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= 0001.4659.p (316 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314051|ref|YP_003778143.1| transcription regulator protein... 484 e-138 gi|300313122|ref|YP_003777214.1| transcription regulator protein... 189 2e-49 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 149 4e-37 gi|300309577|ref|YP_003773669.1| transcription regulator protein... 148 5e-37 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 147 1e-36 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 484 bits (1247), Expect = e-138, Method: Compositional matrix adjust. Identities = 243/306 (79%), Positives = 273/306 (89%) Query: 1 MADLRKLPNLASLRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFKRHGK 60 MADLRKLPNLA+LRAFDAAAR+ CFSRAAEEVHVTPGAISHQVRALEEDLGLQLF RHGK Sbjct: 1 MADLRKLPNLAALRAFDAAARYECFSRAAEEVHVTPGAISHQVRALEEDLGLQLFLRHGK 60 Query: 61 RITITETGERFATTIRKALGEIAQAADHLRSLNRQQRLVISATPSFASRWLAPRLWKFID 120 RI+ITETG+RFA TIRK+L EIA AA+HLRS NRQQRLVIS TPSFASRWLAPRLW+FID Sbjct: 61 RISITETGQRFAATIRKSLSEIALAAEHLRSQNRQQRLVISTTPSFASRWLAPRLWRFID 120 Query: 121 AHPEIEVVLQSGSHLVDLRLDGVDIGIRFGRGQYSGVVTEKLSEDYYYPVAAPGYRGSRS 180 AHPE+EVVLQS +HL DLRLDG+D+G+RFGRG YSG+V+EKLS+DYYYPVAAPGYRG RS Sbjct: 121 AHPELEVVLQSAAHLNDLRLDGIDVGLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRS 180 Query: 181 RKLTRPADLAHCTLLRMDTRESWRPWLQLAGLDLPEPRGTLVVEDSSVTLRHAVEGKGVA 240 +KL RPADLAHC+LLR+D+RESW+PWL AGL+LPEP G L+VEDSS+TLR A EGKGVA Sbjct: 181 KKLARPADLAHCSLLRVDSRESWQPWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVA 240 Query: 241 LSRHTIAWQEIASGTLVRLFDVAQLCEEAHYLVHLPEGLEKPGVAAFKAWITQEMQQFHT 300 L+RH IA QEI++G LVRLFDV E+AHY VHLPE LEKPGVAAFK WI +EM+ FH Sbjct: 241 LARHVIASQEISTGELVRLFDVVVPSEDAHYFVHLPEALEKPGVAAFKEWIFEEMRLFHA 300 Query: 301 DSDWPG 306 + WPG Sbjct: 301 SAAWPG 306 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 189 bits (480), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 113/294 (38%), Positives = 162/294 (55%), Gaps = 4/294 (1%) Query: 6 KLPNLASLRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFKRHGKRITIT 65 +LP + +L AF+AAARH F+ AAEE+ +TP A+SH++R LEE +G +LF R G+ I ++ Sbjct: 4 RLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSIGLS 63 Query: 66 ETGERFATTIRKALGEIAQAADHLRSLNRQQRLVISATPSFASRWLAPRLWKFIDAHPEI 125 E G R+ +R AL + R+ Q ++ + P+FA L PR+ F HPEI Sbjct: 64 EFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRHPEI 123 Query: 126 EVVLQSGSHLVDLRLDGVDIGIRFGRGQYSGVVTEKLSEDYYYPVAAPGYRGSRSRKLTR 185 V L L DL L D+ IRFG G Y ++TEKL E+ + VA+P Y + + Sbjct: 124 VVELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPAYLKTLP-PMKS 182 Query: 186 PADLAHCTLLRMDTRESWRPWLQLAGL-DLPEPRGTLVVEDSSVTLRHAVEGKGVALSRH 244 PADL TLLR E W+PW + AGL D EP L V+D + L G GV L+R Sbjct: 183 PADLKQATLLR-SALEPWQPWFEAAGLKDWVEPSAGLRVDDLGLLLEAVRHGYGVGLTRQ 241 Query: 245 TIAWQEIASGTLVRLFDV-AQLCEEAHYLVHLPEGLEKPGVAAFKAWITQEMQQ 297 A + +A G +V LFD+ + A+Y+V+ E+P V F +W+ + Sbjct: 242 HFAEELLARGEIVELFDIRLRTPPHAYYVVYERAVRERPEVDTFISWMQNAFRN 295 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 149 bits (375), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 99/291 (34%), Positives = 154/291 (52%), Gaps = 7/291 (2%) Query: 7 LPNLASLRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFKRHGKRITITE 66 LP L +L+AF+A AR F+ AA E+H+T A+SHQV LE LG++LF+R + IT Sbjct: 4 LPPLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITT 63 Query: 67 TGERFATTIRKALGEIAQAADHLRSLNRQQRLVISATPSFASRWLAPRLWKFIDAHPEIE 