RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|255764476|ref|YP_003065238.2| two-component sensor histidine kinase protein [Candidatus Liberibacter asiaticus str. psy62] (792 letters) >2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl MAD, two-component systems, transferase; HET: ADP; 1.9A {Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB: 3dge_A* Length = 258 Score = 176 bits (448), Expect = 2e-44 Identities = 65/252 (25%), Positives = 120/252 (47%), Gaps = 14/252 (5%) Query: 544 NVTDSVRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLN 603 NVT+S ER L++ D +K F+ ++S+ELR+PLT I + + + S Sbjct: 3 NVTESKELER--------LKRIDRMKTEFIANISHELRTPLTAIKAYAETIYNSLGELDL 54 Query: 604 SKQSQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMH 663 S +++E I S L NL+N++LD + ++ +++N + L DL+ +I Sbjct: 55 STLKEFLEVIIDQSNHLENLLNELLDFSRLERKSLQINREKVDLCDLVESAVNAIKEFAS 114 Query: 664 ENNIRIKVISDGKLGSFV-ADRQRLLQIFSKILSNAMDFSSKGSTVI---LKAARDNGDF 719 +N+ + S+ D R+ Q+ +L+N + +S K + + +G Sbjct: 115 SHNVNVLFESNVPCPVEAYIDPTRIRQVLLNLLNNGVKYSKKDAPDKYVKVILDEKDGGV 174 Query: 720 IFSVKNNGSSIPEDMCKSVFNRF--VSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSS 777 + V++NG IP+ +F +F V ++ + G GLGL+I + + LHGG + + S Sbjct: 175 LIIVEDNGIGIPDHAKDRIFEQFYRVDSSLTYEVPGTGLGLAITKEIVELHGGRIWVESE 234 Query: 778 DEGVTTINCRIP 789 + IP Sbjct: 235 VGKGSRFFVWIP 246 >3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transferase, two-component regulatory system; 3.80A {Thermotoga maritima} Length = 349 Score = 171 bits (434), Expect = 6e-43 Identities = 75/352 (21%), Positives = 144/352 (40%), Gaps = 24/352 (6%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWDL 499 ++ L + DGRI N L+ ++ + G ++++ ++ Sbjct: 14 LESLETAIITLSKDGRITEWNKKAEQLFGLKKENVL-GRRLKDLPD-----------FEE 61 Query: 500 FAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQTM-LTFVNVTDSVRAERALTEK 558 ++ S + ++ + + P NA+T L V +T E E+ Sbjct: 62 IGSVAESVFENKEPVFLNFYKFGERYFNIRFSPFRNAKTQLLEGVIITIDDVTELYKYEE 121 Query: 559 NEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASST 618 R+ I V++E+R+P+T I GF +K +Y+ I+ + Sbjct: 122 ERKRRERLSILGEMTARVAHEIRNPITIIGGFIMRMKKHLDDP--ETLKKYINIITNELS 179 Query: 619 ILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLG 678 L +V +IL+ + L ++ LN+L+ EV K+ + NI +D + Sbjct: 180 RLETIVKEILEYSKER---QVLEFTEFNLNELIREVYVLFEEKIRKMNIDFCFETDNEDL 236 Query: 679 SFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSV 738 ADR R+ Q+ ++ NA++ + + + + + SV N+G IPE++ + + Sbjct: 237 RVEADRTRIKQVLINLVQNAIEATGENGKIKITSEDMYTKVRVSVWNSGPPIPEELKEKI 296 Query: 739 FNRFVSNAHRGQRRGVGLGLSIVESFI-NLHGGHVSISSSDEGVTTINCRIP 789 F+ F + +G GLGLSI I + HGG + + + G IP Sbjct: 297 FSPFF----TTKTQGTGLGLSICRKIIEDEHGGKIWTENRENG-VVFIFEIP 343 Score = 31.5 bits (71), Expect = 0.72 Identities = 20/91 (21%), Positives = 36/91 (39%), Gaps = 7/91 (7%) Query: 311 ILHNLTVAIAIFDQNRYLQFHNRSFVELWEIDLAFL-----ATNPSNDELLEFLRSA--N 363 IL +L AI ++ + N+ +L+ + + P +E+ S N Sbjct: 13 ILESLETAIITLSKDGRITEWNKKAEQLFGLKKENVLGRRLKDLPDFEEIGSVAESVFEN 72 Query: 364 KLPEQLNWKTWKENIFSVYKSSETHKDTWHL 394 K P LN+ + E F++ S + T L Sbjct: 73 KEPVFLNFYKFGERYFNIRFSPFRNAKTQLL 103 >3jz3_A Sensor protein QSEC; helix-turn-helix, kinase domain, ATP-binding, cell inner MEM cell membrane, kinase, membrane, nucleotide-binding; 2.50A {Escherichia coli} Length = 222 Score = 158 bits (401), Expect = 5e-39 Identities = 51/213 (23%), Positives = 91/213 (42%), Gaps = 7/213 (3%) Query: 572 FVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDLA 631 F ++ELRSPLT + T++ + S + + + + + LV+ +L L+ Sbjct: 5 FTSDAAHELRSPLTALKVQTEVAQLSDD--DPQARKKALLQLHSGIDRATRLVDQLLTLS 62 Query: 632 TVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIF 691 +D+ + + I L DLL I + I +++ + L + Sbjct: 63 RLDSLDNLQDVAEIPLEDLLQSSVMDIYHTAQQAKIDVRLTLNAHSIKRTGQPLLLSLLV 122 Query: 692 SKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQR 751 +L NA+ +S +GS V + DN F V++NG + + + RF Sbjct: 123 RNLLDNAVRYSPQGSVVDVTLNADN----FIVRDNGPGVTPEALARIGERFYR-PPGQTA 177 Query: 752 RGVGLGLSIVESFINLHGGHVSISSSDEGVTTI 784 G GLGLSIV+ LHG +V ++++G Sbjct: 178 TGSGLGLSIVQRIAKLHGMNVEFGNAEQGGFEA 210 >3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I two-component histidine kinase, phosphoprotein; HET: ADP; 2.03A {Geobacillus stearothermophilus} Length = 244 Score = 148 bits (376), Expect = 4e-36 Identities = 45/234 (19%), Positives = 92/234 (39%), Gaps = 18/234 (7%) Query: 556 TEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISA 615 EK EA+ +S+E+R+PLT GF L++ L + K+ QY Sbjct: 8 AEKMEAVTH-------LAASISHEIRNPLTAARGFIQLIEEQPLAA--DKRRQYARIAIE 58 Query: 616 SSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDG 675 ++ D L A + + + + V + + + + I+ Sbjct: 59 ELDRAEAIITDYLTFAKPAPETPEK----LNVKLEIERVIDILRPLANMSCVDIQA--TL 112 Query: 676 KLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMC 735 S + +R++ Q ++ NA++ G T+ + + DNG + + + G + ++ Sbjct: 113 APFSVIGEREKFRQCLLNVMKNAIEAMPNGGTLQVYVSIDNGRVLIRIADTGVGMTKEQL 172 Query: 736 KSVFNRFVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 + + + + G GLG+ +V I G + I S TT++ +P Sbjct: 173 ERLGEPYFTTKGVK---GTGLGMMVVYRIIESMNGTIRIESEIHKGTTVSIYLP 223 >1gkz_A [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase; transferase, mitochondrial protein kinase, potassium; HET: ADP; 2.2A {Rattus norvegicus} SCOP: a.29.5.1 d.122.1.4 PDB: 1gjv_A 1gkx_A* Length = 388 Score = 134 bits (338), Expect = 7e-32 Identities = 31/280 (11%), Positives = 78/280 (27%), Gaps = 39/280 (13%) Query: 542 FVNVTDSVRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGS 601 ++ + + ++ + + V+ + + + +T + + K Sbjct: 99 YIRAFQKLTDFPPIKDQADEAQYCQ-----LVRQLLDDHKDVVTLLAEGLRESR--KHIE 151 Query: 602 LNSKQSQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATK 661 +++ S + L L L + + + + ++ + Sbjct: 152 DEKLVRYFLDKTLTSRLGIRMLATHHLALHEDKPDFVGIICTRLSPKKIIEKWVDFARRL 211 Query: 662 MHENNIRIKVI--SDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGS--------TVILK 711 + + F L I ++L NAM + + V++ Sbjct: 212 CEHKYGNAPRVRINGHVAARFPFIPMPLDYILPELLKNAMRATMESHLDTPYNVPDVVIT 271 Query: 712 AARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRR------------------- 752 A ++ D I + + G I V + + A + Sbjct: 272 IANNDVDLIIRISDRGGGIAHKDLDRVMDYHFTTAEASTQDPRISPLFGHLDMHSGGQSG 331 Query: 753 ---GVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 G G GL ++ GG + + S T + R+ Sbjct: 332 PMHGFGFGLPTSRAYAEYLGGSLQLQSLQGIGTDVYLRLR 371 >1id0_A PHOQ histidine kinase; PHOQ/PHOP, signal transduction, transferase; HET: ANP; 1.60A {Escherichia coli} SCOP: d.122.1.3 PDB: 3cgz_A 3cgy_A Length = 152 Score = 107 bits (270), Expect = 7e-24 Identities = 23/146 (15%), Positives = 57/146 (39%), Gaps = 5/146 (3%) Query: 647 LNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGS 706 + LL+ + ++ + I + ++ SFV ++ +++ +L NA + + Sbjct: 6 VAPLLDNLTSALNKVYQRKGVNISLDISPEI-SFVGEQNDFVEVMGNVLDNACKYCLEFV 64 Query: 707 TVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFIN 766 + + + + V+++G IP + +F+R R G G+GL++ Sbjct: 65 