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= 0002.0109.p (359 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313693|ref|YP_003777785.1| dTDP-glucose 4,6-dehydratase [H... 479 e-136 gi|300313483|ref|YP_003777575.1| NAD_dependent epimerase/dehydra... 99 7e-22 gi|300313479|ref|YP_003777571.1| UDP-galactose-4-epimerase [Herb... 97 2e-21 gi|300312049|ref|YP_003776141.1| UDP-glucose 4-epimerase [Herbas... 92 5e-20 gi|300313692|ref|YP_003777784.1| UDP-glucose 4-epimerase [Herbas... 92 5e-20 >gi|300313693|ref|YP_003777785.1| dTDP-glucose 4,6-dehydratase [Herbaspirillum seropedicae SmR1] Length = 338 Score = 479 bits (1233), Expect = e-136, Method: Compositional matrix adjust. Identities = 219/329 (66%), Positives = 268/329 (81%), Gaps = 1/329 (0%) Query: 1 MIFVTGGAGFIGSNFVLEWLKS-NDESVVNFDKLTYAGNLENLKSLGDDPRHIFVQGDIC 59 M+FVTGGAGFIG+N++L +L + +DE+V+N DKLTYAGN +NL S+ D R++F Q DIC Sbjct: 1 MLFVTGGAGFIGANYILHFLAAPHDEAVLNIDKLTYAGNPDNLASVAGDARYLFSQTDIC 60 Query: 60 DQDQVQALFLQYRPRAILHFAAESHVDRSIHGPGEFIRTNINGTFSLLEAARAYWNGLDG 119 D + LF Q+RPRA++H AAESHVDRSI GP FI+TN+NGTFS+L AA YW+ L Sbjct: 61 DTAAIARLFAQHRPRAVVHCAAESHVDRSIAGPAVFIQTNVNGTFSMLSAAYDYWSTLPA 120 Query: 120 QEKSDFRFLHVSTDEVYGSLSPEDPAFTETTPYAPNSPYSASKAASDHLVRSYHHTYGLP 179 E++ FRFLH+STDEV+GSL+ + P FTET+PYAPNSPYSASKAASDHLVR++H TYGLP Sbjct: 121 AEQAAFRFLHISTDEVFGSLAADAPPFTETSPYAPNSPYSASKAASDHLVRAFHSTYGLP 180 Query: 180 TLVTNCSNNYGPYHFPEKLIPLVISNALAGQSLPIYGDGMQVRDWLYVTDHCAAIRRVLE 239 L+T+CSNNYGP+HFPEKLIPLVI+NALAGQ LPIYGDG QVRDWL+V DHC AI VL Sbjct: 181 VLITHCSNNYGPFHFPEKLIPLVITNALAGQPLPIYGDGQQVRDWLHVADHCRAIELVLA 240 Query: 240 AGRPGQEYNVGGNNEKANLDVVKVLCGLLDELSPKASGKYFDQAVFVADRPGHDRRYAIN 299 RPG+ YN+GGN+EK NL+VV LC LLDEL+PKA G+Y DQ FV DRPGHDRRYA++ Sbjct: 241 RARPGESYNIGGNSEKTNLEVVLTLCDLLDELAPKAQGQYRDQICFVQDRPGHDRRYAVD 300 Query: 300 AAKIAGELGWTPAETFETGMRKTVEWYLA 328 +KI ELGW+P F G+R+TV+W+LA Sbjct: 301 TSKIQRELGWSPQHAFRQGLRQTVQWFLA 329 >gi|300313483|ref|YP_003777575.1| NAD_dependent epimerase/dehydratase [Herbaspirillum seropedicae SmR1] Length = 333 Score = 98.6 bits (244), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 100/351 (28%), Positives = 159/351 (45%), Gaps = 47/351 (13%) Query: 2 IFVTGGAGFIGSNFVLEWLKSNDESVVNFDKLTYAGNLENLKSLGDDPR-HIF-VQGDIC 59 I V GGAG IGS+ V +K + + ++ +D G+ ENL++ DPR I+ V GDI Sbjct: 8 IVVIGGAGLIGSHTVDHLVKEDVKEILIYDNF-LRGSRENLQNALKDPRVKIYDVGGDIM 66 Query: 60 DQDQVQALFLQYRPRAILHFAA----ESHVDRSIHGPGEFIRTNINGTFSLLEAARAYWN 115 D +Q+ + H AA + H P N+ GTF+++EA A Sbjct: 67 QTDILQSALEG--ADGVFHLAALWLLQCH-----EYPRSAFDVNVRGTFNVMEACVA--- 116 Query: 116 GLDGQEKSDFRFLHVSTDEVYGSLSPEDPAFTETTPYAPNSPYSASKAASDHLVRSYHHT 