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= 0153.0029.p (364 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 228 4e-61 gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 176 2e-45 gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent a... 123 3e-29 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 117 1e-27 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 113 2e-26 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 228 bits (582), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 133/353 (37%), Positives = 198/353 (56%), Gaps = 5/353 (1%) Query: 2 IEYESLGQSNAAFMTELEAAAVRVIRSGWYVLGKEVSAFEAEFGTYIGAKHCIGVANGLD 61 I++ L A + + +V+ G Y++G EV EA Y GAKHCI VA+G + Sbjct: 5 IDFIDLKSQYRALKDAINSRIQKVLDHGQYIMGPEVRELEAALEAYTGAKHCITVASGTE 64 Query: 62 ALILSIEALDLPKGSDILVAANTYIATILAILRAGHQPVLVEAELATFNMDPALLPGAMT 121 AL++S+ ALD+ G +I+ T++AT ++ G +PV V+ E T N+D L+ +T Sbjct: 65 ALLISLMALDIKPGDEIITTPFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARIT 124 Query: 122 KKTRAICVTHMFGKICRMDAIAAFAKEHG-LKLIEDCAQSHGAKLNGKMSGTFGNAGCFS 180 KT+AI ++G+ MD I A A HG L +IED AQS GA G+ SG + GC S Sbjct: 125 SKTKAIMPVSLYGQAADMDEINAIAARHGNLPVIEDAAQSFGATYKGRKSGNLSSIGCTS 184 Query: 181 FYPTKNLGAVGDAGAITTDDDALADRLRHLRNYGSKQKYVNKYPGVNSRLDELQAALLRV 240 F+P+K LG GD GAI T+DDA+A R +R +G Q+YV+ GV R+D LQ A++ Sbjct: 185 FFPSKPLGCYGDGGAIFTNDDAIALACRQIRVHGQSQRYVHTRVGVGGRMDTLQCAIVLA 244 Query: 241 KLQHLDAMTAHKRALADIYDQHL-PDWVIKPRRREDEFDVFHIYGIRHPERDALRQYLLD 299 KL+ D + AL Y+ L + + ++R D VF Y + R+A++ L + Sbjct: 245 KLERFDWEIEQRLALGSRYNSLLDAAGIARIQQRPDRDSVFAQYTVLLDNREAVQAALQN 304 Query: 300 NGVKTEVHYPIPPHRQEAMAGILSGNY-PIAEEQHATELSLPISNG--HTADD 349 G+ T VHYP+P +RQ A + + P+A++ A +SLP+S HTA D Sbjct: 305 AGIPTAVHYPVPLNRQPAYRHLGDPDQTPVADQLAARVMSLPMSPDLEHTAQD 357 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 176 bits (447), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 119/379 (31%), Positives = 192/379 (50%), Gaps = 37/379 (9%) Query: 15 MTELEAAAVRV-IRSGWYVLGKEVSAFEAEFGTYIGAKHCIGVANGLDALILSIEALDLP 73 +TE E +V + +GW V G +V FE ++ + GA+H I V + AL LS+ AL Sbjct: 10 LTEAEIQSVLAPLSNGWLVQGPKVREFEEKWSAFTGARHSIAVTSCTTALHLSLAALGFG 69 Query: 74 KGSDILVAANTYIATILAILRAGHQPVLVEAELATFNMDPALLPGAMTKKTRAICVTHMF 133 G + +V A T+IAT I G + V + +L TFN+D A L +T +T+AI H+F Sbjct: 70 PGDEAIVPAFTWIATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKAILPVHLF 129 Query: 134 GKICRMDAIAAFAKEHGLKLIEDCAQSHGAKLNGKMSGTFGNAGCFSFYPTKNLGAVGDA 193 G MD I AK+HGL ++ED A G++ +GK G G+ GCFSF+P K + G+ Sbjct: 130 GLAAEMDQINDVAKQHGLWVVEDAACGFGSRYHGKHVGVLGDTGCFSFHPRKAI-TTGEG 188 Query: 194 GAITTDDDALADRLRHLRNYGSK----QKYVNKYP---------GVNSRLDELQAALLRV 240 G ITTD+DALA++LR LR++G+ Q+++ P G N R+ ++QAAL Sbjct: 189 GMITTDNDALAEKLRRLRDHGAAMTDLQRHLGARPYLLADHPDAGYNQRMTDIQAALGAA 248 Query: 241 KLQHLDAMTAHKRALADIYDQHLPD--WVIKPRRRE------------------DEFDVF 280 +++ D + A +R LA+ YD D W+ P + + + Sbjct: 249 QMERADDIIAERRRLAERYDAAFADLSWLRTPAHVDGLEHGYQSYPCLFQPEPVNTDSIE 308 Query: 281 HIYGIRHPERDALRQYLLDNGVKTEVHYPIPPHRQEAMAGILSGNYPIAEEQHATELSLP 340 I R+ D+L+Q + T + + +R++ + ++P A + +SLP Sbjct: 309 RINAARNAWMDSLQQAGISTRPATHAVHMLTFYREK--YALKPADFPNAWAANDCSISLP 366 Query: 341 ISNGHTADDIQRVCDVISG 359 + +G T + V + + G Sbjct: 367 LFHGMTQAEQDFVIEQVRG 385 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 123 bits (308), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 96/362 (26%), Positives = 169/362 (46%), Gaps = 36/362 (9%) Query: 20 AAAVRVIRSGWYVLGKEVSAFEAEFGTYIGAKHCIGVANGLDALILSIEALDLPKGSDIL 79 AA V+RSGW G +V AFE Y+G + +G + +++ + G +++ Sbjct: 19 AAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTCTMEIALRIAGVGPGDEVI 78 Query: 80 VAANTYIATILAILRAGHQPVLVEAELATFNMDPALLPGAMTKKTRAICVTHMFGKICRM 139 +++AT IL G PV + + T N+D L A+T +T+A+ ++ G M Sbjct: 79 TTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAITPRTKAVIPVYLSGLPVDM 138 Query: 140 DAIAAFAKEHGLKLIEDCAQSHGAKLNGKMSGTFGNAGCFSFYPTKNLGAVGDAGAIT-- 197 D + A A +H L+++ED AQ+ G+ NGK G FG+ FS KN+ + + G + Sbjct: 139 DRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSLQANKNITS-SEGGFLVLN 197 Query: 198 -TDDDALAD--RLRHLRNYGSKQKYVNKYPGVNSRLDELQAALLRVKLQHLDAMTAHKRA 254 ++ LA+ RL+ + G V+ G + ++ AA+ + H+DA+TAH++ Sbjct: 198 NAEEARLAEKYRLQGVTRSGFDGLEVDVLGG-KFNMTDVAAAIGLGQFAHIDAITAHRKE 256 Query: 255 LA------------DIYDQHLPDWVIKPRRREDEFDVFHIYGIRHPE---RDALRQYLLD 299 LA Y LP + E +H++ + PE R A + +++ Sbjct: 257 LARHYFACFGSDFESRYGAQLP-------VADFENSNWHMFQLVLPERITRAAFMEKMME 309 Query: 300 NGVKTEVHYP----IPPHRQEAMAGILSGNYPIAEEQHATELSLPISNGHTADDIQRVCD 355 + HYP + +R+ G G +P+AE +SLP+ N + DD+ R + Sbjct: 310 KQIGIGYHYPAIHLLKLYRER---GFGEGMFPVAERVGQRIVSLPMFNTMSKDDVVRSVE 366 Query: 356 VI 357 + Sbjct: 367 TV 368 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 125/243 (51%), Gaps = 23/243 (9%) Query: 34 GKEVSAFEAEFGTYIGAKHCIGVANGLDALILSIEALDL--PKGSDILVAANTYIATILA 91 G V AFE E+ ++G K+ + V +G A +LS+ L L P+G +++V T+I+ + Sbjct: 33 GPNVRAFEKEWSEWLGVKYSVFVNSGASANLLSMAVLKLRHPEGGEVIVPPLTWISDVAT 92 Query: 92 ILRAGHQPVLVEAELATFNMDPALLPGAMTKKTRAICVTHMFGKICRMDAIAAFAKEHGL 151 +++ G PV + + + M P + +T++TRA+ +TH+ G D + A + + Sbjct: 93 VIQNGFTPVFADIDPRSLAMAPEQILAKITERTRAVFLTHVQGFDGLTDELLAELERRNI 152 Query: 152 KLIEDCAQSHGAKLNGKMSGTFGNAGCFSFYPTKNLGAVGDAGAITTDDDALADRLRHLR 211 LIED +SHGA NG+ G+FG FSFY ++ + + G + T+D + ++R LR Sbjct: 153 PLIEDVCESHGATHNGQRLGSFGWMSNFSFYYAHHMSTI-EGGMVCTNDPEVYQQVRMLR 211 Query: 212 NYGSKQK--------------------YVNKYPGVNSRLDELQAALLRVKLQHLDAMTAH 251 ++G ++ ++ +P N R E+ A + R +L+ LDA A Sbjct: 212 SHGMVREATDDDLKLGYRQDNPQLNPDFIFAFPAYNVRNTEIGAIMGRSQLKRLDANCAR 271 Query: 252 KRA 254 + A Sbjct: 272 RTA 274 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 113 bits (283), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 71/266 (26%), Positives = 132/266 (49%), Gaps = 6/266 (2%) Query: 2 IEYESLGQSNAAFMTELEAAAVRVIRSGWYVLGKEVSAFEAEFGTYIGAKHCIGVANGLD 61 +E E + S+ T A RV+ S G V +FE EF +Y+G + + A+G Sbjct: 1 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVAAASGTV 60 Query: 62 ALILSIEALDLPKGSDILVAANTYIATILAILRAGHQPVLVEAELATFNMDPALLPGAMT 121 AL+L++ A+ + G +++ +A ++ + AI G PV + + + N+ P + ++ Sbjct: 61 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS 120 Query: 122 KKTRAICVTHMFGKICRMDAIAAFAKEHGLKLIEDCAQSHGAKLNGKMSGTFGNAGCFSF 181 ++TRAI V + G A+ HGL+LIED +++ G++ G++ G FG+ F F Sbjct: 121 QRTRAIVVGNCNGHPAAWTEFRQLAQAHGLRLIEDSSEAIGSRYQGRVVGNFGDIAIFDF 180 Query: 182 YPTKNLGAVGDAGAITTDDDALADRLRHLRNYGSKQK----YVNKYPGVNSRLDELQAAL 237 L G+ + TDD LA L ++RN + ++ P + + +L AA+ Sbjct: 181 SQPSAL-CCGEGAMLVTDDPELASELHYMRNRNLSDRQSIAVASRVP-MQGSMSDLSAAI 238 Query: 238 LRVKLQHLDAMTAHKRALADIYDQHL 263 +L+ LD + ++ + Y +H+ Sbjct: 239 GIAQLERLDEILMRRKQVEAYYLEHV 264 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 0.320 0.136 0.403 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: 1,083,003 Number of extensions: 42886 Number of successful extensions: 157 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 151 Number of HSP's successfully gapped: 5 Length of query: 364 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 278 Effective length of database: 1,212,660 Effective search space: 337119480 Effective search space used: 337119480 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)