EISAR--QTDEHLYIVVEDDGPGIPLSKREVIFDRGQR--VDTLRPGQGVGLAVAREITE 120 Query: 767 LHGGHVSISSSDEGVTTINCRIPSKE 792 + G + S G + + Sbjct: 121 QYEGKIVAGESMLGGARMEVIFGRQH 146 >1ysr_A Sensor-type histidine kinase PRRB; ATP-binding domain, structural genomics, mycobacterium tuberculosis structural proteomics project; 1.78A {Mycobacterium tuberculosis} SCOP: d.122.1.3 PDB: 1ys3_A Length = 150 Score = 102 bits (256), Expect = 3e-22 Identities = 36/143 (25%), Positives = 56/143 (39%), Gaps = 5/143 (3%) Query: 647 LNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGS 706 + DLL+ A + ++ + V L ++NA+ Sbjct: 10 ITDLLDRAAHDAARIYPDLDVSLVP---SPTCIIVGLPAGLRLAVDNAIANAVKHGGAT- 65 Query: 707 TVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFIN 766 V L A ++ +NGS +PE + VF RF S G GLGL++V Sbjct: 66 LVQLSAVSSRAGVEIAIDDNGSGVPEGERQVVFERF-SRGSTASHSGSGLGLALVAQQAQ 124 Query: 767 LHGGHVSISSSDEGVTTINCRIP 789 LHGG S+ +S G + R+P Sbjct: 125 LHGGTASLENSPLGGARLVLRLP 147 >2e0a_A Pyruvate dehydrogenase kinase isozyme 4; PDK4, ATP-binding, structural genomics, NPPSFA; HET: ANP; 1.86A {Homo sapiens} PDB: 2zdx_A* 2zdy_A* 2zkj_A* 3d2r_A* Length = 394 Score = 102 bits (254), Expect = 4e-22 Identities = 31/273 (11%), Positives = 82/273 (30%), Gaps = 32/273 (11%) Query: 549 VRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTD-LLKTSKLGSLNSKQS 607 +++ L E +E + + FV + + +++ +++ + Sbjct: 76 IQSLMDLVEFHEKSPDDQKALSDFVDTLIKVRNRHHNVVPTMAQGIIEYKDACTVDPVTN 135 Query: 608 QYVEY-----------ISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQ 656 Q ++Y + + +D G + N + + E + Sbjct: 136 QNLQYFLDRFYMNRISTRMLMNQHILIFSDSQTGNPSHIGSIDPNCDVVAVVQDAFECSR 195 Query: 657 SIATKMHENNIRIKVI-----SDGKLGSFVADRQRLLQIFSKILSNAMDFSSKG------ 705 + + + ++ +K+ + V L + ++ NAM + + Sbjct: 196 MLCDQYYLSSPELKLTQVNGKFPDQPIHIVYVPSHLHHMLFELFKNAMRATVEHQENQPS 255 Query: 706 -STVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRR--------GVGL 756 + + + D + + G +P + +F+ S A G G Sbjct: 256 LTPIEVIVVLGKEDLTIKISDRGGGVPLRIIDRLFSYTYSTAPTPVMDNSRNAPLAGFGY 315 Query: 757 GLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 GL I + G +++ S T + Sbjct: 316 GLPISRLYAKYFQGDLNLYSLSGYGTDAIIYLK 348 >3a0y_A Sensor protein; ATP-LID, kinase, phosphoprotein, transferase, two-component regulatory system; 1.57A {Thermotoga maritima} PDB: 3a0t_A* 3a0x_A 3a0w_A 3a0z_A Length = 152 Score = 98.5 bits (245), Expect = 6e-21 Identities = 39/151 (25%), Positives = 72/151 (47%), Gaps = 6/151 (3%) Query: 640 LNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAM 699 + ++ LN+L+ EV K+ + NI +D + ADR R+ Q+ ++ NA+ Sbjct: 1 MEFTEFNLNELIREVYVLFEEKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLVQNAI 60 Query: 700 DFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLS 759 + + + + + + SV N+G IPE++ + +F+ F + + +G GLGLS Sbjct: 61 EATGENGKIKITSEDMYTKVRVSVWNSGPPIPEELKEKIFSPFFTT----KTQGTGLGLS 116 Query: 760 IVESFI-NLHGGHVSISSSDEGVTTINCRIP 789 I I + HGG + + + G IP Sbjct: 117 ICRKIIEDEHGGKIWTENRENG-VVFIFEIP 146 >1bxd_A ENVZ(290-450), protein (osmolarity sensor protein (ENVZ)); histidine kinase, osmosensor, His-Asp phosphorelay system, signal transduction; HET: ANP; NMR {Escherichia coli} SCOP: d.122.1.3 Length = 161 Score = 98.0 bits (244), Expect = 7e-21 Identities = 29/151 (19%), Positives = 60/151 (39%), Gaps = 6/151 (3%) Query: 639 KLNYSTIVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNA 698 ++ LN +L EV + + I+ + + + ++ NA Sbjct: 4 EMPMEMADLNAVLGEVIAAESGY----EREIETALYPGSIEVKMHPLSIKRAVANMVVNA 59 Query: 699 MDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGL 758 + + + + + F V+++G I + K +F FV G GLGL Sbjct: 60 ARYG--NGWIKVSSGTEPNRAWFQVEDDGPGIAPEQRKHLFQPFVRGDSARTISGTGLGL 117 Query: 759 SIVESFINLHGGHVSISSSDEGVTTINCRIP 789 +IV+ ++ H G + + +S+ G +I +P Sbjct: 118 AIVQRIVDNHNGMLELGTSERGGLSIRAWLP 148 >1y8o_A [pyruvate dehydrogenase [lipoamide]] kinase isozyme 3; pyruvate dehydrogenase kinase 3, lipoyl-bearing domain; HET: LPA ADP; 2.48A {Homo sapiens} SCOP: a.29.5.1 d.122.1.4 PDB: 1y8n_A* 1y8p_A* 2pnr_A* 2q8i_A* Length = 419 Score = 97.1 bits (241), Expect = 1e-20 Identities = 36/275 (13%), Positives = 73/275 (26%), Gaps = 34/275 (12%) Query: 549 VRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNII----GFTDLLKTSKLGSLNS 604 +++ L E + ++ ++F+Q + + G + + S Sbjct: 98 MQSFLELLEYENKSPEDPQVLDNFLQVLIKVRNRHNDVVPTMAQGVIEYKEKFGFDPFIS 157 Query: 605 KQSQ-YVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTI---------VLNDLLNEV 654 Q +++ + L+N L D + + V+ D Sbjct: 158 TNIQYFLDRFYTNRISFRMLINQHTLLFGGDTNPVHPKHIGSIDPTCNVADVVKDAYETA 217 Query: 655 KQSIATKMHE----NNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGS---- 706 K + K V L + ++ N+M + + Sbjct: 218 KMLCEQYYLVAPELEVEEFNAKAPDKPIQVVYVPSHLFHMLFELFKNSMRATVELYEDRK 277 Query: 707 ----TVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRR--------GV 754 V D + + G +P +FN S A R G Sbjct: 278 EGYPAVKTLVTLGKEDLSIKISDLGGGVPLRKIDRLFNYMYSTAPRPSLEPTRAAPLAGF 337 Query: 755 GLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 G GL I + G + + S + T + Sbjct: 338 GYGLPISRLYARYFQGDLKLYSMEGVGTDAVIYLK 372 >2q8g_A [pyruvate dehydrogenase [lipoamide]] kinase isozyme 1; GHKL ATPase/kinase family, pyruvate dehydrogenase complex, mitochondrial kinase; HET: AZX; 1.90A {Homo sapiens} PDB: 2q8f_A* 2q8h_A Length = 407 Score = 93.6 bits (232), Expect = 1e-19 Identities = 37/277 (13%), Positives = 82/277 (29%), Gaps = 37/277 (13%) Query: 549 VRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNII----GFTDLLKTSKLGSLNS 604 +++ + L + + + + F V I G + ++ + + S Sbjct: 86 IQSLQELLDFKDKSAEDAKAIYDFTDTVIRIRNRHNDVIPTMAQGVIEYKESFGVDPVTS 145 Query: 605 KQ-SQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTI-----------VLNDLLN 652 + +++ S + L+N L + I V+ D Sbjct: 146 QNVQYFLDRFYMSRISIRMLLNQHSLLFGGKGKGSPSHRKHIGSINPNCNVLEVIKDGYE 205 Query: 653 EVKQSIATKMHENNIRIK-----VISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGS- 706 ++ + + N+ ++ S G+ V L + ++ NAM + + Sbjct: 206 NARR-LCDLYYINSPELELEELNAKSPGQPIQVVYVPSHLYHMVFELFKNAMRATMEHHA 264 Query: 707 ------TVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRF--------VSNAHRGQRR 752 + + N D + + G +P +FN V + Sbjct: 265 NRGVYPPIQVHVTLGNEDLTVKMSDRGGGVPLRKIDRLFNYMYSTAPRPRVETSRAVPLA 324 Query: 753 GVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 G G GL I + G + + S + T I Sbjct: 325 GFGYGLPISRLYAQYFQGDLKLYSLEGYGTDAVIYIK 361 >2btz_A Pyruvate dehydrogenase kinase isoenzyme 2; GHKL motif regulation, transferase; 2.2A {Homo sapiens} PDB: 2bu2_A* 2bu5_A* 2bu6_A* 2bu7_A* 2bu8_A* 3crk_A* 1jm6_A* 3crl_A* Length = 394 Score = 89.0 bits (220), Expect = 3e-18 Identities = 32/274 (11%), Positives = 80/274 (29%), Gaps = 34/274 (12%) Query: 549 VRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIG----FTDLLKTSKLGSLNS 604 V++ + E + + + F + + + T +++ Sbjct: 76 VQSLLDIMEFLDKDPEDHRTLSQFTDALVTIRNRHNDVVPTMAQGVLEYKDTYGDDPVSN 135 Query: 605 KQ-SQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTI---------VLNDLLNEV 654 + +++ S + L+N + + V+ D + Sbjct: 136 