 202 IIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLEALEQFN 250 (259)
T ss_dssp EEEEECSSSSSHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHHC--
T ss_pred EEEEECCCCHHHHHHHHHCCHHHEECCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 9999836877999999966913237499999999999999999686440
No 8
>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A*
Probab=1.00 E-value=1 Score=158.28 Aligned_cols=120 Identities=28% Similarity=0.445 Sum_probs=112.4
Q ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCCEEEECC-CCCCCHHHHHHHHHHCCCCCCCCEE
Q ss_conf 189999559567999999998389989999898999999984099811999926-8999989999999830289986499
Q 004541 88 LKVLLVENDDSTRHVVAALLRNCGYEVTEATNGLQAWKILEDLTNHIDLVLTEV-MPCLSGVALLSKIMSHKTRKNLPVI 166 (746)
Q Consensus 88 lrVLIVDDd~~~r~iL~~lL~~~G~~V~~A~dG~EALe~L~~~~~~~DLVLlDi-MP~mdGiell~~IRs~~~~~~iPII 166 (746)
.+||||||++..+..+..+|+..||.|..+.++.+|++.+.. ..|||||+|+ ||+++|+++++.|+.....+.+|||
T Consensus 2 ~~iLivdD~~~~~~~l~~~L~~~~~~v~~a~~~~~al~~~~~--~~~dlvllD~~mp~~~G~~~~~~l~~~~~~~~~pii 79 (459)
T 1w25_A 2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAAR--DLPDIILLDVMMPGMDGFTVCRKLKDDPTTRHIPVV 79 (459)
T ss_dssp CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH--HCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCEE
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHC--CCCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCEE
T ss_conf 869999498999999999999769889997989999999861--799999980888999999999999658555899889
Q ss_pred EEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Q ss_conf 9935899899999996799839929999889999999999884
Q 004541 167 MMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRRC 209 (746)
Q Consensus 167 iLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr~ 209 (746)
++|+..+.....+++..|+++||.||+...+|...++.++++.
T Consensus 80 ~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~l~~~i~~~~~~~ 122 (459)
T 1w25_A 80 LITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK 122 (459)
T ss_dssp EEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred EEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
T ss_conf 9978888788999997698789969899999999999999887
No 9
>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A
Probab=1.00 E-value=1 Score=157.42 Aligned_cols=120 Identities=30% Similarity=0.547 Sum_probs=110.3
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCCEEEECC-CCCCCHHHHHHHHHHCCCCCCCC
Q ss_conf 96189999559567999999998389989999898999999984099811999926-89999899999998302899864
Q 004541 86 RSLKVLLVENDDSTRHVVAALLRNCGYEVTEATNGLQAWKILEDLTNHIDLVLTEV-MPCLSGVALLSKIMSHKTRKNLP 164 (746)
Q Consensus 86 ~~lrVLIVDDd~~~r~iL~~lL~~~G~~V~~A~dG~EALe~L~~~~~~~DLVLlDi-MP~mdGiell~~IRs~~~~~~iP 164 (746)
...+||||||++..+..+..+|+..||+|..+.++.+|++.+.. ..|||||+|+ ||+++|+++++.||+. .+.+|
T Consensus 4 ~~~~iLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~--~~~dlvllD~~mp~~~G~~~~~~lr~~--~~~~p 79 (394)
T 3eq2_A 4 VSATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES--EQPDLVICDLRMPQIDGLELIRRIRQT--ASETP 79 (394)
T ss_dssp CEEEEEEECSCHHHHHHHHHHHHHTTEEEEECSSHHHHHHHHHH--SCCSEEEECCCSSSSCTHHHHHHHHHT--TCCCC
T ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHH--CCCCEEEECCCCCCCCHHHHHHHHHHH--CCCCC
T ss_conf 78779999699899999999997679889997999999998742--799999982789999889999999842--89996
Q ss_pred EEEEECCCCHHHHHHHHHCCCCEEEECCC-CHHHHHHHHHHHHHHH
Q ss_conf 99993589989999999679983992999-9889999999999884
Q 004541 165 VIMMSSLDSMGLVFKCLSKGAVDFLVKPI-RKNELKNLWQHVWRRC 209 (746)
Q Consensus 165 IIiLSa~~s~~~~~~al~~GAddyL~KPi-~~~eL~~~L~~vlrr~ 209 (746)
||++|+..+.+...+++..|+++||.||+ ...+|...+.+++++.
T Consensus 80 ii~lt~~~~~~~~~~a~~~ga~~yl~KP~~~~~~l~~~i~~~~~~~ 125 (394)
T 3eq2_A 80 IIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRALDRA 125 (394)
T ss_dssp EEEC---CHHHHHHHHHHHTCSEECCSSCSCTHHHHHHHHHHHHHH
T ss_pred EEEEECCCCHHHHHHHHHCCHHHEEECCCCHHHHHHHHHHHHHHHH
T ss_conf 8999767888999999865923289899875999999999987666
No 10
>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei}
Probab=1.00 E-value=1 Score=156.16 Aligned_cols=122 Identities=16% Similarity=0.316 Sum_probs=113.4
Q ss_pred CCCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCCEEEECC-CCCCCHHHHHHHHHHCCCCCCC
Q ss_conf 896189999559567999999998389989999898999999984099811999926-8999989999999830289986
Q 004541 85 LRSLKVLLVENDDSTRHVVAALLRNCGYEVTEATNGLQAWKILEDLTNHIDLVLTEV-MPCLSGVALLSKIMSHKTRKNL 163 (746)
Q Consensus 85 ~~~lrVLIVDDd~~~r~iL~~lL~~~G~~V~~A~dG~EALe~L~~~~~~~DLVLlDi-MP~mdGiell~~IRs~~~~~~i 163 (746)
+..++||||||++..+..+..+|...||.|..+.++.+|++.+.. ..|||||+|+ ||+++|+++++.||.. .+.+
T Consensus 5 m~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~--~~~dlvl~D~~lp~~~g~~~~~~l~~~--~~~~ 80 (184)
T 3rqi_A 5 MSDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGA--EKFEFITVXLHLGNDSGLSLIAPLCDL--QPDA 80 (184)
T ss_dssp --CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHTT--SCCSEEEECSEETTEESHHHHHHHHHH--CTTC
T ss_pred CCCCEEEEECCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHH--CCCCEEEEECCCCCCCHHHHHHHHHHC--CCCC
T ss_conf 789848997699899999999999779889996799999999852--799989996168996589999999961--9999
Q ss_pred CEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHC
Q ss_conf 49999358998999999967998399299998899999999998841
Q 004541 164 PVIMMSSLDSMGLVFKCLSKGAVDFLVKPIRKNELKNLWQHVWRRCH 210 (746)
Q Consensus 164 PIIiLSa~~s~~~~~~al~~GAddyL~KPi~~~eL~~~L~~vlrr~~ 210 (746)
|||++|+..+.....+++..|+++||.||+...+|...++.++++..
T Consensus 81 ~ii~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~~~~~~ 127 (184)
T 3rqi_A 81 RILVLTGYASIATAVQAVKDGADNYLAKPANVESILAALQTNASEVQ 127 (184)
T ss_dssp EEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHTSTTHHHHH
T ss_pred CEEEEECCCCHHHHHHHHHHCHHHHEECCCCHHHHHHHHHHHHHHHH
T ss_conf 78999689987899999981977741288999999999999998755
Done!