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= 0001.4245.p (310 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309646|ref|YP_003773738.1| transketolase C-terminal subuni... 155 3e-39 gi|300310438|ref|YP_003774530.1| transketolase, C-terminal subun... 142 4e-35 gi|300313125|ref|YP_003777217.1| 1-deoxy-D-xylulose 5-phosphate ... 108 4e-25 gi|300309841|ref|YP_003773933.1| transketolase [Herbaspirillum s... 61 1e-10 gi|300310747|ref|YP_003774839.1| transketolase [Herbaspirillum s... 58 1e-09 >gi|300309646|ref|YP_003773738.1| transketolase C-terminal subunit [Herbaspirillum seropedicae SmR1] Length = 321 Score = 155 bits (393), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 97/300 (32%), Positives = 153/300 (51%), Gaps = 12/300 (4%) Query: 1 MRNAFADEITKLGSSDPRVVLLSGDIGNKLFDKFKAANTGRFLNCGIAEANMMGVAAGMA 60 MR+A I + D ++ D G+ + DK +A RF+N GIAE N++ V+AG+A Sbjct: 8 MRDALLQRIWSAMAEDRQIFFTCADFGSPVLDKIRADFPDRFVNVGIAEQNLINVSAGLA 67 Query: 61 LSGLRPVIYTITPFTTTRCFEQIRVDACYHN----VPVIIVGTGSGLSYAELGPTHHSCE 116 L G + Y I PF T RC+EQ+RV + + V ++G G+G SY GPTH E Sbjct: 68 LEGYKVFAYAIAPFITMRCYEQVRVSLALLSEVRPMNVNLIGVGAGYSYVVSGPTHQCYE 127 Query: 117 DLAIMRVLPNMTVLAPADEVELRQCLRAALKLNGPVYIRIGKKGEQIVP--KKDEHFEIG 174 D+ +MR LPN VL+ AD V GP Y+R Q++P D ++ Sbjct: 128 DITLMRALPNFQVLSAADHVTAAAFFDTCSNSMGPKYLRFDA---QVLPVIYGDGAPDLA 184 Query: 175 RAINV-RAGDDVCLIGAGTLLPTVMAAAELLQARGISARVESFHTIKPLDEANLQQAFAG 233 + ++ R G + L+ G +L T + AAE+L A GI V + LQ+ Sbjct: 185 QGFHIHRRGGKIGLVATGYMLHTALQAAEVLAAEGIEVGVIDLFDLARFSADALQETLQS 244 Query: 234 YAVVAVVEEHSR-IGGLGGAIAEWLAQQEPMKGRLLGFGVEDSFMHEIGSQEYARAKYGL 292 YA +A +EE R GG+ + E++A++ ++ R+L GV+ + E+G++ + G+ Sbjct: 245 YAGIATLEEGFRGRGGMDSMLFEFIARR-GLQTRMLNIGVDGVYRFELGTRTELHEEVGI 303 >gi|300310438|ref|YP_003774530.1| transketolase, C-terminal subunit [Herbaspirillum seropedicae SmR1] Length = 334 Score = 142 bits (358), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 94/301 (31%), Positives = 148/301 (49%), Gaps = 5/301 (1%) Query: 5 FADEITKLGSSDPRVVLLSGDIGNKL-FDKFKAANTGRFLNCGIAEANMMGVAAGMALSG 63 F + + P +V L+ D+ F+ A RF G+AE +M A GMA G Sbjct: 32 FGKALVDYAADRPEIVGLTADLAKYTDLHLFQKAYPERFFQMGMAEQLLMAAAGGMAKEG 91 Query: 64 LRPVIYTITPFTTTRCFEQIRVDACYHNVPVIIVGTGSGLSYAELGPTHHSCEDLAIMRV 123 L P T F T R ++ I N+ V I GL+ GP+H + EDLA+MR Sbjct: 92 