Query 001564
Match_columns 1052
No_of_seqs 615 out of 4865
Neff 8.4
Searched_HMMs 29240
Date Tue Mar 26 16:13:04 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/001564.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_863-867//hhsearch_pdb/001564hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4eho_A Bacteriophytochrome, PA 1.0 1 1 1027.0 49.3 607 68-738 19-635 (635)
2 3zq5_A Phytochrome-like protei 1.0 1 1 943.6 37.3 484 69-584 15-509 (520)
3 3nhq_A Bacteriophytochrome; ph 1.0 1 1 918.2 51.2 471 69-583 12-493 (505)
4 3s7o_A Bacteriophytochrome; bi 1.0 1 1 641.1 31.2 296 68-401 37-337 (343)
5 4e04_A Bacteriophytochrome (li 1.0 1 1 637.4 33.4 298 69-398 15-316 (327)
6 2ool_A Sensor protein; bacteri 1.0 1 1 621.9 36.2 299 69-399 28-330 (337)
7 4glq_A Methyl-accepting chemot 1.0 1 1 263.8 16.5 153 208-398 3-156 (171)
8 3a0r_A Sensor protein; four he 1.0 1 1 238.4 13.4 276 741-1051 3-281 (349)
9 2k2n_A Sensor protein, SYB-CPH 1.0 1 1 222.7 17.2 165 219-397 1-168 (172)
10 2lb5_A Sensor histidine kinase 1.0 1 1 217.9 18.1 183 199-397 13-198 (208)
No 1
>4eho_A Bacteriophytochrome, PAS/PAC sensor; photoreceptor, bacteriopbhytochrome; HET: MSE BLA; 2.90A {Rhodopseudomonas palustris tie-1}
Probab=1.00 E-value=1 Score=1027.01 Aligned_cols=607 Identities=28% Similarity=0.455 Sum_probs=532.8
Q ss_pred HHHHHCCCCCCCCCCCCEEEEEECCCCEEEEECCCHHHHHCCCCCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHCC
Q ss_conf 57561014789878761589995699659987269134407887778888998755789842110791469999988457
Q 001564 68 TAYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPELLTMVNHAVPSVGDHPVLGIGSDIKTIFTAPSASALQKALGF 147 (1052)
Q Consensus 68 ~~~~~~i~~~g~iQ~~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~l~~~~~~ 147 (1052)
.---+|||+||+|||||||||+|+++++|+++|+|+.++||+++ ++|+++.+++++.....+......
T Consensus 19 ~C~~EpIh~pg~IQp~G~Ll~~~~~~~~i~~~S~N~~~~lg~~~------------~lg~~l~~~~~~~~~~~~~~~~~~ 86 (635)
T 4eho_A 19 NCEREEIHLAGSIQPHGALLVVSEPDHRIIQASANAAEFLNLGS------------VLGVPLAEIDGDLLIKILPHLDPT 86 (635)
T ss_dssp TTTSCBCSSCSEECTTEEEEEECTTTCBEEEEETTHHHHHTCSC------------CSSCBSSSSSSSHHHHHGGGCCSS
T ss_pred CCCCCCCCCCCCCCCCEEEEEEECCCCEEEEEECCHHHHHCCHH------------HHCCCHHHHCCHHHHHHHHHHHHH
T ss_conf 00644034867406772899998799939999574976609585------------609988897566899988653110
Q ss_pred CCCCCCCCEEEEEC--CCCCEEEEEEEEC-CCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf 98766785368403--8996069999602-99599997436999997404667668999999999860499997999999
Q 001564 148 GEVSLLNPILVHCK--TSGKPFYAIVHRV-TGSLIIDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSGSMERLCD 224 (1052)
Q Consensus 148 ~~~~~~~~~~~~~~--~~~~~~~~~~h~~-~~~~~ie~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~ 224 (1052)
....|..++++ ..++.|++++||. ++.+|+||||..+.. ...+.+ .++++||++ +.+++++|+
T Consensus 87 ---~~~~~~~~~~~~~~~~~~~~~~~hr~~~~~li~elE~~~~~~---~~~~~~------~~~~~~i~~--s~~l~~i~~ 152 (635)
T 4eho_A 87 ---AEGMPVAVRCRIGNPSTEYDGLMHRPPEGGLIIELERAGPPI---DLSGTL------APALERIRT--AGSLRALCD 152 (635)
T ss_dssp ---SCCCSCEEEEEETTTTEEEEEECCCCSSSSEEEEEECCCSCC---CCCTTS------SSHHHHHHH--CCSHHHHHH
T ss_pred ---CCCCCEEEEEEECCCCCEEEEEEEECCCCEEEEEEEECCCCH---HHHHHH------HHHHHHHHH--HCCHHHHHH
T ss_conf ---347861588874588845999999827977999998789835---099999------999999986--199999999
Q ss_pred HHHHHHHHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCCEEE--
Q ss_conf 999999953189879998534899823999722699977459977999930999998983890598327997411021--
Q 001564 225 TMIQEVFELTGYDRVMAYKFHEDDHGEVVSEITKSGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRARHVKVLQ-- 302 (1052)
Q Consensus 225 ~~v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~~~~~~lG~~~pa~dip~~ar~ly~~n~~r~i~D~~~~~v~l~~-- 302 (1052)
++|++||++|||||||||||++||||+||||++.++|+||||+||||+|||+++|++|++|++|+|+||+++||++++
T Consensus 153 ~~v~evr~l~~~DRv~iy~F~~d~~G~vvaE~~~~~~~s~lg~~~p~~dip~~~r~ly~~~~~r~i~d~~~~~v~~~~~~ 232 (635)
T 4eho_A 153 DTALLFQQCTGYDRVMVYRFDEQGHGEVFSERHVPGLESYFGNRYPSSDIPQMARRLYERQRVRVLVDVSYQPVPLEPRL 232 (635)
T ss_dssp HHHHHHHHHSCCSEEEEEEECTTCCEEEEEEECCTTCCCCTTCEECSTTSCHHHHHHHHHSCEEEESCSSCCCEEEESSB
T ss_pred HHHHHHHHHHCCCEEEEEEECCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHCCCEEEEECCCCCCCCCCCCC
T ss_conf 99999999868986999999899998999998579983113885687531899999997397699962568852432576
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCHHHHH
Q ss_conf 89999854445764348994589999833543068999998278544788875569860369984238999899216999
Q 001564 303 DEKLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVCHNTTPRFVPFPLRYA 382 (1052)
Q Consensus 303 ~~~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~chh~~pr~~~~~~r~~ 382 (1052)
++.+++|+||++|+||++||||+|||+||||+|||+|||+++ ++|||||+||||+||+|++++|.+
T Consensus 233 ~~~~~~~ldl~~~~~r~~sp~h~~yl~~~~v~asl~vpi~~~--------------~~LWGLl~~h~~~pr~~~~~~~~~ 298 (635)
T 4eho_A 233 SPLTGRDLDMSGCFLRSMSPIHLQYLKNMGVRATLVVSLVVG--------------GKLWGLVACHHYLPRFIHFELRAI 298 (635)
T ss_dssp CTTTSSBCCGGGCTTBCCCHHHHHHHHHHTCCEEEEEEEEET--------------TEEEEEEEEEESSCCCCCHHHHHH
T ss_pred CCCCCCCCCCCCCEECCCCHHHHHHHHHHCCCEEEEEEEEEC--------------CEEEEEEEEECCCCCCCCHHHHHH
T ss_conf 723388555222233479889999998608414899999885--------------644522235338887689999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCCCCCCCCCHHHHCCCCEEEEEECCEEEEECCCCC
Q ss_conf 999999999999999999999999999999999999740279--763013983142102888799999894999268999
Q 001564 383 CEFLAQVFAIHVNKELELEYQILEKNILRTQTLLCDMLMRDA--PLGIVTQSPNIMDLVKCDGAALLYKNKIWRLGVTPN 460 (1052)
Q Consensus 383 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~l~~~~g~~~~~~~~~~~~g~~p~ 460 (1052)
|++++++++++|++...++.++.++++.++++.+++++.+.. +.++....++++++++|||+++|+++++|++|.+|+
T Consensus 299 ~~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~l~~l~~adg~al~~~~~~~~~G~~P~ 378 (635)
T 4eho_A 299 CELLAEAIATRITALESFAQSQSELFVQRLEQRMIEAITREGDWRAAIFDTSQSILQPLHADGCALVYEDQIRTIGDVPS 378 (635)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSCSHHHHSCTTSCSSGGGTCSEEEEEETTEEEEEESCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCHHHHHHHCCCEEEEEECCEEEEEECCCC
T ss_conf 99999999988767776799999999988899999987326765468775396777642487579999998899847999
Q ss_pred HHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEEEEEECC--CCEEEEECCCCCEEEECCCCCCCCCCC
Q ss_conf 889999999995315997269705578557988334675421199999089--998999316841278635889999888
Q 001564 461 DFQLHDIVSWLSEYHMDSTGLSADSLYDAGYLGALALGDVVCGMAAVRISP--KDMIFWFRSQTASEVRWGGAKHEPDEK 538 (1052)
Q Consensus 461 ~~~~~~l~~~l~~~~~~~~~~~~~~l~~~~~p~~~~~~~~~~G~~~~~i~~--~~~l~wfR~e~~~~v~W~G~p~~~~~~ 538 (1052)
+.++.++..|+...+ ...+|+|++|.. +||++..+++.+|||++++|+. ++|++|||+|+.++++|||+|+++...
