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= 0003.0059.p (283 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC tra... 532 e-152 gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transp... 165 5e-42 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 116 2e-27 gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease ... 105 4e-24 gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease ... 88 9e-19 >gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 532 bits (1371), Expect = e-152, Method: Compositional matrix adjust. Identities = 277/283 (97%), Positives = 281/283 (99%) Query: 1 MIERRPVLDFLSHVVLVLGVLIVFFPLYVAFVASTQTAEQSALSPLSLVPGGEFINNYSA 60 MIERRP+LDFLSHVVLVLGVLIVFFPLYVAFVASTQ+AEQSALSPLSL PGGEF+NNYS Sbjct: 1 MIERRPILDFLSHVVLVLGVLIVFFPLYVAFVASTQSAEQSALSPLSLAPGGEFMNNYST 60 Query: 61 VLFKGAAGQVTAPPVLNMLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIF 120 VLFKGAAGQVTAPPVL+MLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIF Sbjct: 61 VLFKGAAGQVTAPPVLHMLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIF 120 Query: 121 VTLMLPVEVRITPTYQVVSDLGMLNSYAGLSVPLIASATATFLFRQFFLTVPDELAEAAR 180 VTLMLPVEVRITPTYQVVSDLGMLNSYAGLSVPLIASATATFLFRQFFLTVPDELAEAAR Sbjct: 121 VTLMLPVEVRITPTYQVVSDLGMLNSYAGLSVPLIASATATFLFRQFFLTVPDELAEAAR 180 Query: 181 IDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLI 240 IDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLI Sbjct: 181 IDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLI 240 Query: 241 SGGDSAVEWNLVMATMILAMLPPGLVVVVMQKWFVKGLVDSEK 283 SGGDSAVEWNLVMATMILAMLPPGLVVVVMQKWFVKGLVDSEK Sbjct: 241 SGGDSAVEWNLVMATMILAMLPPGLVVVVMQKWFVKGLVDSEK 283 >gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 298 Score = 165 bits (417), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 121/306 (39%), Positives = 177/306 (57%), Gaps = 31/306 (10%) Query: 1 MIERRPVLDFLSHVVLVLGVLIVFFPLYVAFVASTQTAEQSALSPLSLVPGGEFINNYSA 60 M+ER P + L++ VL LG+L+ PLY+ +++ T++ + L PG + N Sbjct: 1 MVERHPRMTALAYCVLGLGLLLALGPLYLILCSASVTSQAWISQGMPLTPGTALLEN--- 57 Query: 61 VLFKGAAGQVTAPPVLNMLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIF 120 + A ++ + L+ SL A ++ GK+ +S ++AFA+ YFR RGL ++F Sbjct: 58 --LREVAQRID---LWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLF 112 Query: 121 VTLMLPVEVRITPTYQVVSDL----------------------GMLNSYAGLSVPLIASA 158 L+LP+EVRI PTY SDL ++N+YAGLS+PL+ASA Sbjct: 113 SALLLPLEVRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASA 172 Query: 159 TATFLFRQFFLTVPDELAEAARIDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYL 218 T TFLF QF+ T+P EL EAARIDGAGP RF D+L PLS+TN AL I+FI W Y+ Sbjct: 173 TGTFLFLQFYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYM 232 Query: 219 WPLIIATDTSMYPIGIGIKTLISGGDSAV-EWNLVMATMILAMLPPGLVVVVMQKWFVKG 277 WPL+I + M I + + + + + +WNL+MA + A+ P + VV Q+WFVKG Sbjct: 233 WPLVITSHEQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKG 292 Query: 278 LVDSEK 283 +V +EK Sbjct: 293 IVGTEK 298 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 116 bits (291), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 135/280 (48%), Gaps = 12/280 (4%) Query: 2 IER-RPVLDFLSHVVLVLGVLIVFFPLYVAFVASTQTAEQSALSPLSLVPGGEFINNYSA 60 IE+ +P+ L L + +LI P+ A V S ++ ++ L+ G + Sbjct: 6 IEKWKPINRALYRASLPVALLIWLLPMLAALVTSIRSNDE-------LMAGNYWGWPQDF 58 Query: 61 VLFKGAAGQVTAPPVLNMLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIF 120 + + +TA P+L+ W S + IG IS++ ++ FA+ ++F G + F Sbjct: 59 AMLENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFV 118 Query: 121 VTLMLPVEVRITPTYQVVSDLGMLNSYAGLSVPLIASAT--ATFLFRQFFLTVPDELAEA 178 +P ++ + P + LG+ N+ G+ + IA T T R F +P E+ EA Sbjct: 119 ACNFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEA 178 Query: 179 ARIDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGIKT 238 ARI+GA ++ PL R + AL V++F + WN Y W L++ + PI +G+ Sbjct: 179 ARIEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAA 238 Query: 239 LISGGDSAVEWNLVMATMILAMLPPGLVVVVMQKWFVKGL 278 L G WNLV A ILA LP ++ VMQK FV GL Sbjct: 239 L--RGQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGL 276 >gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 276 Score = 105 bits (262), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 60/194 (30%), Positives = 106/194 (54%), Gaps = 1/194 (0%) Query: 88 IIAIGKISISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVEVRITPTYQVVSDLGMLNSY 147 +I ++ ++ L+A+A F F G + F ++ + LM+ ++ I YQ ++ LG+ ++ Sbjct: 81 MILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQLMVMPDILIVENYQTMNLLGLRDTI 140 Query: 148 AGLSVPLIASATATFLFRQFFLTVPDELAEAARIDGAGPLRFLKDVLWPLSRTNVIALFV 207 + +P ASA FL RQ F TVP EL EAA ++GA + L V PL+R IA + Sbjct: 141 LSIGLPYFASAFGIFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLARPIYIAFGL 200 Query: 208 IMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLISGGDSAVEWNLVMATMILAMLPPGLVV 267 + WN +LWPLI+ P+ +G++ + S D V+W+++ A ++ P L Sbjct: 201 VSVSTHWNNFLWPLIVTNSVESRPLTVGLQ-VFSSTDQGVDWSIITAATLMTSAPLLLAF 259 Query: 268 VVMQKWFVKGLVDS 281 ++ Q+ FV+ + + Sbjct: 260 LLFQRQFVQSFMRA 273 >gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 300 Score = 87.8 bits (216), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 72/275 (26%), Positives = 125/275 (45%), Gaps = 19/275 (6%) Query: 13 HVVLVLGVLIVFFPLYVAFVASTQTAEQSALSPLSLVPGGEFINNYSAVLFKGAAGQVTA 72 H VL L +I FP+ + + S +T P++L P E + F G + Sbjct: 36 HTVLCLYAVIALFPIALILINSVKTRNAIFEGPMAL-PTAETLT------FAGFQKVLAG 88 Query: 73 PPVL----NMLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVE 128 L N L V++A +I + ++A+A+ +RF G + I + +M+P+ Sbjct: 89 THFLLYFGNSLAVTVAALFLIVL----FGAMAAWALTEYRFFGNRALNFFIAIGIMIPIR 144 Query: 129 VRITPTYQVVSDLGMLNSYAGLSVPLIASAT--ATFLFRQFFLTVPDELAEAARIDGAGP 186 + Q+V L ++N+ L + A A + +F +P EL +AAR DG G Sbjct: 145 LGTVSILQLVVALDLINTRTALVLVYTAQGLPLAVMILSEFMRQIPGELKDAARCDGVGE 204 Query: 187 LRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLISGGDSA 246 L V+ PL R + + V I WN +PLI+A + +G++ I G A Sbjct: 205 LSIFFRVILPLLRPAIATVAVFTMIPAWNDLWFPLILAPGEDTRTVTLGVQQFI--GQYA 262 Query: 247 VEWNLVMATMILAMLPPGLVVVVMQKWFVKGLVDS 281 +WN V+A + +A++P L+ + + ++GL Sbjct: 263 TDWNSVLAALSMAVIPVLLLYMAFSRQLIRGLTSG 297 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 0.328 0.142 0.431 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: 806,686 Number of extensions: 31658 Number of successful extensions: 158 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 144 Number of HSP's successfully gapped: 9 Length of query: 283 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 199 Effective length of database: 1,222,130 Effective search space: 243203870 Effective search space used: 243203870 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 130 (54.7 bits)