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= 0128.0016.p (312 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312573|ref|YP_003776665.1| dihydrodipicolinate synthase [H... 557 e-160 gi|300310616|ref|YP_003774708.1| dihydrodipicolinate synthase/N-... 91 9e-20 gi|300312447|ref|YP_003776539.1| 5-dehydro-4-deoxyglucarate dehy... 76 3e-15 gi|300310700|ref|YP_003774792.1| dihydrodipicolinate synthase/N-... 75 5e-15 >gi|300312573|ref|YP_003776665.1| dihydrodipicolinate synthase [Herbaspirillum seropedicae SmR1] Length = 292 Score = 557 bits (1436), Expect = e-160, Method: Compositional matrix adjust. Identities = 270/292 (92%), Positives = 280/292 (95%) Query: 21 MIKGSIVAIVTPMHPDGSLDFPGLRKLIDWHIAEGTDGIVIVGTTGESPTVSVEEHSELI 80 MIKGSIVAIVTPMH DGSLD+ GLRKLIDWHIAEGTD IVIVGTTGESPTVS+EEH ELI Sbjct: 1 MIKGSIVAIVTPMHQDGSLDYDGLRKLIDWHIAEGTDSIVIVGTTGESPTVSMEEHCELI 60 Query: 81 KVAVEHTAKRIPIIAGTGGNSTSEAIELTEFAKKVGADASLQVVPYYNRPTQEGMYLHFK 140 KVAVEHTAKRIPIIAGTGGNSTSEAIELTEFAKKVGADASLQVVPYYNRPTQEGMYLHFK Sbjct: 61 KVAVEHTAKRIPIIAGTGGNSTSEAIELTEFAKKVGADASLQVVPYYNRPTQEGMYLHFK 120 Query: 141 KIAEAVDLPVILYNVPGRTVADMSNETILRLAQVKGIVGVKDATGNIGRGSDLIRLAPKS 200 KIAE+VDLPVILYNVPGRTVADMSNETILRLAQVKGIVGVKDATGNI RG+DLIRLAPKS Sbjct: 121 KIAESVDLPVILYNVPGRTVADMSNETILRLAQVKGIVGVKDATGNIARGTDLIRLAPKS 180 Query: 201 FAVYSGDDPTAFALMLYGGQGNISVTANIAPRDMHELCAAAMSGNLARTIELNNKMLPLH 260 FAVYSGDD TA ALMLYGG GNISVTAN+APRDMHELC AAMSGN+AR +ELNNK+LPLH Sbjct: 181 FAVYSGDDATAIALMLYGGAGNISVTANVAPRDMHELCVAAMSGNIARAVELNNKLLPLH 240 Query: 261 NKLFVEPNPVPLKWAMTELGLIESGMRLPLAPLGAAFHDTVRAALRESGVLK 312 NKLFVEPNPVPLKWAM E+GLI SGMRLPLAPLGAA+HDTVRAALRESGVLK Sbjct: 241 NKLFVEPNPVPLKWAMQEMGLIPSGMRLPLAPLGAAYHDTVRAALRESGVLK 292 >gi|300310616|ref|YP_003774708.1| dihydrodipicolinate synthase/N-acetylneuraminate lyase [Herbaspirillum seropedicae SmR1] Length = 305 Score = 91.3 bits (225), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 84/303 (27%), Positives = 143/303 (47%), Gaps = 15/303 (4%) Query: 19 NIMIKGSIVAIVTPMHPDGSLDFPGLRKLIDWHIA-EGTDGIVIVGTTGESPTVSVEEHS 77 +I ++G + A VTP DG++D + +L W + +G G+V++G GE +S E + Sbjct: 2 SIDLRGLVPAPVTPFTRDGAVDHAAIMRLGKWLGSFDGVKGLVVLGHAGEGTFLSQSEQA 61 Query: 78 ELIKVAVEHTAKRIPIIAGTGGNSTSEAIELTEFAKKVGADASLQVVP---YYNRPTQEG 134 +I+ V+ T R+P+IAG T A E + A K GA A L V P + Q+G Sbjct: 62 AVIESFVKSTDGRVPVIAGITLEGTQVAAEEAKRAVKAGAAAGL-VYPSHGWLRFGYQKG 120 Query: 135 M-YLHFKKIAEAVDLPVILYNVPGRTVADMSNETILRLAQVKGIVGVKDATGNIGRGSD- 192 ++ I E LP+IL+ P T A + ET L +A + G+ +K+ N+ R Sbjct: 121 APQDRYRAIYEESGLPLILFQYPDATKATYNLETQLDIAALPGVFAMKNGVRNMRRWDTE 180 Query: 193 --LIRLAPKSFAVYSGDDPTAFALMLYGGQGNISVTANIAPRDMHELCAAAMSGNLARTI 250 ++R + + D M + G + +IAP + +L AA + + + Sbjct: 181 IPVVRRERPDLQILTCHDEYLLHTM-FDVDGALVGYGSIAPELLIDLIAAGKAKDYRKAR 