BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.2569.p (318 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311849|ref|YP_003775941.1| LysR family transcription regul... 534 e-153 gi|300312870|ref|YP_003776962.1| transcription regulator protein... 115 5e-27 gi|300313810|ref|YP_003777902.1| LysR family transcription regul... 96 3e-21 gi|300312305|ref|YP_003776397.1| LysR family transcription regul... 76 4e-15 gi|300313689|ref|YP_003777781.1| LysR family transcription regul... 71 9e-14 >gi|300311849|ref|YP_003775941.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 534 bits (1375), Expect = e-153, Method: Compositional matrix adjust. Identities = 277/307 (90%), Positives = 291/307 (94%) Query: 1 MNIERLSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIATLEEQLGVLLFDRSGYRP 60 MNIERLSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIA+LEEQLG+LLFDRSGYRP Sbjct: 1 MNIERLSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIASLEEQLGLLLFDRSGYRP 60 Query: 61 QLTAPGVALLADARQVLDHVDSLQVRASSYARGQELEVSLAVDVFFPTDCLVDLLQRFRL 120 QLTAPG ALLADARQVLDHVDSLQVRASSYARGQELE++LAVDVFFP DCLVDLLQRFR Sbjct: 61 QLTAPGEALLADARQVLDHVDSLQVRASSYARGQELEMALAVDVFFPLDCLVDLLQRFRA 120 Query: 121 AFPEVTVRLEVEALGAVAERVIDGRSMLGILGTLPTTPPNLLRITLPSVQLVAVVAPDHP 180 AFP VTVRLEVEALGAVAERVIDGR+MLGILGTLPTTPPNL+RITLPSV+LVAVVAP HP Sbjct: 121 AFPAVTVRLEVEALGAVAERVIDGRAMLGILGTLPTTPPNLMRITLPSVRLVAVVAPHHP 180 Query: 181 LAKVRGRISEKLLQQQTQLVLSDRSELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGWG 240 LAKV+GRI+EK+L QQTQLVLSDRSELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGWG Sbjct: 181 LAKVKGRIAEKMLLQQTQLVLSDRSELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGWG 240 Query: 241 NMPRHVVQDDLDHGRLVSISTIHHPPQGAELPIQCVYKPDHPAGPALSWWLDSLAALTAL 300 NMP HVV++DL GRLVSISTIHHPPQGAELPIQCVYKPDH AGPALSWWLD+LA L +L Sbjct: 241 NMPLHVVKEDLAAGRLVSISTIHHPPQGAELPIQCVYKPDHRAGPALSWWLDALANLGSL 300 Query: 301 APGAAAG 307 AAG Sbjct: 301 EAQPAAG 307 >gi|300312870|ref|YP_003776962.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 115 bits (288), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 92/298 (30%), Positives = 146/298 (48%), Gaps = 14/298 (4%) Query: 6 LSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIATLEEQLGVLLFDRSGYRPQLTAP 65 L+L+ L + + GSF AAA L R SA++Y++ LE+ L VLLFDR G+R QLT Sbjct: 3 LTLESLLILDMIDRKGSFAAAAVALDRVPSALTYSVRKLEDDLDVLLFDRRGHRAQLTPA 62 Query: 66 GVALLADARQVLDHVDSLQVRASSYARGQELEVSLAVDVFFPTDCLVDLLQRFRLAFPEV 125 G+ LL + R +L + L+ R A G+E E+ + ++ P D ++ ++ F Sbjct: 63 GLQLLQEGRHLLLAANDLEQRVKRTATGRETELHIVLNSLIPFDKMLPIIAAFDREQSGT 122 Query: 126 TVRLEVEALGAVAERVIDGRSMLGILGTLPTTPPNLLRIT-------LPSVQLVAVVAPD 178 +R L E++I+GR+ L I TL P ++R + L +V V VVAP Sbjct: 123 RLRFTPGVLTGAWEKLIEGRANLVIGVTLDG--PEVVRTSGRFQMQELGAVDWVFVVAPQ 180 Query: 179 HPLAKVRGRISEKLLQQQTQLVLSDRSELTARQDFSVHS-RLTWRMSDLGTKHALLRAGM 237 HPLA V +S +L++ + + D S+ + S + T ++ + K AG+ Sbjct: 181 HPLAGVEEPLSAELVRSHRAIAVGDNSQSLPTLTMGLLSGQETLTVATVADKLQAQLAGL 240 Query: 238 GWGNMPRHVVQDDLDHGRLVSISTIHHPPQGAELPIQCVYKPDHPAGPALSWWLDSLA 295 G G++PR + L G LV T+ P + V P G +L W++ LA Sbjct: 241 GCGHLPRIWAEPYLASGALVEKQTLAAKPNDNFM----VAWPKAEQGKSLKWFIQHLA 294 >gi|300313810|ref|YP_003777902.