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= 0006.0049.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... 488 e-139 gi|300313122|ref|YP_003777214.1| transcription regulator protein... 192 3e-50 gi|300309577|ref|YP_003773669.1| transcription regulator protein... 155 3e-39 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 149 3e-37 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 149 4e-37 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 488 bits (1256), Expect = e-139, Method: Compositional matrix adjust. Identities = 246/306 (80%), Positives = 273/306 (89%) Query: 1 MADLRKLPNLAALRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFHRHGK 60 MADLRKLPNLAALRAFDAAAR+ CFSRAAEEVHVTPGAISHQVRALEEDLGLQLF RHGK Sbjct: 1 MADLRKLPNLAALRAFDAAARYECFSRAAEEVHVTPGAISHQVRALEEDLGLQLFLRHGK 60 Query: 61 RISITETGERFAATIRKALGEIAQAADHLRSLTRQQRLVISATPSFASRWLAPRLWKFID 120 RISITETG+RFAATIRK+L EIA AA+HLRS RQQRLVIS TPSFASRWLAPRLW+FID Sbjct: 61 RISITETGQRFAATIRKSLSEIALAAEHLRSQNRQQRLVISTTPSFASRWLAPRLWRFID 120 Query: 121 AHPEIEVVLQSGSHLADLRLDGVDIGIRFGRGQYAGVVTEKLSDDYYYPVAAPGYRGKQN 180 AHPE+EVVLQS +HL DLRLDG+D+G+RFGRG Y+G+V+EKLSDDYYYPVAAPGYRGK++ Sbjct: 121 AHPELEVVLQSAAHLNDLRLDGIDVGLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRS 180 Query: 181 KKLVRPADLVHCTLLRMDTRESWQPWLTLAGLDLPEPRGTLVVEDSSLTLRHAVEGKGVA 240 KKL RPADL HC+LLR+D+RESWQPWL AGL+LPEP G L+VEDSSLTLR A EGKGVA Sbjct: 181 KKLARPADLAHCSLLRVDSRESWQPWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVA 240 Query: 241 LSRHTIAWQEIASGTLVRLFDVAQLCEEAHYLVHLPEGLEKPGVAAFRKWIVEEMRQFQA 300 L+RH IA QEI++G LVRLFDV E+AHY VHLPE LEKPGVAAF++WI EEMR F A Sbjct: 241 LARHVIASQEISTGELVRLFDVVVPSEDAHYFVHLPEALEKPGVAAFKEWIFEEMRLFHA 300 Query: 301 QSEWPA 306 + WP Sbjct: 301 SAAWPG 306 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 192 bits (489), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 117/294 (39%), Positives = 161/294 (54%), Gaps = 4/294 (1%) Query: 6 KLPNLAALRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFHRHGKRISIT 65 +LP + AL AF+AAARH F+ AAEE+ +TP A+SH++R LEE +G +LF+R G+ I ++ Sbjct: 4 RLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSIGLS 63 Query: 66 ETGERFAATIRKALGEIAQAADHLRSLTRQQRLVISATPSFASRWLAPRLWKFIDAHPEI 125 E G R+ +R AL + R+ Q ++ + P+FA L PR+ F HPEI Sbjct: 64 EFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRHPEI 123 Query: 126 EVVLQSGSHLADLRLDGVDIGIRFGRGQYAGVVTEKLSDDYYYPVAAPGYRGKQNKKLVR 185 V L L DL L D+ IRFG G Y ++TEKL ++ + VA+P Y K + Sbjct: 124 VVELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPAYL-KTLPPMKS 182 Query: 186 PADLVHCTLLRMDTRESWQPWLTLAGL-DLPEPRGTLVVEDSSLTLRHAVEGKGVALSRH 244 PADL TLLR E WQPW AGL D EP L V+D L L G GV L+R Sbjct: 183 PADLKQATLLR-SALEPWQPWFEAAGLKDWVEPSAGLRVDDLGLLLEAVRHGYGVGLTRQ 241 Query: 245 TIAWQEIASGTLVRLFDV-AQLCEEAHYLVHLPEGLEKPGVAAFRKWIVEEMRQ 297 A + +A G +V LFD+ + A+Y+V+ E+P V F W+ R Sbjct: 242 HFAEELLARGEIVELFDIRLRTPPHAYYVVYERAVRERPEVDTFISWMQNAFRN 295 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 155 bits (393), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 103/294 (35%), Positives = 156/294 (53%), Gaps = 10/294 (3%) Query: 7 LPNLAALRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFHRHGKRISITE 66 LP L +L AF+AA RHG F+RAA E+H+T AIS Q+ LE LG +LF R + + +T Sbjct: 6 LPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRALRLTV 65 Query: 67 