T Consensus 379 ~~~i~~l~~wl~~~~-~~~~~~t~~l~~-~~p~~~~~~~~~~G~l~~~i~~~~~~~l~~fR~e~~~~v~WaG~p~~~~~~ 456 (635)
T 4eho_A 379 TQDVREIAGWLDRQP-RAAVTSTASLGL-DVPELAHLTRMASGVVAAPISDHRGEFLMWFRPERVHTVTWGGDPKKPFTM 456 (635)
T ss_dssp HHHHHHHHHHHTTSC-CCSSEEESCHHH-HCGGGGGGHHHHSEEEEEECSSSSSCEEEEEECCTTTTTCSSSCCSCCCCS
T ss_pred HHHHHHHHHHHHHCC-CCCEEEECCCCC-CCCCHHHHHHHCCCEEEEEECCCCCCEEEEECCCEEEEEEECCCCCCCCCC
T ss_conf 999999999997348-995799355011-270224441100547999804788748999616536899853677874324
Q ss_pred -CCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf -9997754560247679764034678873578789999999999765310222330122224567788779999999999
Q 001564 539 -DDGRKMHPRSSFKAFLEVVKTRSLPWKDYEMDAIHSLQLILRNAFKDVGTLDLDTKSIHSKLCDLKIEGMKELEAVTSE 617 (1052)
Q Consensus 539 -~~~~~l~pR~SF~~w~e~v~~~s~pW~~~e~~aa~~L~~iL~~~~~~~~~~~e~~~~~~~~L~~~~~~~~~eL~~~~~~ 617 (1052)
+++.+|+||+||++|.|++++++.||+..+++++..++..+......... .....+++..++
T Consensus 457 ~~~~~~l~PR~SF~~w~e~v~~~s~pW~~~e~~aa~~l~~~l~~~il~~r~-----------------~~~~~a~e~~~~ 519 (635)
T 4eho_A 457 GDTPADLSPRRSFAKWHQVVEGTSDPWTAADLAAAGTIGQTVADIVLQFRA-----------------VRTLIAREQVPQ 519 (635)
T ss_dssp CCSGGGCSHHHHHHHHHHTTTTCCSCCCTTHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHTSSS
T ss_pred CCCCCEECCEEEEECCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHH
T ss_conf 787634412056512343243115664035667777665557778887767-----------------899999999999
Q ss_pred HHHHHHHCCCEEEEECCCCCEEECCHHHHHHHCCCCCHHCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCEEEEEEEEEC
Q ss_conf 99998737934999918993751408999993999101038753343227855799999999982896330899999711
Q 001564 618 MVRLIETATVPILAVDVDGLVNGWNTKIAELTGLSVDKAIGKHFLTLVEDSSIDTVKRMLYLALQGQEEQNIQFEIKTHG 697 (1052)
Q Consensus 618 l~~lie~~~~gI~~~D~dg~I~~~N~a~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~l~~~l~g~~~~~~e~~~~~~~ 697 (1052)
+.+++++++++|+++|.+|+|++||+++++++||+.++++|++....+++++.+.+......+..|+.... ++.+
T Consensus 520 ~~~lle~a~~~i~~~D~~grI~~~N~a~~~l~G~s~~e~~g~~~l~~~~~~~~~~~~~i~~~l~~g~~~~~-E~~~---- 594 (635)
T 4eho_A 520 ASSQVHASMQPVLITDAEGRILLMNDSFRDMLPAGSPSAVHLDDLAGFFVESNDFLRNVAELIDHGRGWRG-EVLL---- 594 (635)
T ss_dssp HHHHHHHCSSCCEEEETTCCEEEECHHHHTTSCSSCCCCCSSGGGTTSSSSCTHHHHHHHHHHHHCCCBCC-CCEE----
T ss_pred HHHHHHHCCCCEEEECCCCEEEEHHHHHHHHHCCCHHHHCCCCHHHCCCCCCHHHHHHHHHHHHCCCCEEE-EEEE----
T ss_conf 99999728896799889980850879999987849689769621330577879999999999985996789-9999----
Q ss_pred CCCCCCEEEEEEEEEEEECCCCCEEEEEEEEECCCHHHHHH
Q ss_conf 34689619999987874328999899999999461466868
Q 001564 698 SKINDDPITLIVNACASRDLHDNVVGVCFVAQDITPQKTVM 738 (1052)
Q Consensus 698 ~~~dg~~~~v~v~~~pi~d~~g~i~gvv~v~~DITerk~~e 738 (1052)
.+++|..+|+.++.+|++|.+|++.|++++++|||+||++|
T Consensus 595 ~~~dG~~~~~~~~~~pv~d~~G~v~g~v~i~~DITerK~aE 635 (635)
T 4eho_A 595 RGAGNRPLPLAVRADPVTRTEDQSLGFVLIFSDATDRRTAD 635 (635)
T ss_dssp CCSSSSCEECCCCEEEECSTTSSCCEEEECCCCCSSSCCCC
T ss_pred ECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEECCHHHHCC
T ss_conf 96699699999999999889999899999998574575477
No 2
>3zq5_A Phytochrome-like protein CPH1; arginine finger, tandem GAF domain, receptor, PAS domain, chromophore, sensory transduction; HET: CYC; 1.95A {Synechocystis SP} PDB: 2vea_A*
Probab=1.00 E-value=1 Score=943.64 Aligned_cols=484 Identities=30% Similarity=0.575 Sum_probs=435.2
Q ss_pred HHHHCCCCCCCCCCCCEEEEEECCCCEEEEECCCHHHHHCCCCCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHCCC
Q ss_conf 75610147898787615899956996599872691344078877788889987557898421107914699999884579
Q 001564 69 AYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPELLTMVNHAVPSVGDHPVLGIGSDIKTIFTAPSASALQKALGFG 148 (1052)
Q Consensus 69 ~~~~~i~~~g~iQ~~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~l~~~~~~~ 148 (1052)
---+|||+||+|||||||||+|+++++|+++|+|++++||+++++ ++|+++.++|++.+++.++.++...
T Consensus 15 CdrEPIh~pG~IQphG~LLal~~~~~~I~~~S~N~~~~lg~~~~~----------llG~~l~~ll~~~~~~~l~~~l~~~ 84 (520)
T 3zq5_A 15 LETLAIHTAHLIQPHGLVVVLQEPDLTISQISANCTGILGRSPED----------LLGRTLGEVFDSFQIDPIQSRLTAG 84 (520)
T ss_dssp HHTCCGGGCCEECTTSEEEEEETTTTEEEEEETTHHHHHSCCHHH----------HTTSBHHHHCEESSCCCCSSCCCHH
T ss_pred CCCCCCCCCCCCCCCEEEEEEECCCCEEEEECCCHHHHHCCCHHH----------HCCCCHHHHCCHHHHHHHHHHHCCC
T ss_conf 352106577864787389999889997999946399885869588----------8499878974989999999874135
Q ss_pred CCCCCCCEEEEEC--CCCC-EEEEEEEEC-CCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf 8766785368403--8996-069999602-99599997436999997404667668999999999860499997999999
Q 001564 149 EVSLLNPILVHCK--TSGK-PFYAIVHRV-TGSLIIDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSGSMERLCD 224 (1052)
Q Consensus 149 ~~~~~~~~~~~~~--~~~~-~~~~~~h~~-~~~~~ie~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~ 224 (1052)
+....+|+.++++ .+++ +|++++||+ ++++|+||||..+.+.. +..+.++++.+++.+|++ +.+++++|+
T Consensus 85 ~~~~~~p~~~~~~~~~~~~~~f~~~~Hr~~~~~lilElEp~~~~~~~----~~~~~~~ll~~i~~~Ir~--sl~l~~il~ 158 (520)
T 3zq5_A 85 QISSLNPSKLWARVMGDDFVIFDGVFHRNSDGLLVCELEPAYTSDNL----PFLGFYHMANAALNRLRQ--QANLRDFYD 158 (520)
T ss_dssp HHHHTSSEEEEEEETTTEEEEEEEEEEECTTSCEEEEEEECCTTCSC----CCTTHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred CCCCCCCEEEEEECCCCCCEEEEEEEEEECCCEEEEEEEECCCCCCC----CHHHHHHHHHHHHHHHHH--CCCHHHHHH
T ss_conf 54557848999731689861599999997697799999987876530----167799999999999875--599999999
Q ss_pred HHHHHHHHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCCEEEC-
Q ss_conf 9999999531898799985348998239997226999774599779999309999989838905983279974110218-
Q 001564 225 TMIQEVFELTGYDRVMAYKFHEDDHGEVVSEITKSGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRARHVKVLQD- 303 (1052)
Q Consensus 225 ~~v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~~~~~~lG~~~pa~dip~~ar~ly~~n~~r~i~D~~~~~v~l~~~- 303 (1052)
++|++||++|||||||||||++||+|+||||++.++|+||||+|||++|||+++|++|++|++|+|+|++++|++|++.