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 96.3 bits (238), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 89/284 (31%), Positives = 136/284 (47%), Gaps = 11/284 (3%) Query: 6 LSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIATLEEQLGVLLFDRSGYRPQLTAP 65 S D +RVF+ V DSGSF AAAR+L R S+VS I+ LE +L + LFDR+ + T Sbjct: 3 FSSDNVRVFLAVLDSGSFSAAARELGRVPSSVSMTISQLEAELDLQLFDRTARDARPTDM 62 Query: 66 GVALLADARQVLDHVDSLQVRASSYARGQELEVSLAVDVFFPTDCLVDLLQRFRLAFPEV 125 AL DAR + + L A + +G E +++LAV + L FP Sbjct: 63 ARALEPDARLLASTLRQLDAHALAMHQGLERKLTLAVAPELLSAPWAKPLAVLAQEFPS- 121 Query: 126 TVRLEVEALG---AVAERVI-DGRSMLGILGTLPTTPPNLLRITLPSVQLVAVVAPDHP- 180 LEVE L A A R++ D + L ++ P S LVAV+APDHP Sbjct: 122 ---LEVEVLSSPQADAMRMLYDDTAQLALVFERPAGNDREAFQEFSSEMLVAVIAPDHPA 178 Query: 181 LAKVRGRISEKLLQQQTQLVLSDRSELTARQDFSVHSRLTWRMSDLGTKHALLRAGMGWG 240 L + + ++ + L Q+ ++ R + F + +R WR + +L+R G+GW Sbjct: 179 LRRKKRKLRYEDLYDIRQIAVASRDARVSDPRFFL-ARQIWRTDNHLATLSLVREGLGWA 237 Query: 241 NMPRHVVQDDLDHGRLVSISTIHHPPQGAELPIQCVYKPDHPAG 284 +P+ +VQ ++ G L I + Q + + V+ D P G Sbjct: 238 YLPQSLVQAQIEAGALTVIDFDNISNQQRQW-VDVVWCKDRPLG 280 >gi|300312305|ref|YP_003776397.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 75.9 bits (185), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 55/180 (30%), Positives = 86/180 (47%), Gaps = 1/180 (0%) Query: 4 ERLSLDQLRVFVQVADSGSFLAAARKLARAQSAVSYAIATLEEQLGVLLFDRSGYRPQLT 63 R L LR+F+ + +SGS A++ A ++ S I +E+ LG L +R Q T Sbjct: 3 NRFELSDLRLFLHIVESGSITGGAQRAHMALASASARIRNMEDALGTPLLERGRRGVQTT 62 Query: 64 APGVALLADARQVLDHVDSLQVRASSYARGQELEVSLAVDVFFPTDCLVDLLQRFRLAFP 123 G AL AR + ++ L+ YARG + + L + T+ L ++L RF P Sbjct: 63 DAGRALAHHARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFLPEVLARFLARHP 122 Query: 124 EVTVRLEVEALGAVAERVIDGRSMLGILGTLPTTPPNLLRITLPSVQLVAVVAPDHPLAK 183 + LE + V + VIDG + +GI+ + P L LVAV++ HPLA+ Sbjct: 123 HTDIELEEKLSYEVVQAVIDGVADVGIIADSTDSGP-LQTYPFRQDHLVAVLSKRHPLAR 181 >gi|300313689|ref|YP_003777781.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 71.2 bits (173), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 62/176 (35%), Positives = 92/176 (52%), Gaps = 7/176 (3%) Query: 11 LRVFVQVADSGSFLAAARKLARAQSAVSYAIATLEEQLGVLLFDRSGYRPQLTAPGVALL 70 LR F QV +GS AAA +L A SAVS IA +EE+ GV LF+R LT G L+ Sbjct: 6 LRYFYQVGRTGSLTAAAERLDVAVSAVSRQIAKMEEETGVPLFERRARGMVLTPAGEVLM 65 Query: 71 ADARQVLDHVDSL--QVRASSYARGQELEVSLAVDVFFPTDCLVDLLQRFRLAFPEVTVR 128 A AR+ L ++ + +VR +A GQ + ++LA F D L ++ +FR +P + + Sbjct: 66 AYARRNLLEMEQVLAEVRG-LHAVGQGV-ITLACSEGFAWDLLPNVTAQFREQYPGLQFK 123 Query: 129 LEVEALGAVAERVIDGRSMLGILGTLPTTPPNLLRITL-PSVQLVAVVAPDHPLAK 183 L V ++ VIDG + + + T P L + S + A++ DHPLA Sbjct: 124 LHVVGAARASQMVIDGEADISV--TYSLAPAEGLAVAYRESGPVFALMKRDHPLAS 177 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.321 0.135 0.391 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 813,232 Number of extensions: 29670 Number of successful extensions: 224 Number of sequences better than 1.0e-08: 48 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 48 Length of query: 318 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 233 Effective length of database: 1,217,395 Effective search space: 283653035 Effective search space used: 283653035 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)