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= 0013.0034.p (310 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... 608 e-175 gi|300313720|ref|YP_003777812.1| LysR family transcription regul... 429 e-121 gi|300310624|ref|YP_003774716.1| transcription regulator protein... 327 5e-91 gi|300311233|ref|YP_003775325.1| LysR family transcription regul... 154 1e-38 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 147 7e-37 >gi|300310278|ref|YP_003774370.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 608 bits (1569), Expect = e-175, Method: Compositional matrix adjust. Identities = 300/313 (95%), Positives = 303/313 (96%), Gaps = 3/313 (0%) Query: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRK 60 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRK Sbjct: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRK 60 Query: 61 LSLTEAGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFI 120 LSLTEAGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFI Sbjct: 61 LSLTEAGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFI 120 Query: 121 RAHPRLRINIDVNDHNIDLMDKSVDLALRVGKMPGENDVYLASLPAVLCASPAYLRAHAP 180 RAHP+LRINIDVNDHNIDLMDKSVDLALRVGK ENDVYLASLPAVLCASPAYLRAHAP Sbjct: 121 RAHPKLRINIDVNDHNIDLMDKSVDLALRVGKTSSENDVYLASLPAVLCASPAYLRAHAP 180 Query: 181 IRHPEDLPQHDFLFFTPHGSSVEVNLRNRGGQCAQLRLTPRVSANHARSLRRLALQGHGV 240 IRHPEDLPQHDFLFFTPHGSSVEV+L+NRGGQCAQL LTPRVSANHARSLRRLALQGHGV Sbjct: 181 IRHPEDLPQHDFLFFTPHGSSVEVSLKNRGGQCAQLHLTPRVSANHARSLRRLALQGHGV 240 Query: 241 ARLLACKVQEDLDAGRLEVVLPDWELDVYCAFLTTKYRESPPQKIVKCIEHLEAYFRRRH 300 ARLLACKVQEDLDAGRLEVVLPDWELDVYCAFLTTKYRESPPQKIVKCIEHLEAYFR RH Sbjct: 241 ARLLACKVQEDLDAGRLEVVLPDWELDVYCAFLTTKYRESPPQKIVKCIEHLEAYFRSRH 300 Query: 301 PAPADHA---DPA 310 PAPA A DPA Sbjct: 301 PAPASPANATDPA 313 >gi|300313720|ref|YP_003777812.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 429 bits (1102), Expect = e-121, Method: Compositional matrix adjust. Identities = 212/301 (70%), Positives = 254/301 (84%) Query: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRK 60 +KN+ MDYLPRMVIFSRVVE+G+FS AA LGL+SSSVSQHISALEA +G TLLHRTTRK Sbjct: 2 IKNDVMDYLPRMVIFSRVVEMGSFSGAASALGLSSSSVSQHISALEAAMGMTLLHRTTRK 61 Query: 61 LSLTEAGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFI 120 LSLTEAG +FYANC+RIV LA+EARQ E+LHKE++GELRIA SSFMASEYLVPAL+ I Sbjct: 62 LSLTEAGQTFYANCARIVVLANEARQTAENLHKEVVGELRIATSSFMASEYLVPALEGLI 121 Query: 121 RAHPRLRINIDVNDHNIDLMDKSVDLALRVGKMPGENDVYLASLPAVLCASPAYLRAHAP 180 + +P+LRINIDVNDHN+DLM+K VD+ALR GK PG DV+LA L +VLCA+PAYL+ AP Sbjct: 122 QQYPKLRINIDVNDHNVDLMEKGVDIALRAGKAPGPEDVFLAPLESVLCAAPAYLQRSAP 181 Query: 181 IRHPEDLPQHDFLFFTPHGSSVEVNLRNRGGQCAQLRLTPRVSANHARSLRRLALQGHGV 240 IR PEDL H+F+FFTP GS++E+ LR+R GQ Q+RLTPR+S NH SL +L LQGHGV Sbjct: 182 IRTPEDLMGHEFMFFTPLGSTMELGLRDRHGQQVQMRLTPRISVNHTHSLHKLTLQGHGV 241 Query: 241 ARLLACKVQEDLDAGRLEVVLPDWELDVYCAFLTTKYRESPPQKIVKCIEHLEAYFRRRH 300 ARLL KVQEDLDAGRL+ VLP+W + YCAFL+T YR+ PQK++ C+EH++ YFRRRH Sbjct: 242 ARLLQTKVQEDLDAGRLQRVLPEWTANGYCAFLSTNYRDQVPQKVLVCVEHIQDYFRRRH 301 Query: 301 P 301 P Sbjct: 302 P 302 >gi|300310624|ref|YP_003774716.