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= 0001.4101.p (290 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 498 e-142 gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 151 5e-38 gi|300310273|ref|YP_003774365.1| AraC family transcription regul... 142 2e-35 gi|300310311|ref|YP_003774403.1| AraC family transcription regul... 135 4e-33 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 498 bits (1282), Expect = e-142, Method: Compositional matrix adjust. Identities = 254/298 (85%), Positives = 265/298 (88%), Gaps = 8/298 (2%) Query: 1 MTTLYASLIEHDPDRLSAAVTALRVYTNHNERETPLHSHRKGQLVVALHGAVTCETTQGM 60 M TLYASL+EHDPDRL AAVTALRV+T+ +ERETPLHSHRKGQLVVAL GAVTCET QGM Sbjct: 1 MATLYASLVEHDPDRLDAAVTALRVHTSQDERETPLHSHRKGQLVVALRGAVTCETAQGM 60 Query: 61 WIVPPQSAVWIPPGVPHSNRVTPDGQLCFLFIAPHATSLPDHCCTLALTPLLVQMICHLA 120 WIVPPQSAVWIPPGVPHSNRVT DGQLCFLFIAP A S+P+ CCTLAL+PLLVQMICHLA Sbjct: 61 WIVPPQSAVWIPPGVPHSNRVTLDGQLCFLFIAPQAASMPEQCCTLALSPLLVQMICHLA 120 Query: 121 ELPQDYAPHERTARLAAVLVEELESSQRHVLPLHLPMPQHWRLREIARHLSEHPADRSTV 180 E QDYAPHERTARLAAVLVEELE SQRH LPLHLP PQH RLR IARHL+EHPADR TV Sbjct: 121 EQRQDYAPHERTARLAAVLVEELEHSQRHALPLHLPAPQHSRLRAIARHLAEHPADRRTV 180 Query: 181 AEWGQRHAMSERSFARFVQAETGMSFGRWRRQIHLMLALQRLASGSSVQRVSQDLGYDSV 240 A+WGQRHAMSERSFARFVQAETGMSFGRWRRQIHLMLALQRLASGSSVQRVSQDLGYDSV Sbjct: 181 AQWGQRHAMSERSFARFVQAETGMSFGRWRRQIHLMLALQRLASGSSVQRVSQDLGYDSV 240 Query: 241 SAFITMFKKTLGKPPARYMAQRQA--------PPAPTPAARSAAPYFQPLRPTSWKPN 290 SAFITMF+KTLGKPPARYMAQRQA PP P A +AAPYFQP R SWKPN Sbjct: 241 SAFITMFRKTLGKPPARYMAQRQAQRQAPPAVPPPSVPPAHAAAPYFQPTRQASWKPN 298 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 151 bits (382), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 88/240 (36%), Positives = 129/240 (53%), Gaps = 4/240 (1%) Query: 14 DRLSAAVTALRVYTNHNERETPLHSHRKGQLVVALHGAVTCETTQGMWIVPPQSAVWIPP 73 D ++ V A H + P HSHR+ QL+ L G + T G W+VPPQ AVWIP Sbjct: 20 DGIARPVVAAGAQYRHGAVQ-PWHSHRRAQLLYGLSGLMQVITADGAWVVPPQHAVWIPS 78 Query: 74 GVPHSNRVTPDGQLCFLFIAP-HATSLPDHCCTLALTPLLVQMICHLAELPQDYAPHERT 132 G H +R+ C FI P HA + C LA+ PLL +++ + Y H R Sbjct: 79 GREHQSRMLQAVTTCSAFIEPEHAPRVASSCQVLAVRPLLRELLIEATRMDPHYVLHSRE 138 Query: 133 ARLAAVLVEELESSQRHVLPLHLPMPQHWRLREIARHLSEHPADRSTVAEWGQRHAMSER 192 L +L++E+ ++ +P H+P+P RL E+ P+ RS A+W + +SER Sbjct: 139 ENLIRLLLDEIGRAEE--IPAHVPLPPEPRLGELCHRFLAAPSIRSGPAQWALQLHISER 196 Query: 193 SFARFVQAETGMSFGRWRRQIHLMLALQRLASGSSVQRVSQDLGYDSVSAFITMFKKTLG 252 +F+R A+TGM F +WR + +M A+ RLA G V ++ DLGY+ +AF TMF+K G Sbjct: 197 TFSRRFLAQTGMGFQQWRLRACVMYAISRLALGQPVTTIAYDLGYERPAAFSTMFRKMTG 