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= 0001.0740.p (308 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310278|ref|YP_003774370.1| transcription regulator protein... 475 e-135 gi|300313720|ref|YP_003777812.1| LysR family transcription regul... 429 e-121 gi|300310624|ref|YP_003774716.1| transcription regulator protein... 313 9e-87 gi|300311233|ref|YP_003775325.1| LysR family transcription regul... 142 3e-35 gi|300311868|ref|YP_003775960.1| LysR family transcription regul... 139 4e-34 >gi|300310278|ref|YP_003774370.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 475 bits (1222), Expect = e-135, Method: Compositional matrix adjust. Identities = 231/302 (76%), Positives = 261/302 (86%), Gaps = 2/302 (0%) Query: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAILGTTLLHRTTRK 60 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEA+LGTTLLHRTTRK Sbjct: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRK 60 Query: 61 LCLTEAGQGFYAHCARIVALANEARENTESLHKELVGELRIAASSFMASEYLVPALEEFI 120 L LTEAG FYA+C+RIV LA+EAR+ TESLHKEL+GELRIAASSFMASEYLVPAL++FI Sbjct: 61 LSLTEAGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFI 120 Query: 121 RSHPQLKINIDVNDHNVDLMDKSVDLALRVGKLPGAGDIALARLEAVLCASPAYLQRQPP 180 R+HP+L+INIDVNDHN+DLMDKSVDLALRVGK D+ LA L AVLCASPAYL+ P Sbjct: 121 RAHPKLRINIDVNDHNIDLMDKSVDLALRVGKTSSENDVYLASLPAVLCASPAYLRAHAP 180 Query: 181 IRRPEDLLMHHFLFFTPVG--VDLTLRNRVGHCAQLRLTPSIAVNHARSLRKLVLQGHGV 238 IR PEDL H FLFFTP G V+++L+NR G CAQL LTP ++ NHARSLR+L LQGHGV Sbjct: 181 IRHPEDLPQHDFLFFTPHGSSVEVSLKNRGGQCAQLHLTPRVSANHARSLRRLALQGHGV 240 Query: 239 ARMLKSKVQDDLDAGRLQVVLPDWSPDSYCAFITTKYRDAVPAKILVCIAQIQAYFRRRH 298 AR+L KVQ+DLDAGRL+VVLPDW D YCAF+TTKYR++ P KI+ CI ++AYFR RH Sbjct: 241 ARLLACKVQEDLDAGRLEVVLPDWELDVYCAFLTTKYRESPPQKIVKCIEHLEAYFRSRH 300 Query: 299 PG 300 P Sbjct: 301 PA 302 >gi|300313720|ref|YP_003777812.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 429 bits (1104), Expect = e-121, Method: Compositional matrix adjust. Identities = 215/301 (71%), Positives = 253/301 (84%), Gaps = 2/301 (0%) Query: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAILGTTLLHRTTRK 60 +KN+ MDYLPRMVIFSRVVE+G+FS AA LGL+SSSVSQHISALEA +G TLLHRTTRK Sbjct: 2 IKNDVMDYLPRMVIFSRVVEMGSFSGAASALGLSSSSVSQHISALEAAMGMTLLHRTTRK 61 Query: 61 LCLTEAGQGFYAHCARIVALANEARENTESLHKELVGELRIAASSFMASEYLVPALEEFI 120 L LTEAGQ FYA+CARIV LANEAR+ E+LHKE+VGELRIA SSFMASEYLVPALE I Sbjct: 62 