QNIQYFLDRFYLSRISIRMLINQHTLIFDGSTNPAHPKHIGSIDPNCNVSEVVKDAYDMA 195 Query: 655 KQSIATKMHENNIRIKV-----ISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKG---- 705 K + K + + +++ + + V L + ++ NAM + + Sbjct: 196 KL-LCDKYYMASPDLEIQEINAANSKQPIHMVYVPSHLYHMLFELFKNAMRATVESHESS 254 Query: 706 ---STVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRR-------GVG 755 + + A D + + G +P + +F+ S A Q G G Sbjct: 255 LILPPIKVMVALGEEDLSIKMSDRGGGVPLRKIERLFSYMYSTAPTPQPGTGGTPLAGFG 314 Query: 756 LGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 GL I + G + + S + T + Sbjct: 315 YGLPISRLYAKYFQGDLQLFSMEGFGTDAVIYLK 348 >1r62_A Nitrogen regulation protein NR(II); PII, histidine kinase, two component system, transferase; 1.60A {Escherichia coli K12} SCOP: d.122.1.3 Length = 160 Score = 85.5 bits (211), Expect = 4e-17 Identities = 33/157 (21%), Positives = 63/157 (40%), Gaps = 17/157 (10%) Query: 647 LNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGS 706 ++ + V ++ ++ +N+R+ D L D ++ Q+ I+ NA+ Sbjct: 10 IHKVAERVVTLVSMEL-PDNVRLIRDYDPSLPELAHDPDQIEQVLLNIVRNALQALGPEG 68 Query: 707 TVIL-----------KAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVG 755 I+ R V++NG IP + ++F VS + G G Sbjct: 69 GEIILRTRTAFQLTLHGERYRLAARIDVEDNGPGIPPHLQDTLFYPMVSG----REGGTG 124 Query: 756 LGLSIVESFINLHGGHVSISSSDEGVTTINCRIPSKE 792 LGLSI + I+ H G + +S T + +P ++ Sbjct: 125 LGLSIARNLIDQHSGKIEFTSWPGH-TEFSVYLPIRK 160 >1i58_A Chemotaxis protein CHEA; beta-alpha sandwich, signaling protein, transferase; HET: ACP ADP; 1.60A {Thermotoga maritima} SCOP: d.122.1.3 PDB: 1i59_A* 1i5a_A* 1i5b_A* 1i5c_A* 1i5d_A* Length = 189 Score = 59.6 bits (143), Expect = 2e-09 Identities = 26/181 (14%), Positives = 59/181 (32%), Gaps = 38/181 (20%) Query: 647 LNDLLNEVKQSIATKMHENNIRIKVISDG-KLGSFVADRQRLLQIFSKILSNAMDFSSKG 705 ++ + N + + + N + I G + + + +L NA+D + Sbjct: 7 ISFVFNRFPRMVRDLAKKMNKEVNFIMRGEDTELDRTFVEEIGEPLLHLLRNAIDHGIEP 66 Query: 706 S------------TVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVS--------- 744 T+IL A + + + V+++G I ++ Sbjct: 67 KEERIAKGKPPIGTLILSARHEGNNVVIEVEDDGRGIDKEKIIRKAIEKGLIDESKAATL 126 Query: 745 ----------------NAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRI 788 + G G+G+ +V++ + G +SI S + T + R+ Sbjct: 127 SDQEILNFLFVPGFSTKEKVSEVSGRGVGMDVVKNVVESLNGSISIESEKDKGTKVTIRL 186 Query: 789 P 789 P Sbjct: 187 P 187 >1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A* Length = 471 Score = 58.0 bits (140), Expect = 8e-09 Identities = 24/115 (20%), Positives = 41/115 (35%), Gaps = 10/115 (8%) Query: 680 FVADRQRLLQIFSKILSNAMDFSSKGS-----TVILKAARDNGDFI-FSVKNNGSSIPED 733 F + L Q +++ N++D + + + D +V +NG IP Sbjct: 26 FPNPARALYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQ 85 Query: 734 MCKSVFNRF--VSNAHRGQRRG-VGLGLSIVESFINLH-GGHVSISSSDEGVTTI 784 + F R S Q RG GLG+ + +H + I +S I Sbjct: 86 EVPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKRI 140 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 57.3 bits (138), Expect = 1e-08 Identities = 54/334 (16%), Positives = 95/334 (28%), Gaps = 133/334 (39%) Query: 521 LSDSVLEYSIIPLPNAQTMLTFVNVTDSVRAE--RALTEKNEALRKADEIKN------SF 572 LS LE+ + +P A F + ++ + + L E E DE F Sbjct: 11 LSHGSLEHVL-LVPTAS----FFIAS-QLQEQFNKILPEPTEGFAADDEPTTPAELVGKF 64 Query: 573 VQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDLAT 632 + +VS + + + F +L L ++ Y L NDI LA Sbjct: 65 LGYVSSLVEP--SKVGQFDQVLNLC----LTEFENCY----------LEG--NDIHALAA 106 Query: 633 -----VDAGIMKLN------YSTIVLNDLLNEVKQSIATKMH---------ENNIRIKVI 672 D ++K + ++ K+ K E N ++ I Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIM------AKRPF-DKKSNSALFRAVGEGNAQLVAI 159 Query: 673 SDGKLG-----------------SFVAD----RQRLLQIFSKILSNAMDFSSKGSTVI-- 709 G+ G V D L + +A ++G ++ Sbjct: 160 FGGQ-GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW 218 Query: 710 LK--AARDNGDFIFSVKNNGSSIPEDM--------------CKSVFNRFVSNAHRGQRRG 753 L+ + + D++ SIP K + G+ R Sbjct: 219 LENPSNTPDKDYL-------LSIPISCPLIGVIQLAHYVVTAK------LLGFTPGELRS 265 Query: 754 VGLGLSIVESFINLHG--GH-------VSISSSD 778 L G GH V+I+ +D Sbjct: 266 ------------YLKGATGHSQGLVTAVAIAETD 287 Score = 54.2 bits (130), Expect = 1e-07 Identities = 109/656 (16%), Positives = 177/656 (26%), Gaps = 284/656 (43%) Query: 60 SFLSEICDQL-----SKYHSLLT------ENNCLTIVWDGKDETPEI---IGQLHQRIDI 105 FL + + ++ +L EN L +G D I +L Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL----EGND----IHALAAKLL----- 109 Query: 106 PQTDTDLLSFENWLKFHHYIKLSKATEKLRKEGQS--FDLVAETQNDCAIKI------EG 157 + DT L+ + +K ++ A K+ S F V E ++ +G Sbjct: 110 QENDTTLVKTKELIK-NYITARIMAKRPFDKKSNSALFRAVGEGN----AQLVAIFGGQG 164 Query: 158 RVSGSCAF--LRILSLDGIYSELAETTLKC-----KKLS-NHISVFKVLFDSLDFLVW-- 207 F LR L Y L +K +L + KV L+ L W Sbjct: 165 NTDD-Y-FEELR--DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE 220 Query: 208 HRDQAGD---ILWANISYKKNTETEGIVFQKAIGESRKLFKEEIKKRMISSSALEKNFCE 264 + D +L IS IG Sbjct: 221 NPSNTPDKDYLLSIPISCP------------LIG-------------------------- 242 Query: 265 TVSTLEHGNNKSYKIV-RVLN-SFGEAGIAIDVSKEITVNDQLT----HTYEILHNLTVA 318 V L H Y + ++L + GE + L H+ ++ A Sbjct: 243 -VIQLAH-----YVVTAKLLGFTPGE------------LRSYLKGATGHSQGLV----TA 280 Query: 319 IAI--------FDQNRYLQFHNRSFVEL-----WEIDLAFLATN--PS-------NDE-- 354 +AI F + R + + A+ T+ PS N+E Sbjct: 281 VAIAETDSWESFFVS------VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV 334 Query: 355 ---LLEFLRSANKLP-EQLNWKTWKENIFSVYKSSETHKDTW--HLPNGQTLHVIVTSNP 408 +L S + L EQ+ + + + HLP G+ + + + + Sbjct: 335 PSPML----SISNLTQEQV----------------QDYVNKTNSHLPAGKQVEISLVNGA 374 Query: 409 RGGTIWMFENLTVQVDLETKYN---TLVKVQGETIDHLSEGVAVFGPD-GRIKLSN--PA 462 + NL V ++ Y TL K + + G D RI S Sbjct: 375 K--------NLVVSGPPQSLYGLNLTLRKAKAPS-----------GLDQSRIPFSERKLK 415 Query: 463 FRSLWKTEENRLSPGT---HIRNIAATCSRYYNESDGWDLFAAIITSFDDERKSLQGTLE 519 F NR P H S L + Sbjct: 416 F-------SNRFLPVASPFH--------SHL-----------------------LVPASD 437 Query: 520 LLSDSVLEYSI--------IPLPNAQTMLTFVNVTDSVRAERALTEKNEALRKADE---- 567 L++ +++ ++ IP V D T LR Sbjct: 438 LINKDLVKNNVSFNAKDIQIP------------VYD--------TFDGSDLRVLSGSISE 477 Query: 568 --IKNSFVQHVSYE--LRSPLTNIIGFTDLLKTSKLGSLNS--KQSQYVEYISASS 617 + V +E + T+I+ F S LG L K V I A + Sbjct: 478 RIVDCIIRLPVKWETTTQFKATHILDF-GPGGASGLGVLTHRNKDGTGVRVIVAGT 532 Score = 44.5 bits (105), Expect = 9e-05 Identities = 70/318 (22%), Positives = 118/318 (37%), Gaps = 104/318 (32%) Query: 381 VYKSSETHKDTW-----HLPN--GQTLHVIVTSNPRGGTIWMFENLTVQVDLET------ 427 +YK+S+ +D W H + G ++ IV +NP NLT+ E Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNP--------VNLTIHFGGEKGKRIRE 1686 Query: 428 KYNTLVKVQGETIDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATC 487 Y+ ++ ETI DG++K + F+ + N +T Sbjct: 1687 NYSAMIF---ETI-----------VDGKLK-TEKIFKEI---------------NEHSTS 1716 Query: 488 SRYYNESDGWDLFAAIITSFDDERKSLQGTLELLSDSVLE----YSIIPLPNAQTMLTFV 543 + +E L +A T F Q L L+ + E +IP Sbjct: 1717 YTFRSEK---GLLSA--TQFT------QPALTLMEKAAFEDLKSKGLIP----------- 1754 Query: 544 NVTDSVRAERALTEKNEALRKADEIK-NSFVQHVSYELRSPLTNIIGFTDLLKTSKLG-- 600 D+ A +L E AD + S