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 327 bits (839), Expect = 5e-91, Method: Compositional matrix adjust. Identities = 162/310 (52%), Positives = 216/310 (69%) Query: 1 MKNNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRK 60 M+ +D L RM F+RVVELGAFS+AA+ LGLT+SSVSQH+ ALE L TLL+R+TRK Sbjct: 1 MRKLGIDDLARMATFARVVELGAFSRAAKALGLTTSSVSQHVRALELSLQATLLNRSTRK 60 Query: 61 LSLTEAGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFI 120 LSLTEAG FY +C+ IV ASEA Q L+ E++GE+RIA SSFM+++YL+PAL DFI Sbjct: 61 LSLTEAGTLFYKHCAHIVTAASEAEQSIAVLNNEMVGEVRIAVSSFMSTKYLIPALHDFI 120 Query: 121 RAHPRLRINIDVNDHNIDLMDKSVDLALRVGKMPGENDVYLASLPAVLCASPAYLRAHAP 180 R +P++R+ ++V D+N+DL+++ +DLALR G+ D++L VLCASP+YL P Sbjct: 121 RHNPKVRLRLEVADNNVDLIEQRIDLALRAGRNRQPGDIFLGRFSDVLCASPSYLAVRPP 180 Query: 181 IRHPEDLPQHDFLFFTPHGSSVEVNLRNRGGQCAQLRLTPRVSANHARSLRRLALQGHGV 240 I P DL HDFL F PHG + N ++RL PR+SANHARSLR LAL GHG+ Sbjct: 181 IHSPVDLLHHDFLLFNPHGEPCFLEFSNAASGTVRVRLQPRISANHARSLRYLALDGHGI 240 Query: 241 ARLLACKVQEDLDAGRLEVVLPDWELDVYCAFLTTKYRESPPQKIVKCIEHLEAYFRRRH 300 RLL CK+ +DL AGRL VLPDW L + ++T ++R++ P K+ +C+EH++ YF Sbjct: 241 TRLLECKIDDDLRAGRLVQVLPDWTLGGFDVYVTVRHRDNMPLKVRQCLEHIQHYFEVVL 300 Query: 301 PAPADHADPA 310 P A A PA Sbjct: 301 PLNAVAAAPA 310 >gi|300311233|ref|YP_003775325.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 154 bits (389), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 95/287 (33%), Positives = 150/287 (52%), Gaps = 7/287 (2%) Query: 3 NNAMDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRKLS 62 N ++ L M +F++VVE G+FS+AAR+LG T S++S+ I+ LE LGT LL RTTRKL Sbjct: 4 NQSIALLNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLR 63 Query: 63 LTEAGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFIRA 122 L+E+G +A C +++ A ++ + E G++R++ + + P + DF+ A Sbjct: 64 LSESGQDIHARCRDMLNAAQAVLAVSGAFDAEPQGQVRVSVPKAVGHALVHPHVPDFLAA 123 Query: 123 HPRLRINIDVNDHNIDLMDKSVDLALRVGKM--PGENDVYLASLPAVLCASPAYLRAHAP 180 HP++ + + + D +DL+D VDLA+R+ PG L + +LCA+P YL H Sbjct: 124 HPKVDVLLRLEDRYMDLIDDEVDLAIRITDHPPPGLMGRRLMRIDHLLCATPHYLATHGT 183 Query: 181 IRHPEDLPQHDFLFFTPHGSSVEVNLRNRGGQCAQLRLTPRVSANHARSLRRLALQGHGV 240 HP+ L +H ++ + R R G+ + + R +ANH L+ G+ Sbjct: 184 PAHPQALKEHSCIYLGESPADARWRFR-RQGKSVNVEVRGRYAANHTGVRLDAVLRHLGI 242 Query: 241 ARLLACKVQEDLDAGRLEVVLPDWELDV-YCAFLTTKY---RESPPQ 283 A L + L+ G L VLP W YC L Y R PP+ Sbjct: 243 ASLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALYPATRHLPPR 289 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 147 bits (372), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 98/300 (32%), Positives = 158/300 (52%), Gaps = 9/300 (3%) Query: 6 MDYLPRMVIFSRVVELGAFSKAARELGLTSSSVSQHISALEAMLGTTLLHRTTRKLSLTE 65 M+ L + F V +LG+F KAA LG++ ++VS+ + LEA LG+ L+ RTTR+LSLTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 66 AGHSFYANCSRIVDLASEARQLTESLHKELLGELRIAASSFMASEYLVPALDDFIRAHPR 125 AG + C +IV EA L S + G LRI A +L P F+ HP Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 126 LRINIDVNDHNIDLMDKSVDLALRVGKMPGENDVY--LASLPAVLCASPAYLRAHAPIRH 183 + ++I ++D +D++D+ D+A+R+ ++ V+ L S +CASPAYL AH H Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 184 PEDLPQHDFLFFTPHGSSVEVNLRNRGGQCAQLRLTPRVSANHARSLRRLALQGHGVARL 243 P +L QH + ++ + S E G + +R++ R+ N+ S + AL G G+ R Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVS-VRVSSRLHVNNGDSCVQAALGGIGITRQ 239 Query: 244 LACKVQEDLDAGRLEVVLPDW---ELDVYCAFLTTKYRESPPQKIVKCIEHLEAYFRRRH 300 + + L +G+L +L D+ EL +Y + + R P K+ ++ L F + H Sbjct: 240 PTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPS---RAHLPAKMRAMLDFLTEAFAQVH 296 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 0.322 0.135 0.398 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: 883,811 Number of extensions: 35756 Number of successful extensions: 234 Number of sequences better than 1.0e-08: 55 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 55 Length of query: 310 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 225 Effective length of database: 1,217,395 Effective search space: 273913875 Effective search space used: 273913875 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)