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= 0013.0197.p (278 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 127 8e-31 gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/sign... 123 2e-29 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 122 3e-29 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 117 1e-27 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 108 5e-25 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 127 bits (320), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 79/246 (32%), Positives = 129/246 (52%), Gaps = 10/246 (4%) Query: 16 VALTLLPVAAHADKLDDIRKAGVLRVAAFDGNPPFGYVDATSKKIVGLDIDYANELGKKL 75 + L L AA AD+LDDI+KAG +R+A P FGY D ++ G D++ A L + L Sbjct: 17 LVLGLTAHAALADQLDDIKKAGKIRIATTSSTPLFGYSDE-KLQLAGSDVEAARLLAQDL 75 Query: 76 GVKVEIVPTNPANRIPLLSSNKVDLVFANFTITEDRAKVIDFSIPYFASGQQFLARKG-V 134 GV+++++P A R+P L +N+ D+V + +IT +R KVIDFS PY A K V Sbjct: 76 GVQLDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMV 135 Query: 135 LKNADGIKDIRVGTDKGTTMETTLREKYPDTKVVLYDDTPLGLAALRNGNIQAFSQDGSK 194 +K+ + R+G + T +T + +++ Y+D + ++ G + FS S Sbjct: 136 IKDYADLNGKRIGVTRATPNDTLTTQNAKGAEIMRYEDDATLITSMVTGQVDVFSSTPSN 195 Query: 195 LTAILAGLPDKD---KYEIPAFAISEEYEGVGVPKGEARLVSYLNDWLRDLEKNGTAQQI 251 L + P K+ K+E AF + G+ + K + RL +++ W++ KNG I Sbjct: 196 LQEMQKKAPGKNLEMKFEQKAFDL-----GIAINKNQPRLKEWIDGWVKTNMKNGKLNAI 250 Query: 252 YDKWFG 257 Y K+ G Sbjct: 251 YKKYHG 256 >gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 279 Score = 123 bits (308), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 122/251 (48%), Gaps = 9/251 (3%) Query: 20 LLPVAAHADKLDDIRKAGVLRVAAFDGNPPFGYVDATSKKIVGLDIDYANELGKKLGVKV 79 L P A AD+L +I+ G L A N P G+ D S+++VG D+D + ++LGV++ Sbjct: 23 LFPGLAQADRLAEIQARGTLVCATLANNEPLGFPDPQSRQVVGFDVDMCAAVARRLGVQM 82 Query: 80 EIVPTNPANRIPLLSSNKVDLVFANFTITEDRAKVIDFSIPYFASGQQFLARK-GVLKNA 138 E R+P L + DLV A T +RA+ IDF+ ++ + + + + L Sbjct: 83 EQKSVTVEGRLPALIEGQADLVSAALGYTRERARQIDFTASHYQNPIKLIVQSDSGLNLI 142 Query: 139 DGIKDIRVGTDKGTTMETTLREKYPDTKVVLYDDTPLGLAALRNGNIQAFS---QDGSKL 195 + D R+ ++ +T E +R P + + DTP AL G + G + Sbjct: 143 SDLADKRISANRSSTPEQAVRRVLPKAMLQTFADTPQAFLALAQGRADGLAISMPSGIRF 202 Query: 196 TAILAGLPDKDKYEIPAFAISEEYEGVGVPKGEARLVSYLNDWLRDLEKNGTAQQIYDKW 255 AG +++ A+S E +GV KGE RL +N L LEK+G ++ KW Sbjct: 203 VNESAG-----RFKFVEGALSWEPTALGVKKGERRLRDAVNAALAALEKDGEIDALWTKW 257 Query: 256 FGPQSKSPLPR 266 FGP++K +PR Sbjct: 258 FGPKTKFNIPR 268 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 92/244 (37%), Positives = 130/244 (53%), Gaps = 11/244 (4%) Query: 25 AHADKLDDIRKAGVLRVAAFDGNPPFGYVDATSKKIVGLDIDYANELGKKLGVKVEIVPT 84 A AD LDDI+K G LRVA PPFG VDA K GLDID A + KKLGVKVE++P Sbjct: 22 ARADALDDIQKHGTLRVAVPADFPPFGSVDADLKP-QGLDIDVATLIAKKLGVKVELIPV 80 Query: 85 NPANRIPLLSSNKVDLVFANFTITEDRAKVIDFSIPY--FASGQQFLARKGVLKNADGIK 142 + ANRIP L++ KVDLV ++ +R KVIDFS Y F +G F +K+A + Sbjct: 81 SSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNG-VFGPADLSVKSAADLA 139 Query: 143 