T Consensus 159 ~~v~evr~ll~~DRVmIYrF~~d~~G~VvAEs~~~~~~s~LGl~~p~~diP~~ar~ly~~~~vr~I~Di~~~pv~l~~~~ 238 (520)
T 3zq5_A 159 VIVEEVRRMTGFDRVMLYRFDENNHGDVIAEDKRDDMEPYLGLHYPESDIPQPARRLFIHNPIRVIPDVYGVAVPLTPAV 238 (520)
T ss_dssp HHHHHHHHHHCCSEEEEEEECTTSCEEEEEEEECTTSCCCTTEEECGGGSCHHHHHHHHHCCEEEESCTTCCCEEEESSS
T ss_pred HHHHHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCHHHCCCCCCHHHHHHHHHHHHHCCCEEEECCCCCCCEEEECCC
T ss_conf 99999999858897999998688867899999279843323981474450099999997399899747888841121466
Q ss_pred -CCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCHHHHH
Q ss_conf -9999854445764348994589999833543068999998278544788875569860369984238999899216999
Q 001564 304 -EKLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVCHNTTPRFVPFPLRYA 382 (1052)
Q Consensus 304 -~~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~chh~~pr~~~~~~r~~ 382 (1052)
+.++.|+||++|+||++||||+|||+||||+|||+|||+++ ++|||||+||||+||+|++++|.+
T Consensus 239 ~~~~~~pldL~~s~lr~~sp~h~eyL~nmgV~AsLvvpI~~~--------------~~LWGLl~~Hh~~pR~w~~~er~~ 304 (520)
T 3zq5_A 239 NPSTNRAVDLTESILRSAYHCHLTFLKNMGVGASLTISLIKD--------------GHLWGLIACHHQTPKVIPFELRKA 304 (520)
T ss_dssp CTTTSSCCCCTTCSSBCCCHHHHHHHHHTTCSEEEEEEEEET--------------TEEEEEEEEEESSCCCCCHHHHHH
T ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEC--------------CEEEEEEEEECCCCCCCCHHHHHH
T ss_conf 644478654321110468889999998629707999738999--------------877999997337886799999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHCCCC-CCCCCCCCCCHHHHCCCCEEEEEECCEEEEECCCCC
Q ss_conf 99999999999999999999999999999999-9999740279-763013983142102888799999894999268999
Q 001564 383 CEFLAQVFAIHVNKELELEYQILEKNILRTQT-LLCDMLMRDA-PLGIVTQSPNIMDLVKCDGAALLYKNKIWRLGVTPN 460 (1052)
Q Consensus 383 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~~~l~~l~~~~g~~~~~~~~~~~~g~~p~ 460 (1052)
|++++++++++|++...++....+.+..+++. +++.|...+. +.++..+.+++++|++|||+++|++++++++|.||+
T Consensus 305 ~e~la~~lsiai~q~e~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~ll~l~~adG~al~~~~~~~~~G~~P~ 384 (520)
T 3zq5_A 305 CEFFGRVVFSNISAQEDTETFDYRVQLAEHEAVLLDKMTTAADFVEGLTNHPDRLLGLTGSQGAAICFGEKLILVGETPD 384 (520)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSHHHHHHTCHHHHHHTTTCSEEEEEETTEEEEEESCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCHHHHHHHCCCEEEEEECCEEEECCCCCC
T ss_conf 99999999999999999999999999999999999998707576678875108888653478699999998898688999
Q ss_pred HHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEEEEEECCCCEEEEECCCCCEEEECCCCCCCCCC--C
Q ss_conf 88999999999531599726970557855798833467542119999908999899931684127863588999988--8
Q 001564 461 DFQLHDIVSWLSEYHMDSTGLSADSLYDAGYLGALALGDVVCGMAAVRISPKDMIFWFRSQTASEVRWGGAKHEPDE--K 538 (1052)
Q Consensus 461 ~~~~~~l~~~l~~~~~~~~~~~~~~l~~~~~p~~~~~~~~~~G~~~~~i~~~~~l~wfR~e~~~~v~W~G~p~~~~~--~ 538 (1052)
+.++.+|++||...+.+ ++|+||+|.+ +||++..+++.+||||+++|+.++||+|||+|+.++|+|||+|+|+.. .
T Consensus 385 ~~~i~~l~~wl~~~~~~-~v~~Td~L~~-~~p~a~~~~~~a~G~lai~ls~~~~l~wFR~e~~~~v~WaG~P~k~~~~~~ 462 (520)
T 3zq5_A 385 EKAVQYLLQWLENREVQ-DVFFTSSLSQ-IYPDAVNFKSVASGLLAIPIARHNFLLWFRPEVLQTVNWGGDPNHAYEATQ 462 (520)
T ss_dssp HHHHHHHHHHHHHSCCC-SCEEESCGGG-TSGGGGGGHHHHSEEEEEEETTTEEEEEEECCCCEEEEESSCGGGCSEEEE
T ss_pred HHHHHHHHHHHHHCCCC-CEEEECCHHH-HCCCHHHCCCCCCEEEEEEECCCCEEEEECCCCCEEEEECCCCCCCCCCCC
T ss_conf 89999999999725799-7257565101-182303315512539999968998899987884159881899987677677
Q ss_pred CCCC-CCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 9997-754560247679764034678873578789999999999765
Q 001564 539 DDGR-KMHPRSSFKAFLEVVKTRSLPWKDYEMDAIHSLQLILRNAFK 584 (1052)
Q Consensus 539 ~~~~-~l~pR~SF~~w~e~v~~~s~pW~~~e~~aa~~L~~iL~~~~~ 584 (1052)
++|. +|+||+||++|+|+|+++|.||++.|++++.+|+..+.+...
T Consensus 463 ~~g~~~l~PR~SF~~W~E~v~g~s~pW~~~e~~~A~~Lr~~l~~vvl 509 (520)
T 3zq5_A 463 EDGKIELHPRQSFDLWKEIVRLQSLPWQSVEIQSALALKKAIVNLIL 509 (520)
T ss_dssp ETTEEEEECCCCCCCEEEEECSCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHEEEECCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 79981336534556566502277799998999999999999999999
No 3
>3nhq_A Bacteriophytochrome; photoreceptor, PAS, signaling, signaling protei; HET: BLA; 2.55A {Pseudomonas aeruginosa} PDB: 3c2w_A* 3nop_C* 3not_C* 3nou_C* 3g6o_A* 3ibr_A*
Probab=1.00 E-value=1 Score=918.22 Aligned_cols=471 Identities=28% Similarity=0.435 Sum_probs=431.8
Q ss_pred HHHHCCCCCCCCCCCCEEEEEECCCCEEEEECCCHHHHHCCCCCCCCCCCCCCCCCCCCCHHH-CCCHHHHHHHHHHHCC
Q ss_conf 756101478987876158999569965998726913440788777888899875578984211-0791469999988457
Q 001564 69 AYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPELLTMVNHAVPSVGDHPVLGIGSDIKT-IFTAPSASALQKALGF 147 (1052)
Q Consensus 69 ~~~~~i~~~g~iQ~~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~~g~~~~~-~~~~~~~~~l~~~~~~ 147 (1052)
---+|||+||+|||||||||+|+ +++|+++|+|++++||.++ ++|+++.+ +|++.+++.++.++..