TGERFAATIRKALGEIAQAADHLRSLTRQQRLVISATPSFASRWLAPRLWKFIDAHPEIE 126 +G+R+AA +++ L + A+A + + Q L ++ + A WL PRL +F HP+ Sbjct: 66 SGQRYAALVQRLLVDCAEATEDIMKRKGHQELTVACSQGVAVLWLTPRLARFRARHPDCH 125 Query: 127 VVLQSGSHLADLRLDGVDIGIRFGR-GQYAGVVTEKLSDDYYYPVAAPGYRGKQNKKLVR 185 + L LA L D+GI F R G AG+ +L D+ +PV +PGY + +L+ Sbjct: 126 LRLVVNDSLAQLSETDFDMGIYFLRDGPPAGLAARRLYDEEVFPVCSPGY---LDGRLLA 182 Query: 186 PADLVHCTLLRMDTRE----SWQPWLTLAGLDLPEPRGTLVVEDSSLTLRHAVEGKGVAL 241 P DL H TLL ++ + SWQ W+ G+ ++ + L+ A+EG+GV L Sbjct: 183 PEDLRHQTLLTLEDGQRQWMSWQNWMAHNGMPDVRIEHQILSNQYPVLLQLAMEGQGVVL 242 Query: 242 S-RHTIAWQEIASGTLVRLFDVAQLCEEAHYLVHLPEGLEKPGVAAFRKWIVEE 294 + RH I + G LVR + +Y V + +E AFR W+V E Sbjct: 243 AWRHMID-ACMEQGLLVRACQASASLGGGYYAVWPRDRIEHAAARAFRSWLVAE 295 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 149 bits (375), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 100/292 (34%), Positives = 149/292 (51%), Gaps = 9/292 (3%) Query: 7 LPNLAALRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFHRHGKRISITE 66 +P L +L AF+A AR F+ AA E+H+TP AISHQV LE+ LGL+LF R K + +T Sbjct: 2 IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61 Query: 67 TGERFAATIRKALGEIAQAADHLRSLTRQQRLVISATPSFASRWLAPRLWKFIDAHPEIE 126 G+ + + ALG I A D LR + L I ++PSFAS WL PR+ +F HP+I Sbjct: 62 AGQSYLNRVAGALGAINSATDDLRHGV-ENSLQIHSSPSFASLWLMPRIGRFTQRHPDIA 120 Query: 127 VVLQSGSHLADLRLDGVDIGIRFGRGQYAGVVTEKLSDDYYYPVAAPGYRGKQNKKLVRP 186 + L + ++D + VD+ IR G + + E + + P+A+P + + ++ P Sbjct: 121 LGLSASPEISDFEIGQVDLDIRCGVPHWPDLEIEAVLSERVIPMASPDFLARH--RIDTP 178 Query: 187 ADLVHCTLLRMDTRES---WQPWLTLAGLDLPEPRGTLVVEDSSLTLRHAVEGKGVALSR 243 DLV L++ +R S W W DL R L + + +++ AV+G GV Sbjct: 179 DDLVLAPLIQ--SRGSLLQWPEWFARYAPDLRPERIALRFDRAMMSIEAAVQGLGVVFES 236 Query: 244 HTIAWQEIASGTLVRLF-DVAQLCEEAHYLVHLPEGLEKPGVAAFRKWIVEE 294 +ASG L +F D L HY V +P V F +W+ EE Sbjct: 237 DAFGAVALASGRLQPVFADGLALEITQHYAVCPARNKSRPEVMLFLQWLREE 288 >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 = 102/297 (34%), Positives = 158/297 (53%), Gaps = 10/297 (3%) Query: 1 MADLRKLPNLAALRAFDAAARHGCFSRAAEEVHVTPGAISHQVRALEEDLGLQLFHRHGK 60 MA L LPNL +AF+A AR F+ AA E+H+T A+SHQV LE LG++LF R Sbjct: 1 MAVLPPLPNL---QAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAH 57 Query: 61 RISITETGERFAATIRKALGEIAQAADHLRSLTRQQRLVISATPSFASRWLAPRLWKFID 120 + IT GE + A I+ A+ I A+ +R L I + PS AS WL RL F Sbjct: 58 GVRITTAGEAYLARIQGAISAITAASMDVRQGV-SNTLYIHSAPSIASLWLMARLNDFAR 116 Query: 121 AHPEIEVVLQSGSHLADLRLDGVDIGIRFGRGQYAGVVTEKLSDDYYYPVAAPGYRGKQN 180 ++PEI L + ++ L VDI IR+G + G+V E L ++ P+A+P + + Sbjct: 117 SYPEITFNLSAAHSQSNFELGEVDIDIRYGIPNWPGLVVEPLFEERIVPLASPAF--IRE 174 Query: 181 KKLVRPADLVHCTLLRMDTR-ESWQPWL-TLAGLDLPEPRGTLVVEDSSLTLRHAVEGKG 238 +L +PADL+ L+R + W W A + PE + + + + ++L A +G G Sbjct: 175 YRLRKPADLLGVKLIRSNVSVVQWADWFGEFADVRAPE-QFAVRFDRAQMSLDAATQGLG 233 Query: 239 VALSRHTIAWQEIASGTLVRLFDVAQLCE-EAHYLVHLPEGLEKPGVAAFRKWIVEE 294 VAL T+A + + L +F + + + +AH+ V+ +P VAAF +W+ E+ Sbjct: 234 VALESATVAARHLEEKKLKPIFGLERAIKVKAHFAVYPAHHARRPAVAAFLEWLREQ 290 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 0.407 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: 1,016,290 Number of extensions: 43712 Number of successful extensions: 280 Number of sequences better than 1.0e-08: 57 Number of HSP's gapped: 236 Number of HSP's successfully gapped: 57 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)