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= 0001.1520.p (261 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310974|ref|YP_003775066.1| transcription regulator protein... 504 e-144 gi|300309916|ref|YP_003774008.1| transcription regulator protein... 85 7e-18 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 79 3e-16 gi|300313062|ref|YP_003777154.1| IclR family transcription regul... 79 4e-16 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 74 2e-14 >gi|300310974|ref|YP_003775066.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 261 Score = 504 bits (1299), Expect = e-144, Method: Compositional matrix adjust. Identities = 251/262 (95%), Positives = 259/262 (98%), Gaps = 2/262 (0%) Query: 1 MKKEAAGETE-HISIQVIERMVSLLDALADYPDPVSLKELSAATELHPSTAHRILNDLVV 59 MKKEA GETE HISIQVIERMVSLLDALA YPDPVSLKELSAAT+LHPSTAHRILNDLVV Sbjct: 1 MKKEA-GETEQHISIQVIERMVSLLDALAAYPDPVSLKELSAATDLHPSTAHRILNDLVV 59 Query: 60 KRFVDRVEPGTYRLGMRLLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEI 119 KRFVDRVEPGTYRLGMRLLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEI Sbjct: 60 KRFVDRVEPGTYRLGMRLLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEI 119 Query: 120 VYIDRSFSERSGMQVVRAIGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSI 179 VYIDRSFSERSGMQVVRAIGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSI Sbjct: 120 VYIDRSFSERSGMQVVRAIGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSI 179 Query: 180 TDLAKLERELSMVRALGYARDNEELELGVRCMAAGICDDSGKLVAGLSISAPADRLQEDW 239 TDLAKLERELSMVRALGYARDNEELELGVRCMAAGICDDSGKLVAGLSISAPADRLQ++W Sbjct: 180 TDLAKLERELSMVRALGYARDNEELELGVRCMAAGICDDSGKLVAGLSISAPADRLQDEW 239 Query: 240 VDDLVSTANQISSALGYRKDQA 261 V+DLVSTA+QISSALGYR+D++ Sbjct: 240 VEDLVSTASQISSALGYRQDRS 261 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 84.7 bits (208), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 116/247 (46%), Gaps = 12/247 (4%) Query: 17 IERMVSLLDALADYPDPVSLKELSAATELHPSTAHRILNDLVVK-RFVDRVEPGTYRLGM 75 + + +L +AD P+++ +L+A + T +RIL L+ + V+ Y +G Sbjct: 20 FSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVENPRNKQYEVGP 79 Query: 76 RLLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEIVYIDRSFSERSGMQVV 135 RL+ L + R +R A++ +R L T +T++L+V +VYI++ S Q V Sbjct: 80 RLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEKLESP----QAV 135 Query: 136 RA---IGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSITDLAKLERELSMV 192 R IG R L+ +S GK +L+ + + L N+ T+LA L ++ Sbjct: 136 RMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAALRADVEDT 195 Query: 193 RALGYARDNEELELGVRCMAAGICDDSGKLVAGLSISAPADR----LQEDWVDDLVSTAN 248 RA GYA D EE E + C A I G VA +S+S P R Q+ +V L+ Sbjct: 196 RARGYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLPDAQQAYVQPLLQACA 255 Query: 249 QISSALG 255 IS L Sbjct: 256 TISRKLA 262 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 79.3 bits (194), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 120/223 (53%), Gaps = 6/223 (2%) Query: 15 QVIERMVSLLDALADYPDPVSLKELSAATELHPSTAHRILNDLVVKRFVDRVEPGT--YR 72 Q +E+ +++L A ++L ++++AT + S+A R+++ L ++ + P T Y+ Sbjct: 15 QSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICK-HPKTRRYQ 73 Query: 73 LGMRLLELG-NIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEIVYIDRSFSERSG 131 L +++E+G N + + + V + A F+ L T +T+NL+ E+VY+ R F Sbjct: 74 LTPKVMEVGYNYLAADILV-DVANPFLSELANITGETVNLTEPYDGEMVYVAR-FVASKF 131 Query: 132 MQVVRAIGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSITDLAKLERELSM 191 + + IG R P++ T++G+ +LS +P+ +A + H ++ TD+ + + L+ Sbjct: 132 IPIHMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAA 191 Query: 192 VRALGYARDNEELELGVRCMAAGICDDSGKLVAGLSISAPADR 234 R G+A + EEL LG +A+ + + K VA + + AP R Sbjct: 192 SRERGFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSR 234 >gi|300313062|ref|YP_003777154.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 79.0 bits (193), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 47/163 (28%), Positives = 85/163 (52%), Gaps = 7/163 (4%) Query: 71 YRLGMRLLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEIVYIDRSFSERS 130 + L RLL LG V A + F++ L ++ ++ N S+ DEIVY+ R + Sbjct: 73 FWLMPRLLNLGQSYLESARVPRAVVPFLQRLTQQLQESTNFSLLDGDEIVYVTRV----T 128 Query: 131 GMQVVRA---IGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSITDLAKLER 187 Q+V A G R P + T+ G++ L + + ++AY R L H ++TD A L + Sbjct: 129 AAQLVNAGFEPGTRLPAYTTTAGRVLLGMREDAEIQAYLERVNLIPHTHMAMTDKAALFQ 188 Query: 188 ELSMVRALGYARDNEELELGVRCMAAGICDDSGKLVAGLSISA 230 E+ +R GY + E+G+R +A + + +G+++ LS+++ Sbjct: 189 EILTMRRQGYGITENQFEMGMRGIAIAVKNRNGRVIGALSVTS 231 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 120/240 (50%), Gaps = 7/240 (2%) Query: 17 IERMVSLLDALADYPDPVSLKELSAATELHPSTAHRILNDLVVKRFVDRVEPGTYRLGMR 76 + R ++++ A +D +++ ++S T + + R L+ L + D + + L + Sbjct: 19 LARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYADS-DVNNFSLRPK 77 Query: 77 LLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEIVYIDRSFSERSGMQVVR 136 +L LG S + +A ++ + R ++ +L+V E++Y+ RS + R M V Sbjct: 78 ILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRV-MSVAL 136 Query: 137 AIGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSITDLAKLERELSMVRALG 196 G R P + TS G+ L+ ++AY + L + ++ +L L+ VRA G Sbjct: 137 NTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVRANG 196 Query: 197 YARDNEELELGVRCMAAGICDDSGKLVAGLSISAPADR-----LQEDWVDDLVSTANQIS 251 YA +EELE+G+R +A + SG ++A L++ A A R ++E+ + L+ A ++S Sbjct: 197 YAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPVLLRGAQELS 256 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 0.318 0.133 0.366 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: 756,359 Number of extensions: 29129 Number of successful extensions: 120 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 118 Number of HSP's successfully gapped: 7 Length of query: 261 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 178 Effective length of database: 1,226,865 Effective search space: 218381970 Effective search space used: 218381970 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 129 (54.3 bits)