T Consensus 12 C~~EPIh~pG~IQphG~Ll~l~~-~~~I~~~S~N~~~~lg~~~------------~lG~~l~~~ll~~~~~~~l~~~l~~ 78 (505)
T 3nhq_A 12 CEDEPIHVPGAIQPHGALVTLRA-DGMVLAASENIQALLGFVA------------SPGSYLTQEQVGPEVLRMLEEGLTG 78 (505)
T ss_dssp GGGCCTTSCSEECTTEEEEEECT-TSBEEEEETTHHHHHSSCC------------CTTCBCCHHHHHHHHHHHHHHHHSC
T ss_pred CCCCCCCCCCCCCCCEEEEEECC-CCEEEEECCCHHHHHCCCC------------CCCCCHHHHHCCHHHHHHHHHHHHC
T ss_conf 46221657786377748999848-9809998454988849642------------1599520322898999999987612
Q ss_pred CCCCCCCCEEEEECCCCCEEEEEEEECCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf 98766785368403899606999960299599997436999997404667668999999999860499997999999999
Q 001564 148 GEVSLLNPILVHCKTSGKPFYAIVHRVTGSLIIDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSGSMERLCDTMI 227 (1052)
Q Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~ie~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~v 227 (1052)
... ..+|+.++ .++++|++++||+++++|+||||..+.+. +..+.++++.+++.+|++ +.+++++|+++|
T Consensus 79 ~~~-~~~p~~~~--~~~~~f~~~~Hr~~~~lilElEp~~~~~~-----~~~~~~~ll~~i~~~Ir~--sl~l~~il~~~v 148 (505)
T 3nhq_A 79 NGP-WSNSVETR--IGEHLFDVIGHSYKEVFYLEFEIRTADTL-----SITSFTLNAQRIIAQVQL--HNDTASLLSNVT 148 (505)
T ss_dssp SSC-CCCEEEEC--SSSSCEEEEEEEETTEEEEEEEECCSCCC-----CSHHHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_pred CCC-CCCCEEEE--CCCCEEEEEEEEECCEEEEEEEECCCCCC-----CHHHHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_conf 455-68867994--69816999999989979999987687643-----457799999999999986--689999999999
Q ss_pred HHHHHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCCEEEC--CC
Q ss_conf 9999531898799985348998239997226999774599779999309999989838905983279974110218--99
Q 001564 228 QEVFELTGYDRVMAYKFHEDDHGEVVSEITKSGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRARHVKVLQD--EK 305 (1052)
Q Consensus 228 ~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~~~~~~lG~~~pa~dip~~ar~ly~~n~~r~i~D~~~~~v~l~~~--~~ 305 (1052)
++||++|||||||||||++||+|+||||++.++|+||||+|||++|||+++|++|++|++|+|+|++++|+|+++. +.
T Consensus 149 ~evr~ll~~DRV~IYrF~~d~~G~VvaEs~~~~~~s~LGl~~p~~diP~~ar~ly~~~~vr~I~Dv~~~~~~l~~~~~~~ 228 (505)
T 3nhq_A 149 DELRRMTGYDRVMAYRFRHDDSGEVVAESRREDLESYLGQRYPASDIPAQARRLYIQNPIRLIADVAYTPMRVFPALNPE 228 (505)
T ss_dssp HHHHHHHCCSEEEEEEECTTSCEEEEEEEECTTSCCCTTCEECGGGSCHHHHHHHHHCSEEEESCTTCCCEEEESSEETT
T ss_pred HHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCHHHCCCCCCCCCCHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCC
T ss_conf 99999858896999996388877999999278834324993684318899999997498799727888763300465645
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCHHHHHHHH
Q ss_conf 99854445764348994589999833543068999998278544788875569860369984238999899216999999
Q 001564 306 LPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVCHNTTPRFVPFPLRYACEF 385 (1052)
Q Consensus 306 ~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~chh~~pr~~~~~~r~~~~~ 385 (1052)
++.|+||++|+||++||||+|||+||||+|||+|||+++ ++|||||+||||+||+|++++|.+|++
T Consensus 229 ~~~pldLs~~~lR~~sp~h~eyL~nmgV~AsLvvpI~~~--------------~~LWGLl~~Hh~~pR~w~~~er~~~e~ 294 (505)
T 3nhq_A 229 TNESFDLSYSVLRSVSPIHCEYLTNMGVRASMSISIVVG--------------GKLWGLFSCHHMSPKLIPYPVRMSFQI 294 (505)
T ss_dssp TTEECCCTTCTTBCCCHHHHHHHHHHTCCEEEEEEEECS--------------SSEEEEEEEEESSCCCCCHHHHHHHHH
T ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEC--------------CEEEEEEEEECCCCCCCCHHHHHHHHH
T ss_conf 688655443201468989999998659836999999999--------------998999997538787799999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCCCCCCCCCHHHHCCCCEEEEEECCEEEEECCCCCHHH
Q ss_conf 999999999999999999999999999999999740279--763013983142102888799999894999268999889
Q 001564 386 LAQVFAIHVNKELELEYQILEKNILRTQTLLCDMLMRDA--PLGIVTQSPNIMDLVKCDGAALLYKNKIWRLGVTPNDFQ 463 (1052)
Q Consensus 386 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~l~~~~g~~~~~~~~~~~~g~~p~~~~ 463 (1052)
++++++++|++....+.+..+.+..++++.++.++.+.. +.++.+..++++++++|||+++|+++++|++|.||++++
T Consensus 295 la~~ls~al~q~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~l~~ll~adg~al~~~~~~~~~G~~P~~~~ 374 (505)
T 3nhq_A 295 FSQVCSAIVERLEQGRIAELLRVSTERRLALARRARDADDLFGALAHPDDGIAALIPCDGALVMLGGRTLSIRGDFERQA 374 (505)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHCTTTSHHHHTTCSEEEEEETTEEEEESSCCHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCEEEEEECCEEEECCCCCCHHH
T ss_conf 99999999999999999999999999999999998606888899987148999984888599998996776689999899
Q ss_pred HHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCC---CCCCCCEEEEEEECC--CCEEEEECCCCCEEEECCCCCCCCCC-
Q ss_conf 999999995315997269705578557988334---675421199999089--99899931684127863588999988-
Q 001564 464 LHDIVSWLSEYHMDSTGLSADSLYDAGYLGALA---LGDVVCGMAAVRISP--KDMIFWFRSQTASEVRWGGAKHEPDE- 537 (1052)
Q Consensus 464 ~~~l~~~l~~~~~~~~~~~~~~l~~~~~p~~~~---~~~~~~G~~~~~i~~--~~~l~wfR~e~~~~v~W~G~p~~~~~- 537 (1052)
+.+|++||...+.+ +|+|| +||++.. +++.+||||+++|+. ++||+|||+|+.++|+|||+|+|+..
T Consensus 375 i~~l~~wl~~~~~~--v~~Td-----~~p~a~~~~~~~~~~~G~lai~ls~~~~~~l~wFR~e~~~~v~WaG~P~k~~~~ 447 (505)
T 3nhq_A 375 GNVLQRLQRDPERD--IYHTD-----NWPQPSEDSPDGGDCCGVLAIRFHRQESGWIFWFRHEEVHRIRWGGKPEKLLTI 447 (505)
T ss_dssp HHHHHHHHTCTTCS--EEEES-----CC-----------CCCEEEEEEEETTTTEEEEEEECSCCCSEEEEESCCCCCCC
T ss_pred HHHHHHHHHHCCCC--EEEEC-----CCCCHHHCCCCCCCCCEEEEEEECCCCCCEEEEECCCCCEEEEECCCCCCCCCC
T ss_conf 99999999736798--17967-----886233234545324669999934889858999868854698717999876777
Q ss_pred CCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 8999775456024767976403467887357878999999999976
Q 001564 538 KDDGRKMHPRSSFKAFLEVVKTRSLPWKDYEMDAIHSLQLILRNAF 583 (1052)
Q Consensus 538 ~~~~~~l~pR~SF~~w~e~v~~~s~pW~~~e~~aa~~L~~iL~~~~ 583 (1052)
.++|.+|+||+||++|+|+|+|+|.||++.|++++.+|+..+.+..
T Consensus 448 ~~~~~~l~PR~SF~~W~E~v~g~s~pW~~~e~~~A~~Lr~~l~~v~ 493 (505)
T 3nhq_A 448 GPSGPRLTPRGSFEAWEEVVRGHSTPWSETDLAIAEKLRLDLMELC 493 (505)
T ss_dssp CTTCGGGSHHHHHHHHHHHHTTCCCCCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHEEEECCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 8888712752354656650237669999899999999999999999
No 4
>3s7o_A Bacteriophytochrome; biliverdin, PAS, GAF, photoreceptor, fluorescent protein; HET: LBV GOL; 1.24A {Deinococcus radiodurans} PDB: 3s7n_A* 3s7p_A* 3s7q_A* 2o9c_A* 2o9b_A* 1ztu_A*
Probab=1.00 E-value=1 Score=641.07 Aligned_cols=296 Identities=33% Similarity=0.497 Sum_probs=273.7
Q ss_pred HHHHHCCCCCCCCCCCCEEEEEECCCCEEEEECCCHHHHHCCCCCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHCC
Q ss_conf 57561014789878761589995699659987269134407887778888998755789842110791469999988457
Q 001564 68 TAYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPELLTMVNHAVPSVGDHPVLGIGSDIKTIFTAPSASALQKALGF 147 (1052)
Q Consensus 68 ~~~~~~i~~~g~iQ~~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~l~~~~~~ 147 (1052)
.---+|||+||+|||||||||+|+++++|+++|+|++++||.+++. ++|+++.++|++ +++.++.++..