175 K R ++ S+ VYG E E PY + Y A+K A + ++RS+HH Sbjct: 117 ------KGVKRLVYSSSASVYGDAVRE--PMDEDHPYNNKNFYGATKIAGETMLRSFHHR 168 Query: 176 YGLPTLVTNCSNNYGP---YHFPEKLIPLVISNAL-AGQSLPIYGDGMQVRDWLYVTDHC 231 YGL + N YGP YH + + + +A+ G+S I GDG + D++ V D Sbjct: 169 YGLNYVGLRYMNVYGPRQDYHGAYIAVIMKMLDAIDKGESPTIMGDGSEAFDFVAVEDCG 228 Query: 232 AAIRRVLEAGRPGQEYNVGGNNEKANLDVVKVL-----CGLLDELSPKASGKYFDQAVFV 286 A ++A Q YNVG + ++ ++L C +P++ QA V Sbjct: 229 LANVCAMKAETADQYYNVGTGKRTSLKELAELLLEITGCDKPITFAPRS------QATLV 282 Query: 287 ADRPGHDRRYAINAAKIAGELGWTPAETFETGMRKTVEWYLANQDWVANVR 337 +R G + K + E+G+T G+++ +EW ++ VA R Sbjct: 283 RNRIGCPK-------KASSEIGFTATIDLREGLKRLIEWRANHKAEVAVRR 326 >gi|300313479|ref|YP_003777571.1| UDP-galactose-4-epimerase [Herbaspirillum seropedicae SmR1] Length = 357 Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 101/346 (29%), Positives = 153/346 (44%), Gaps = 40/346 (11%) Query: 3 FVTGGAGFIGSNFVLEWLKSNDESVVNFDKLT--YAGNLENLKSLGDDPR---HIFVQGD 57 VTG AGFIGSN + LK N + VV D + + NL+ +K+L + FV+GD Sbjct: 20 LVTGVAGFIGSNLLETLLKLN-QRVVGLDNFSTGFQHNLDEVKALVTPEQWANFRFVEGD 78 Query: 58 ICDQDQVQALF---------LQYRPRAILHFAAESHVDRSIHGPGEFIRTNINGTFSLLE 108 I D +A ++Y +LH AA V RSI P + NI+G ++L Sbjct: 79 IRKLDDCRAAMHHEALGSNIVEY----VLHQAALGSVPRSIEDPITTNQNNIDGFLNMLV 134 Query: 109 AARAYWNGLDGQEKSDFRFLHVSTDEVYGSLSPEDPAFTETTPYAPNSPYSASKAASDHL 168 AAR D + K RF++ ++ YG P P E P SPY+ +K ++ Sbjct: 135 AAR------DARVK---RFVYAASSSTYGD-HPGLPK-VEDRIGKPLSPYAVTKFVNELY 183 Query: 169 VRSYHHTYGLPTLVTNCSNNYGPYHFPE----KLIPLVISNALAGQSLPIYGDGMQVRDW 224 + TYGL T+ N +G P+ +IP I+ A+ G+ + I GDG RD+ Sbjct: 184 ADVFARTYGLQTIGLRYFNIFGRRQNPDGAYAAVIPKWIAAAIKGEQIYINGDGETSRDF 243 Query: 225 LYVTDHCAA---IRRVLEAGRPGQEYNVGGNNEKANLDVVKVLCGLLDELSPKASGKYFD 281 YV + A L+ Q YNV + ++ + L D LS Sbjct: 244 CYVDNAVQANLLAACTLQDEAANQVYNVAVGDRTTLKELYQF---LRDNLSATFPHLRDA 300 Query: 282 QAVFVADRPGHDRRYAINAAKIAGELGWTPAETFETGMRKTVEWYL 327 Q +F R G R + K LG+ P+ G+++++ WY+ Sbjct: 301 QPIFREFRAGDVRHSLADIGKGRRLLGYEPSHRIGRGLKESMNWYV 346 >gi|300312049|ref|YP_003776141.1| UDP-glucose 4-epimerase [Herbaspirillum seropedicae SmR1] Length = 347 Score = 92.4 bits (228), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 92/338 (27%), Positives = 143/338 (42%), Gaps = 32/338 (9%) Query: 3 FVTGGAGFIGSNFVLEWLKSNDESVVNFDKLTYA--GNLENLKS-LGDDP--RHIFVQGD 57 +TG AGFIGSN +L L + + V D + NLE +++ +G F++GD Sbjct: 19 LITGVAGFIGSN-LLARLLTLGQQVTGLDNFSTGRQANLEEVRAEVGAAAWANFRFIEGD 77 Query: 58 ICDQDQVQALFLQYRPRA--ILHFAAESHVDRSIHGPGEFIRTNINGTFSLLEAARAYWN 115 ICD A L+ A +LH AA V RSI P N+NG ++L AAR Sbjct: 78 ICDA----ATCLRACDGADYVLHQAALGSVSRSIEDPVRTNLNNVNGFLNMLVAAR---- 