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= 0036.0125.p (322 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... 615 e-177 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 74 1e-14 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 65 8e-12 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 615 bits (1585), Expect = e-177, Method: Compositional matrix adjust. Identities = 312/322 (96%), Positives = 314/322 (97%), Gaps = 8/322 (2%) Query: 1 MNKFTRRHFAIAALACAVLPGAAMAQTPAKPKVALVMKSLAXKKKKKLANEFFLNMENGA 60 MNKFTRRHFAIAALACAVLPGAAMAQTPAKPKVALVMKSLA NEFFLNMENGA Sbjct: 1 MNKFTRRHFAIAALACAVLPGAAMAQTPAKPKVALVMKSLA--------NEFFLNMENGA 52 Query: 61 REYQKANASKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAI 120 REYQKANASKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAI Sbjct: 53 REYQKANASKFDLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAI 112 Query: 121 DAGIIVVNIDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVS 180 DAGIIVVNIDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVS Sbjct: 113 DAGIIVVNIDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVS 172 Query: 181 TTFNAQQRTLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNM 240 TTFNAQQRTLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNM Sbjct: 173 TTFNAQQRTLGFQDAMKDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNM 232 Query: 241 ALGAVAAIRAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKAV 300 ALGAVAAIRAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKA+ Sbjct: 233 ALGAVAAIRAAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKAL 292 Query: 301 TEKKPQSALGGVVETKVSLVTK 322 +EKKPQSALGGVVETKVSLVTK Sbjct: 293 SEKKPQSALGGVVETKVSLVTK 314 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 74.3 bits (181), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 85/298 (28%), Positives = 137/298 (45%), Gaps = 22/298 (7%) Query: 12 AALACAVLPGAAMAQTPAKPKVALVMKSLAXKKKKKLANEFFLNMENGAREYQKANASKF 71 AAL A GA+ AQ + + L+ K ++F+ ++ GA Q K Sbjct: 9 AALGLAFAMGASAAQA-QEAYIPLISKGFQ--------HQFWQAVKAGAD--QAGKDYKV 57 Query: 72 DLIANGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDN 131 + G + E QI ++ + K A+ A DSKA +P++KKA A I VV D+ Sbjct: 58 KVTFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDS 117 Query: 132 KLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLG 191 +D I V DNR A LA D + + + K +VA++ T+ R G Sbjct: 118 GVDS------DIPVTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDG 171 Query: 192 FQDAMKDVGA--NVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIR 249 F + +K VV+VQ G + + +V SIL A+P IK I N+ A+G V ++ Sbjct: 172 FLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVK 231 Query: 250 AAGKTGKVQLVGYDNINAIKPMLKDGRVLATVDQFAQQQAVFGIETALKAVT-EKKPQ 306 + K+ ++GYD+ K +++G + + Q +E A+KA+ EK P+ Sbjct: 232 EMKR--KIIIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPK 287 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 65.1 bits (157), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 75/278 (26%), Positives = 129/278 (46%), Gaps = 28/278 (10%) Query: 24 MAQTPAKPKVALVMKSLAXKKKKKLANEFFLNMENGAREYQKANASKFDLIANGIKDEQD 83 MAQ +K K+ + + ++ N +F++M+ E K+ +K +IA + Sbjct: 19 MAQEVSKLKIGMSFQ--------EMNNPYFVSMKKALDEAAKSLGAK--VIAT--DAAHN 66 Query: 84 TANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDAALKEKGI 143 A QI +E M+ ++ L+I P DS + VK A +IVV +D G Sbjct: 67 VAKQIADIEDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVD-------ANASGP 119 Query: 144 TVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDAM---KDVG 200 FVG N+ + L + +VAI++G+ QR G + A+ KD+ Sbjct: 120 VDMFVGSKNKDAGYQSCRALADAIGGKGEVAILDGIPVV-PILQRVEGCKQALAEYKDI- 177 Query: 201 ANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGKTGKVQLV 260 +V Q+G+ + V +++ + P++K I + ND A+GA+AAI+ +GK ++L Sbjct: 178 -KLVATQNGRQDRSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGKD--IKLT 234 Query: 261 GYDNI-NAIKPMLKDGRVLATVDQFAQQQAVFGIETAL 297 D A+K + G + T QF + Q G+ AL Sbjct: 235 SVDGAPEAVKAIADGGPFVETTAQFPRDQVRVGLAMAL 272 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 0.353 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: 767,446 Number of extensions: 28049 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 148 Number of HSP's successfully gapped: 8 Length of query: 322 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 237 Effective length of database: 1,217,395 Effective search space: 288522615 Effective search space used: 288522615 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)