T Consensus 37 ~Cd~EPIh~pG~IQphG~LL~l~~~~~~I~~~S~N~~~~lg~~~~~----------llG~~l~~ll~~-~~~~l~~~l~~ 105 (343)
T 3s7o_A 37 NCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTV----------LRGQTLAALLPE-QWPALQAALPP 105 (343)
T ss_dssp TGGGCCTTCCSEECTTSEEEEEETTTCBEEEEETTHHHHHSSCHHH----------HTTCBHHHHSTT-THHHHHHHSCT
T ss_pred CCCCCCCCCCCCCCCCEEEEEEECCCCEEEEECCCHHHHHCCCHHH----------HCCCCHHHHHHH-HHHHHHHHHCC
T ss_conf 1361106577864788389999889997999825398885859689----------859988998768-99999987513
Q ss_pred CCCCCCC---CEEEEECCCCCEEEEEEEECCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf 9876678---5368403899606999960299599997436999997404667668999999999860499997999999
Q 001564 148 GEVSLLN---PILVHCKTSGKPFYAIVHRVTGSLIIDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSGSMERLCD 224 (1052)
Q Consensus 148 ~~~~~~~---~~~~~~~~~~~~~~~~~h~~~~~~~ie~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~ 224 (1052)
.+....+ |+.+. ++++|++++||+++++|+||||..+.+ .+.++++.+++.||++ +.+++++|+
T Consensus 106 ~~~~~~~~~~p~~~~---~~~~f~~~~Hr~~~~lilElEp~~~~~--------~~~~~ll~~i~~rIr~--sldl~~ilq 172 (343)
T 3s7o_A 106 GCPDALQYRATLDWP---AAGHLSLTVHRVGELLILEFEPTEAWD--------STGPHALRNAMFALES--APNLRALAE 172 (343)
T ss_dssp TCCTTCCEEEEECCS---SSSEEEEEEEEETTEEEEEEEEEC------------CHHHHHHHHHHHHHH--CCSHHHHHH
T ss_pred CCCCCCCCCCCEEEC---CCCEEEEEEEEECCEEEEEEEECCCCH--------HHHHHHHHHHHHHHHH--CCCHHHHHH
T ss_conf 663102567758972---797799999997998999999877773--------7799999999999986--589999999
Q ss_pred HHHHHHHHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCCEEEC-
Q ss_conf 9999999531898799985348998239997226999774599779999309999989838905983279974110218-
Q 001564 225 TMIQEVFELTGYDRVMAYKFHEDDHGEVVSEITKSGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRARHVKVLQD- 303 (1052)
Q Consensus 225 ~~v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~~~~~~lG~~~pa~dip~~ar~ly~~n~~r~i~D~~~~~v~l~~~- 303 (1052)
++|++||++|||||||||||++||+|+||||++.++|+||||+|||++|||+++|++|++|++|+|+|+++.|++++++
T Consensus 173 ~tV~eVR~llg~DRVmIYrF~~d~~GeVvAEs~~~~~~s~LGl~~pasdiP~~ar~ly~~~~vr~I~Di~~~pv~l~~~~ 252 (343)
T 3s7o_A 173 VATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASHIPAQARALYTRHLLRLTADTRAAAVPLDPVL 252 (343)
T ss_dssp HHHHHHHHHHCCSEEEEEEECTTSCEEEEEEEECTTCCCCTTCEECGGGSCHHHHHHHHHSCEEEESCTTCCCEEEESSE
T ss_pred HHHHHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHCCCEEEEECCCCCCCCCCCCC
T ss_conf 99999999868996999997389987999998069864346981262107899999997299899946677764431466
Q ss_pred -CCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCHHHHH
Q ss_conf -9999854445764348994589999833543068999998278544788875569860369984238999899216999
Q 001564 304 -EKLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVCHNTTPRFVPFPLRYA 382 (1052)
Q Consensus 304 -~~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~chh~~pr~~~~~~r~~ 382 (1052)
+.+++|+||++|+||++||||+|||+||||+|||+|||+++ ++|||||+|||++||+|++++|.+
T Consensus 253 ~~~~~~~ldLs~s~lR~~spcH~eyL~nmgV~AsLvvpI~~~--------------~~LWGLL~~Hh~~pR~w~~~er~~ 318 (343)
T 3s7o_A 253 NPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVG--------------GQLWGLIACHHQTPYVLPPDLRTT 318 (343)
T ss_dssp ETTTTEECCCTTCTTBCCCHHHHHHHHHTTCSEEEEEEEEET--------------TEEEEEEEEEESSCCCCCHHHHHH
T ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEC--------------CEEEEEEEEECCCCCCCCHHHHHH
T ss_conf 645578666322211468999999999739838999999999--------------987999998738786799999999
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999999999999
Q 001564 383 CEFLAQVFAIHVNKELELE 401 (1052)
Q Consensus 383 ~~~l~~~~~~~~~~~~~~~ 401 (1052)
|+++++++|++|++++.++
T Consensus 319 ~e~la~~lsiaI~~~~~~~ 337 (343)
T 3s7o_A 319 LESLGRLLSLQVQVKEALE 337 (343)
T ss_dssp HHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999999987554
No 5
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris}
Probab=1.00 E-value=1 Score=637.42 Aligned_cols=298 Identities=34% Similarity=0.532 Sum_probs=273.6
Q ss_pred HHHHCCCCCCCCCCCCEEEEEECCCCEEEEECCCHHHHHCCCCCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHCCC
Q ss_conf 75610147898787615899956996599872691344078877788889987557898421107914699999884579
Q 001564 69 AYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPELLTMVNHAVPSVGDHPVLGIGSDIKTIFTAPSASALQKALGFG 148 (1052)
Q Consensus 69 ~~~~~i~~~g~iQ~~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~l~~~~~~~ 148 (1052)
---+|||+||+|||||||||+| ++++|+++|+|++++||.++++ ++|+++.++|++.....+++++...
T Consensus 15 C~rEpIh~~G~IQphG~Ll~~~-~~~~I~~~S~N~~~~lg~~~~~----------~lG~~l~~ll~~~~~~~l~~~l~~~ 83 (327)
T 4e04_A 15 CDDEPIHIPGAIQPHGLLLALA-ADMTIVAGSDNLPELTGLAIGA----------LIGRSAADVFDSETHNRLTIALAEP 83 (327)
T ss_dssp GGGCCTTCCSEECTTSEEEEEC-TTCBEEEEETTHHHHHSCCHHH----------HTTCBHHHHBCHHHHHHHHHHHHSC
T ss_pred CCCCCCCCCCCCCCCEEEEEEC-CCCEEEEECCCHHHHHCCCHHH----------HCCCCHHHHCCHHHHHHHHHHHHCC
T ss_conf 3511065778637774899984-8981999846599884889176----------5699778972978999999875135
Q ss_pred CCCCCCCEEEEEC--CCCCEEEEEEEECCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf 8766785368403--89960699996029959999743699999740466766899999999986049999799999999
Q 001564 149 EVSLLNPILVHCK--TSGKPFYAIVHRVTGSLIIDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSGSMERLCDTM 226 (1052)
Q Consensus 149 ~~~~~~~~~~~~~--~~~~~~~~~~h~~~~~~~ie~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~ 226 (1052)
.....+|+.+++. .++++|++++||+++.+|+||||..... . .....++++.+++.||++ +.+++++|+++
T Consensus 84 ~~~~~~p~~~~~~~~~~~~~f~~~~Hr~~~~lilElEp~~~~~--~---~~~~~~~ll~~i~~rIr~--sldl~~il~~a 156 (327)
T 4e04_A 84 GAAVGAPIAVGFTMPDGERAFNGSWHRHDQLVFLELEPPQRDV--R---YPQAFFRSVRSAIRRLQA--AETLESACAAA 156 (327)
T ss_dssp SCCSEEEEEEEBCCTTCCCEEEEEEEEETTEEEEEEECCCCCS--S---CCCCHHHHHHHHHHHHHH--CCSHHHHHHHH
T ss_pred CCCCCCCEEEEEECCCCCCEEEEEEEEECCEEEEEEEECCCCC--C---CHHHHHHHHHHHHHHHHH--CCCHHHHHHHH
T ss_conf 6556784799953058981599999997998999999878763--1---268899999999999873--58899999999
Q ss_pred HHHHHHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCCEEEC--C
Q ss_conf 99999531898799985348998239997226999774599779999309999989838905983279974110218--9
Q 001564 227 IQEVFELTGYDRVMAYKFHEDDHGEVVSEITKSGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRARHVKVLQD--E 304 (1052)
Q Consensus 227 v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~~~~~~lG~~~pa~dip~~ar~ly~~n~~r~i~D~~~~~v~l~~~--~ 304 (1052)
|++||++|||||||||||++||+|+||||++.++|+||||+|||++|||+++|++|++|++|+|+|+++.|+|+++. +
T Consensus 157 v~evr~llg~DRVmIYrF~~d~~G~VvAEs~~~~~~s~LGl~~p~~dip~~ar~ly~~~~vr~I~Di~~~~v~l~~~~~~ 236 (327)
T 4e04_A 157 AQEVREITGFDRVMIYRFASDFSGEVIAEDRCAEVESYLGLHFPASDIPAQARRLYTINPVRIIPDINYRPVPVTPDLNP 236 (327)
T ss_dssp HHHHHHHHCCSEEEEEEECTTSCEEEEEEEECTTSCCCTTCEECGGGSCHHHHHHHHHSCEEEESCTTCCCEEEESCCCT
T ss_pred HHHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHCCCEEEEECCCCCCCCCCCCCCC
T ss_conf 99999987899599999838998899999826998676688246532609999999739989994777776454346664
Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCHHHHHHH
Q ss_conf 99985444576434899458999983354306899999827854478887556986036998423899989921699999
Q 001564 305 KLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVCHNTTPRFVPFPLRYACE 384 (1052)
Q Consensus 305 ~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~chh~~pr~~~~~~r~~~~ 384 (1052)
.+++|+||++|+||++||||+|||+||||+|||+|||+++ ++|||||+||||+||+|++++|.+|+
T Consensus 237 ~~~~~ldls~s~lr~~spcH~eyL~nmgV~AsLvvpI~~~--------------~~LWGLl~~Hh~~pR~w~~~er~~~e 302 (327)
T 4e04_A 237 RTGRPIDLSFAILRSVSPVHLEYMRNIGMHGTMSISILRG--------------ERLWGLIACHHRKPNYVDLEVRQACE 302 (327)
T ss_dssp TTSSCCCCTTCTTBCCCHHHHHHHHHTTCCEEEEEEEEET--------------TEEEEEEEEEESSCCCCCHHHHHHHH
T ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHCCCEEEEEEEEEC--------------CEEEEEEEEECCCCCCCCHHHHHHHH
T ss_conf 4477654332100368989999999719747999999999--------------98899999864878679999999999
Q ss_pred HHHHHHHHHHHHHH
Q ss_conf 99999999999999
Q 001564 385 FLAQVFAIHVNKEL 398 (1052)
Q Consensus 385 ~l~~~~~~~~~~~~ 398 (1052)
++++++|++|++..
