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= 0007.0101.p (306 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310700|ref|YP_003774792.1| dihydrodipicolinate synthase/N-... 570 e-164 gi|300312573|ref|YP_003776665.1| dihydrodipicolinate synthase [H... 82 4e-17 gi|300310616|ref|YP_003774708.1| dihydrodipicolinate synthase/N-... 61 1e-10 >gi|300310700|ref|YP_003774792.1| dihydrodipicolinate synthase/N-acetylneuraminate lyase [Herbaspirillum seropedicae SmR1] Length = 306 Score = 570 bits (1468), Expect = e-164, Method: Compositional matrix adjust. Identities = 285/306 (93%), Positives = 296/306 (96%) Query: 1 MSTPIYRGVFPVAPTIFDENGKLDLEGQKRAIDFMIDAGSNGICILANFSEQFVLSDEER 60 MSTP+YRGVFPVAPTIFD NGKLDLEGQKRAIDFMIDAGSNG+CILANFSEQFVLSDEER Sbjct: 1 MSTPLYRGVFPVAPTIFDANGKLDLEGQKRAIDFMIDAGSNGLCILANFSEQFVLSDEER 60 Query: 61 VLVQDTVLKHVAGRIPVIVTTTHFGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVSEK 120 V VQ+TVL+HVAGR+PVIVTTTH+GSQICAERSRAAQDAGAAMVMVMPPYHGATFRV EK Sbjct: 61 VQVQNTVLEHVAGRVPVIVTTTHYGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVPEK 120 Query: 121 QIYEFYGRVSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIANVSYFKIETAGAASKLRE 180 QIYEFY VSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEI VSYFKIETAGAASKLR+ Sbjct: 121 QIYEFYKHVSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIEQVSYFKIETAGAASKLRD 180 Query: 181 LIELGGDAVVGPWDGEEAITLIPDLDGGATGAMTGGGYPDGIRKIVDAYFAGDTEKAAEL 240 LIELGGDAVVGPWDGEEAITLIPDLD GATGAMTGGGYPDGIRKIVDAYFAGD EKAAEL Sbjct: 181 LIELGGDAVVGPWDGEEAITLIPDLDAGATGAMTGGGYPDGIRKIVDAYFAGDIEKAAEL 240 Query: 241 YMQWLPLINYENRQCGLAACKALMLEGGVIKSDMLRHPQAPMHPKVREGLLRVARRLDPM 300 YMQWLPLINYENRQCGL+ACKALMLEGGVIKSDMLRHPQ P+HPKVREGLLRVARRLDP+ Sbjct: 241 YMQWLPLINYENRQCGLSACKALMLEGGVIKSDMLRHPQPPLHPKVREGLLRVARRLDPL 300 Query: 301 VLSWGK 306 VLSWG+ Sbjct: 301 VLSWGR 306 >gi|300312573|ref|YP_003776665.1| dihydrodipicolinate synthase [Herbaspirillum seropedicae SmR1] Length = 292 Score = 82.4 bits (202), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/282 (25%), Positives = 136/282 (48%), Gaps = 13/282 (4%) Query: 15 TIFDENGKLDLEGQKRAIDFMIDAGSNGICILANFSEQFVLSDEERVLVQDTVLKHVAGR 74 T ++G LD +G ++ ID+ I G++ I I+ E +S EE + ++H A R Sbjct: 11 TPMHQDGSLDYDGLRKLIDWHIAEGTDSIVIVGTTGESPTVSMEEHCELIKVAVEHTAKR 70 Query: 75 IPVIVTTTHFGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVSEKQIYEFYGRVSDAID 134 IP+I T + E + A+ GA + + PY+ R +++ +Y + ++++++D Sbjct: 71 IPIIAGTGGNSTSEAIELTEFAKKVGADASLQVVPYYN---RPTQEGMYLHFKKIAESVD 127 Query: 135 IPIMIQDAP-VAGTPLSAPFLARMAKEIANVSYFKIETAGAASKLRELIELGGDAVVGPW 193 +P+++ + P +S + R+A ++ + K + G ++ +LI L + + Sbjct: 128 LPVILYNVPGRTVADMSNETILRLA-QVKGIVGVK-DATGNIARGTDLIRLAPKS-FAVY 184 Query: 194 DGEEAITLIPDLDGGATG-AMTGGGYPDGIRKIVDAYFAGDTEKAAELYMQWLPLINYEN 252 G++A + L GGA ++T P + ++ A +G+ +A EL + LPL N Sbjct: 185 SGDDATAIALMLYGGAGNISVTANVAPRDMHELCVAAMSGNIARAVELNNKLLPLHNKLF 244 Query: 253 RQCGLAACKALMLEGGVIKSDMLRHPQAPM----HPKVREGL 290 + K M E G+I S M R P AP+ H VR L Sbjct: 245 VEPNPVPLKWAMQEMGLIPSGM-RLPLAPLGAAYHDTVRAAL 285 >gi|300310616|ref|YP_003774708.1| dihydrodipicolinate synthase/N-acetylneuraminate lyase [Herbaspirillum seropedicae SmR1] Length = 305 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 70/289 (24%), Positives = 122/289 (42%), Gaps = 16/289 (5%) Query: 7 RGVFPVAPTIFDENGKLDLEGQKRAIDFMID-AGSNGICILANFSEQFVLSDEERVLVQD 65 RG+ P T F +G +D R ++ G G+ +L + E LS E+ V + Sbjct: 6 RGLVPAPVTPFTRDGAVDHAAIMRLGKWLGSFDGVKGLVVLGHAGEGTFLSQSEQAAVIE 65 Query: 66 TVLKHVAGRIPVIVTTTHFGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVSEKQIYEF 125 + +K GR+PVI T G+Q+ AE ++ A AGAA +V P + F + + Sbjct: 66 SFVKSTDGRVPVIAGITLEGTQVAAEEAKRAVKAGAAAGLVYPSHGWLRFGYQKGAPQDR 125 Query: 126 YGRVSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIANVSYFKIETAGAASKLRELIEL- 184 Y + + +P+++ P A A + +IA + G + R E+ Sbjct: 126 YRAIYEESGLPLILFQYPDA---TKATYNLETQLDIAALPGVFAMKNGVRNMRRWDTEIP 182 Query: 185 -----GGDAVVGPWDGEEAITLIPDLDGGATGAMTGGGYPDGIRKIVDAYFAGDTEKAAE 239 D + E + + D+DG G G P+ + ++ A A D KA Sbjct: 183 VVRRERPDLQILTCHDEYLLHTMFDVDGALVG--YGSIAPELLIDLIAAGKAKDYRKARA 240 Query: 240 LYMQWLPLI-NYENRQC---GLAACKALMLEGGVIKSDMLRHPQAPMHP 284 ++ + LP+ N +R G A K ++ G+++ +R P P+ P Sbjct: 241 IHDKLLPVTKNVYHRGSHMEGTVALKHALVARGILEHATVRSPLLPLEP 289 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 0.138 0.411 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: 936,710 Number of extensions: 36800 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 3 Length of query: 306 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 221 Effective length of database: 1,217,395 Effective search space: 269044295 Effective search space used: 269044295 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)