LSLTEAGQTFYANCARIVVLANEARQTAENLHKEVVGELRIATSSFMASEYLVPALEGLI 121 Query: 121 RSHPQLKINIDVNDHNVDLMDKSVDLALRVGKLPGAGDIALARLEAVLCASPAYLQRQPP 180 + +P+L+INIDVNDHNVDLM+K VD+ALR GK PG D+ LA LE+VLCA+PAYLQR P Sbjct: 122 QQYPKLRINIDVNDHNVDLMEKGVDIALRAGKAPGPEDVFLAPLESVLCAAPAYLQRSAP 181 Query: 181 IRRPEDLLMHHFLFFTPVG--VDLTLRNRVGHCAQLRLTPSIAVNHARSLRKLVLQGHGV 238 IR PEDL+ H F+FFTP+G ++L LR+R G Q+RLTP I+VNH SL KL LQGHGV Sbjct: 182 IRTPEDLMGHEFMFFTPLGSTMELGLRDRHGQQVQMRLTPRISVNHTHSLHKLTLQGHGV 241 Query: 239 ARMLKSKVQDDLDAGRLQVVLPDWSPDSYCAFITTKYRDAVPAKILVCIAQIQAYFRRRH 298 AR+L++KVQ+DLDAGRLQ VLP+W+ + YCAF++T YRD VP K+LVC+ IQ YFRRRH Sbjct: 242 ARLLQTKVQEDLDAGRLQRVLPEWTANGYCAFLSTNYRDQVPQKVLVCVEHIQDYFRRRH 301 Query: 299 P 299 P Sbjct: 302 P 302 >gi|300310624|ref|YP_003774716.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 313 bits (803), Expect = 9e-87, Method: Compositional matrix adjust. Identities = 156/296 (52%), Positives = 207/296 (69%), Gaps = 2/296 (0%) Query: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAILGTTLLHRTTRK 60 M+ +D L RM F+RVVELGAFS+AA+ LGLT+SSVSQH+ ALE L TLL+R+TRK Sbjct: 1 MRKLGIDDLARMATFARVVELGAFSRAAKALGLTTSSVSQHVRALELSLQATLLNRSTRK 60 Query: 61 LCLTEAGQGFYAHCARIVALANEARENTESLHKELVGELRIAASSFMASEYLVPALEEFI 120 L LTEAG FY HCA IV A+EA ++ L+ E+VGE+RIA SSFM+++YL+PAL +FI Sbjct: 61 LSLTEAGTLFYKHCAHIVTAASEAEQSIAVLNNEMVGEVRIAVSSFMSTKYLIPALHDFI 120 Query: 121 RSHPQLKINIDVNDHNVDLMDKSVDLALRVGKLPGAGDIALARLEAVLCASPAYLQRQPP 180 R +P++++ ++V D+NVDL+++ +DLALR G+ GDI L R VLCASP+YL +PP Sbjct: 121 RHNPKVRLRLEVADNNVDLIEQRIDLALRAGRNRQPGDIFLGRFSDVLCASPSYLAVRPP 180 Query: 181 IRRPEDLLMHHFLFFTPVG--VDLTLRNRVGHCAQLRLTPSIAVNHARSLRKLVLQGHGV 238 I P DLL H FL F P G L N ++RL P I+ NHARSLR L L GHG+ Sbjct: 181 IHSPVDLLHHDFLLFNPHGEPCFLEFSNAASGTVRVRLQPRISANHARSLRYLALDGHGI 240 Query: 239 ARMLKSKVQDDLDAGRLQVVLPDWSPDSYCAFITTKYRDAVPAKILVCIAQIQAYF 294 R+L+ K+ DDL AGRL VLPDW+ + ++T ++RD +P K+ C+ IQ YF Sbjct: 241 TRLLECKIDDDLRAGRLVQVLPDWTLGGFDVYVTVRHRDNMPLKVRQCLEHIQHYF 296 >gi|300311233|ref|YP_003775325.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 142 bits (358), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 90/277 (32%), Positives = 145/277 (52%), Gaps = 4/277 (1%) Query: 3 NNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAILGTTLLHRTTRKLC 62 N ++ L M +F++VVE G+FS+AAR+LG T S++S+ I+ LE LGT LL RTTRKL Sbjct: 4 NQSIALLNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLR 63 Query: 63 LTEAGQGFYAHCARIVALANEARENTESLHKELVGELRIAASSFMASEYLVPALEEFIRS 