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= 0017.0024.p (207 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herba... 356 e-99 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 108 4e-25 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 106 2e-24 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 81 6e-17 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 63 2e-11 >gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 356 Score = 356 bits (913), Expect = e-99, Method: Compositional matrix adjust. Identities = 174/195 (89%), Positives = 186/195 (95%) Query: 13 GLVLVGYSIPGFVLGVFLLVMFGGGSFVQWFPLRGLTSDDWATLSLAGKVKDYLWHITLP 72 GLVLVGYSIPGFVLGVFLLV+F GGSFVQWFPLRGLTSD+W +LSL GK+ DYLWHITLP Sbjct: 162 GLVLVGYSIPGFVLGVFLLVLFAGGSFVQWFPLRGLTSDNWESLSLMGKITDYLWHITLP 221 Query: 73 VIASVAGSFAVMTMLTKNTFLEEIRKQYVLTARAKGLSENKVLYKHVFRNALIPLVTGFP 132 V ASV GSFAV+TMLT+NTFLEEIRKQYVLTARAKGLSE +VLYKHVFRNALIPLVTGFP Sbjct: 222 VTASVIGSFAVITMLTRNTFLEEIRKQYVLTARAKGLSERRVLYKHVFRNALIPLVTGFP 281 Query: 133 AAFIGAFFAGSLLIETLFSLDGLGLLSYESVIRRDYPVVMGTLYLFTLIGLVVKLLGDLC 192 +AFI +FFAGSLLIETLFSLDG+GLL+YES IRRDYPVVMGTLYLFTLIGLVVKL+GDLC Sbjct: 282 SAFIASFFAGSLLIETLFSLDGMGLLAYESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLC 341 Query: 193 YVWADPRVQFESLAK 207 YVWADPRVQFESLAK Sbjct: 342 YVWADPRVQFESLAK 356 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 108 bits (270), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 69/192 (35%), Positives = 104/192 (54%), Gaps = 18/192 (9%) Query: 12 LGLVLVGYSIPGFVLGVFLLVMFGGGSFVQWFPLRGLTSDDWATLSLAGKVKDYLWHITL 71 + L + G S P F LG+ L+ +F + W P G D W H L Sbjct: 133 MTLAVSGISFPAFSLGILLVQVFSVK--LGWLPTVG--DDTWL-------------HYIL 175 Query: 72 PVIASVAGSFAVMTMLTKNTFLEEIRKQYVLTARAKGLSENKVLYKHVFRNALIPLVTGF 131 P I A AVM T+++F+E +++ +V TARAKGL+E V+ KH RNALIP+VT Sbjct: 176 PSITLGAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMM 235 Query: 132 PAAFIGAFFAGSLLIETLFSLDGLGLLSYESVIRRDYPVVMGTLYLFTLIGLVVKLLGDL 191 F G GS+L+E +F+ G+G L ++V RDYPV+ + LF+L + + L+ D+ Sbjct: 236 GLQF-GFLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPVIQAEILLFSLEFIFINLVVDV 294 Query: 192 CYVWADPRVQFE 203 Y +P ++F+ Sbjct: 295 LYAVINPSIRFK 306 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 106 bits (264), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 60/188 (31%), Positives = 105/188 (55%), Gaps = 18/188 (9%) Query: 14 LVLVGYSIPGFVLGVFLLVMFGGGSFVQWFPLRGLTSDDWATLSLAGKVKDYLWHITLPV 73 + +VG ++P F G+ L+++F + W P+ G ++ W H LP Sbjct: 134 IAVVGQAMPSFWFGLTLILIFA--VTLHWLPVAG--NESWQ-------------HFILPA 176 Query: 74 IASVAGSFAVMTMLTKNTFLEEIRKQYVLTARAKGLSENKVLYKHVFRNALIPLVTGFPA 133 +A + M LT++ LE + Y+ TARAKGLS+++V++KH RNA+IP+V A Sbjct: 177 VALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIPVV-ALAA 235 Query: 134 AFIGAFFAGSLLIETLFSLDGLGLLSYESVIRRDYPVVMGTLYLFTLIGLVVKLLGDLCY 193 +G GS++IE+++S+ GLG L+++++ R DYPVV + + + + + L D+ Sbjct: 236 VELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVIN 295 Query: 194 VWADPRVQ 201 DPR++ Sbjct: 296 ALLDPRIR 303 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 81.3 bits (199), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 62/194 (31%), Positives = 102/194 (52%), Gaps = 16/194 (8%) Query: 18 GYSIPGFVLGVFLLVMFGGGSFVQWFPL--RGLTSD----DWATLSLAGKVKDYLW-HIT 70 G+S+P F +G+ L++ F + W P RG T++ W+ L+ G W H+ Sbjct: 138 GFSLPTFWIGLMLIMAFS--VTLGWLPSGGRGQTAELFGVQWSWLTADG------WRHMI 189 Query: 71 LPVIASVAGSFAVMTMLTKNTFLEEIRKQYVLTARAKGLSENKVLYKHVFRNALIPLVTG 130 LP I +++ LT+ E + +V ARAKGLS +V+ +V RN LIPLVT Sbjct: 190 LPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVLRNTLIPLVTV 249 Query: 131 FPAAFIGAFFAGSLLIETLFSLDGLGLLSYESVIRRDYPVVMGTLYLFTLIGLVVKLLGD 190 F G+ A +++ E++F+ G G L +S+ D PV++ L + + + + L+ D Sbjct: 250 VGLEF-GSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCMFVTINLVVD 308 Query: 191 LCYVWADPRVQFES 204 + Y DPRV+ E+ Sbjct: 309 VLYKLLDPRVRVEA 322 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 62.8 bits (151), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 45/183 (24%), Positives = 91/183 (49%), Gaps = 12/183 (6%) Query: 20 SIPGFVLGVFLLVMFGGGSFVQWFPLRGLT-SDDWATLSLAGKVKDYLWHITLPVIASVA 78 S+P F++ +++F ++W L L+ + D ATL +K Y +PV+ Sbjct: 145 SVPEFLVATVAVMIFAVK--LRW--LSALSHAGDAATLG--AFIKAY----AMPVLTLCC 194 Query: 79 GSFAVMTMLTKNTFLEEIRKQYVLTARAKGLSENKVLYKHVFRNALIPLVTGFPAAFIGA 138 A MT +T+ ++++R Y A KG+ +++ +H NA+ P+ A + Sbjct: 195 VIVAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAV-ALSLSY 253 Query: 139 FFAGSLLIETLFSLDGLGLLSYESVIRRDYPVVMGTLYLFTLIGLVVKLLGDLCYVWADP 198 G +++E++F+ G+ L ++V RD P+V +F L++ L D+ + ++P Sbjct: 254 LLGGVIIVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNP 313 Query: 199 RVQ 201 R++ Sbjct: 314 RLK 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 0.328 0.146 0.445 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: 521,490 Number of extensions: 16437 Number of successful extensions: 82 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 77 Number of HSP's successfully gapped: 6 Length of query: 207 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 126 Effective length of database: 1,236,335 Effective search space: 155778210 Effective search space used: 155778210 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 (21.7 bits) S2: 128 (53.9 bits)