T Consensus 303 ~la~~lsiaI~~~~ 316 (327)
T 4e04_A 303 LVAQVLAWQIGVME 316 (327)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
T ss_conf 99999999999998
No 6
>2ool_A Sensor protein; bacteriophytochrome, photoconversion, photoreceptor, biliver signaling protein; HET: LBV; 2.20A {Rhodopseudomonas palustris} SCOP: d.110.2.1 d.110.3.9
Probab=1.00 E-value=1 Score=621.88 Aligned_cols=299 Identities=33% Similarity=0.544 Sum_probs=277.2
Q ss_pred HHHHCCCCCCCCCCCCEEEEEECCCCEEEEECCCHHHHHCCCCCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHCCC
Q ss_conf 75610147898787615899956996599872691344078877788889987557898421107914699999884579
Q 001564 69 AYLHHIQKGKLIQPFGCLLALDEKTFKVIAYSENAPELLTMVNHAVPSVGDHPVLGIGSDIKTIFTAPSASALQKALGFG 148 (1052)
Q Consensus 69 ~~~~~i~~~g~iQ~~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~l~~~~~~~ 148 (1052)
---+|||+||+|||||||||+++++++|+++|+|+++++|.++++ ++|+++.++|++...+.+++++...
T Consensus 28 C~~EpIh~~g~IQp~G~Ll~~~~~~~~i~~~S~N~~~~lg~~~~~----------llG~~l~~ll~~~~~~~l~~~l~~~ 97 (337)
T 2ool_A 28 CDREPIHIPGAIQPHGYLFVVSETDLRIASVSANVEDLLRQPPAS----------LLNVPIAHYLTAASAARLTHALHGG 97 (337)
T ss_dssp GGGSCTTCCSEECTTSEEEEECTTTCBEEEEETTHHHHHSSCGGG----------GTTCBGGGGBCHHHHHHHHHHHCC-
T ss_pred HCCCCCCCCCCCCCCEEEEEEECCCCEEEEEEHHHHHHHCCCHHH----------HCCCCHHHHCCHHHHHHHHHHHHCC
T ss_conf 443767688866787799999889987999964599887929799----------8399878976989999999997437
Q ss_pred CCCCCCCEEEEECC--CCCEEEEEEEECCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf 87667853684038--9960699996029959999743699999740466766899999999986049999799999999
Q 001564 149 EVSLLNPILVHCKT--SGKPFYAIVHRVTGSLIIDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSGSMERLCDTM 226 (1052)
Q Consensus 149 ~~~~~~~~~~~~~~--~~~~~~~~~h~~~~~~~ie~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~ 226 (1052)
.....+|+.+++.. .+++|++++||+++.+|+||||..+... ..+.++++.+++.||++ +.+++++|+++
T Consensus 98 ~~~~~~p~~~~~~~~~~~~~f~~~~Hr~~~~li~ElE~~~~~~~------~~~~~~ll~~i~~~Ir~--sl~l~~il~~t 169 (337)
T 2ool_A 98 DPAAINPIRLDVVTPDGERAFNGILHRHDSIVILELEPRDESRY------TNEFFRSVRVAIRRLQT--AADLPTACWIA 169 (337)
T ss_dssp ---CCCSEEEEEEETTEEEEEEEEEEEETTEEEEEEECCCCCSC------HHHHHHHHHHHHHHHHT--CCSHHHHHHHH
T ss_pred CCCCCCCEEEEEECCCCCEEEEEEEEECCCEEEEEEEECCCCHH------HHHHHHHHHHHHHHHHH--CCCHHHHHHHH
T ss_conf 85546757999841689807999999729849999876566310------67899999999999986--27898999999
Q ss_pred HHHHHHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCCEEEC--C
Q ss_conf 99999531898799985348998239997226999774599779999309999989838905983279974110218--9
Q 001564 227 IQEVFELTGYDRVMAYKFHEDDHGEVVSEITKSGLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRARHVKVLQD--E 304 (1052)
Q Consensus 227 v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~~~~~~lG~~~pa~dip~~ar~ly~~n~~r~i~D~~~~~v~l~~~--~ 304 (1052)
|++||++|||||||||||++||+|+||||++.++|+||||+|||++|||+++|++|++|++|+|+|+++.|+|+++. +
T Consensus 170 v~evr~ll~~DRV~IYrF~~d~~G~VvaEs~~~~~~s~lGl~~p~~dip~~ar~ly~~~~vr~I~Di~~~~v~~~~~~~~ 249 (337)
T 2ool_A 170 ASEVRRITGFDRIKVYQFAADWSGQVIAEDRDSGIPSLLDFHFPSSDIPAQSRALYTINPVRIIPDIGYRPSPLVPDINP 249 (337)
T ss_dssp HHHHHHHHCCSEEEEEEECTTSCEEEEEEEECTTCCCCTTCEECGGGSCHHHHHHHHHSCEEEESCTTCCCEEEESCCCT
T ss_pred HHHHHHHHCCCEEEEEEECCCCCEEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCCCCCCCCC
T ss_conf 99999986778368999738998899999856787121489789552679999999849879997168885340046662
Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCHHHHHHH
Q ss_conf 99985444576434899458999983354306899999827854478887556986036998423899989921699999
Q 001564 305 KLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVCHNTTPRFVPFPLRYACE 384 (1052)
Q Consensus 305 ~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~chh~~pr~~~~~~r~~~~ 384 (1052)
.+++||||++|+||++||||++||+||||+|||+|||+++ ++|||||+||||+||+|++++|.+|+
T Consensus 250 ~~~~~ldl~~~~lr~~sp~h~eyL~nm~v~AsLvvpI~~~--------------~~LWGLl~~Hh~~pR~w~~~e~~~~e 315 (337)
T 2ool_A 250 RLGGPIDLSFSVLRSVSPTHLEYMVNMGMHAAMSISIVRD--------------NRLWGMISCHNLTPRFVSYEVRQACE 315 (337)
T ss_dssp TTCSSCCCTTCTTBCCCHHHHHHHHHHTCCEEEEEEEEET--------------TEEEEEEEEEESSCCCCCHHHHHHHH
T ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCEEEEEEEC--------------CEEEEEEEEECCCCCCCCHHHHHHHH
T ss_conf 3478755333223579989999999739622189878989--------------96689999762888789999999999
Q ss_pred HHHHHHHHHHHHHHH
Q ss_conf 999999999999999
Q 001564 385 FLAQVFAIHVNKELE 399 (1052)
Q Consensus 385 ~l~~~~~~~~~~~~~ 399 (1052)
++++++|++|++...