LVPFATTYAVFATRRAYDFIHQVIAEENLNVKICCALPGLTTG-YGPSHQATEDLAMMRA 150 Query: 124 LPNMTVLAPADEVELRQCLRAALKLNGPVYIRIGKKGEQIV-PKKDEHFEIGRAINVRAG 182 +P MT++ P D ++L Q + GPVY+R+ + +V + D FE+GRA +R G Sbjct: 151 IPGMTIVDPCDALDLEQAVPQIAAHQGPVYMRLARGNVPLVLDEYDYRFELGRAKEIRDG 210 Query: 183 DDVCLIGAGTLLPTVMAAAELLQARGISARVESFHTIKPLDEAN-LQQAFAGYAVVAVVE 241 +DV +I +G + + A+ L+A +S V TIKP DEA + Q +V V E Sbjct: 211 NDVLIISSGFMTMRALEVAKALEADKVSVAVLHCPTIKPFDEATVVAQVKKKNRLVVVAE 270 Query: 242 EHSRIGGLGGAIAEWLAQQEPMKGRLLGFGVEDSFMHEIGSQEYARAKYGLTADNIAAKV 301 HS +GGLG +A L + G+ D+F+ + G+ +YG++ + + ++ Sbjct: 271 NHSVVGGLGEIVATTLMRHRVQPAGFQLAGLPDAFL-DAGALPTLHDRYGISCEVLGRRI 329 Query: 302 E 302 + Sbjct: 330 K 330 >gi|300313125|ref|YP_003777217.1| 1-deoxy-D-xylulose 5-phosphate synthase [Herbaspirillum seropedicae SmR1] Length = 621 Score = 108 bits (271), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 92/308 (29%), Positives = 150/308 (48%), Gaps = 16/308 (5%) Query: 5 FADEITKLGSSDPRVVLLSGDI--GNKLFDKFKAANTGRFLNCGIAEANMMGVAAGMALS 62 F D + + ++D ++V ++ + G+ + D F+ R+ + GIAE + + AAGMA Sbjct: 315 FGDWLCDMAAADDKLVGITPAMREGSGMVD-FEKKFPNRYYDVGIAEQHAVTFAAGMACE 373 Query: 63 GLRPVIYTITPFTTTRCFEQIRVDACYHNVPVIIVGTGSGLSYAELGPTHHSCEDLAIMR 122 G++PV+ + F R ++Q+ D N+ V +GL A+ G TH DLA +R Sbjct: 374 GMKPVVAIYSTFLQ-RAYDQLIHDVALQNLDVTFALDRAGLVGAD-GATHAGNYDLAFLR 431 Query: 123 VLPNMTVLAPADEVELRQCLRAALKLNGPVYIRIGKKGEQIVPKKDEHFE---IGRAINV 179 +PNM V+A +DE E R+ L A + GP +R +G I D+ E +GR Sbjct: 432 CIPNMVVMAASDENECRKMLSTAYQYPGPASVRY-PRGAGIGAAVDQTLETLPLGRGEIR 490 Query: 180 RAGDDVCLIGAGTLLPTVMAAAELLQARGISARVESFHTIKPLDEANLQQAFAGYAVVAV 239 R G +V ++ G+LL + A + L +A V + IKPLD ++Q A + + Sbjct: 491 RQGKNVAILAFGSLLAPSLGAGDKL-----NATVANMRFIKPLDVELVKQLAASHDALVT 545 Query: 240 VEEHSRIGGLGGAIAEWLAQQEPMKGRLLGFGVEDSFMHEIGSQEYARAKYGLTADNIAA 299 VEE +GG GA + +L G+ D F+ + G A+ GL A+ IA Sbjct: 546 VEEGCIMGG-AGAAVSEALAAAGINKPILHLGLPDRFI-DHGDAAQLLAQCGLDANGIAD 603 Query: 300 KVEAAYRK 307 + + K Sbjct: 604 SIAQRFGK 611 >gi|300309841|ref|YP_003773933.1| transketolase [Herbaspirillum seropedicae SmR1] Length = 664 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 64/225 (28%), Positives = 97/225 (43%), Gaps = 23/225 (10%) Query: 39 TGRFLNCGIAEANMMGVAAGMALSGLRPVIYTITPFTTTRCFEQ--IRVDACYHNVPVII 96 +G +++CG+ E M +A GMA G VI + +E+ +R+ A +PV Sbjct: 397 SGAYVHCGVREHLMGAMANGMAAHG--GVIALSVTYLAFSDYERPAMRMSALM-GLPVKY 453 Query: 97 VGTGSGLSYAELGPTHHSCEDLAIMRVLPNMTVLAPADEVELRQCLRAALK-LNGPVYIR 155 V + + + GPTH E LA +R +PNM V+ PAD E +C A++ +GPV + Sbjct: 454 VFSHDSIGIGKNGPTHQPVEILASLRAMPNMLVMRPADATEAVECWEIAMQHRSGPVSMV 513 Query: 156 IGKKGEQIVPKKDEHFEIGRAINVRAG----------DDVCLIGAGTLLPTVMAAAELLQ 205 + Q +P +E R G V L+ G+ + AA L+ Sbjct: 514 FAR---QALPPVRRQYEAENRC-ARGGYVLHEAQCGARQVTLLATGSEVALACAARAQLE 569 Query: 206 ARGISARVESFHTIKPLDE---ANLQQAFAGYAVVAVVEEHSRIG 247 A GI+ V S + D+ A QQ V VE R G Sbjct: 570 AAGIATAVVSLPCWELFDQQDTAYRQQVLGEQTVRVGVEAALRFG 614 >gi|300310747|ref|YP_003774839.1| transketolase [Herbaspirillum seropedicae SmR1] Length = 664 Score = 57.8 bits (138), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 65/275 (23%), Positives = 110/275 (40%), Gaps = 18/275 (6%) Query: 35 KAANTGRFLNCGIAEANMMGVAAGMALSG-LRPVIYTITPFTTTRCFEQIRVDACYHNVP 93 +A G +N G+ E M + G+AL G P T F+ +R+ A + Sbjct: 399 RADQRGNHINYGVREFGMSAIMNGIALHGGYLPFGATFLTFSD-YSRNALRM-AALMKIR 456 Query: 94 VIIVGTGSGLSYAELGPTHHSCEDLAIMRVLPNMTVLAPADEVELRQCLRAALKL-NGPV 152 + V T + E GPTH S E ++ +R++PN+ P D E ++K +GP Sbjct: 457 ALFVFTHDSIGLGEDGPTHQSVEHVSSLRLIPNLDNWRPCDTTETAVAWAESIKRHDGPS 516 Query: 153 YIRIGKKGEQIVPKKDEHFEI----GRAINVRAGDDVCLIGAGTLLPTVMAAAELLQARG 208 + ++ + D + G + V L+ G+ + AA+ L A G Sbjct: 517 TLIFSRQNLPFQERTDAQVKDIARGGYVLRDAPNAKVILMATGSEIELATKAADALTAEG 576 Query: 209 ISARVESFHTIKPLDEANLQQAFAGYAVVAVVEEHSRIGGLGGAIAEWLAQQEPMKGRLL 268 I+ RV S + D + A Y + R+ G A W + ++G ++ Sbjct: 577 IAVRVVSMPSTDVFDRQD-----AAYKASVLTRGVPRVAIEAGVTAFW-HKYVGLEGAVV 630 Query: 269 GFGVEDSFMHEIGSQEYARAKYGLTADNIAAKVEA 303 G D+F E +G T +N+ AK +A Sbjct: 631 GI---DTF-GESAPAGVLFKHFGFTVENVVAKAKA 661 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 0.321 0.137 0.398 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: 927,055 Number of extensions: 39531 Number of successful extensions: 134 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 126 Number of HSP's successfully gapped: 5 Length of query: 310 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 225 Effective length of database: 1,217,395 Effective search space: 273913875 Effective search space used: 273913875 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: 130 (54.7 bits)