RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780528|ref|YP_003064941.1| chemotaxis protein [Candidatus Liberibacter asiaticus str. psy62] (396 letters) >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 = 61.1 bits (148), Expect = 4e-10 Identities = 90/494 (18%), Positives = 152/494 (30%), Gaps = 204/494 (41%) Query: 17 FFSFATDQDLVRTIVPYQCVRSLQRALDEA----MRG-DI-SLQKKIPDIVKETGVQ--- 67 F + + + + V L L E + G DI +L K+ T V+ Sbjct: 64 FLGYVSSLVEPSKVGQFDQV--LNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKE 121 Query: 68 -LRATHMDVFVDNRNI--------------DAVWIYTIIS-QDLSVVDDLIAKDTKGYFD 111 ++ + R + I Q +T YF+ Sbjct: 122 LIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG----------NTDDYFE 171 Query: 112 -IAIVYALKKYFSGQL-EESSKELSKI-KDKDN-----TRGI-----------VP---YL 149 + +Y G L + S++ LS++ + + T+G+ P YL Sbjct: 172 ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL 231 Query: 150 HL-------LIGRAMMPFSSQQAVHFFDYV--RLT--SPGTFLEEIALRNLLE-IT---Q 194 L LIG Q H+ V +L +PG R+ L+ T Q Sbjct: 232 -LSIPISCPLIGVI-------QLAHY--VVTAKLLGFTPGEL------RSYLKGATGHSQ 275 Query: 195 NEVGERAFGYIRAYVT-------QFHHSIYKDHFISVLLRFF--LHGQLKLPDEDIVFTI 245 G + A F S+ K I+VL FF + P+ + +I Sbjct: 276 --------GLVTAVAIAETDSWESFFVSVRKA--ITVL--FFIGVRCYEAYPNTSLPPSI 323 Query: 246 SFFSLE--EQRAIY-LKIAQNSVISGKRKIGFLAIKQLKRIIDRL-----DYKDLATIQL 297 SLE E L S+ S L +Q++ +++ K + I L Sbjct: 324 LEDSLENNEGVPSPML-----SI-SN------LTQEQVQDYVNKTNSHLPAGKQVE-ISL 370 Query: 298 ---YENI-----------LN----------------IPFVDIMSLQR-----------ST 316 +N+ LN IPF S +R ++ Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPF----S-ERKLKFSNRFLPVAS 425 Query: 317 CNIPYYSLMEQDRYLKKASEIIMSEIGKSLIDIDFEHIQKDLLLDKKEP-RHTNVSMGIE 375 P++S L AS++I ++ K+ + + KD+ + P T G Sbjct: 426 ---PFHS-----HLLVPASDLINKDLVKNNVSFN----AKDIQI----PVYDTFD--G-- 465 Query: 376 SFIKKN-RSQIESI 388 + R SI Sbjct: 466 ----SDLRVLSGSI 475 Score = 41.1 bits (96), Expect = 5e-04 Identities = 63/303 (20%), Positives = 110/303 (36%), Gaps = 98/303 (32%) Query: 67 QLRATHMDVFVDNRNIDAVWIYTIISQDLSVVDDLIAKDTKGY--FDIAI--VYALKKYF 122 Q + MD++ ++ VW + D+ KDT G+ DI I L +F Sbjct: 1627 QEQGMGMDLYKTSKAAQDVW---------NRADNHF-KDTYGFSILDIVINNPVNLTIHF 1676 Query: 123 SGQLEESSKE------LSKIKD-KDNTRGIVPYL--HLLIGRAMMPFSSQQAVHFFDYVR 173 G+ + +E I D K T I + H F S++ + + Sbjct: 1677 GGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEH----STSYTFRSEKGL--LSATQ 1730 Query: 174 LTSPG-TFLEEIALRNLLEITQNEVGERAFGYIRAYVTQFHHSI--YK-----------D 219 T P T +E+ A +L ++ G I A T HS+ Y + Sbjct: 1731 FTQPALTLMEKAAFEDL----------KSKGLIPADATFAGHSLGEYAALASLADVMSIE 1780 Query: 220 HFISVLLRFFLHG---QLKLPDEDIVFTISFFSLEEQRAIYLKIAQNSVISGKRKIGFLA 276 + V+ F G Q+ +P +++ R+ Y IA N G+ F + Sbjct: 1781 SLVEVV---FYRGMTMQVAVPRDEL-----------GRSNYGMIAINP---GRVAASF-S 1822 Query: 277 IKQLKRIIDRL-----------DYK----------DLATIQLYENILN---IPFVDIMSL 312 + L+ +++R+ +Y DL + N+LN + +DI+ L Sbjct: 1823 QEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIEL 1882 Query: 313 QRS 315 Q+S Sbjct: 1883 QKS 1885 Score = 40.3 bits (94), Expect = 8e-04 Identities = 57/318 (17%), Positives = 93/318 (29%), Gaps = 98/318 (30%) Query: 118 LKKYFSGQLEESSKELSKIKDKDNTRGIVPYLHLL---IGRAMMPFSSQQAVHFFDYVRL 174 L++ F+ L E ++ + D+ L+ +G + F + L Sbjct: 33 LQEQFNKILPEPTEGFA----ADDEPTTP--AELVGKFLGYVSSLVEPSKVGQFDQVLNL 86 Query: 175 -----TSPGTFL--EEI--ALRNLLEITQNEVGERAFGYIRAYVTQFH---HSIYKDHFI 222 + +L +I LL+ + + I+ Y+T K Sbjct: 87 CLTEFEN--CYLEGNDIHALAAKLLQENDTTLVKTKE-LIKNYITARIMAKRPFDKKS-N 142 Query: 223 SVLLRFFLHGQLKLPDEDIVFTI--------SFFSLEEQRAIYLKIAQNSVISGKRKIGF 274 S L R G +L I +F EE R +Y + Sbjct: 143 SALFRAVGEGNAQL------VAIFGGQGNTDDYF--EELRDLY-QTYH----------VL 183 Query: 275 LA--IKQLKRIIDRLDYKDLATIQLYENILNIPFVDIMS-LQRSTCNIPYYSLMEQDRYL 331 + IK + L L +++ L +I+ L+ + N P ++D YL Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGL-----NILEWLENPS-NTP-----DKD-YL 231 Query: 332 KKASEIIMSEIGKSLIDIDFEH---IQKDLLLDKKEPR--------HTNVSMGI------ 374 I IG + I H K L E R H S G+ Sbjct: 232 LSIP-ISCPLIG--V--IQLAHYVVTAKLLGFTPGELRSYLKGATGH---SQGLVTAVAI 283 Query: 375 ------ESFIKKNRSQIE 386 ESF R I Sbjct: 284 AETDSWESFFVSVRKAIT 301 Score = 31.5 bits (71), Expect = 0.39 Identities = 21/160 (13%), Positives = 41/160 (25%), Gaps = 49/160 (30%) Query: 212 FHHSIYKDHFISVLLRFFLHGQLKLPDEDIVFTISFFSLEEQRAIYLKIAQNSVISGKRK 271 F S ++ F L P E + E +L Sbjct: 28 FIASQLQEQFNK---------ILPEPTEGFAADDEPTTPAELVGKFL------------- 65 Query: 272 IGFLAIKQLKRIIDRLDYKDLA-TIQLYENILNIPFV-------DIMSLQRSTCNIPYYS 323 G+++ ++ + Q+ L F DI +L + Sbjct: 66 -GYVS--------SLVEPSKVGQFDQVLNLCLTE-FENCYLEGNDIHALAAKLLQENDTT 115 Query: 324 LMEQDRYLK---KASEIIMSEIGK---SLIDIDFEHIQKD 357 L++ +K A + K S + F + + Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSAL---FRAVGEG 152 >3i9x_A MUTT/nudix family protein; structural genomics, hydrolase, PSI-2, protein structure initiative; 2.20A {Listeria innocua} Length = 187 Score = 32.8 bits (74), Expect = 0.14 Identities = 17/108 (15%), Positives = 30/108 (27%), Gaps = 11/108 (10%) Query: 151 LLIGRAMMPFSSQQAVHFFDYVRLTSPGTF------LEEIALRNLLEITQNEVGERAFGY 204 LLI R++ + + + PG F E+ A R L E T Sbjct: 49 LLIKRSLTNA---EGKPNMEGGKWAVPGGFVDENESAEQAAERELEEETSLTDIPLIPFG 105 Query: 205 IRAYVTQFHHSIYKDHFISVLLRFFLHGQLKLPDEDIVFTISFFSLEE 252 + + ++ + D+ I F + E Sbjct: 106 VFDKPGRDPRGWIISRAFYAIVPPEALEKRAAGDD--AAEIGLFPMTE 151 >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 = 30.4 bits (67), Expect = 0.74 Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 24/51 (47%) Query: 276 AIKQLKRIIDRLDYKDLATIQLYENILNIPFVDIMSLQRSTCNIPYYSLME 326 A+K+L+ A+++LY + + P + I ++T ME Sbjct: 21 ALKKLQ-----------ASLKLYADD-SAPALAI----KAT--------ME 47 Score = 29.6 bits (65), Expect = 1.4 Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 23/46 (50%) Query: 34 QCVRSLQRAL-----DEAMRGDISLQKKIPDIVKETGVQLRATHMD 