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= 0025.0219.p (328 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 171 6e-44 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 144 7e-36 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 140 1e-34 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 117 2e-27 gi|300310352|ref|YP_003774444.1| sugar ABC transporter permease ... 115 4e-27 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 171 bits (434), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 130/333 (39%), Positives = 192/333 (57%), Gaps = 32/333 (9%) Query: 2 ASGARAWRERIKG--FGPVFGLAALCIAGTLLNGDFATVDNMMNVLTRTAFIGIIAVGMS 59 A+ AR WR I P+ GL + + L + +F T+ N NVL + + +GI+AVGMS Sbjct: 16 AASAR-WRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVLRQVSIVGILAVGMS 74 Query: 60 FVIISGGIDLSVGSMAALIAGCMIFLMNRLMTGVEGVTLAPITIVVLGIAMALVLGAVFG 119 FVI++GGIDLSVG+ AL L+ V AP+ ++ G+ +A G Sbjct: 75 FVILTGGIDLSVGAAMALAGTISAGLI------VNSGLPAPLALLC-GVGLA----TCIG 123 Query: 120 LIHGLLITKGNIEPFIVTLGTLGIFRAF-LTYLADGGALTLDGTLSDLYGPVYYTSLLGV 178 L++G L+ G + IVTL T+G+ R L Y GG +S L G + S GV Sbjct: 124 LLNGALVAWGRMPAIIVTLATMGVARGVGLIY--SGGY-----PISGLPG---WISWFGV 173 Query: 179 ------PVPIWVFLLVAAAGALILNRTAFGRHVQAIGSNEQVARYAAIQVVRVKIITYML 232 PVP+ + L+V A L+L RTAFGRHV AIG NE AR + ++ R+K+ Y + Sbjct: 174 GRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAI 233 Query: 233 VGICVGIATVLYVPRLGSATPSTGLLWELEAIAAVVVGGTALKGGEGRIIGTVIGAILLS 292 G G+A ++ RL S P+ G+ +EL+AIAAVV+GGTA+ GG G ++GT+IGA+LL Sbjct: 234 SGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLG 293 Query: 293 VISNILNLTSIISVYLNAAVQGMVIIAVAFLQR 325 +++N LNL I+ YL ++G++I+ ++ R Sbjct: 294 ILNNGLNLMG-INPYLQDIIRGVIILLAIYIAR 325 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 144 bits (364), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 123/346 (35%), Positives = 191/346 (55%), Gaps = 35/346 (10%) Query: 1 MASGARAWRERIKGFGPVFGLAALCIAGTLL--------NGDFATVDNMMNVLTRTAFIG 52 MA+ A A R + F P L A LL + +F VDN++++L TA G Sbjct: 15 MANTASAQGLRARLFNPAARQKLLAFASLLLMILFFSFASPNFMEVDNLVSILQSTAVNG 74 Query: 53 IIAVGMSFVIISGGIDLSVGSM---AALIAGCMIFLMNRLMTGVEGVTLAPITIVVLGIA 109 ++A+ ++VII+ GIDLSVG+M A++AG + L N M P+ LGIA Sbjct: 75 VLAIACTYVIITSGIDLSVGTMMTFCAVMAG--VVLTNWGM---------PLP---LGIA 120 Query: 110 MALVLGAVFGLIHGLLITKGNIEPFIVTLGTLGIFRAFLTYLADGGALTLDGTLSDLYGP 169 A+ GA+ G I G++I K + PFI TLG + + + ++ + + T + + Sbjct: 121 AAIFFGALSGWISGMVIAKLKVPPFIATLGMMMLLKGLSLVISGTRPIYFNDT--EGFSA 178 Query: 170 VYYTSLLG-----VPVP--IWVFLLVAAAGALILNRTAFGRHVQAIGSNEQVARYAAIQV 222 + SL+G +P+P + + LVA ++ILN+T FGR+ A+GSNE+ R + ++V Sbjct: 179 IAQDSLIGDLIPSLPIPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLSGVKV 238 Query: 223 VRVKIITYMLVGICVGIATVLYVPRLGSATPSTGLLWELEAIAAVVVGGTALKGGEGRII 282 K+ Y G GIA ++ RL SA P+ G +EL+AIAAVV+GGT+L GG G I+ Sbjct: 239 DFWKVAVYTFSGAICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTIL 298 Query: 283 GTVIGAILLSVISNILNLTSIISVYLNAAVQGMVIIAVAFLQRGRK 328 GT+IGA ++SV+ N L + S+ + V G++II +L R+ Sbjct: 299 GTIIGAFIMSVLVNGLRIMSVAQEW-QTVVTGVIIILAVYLDILRR 343 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 140 bits (354), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 107/295 (36%), Positives = 162/295 (54%), Gaps = 16/295 (5%) Query: 34 DFATVDNMMNVLTRTAFIGIIAVGMSFVIISGGIDLSVGSMAALIAGCMIFLMNRLMTGV 93 +FA+ +N MN+L + A ++A GM+FVI++ GIDLSVGS+ A+ A V Sbjct: 59 NFASAENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSA-------------V 105 Query: 94 EGVTLAPITIVVLGIAMALVLGAVFGLIHGLLITKGNIEPFIVTLGTLGIFRAFLTYLAD 153 G+ ++ I M + G V G+++G ++ NI F+VTLGT+ FR LAD Sbjct: 106 