129 Query: 116 GLDGQEKSDFRFLHVSTDEVYGSLSPEDPAFTETTPYAPNSPYSASKAASDHLVRSYHHT 175 + RF++ ++ YG P P E P SPY+ +K ++ + Sbjct: 130 -----DAGVARFVYAASSSTYGD-HPGLPKVEEVIG-KPLSPYAVTKYVNELYAEVFARC 182 Query: 176 YGLPTLVTNCSNNYGPYHFPE----KLIPLVISNALAGQSLPIYGDGMQVRDWLYVTDHC 231 YG+ ++ N +G P +IP ++ + L I GDG RD+ Y+ + Sbjct: 183 YGMESIGLRYFNVFGRRQDPHGAYAAVIPQWVTAMIRNGELRINGDGQTSRDFCYIDNVV 242 Query: 232 AAIRRVLEAGRPG--QEYNVGGNNEKANLDVVKVLCGLLDELSPKASGKYFDQAVFVADR 289 A AG Q YNV N+ + D+ ++ LL + P + +V R Sbjct: 243 QANLLAATAGEEAVNQVYNVALNDRTSLNDLYAMMRELLVQRFPHLQEH---RPSYVGFR 299 Query: 290 PGHDRRYAINAAKIAGELGWTPAETFETGMRKTVEWYL 327 G R + K LG+ P G+ + + WY+ Sbjct: 300 AGDIRDSQADIGKARQRLGYAPTHRLRAGLEQAMSWYI 337 >gi|300313692|ref|YP_003777784.1| UDP-glucose 4-epimerase [Herbaspirillum seropedicae SmR1] Length = 336 Score = 92.4 bits (228), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 97/350 (27%), Positives = 153/350 (43%), Gaps = 44/350 (12%) Query: 2 IFVTGGAGFIGSNFVLEWLKSNDESVVNFDKLTYAGNLENLKSLGDDPRHIF--VQGDIC 59 I VTGGAG+IGS+ +E LK+ E +V FD + + E++K + V+GDI Sbjct: 3 ILVTGGAGYIGSHTCVELLKAGHEVIV-FDNFCNS-SPESVKRVQQITGKTLSLVKGDIR 60 Query: 60 DQDQVQALFLQYRPRAILHFAAESHVDRSIHGPGEFIRTNINGTFSLLEAARAYWNGLDG 119 +++Q++++ +++ A++HFA V S+ P + N+ GT LLEA +A G Sbjct: 61 NREQLESVLREFKCEAVIHFAGLKAVGESVEQPLMYYDNNVVGTVRLLEAMQA-----TG 115 Query: 120 QEKSDFRFLHVSTDEVYGSLSPEDPAFTETTPYAPNSPYSASKAASDHLVRSYHHTY-GL 178 + F S+ VYG P+ E P + ++PY SK + ++R Y+ + Sbjct: 116 VKTIVFS----SSATVYG--DPQYLPLDEAHPLSASNPYGRSKIVIEDMLRDYYRAHPDW 169 Query: 179 PTLVTNCSNNYG----------PYHFPEKLIPLVISNALA-GQSLPIYG------DGMQV 221 + N G P P L+P V A+ + L I+G DG V Sbjct: 170 KIALLRYFNPVGAHESGLIGEDPGGIPNNLMPFVAQVAIGRRERLNIWGGDYPTPDGTGV 229 Query: 222 RDWLYVTDHCAAIRRVLEAGRPGQEY--NVGGNNEKANLDVVKVLCGLLDELSPKASGKY 279 RD+++V D L+A Q + N+G + LDV+K KA GK Sbjct: 230 RDFIHVVDLARGHVAALQALDAPQCFAVNLGTGVGYSVLDVLKAY--------EKACGKT 281 Query: 280 FDQAVFVADRPGHDRRYAINAAKIAGELGWTPAETFETGMRKTVEWYLAN 329 A+ RPG N A+ +LGW E + +W N Sbjct: 282 LPYAI-AERRPGDIASCYANPAEAKRKLGWEATLGLEAMCADSWKWQQMN 330 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 0.318 0.136 0.422 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: 1,234,533 Number of extensions: 52599 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 151 Number of HSP's successfully gapped: 7 Length of query: 359 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 273 Effective length of database: 1,212,660 Effective search space: 331056180 Effective search space used: 331056180 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 (21.7 bits) S2: 131 (55.1 bits)