T Consensus 316 ~la~~l~iai~q~e~ 330 (337)
T 2ool_A 316 LIAQVLTWQIGVLEE 330 (337)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
T ss_conf 999999999999999
No 7
>4glq_A Methyl-accepting chemotaxis protein; chromophore, phytochrome, cyanobacteriochrome, phycoviolobil bilin, BILI-protein; HET: PVN; 1.77A {Thermosynechococcus elongatus} PDB: 4fof_A*
Probab=1.00 E-value=1 Score=263.77 Aligned_cols=153 Identities=20% Similarity=0.272 Sum_probs=143.8
Q ss_pred HHHHHCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCE
Q ss_conf 99860499997999999999999953189879998534899823999722699977459977999930999998983890
Q 001564 208 ITRLQSLPSGSMERLCDTMIQEVFELTGYDRVMAYKFHEDDHGEVVSEITKSGLEPYLGLHYPATDIPQAARFLFMKNKV 287 (1052)
Q Consensus 208 ~~~l~~~~~~~~~~l~~~~v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~~~~~~lG~~~pa~dip~~ar~ly~~n~~ 287 (1052)
..+|++ +.|++++++++|+++|+++|+||||||+|++||+|+|+||++.++++|++|++||++|||.+++++|.++++
T Consensus 3 a~~Ir~--sldl~~il~~~v~~v~~~l~~DRv~Iy~f~~d~~g~vvaE~~~~~~~s~lg~~~~~~~~~~~~~~~~~~g~~ 80 (171)
T 4glq_A 3 AVQLSE--LRDRQAIFETLVAKGRELLACDRVIVYAFDDNYVGTVVAESVAEGWPQARDQVIEDPCFREHWVEAYRQGRI 80 (171)
T ss_dssp -----C--TTHHHHHHHHHHHHHHHHHTCSEEEEEEECTTCCEEEEEEEECTTSCCCTTCEECCTHHHHHTHHHHHTTCC
T ss_pred HHHHHH--CCCHHHHHHHHHHHHHHHHCCCEEEEEEEECCCCEEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHCCCE
T ss_conf 788762--499999999999999999889969999991899859999885789852028966861028999999981997
Q ss_pred EEEECCCCCCCCEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEE
Q ss_conf 59832799741102189999854445764348994589999833543068999998278544788875569860369984
Q 001564 288 RMIVDCRARHVKVLQDEKLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVC 367 (1052)
Q Consensus 288 r~i~D~~~~~v~l~~~~~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~c 367 (1052)
+.|+|++.. +.+|||.+||++|||+|+|++||+++ |+|||+|+|
T Consensus 81 ~~I~Dv~~~----------------------~~~~~~~~~l~~~~v~S~L~vPi~~~--------------~~l~GlL~~ 124 (171)
T 4glq_A 81 QATTDIFKA----------------------GLTECHLNQLRPLKVRANLVVPMVID--------------DQLFGLLIA 124 (171)
T ss_dssp EEESCGGGT----------------------TCCHHHHHHHGGGTEEEEEEEEEEET--------------TEEEEEEEE
T ss_pred EEECCCCCC----------------------CCCHHHHHHHHHCCCCEEEEEEEEEC--------------CEEEEEEEE
T ss_conf 998386767----------------------79999999998569747999988889--------------988999999
Q ss_pred ECC-CCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 238-9998992169999999999999999999
Q 001564 368 HNT-TPRFVPFPLRYACEFLAQVFAIHVNKEL 398 (1052)
Q Consensus 368 hh~-~pr~~~~~~r~~~~~l~~~~~~~~~~~~ 398 (1052)
||| +||.|+..++..++.++..+++.|.+..
T Consensus 125 ~~~~~~r~w~~~ei~ll~~lA~ql~iAi~qa~ 156 (171)
T 4glq_A 125 HQASEPRQWQEIEIDQFSELASTGSLVLERLH 156 (171)
T ss_dssp EEESSCCCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred EECCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 80799998999999999999999999999999
No 8
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transfe two-component regulatory system; 3.80A {Thermotoga maritima}
Probab=1.00 E-value=1 Score=238.38 Aligned_cols=276 Identities=18% Similarity=0.174 Sum_probs=213.7
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEECHHHHHHHCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHH
Q ss_conf 98789999999909999999721227888610223678998099948895453445562470234301462567866999
Q 001564 741 FTRIEGDYKAIVQNPNPLIPPIFGSDEFGWCCEWNPAMVKLTGWKREEVIDKLLLAEVFGTNMACCRLKNQEAFVNLGIV 820 (1052)
Q Consensus 741 L~~se~~lr~ile~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eeliG~~l~~~~f~~~~~~~~l~~~e~~~~~~~~ 820 (1052)
+++++.+++.++++++ ++|+++|.+|++++||+++++++||++++++|+++.. +.+++.. ...
T Consensus 3 l~~~~~~~~~i~~~~~---~~i~~~d~~g~i~~~N~a~~~l~G~~~~e~~G~~~~~-----------~~~~~~~---~~~ 65 (349)
T 3a0r_A 3 VEHLRNFSESILESLE---TAIITLSKDGRITEWNKKAEQLFGLKKENVLGRRLKD-----------LPDFEEI---GSV 65 (349)
T ss_dssp ------CCCSSGGGSS---SEEEEEESSSBCSCBCHHHHHHHSCCSTTTTTCBSTT-----------STTTTHH---HHH
T ss_pred HHHHHHHHHHHHHHHC---CEEEEECCCCCEEEEHHHHHHHHCCCHHHHCCCCHHH-----------CCCHHHH---HHH
T ss_conf 6899999999996110---7399998999898437799999689989985957888-----------8676677---799
Q ss_pred HHHHHCCCCCCEEEEEEECCCCCEEEEEEEEEEEECCCCCE-EEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 98661399962256887804996999999965754799998-99962047899999999999999999999999999998
Q 001564 821 LNKAMSGQDPEKVPFGFFARNGKYAECLLCVNKKLDREGAV-TGVFCFLQLASHELQQALHVQRLSEQTALKRLKALAYT 899 (1052)
Q Consensus 821 l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~i-~g~i~~~~DITe~k~~e~elq~~ae~~~~~k~~~la~i 899 (1052)
.......+...... ...+..+|+.+...|+.+.+|.. .|++++++|||++++.+.++++. +....+..+++.+
T Consensus 66 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~DiTe~~~~e~~~~~~--~~~~~~~~~~~~i 139 (349)
T 3a0r_A 66 AESVFENKEPVFLN----FYKFGERYFNIRFSPFRNAKTQLLEGVIITIDDVTELYKYEEERKRR--ERLSILGEMTARV 139 (349)
T ss_dssp HHHHHHHCCCCEEE----CCCBTTBCCEEEEEEECCTTTTSSCEEEEEEECCSTTTTTTTTTTHH--HHHHHHHHHHHHH
T ss_pred HHHHHHCCCCEEEC----CCCCCCEEEEEEEEEEECCCCCEEEEEEEEEEECHHHHHHHHHHHHH--HHHHHHHHHHHHH
T ss_conf 99998458853312----30147368989999887178865668999987205899999999999--9999999999887
Q ss_pred HHHHHHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHHHHHHHHHHH-CCCCCCCCCCEEEEEEEEEHHHHHHHHHHHH
Q ss_conf 9986667999999999881899-9999999999999999999999722-1542212592012768751999999999999
Q 001564 900 KRQIRNPLSGIIFSRKMMEGTE-LGAEQKRLLHTSAQCQRQLHKILDD-SDLDSIIDGYLDLEMVEFTLNEVLVASISQV 977 (1052)
Q Consensus 900 sHEirnPL~~I~~~~~lL~~~~-l~~~~~~~l~~i~~~~~rl~~lI~d-Ldls~ie~g~~~~~~~~~~L~~ii~~~~~~~ 977 (1052)
+||+||||++|.++++++.... .+++..++++.+.....++..++++ +++++. .......++++.++++.++..+
T Consensus 140 ~Helr~pL~~i~~~~~~l~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~~~---~~~~~~~~~~l~~~~~~~~~~~ 216 (349)
T 3a0r_A 140 AHEIRNPITIIGGFIMRMKKHLDDPETLKKYINIITNELSRLETIVKEILEYSKE---RQVLEFTEFNLNELIREVYVLF 216 (349)
T ss_dssp HHHHHHHHHHHHHHHHHHTTSCSCSSCTTHHHHHHHHHHHHHHHHHHHHHHHHHC---C-CEEEEEEEHHHHHHHHHHHH
T ss_pred HHHHCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---CCCCCCCCCCHHHHHHHHHHHH
T ss_conf 8876464999999999998630691899999999999999999999999998377---5556774257999999999999
Q ss_pred HHHCCCCCCEEEEEECCCCCCEEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCEEEEEEEE
Q ss_conf 72301357199955058776126997388799999999986701258998699999972575798448999999