V+ V Y R + D L S G Sbjct: 1755 --ADATFAGHSLGEYAALASLADVMSIESLVEVVFY--RGMTMQVAVPRDELGRSNYGMI 1810 Query: 601 ---------SLNSKQSQY-VEYISASSTILLNLVN-DILDLATVDAGIMK-LNYSTIVLN 648 S + + QY VE + + L+ +VN ++ + V AG ++ L+ T VLN Sbjct: 1811 AINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN 1870 Query: 649 -------DLLNEVKQSIA 659 D++ E+++S++ Sbjct: 1871 FIKLQKIDII-ELQKSLS 1887 Score = 41.9 bits (98), Expect = 6e-04 Identities = 62/286 (21%), Positives = 92/286 (32%), Gaps = 113/286 (39%) Query: 12 KGIEICTLFSCKIAV-----FGTIAGMLLTTIIPIIL--------------L-IR--QRN 49 K I + LF I V + T++ P IL L I + Sbjct: 298 KAITV--LFF--IGVRCYEAYPN------TSLPPSILEDSLENNEGVPSPMLSISNLTQE 347 Query: 50 SLAKKVNETYSFLSEICDQLSKYH---SLLTENNCLTIVWDGKDETPE-IIG-QLHQR-- 102 + VN+T S L + SL+ N +V G P+ + G L R Sbjct: 348 QVQDYVNKTNSHLPA--GK----QVEISLV--NGAKNLVVSG---PPQSLYGLNLTLRKA 396 Query: 103 -----ID---IPQTDTDLLSFEN-WLK----FH-HYIKLSKATEKLRKEGQSFDLVAET- 147 +D IP ++ L F N +L FH H L A++ + K DLV Sbjct: 397 KAPSGLDQSRIPFSERKL-KFSNRFLPVASPFHSHL--LVPASDLINK-----DLVKNNV 448 Query: 148 ---QNDCAIKIEGRVSGSCAFLRILSLDG-IYSELAE--TTLKC--KKLSN----HISVF 195 D I + GS LR L G I + + L + + HI Sbjct: 449 SFNAKDIQIPVYDTFDGSD--LR--VLSGSISERIVDCIIRLPVKWETTTQFKATHI--- 501 Query: 196 KVLFDSLDF----------LVWHRDQAGD----ILWANISYKKNTE 227 LDF L HR++ G I+ + + + Sbjct: 502 ------LDFGPGGASGLGVLT-HRNKDGTGVRVIVAGTLDINPDDD 540 Score = 28.8 bits (64), Expect = 5.1 Identities = 26/109 (23%), Positives = 46/109 (42%), Gaps = 22/109 (20%) Query: 34 LLTTII--PIILLIRQRNSLAKKVNETYSFLSEICDQLSKYHSLLTENNCLTIVWDGKDE 91 +L +I P+ L I K++ E YS +++ E TIV DGK + Sbjct: 1661 ILDIVINNPVNLTIHFGGEKGKRIRENYS-------------AMIFE----TIV-DGKLK 1702 Query: 92 TPEIIGQL--HQRIDIPQTDTDLLSFENWLKFHHYIKLSKATEKLRKEG 138 T +I ++ H +++ LLS + + + A E L+ +G Sbjct: 1703 TEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKG 1751 >1joy_A Protein (ENVZ_ecoli); histidine kinase, sensory transduction, osmolarity sensor protein, inner membrane, phosphorylation, transferase; NMR {Escherichia coli} SCOP: a.30.2.1 Length = 67 Score = 52.1 bits (125), Expect = 4e-07 Identities = 12/72 (16%), Positives = 29/72 (40%), Gaps = 8/72 (11%) Query: 560 EALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTI 619 +++ + + + VS++LR+PLT I T+++ + E I+ Sbjct: 3 AGVKQLADDRTLLMAGVSHDLRTPLTRIRLATEMMS--------EQDGYLAESINKDIEE 54 Query: 620 LLNLVNDILDLA 631 ++ +D Sbjct: 55 CNAIIEQFIDYL 66 >3kx0_X Uncharacterized protein RV1364C/MT1410; PAS domain, sensory domain, mycobacteium tuberculos molecule binding domain; 2.30A {Mycobacterium tuberculosis} Length = 185 Score = 50.1 bits (119), Expect = 2e-06 Identities = 23/130 (17%), Positives = 39/130 (30%), Gaps = 8/130 (6%) Query: 440 IDHLSEGVAVF-GPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWD 498 +H+ + GPD R N A+R + P + + E Sbjct: 43 FEHIPAILVGLEGPDHRFVAVNAAYRGFSPLLDTVGQPAREVYPELE--GQQIYEMLDRV 100 Query: 499 LFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQ-----TMLTFVNVTDSVRAER 553 S + R + + ++ + P A L +VT VRA + Sbjct: 101 YQTGEPQSGSEWRLQTDYDGSGVEERYFDFVVTPRRRADGSIEGVQLIVDDVTSRVRARQ 160 Query: 554 ALTEKNEALR 563 A + E L Sbjct: 161 AAEARVEELS 170 >3ehh_A Sensor kinase (YOCF protein); four-helix bundle, GHL ATPase domain, transferase; HET: MSE ADP; 2.10A {Bacillus subtilis} PDB: 3ehj_A* 3gie_A* 3gif_A* 3gig_A* 3ehf_A* Length = 218 Score = 47.8 bits (112), Expect = 9e-06 Identities = 29/240 (12%), Positives = 65/240 (27%), Gaps = 32/240 (13%) Query: 550 RAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQY 609 R E L + NE + + +++ Q ++ +L L + S +G + + Sbjct: 7 RLEEKLEDANERIAELVKLEER--QRMARDLVDTLGQKL--------SLMGLKSDLARKL 56 Query: 610 VEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRI 669 + + L V + + + + I L D L +KQ + Sbjct: 57 IYKDPEQAARELKSVQQTARTSLNEVRKIVSSMKGIRLKDELINIKQILEAADIMFIYEE 116 Query: 670 KVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSS 729 + + + + L + ++N + Sbjct: 117 EKWPEN---ISLLNENILSMCLKEAVTNVVKH-----------------SQAKTCRVDIQ 156 Query: 730 IPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 + + G GL + + G + I + E T + IP Sbjct: 157 QLWKEVVITVSDDGTFKGEENSFSKGHGLLGMRERLEFANGSLHIDT--ENGTKLTMAIP 214 >1b3q_A Protein (chemotaxis protein CHEA); histine kinase, signal transduction, multi- domains protein; 2.60A {Thermotoga maritima} SCOP: a.30.2.1 b.40.7.1 d.122.1.3 PDB: 2ch4_A* Length = 379 Score = 47.0 bits (110), Expect = 2e-05 Identities = 32/252 (12%), Positives = 83/252 (32%), Gaps = 49/252 (19%) Query: 576 VSYELRSPLTNIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDLATVDA 635 V E L +++G L ++ L + + ++ + S + L + D+ ++ Sbjct: 6 VDIEKLDNLMDLMG---ELVIARSRILETLKKYNIKELDESLSHLSRITLDLQNVV---- 58 Query: 636 GIMKLNYSTIVLNDLLNEVKQSIATKMHENNIRIKV-ISDGKLGSFVADRQRLLQIFSKI 694 + + ++ + N + + + N + + + + + + Sbjct: 59 ----MKIRMVPISFVFNRFPRMVRDLAKKMNKEVNFIMRGEDTELDRTFVEEIGEPLLHL 114 Query: 695 LSNAMDFSSKGSTV------------ILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNR- 741 L NA+D + IL A + + + V+++G I ++ Sbjct: 115 LRNAIDHGIEPKEERIAKGKPPIGTLILSARHEGNNVVIEVEDDGRGIDKEKIIRKAIEK 174 Query: 742 ------------------------FVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSS 777 F + + G G+G+ +V++ + G + I S Sbjct: 175 GLIDESKAATLSDQEILNFLFVPGFSTKEKVSEVSGRGVGMDVVKNVVESLNGSMGIESE 234 Query: 778 DEGVTTINCRIP 789 + T + R+P Sbjct: 235 KDKGTKVTIRLP 246 >3k3c_A Protein RV1364C/MT1410; sensor, PAS, signal transduction, fatty-acid binding, sigma regulator, signaling protein; HET: PLM; 1.62A {Mycobacterium tuberculosis} PDB: 3k3d_A Length = 158 Score = 42.5 bits (99), Expect = 4e-04 Identities = 22/130 (16%), Positives = 37/130 (28%), Gaps = 8/130 (6%) Query: 440 IDHLSEGVAVF-GPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWD 498 +H+ + GPD R N A+R + + E Sbjct: 23 FEHIPAILVGLEGPDHRFVAVNAAYRGFSPLLD--TVGQPAREVYPELEGQQIYEMLDRV 80 Query: 499 LFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQ-----TMLTFVNVTDSVRAER 553 S + R + + ++ + P A L +VT VRA + Sbjct: 81 YQTGEPQSGSEWRLQTDYDGSGVEERYFDFVVTPRRRADGSIEGVQLIVDDVTSRVRARQ 140 Query: 554 ALTEKNEALR 563 A + E L Sbjct: 141 AAEARVEELS 150 >3ke6_A Protein RV1364C/MT1410; anti-sigma factor, anti-sigma factor antagonist, phosphatase serine kinase, ATPase, unknown function; 2.60A {Mycobacterium tuberculosis} Length = 399 Score = 42.3 bits (99), Expect = 4e-04 Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 24/117 (20%) Query: 677 LGSFVADRQRLLQIFSKILSNAMDFSSK----GSTVILKAARDNGDFIFSVKNNGSSIPE 732 +G+ +D ++ S+ + NA++ V+ A +G+ SV + G Sbjct: 288 IGADHSDIADIVHAISEFVENAVEHGYATDVSKGIVVAAALAGDGNVRASVIDRGQWKDH 347 Query: 733 DMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFINLHGGHVSISSSDEGVTTINCRIP 789 G R G GL++ E+ I G TT Sbjct: 348 R--------------DGARGR-GRGLAMAEAL----VSEARIMHGAGG-TTATLTHR 384 >2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Length = 530 Score = 41.7 bits (96), Expect = 6e-04 Identities = 25/119 (21%), Positives = 44/119 (36%), Gaps = 10/119 (8%) Query: 676 KLGSFVADRQRLLQIFSKILSNAMDFSSKGS-----TVILKAARDNGDFI-FSVKNNGSS 