239 Query: 251 ELNNKMLPLHNKLFVE----PNPVPLKWAMTELGLIESG-MRLPLAPLGAAFHDTVRAAL 305 +++K+LP+ ++ V LK A+ G++E +R PL PL + AL Sbjct: 240 AIHDKLLPVTKNVYHRGSHMEGTVALKHALVARGILEHATVRSPLLPLEPGADVEIAKAL 299 Query: 306 RES 308 R + Sbjct: 300 RSA 302 >gi|300312447|ref|YP_003776539.1| 5-dehydro-4-deoxyglucarate dehydratase [Herbaspirillum seropedicae SmR1] Length = 306 Score = 76.3 bits (186), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 45/141 (31%), Positives = 78/141 (55%), Gaps = 5/141 (3%) Query: 48 IDWHIAEGTDGIVIVGTTGESPTVSVEEHSELIKVAVEHTAKRIPIIAGTGGNSTSEAIE 107 ++W G + G TGE ++ E+S++I+ AV+ ++PIIAG GG ST AI Sbjct: 40 LEWLAPYGASALFAAGGTGEFFSLVPGEYSDIIRTAVDTCRGKVPIIAGAGG-STRAAIA 98 Query: 108 LTEFAKKVGADASLQVVPYYNRPTQEGMYLHFKKIAEAVDLPVILYNVPGRTVADMSNET 167 + A+++GA L + Y +Q+G+ H + + ++V VI+YN R V ++ +T Sbjct: 99 YAQEAERLGAHGILLMPHYLTEASQDGIAAHVEAVCKSVKFGVIIYN---RAVCKLNADT 155 Query: 168 ILRLA-QVKGIVGVKDATGNI 187 + +LA + ++G KD G I Sbjct: 156 LQKLADRCPNLIGFKDGIGEI 176 >gi|300310700|ref|YP_003774792.1| dihydrodipicolinate synthase/N-acetylneuraminate lyase [Herbaspirillum seropedicae SmR1] Length = 306 Score = 75.5 bits (184), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 72/277 (25%), Positives = 129/277 (46%), Gaps = 13/277 (4%) Query: 36 DGSLDFPGLRKLIDWHIAEGTDGIVIVGTTGESPTVSVEEHSELIKVAVEHTAKRIPIIA 95 +G LD G ++ ID+ I G++G+ I+ E +S EE ++ +EH A R+P+I Sbjct: 20 NGKLDLEGQKRAIDFMIDAGSNGLCILANFSEQFVLSDEERVQVQNTVLEHVAGRVPVIV 79 Query: 96 GTGGNSTSEAIELTEFAKKVGADASLQVVPYYN---RPTQEGMYLHFKKIAEAVDLPVIL 152 T + E + A+ GA + + PY+ R ++ +Y +K +++A+D+P+++ Sbjct: 80 TTTHYGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVPEKQIYEFYKHVSDAIDIPIMI 139 Query: 153 YNVPGRTVADMSNETILRLA-QVKGIVGVK-DATGNIGRGSDLIRLAPKSFAVYSGDDPT 210 + P +S + R+A +++ + K + G + DLI L + V D Sbjct: 140 QDAPVAGTP-LSAPFLARMAKEIEQVSYFKIETAGAASKLRDLIELGGDA-VVGPWDGEE 197 Query: 211 AFALML-YGGQGNISVTANIAPRDMHELCAAAMSGNLARTIELNNKMLPLHNKLFVEPNP 269 A L+ ++T P + ++ A +G++ + EL + LPL N + Sbjct: 198 AITLIPDLDAGATGAMTGGGYPDGIRKIVDAYFAGDIEKAAELYMQWLPLINYENRQCGL 257 Query: 270 VPLKWAMTELGLIESGM-RLPLAPLGAAFHDTVRAAL 305 K M E G+I+S M R P PL H VR L Sbjct: 258 SACKALMLEGGVIKSDMLRHPQPPL----HPKVREGL 290 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 0.319 0.136 0.392 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: 955,682 Number of extensions: 39822 Number of successful extensions: 119 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 114 Number of HSP's successfully gapped: 4 Length of query: 312 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 227 Effective length of database: 1,217,395 Effective search space: 276348665 Effective search space used: 276348665 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 (21.7 bits) S2: 130 (54.7 bits)