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= 0034.0379.p (324 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 198 4e-52 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 191 5e-50 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 185 5e-48 gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herba... 151 5e-38 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 151 8e-38 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 198 bits (504), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 120/317 (37%), Positives = 190/317 (59%), Gaps = 19/317 (5%) Query: 7 VVRRLLQLVSVALGVTIINFFLLQLAPGDAAQVLAG-EAGAATPEYMAALRAQFGLDQPL 65 ++RRL + VA+ V++++F LL ++ GD A +AG EA AA E ++R QFGLD+P+ Sbjct: 5 ILRRLAIALCVAVTVSVVSFTLLHMS-GDLAVSIAGPEATAAQVE---SVRTQFGLDRPM 60 Query: 66 LVQFWKYILNLAHFNLGYSFRHGMPVAQLIGERVPATLLLMGASILFAVVAGATLGAIAA 125 Q+ ++ + G SF PV ++I ER+P T L G+++L AV+ LG +AA Sbjct: 61 ATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLAA 120 Query: 126 YRAGRIADVVISTLALVFFATPLFWIGLMLVVVFSVWLDWLPVGGMFTIEAGYTGWKYIL 185 D +A+V A P FW GL L+++F+V L WLPV AG W+ Sbjct: 121 IYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPV-------AGNESWQ--- 170 Query: 186 DVARHLVLPAVTLGLFYMAVYTRLMRATMVEVRRQDFVRTAVAKGARPPRVLFTHVLRNA 245 H +LPAV LG + M RL R+ M+EV D++RTA AKG RV+F H LRNA Sbjct: 171 ----HFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNA 226 Query: 246 LLPLVTMLGVQVSSIIGGAVLVETVFSWPGLGRLAFEALFQRDFNLLLGILLCSSIVVIV 305 ++P+V + V++ ++GG+V++E+V+S GLG+LA++A+ + D+ ++ ++L ++ I Sbjct: 227 VIPVVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIG 286 Query: 306 VNWVVDFVYTRLDPRIR 322 + ++ D + LDPRIR Sbjct: 287 LTFLADVINALLDPRIR 303 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 191 bits (486), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 125/319 (39%), Positives = 187/319 (58%), Gaps = 16/319 (5%) Query: 5 SIVVRRLLQLVSVALGVTIINFFLLQLAPGDAAQVLAGEAGAATPEYMAALRAQFGLDQP 64 S V++RLL L+ L V ++ F + L PGD A++ AG A + +A +RA GLD+P Sbjct: 3 SFVIKRLLGLIPTLLLVAVLVFLFVHLLPGDPARLAAGPE--ADDKTVALVRADLGLDKP 60 Query: 65 LLVQFWKYILNLAHFNLGYSFRHGMPVAQLIGERVPATLLLMGASILFAVVAGATLGAIA 124 L QF + LN A + G+S R PV++ I R TL L ++++AV+ G +G + Sbjct: 61 LPEQFVNFFLNAARGDFGHSIRTKRPVSEEISARFWPTLWLTVVAMVWAVLFGLIIGISS 120 Query: 125 AYRAGRIADVVISTLALVFFATPLFWIGLMLVVVFSVWLDWLPVGGMFTIEAGYTGWKYI 184 A + D + TLA+ + P F +G++LV VFSV L WLP G Sbjct: 121 AVWRNQWPDRLGMTLAVSGISFPAFSLGILLVQVFSVKLGWLPTVGD------------- 167 Query: 185 LDVARHLVLPAVTLGLFYMAVYTRLMRATMVEVRRQDFVRTAVAKGARPPRVLFTHVLRN 244 D H +LP++TLG AV R R++ +E+ ++DFVRTA AKG V+ H LRN Sbjct: 168 -DTWLHYILPSITLGAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRN 226 Query: 245 ALLPLVTMLGVQVSSIIGGAVLVETVFSWPGLGRLAFEALFQRDFNLLLGILLCSSIVVI 304 AL+P+VTM+G+Q ++GG++LVE VF+WPG+GRL +A+ RD+ ++ +L S+ I Sbjct: 227 ALIPVVTMMGLQFGFLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPVIQAEILLFSLEFI 286 Query: 305 VVNWVVDFVYTRLDPRIRF 323 +N VVD +Y ++P IRF Sbjct: 287 FINLVVDVLYAVINPSIRF 305 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 185 bits (469), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 123/320 (38%), Positives = 188/320 (58%), Gaps = 9/320 (2%) Query: 7 VVRRLLQLVSVALGVTIINFFLLQLAPGDAAQVLAGEAGAATPEYMAALR--AQFGLDQP 64 + R ++Q + V L +T+I FF L + G+ +L G+ + + LR + GLDQP Sbjct: 5 IARSVVQALMVVLLMTVIVFFGLHMI-GNPVDILIGQ----DVDQVDRLRIIQELGLDQP 59 Query: 65 LLVQFWKYILNLAHFNLGYSFRHGMPVAQLIGERVPATLLLMGASILFAVVAGATLGAIA 124 + Q+ ++ H NLG SF + P LI +R+PATL L A++L A+V G LG A Sbjct: 60 VWRQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFA 119 Query: 125 AYRAGRIADVVISTLALVFFATPLFWIGLMLVVVFSVWLDWLPVGGM-FTIEAGYTGWKY 183 + ++ T ++ F+ P FWIGLML++ FSV L WLP GG T E W + Sbjct: 120 GMKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSW 179 Query: 184 IL-DVARHLVLPAVTLGLFYMAVYTRLMRATMVEVRRQDFVRTAVAKGARPPRVLFTHVL 242 + D RH++LPA+ L LF +++ RL RA + EV DFV+ A AKG P RV+ +VL Sbjct: 180 LTADGWRHMILPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVL 239 Query: 243 RNALLPLVTMLGVQVSSIIGGAVLVETVFSWPGLGRLAFEALFQRDFNLLLGILLCSSIV 302 RN L+PLVT++G++ S I AV+ E++F+WPG G+L +++ D +++ L+ + Sbjct: 240 RNTLIPLVTVVGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCM 299 Query: 303 VIVVNWVVDFVYTRLDPRIR 322 + +N VVD +Y LDPR+R Sbjct: 300 FVTINLVVDVLYKLLDPRVR 319 >gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 356 Score = 151 bits (382), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 107/358 (29%), Positives = 175/358 (48%), Gaps = 40/358 (11%) Query: 1 MKIRSIVVRRLLQLVSVALGVTIINFFLLQLAPGDAAQ---------------------- 38 M I S +V+R+L ++ GV I F ++Q PG + Sbjct: 1 MNIWSYIVKRVLLMIPTLFGVVAITFAVIQFVPGGPVEQAMLEMKGRGGGGEASGGGAAS 60 Query: 39 ---VLAGEAGAATPEYMAALRAQFGLDQPLLVQFWKYILNLAHFNLGYSFRHGMPVAQLI 95 G G + +A ++ +G D+P + +FW + F+LG SF H V L+ Sbjct: 61 GASAYRGRQGI-DEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLV 119 Query: 96 GERVPATLLLMGASILFAVVAGATLGAIAAYRAGRIADVVISTLALVFFATPLFWIGLML 155 ++P ++ + + L + + LG A R G D + L LV ++ P F +G+ L Sbjct: 120 KSKLPVSISIGLWTFLLSYLISVPLGIAKAVREGTRFDTATTGLVLVGYSIPGFVLGVFL 179 Query: 156 VVVFS--VWLDWLPVGGMFTIEAGYTGWK------YILDVARHLVLPAVTLGLFYMAVYT 207 +V+F+ ++ W P+ G+ + W+ I D H+ LP + AV T Sbjct: 180 LVLFAGGSFVQWFPLRGLTS-----DNWESLSLMGKITDYLWHITLPVTASVIGSFAVIT 234 Query: 208 RLMRATMVEVRRQDFVRTAVAKGARPPRVLFTHVLRNALLPLVTML-GVQVSSIIGGAVL 266 L R T +E R+ +V TA AKG RVL+ HV RNAL+PLVT ++S G++L Sbjct: 235 MLTRNTFLEEIRKQYVLTARAKGLSERRVLYKHVFRNALIPLVTGFPSAFIASFFAGSLL 294 Query: 267 VETVFSWPGLGRLAFEALFQRDFNLLLGILLCSSIVVIVVNWVVDFVYTRLDPRIRFA 324 +ET+FS G+G LA+E+ +RD+ +++G L +++ +VV V D Y DPR++F Sbjct: 295 IETLFSLDGMGLLAYESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQFE 352 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 151 bits (381), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 103/323 (31%), Positives = 175/323 (54%), Gaps = 20/323 (6%) Query: 6 IVVRRLLQLVSVALGVTIINFFLLQLAPGDAAQVLAGEAGAATPEYMAALRAQFGLDQPL 65 ++ RRLLQ V L V+ FF+ L PGDAAQ G+A ATPE +AALR Q+GLD P Sbjct: 8 LIARRLLQAVLTLLLVSAGVFFITNLLPGDAAQTALGQA--ATPETVAALRLQYGLDLPA 65 Query: 66 LVQFWKYILNLAHFNLGYSFRHGMPVAQLIGERVPATLLLMGASILFAVVAGATLGAIAA 125 +++ ++ NL N G S + +PVAQ+IG R+PA+L+L + L +V LG +A Sbjct: 66 PLRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSA 125 Query: 126 YRAGRIADVVISTLALVFFATPLFWIGLMLVVVFSVWLDWLP----VGGMFTIEAGYTGW 181 G D ++ A+ + P F + + V++F+V L WL G T+ A + Sbjct: 126 MYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAY 185 Query: 182 KYILDVARHLVLPAVTLGLFYMAVYTRLMRATMVEVRRQDFVRTAVAKGARPPRVLFTHV 241 +P +TL +A TR+ RA +++ R + A+ KG + R++ H Sbjct: 186 A----------MPVLTLCCVIVAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHA 235 Query: 242 LRNALLPLVTMLGVQVSSIIGGAVLVETVFSWPGLGRLAFEALFQRDFNLL--LGILLCS 299 L NA+ P+ + + +S ++GG ++VE++F++PG+ L +A+ RD L+ ++ C+ Sbjct: 236 LPNAIGPIANAVALSLSYLLGGVIIVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFCA 295 Query: 300 SIVVIVVNWVVDFVYTRLDPRIR 322 +++V+ D + +PR++ Sbjct: 296 GYLLLVLT--ADVLAIVSNPRLK 316 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 0.332 0.144 0.439 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: 863,910 Number of extensions: 32453 Number of successful extensions: 195 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 6 Length of query: 324 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 239 Effective length of database: 1,217,395 Effective search space: 290957405 Effective search space used: 290957405 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (22.0 bits) S2: 131 (55.1 bits)