74 Q ++ LQ +L D A P + ++AT M+ Sbjct: 20 QALKKLQASLKLYADDSA-----------P------ALAIKAT-ME 47 >3p1u_A SUSD homolog; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; 2.05A {Parabacteroides distasonis atcc 8503} Length = 529 Score = 30.4 bits (67), Expect = 0.76 Identities = 18/97 (18%), Positives = 31/97 (31%), Gaps = 16/97 (16%) Query: 76 FVDNRNIDAVW--IYTIISQDLSVVDDLIAKDTKGYFD-IAIVYALKKYFSGQLEESSKE 132 D+ + VW I+ V+ L KD Y + IA + Y Sbjct: 63 IQDDEWNNLVWEEYLKQIASINIVIRSLTEKDKDAYANTIAFARIWRVYVHTLAA----- 117 Query: 133 LSKIKDKDNTRGIVPYLHLLIGRAMMPFSSQQAVHFF 169 + G +P+ I A P+ S + ++ Sbjct: 118 --------DKFGPMPFPAYEIVEANPPYKSLKDIYDE 146 >1vk6_A NADH pyrophosphatase; 1790429, structural genomics, JCSG, PSI, protein structure initiative, joint center for structural genomics; HET: MSE; 2.20A {Escherichia coli K12} SCOP: d.113.1.4 d.113.1.4 g.41.14.1 PDB: 2gb5_A Length = 269 Score = 29.3 bits (65), Expect = 1.4 Identities = 10/104 (9%), Positives = 31/104 (29%), Gaps = 14/104 (13%) Query: 150 HLLIGRAMMPFSSQQAVHFFDYVRLTSPGTFLEEIALRNLLEITQNEVGERAFGYIRAYV 209 +L+ + + V G LE+ R EV E + ++ Sbjct: 152 SILLAQHTRHRNGVHTVL----AGFVEVGETLEQAVAR--------EVMEESGIKVKNLR 199 Query: 210 TQFHHSIYKDHFISVLLR-FFLHGQLKLPDEDIVFTISFFSLEE 252 + + G + + ++++ +++ ++ Sbjct: 200 YVTSQPWPFPQSLMTAFMAEYDSGDIVIDPKELL-EANWYRYDD 242 >2e58_A MNMC2; tRNA wobble uridine, modification enzyme, genetic CODE, 5- methylaminomethyl-2-thiouridine, methyltransferase, 2-codon SETS; HET: SAM; 2.50A {Aquifex aeolicus VF5} Length = 308 Score = 28.4 bits (63), Expect = 2.7 Identities = 11/45 (24%), Positives = 21/45 (46%) Query: 325 MEQDRYLKKASEIIMSEIGKSLIDIDFEHIQKDLLLDKKEPRHTN 369 M+++ YLK E + + SL + +F I ++ L P + Sbjct: 1 MKREEYLKNYLESYLRKKEVSLTEEEFNVILREFLRFAYNPEESG 45 >1h16_A Formate acetyltransferase 1; lyase, glycyl radical enzyme, acyltransferase, acetylation; HET: COA PG4; 1.53A {Escherichia coli} SCOP: c.7.1.1 PDB: 1h17_A* 1h18_A* 1mzo_A* 2pfl_A 3pfl_A 1cm5_A 1qhm_A Length = 759 Score = 27.9 bits (62), Expect = 4.0 Identities = 10/56 (17%), Positives = 27/56 (48%), Gaps = 8/56 (14%) Query: 22 TDQDLVRTIVPYQCVRSLQRALDEAMRGDISLQKKIPDIVKETGVQLRATHMD-VF 76 T+ L R ++P+ ++ ++ + + +++ ++K+ + R TH VF Sbjct: 101 TEAPLKRALIPFGGIKMIEGSCK-------AYNRELDPMIKKIFTEYRKTHNQGVF 149 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 0.325 0.140 0.392 Gapped Lambda K H 0.267 0.0420 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,434,542 Number of extensions: 167047 Number of successful extensions: 582 Number of sequences better than 10.0: 1 Number of HSP's gapped: 580 Number of HSP's successfully gapped: 18 Length of query: 396 Length of database: 5,693,230 Length adjustment: 94 Effective length of query: 302 Effective length of database: 3,414,294 Effective search space: 1031116788 Effective search space used: 1031116788 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 58 (26.9 bits)