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= 0207.0034.p (320 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 515 e-147 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 78 1e-15 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 69 5e-13 gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasm... 62 7e-11 gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm... 57 2e-09 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 515 bits (1326), Expect = e-147, Method: Compositional matrix adjust. Identities = 264/317 (83%), Positives = 285/317 (89%), Gaps = 3/317 (0%) Query: 1 MNKRIRLKLIAAAVLVCALPALPVLAQAQTAAKPKVALVMKSLANEFFLTMENGAKEHQK 60 MNK R + A A L CA+ LP A AQT AKPKVALVMKSLANEFFL MENGA+E+QK Sbjct: 1 MNKFTR-RHFAIAALACAV--LPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQK 57 Query: 61 AHAAQYDLIANGIKDEQDTANQIKIVEQMIVSKVSGLVIAPADSKALVPVIKKAIDAGII 120 A+A+++DLIANGIKDEQDTANQIKIVEQMIVSKV+ LVIAPADSKALVPV+KKAIDAGII Sbjct: 58 ANASKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGII 117 Query: 121 VVNIDNKFDDAALKEKGITVPFVGPDNRKGAKLVGDFLAKQIKSGDKVAIIEGVSTTFNA 180 VVNIDNK DDAALKEKGITVPFVGPDNRKGAKL GD+L KQ++ GDKVAIIEGVSTTFNA Sbjct: 118 VVNIDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNA 177 Query: 181 QQRTLGFQDAMGAAGAKVVSVQSGQWEIDPGNKVAASMLNANPDIKAILAGNDNMALGAV 240 QQRTLGFQDAM GA VV+VQSGQWEID GNKVAAS+LNA+PDIKAILAGNDNMALGAV Sbjct: 178 QQRTLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAV 237 Query: 241 AAVKAAGKTGKVLVVGYDNINAIKPMLKDGRVLATADQFASQQAVFGIETVLKALAEKKP 300 AA++AAGKTGKV +VGYDNINAIKPMLKDGRVLAT DQFA QQAVFGIET LKAL+EKKP Sbjct: 238 AAIRAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKALSEKKP 297 Query: 301 QSSLSGAVETKVQLVTK 317 QS+L G VETKV LVTK Sbjct: 298 QSALGGVVETKVSLVTK 314 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 82/266 (30%), Positives = 128/266 (48%), Gaps = 18/266 (6%) Query: 8 KLIAAAV-LVCALPALPVLAQAQTAAKPKVALVMKSLANEFFLTMENGAKEHQKAHAAQY 66 KL+ AA+ L A+ A AQAQ A P L+ K ++F+ ++ GA + K + + Sbjct: 5 KLLGAALGLAFAMGA--SAAQAQEAYIP---LISKGFQHQFWQAVKAGADQAGKDYKVK- 58 Query: 67 DLIANGIKDEQDTANQIKIVEQMIVSKVSGLVIAPADSKALVPVIKKAIDAGIIVVNIDN 126 + G + E QI ++ + K + A DSKA +P++KKA A I VV D+ Sbjct: 59 -VTFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDS 117 Query: 127 KFDDAALKEKGITVPFVGPDNRKGAKLVGDFLAKQIKSGDKVAIIEGVSTTFNAQQRTLG 186 D I V DNR A L D +A+ + +VA++ T+ R G Sbjct: 118 GVDS------DIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDG 171 Query: 187 FQDAMGAAGAK--VVSVQSGQWEIDPGNKVAASMLNANPDIKAILAGNDNMALGAVAAVK 244 F + + +A K VVSVQ G + +V S+L A P IK I N+ A+G V VK Sbjct: 172 FLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVK 231 Query: 245 AAGKTGKVLVVGYDNINAIKPMLKDG 270 + K++++GYD+ K +++G Sbjct: 232 EMKR--KIIIIGYDSGKQQKDAIREG 255 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 68.9 bits (167), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 81/291 (27%), Positives = 132/291 (45%), Gaps = 17/291 (5%) Query: 28 AQTAAKPKVALVMKSLANEFFLTMENGAKEHQKAHAAQYDLIANGIKDEQDTANQIKIVE 87 AQ +K K+ + + + N +F++M+ E K+ A+ +IA + A QI +E Sbjct: 20 AQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAK--VIAT--DAAHNVAKQIADIE 75 Query: 88 QMIVSKVSGLVIAPADSKALVPVIKKAIDAGIIVVNIDNKFDDAALKEKGITVPFVGPDN 147 M+ + L+I P DS + +K A +IVV +D G FVG N Sbjct: 76 DMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVD-------ANASGPVDMFVGSKN 128 Query: 148 RKGAKLVGDFLAKQIKSGDKVAIIEGVSTTFNAQQRTLGFQDAMGAA-GAKVVSVQSGQW 206 + LA I +VAI++G+ QR G + A+ K+V+ Q+G+ Sbjct: 129 KDAGYQSCRALADAIGGKGEVAILDGIPVV-PILQRVEGCKQALAEYKDIKLVATQNGRQ 187 Query: 207 EIDPGNKVAASMLNANPDIKAILAGNDNMALGAVAAVKAAGKTGKVLVVGYDNINAIKPM 266 + V +M+ + P++K I + ND A+GA+AA++ +GK K+ V A+K + Sbjct: 188 DRSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGKDIKLTSVD-GAPEAVKAI 246 Query: 267 LKDGRVLATADQFASQQAVFGIETVLKALAEKKPQSSLSGAVETKVQLVTK 317 G + T QF Q G+ ALA+K + V V VTK Sbjct: 247 ADGGPFVETTAQFPRDQVRVGLAM---ALAKKWGARVVPKEVPIDVMPVTK 294 >gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 62.0 bits (149), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 77/279 (27%), Positives = 121/279 (43%), Gaps = 42/279 (15%) Query: 33 KPKVALVMKSLANEFFLTMENGAKEHQKAHAAQYDLIANGIKDEQDTANQIKIVEQMIVS 92 K ++A+V+KSL N FF GAKE + ++I G QI+IV +I Sbjct: 38 KVRIAMVVKSLGNGFFDAAHEGAKEAAR-ELGDVEVIYTG-PTTPTAEGQIEIVNSLISQ 95 Query: 93 KVSGLVIAPADSKALVPVIKKAIDAGIIVVNIDNKFDDAALKEKGITVPFVGPDNRKGAK 152 KV +VI+ D+ ALVP+ K+A+ G+ V++ D+ KG + + P N A+ Sbjct: 96 KVDAIVISANDANALVPITKRAMQRGVKVLSFDSGI------AKGGRLMQLNPSN---AE 146 Query: 153 LVG----DFLAKQIKSGDKVAIIEGVSTTFNAQQRTLGFQDAMGA---AGAKVVSVQSGQ 205 L+G A+ I VAI+ + N + A+ + K+V+ G Sbjct: 147 LIGLKQIQMAAEAIGGAGDVAILSATAQATNQNIWIGEMKKALARPEFSRMKLVATVYGD 206 Query: 206 WEIDPGNKVAASMLNANPDIKAILAGNDNMALGAVAAVKAAGK-------TGKVLVVGYD 258 + D + A +L ++P +KAI+A + AAGK GKV V G Sbjct: 207 DQSDKSYREAIGLLRSHPGLKAIIAPT-------TVGINAAGKAVVDEKLVGKVYVTGLG 259 Query: 259 NINAIKPMLKDGRV----------LATADQFASQQAVFG 287 + + +K G V L A +A+ Q V G Sbjct: 260 LPSEMAGHVKSGAVKSFAIWNPIDLGYAATYAAYQFVKG 298 >gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 81/272 (29%), Positives = 116/272 (42%), Gaps = 42/272 (15%) Query: 1 MNKRIRLKLIAAAVLVCALPALPVLAQAQTAAKP-KVALVMKSLANEFFLTMENGAKEHQ 59 MNK+ +A VLV AL A+ + Q KP + V+K +F ME G KE Sbjct: 2 MNKK------SACVLVSALAAVGFASALQAQNKPIDIVTVVKITGISWFNRMEVGVKEF- 54 Query: 60 KAHAAQYDLIANGIKDEQ-DTANQIKIVEQMIVSKVSGLVIAPADSKALVPVIKKAIDAG 118 AA + I Q D A Q ++VE ++ KV + + D L PV+K+A+D G Sbjct: 55 --AAANPGVTTRQIGPAQSDAAQQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRG 112 Query: 119 IIVVNIDNKFDDAALKEKGITVPFVGPDNR-KGAKLVGDFLAKQIKSGDKVAIIEGVSTT 177 I VV + A +K V DN GA+L D++A G + Sbjct: 113 IKVVTHE------ADNQKNTLVDIEAFDNTAYGARL-----------NDRLAACMGQAGK 155 Query: 178 FNAQQRTLGFQDAM-----GAAGA-----KVVSVQSGQWEIDPGNKVAA---SMLNANPD 224 +++ +LG Q + GAA A K+ V + + K A +L +PD Sbjct: 156 WSSLVGSLGSQSQVQWADGGAANAAKKYPKMTLVDAKNESANDAEKAYAKAKEILRKHPD 215 Query: 225 IKAILAGNDNMALGAVAAVKAAGKTGKVLVVG 256 IK + LG AV+ AG GKV V G Sbjct: 216 IKGFQGSSSLDVLGIGRAVEEAGLQGKVCVYG 247 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 0.315 0.130 0.348 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: 742,944 Number of extensions: 26881 Number of successful extensions: 165 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 164 Number of HSP's successfully gapped: 9 Length of query: 320 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 235 Effective length of database: 1,217,395 Effective search space: 286087825 Effective search space used: 286087825 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 (21.6 bits) S2: 130 (54.7 bits)