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= 0011.0318.p (314 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... 624 e-180 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 82 8e-17 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 72 7e-14 gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasm... 61 1e-10 gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm... 57 3e-09 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 624 bits (1610), Expect = e-180, Method: Compositional matrix adjust. Identities = 314/314 (100%), Positives = 314/314 (100%) Query: 1 MNKFTRRHFAIAALACAVLPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANA 60 MNKFTRRHFAIAALACAVLPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANA Sbjct: 1 MNKFTRRHFAIAALACAVLPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANA 60 Query: 61 SKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVN 120 SKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVN Sbjct: 61 SKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVN 120 Query: 121 IDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQR 180 IDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQR Sbjct: 121 IDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQR 180 Query: 181 TLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAI 240 TLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAI Sbjct: 181 TLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAI 240 Query: 241 RAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKALSEKKPQSA 300 RAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKALSEKKPQSA Sbjct: 241 RAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKALSEKKPQSA 300 Query: 301 LGGVVETKVSLVTK 314 LGGVVETKVSLVTK Sbjct: 301 LGGVVETKVSLVTK 314 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 81.6 bits (200), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 85/290 (29%), Positives = 137/290 (47%), Gaps = 14/290 (4%) Query: 12 AALACAVLPGAAMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANASKFDLIANGIK 71 AAL A GA+ AQ + + L+ K ++F+ ++ GA Q K + G + Sbjct: 9 AALGLAFAMGASAAQA-QEAYIPLISKGFQHQFWQAVKAGAD--QAGKDYKVKVTFEGPE 65 Query: 72 DEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDAALK 131 E QI ++ + K A+ A DSKA +P++KKA A I VV D+ +D Sbjct: 66 TEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVDS---- 121 Query: 132 EKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDAMKDV 191 I V DNR A LA D + + + K +VA++ T+ R GF + +K Sbjct: 122 --DIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSA 179 Query: 192 GA--NVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGKTGKV 249 VV+VQ G + + +V SIL A+P IK I N+ A+G V ++ + K+ Sbjct: 180 YPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKEMKR--KI 237 Query: 250 QLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKAL-SEKKPQ 298 ++GYD+ K +++G + + Q +E A+KA+ EK P+ Sbjct: 238 IIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPK 287 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 71.6 bits (174), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 75/270 (27%), Positives = 128/270 (47%), Gaps = 20/270 (7%) Query: 24 MAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANASKFDLIANGIKDEQDTANQIKIV 83 MAQ +K K+ + + + N +F++M+ E K+ +K +IA + A QI + Sbjct: 19 MAQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAK--VIAT--DAAHNVAKQIADI 74 Query: 84 EQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDAALKEKGITVPFVGPD 143 E M+ ++ L+I P DS + VK A +IVV +D G FVG Sbjct: 75 EDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVD-------ANASGPVDMFVGSK 127 Query: 144 NRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDAM---KDVGANVVTVQS 200 N+ + L + +VAI++G+ QR G + A+ KD+ +V Q+ Sbjct: 128 NKDAGYQSCRALADAIGGKGEVAILDGIPVV-PILQRVEGCKQALAEYKDI--KLVATQN 184 Query: 201 GQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGKTGKVQLVGYDNI-NA 259 G+ + V +++ + P++K I + ND A+GA+AAI+ +GK ++L D A Sbjct: 185 GRQDRSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGKD--IKLTSVDGAPEA 242 Query: 260 IKPMLKDGRVLATVDQFAQQQAVFGIETAL 289 +K + G + T QF + Q G+ AL Sbjct: 243 VKAIADGGPFVETTAQFPRDQVRVGLAMAL 272 >gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 119/261 (45%), Gaps = 46/261 (17%) Query: 30 KPKVALVMKSLANEFFLNMENGAREYQKANASKFDLIANGIKDEQDTANQIKIVEQMIVS 89 K ++A+V+KSL N FF GA+E + ++I G QI+IV +I Sbjct: 38 KVRIAMVVKSLGNGFFDAAHEGAKEAAR-ELGDVEVIYTG-PTTPTAEGQIEIVNSLISQ 95 Query: 90 KVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDAALKEKGITVPFVGPDNRKGAK 149 KV+A+VI+ D+ ALVP+ K+A+ G+ V++ D+ + KG + + P N A+ Sbjct: 96 KVDAIVISANDANALVPITKRAMQRGVKVLSFDSGI------AKGGRLMQLNPSN---AE 146 Query: 150 LAGDYLGKQLQ--------KGDKVAIIEGVSTTFNAQQRTLGFQDAMKDVG------ANV 195 L G KQ+Q GD VAI+ S T A + + + K + + Sbjct: 147 LIGL---KQIQMAAEAIGGAGD-VAIL---SATAQATNQNIWIGEMKKALARPEFSRMKL 199 Query: 196 VTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGK-------TGK 248 V G + D+ + A +L +HP +KAI+A I AAGK GK Sbjct: 200 VATVYGDDQSDKSYREAIGLLRSHPGLKAIIAPT-------TVGINAAGKAVVDEKLVGK 252 Query: 249 VQLVGYDNINAIKPMLKDGRV 269 V + G + + +K G V Sbjct: 253 VYVTGLGLPSEMAGHVKSGAV 273 >gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 71/254 (27%), Positives = 104/254 (40%), Gaps = 28/254 (11%) Query: 11 IAALACAVLPGAAMAQTPAKP-KVALVMKSLANEFFLNMENGAREYQKANASKFDLIANG 69 ++ALA A AQ KP + V+K +F ME G +E+ AN G Sbjct: 11 VSALAAVGFASALQAQN--KPIDIVTVVKITGISWFNRMEVGVKEFAAANP--------G 60 Query: 70 IKDEQ------DTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDN 123 + Q D A Q ++VE ++ KV+A+ + D L PV+K+A+D GI VV + Sbjct: 61 VTTRQIGPAQSDAAQQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHE- 119 Query: 124 KLDDAALKEKGITVPFVGPDNR-KGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTL 182 A +K V DN GA+L Q G +++ + + Q Sbjct: 120 -----ADNQKNTLVDIEAFDNTAYGARLNDRLAACMGQAGKWSSLVGSLGSQSQVQWADG 174 Query: 183 GFQDAMKDVGANVVTVQSGQWEIDQGNKVAA---SILNAHPDIKAILAGNDNMALGAVAA 239 G +A K + V + + K A IL HPDIK + LG A Sbjct: 175 GAANAAKKY-PKMTLVDAKNESANDAEKAYAKAKEILRKHPDIKGFQGSSSLDVLGIGRA 233 Query: 240 IRAAGKTGKVQLVG 253 + AG GKV + G Sbjct: 234 VEEAGLQGKVCVYG 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 0.131 0.355 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: 787,545 Number of extensions: 29265 Number of successful extensions: 163 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 155 Number of HSP's successfully gapped: 8 Length of query: 314 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 229 Effective length of database: 1,217,395 Effective search space: 278783455 Effective search space used: 278783455 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)