Q 001564 978 MMKSNAKGIRIVNETAEQIMSETLYGDSIRLQQVLADFLSISINFVPNGGQLMVSSSLTKDQLGQSVHLAYLEL 1051 (1052)
Q Consensus 978 ~~~~~~~~i~i~~~~~~~lp~~~v~~D~~~L~QVL~NLL~NAik~~~~~g~I~I~v~~~~~~~~~~~~~v~lev 1051 (1052)
...+..+++.+.++.++..+ .+.+|+..|.|||.|||.||+||++++|.|.|++....+ .+.++|
T Consensus 217 ~~~~~~~~i~~~~~~~~~~~--~~~~d~~~l~~vl~nLl~NA~k~~~~~~~i~i~~~~~~~-------~~~i~v 281 (349)
T 3a0r_A 217 EEKIRKMNIDFCFETDNEDL--RVEADRTRIKQVLINLVQNAIEATGENGKIKITSEDMYT-------KVRVSV 281 (349)
T ss_dssp HHHHTTTTCCCEEEESCSCC--EEEECHHHHHHHHHHHHTHHHHTTCTTCCEEEEEEEETT-------EEEEEE
T ss_pred HHHHHHCCCEEEEECCCCCC--EEEECHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCC-------EEEEEE
T ss_conf 99999769689995488884--598689999999999999999865579779999995598-------899999
No 9
>2k2n_A Sensor protein, SYB-CPH1(GAF); phytochrome, GAF domain, phycocyanobilin, PCB, bacteriophytochrome, cyanobacterial phytochrome, kinase; HET: CYC; NMR {Synechococcus SP} SCOP: d.110.2.1 PDB: 2kli_A* 2koi_A*
Probab=1.00 E-value=1 Score=222.68 Aligned_cols=165 Identities=33% Similarity=0.562 Sum_probs=155.1
Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCEEEEEECCC-CCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCC
Q ss_conf 99999999999995318987999853489982399972269-99774599779999309999989838905983279974
Q 001564 219 MERLCDTMIQEVFELTGYDRVMAYKFHEDDHGEVVSEITKS-GLEPYLGLHYPATDIPQAARFLFMKNKVRMIVDCRARH 297 (1052)
Q Consensus 219 ~~~l~~~~v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~-~~~~~lG~~~pa~dip~~ar~ly~~n~~r~i~D~~~~~ 297 (1052)
++++++++++++++++|+|||+||+|++|++|++++|++.+ ++++++|++||++|+|.+++.+|.++++|+|.|++..+
T Consensus 1 l~~il~~~~~~~~~~l~~dr~~i~~~~~~~~~~~~~e~~~~~~~~~~~g~~~~~~~~p~~~~~~~~~~~~~~i~d~~~~~ 80 (172)
T 2k2n_A 1 LDQILRATVEEVRAFLGTDRVKVYRFDPEGHGTVVAEARGGERLPSLLGLTFPAGDIPEEARRLFRLAQVRVIVDVEAQS 80 (172)
T ss_dssp CHHHHHHHHHHHHHHHCCSEEEEEECCTTSCCEEEEEEESSTTSCCCTTCBCCTTCSCSHHHHHHHHTCCEECCCGGGCC
T ss_pred CHHHHHHHHHHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHCCEEEEEECCCCC
T ss_conf 97899999999999868986999998799987899999068887421388568443859999999868969995056666
Q ss_pred CCEEE--CCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCC
Q ss_conf 11021--8999985444576434899458999983354306899999827854478887556986036998423899989
Q 001564 298 VKVLQ--DEKLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLPQKRKRLWGLVVCHNTTPRFV 375 (1052)
Q Consensus 298 v~l~~--~~~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~~~~~~LWGLi~chh~~pr~~ 375 (1052)
+++++ ...+++|+.+..+..++.+|||.+|++++|++|.|++||+.+ |++||+|.|||++||.|
T Consensus 81 ~g~v~~~~~~~~~~~~i~d~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~--------------~~l~G~l~~~~~~~~~~ 146 (172)
T 2k2n_A 81 RSISQPESWGLSARVPLGEPLQRPVDPCHVHYLKSMGVASSLVVPLMHH--------------QELWGLLVSHHAEPRPY 146 (172)
T ss_dssp CCCSCCCSCCCSSCCCCCSSSSCCCCHHHHHHHHTTTCSEEEECCCSCS--------------SCCCEEEEEEECSCCCC
T ss_pred CCCCCCCCCCCCCCEECCCHHHCCCCHHHHHHHHHCCCEEEEEEEEEEC--------------CEEEEEEEEEECCCCCC
T ss_conf 4433444434587244142320679878999998569809999999899--------------99999999986799999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9216999999999999999999
Q 001564 376 PFPLRYACEFLAQVFAIHVNKE 397 (1052)
Q Consensus 376 ~~~~r~~~~~l~~~~~~~~~~~ 397 (1052)
+..++..++.++.++++.|...
T Consensus 147 ~~~e~~~l~~la~~~a~ai~~a 168 (172)
T 2k2n_A 147 SQEELQVVQLLADQVSIAIAQA 168 (172)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999999999999986
No 10
>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain, phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB: 2lb9_A*
Probab=1.00 E-value=1 Score=217.93 Aligned_cols=183 Identities=31% Similarity=0.516 Sum_probs=167.1
Q ss_pred HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCEEEEEECCC-CCCCCCCCCCCCCCCHHH
Q ss_conf 6899999999986049999799999999999995318987999853489982399972269-997745997799993099
Q 001564 199 QSYKLAAKAITRLQSLPSGSMERLCDTMIQEVFELTGYDRVMAYKFHEDDHGEVVSEITKS-GLEPYLGLHYPATDIPQA 277 (1052)
Q Consensus 199 ~~~~~~~~~~~~l~~~~~~~~~~l~~~~v~~vr~~~g~dRVmvY~F~~d~~G~ViaE~~~~-~~~~~lG~~~pa~dip~~ 277 (1052)
+...++.....++.+ +.+++++++++++++++++|+|||+||.|++|++|++++|+..+ ++++++|.+||++|+|.+
T Consensus 13 ~~~~~L~~i~~~i~~--~~dl~~il~~~~~~l~~~l~~dr~~i~~~d~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~p~~ 90 (208)
T 2lb5_A 13 SRDALINRITHQIRQ--SLELDQILRATVEEVRAFLGTDRVKVYRFDPEGHGTVVAEARGGERLPSLLGLTFPAGDIPEE 90 (208)
T ss_dssp --------------------CHHHHHHHHHHHHHHHCCSEEEEEECCTTSEEEEEEEEESSCCSCCCTTCEEEGGGCCSH
T ss_pred HHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCHHHCCHH
T ss_conf 999999999999997--199999999999999999799879999985899989999874699885202785770127299
Q ss_pred HHHHHHHCCEEEEECCCCCCCCEEE--CCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCC
Q ss_conf 9998983890598327997411021--89999854445764348994589999833543068999998278544788875
Q 001564 278 ARFLFMKNKVRMIVDCRARHVKVLQ--DEKLPFDLTLCGSTLRAPHSCHLQYMENMNSIASLVMAVVVNDEEEEGDNTLP 355 (1052)
Q Consensus 278 ar~ly~~n~~r~i~D~~~~~v~l~~--~~~~~~~ldl~~~~lr~~sp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~~~~ 355 (1052)
++.+|..+++|+|+|+...++++++ ...+++|+++.....++.+|||.+|++++|++|.|++||+.+
T Consensus 91 ~~~~~~~~~~~~i~d~~~~~~~~~~~~~~~~~~~i~i~d~~~~~~~~~~~~~l~~~~~~S~l~vPi~~~----------- 159 (208)
T 2lb5_A 91 ARRLFRLAQVRVIVDVEAQSRSISQPESWGLSARVPLGEPLQRPVDPCHVHYLKSMGVASSLVVPLMHH----------- 159 (208)
T ss_dssp HHHHHHHTCCCEECCGGGCCCCCCCSSCCCCCSCCCCCSCSSCCCCHHHHHHHHHTTCSEEEEEEEEET-----------
T ss_pred HHHHHHHCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCHHHHHHHHHCCCCEEEEEEEEEC-----------
T ss_conf 999998678389941455554445443323356433430321368979999999669858999989889-----------
Q ss_pred CCCCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 569860369984238999899216999999999999999999
Q 001564 356 QKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKE 397 (1052)
Q Consensus 356 ~~~~~LWGLi~chh~~pr~~~~~~r~~~~~l~~~~~~~~~~~ 397 (1052)
|++||+|.|||++||.|+...+..++.++..+++.|...
T Consensus 160 ---~~l~GvL~~~~~~~~~~~~~e~~ll~~la~~~a~ai~~a 198 (208)
T 2lb5_A 160 ---QELWGLLVSHHAEPRPYSQEELQVVQLLADQVSIAIAQA 198 (208)
T ss_dssp ---TEEEEEEEEEESCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred ---CEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf ---975899998607898999999999999999999999999
Done!