729 +L F + L Q +++ N++D + + + D +V +NG Sbjct: 21 ELAGFPNPARALYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIG 80 Query: 730 IPEDMCKSVFNRF--VSNAHRGQRRGV-GLGLSIVESFINLHGG-HVSISSSDEGVTTI 784 IP + F R S Q RG+ GLG+ + +H + I +S I Sbjct: 81 IPPQEVPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKRI 139 >1th8_A Anti-sigma F factor; SPOIIAB, SPOIIAA, anti-ANTI-sigma, sporulation, serine kinase, transcription; HET: ADP; 2.40A {Geobacillus stearothermophilus} SCOP: d.122.1.3 PDB: 1thn_A* 1til_A* 1l0o_A* 1tid_A* Length = 145 Score = 40.9 bits (95), Expect = 0.001 Identities = 24/138 (17%), Positives = 54/138 (39%), Gaps = 13/138 (9%) Query: 652 NEVKQSI-ATKMHENNIRIKVISD-GKLGSFVADRQRLLQIFSKILSNAMDF---SSKGS 706 NE+ A +E+ R+ V + +L + + + + S+ ++NA+ + Sbjct: 3 NEMHLQFSARSENESFARVTVAAFVAQLDPTMDELTEIKTVVSEAVTNAIIHGYNNDPNG 62 Query: 707 TVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVESFIN 766 V + ++G +V++ G IP + + + G+G +I+E+ Sbjct: 63 IVSISVIIEDGVVHLTVRDEGVGIP--DIEEARQPLFTTKPELE--RSGMGFTIMEN--- 115 Query: 767 LHGGHVSISSSDEGVTTI 784 V + S TT+ Sbjct: 116 -FMDEVIVESEVNKGTTV 132 >1ixm_A SPO0B, protein (sporulation response regulatory protein); phosphotransferase, two component system; 2.60A {Bacillus subtilis} SCOP: d.123.1.1 PDB: 2ftk_A* 1f51_A Length = 192 Score = 38.2 bits (87), Expect = 0.007 Identities = 23/225 (10%), Positives = 60/225 (26%), Gaps = 46/225 (20%) Query: 544 NVTDSVRAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLLKTSKLGSLN 603 +V+ + + T L + H ++ + L I G L K ++ + Sbjct: 3 DVSKNQEENISDTALTNELIH-------LLGHSRHDWMNKLQLIKGNLSLQKYDRVFEMI 55 Query: 604 SKQSQYVEYISASSTILLNLVNDILDLATVDAGIMKLNYSTIVLNDLLNEVKQSIATKMH 663 + + + S + + + Sbjct: 56 EEMVIDAK-----------------------------HESKLSNLKTPHLAFDFLTFNWK 86 Query: 664 ENNIRIKVISDGKLGSFVADRQRLLQIFSKILSNAMDFSSKG----STVILKAARDNGDF 719 + + ++ G++ A Q+L ++ K+ S+ TV L+ + Sbjct: 87 THYMTLEYEVLGEIKDLSAYDQKLAKLMRKLFHLFDQAVSRESENHLTVSLQTDHPDRQL 146 Query: 720 IFSVKNNGSSIPEDMCKSVFNRF------VSNAHRGQRRGVGLGL 758 I + +G+ + + + +GL Sbjct: 147 ILYLDFHGAFADPSAFDDIRQNGYEDVDIMRFEITSHECLIEIGL 191 >3ehg_A Sensor kinase (YOCF protein); GHL ATPase domain, transferase; HET: ATP; 1.74A {Bacillus subtilis} Length = 128 Score = 37.0 bits (85), Expect = 0.016 Identities = 21/146 (14%), Positives = 46/146 (31%), Gaps = 24/146 (16%) Query: 645 IVLNDLLNEVKQSIATKMHENNIRIKVISDGKLGSFVADRQRLL-QIFSKILSNAMDFSS 703 I L D L +KQ + +I + + + +L + ++N + S Sbjct: 2 IRLKDELINIKQI----LEAADIMFIYEEEKWPENISLLNENILSMCLKEAVTNVVKHS- 56 Query: 704 KGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRFVSNAHRGQRRGVGLGLSIVES 763 + T + + + + +V ++ + G GL + Sbjct: 57 QAKTCRVDIQQLWKEVVITVSDD----------------GTFKGEENSFSKGHGLLGMRE 100 Query: 764 FINLHGGHVSISSSDEGVTTINCRIP 789 + G + I + E T + IP Sbjct: 101 RLEFANGSLHIDT--ENGTKLTMAIP 124 >1v9y_A Heme PAS sensor protein; signaling protein; HET: HEM; 1.32A {Escherichia coli K12} SCOP: d.110.3.2 PDB: 1v9z_A* 1vb6_A* 1s67_L* 1s66_L* Length = 167 Score = 36.8 bits (84), Expect = 0.019 Identities = 13/124 (10%), Positives = 35/124 (28%), Gaps = 8/124 (6%) Query: 439 TIDHLSEGVAVFGPDGRIKLSNPAFRSL--WKTEENRLSPGTHIRNIAATCSRYYNESDG 496 ++ G + + + NPA L +K EE + + + Sbjct: 45 ALEQNMMGAVLINENDEVMFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHN 104 Query: 497 WDLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQTML---TFVNVTDSVRAER 553 + A + E LQ + S +++ + + + + + + Sbjct: 105 REGGKARVEGMSRE---LQLEKKDGSKIWTRFALSKVSAEGKVYYLALVRDASVEMAQKE 161 Query: 554 ALTE 557 + Sbjct: 162 QTRQ 165 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 35.7 bits (81), Expect = 0.040 Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 11/35 (31%) Query: 510 ER---KSLQGTLELLS-DSVLEYSIIP-LPNAQTM 539 E+ K LQ +L+L + DS P L TM Sbjct: 18 EKQALKKLQASLKLYADDSA------PALAIKATM 46 Score = 32.3 bits (72), Expect = 0.46 Identities = 11/45 (24%), Positives = 20/45 (44%), Gaps = 16/45 (35%) Query: 227 ETEGIVFQKAIGESRKLFKEEIKKRMISSSALE-KNFCETVSTLE 270 E + + K + S KL+ ++ S+ AL K +T+E Sbjct: 18 EKQAL---KKLQASLKLYADD------SAPALAIK------ATME 47 >3mxq_A Sensor protein; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.78A {Vibrio cholerae o1 biovar el tor} Length = 152 Score = 35.4 bits (81), Expect = 0.050 Identities = 18/126 (14%), Positives = 34/126 (26%), Gaps = 13/126 (10%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESD---- 495 +D LS + + D I N F S + + G +I + + Y Sbjct: 28 LDQLSFALCIVRNDYVIVKVNEYFESRVIFDGETM-QGKNILELFPESADYLKRKIDTAL 86 Query: 496 ---GWDLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQ-----TMLTFVNVTD 547 + KS + +IP+ + L +VT Sbjct: 87 VIESSSFSSWEQKPHLLPFKSSRPVSGEEEQMYQNLEVIPIHSEDGTIEHVCLCVYDVTI 146 Query: 548 SVRAER 553 ++ Sbjct: 147 QASQQQ 152 Score = 28.5 bits (63), Expect = 5.8 Identities = 16/114 (14%), Positives = 29/114 (25%), Gaps = 19/114 (16%) Query: 311 ILHNLTVAIAIFDQNRYLQFHNRSFVELWEIDLAFLATNPSND--------------ELL 356 +L L+ A+ I + + N F D + + L Sbjct: 27 LLDQLSFALCIVRNDYVIVKVNEYFESRVIFDGETMQGKNILELFPESADYLKRKIDTAL 86 Query: 357 EFLRSANKLPEQLNWKTWKENIFSVYKSSETHKDTWHL-----PNGQTLHVIVT 405 S+ EQ ++ V E + +G HV + Sbjct: 87 VIESSSFSSWEQKPHLLPFKSSRPVSGEEEQMYQNLEVIPIHSEDGTIEHVCLC 140 >3mr0_A Sensory box histidine kinase/response regulator; PAS fold, structural genomics, PSI-2; HET: PG5; 1.49A {Burkholderia thailandensis} Length = 142 Score = 35.3 bits (81), Expect = 0.054 Identities = 22/132 (16%), Positives = 42/132 (31%), Gaps = 12/132 (9%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSL--WKTEENRLSPGTHIRNIAATCSRYYNESDGW 497 + S G+ + P +P F+ + ++ E H +I + Sbjct: 15 VSGASAGLWDWNPKTGAMYLSPHFKKIMGYEDHELPDEITGHRESIHPDDRARVLAALKA 74 Query: 498 DLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQ-----TMLTFVNVTDSVRAE 552 L + ++ G ++ L N+ + ++VTD R E Sbjct: 75 HLEHRDTYDVEYRVRTRSGDFR-----WIQSRGQALWNSAGEPYRMVGWIMDVTDRKRDE 129 Query: 553 RALTEKNEALRK 564 AL E LR+ Sbjct: 130 DALRVSREELRR 141 >3fg8_A Uncharacterized protein RHA05790; PAS domain, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: 3PB; 1.80A {Rhodococcus SP} Length = 118 Score = 35.1 bits (80), Expect = 0.055 Identities = 14/109 (12%), Positives = 26/109 (23%), Gaps = 12/109 (11%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWDL 499 G D RI N + + L R + Sbjct: 18 YFQGGLGFMALDEDLRIIYVNSGCLRHVRRSRDEL----LGRVVTEVLPETQGSYFDALC 73 Query: 500 FAAIITSFDDERKSLQGTLELL--SDSVLEYSIIPLPNAQTMLTFVNVT 546 + T + Q ++ L +E + ++ F +VT Sbjct: 74 RKVLAT-----GREQQTRVDSLYSPGMTIEVTAAADSG-ALVVHFRDVT 116 >2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei} Length = 621 Score = 35.2 bits (80), Expect = 0.056 Identities = 20/107 (18%), Positives = 43/107 (40%), Gaps = 9/107 (8%) Query: 687 LLQIFSKILSNAMDFSSKG---STVILKAARDNGDFI-FSVKNNGSSIPEDMCKSVFNRF 742 L+ + + NA+D + ++++ R D++ +++NG I + VF + Sbjct: 38 LITTVKEAVDNALDACEEAGILPDILVQVERTGPDYVTVIIEDNGPGIVREQIPKVFAKL 97 Query: 743 VS----NAHRGQRRGVGLGLSIVESFINLHGG-HVSISSSDEGVTTI 784 + +A + R G+G+S + + G H I S Sbjct: 98 