LGMQVSLGAAPGWAIPMFIFSGLVMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLAD 165 Query: 154 GGALTLDGTLSDLYGPVYYTSLLGVPVPIWVFLLVAAAGALILNRTAFGRHVQAIGSNEQ 213 G + + S + + L VP IWV + V +IL +T G H+ AIG N Q Sbjct: 166 GTTVLNNDIPS--FEWIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQ 223 Query: 214 VARYAAIQVVRVKIITYMLVGICVGIATVLYVPRLGSATPSTGLLWELEAIAAVVVGGTA 273 AR I+V V + Y + G+ G+A + RL A + G +EL+AIAAVV+GGT+ Sbjct: 224 AARLTGIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTS 283 Query: 274 LKGGEGRIIGTVIGAILLSVISNILNLTSIISVYLNAAVQGMVIIAVAFLQRGRK 328 L GG G I GTV+GA+++ V++N L + + S + A +G VI+ L + R+ Sbjct: 284 LMGGVGSIWGTVVGALIIGVMNNGLTILGLSSFWQYVA-KGAVIVLAVILDKWRQ 337 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 117 bits (292), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 95/308 (30%), Positives = 153/308 (49%), Gaps = 16/308 (5%) Query: 21 LAALCIAGTLLNGDFATVDNMMNVLTRTAFIGIIAVGMSFVIISGGIDLSVGSMAALIAG 80 L A+C+ L+ +F + + + + +++VGM+F++I GGIDLSVGS+ AL A Sbjct: 30 LLAMCVMFAFLSENFLSAATFITLSNDIPPLVVMSVGMTFILIIGGIDLSVGSVMALAAS 89 Query: 81 CMIFLMNRLMTGVEGVTLAPITIVVLGIAMALVLGAVFGLIHGLLITKGNIEPFIVTLGT 140 + M R G AP+ +VV A+ G + G++ I FIV+LG Sbjct: 90 MLSMAMVRW--GWPLYAAAPLGVVV---------AALCGTLTGMVSVHWRIPSFIVSLGV 138 Query: 141 LGIFRAFLTYLADGGALTLDGTLSDLYGPVYYTSLLGVPVPIWVFLLVAAAGALILNRTA 200 L I R + + + + + P+ L G+ + + L+L RT Sbjct: 139 LEIARGLAYQVTNSRTEYIGSAVDVISSPI----LFGMSPAFLSAIAIVIIAQLVLTRTV 194 Query: 201 FGRHVQAIGSNEQVARYAAIQVVRVKIITYMLVGICVGIATVLYVPRLGSATPSTGLLWE 260 GR+ IG+NE+ R + + KI+ + L+G GIA + V RL +A P+ G+ E Sbjct: 195 LGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAADPNGGVGME 254 Query: 261 LEAIAAVVVGGTALKGGEGRIIGTVIGAILLSVISNILNLTSIISVYLNAAVQGMVIIAV 320 L+ IAAVV+GGT+L GG G I+ T IG +++SV+ L +S + + G VI+ Sbjct: 255 LQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVG-VSEPMKRIITGAVIVVA 313 Query: 321 AFLQRGRK 328 L R+ Sbjct: 314 VILDTYRR 321 >gi|300310352|ref|YP_003774444.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 337 Score = 115 bits (289), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 89/299 (29%), Positives = 158/299 (52%), Gaps = 13/299 (4%) Query: 18 VFGLAALCIAGTLLNGDFATVDNMMNVLTRTAFIGIIAVGMSFVIISG--GIDLS---VG 72 V +A L +A +GDF + N ++ ++ +G++A+G++ +ISG GIDLS + Sbjct: 17 VINVAILLVATVFSHGDFLDIYNFQSMASQLPELGLLAIGVALAMISGNGGIDLSGIGLA 76 Query: 73 SMAALIAGCMIFLMNRLMTGVEGVTLAPITIVVLGIAMALVLGAVFGLIHGLLITKGNIE 132 ++A ++A + L+ V AP T + IA+ALV G + G ++G LI++GN+ Sbjct: 77 NLAGVVAAAAMPLL------VAAPDAAPWTYTLGFIAVALVTGLLGGALNGWLISRGNLT 130 Query: 133 PFIVTLGTLGIFRAFLTYLADGGALTLDGTLSDLYGPVYYTSLLGVPVPIWVFLLVAAAG 192 P + TLGT IF L +G +L + ++ D + S+LGVP+P +F+ + Sbjct: 131 PILCTLGTQMIFTGLAVVLTNGSSLRI--SVVDPISAIGNESVLGVPIPFIIFVALLLLV 188 Query: 193 ALILNRTAFGRHVQAIGSNEQVARYAAIQVVRVKIITYMLVGICVGIATVLYVPRLGSAT 252 ++ + FG + +G+N + ARYA I R++ TY++ G+ +A ++ R S Sbjct: 189 GWLMRYSLFGIKLYLLGTNARAARYAGISQNRLRFATYVISGVLASVAGIIIAARTASVK 248 Query: 253 PSTGLLWELEAIAAVVVGGTALKGGEGRIIGTVIGAILLSVISNILNLTSIISVYLNAA 311 G + L AI V+ G +GG GR++ A+ L ++S+ NL I + + + A Sbjct: 249 ADYGNSYLLIAILIAVMAGVRPQGGYGRMVCLFFSALALQLLSSTFNLLEISNFFRDCA 307 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 0.144 0.416 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: 993,634 Number of extensions: 43136 Number of successful extensions: 323 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 294 Number of HSP's successfully gapped: 21 Length of query: 328 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 242 Effective length of database: 1,212,660 Effective search space: 293463720 Effective search space used: 293463720 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: 131 (55.1 bits)