DIRVGTDKGTTMETTLREKYPDTKVV-LYDDTPLGLAALRNGNIQAFSQDGSKLTAILAG 201 + +G+ + L + P + V Y+D +++ +G +Q + AI+A Sbjct: 140 GKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAAAIIAR 199 Query: 202 LPDKDKYEIPAFAISEEYEGVGVPKGEARLVSYLNDWLRDLEKNGTAQQIYDKWFGPQSK 261 P K K E F I + +G+ KGE +L ++ L + +K+G+ I KW G Sbjct: 200 NPPK-KPET-KFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLG---- 253 Query: 262 SPLP 265 PLP Sbjct: 254 MPLP 257 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 117 bits (292), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 85/240 (35%), Positives = 122/240 (50%), Gaps = 13/240 (5%) Query: 32 DIRKAGVLRVAAFDGNPPFGYVDATSKKIVGLDIDYANELGKKLGVKVEIVPTNPANRIP 91 DI+ + VA G PPFG +A + G D++ A L K LGV++EIV NRIP Sbjct: 32 DIKARKKVLVAIDLGAPPFGMTNAKLEP-QGSDVETARLLAKDLGVELEIVQVTGPNRIP 90 Query: 92 LLSSNKVDLVFANFTITEDRAKVIDFSIPYFASGQQFLARKGVLKNADGIKDI---RVGT 148 L + K D+V ++F+IT +R KV+ F+ PY AS A KG +N + D+ RV Sbjct: 91 FLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKG--ENIKSLNDLVGKRVAV 148 Query: 149 DKGTTMETTLREKYPD-TKVVLYDDTPLGLAALRNGNIQAFSQDGSKLTAILAGLPDKDK 207 +G ++ L P T +V +DD AA+ +G + A S +AI P K+ Sbjct: 149 VRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAIISGQVDALCTPNSLASAIAKQNPSKNL 208 Query: 208 YEIPAFAISEEYEGVGVPKGEARLVSYLNDWLRDLEKNGTAQQIYDKWFGPQSKSPLPRL 267 FAI + +G+ KGE L +LN+W+ KNG IY +W G SP+P L Sbjct: 209 ET--KFAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLPGIYQQWVG----SPMPDL 262 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 108 bits (270), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 78/243 (32%), Positives = 117/243 (48%), Gaps = 9/243 (3%) Query: 25 AHADKLDDIRKAGVLRVAAFDGNPPFGYVDATSKKIVGLDIDYANELGKKLGVKVEIVPT 84 A AD L DI+K GV+R+ PFG V+ T ++ GLDID A + +K+GVK+++VP Sbjct: 24 ARADALADIQKNGVVRIGVPQDFAPFGSVN-TDLQLQGLDIDVARLIAQKMGVKLQLVPV 82 Query: 85 NPANRIPLLSSNKVDLVFANFTITEDRAKVIDFSIPYFASGQQFLARKGV-LKNADGIKD 143 ANRI L ++K DLV + +R KVIDFS PY V + + D Sbjct: 83 ASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGVASVKVSGPADLAD 142 Query: 144 IRVGTDKGTTMETTLREKYPDTKVV-LYDDTPLGLAALRNGNIQAFSQDGSKLTAILAGL 202 VG +GT + L + P + + Y+D ++A +G +Q A+ Sbjct: 143 KTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKA 202 Query: 203 PDKDKYEIPAFAISEEYEGVGVPKGEARLVSYLNDWLRDLEKNGTAQQIYDKWFGPQSKS 262 P+ + + I E VG+ KGE L++ +N+ L +K+G I KW Sbjct: 203 PNNK--PVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNGIVQKWL----NV 256 Query: 263 PLP 265 PLP Sbjct: 257 PLP 259 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 0.137 0.395 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: 911,187 Number of extensions: 40579 Number of successful extensions: 161 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 132 Number of HSP's successfully gapped: 17 Length of query: 278 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 194 Effective length of database: 1,222,130 Effective search space: 237093220 Effective search space used: 237093220 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)