LYGSRFHALKQSRGQQGIGISAAVLYAQMTAGRHTKILSKTSPTAPA 144 >3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase, phosphoprotein, transferase, flavoprotein; HET: FAD; 2.34A {Methylococcus capsulatus} Length = 227 Score = 35.3 bits (79), Expect = 0.058 Identities = 30/224 (13%), Positives = 61/224 (27%), Gaps = 15/224 (6%) Query: 319 IAIFDQNRYLQFHNRSFVELWEIDLAFLATNPSNDELL----EFLRSANKLPEQLNWKTW 374 ++I D + + N +F + +EL+ + S + W Sbjct: 2 VSITDLQGRILYANDNFCAVSRY---------GREELVGQDHRIVNSG-YHGKAYIRDMW 51 Query: 375 KENIFSVYKSSETHKDTWHLPNGQTLHVIVTSNPRGGTIWMFENLTVQVDLETKYNTLVK 434 + E IV G + ++ + + + + Sbjct: 52 RTISRGNIWQGEFCNRRKDGTRYWVDSTIVPLMDNAGKPRQYISIRRDITAQKEAEAQLA 111 Query: 435 VQGETIDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNES 494 + +D SE + + GRI +NPA E L + + + + Sbjct: 112 RLKQAMDANSEMILLTDRAGRIIYANPALCRFSGMAEGELLGQSPSILDSPLADQETLAA 171 Query: 495 DGWDLFAAIITSFDDERKSLQGTLELLSDSV-LEYSIIPLPNAQ 537 L A S + G ++ E S P+ Sbjct: 172 MQEALQAGQPWSGRLLNRRRTGPAPHDAEDYWAEISTTPIHTDG 215 >2pr5_A Blue-light photoreceptor; light-oxygen-voltage, LOV, PER-ARNT-SIM, PAS, flavoprotein, signaling protein; HET: FMN; 1.45A {Bacillus subtilis} PDB: 2pr6_A* Length = 132 Score = 34.3 bits (77), Expect = 0.099 Identities = 15/127 (11%), Positives = 34/127 (26%), Gaps = 5/127 (3%) Query: 440 IDHLSEGVAV---FGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDG 496 +DH+ GV + D I N F + E + ++ Sbjct: 5 LDHVRVGVVITDPALEDNPIVYVNQGFVQMTGYETEEILGKNCRFLQGKHTDPAEVDNIR 64 Query: 497 WDLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQTMLTFVNVTDSVRAERALT 556 L + + GT+ + + + + ++T E+ L Sbjct: 65 TALQNKEPVTVQIQNYKKDGTMF--WNELNIDPMEIEDKTYFVGIQNDITKQKEYEKLLE 122 Query: 557 EKNEALR 563 + + Sbjct: 123 DSLTEIT 129 >3cax_A Uncharacterized protein PF0695; structural genomics, unknown function, PSI-2, protein structure initiative; 2.43A {Pyrococcus furiosus dsm 3638} Length = 369 Score = 34.5 bits (78), Expect = 0.10 Identities = 26/147 (17%), Positives = 53/147 (36%), Gaps = 20/147 (13%) Query: 422 QVDLETKYNTLVKVQGETIDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIR 481 +DL T Y + +++ + L V D R++ +P R +T G ++ Sbjct: 228 DIDLGTGYLNIEELK-AIFEALPVDVTFIDKDDRVRFFSPGERIFTRTPSV---LGRPVQ 283 Query: 482 NIAATCSRYYNESDGWDLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQ---- 537 S + I+ +F + RK L + + +PL N + Sbjct: 284 LCHPPKSV--------YVVNKILKAFKEGRKKEATFWLRLREKYVYIKYVPLFNEKGEYI 335 Query: 538 -TMLTFVNVTDSVRAE---RALTEKNE 560 T+ +++ + E R L ++E Sbjct: 336 GTLEMTMDIAPYKKIEGEKRLLDWRDE 362 >2vv6_A FIXL, sensor protein FIXL; signaling protein, transferase, phosphoprotein, nitrogen fixation, PER-ARNT-SIM, metal-binding, PAS, iron; HET: HEM; 1.5A {Bradyrhizobium japonicum} PDB: 1xj6_A* 1xj4_A* 2vv7_A* 2vv8_A* 1lsw_A* 1dp8_A* 1dp9_A* 1drm_A* 1lsv_A* 1dp6_A* 1lsx_A* 1lt0_A* 1y28_A* 2cmn_A* 1xj3_A* 1xj2_A* 2owh_A* 2owj_A* Length = 119 Score = 34.3 bits (77), Expect = 0.12 Identities = 15/118 (12%), Positives = 35/118 (29%), Gaps = 4/118 (3%) Query: 443 LSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWDLFAA 502 + + + V G I+L + A L+ E + R ++S Sbjct: 2 IPDAMIVIDGHGIIQLFSTAAERLFGWSELEAIGQNVNILM-PEPDRSRHDSYISRYRTT 60 Query: 503 IITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQTML---TFVNVTDSVRAERALTE 557 + + G + + SI + + ++T+ + + L E Sbjct: 61 SDPHIIGIGRIVTGKRRDGTTFPMHLSIGEMQSGGEPYFTGFVRDLTEHQQTQARLQE 118 >3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 Score = 33.0 bits (74), Expect = 0.26 Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 32/100 (32%) Query: 550 RAERALTEKNEALRKADEIKNSFVQHVSYELRSPLTNIIGFTDLL------KTSK-LGSL 602 +A+R LT++ E++RK E E R L + + ++ K K L Sbjct: 76 QADR-LTQEPESIRKWRE-----------EQRKRLQELDAASKVMEQEWREKAKKDLEEW 123 Query: 603 NSKQSQYVEYISASSTILLNLVND-ILDLA---TVDAGIM 638 N +QS+ VE N +N+ I D A DA I+ Sbjct: 124 NQRQSEQVEK---------NKINNRIADKAFYQQPDADII 154 Score = 28.4 bits (62), Expect = 6.1 Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 5/42 (11%) Query: 239 ESRKLFKEEIKKRM----ISSSALEKNFCETVST-LEHGNNK 275 ES + ++EE +KR+ +S +E+ + E LE N + Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQR 126 >3mfx_A Sensory BOX/ggdef family protein; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Shewanella oneidensis} Length = 129 Score = 32.2 bits (73), Expect = 0.46 Identities = 19/108 (17%), Positives = 32/108 (29%), Gaps = 6/108 (5%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAF-RSLWKTEENRLSPGTHIRNIAATCSRYYNE---SD 495 I HL+E + + +G I+ N L + + G RN + + S Sbjct: 13 IQHLTEAMILVNANGFIRSCNQRSAELLDCPQVSLK--GQDWRNFLTEHHQARYDNLLSH 70 Query: 496 GWDLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQTMLTFV 543 L + +E SI +P + M V Sbjct: 71 DVQLGTNCGQPVQHPAQETTLICASGKAKDVELSISYIPGHEPMFVMV 118 >3lyx_A Sensory BOX/ggdef domain protein; structural genomics, PSI- 2, protein structure initiative, northeast structural genomics consortium; 2.00A {Colwellia psychrerythraea} Length = 124 Score = 32.2 bits (73), Expect = 0.48 Identities = 7/36 (19%), Positives = 17/36 (47%) Query: 432 LVKVQGETIDHLSEGVAVFGPDGRIKLSNPAFRSLW 467 ++K + + D++ + + V G I N +L+ Sbjct: 5 ILKQRAKAFDYVFDAIVVTDLQGFIIDWNKGSETLY 40 Score = 30.3 bits (68), Expect = 1.5 Identities = 13/106 (12%), Positives = 30/106 (28%), Gaps = 9/106 (8%) Query: 303 DQLTHTYEILHNLTVAIAIFDQNRYLQFHNRSFVELWEIDLAFLATNPSNDELLEFLRSA 362 D L + + AI + D ++ N+ L+ S ++ + + Sbjct: 4 DILKQRAKAFDYVFDAIVVTDLQGFIIDWNKGSETLYGY---------SKEQAIGQPVNM 54 Query: 363 NKLPEQLNWKTWKENIFSVYKSSETHKDTWHLPNGQTLHVIVTSNP 408 +P T + + T + +G + P Sbjct: 55 LHVPGDTEHITSEVISAVENQGKWTGEIRMLHKDGHIGWIESMCVP 100 >2v0u_A NPH1-1, LOV2; kinase, transferase, ATP-binding, serine/threonine-protein kinase, light-induced signal transduction, phototropin1; HET: FMN; 1.40A {Avena sativa} PDB: 2v0w_A* 2v1b_A* 2v1a_A* 1jnu_A* 1g28_A* Length = 146 Score = 31.2 bits (69), Expect = 0.87 Identities = 13/133 (9%), Positives = 33/133 (24%), Gaps = 3/133 (2%) Query: 439 TIDHLSEGVAV---FGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESD 495 T++ + + + PD I ++ +F L + + R Sbjct: 7 TLERIEKNFVITDPRLPDNPIIFASDSFLQLTEYSREEILGRNCRFLQGPETDRATVRKI 66 Query: 496 GWDLFAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQTMLTFVNVTDSVRAERAL 555 + + + G + + ++ T+ VR Sbjct: 67 RDAIDNQTEVTVQLINYTKSGKKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDAAER 126 Query: 556 TEKNEALRKADEI 568 + A+ I Sbjct: 127 EGVMLIKKTAENI 139 >1oe1_A Dissimilatory copper-containing nitrite reductase; denitrification; HET: PG4; 1.04A {Alcaligenes xylosoxidans} SCOP: b.6.1.3 b.6.1.3 PDB: 1oe3_A* 2vn3_A 2zon_A* 1haw_A 1hau_A* 2vm4_A* 2vw4_A* 2vw6_A* 2vw7_A* 2vm3_A* 1oe2_A* 2jl0_A* 1gs8_A 1wa1_X* 1wa2_X* 2jl3_A* 1gs7_A* 2bp0_B 1gs6_X 2bo0_A* ... Length = 336 Score = 30.9 bits (69), Expect = 1.1 Identities = 14/76 (18%), Positives = 27/76 (35%), Gaps = 2/76 (2%) Query: 380 SVYKSSETHKDTWHLPNGQTLHVIVTSNPRGGTIWMFENLTVQVDLETKYNTLVKVQGET 439 + +TW + G + T G ++ + N + E +KV+G+ Sbjct: 263 KFANPPQRDLETWFIRGGSAGAALYTFKQPG--VYAYLNHNLIEAFELGAAGHIKVEGKW 320 Query: 440 