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= 0001.3226.p (411 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312565|ref|YP_003776657.1| multidrug resistance transmembr... 754 0.0 gi|300312016|ref|YP_003776108.1| multidrug resistance A (translo... 250 2e-67 gi|300312487|ref|YP_003776579.1| multidrug resistance transport ... 131 1e-31 gi|300311421|ref|YP_003775513.1| multidrug resistance efflux pum... 59 7e-10 gi|300311270|ref|YP_003775362.1| HlyD family membrane-fusion pro... 58 1e-09 >gi|300312565|ref|YP_003776657.1| multidrug resistance transmembrane efflux pump protein [Herbaspirillum seropedicae SmR1] Length = 411 Score = 754 bits (1948), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/411 (91%), Positives = 399/411 (97%) Query: 1 MSHSDSQAAHTLAEEAKQRNEAAERAANTQKRKKLFAIFGGVVAIVAVGYGAYWYLIGSR 60 MSHSDSQAAHTLAEEAKQRNEAA AA QKRKKLF+IFGGVVAI A+GYGAYWYLIGSR Sbjct: 1 MSHSDSQAAHTLAEEAKQRNEAASAAAAAQKRKKLFSIFGGVVAIAAIGYGAYWYLIGSR 60 Query: 61 YVETDNAYTGTEVATVTPAINGIVAAVDVVDTQAVKKGDVLVRIDDADAKLAVDQAAADL 120 YVETDNAYT TE+ATVTPAINGIVAAVDVVDTQAVKKGDVLVRIDDADA+LAVDQAAADL Sbjct: 61 YVETDNAYTATEIATVTPAINGIVAAVDVVDTQAVKKGDVLVRIDDADARLAVDQAAADL 120 Query: 121 DRTERKVRGYFANDAGLAAQVLAREADQKRASAQLLSAQADLQRAQIDLQRREALAKSGS 180 DRTERKV+G+FANDAGLAAQVLAREA+QKRASAQLLSAQADL+RA+IDLQRREALAKSGS Sbjct: 121 DRTERKVKGFFANDAGLAAQVLAREAEQKRASAQLLSAQADLKRAEIDLQRREALAKSGS 180 Query: 181 VSGEELTNARTALLTAQANLKAAEAAEVQSRANIKATQGAQKASTVLTADTTVEDNPEVV 240 VSGEEL+NARTALLTAQANLKAAEAAEVQSRANIKATQGAQKASTVLTA+TTV+DNPEVV Sbjct: 181 VSGEELSNARTALLTAQANLKAAEAAEVQSRANIKATQGAQKASTVLTANTTVDDNPEVV 240 Query: 241 LARAKLDQAKLDLERTVLRSPVDGVIARRQVQVGQRVQSGASLLSVVPMQQMHVDANFKE 300 LARAKL+QAKLDLERTVLR+PVDGVIARRQVQVGQRVQSGA+LLSVVP+QQMHVDANFKE Sbjct: 241 LARAKLEQAKLDLERTVLRAPVDGVIARRQVQVGQRVQSGATLLSVVPLQQMHVDANFKE 300 Query: 301 GQLTKVRIGQPVTMTSDLYGGSVEYHGVVTGLSGGTGSAFAVIPAQNATGNWIKVVQRLP 360 GQLTKVRIGQPVTM +DLYGGSVEYHGVVTGLSGGTGSAFAVIPAQNATGNWIKVVQRLP Sbjct: 301 GQLTKVRIGQPVTMKADLYGGSVEYHGVVTGLSGGTGSAFAVIPAQNATGNWIKVVQRLP 360 Query: 361 VRISLDPKELAQHPLSVGLSMVVEIDTRGQIQAGNVQAKSAQNTDTKAAAL 411 VRISLDPKELAQ PLSVGLSMVVEIDTRGQIQAG+ Q KSA+N + +AAAL Sbjct: 361 VRISLDPKELAQRPLSVGLSMVVEIDTRGQIQAGDAQRKSARNDNAQAAAL 411 >gi|300312016|ref|YP_003776108.1| multidrug resistance A (translocase) transmembrane secretion protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 250 bits (638), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 156/359 (43%), Positives = 220/359 (61%), Gaps = 28/359 (7%) Query: 31 KRKKLFAIFGGVVAIVAVGYGAYWYLIGSRYVETDNAYTGTEVATVTPAINGIVAAVDVV 90 KRK+ + V+ ++AV YW+L + ETD+AY G V ++ + G V AV Sbjct: 19 KRKRQLILLTLVLLVIAVACFLYWFLHARFFEETDDAYVGGNVVQISAQVGGTVVAVKAD 78 Query: 91 DTQAVKKGDVLVRIDDADAKLAVDQAAADLDRTERKVRGYFANDAGLAAQVLAREADQKR 150 DTQ VK G LV +D AD +LA+DQA A L + R+ R F N+ LAA V A Sbjct: 79 DTQVVKAGQQLVALDAADTRLALDQAQAALAQAVRQTRQLFLNNDTLAANVAA------- 131 Query: 151 ASAQLLSAQADLQRAQIDLQRREALAKSGSVSGEELTNARTALLTAQANLKAAEAAEVQS 210 A ++L RA+ DLQRR+A SG+VS E++++AR A+ +A A L A AA Sbjct: 132 -------ADSNLARAREDLQRRQAGLSSGAVSQEDVSHARDAVKSAVAALDQARAAA--- 181 Query: 211 RANIKATQGAQKASTVLTADTTVEDNPEVVLARAKLDQAKLDLERTVLRSPVDGVIARRQ 270 A+ LT T+V ++P V+ A + A L+ R + +PV G +++R Sbjct: 182 -----------AANRALTDHTSVTEHPNVLQAATAVRNAYLNYARVNIVAPVSGFVSKRS 230 Query: 271 VQVGQRVQSGASLLSVVPMQQMHVDANFKEGQLTKVRIGQPVTMTSDLYGGSVEYHGVVT 330 VQVGQR+ +G L+++VP++Q+ +DANFKE QL +RIGQPV + +D+YG SV+Y G V Sbjct: 231 VQVGQRIAAGNPLMAIVPLEQIWIDANFKESQLQHIRIGQPVEVIADVYGSSVKYKGTVI 290 Query: 331 GLSGGTGSAFAVIPAQNATGNWIKVVQRLPVRISLDPKELAQHPLSVGLSMVVEIDTRG 389 G S GTG AF+++PAQNATGNWIKVVQR+PVRI+LDP+++ HPL +GLS +D G Sbjct: 291 GFSAGTGGAFSLLPAQNATGNWIKVVQRVPVRIALDPEQVRAHPLRIGLSTTATVDIHG 349 >gi|300312487|ref|YP_003776579.1| multidrug resistance transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 131 bits (329), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 67/146 (45%), Positives = 97/146 (66%), Gaps = 2/146 (1%) Query: 242 ARAKLDQAKLDLERTVLRSPVDGVIARRQVQVGQRVQSGASLLSVVPMQQMHVDANFKEG 301 A+A+ D A ++L T +R+ VDG I +QV+VGQ V G +++VVP + +V ANFKE Sbjct: 229 AKAQYDAASVNLGYTEIRASVDGRIGDKQVRVGQFVSPGTRMMTVVPTR-FYVSANFKET 287 Query: 302 QLTKVRIGQPVTMTSDLYGGSVEYHGVVTGLSGGTGSAFAVIPAQNATGNWIKVVQRLPV 361 Q+ +RIGQP + D G VE+HG V LS GTG+ F+++P QNATGN+ K+VQR+PV Sbjct: 288 QIGIMRIGQPAIIKVDALPG-VEFHGHVESLSPGTGAQFSLLPPQNATGNFTKIVQRVPV 346 Query: 362 RISLDPKELAQHPLSVGLSMVVEIDT 387 R+++D GLS+ VE++T Sbjct: 347 RVAIDATPEETRAFVAGLSVTVEVNT 372 >gi|300311421|ref|YP_003775513.1| multidrug resistance efflux pump protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 58.9 bits (141), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 43/123 (34%), Positives = 65/123 (52%), Gaps = 4/123 (3%) Query: 247 DQAKLDLERTVLRSPVDGVIARRQVQVGQRVQSGASLLSVVPMQQMHVDANFKEGQLTKV 306 D A+L+LERT + SPVDG I V+ G +GA+ ++V+ V A F+E +L + Sbjct: 172 DTARLNLERTKVFSPVDGYITNLNVRRGDYAAAGAAKIAVIDSHSFWVYAYFEETKLPLL 231 Query: 307 RIGQPVTMTSDLYGGSVEYH--GVVTGLSGGTGSAFAVIPAQ-NATGNWIKVVQRLPVRI 363 IG + + G S+E H + G+ + A N T NW+++ QR+PVRI Sbjct: 232 SIGDRARIQL-INGASMEGHVDSIARGIYDRDNPQSRELTADVNPTFNWVRLAQRIPVRI 290 Query: 364 SLD 366 LD Sbjct: 291 QLD 293 >gi|300311270|ref|YP_003775362.1| HlyD family membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 79/295 (26%), Positives = 136/295 (46%), Gaps = 43/295 (14%) Query: 38 IFGGVVAIV--AVGY-GAYWYL---IGSRYVETDNAYTGTEVATVTPAINGIVAAVDVVD 91 +F G++ +V AVG+ G W+ + V ++ TEV + + G + + V + Sbjct: 9 LFAGLLLVVLAAVGWTGWAWWRDADAPAGLVSSNGRLEATEV-DIGSRLGGRIRHMLVDE 67 Query: 92 TQAVKKGDVL--VRIDDADAKLAVDQAAADLDRTERKVRGYFANDAGLAAQVLAREADQK 149 +AV+ G VL +++D A+L +A + +R +G A LA R ++Q+ Sbjct: 68 GEAVQAGQVLAYLQVDSLHAQLREARA-----QQQRASQGVTVAQAQLAM----RRSEQR 118 Query: 150 RASAQLLSAQADLQRAQIDLQRREALAKSGSVSGEELTNARTALLTAQANLKAAEAAEVQ 209 A A + L A ++R + L + +++ +E+ + L A+A L AA+A E Sbjct: 119 IAQALTVQRHKSLSAATRRVERSQPLGRMQALTAQEVDDEENTLAEARAQLDAAQAQE-- 176 Query: 210 SRANIKATQGAQKASTVLTADTTVEDNPEVVLARAKLDQAKL-------DLERTVLRSPV 262 +GA+ A AD V ARA L+ A+ DLE + +R+P Sbjct: 177 --------EGARAAIRAAEAD--------VASARALLEAAQAATARIEADLEESAIRAPR 220 Query: 263 DGVIARRQVQVGQRVQSGASLLSVVPMQQMHVDANFKEGQLTKVRIGQPVTMTSD 317 DG I R Q G+ V G+ LL+++ + +H+ KVR+GQ V + D Sbjct: 221 DGHIQYRLAQAGEVVSEGSKLLNLIDLSDLHMHFFLPAELAGKVRLGQEVRVVLD 275 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 0.313 0.126 0.335 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: 807,990 Number of extensions: 22271 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 134 Number of HSP's successfully gapped: 9 Length of query: 411 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 323 Effective length of database: 1,203,190 Effective search space: 388630370 Effective search space used: 388630370 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 132 (55.5 bits)