122 L+E+GQ +A C ++ A + + E G++R++ + + P + +F+ + Sbjct: 64 LSESGQDIHARCRDMLNAAQAVLAVSGAFDAEPQGQVRVSVPKAVGHALVHPHVPDFLAA 123 Query: 123 HPQLKINIDVNDHNVDLMDKSVDLALRVGKLPGAGDIA--LARLEAVLCASPAYLQRQPP 180 HP++ + + + D +DL+D VDLA+R+ P G + L R++ +LCA+P YL Sbjct: 124 HPKVDVLLRLEDRYMDLIDDEVDLAIRITDHPPPGLMGRRLMRIDHLLCATPHYLATHGT 183 Query: 181 IRRPEDLLMHHFLFFTPVGVDLTLR-NRVGHCAQLRLTPSIAVNHARSLRKLVLQGHGVA 239 P+ L H ++ D R R G + + A NH VL+ G+A Sbjct: 184 PAHPQALKEHSCIYLGESPADARWRFRRQGKSVNVEVRGRYAANHTGVRLDAVLRHLGIA 243 Query: 240 RMLKSKVQDDLDAGRLQVVLPDWSPDS-YCAFITTKY 275 + + L+ G L VLP WS + YC + Y Sbjct: 244 SLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALY 280 >gi|300311868|ref|YP_003775960.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 139 bits (349), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 99/285 (34%), Positives = 142/285 (49%), Gaps = 7/285 (2%) Query: 6 MDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAILGTTLLHRTTRKLCLTE 65 M L + IF RV EL +FS AAR+LGL ++SVS I LE +LGT LL RTTR++ LT Sbjct: 1 MHQLDTLRIFQRVAELASFSGAARQLGLPNASVSLAIQQLEQMLGTRLLQRTTRRVQLTA 60 Query: 66 AGQGFYAHCARIVALANEARENTESLHKELVGELRIAASSFMASEYLVPALEEFIRSHPQ 125 G+ FY ++ R + L G LR+ SS MA E ++PAL F+ HPQ Sbjct: 61 DGEAFYRRSRELLDEFESLRGMFHDGAQALSGRLRVDMSSAMAREVVLPALPSFLDKHPQ 120 Query: 126 LKINIDVNDHNVDLMDKSVDLALRVGKLPGAGDIA--LARLEAVLCASPAYLQRQPPIRR 183 L+I + +D VDL+ + D LR G L + +A + L + CASP YL+R + Sbjct: 121 LEIELSASDRRVDLVAEGFDCVLRTGTLDDSSLVARPIGHLVQINCASPEYLRRYGTPQT 180 Query: 184 PEDLLMHHFLFFTPVGVDLTLRNRVGHCAQLRLTP---SIAVNHARSLRKLVLQGHGVAR 240 EDL H + + V + Q R P SI VN + L G G+ + Sbjct: 181 LEDLAQHRLVHYRQVLGGRSPGWEWFDGQQTRSLPMAGSITVNSTETYYAACLAGLGLIQ 240 Query: 241 --MLKSKVQDDLDAGRLQVVLPDWSPDSYCAFITTKYRDAVPAKI 283 ++ ++ + LD G + VLP + P + R VPA++ Sbjct: 241 LPLVGAQKRQMLDGGHVVEVLPQYRPAPMPVSLLYASRRHVPARL 285 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 0.324 0.137 0.401 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: 940,640 Number of extensions: 38086 Number of successful extensions: 279 Number of sequences better than 1.0e-08: 59 Number of HSP's gapped: 219 Number of HSP's successfully gapped: 59 Length of query: 308 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 223 Effective length of database: 1,217,395 Effective search space: 271479085 Effective search space used: 271479085 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 (21.5 bits) S2: 130 (54.7 bits)