IDHLSEGVAVFGPDGR 455 D L + + P R Sbjct: 321 NDDLMKQIKAPAPIPR 336 >2dv6_A Nitrite reductase; electron transfer, reduction, denitrification, oxidoreductase; 2.20A {Hyphomicrobium denitrificans} Length = 447 Score = 31.0 bits (69), Expect = 1.1 Identities = 5/36 (13%), Positives = 10/36 (27%), Gaps = 2/36 (5%) Query: 383 KSSETHKDTWHLPNGQTLHVIVTSNPRGGTIWMFEN 418 T +P G V + G ++ + Sbjct: 382 SPPLIGVQTVSVPPGGATIVDFKIDRAG--RYILVD 415 >2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, polymorphism, splicing, glycoprotein, leucine-rich repeat; 1.80A {Homo sapiens} Length = 193 Score = 30.9 bits (68), Expect = 1.2 Identities = 14/90 (15%), Positives = 29/90 (32%), Gaps = 7/90 (7%) Query: 67 DQLSKYHSLLTENNCLTIVWDGKDETPEIIGQLHQRIDIPQTDTDLLSFENWLKFHHYIK 126 D L L N +++V +G + L + D ++ +W+K Y + Sbjct: 99 DGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLYCDCNMQWLSDWVK-SEYKE 157 Query: 127 LSKAT----EKLRKEGQSFDLVAETQNDCA 152 A ++ + + CA Sbjct: 158 PGIARCAGPGEMA--DKLLLTTPSKKFTCA 185 >1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair, HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2 PDB: 1h7u_A* 1ea6_A* Length = 365 Score = 30.5 bits (68), Expect = 1.7 Identities = 12/58 (20%), Positives = 26/58 (44%), Gaps = 3/58 (5%) Query: 685 QRLLQIFSKILSNAMDFSSKGSTVILKAARDNGDFIFSVKNNGSSIPEDMCKSVFNRF 742 L +++ N++D G+T I +D G + V +NG + E+ + + + Sbjct: 33 LSLSTAVKELVENSLD---AGATNIDLKLKDYGVDLIEVSDNGCGVEEENFEGLTLKH 87 >1nwz_A PYP, photoactive yellow protein; PAS, LOV, GAF, domains fold, signaling protein; HET: HC4; 0.82A {Halorhodospira halophila} SCOP: d.110.3.1 PDB: 1kou_A* 1ot9_A* 1otb_A* 1s4r_A* 1s4s_A* 1ts0_A* 1ts6_A* 1ts7_A* 1ts8_A* 1uwn_X* 1uwp_X* 2d01_A* 2phy_A* 2pyp_A* 2pyr_A* 2qj5_A* 2qj7_A* 2qws_A* 2zoh_A* 2zoi_A* ... Length = 125 Score = 30.5 bits (68), Expect = 1.7 Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 4/54 (7%) Query: 422 QVDLETKYNTLVKVQGETIDHLSEGVAVFGPDGRIKLSNPAF-RSLWKTEENRL 474 D+E NTL K+ +D L+ G DG I N A + + + Sbjct: 8 SEDIE---NTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAEGDITGRDPKQVI 58 >1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP; 2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 Length = 391 Score = 30.2 bits (68), Expect = 2.0 Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 5/56 (8%) Query: 681 VADRQRLLQIFSKILSNAMDFSSKG--STVILKAARDNGDFIFSVKNNGSSIPEDM 734 D L + +++ NA+D + G +I+ DN SV+++G IP + Sbjct: 29 TDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNS---VSVQDDGRGIPTGI 81 >3cnf_T VP3; cytoplasmic polyhedrosis virus, capsid protein, turret protein, polyhedrin-binding domain, guanylyltransferase domain; 3.88A {Bombyx mori cypovirus 1} Length = 1057 Score = 29.8 bits (67), Expect = 2.1 Identities = 28/225 (12%), Positives = 56/225 (24%), Gaps = 30/225 (13%) Query: 474 LSPGTHIRNIAATCSRY--YNESDGWDLFAAIITSFD----DERKSLQGTLELLSDSVLE 527 LS T+++ +AA + Y + DL + + L + Sbjct: 263 LSSSTYVQRLAAIGALYPNEFTENVLDLSRLSTALLQLSDTYYQHANDQLRRLYRRMYND 322 Query: 528 YSIIPLPNAQTMLTFVNVTDSVRAERALTEKNEALRKADE--IKNSFVQHVSYELRSPLT 585 + + L +T I N+ + + L T Sbjct: 323 SRTLYMTQRHQELLLAQITADPNILLYPYTYIFTTAYTSMNYISNTGQGRIKHSLAV--T 380 Query: 586 NIIGFTDLLKTSKLGSLNSKQSQYVEYISASSTILLNLVNDILDLATVDA-------GIM 638 T T S + VE +S ++ + V D A G Sbjct: 381 GTTEHTIADITLGPMSEDVVTISMVEPMSIAAEDMYGYVLDTPTRDIWPADEQIEQKGDA 440 Query: 639 KLNY-------------STIVLNDLLNEVKQSIATKMHENNIRIK 670 Y + + + L + T + + + + Sbjct: 441 VALYDTKTSRALGMFNNTVRIDDLLSPLLGLVYRTYIKGDTMTMT 485 >3ioh_A Histo-blood group ABO system transferase; GTA, cisab mutant, AA(Gly)B, rossman fold, unliganded, conformation, blood group antigen, glycoprotein; HET: GOL; 1.25A {Homo sapiens} PDB: 3ioi_A* 3ioj_A* 1zhj_A* 2o1h_A* 2o1g_A* 2o1f_A 2rj6_A* 2rj5_A* 2rj7_A* 1zi4_A* 2riz_A 2rj0_A* 2rj1_A* 2rj4_A* 1zi5_A* 1zi3_A* 1zi1_A* 1zjo_A* 2a8w_A* 1lzi_A* ... Length = 298 Score = 29.9 bits (67), Expect = 2.2 Identities = 9/33 (27%), Positives = 16/33 (48%) Query: 298 EITVNDQLTHTYEILHNLTVAIAIFDQNRYLQF 330 E T N + + L N T+ + +F +Y+ F Sbjct: 41 EGTFNIDILNEQFRLQNTTIGLTVFAIKKYVAF 73 >3mjq_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; 2.60A {Desulfitobacterium hafniense} Length = 126 Score = 29.6 bits (66), Expect = 2.4 Identities = 17/116 (14%), Positives = 34/116 (29%), Gaps = 9/116 (7%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWDL 499 ++ + + + + +GR+ +N A HI I + E +L Sbjct: 5 LETIEDMILIINREGRLLYANTAVPKKLGYTHEE-LMSMHILTITSAGKMAEGEKILAEL 63 Query: 500 FAAIITSFDDERKSLQGTLELLSDSVLEYSIIPLPNAQT---MLTFVNVTDSVRAE 552 FA S + +GT + I +++ RA Sbjct: 64 FAGKKESLPLSLEKKEGTS-----IPAKARIWQGKWHNEPCLFAIIKDLSKEERAS 114 >3luq_A Sensor protein; PAS, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: PGE; 2.49A {Geobacter sulfurreducens} Length = 114 Score = 29.8 bits (66), Expect = 2.4 Identities = 5/28 (17%), Positives = 12/28 (42%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSLW 467 +H +A+F + R + +R + Sbjct: 9 TEHAPAALAMFDREMRYLAVSRRWREDY 36 >3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative splicing, coiled coil, cytoplasmic vesicle, endocytosis, phosphoprotein, polymorphism; 2.78A {Homo sapiens} Length = 486 Score = 29.6 bits (65), Expect = 2.5 Identities = 18/115 (15%), Positives = 40/115 (34%), Gaps = 6/115 (5%) Query: 41 IILLIRQRNSLAKKVNETYS-FLSEICDQLSKYHSLLTENNCLTIVWDGKDETPEIIGQL 99 ++ + +R ++ + Y+ L+E + + + + W E + +L Sbjct: 41 LMNCLHER----ARIEKAYAQQLTEWARRWRQLVEKGPQYGTVEKAWMAFMSEAERVSEL 96 Query: 100 HQRIDIPQTDTDLLSFENWLKFHHYIKLSKATEKLRKEGQSFDLVAETQNDCAIK 154 H + + D +NW K + K K KE + A+ +K Sbjct: 97 HLEVKASLMNDDFEKIKNWQK-EAFHKQMMGGFKETKEAEDGFRKAQKPWAKKLK 150 >1lzj_A Glycosyltransferase B; glycoprotein, transmembrane, signal-anchor, blood group antigen; HET: FUC BHG UDP; 1.32A {Homo sapiens} SCOP: c.68.1.9 PDB: 1lz7_A* 2rit_A 2rix_A* 2riy_A* 2rj8_A* 2rj9_A* 1ziz_A* 1zj0_A* 1zj1_A* 1zj2_A* 1zj3_A* 1zjp_A* 2a8u_A* 2i7b_A 2o1h_A* 2o1g_A* 2o1f_A 2pgv_A 2pgy_A 2riz_A ... Length = 292 Score = 29.7 bits (67), Expect = 2.8 Identities = 9/33 (27%), Positives = 16/33 (48%) Query: 298 EITVNDQLTHTYEILHNLTVAIAIFDQNRYLQF 330 E T N + + L N T+ + +F +Y+ F Sbjct: 35 EGTFNIDILNEQFRLQNTTIGLTVFAIKKYVAF 67 >2e5v_A L-aspartate oxidase; archaea, oxidoreductase; HET: FAD; 2.09A {Sulfolobus tokodaii} Length = 472 Score = 29.5 bits (65), Expect = 3.0 Identities = 11/29 (37%), Positives = 11/29 (37%), Gaps = 7/29 (24%) Query: 99 LHQRIDIPQTDTDLLSFENWLKFHHYIKL 127 H R D P D NW K Y KL Sbjct: 449 NHFREDYPYKD------PNWEK-RIYFKL 470 >1mzu_A PPR; photoactive yellow protein, PAS, PYP, signaling protein; HET: HC4; 2.00A {Rhodospirillum centenum} SCOP: d.110.3.1 Length = 129 Score = 29.6 bits (66), Expect = 3.1 Identities = 8/38 (21%), Positives = 10/38 (26%) Query: 430 NTLVKVQGETIDHLSEGVAVFGPDGRIKLSNPAFRSLW 467 T+ + D L G G I N L Sbjct: 18 GTIDGMGTAEFDALPVGAIQVDGSGVIHRYNRTESRLS 55 >1wqu_A C-FES, proto-oncogene tyrosine-protein kinase FES/FPS; SH2 domain, feline sarcoma oncogene, structural genomics; NMR {Homo sapiens} PDB: 2dcr_A Length = 114 