126 GE + I+ A+ I A+ +R L I + PS AS WL RL F ++PEI Sbjct: 64 AGEAYLARIQGAISAITAASMDVRQ-GVSNTLYIHSAPSIASLWLMARLNDFARSYPEIT 122 Query: 127 VVLQSGSHLVDLRLDGVDIGIRFGRGQYSGVVTEKLSEDYYYPVAAPGYRGSRSRKLTRP 186 L + + L VDI IR+G + G+V E L E+ P+A+P + R +L +P Sbjct: 123 FNLSAAHSQSNFELGEVDIDIRYGIPNWPGLVVEPLFEERIVPLASPAF--IREYRLRKP 180 Query: 187 ADLAHCTLLRMDTR-ESWRPWL-QLAGLDLPEPRGTLVVEDSSVTLRHAVEGKGVALSRH 244 ADL L+R + W W + A + PE + + + + ++L A +G GVAL Sbjct: 181 ADLLGVKLIRSNVSVVQWADWFGEFADVRAPE-QFAVRFDRAQMSLDAATQGLGVALESA 239 Query: 245 TIAWQEIASGTLVRLFDVAQLCE-EAHYLVHLPEGLEKPGVAAFKAWITQE 294 T+A + + L +F + + + +AH+ V+ +P VAAF W+ ++ Sbjct: 240 TVAARHLEEKKLKPIFGLERAIKVKAHFAVYPAHHARRPAVAAFLEWLREQ 290 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 148 bits (374), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 99/294 (33%), Positives = 152/294 (51%), Gaps = 10/294 (3%) Query: 7 LPNLASLRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFKRHGKRITITE 66 LP L SL AF+AA RHG F+RAA E+H+T AIS Q+ LE LG +LF R + + +T Sbjct: 6 LPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRALRLTV 65 Query: 67 TGERFATTIRKALGEIAQAADHLRSLNRQQRLVISATPSFASRWLAPRLWKFIDAHPEIE 126 +G+R+A +++ L + A+A + + Q L ++ + A WL PRL +F HP+ Sbjct: 66 SGQRYAALVQRLLVDCAEATEDIMKRKGHQELTVACSQGVAVLWLTPRLARFRARHPDCH 125 Query: 127 VVLQSGSHLVDLRLDGVDIGIRFGR-GQYSGVVTEKLSEDYYYPVAAPGYRGSRSRKLTR 185 + L L L D+GI F R G +G+ +L ++ +PV +PGY R L Sbjct: 126 LRLVVNDSLAQLSETDFDMGIYFLRDGPPAGLAARRLYDEEVFPVCSPGYLDGR---LLA 182 Query: 186 PADLAHCTLLRMDTRE----SWRPWLQLAGLDLPEPRGTLVVEDSSVTLRHAVEGKGVAL 241 P DL H TLL ++ + SW+ W+ G+ ++ V L+ A+EG+GV L Sbjct: 183 PEDLRHQTLLTLEDGQRQWMSWQNWMAHNGMPDVRIEHQILSNQYPVLLQLAMEGQGVVL 242 Query: 242 S-RHTIAWQEIASGTLVRLFDVAQLCEEAHYLVHLPEGLEKPGVAAFKAWITQE 294 + RH I + G LVR + +Y V + +E AF++W+ E Sbjct: 243 AWRHMID-ACMEQGLLVRACQASASLGGGYYAVWPRDRIEHAAARAFRSWLVAE 295 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 97/282 (34%), Positives = 146/282 (51%), Gaps = 6/282 (2%) Query: 10 LASLRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFKRHGKRITITETGE 69 L +LRAF+ +ARH F+RAAEE+ VT A+S QV+ LE+ LG+ LF+R + + +T+ G Sbjct: 5 LNALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALTDEGL 64 Query: 70 RFATTIRKALGEIAQAADHLRSLNRQQRLVISATPSFASRWLAPRLWKFIDAHPEIEVVL 129 + ++ G IA R++ L + +FA WL PRL +F HP +++ L Sbjct: 65 ALLPVVAQSFGRIADVLAQFEDGRRREVLTVGVVGTFAVGWLMPRLRQFQQQHPFVDLRL 124 Query: 130 QSGSHLVDLRLDGVDIGIRFGRGQYSGVVTEKLSEDYYYPVAAPGYRGSRSRKLTRPADL 189 + ++ VDL +G+D IRFG G + G E+L E P+ AP + +L PADL Sbjct: 125 LTNNNRVDLAGEGLDYAIRFGDGAWHGTQAERLFEAPLAPMCAPAI----AARLRSPADL 180 Query: 190 AHCTLLRMDTRESWRPWLQLAGLDLPEPRGTLVVEDSSVTLRHAVEGKGVALSRHTIAWQ 249 TLLR + W W AG P RG V + S A + GVAL + + Sbjct: 181 GAETLLRSYRSDEWGRWFAAAGAACPPLRG-FVFDSSLALAEAAAQEAGVALLPVLMFER 239 Query: 250 EIASGTLVRLFDVAQLCEEAHYLVHLPEGLEKPGVAAFKAWI 291 E+ G LV F ++ A++L L + +AAF+ W+ Sbjct: 240 ELQQGRLVCPFG-QRIVLGAYWLTSLKSRPQTAAMAAFRQWL 280 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 0.410 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: 1,075,052 Number of extensions: 46370 Number of successful extensions: 295 Number of sequences better than 1.0e-08: 56 Number of HSP's gapped: 256 Number of HSP's successfully gapped: 56 Length of query: 316 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 231 Effective length of database: 1,217,395 Effective search space: 281218245 Effective search space used: 281218245 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)