256 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 142 bits (359), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 84/234 (35%), Positives = 128/234 (54%), Gaps = 6/234 (2%) Query: 34 TPLHSHRKGQLVVALHGAVTCETTQGMWIVPPQSAVWIPPGVPHSNRVTPDGQLCFLFIA 93 P+H H +G L+ A G + + G W+VPP +AVW+ GV HS + Q LF+ Sbjct: 38 VPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLAMPVTLQAYGLFVR 97 Query: 94 PHATS-LPDHCCTLALTPLLVQMICHLAELPQDYAPHERTARLAAVLVEELESSQRHVLP 152 + LP C + ++PLL ++I LA+ ++ +R L A+++EE+ + + LP Sbjct: 98 QDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALVMEEVLT--QPTLP 155 Query: 153 LHLPMPQHWRLREIAR---HLSEHPADRSTVAEWGQRHAMSERSFARFVQAETGMSFGRW 209 HLP P +AR L + P D +T AEW R AM +++F R TGM+FG+W Sbjct: 156 FHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRFLQSTGMTFGKW 215 Query: 210 RRQIHLMLALQRLASGSSVQRVSQDLGYDSVSAFITMFKKTLGKPPARYMAQRQ 263 R+Q+ LM +L L G + +V+ GYDS SA+ T F K GKPP+ + R+ Sbjct: 216 RQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAFFPARE 269 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 135 bits (340), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 84/228 (36%), Positives = 123/228 (53%), Gaps = 4/228 (1%) Query: 37 HSHRKGQLVVALHGAVTCETTQGMWIVPPQSAVWIPPGVPHSNRVTPDGQLCFLFIA-PH 95 HSHR+GQL+ A+ G + T QG+W+VPP A+W+PP V H + + L+I Sbjct: 40 HSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALWVPPQVEHEILMLSKVSMRTLYINQAQ 99 Query: 96 ATSLPDHCCTLALTPLLVQMICHLAELPQDYAPHERTARLAAVLVEELESSQRHVLPLHL 155 L + C L ++ LL ++I L P+DYAP R +A +++ EL + +P+ + Sbjct: 100 GRELGEQCRLLEVSVLLRELILALLAEPRDYAPQSRAGHVAELILSELARAP--AIPVAI 157 Query: 156 PMPQHWRLREIARHLSEHPADRSTVAEWGQRHAMSERSFARFVQAETGMSFGRWRRQIHL 215 P P RL+ I + P + ++A+W S R+ R ETG+ F W +Q+HL Sbjct: 158 PWPGDRRLQAICEAILADPGRQFSLADWAGMGGASVRTVIRLFPKETGLQFRHWVQQVHL 217 Query: 216 MLALQRLASGSSVQRVSQDLGYDSVSAFITMFKKTLGKPPARYMAQRQ 263 AL RL+ G V V+Q LGY S SAF MF+K L P Y+ QRQ Sbjct: 218 SEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKALRTTPNHYL-QRQ 264 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 0.132 0.418 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: 897,429 Number of extensions: 35338 Number of successful extensions: 155 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 152 Number of HSP's successfully gapped: 5 Length of query: 290 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 206 Effective length of database: 1,222,130 Effective search space: 251758780 Effective search space used: 251758780 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)