Score = 28.8 bits (64), Expect = 4.4 Identities = 22/96 (22%), Positives = 32/96 (33%), Gaps = 21/96 (21%) Query: 113 LSFENWLKFHHYIKLSKATEKLRKEGQSFDLVAETQNDCAIKIEGRVSGSCAFLRILSLD 172 L + W +H I ++ E L G F LV E+Q + G I SLD Sbjct: 13 LHEQLW--YHGAIPRAEVAELLVHSG-DF-LVRESQGKQEYVLSVLWDGLPRHFIIQSLD 68 Query: 173 GIYSELAETTLKCKKLSNHISVFKVLFDSLDFLVWH 208 +Y + F S+ L+ H Sbjct: 69 NLY-----------------RLEGEGFPSIPLLIDH 87 >3klk_A Glucansucrase; native form, open conformation, multidomain protein, glycosyltransferase, transferase; 1.65A {Lactobacillus reuteri} PDB: 3kll_A* 3hz3_A* Length = 1039 Score = 28.9 bits (64), Expect = 4.5 Identities = 12/68 (17%), Positives = 22/68 (32%) Query: 409 RGGTIWMFENLTVQVDLETKYNTLVKVQGETIDHLSEGVAVFGPDGRIKLSNPAFRSLWK 468 G T W+ + V + +N + L G + K +N +R + + Sbjct: 167 TGSTDWLRTLMHEFVTKNSMWNKDSENVDYGGLQLQGGFLKYVNSDLTKYANSDWRLMNR 226 Query: 469 TEENRLSP 476 T N Sbjct: 227 TATNIDGK 234 >2o62_A Hypothetical protein; ZP_00105914.2, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 1.75A {Nostoc punctiforme pcc 73102} SCOP: b.60.1.9 b.60.1.9 Length = 270 Score = 28.8 bits (64), Expect = 5.4 Identities = 11/51 (21%), Positives = 17/51 (33%) Query: 450 FGPDGRIKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWDLF 500 F P+G + + L N+ T R+ R + G LF Sbjct: 23 FSPEGTLLNDTSSRLCLEGLNNNQTVRLTLSRSGKDDVIREFRSVGGGLLF 73 >3hah_A Human pacsin1 F-BAR; pacsin,syndapin,FAP52,F-BAR, coiled coil, cytoplasm, endocytosis, phosphoprotein, polymorphism, SH3 domain; 2.77A {Homo sapiens} PDB: 3hai_A Length = 325 Score = 28.5 bits (63), Expect = 6.0 Identities = 18/115 (15%), Positives = 43/115 (37%), Gaps = 6/115 (5%) Query: 41 IILLIRQRNSLAKKVNETYS-FLSEICDQLSKYHSLLTENNCLTIVWDGKDETPEIIGQL 99 ++ +++R + + Y L++ + + + L W + + +L Sbjct: 42 LMNCVQERAKI----EKAYGQQLTDWAKRWRQLIEKGPQYGSLERAWGAIMTEADKVSEL 97 Query: 100 HQRIDIPQTDTDLLSFENWLKFHHYIKLSKATEKLRKEGQSFDLVAETQNDCAIK 154 HQ + + DL +NW K ++ ++ K KE + A+ +K Sbjct: 98 HQEVKNNLLNEDLEKVKNWQKDAYHKQIMGG-FKETKEAEDGFRKAQKPWAKKMK 151 >1x0c_A Isopullulanase; glycoside hydrolase family 49, glycoprotein; HET: NAG; 1.70A {Aspergillus niger} PDB: 1wmr_A* 2z8g_A* Length = 549 Score = 28.5 bits (63), Expect = 6.0 Identities = 9/60 (15%), Positives = 22/60 (36%), Gaps = 7/60 (11%) Query: 456 IKLSNPAFRSLWKTEENRLSPGTHIRNIAATCSRYYNESDGWDLFAAI------ITSFDD 509 + +S P F S+ + + + + + Y +DG +++ + DD Sbjct: 300 VTVSAPPFNSMDWSGNSLDLITCRVDDYKQVGAFYGQ-TDGLEMYPGTILQDVFYHTDDD 358 >2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism, TYRR protein, nucleotide-binding, transcription regulation, activator, repressor; HET: PG4; 2.3A {Escherichia coli} Length = 190 Score = 28.6 bits (63), Expect = 6.0 Identities = 14/99 (14%), Positives = 35/99 (35%), Gaps = 15/99 (15%) Query: 440 IDHLSEGVAVFGPDGRIKLSNPAFRSL--WKTEE------NRLSPGTHIRNIAATCSRYY 491 ++ L E V ++ ++NPA L K + +L G + + + Sbjct: 86 LEALPEPVLSVDMKSKVDMANPASCQLFGQKLDRLRNHTAAQLINGFNFLRWLESEPQDS 145 Query: 492 N----ESDGWDLFA---AIITSFDDERKSLQGTLELLSD 523 + +G + + ++++ L G + +L Sbjct: 146 HNEHVVINGQNFLMEITPVYLQDENDQHVLTGAVVMLRS 184 >1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex; HET: DNA NOV; 2.30A {Thermus thermophilus} SCOP: d.14.1.3 d.122.1.2 Length = 390 Score = 28.1 bits (62), Expect = 6.9 Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 9/56 (16%) Query: 683 DRQRLLQIFSKILSNAMDFSSKGS----TVILKAARDNGDFIFSVKNNGSSIPEDM 734 + +F +IL NA+D + G V L N D +V++NG IP D+ Sbjct: 29 GVEGYHHLFKEILDNAVDEALAGYATEILVRL-----NEDGSLTVEDNGRGIPVDL 79 >1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A {Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB: 1qzr_A* Length = 418 Score = 28.2 bits (62), Expect = 7.0 Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 687 LLQIFSKILSNAMDFSSKGSTV-ILKAARDNGDFIFSVKNNGSSIPEDM 734 L +IF +IL NA D + ++ + + VKN+G IP ++ Sbjct: 65 LFKIFDEILVNAADNKVRDPSMKRIDVNIHAEEHTIEVKNDGKGIPIEI 113 >3cia_A Cold-active aminopeptidase; psychrohilic, hydrolase; 2.70A {Colwellia psychrerythraea} Length = 605 Score = 28.2 bits (62), Expect = 7.4 Identities = 21/125 (16%), Positives = 40/125 (32%), Gaps = 22/125 (17%) Query: 353 DELLEFLRSANKLPEQLNWKTWKENIFSVY----KSSETHKDTWHLPNGQTLHVIVTSNP 408 D+ + L + EQL W + + + H+ +L + + +SN Sbjct: 472 DKQINQLVTDELTLEQLPTAQWTLHEWLHFINNLPVDLDHQRMVNL--DKAFDLTNSSNA 529 Query: 409 RGGTIWMFENLTVQVDLETKYNTLVKVQGETIDHLSEGVAVFGPDGRIKLSNPAFRSLWK 468 W + + Y + +L GR KL P ++ L K Sbjct: 530 EIAHAW------YLLSVRADYKEVYP---AMAKYLKS-------IGRRKLIVPLYKELAK 573 Query: 469 TEENR 473 E++ Sbjct: 574 NAESK 578 >3abh_A Pacsin2, protein kinase C and casein kinase substrate in neurons protein 2; helix bundle, coiled-coil, endocytosis; 2.00A {Homo sapiens} PDB: 3lll_A 3hah_A 3hai_A Length = 312 Score = 28.3 bits (62), Expect = 8.0 Identities = 16/98 (16%), Positives = 34/98 (34%), Gaps = 6/98 (6%) Query: 41 IILLIRQRNSLAKKVNETYS-FLSEICDQLSKYHSLLTENNCLTIVWDGKDETPEIIGQL 99 ++ + +R + + Y+ L+E + + + + W E + +L Sbjct: 48 LMNCLHERARI----EKAYAQQLTEWARRWRQLVEKGPQYGTVEKAWMAFMSEAERVSEL 103 Query: 100 HQRIDIPQTDTDLLSFENWLKFHHYIKLSKATEKLRKE 137 H + + D +NW K + K K KE Sbjct: 104 HLEVKASLMNDDFEKIKNWQK-EAFHKQMMGGFKETKE 140 >2ihd_A RGS8, regulator of G-protein signaling 8; signaling protein, structural genomics, structural genomics consortium, SGC; 1.70A {Homo sapiens} PDB: 2ode_B* 2bt2_A Length = 155 Score = 28.0 bits (62), Expect = 9.1 Identities = 6/65 (9%), Positives = 20/65 (30%) Query: 353 DELLEFLRSANKLPEQLNWKTWKENIFSVYKSSETHKDTWHLPNGQTLHVIVTSNPRGGT 412 +E LEF + + + + +++ + + N + + Sbjct: 62 EENLEFWLACEEFKKTRSTAKLVSKAHRIFEEFVDVQAPREVNIDFQTREATRKNLQEPS 121 Query: 413 IWMFE 417 + F+ Sbjct: 122 LTCFD 126 >2kk6_A Proto-oncogene tyrosine-protein kinase FER; methods development, SH2, NESG, ATP-binding, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; NMR {Homo sapiens} Length = 116 Score = 27.6 bits (61), Expect = 9.5 Identities = 25/131 (19%), Positives = 45/131 (34%), Gaps = 31/131 (23%) Query: 113 LSFENWLKFHHYIKLSKATEKLRKEGQSFDLVAETQ-NDCAIKIEGRVSGSCAFLRILSL 171 L+ ++W +H I +A E L+K+G F LV E+ + G I + Sbjct: 14 LAEQDW--YHGAIPRIEAQELLKKQG-DF-LVRESHGKPGEYVLSVYSDGQRRHFIIQYV 69 Query: 172 DGIYSELAETTLKCKKLSNHISVFKVLFDSLDFLVWHRDQAGDILWANISYKKNTETEGI 231 D +Y F ++ L+ H ++ T+ G+ Sbjct: 70 DNMY-----------------RFEGTGFSNIPQLIDHHYTTKQVI---------TKKSGV 103 Query: 232 VFQKAIGESRK 242 V I + +K Sbjct: 104 VLLNPIPKDKK 114 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.318 0.133 0.383 Gapped Lambda K H 0.267 0.0669 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 6,571,962 Number of extensions: 301014 Number of successful extensions: 1026 Number of sequences better than 10.0: 1 Number of HSP's gapped: 970 Number of HSP's successfully gapped: 86 Length of query: 792 Length of database: 5,693,230 Length adjustment: 100 Effective length of query: 692 Effective length of database: 3,268,830 Effective search space: 2262030360 Effective search space used: 2262030360 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 61 (27.4 bits)