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= 0017.0032.p (915 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312715|ref|YP_003776807.1| lytic murein transglycosylase [... 803 0.0 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 506 e-144 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 78 3e-15 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 67 6e-12 gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasm... 64 4e-11 >gi|300312715|ref|YP_003776807.1| lytic murein transglycosylase [Herbaspirillum seropedicae SmR1] Length = 509 Score = 803 bits (2075), Expect = 0.0, Method: Compositional matrix adjust. Identities = 383/445 (86%), Positives = 413/445 (92%), Gaps = 2/445 (0%) Query: 1 LAIATLFSLGTPLLAHANDISIYPAAFNAINPNDPSSALPGMEDIDIWARIRKGFGIPDL 60 LAIA LF G PLL++ANDISIYPA FNAINP +ALPGM DIDIW RIRKGFGIPDL Sbjct: 8 LAIAALFCAGAPLLSYANDISIYPAPFNAINPELAGNALPGMNDIDIWTRIRKGFGIPDL 67 Query: 61 ENPLVDNQTQWYSSRPDYIQRTTVRASRYLFHVVQELEKRGMPTELALLPFIESAFNPQA 120 +N LV++QTQWYSSRPDYIQRTTVRASRYLFHVVQELEKRGMPTELALLPFIESAFNP+A Sbjct: 68 DNSLVESQTQWYSSRPDYIQRTTVRASRYLFHVVQELEKRGMPTELALLPFIESAFNPEA 127 Query: 121 LSTAKAAGMWQFIPSTGRDYNLKQNLFTDERRDVLASTDAALTYLQKLYGMFGDWQLALA 180 LSTAKAAGMWQFIPSTGRDYNLKQN+FTDERRDVLASTDAALTYLQKLYGMFGDWQLALA Sbjct: 128 LSTAKAAGMWQFIPSTGRDYNLKQNMFTDERRDVLASTDAALTYLQKLYGMFGDWQLALA 187 Query: 181 AYNWGEGSVQRAVNRNLAAGLPIDFNTLSAQMPNETRNYVPKLQAVKNIIAVPGEFGIEL 240 AYNWGEGSVQRAVNRNLAAG+PIDFNTLSAQMPNETRNYVPKLQAVKNIIA P F I L Sbjct: 188 AYNWGEGSVQRAVNRNLAAGMPIDFNTLSAQMPNETRNYVPKLQAVKNIIANPAAFDIAL 247 Query: 241 PKVDNQPYFVTIGKTRNIDVKVAAQLAELSLDEFKALNPQFNRPVIIGGDDTKILLPESN 300 PKVDNQPYFVTIGKTRNIDVKVAAQLAELSLDEFKALNPQFNRPVIIGG+DTKILLPESN Sbjct: 248 PKVDNQPYFVTIGKTRNIDVKVAAQLAELSLDEFKALNPQFNRPVIIGGEDTKILLPESN 307 Query: 301 AEKFKTNISKFTQALSSWTSHTVSSARERIETIASRFGTTPDVIRSVNQIPPKMVLKAGS 360 AEKFK N+SK+TQA S+WT+HTVSSARERIETIAS+FGTTP+VIRSVNQIPP+MVLKAGS Sbjct: 308 AEKFKANMSKWTQAFSTWTAHTVSSARERIETIASKFGTTPEVIRSVNQIPPRMVLKAGS 367 Query: 361 MILVPKTETS--MEADITPEMANSARLAVAPDVPDFKRIYVKVGKRDTLASIAGRYRVSV 418 ILVPKTE + ++ D+TPE+A++ARLA+APDVP+ +RIYVK GKRDTLA IA RYRV+V Sbjct: 368 TILVPKTEETAALDTDLTPEIADNARLAIAPDVPETRRIYVKAGKRDTLAGIASRYRVTV 427 Query: 419 VQIKQWNSLRHDTLANGQSLQLQVP 443 QIK+WN L+ DTLA GQSLQLQVP Sbjct: 428 AQIKEWNGLKRDTLAAGQSLQLQVP 452 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 506 bits (1304), Expect = e-144, Method: Compositional matrix adjust. Identities = 261/317 (82%), Positives = 283/317 (89%), Gaps = 3/317 (0%) Query: 596 MNKRIRLKLIAAAVLACALPALPVLAQTQTAAKPKVALVMKSLANEFFLTMENGAKEHQK 655 MNK R + A A LACA+ LP A QT AKPKVALVMKSLANEFFL MENGA+E+QK Sbjct: 1 MNKFTR-RHFAIAALACAV--LPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQK 57 Query: 656 AHAAQYDLIANGIKDEQDTANQIKIVEQMIVSKVSGLVIAPADSKALVPVIKKAIDAGII 715 A+A+++DLIANGIKDEQDTANQIKIVEQMIVSKV+ LVIAPADSKALVPV+KKAIDAGII Sbjct: 58 ANASKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGII 117 Query: 716 VVNIDNKFDDAALKEKGITVPFVGPDNRKGAKLVGDFLAKQIKSGDKVAIIEGVSTTFNA 775 VVNIDNK DDAALKEKGITVPFVGPDNRKGAKL GD+L KQ++ GDKVAIIEGVSTTFNA Sbjct: 118 VVNIDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNA 177 Query: 776 QQRTLGFQDAMSAAGAKVVSVQSGQWEIDPGNKVAASMLNANPDIKAILAGNDNMALGAV 835 QQRTLGFQDAM GA VV+VQSGQWEID GNKVAAS+LNA+PDIKAILAGNDNMALGAV Sbjct: 178 QQRTLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAV 237 Query: 836 AAVKAAGKAGKVLVVGYDNINAIKPMLKDGRVLATADQFASQQAVFGIETVLKALADKKK 895 AA++AAGK GKV +VGYDNINAIKPMLKDGRVLAT DQFA QQAVFGIET LKAL++KK Sbjct: 238 AAIRAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKALSEKKP 297 Query: 896 QSSLSGAVETKVQLVTK 912 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 = 78.2 bits (191), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 82/266 (30%), Positives = 127/266 (47%), Gaps = 18/266 (6%) Query: 603 KLIAAAV-LACALPALPVLAQTQTAAKPKVALVMKSLANEFFLTMENGAKEHQKAHAAQY 661 KL+ AA+ LA A+ A AQ Q A P L+ K ++F+ ++ GA + K + + Sbjct: 5 KLLGAALGLAFAMGASA--AQAQEAYIP---LISKGFQHQFWQAVKAGADQAGKDYKVKV 59 Query: 662 DLIANGIKDEQDTANQIKIVEQMIVSKVSGLVIAPADSKALVPVIKKAIDAGIIVVNIDN 721 G + E QI ++ + K + A DSKA +P++KKA A I VV D+ Sbjct: 60 TF--EGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDS 117 Query: 722 KFDDAALKEKGITVPFVGPDNRKGAKLVGDFLAKQIKSGDKVAIIEGVSTTFNAQQRTLG 781 D I V DNR A L D +A+ + +VA++ T+ R G Sbjct: 118 GVDS------DIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDG 171 Query: 782 FQDAMSAA--GAKVVSVQSGQWEIDPGNKVAASMLNANPDIKAILAGNDNMALGAVAAVK 839 F + + +A KVVSVQ G + +V S+L A P IK I N+ A+G V VK Sbjct: 172 FLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVK 231 Query: 840 AAGKAGKVLVVGYDNINAIKPMLKDG 865 + 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 = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 73/266 (27%), Positives = 123/266 (46%), Gaps = 16/266 (6%) Query: 624 QTAAKPKVALVMKSLANEFFLTMENGAKEHQKAHAAQYDLIANGIKDEQDTANQIKIVEQ 683 Q +K K+ + + + N +F++M+ E K+ A+ +IA + A QI +E Sbjct: 21 QEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAK--VIAT--DAAHNVAKQIADIED 76 Query: 684 MIVSKVSGLVIAPADSKALVPVIKKAIDAGIIVVNIDNKFDDAALKEKGITVPFVGPDNR 743 M+ + L+I P DS + +K A +IVV +D G FVG N+ Sbjct: 77 MLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVD-------ANASGPVDMFVGSKNK 129 Query: 744 KGAKLVGDFLAKQIKSGDKVAIIEGVSTTFNAQQRTLGFQDAMSA-AGAKVVSVQSGQWE 802 LA I +VAI++G+ QR G + A++ K+V+ Q+G+ + Sbjct: 130 DAGYQSCRALADAIGGKGEVAILDGIPVV-PILQRVEGCKQALAEYKDIKLVATQNGRQD 188 Query: 803 IDPGNKVAASMLNANPDIKAILAGNDNMALGAVAAVKAAGKAGKVLVVGYDNI-NAIKPM 861 V +M+ + P++K I + ND A+GA+AA++ +GK K+ V D A+K + Sbjct: 189 RSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGKDIKLTSV--DGAPEAVKAI 246 Query: 862 LKDGRVLATADQFASQQAVFGIETVL 887 G + T QF Q G+ L Sbjct: 247 ADGGPFVETTAQFPRDQVRVGLAMAL 272 >gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 64.3 bits (155), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 72/254 (28%), Positives = 115/254 (45%), Gaps = 32/254 (12%) Query: 628 KPKVALVMKSLANEFFLTMENGAKEHQKAHAAQYDLIANGIKDEQDTANQIKIVEQMIVS 687 K ++A+V+KSL N FF GAKE + ++I G QI+IV +I Sbjct: 38 KVRIAMVVKSLGNGFFDAAHEGAKEAAR-ELGDVEVIYTG-PTTPTAEGQIEIVNSLISQ 95 Query: 688 KVSGLVIAPADSKALVPVIKKAIDAGIIVVNIDNKFDDAALKEKGITVPFVGPDNRKGAK 747 KV +VI+ D+ ALVP+ K+A+ G+ V++ D+ KG + + P N A+ Sbjct: 96 KVDAIVISANDANALVPITKRAMQRGVKVLSFDSGI------AKGGRLMQLNPSN---AE 146 Query: 748 LVG----DFLAKQIKSGDKVAIIEGVSTTFNAQQRTLGFQDAMSA---AGAKVVSVQSGQ 800 L+G A+ I VAI+ + N + A++ + K+V+ G Sbjct: 147 LIGLKQIQMAAEAIGGAGDVAILSATAQATNQNIWIGEMKKALARPEFSRMKLVATVYGD 206 Query: 801 WEIDPGNKVAASMLNANPDIKAILAGNDNMALGAVAAVKAAGKA-------GKVLVVGYD 853 + D + A +L ++P +KAI+A + AAGKA GKV V G Sbjct: 207 DQSDKSYREAIGLLRSHPGLKAIIAPT-------TVGINAAGKAVVDEKLVGKVYVTGLG 259 Query: 854 NINAIKPMLKDGRV 867 + + +K G V Sbjct: 260 LPSEMAGHVKSGAV 273 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 0.316 0.132 0.379 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: 2,529,657 Number of extensions: 98545 Number of successful extensions: 345 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 344 Number of HSP's successfully gapped: 10 Length of query: 915 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 821 Effective length of database: 1,174,780 Effective search space: 964494380 Effective search space used: 964494380 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: 135 (56.6 bits)