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= 0030.0040.p (316 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasm... 534 e-153 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 129 4e-31 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 71 1e-13 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 70 2e-13 gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm... 66 4e-12 >gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 534 bits (1376), Expect = e-153, Method: Compositional matrix adjust. Identities = 291/315 (92%), Positives = 302/315 (95%) Query: 1 MIQKTLAIACATLALGAATATAQAADKPLKSVGVTLGDLANPFFVAIAKGAESGAHKINP 60 MI+ T+AIAC+TL L AA A AADKPLKSVGVT+GDLANPFFVAIAKGAESGAHKINP Sbjct: 1 MIKNTIAIACSTLLLAAAAQPAMAADKPLKSVGVTVGDLANPFFVAIAKGAESGAHKINP 60 Query: 61 DAKVTVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDV 120 DAKVTVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKA+KAGIVVVAVDV Sbjct: 61 DAKVTVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKAQKAGIVVVAVDV 120 Query: 121 AAEGADVTVMSDNTMAGAESCKFIADKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSP 180 AA GADVTVMSDNTMAGAESCKF+A+KLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSP Sbjct: 121 AAAGADVTVMSDNTMAGAESCKFLAEKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSP 180 Query: 181 GIKILSDNQNAGGSRDGGMTTMSNLLAAQGKIDGVFAINDPTAIGAELAIRQAKRSDIKV 240 GIKILSDNQNAGGSRDGGMTTMSNLLAAQ KID VFAINDPTAIGAELAIRQAKRSDIK Sbjct: 181 GIKILSDNQNAGGSRDGGMTTMSNLLAAQPKIDAVFAINDPTAIGAELAIRQAKRSDIKW 240 Query: 241 ITGVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGYQVMNGRAPEKAVKLLPVKL 300 I+GVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGY VMNGRAP++ VKLLPVKL Sbjct: 241 ISGVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGYAVMNGRAPQQKVKLLPVKL 300 Query: 301 ITRDNVADYKGWVPA 315 ITRDNVADY+GWVPA Sbjct: 301 ITRDNVADYQGWVPA 315 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 129 bits (323), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 85/239 (35%), Positives = 139/239 (58%), Gaps = 7/239 (2%) Query: 32 VGVTLGDLANPFFVAIAKGAESGAHKINPDAKVTVVSSKYDLNTQVGQIENFIANKVDLI 91 +G++ ++ NP+FV++ K + A + AKV + +++ Q+ IE+ + +D++ Sbjct: 28 IGMSFQEMNNPYFVSMKKALDEAAKSLG--AKVIATDAAHNVAKQIADIEDMLQQNIDIL 85 Query: 92 VLNAADSKGVGPAVKKARKAGIVVVAVDVAAEG-ADVTVMSDNTMAGAESCKFIADKLQG 150 ++N DS GV AVK A+ ++VVAVD A G D+ V S N AG +SC+ +AD + G Sbjct: 86 LINPTDSAGVEAAVKAAKARNVIVVAVDANASGPVDMFVGSKNKDAGYQSCRALADAIGG 145 Query: 151 KGNVVIVNGPPVSAVMDRVTGCKAEFKKSPGIKILSDNQNAGGSRDGGMTTMSNLLAAQG 210 KG V I++G PV ++ RV GCK + IK+++ QN R + + N++ ++ Sbjct: 146 KGEVAILDGIPVVPILQRVEGCKQALAEYKDIKLVA-TQNGRQDRSVALGVVENMIQSRP 204 Query: 211 KIDGVFAINDPTAIGAELAIRQAKRSDIKVITGVDGAPDAERALKDSKSLFAASPAQDP 269 + G+F++ND A+GA AI Q DIK +T VDGAP+A +A+ D F + AQ P Sbjct: 205 NLKGIFSVNDGGAMGALAAI-QGSGKDIK-LTSVDGAPEAVKAIADGGP-FVETTAQFP 260 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 70.9 bits (172), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 81/297 (27%), Positives = 133/297 (44%), Gaps = 18/297 (6%) Query: 7 AIACATLALGAATATAQAADKPLKSVGVTLGDLANPFFVAIAKGAES--GAHKINPDAKV 64 A+ACA L A AQ KP V + + LAN FF+ + GA A+ D Sbjct: 13 ALACAVLP---GAAMAQTPAKP--KVALVMKSLANEFFLNMENGAREYQKANASKFDLIA 67 Query: 65 TVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVD----- 119 + + D Q+ +E I +KV+ +V+ ADSK + P VKKA AGI+VV +D Sbjct: 68 NGIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDD 127 Query: 120 --VAAEGADVTVMSDNTMAGAE-SCKFIADKLQGKGNVVIVNGPPVSAVMDRVTGCKAEF 176 + +G V + + GA+ + ++ +LQ V I+ G + + T + Sbjct: 128 AALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDA 187 Query: 177 KKSPGIKILSDNQNAGGSRDGGMTTMSNLLAAQGKIDGVFAINDPTAIGAELAIRQAKRS 236 K G +++ Q+ D G +++L A I + A ND A+GA AIR A ++ Sbjct: 188 MKDVGANVVT-VQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGKT 246 Query: 237 DIKVITGVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGYQVMNGRAPEKAV 293 + G D + LKD + L A+ Q A + + ++ + P+ A+ Sbjct: 247 GKVQLVGYDNINAIKPMLKDGRVL--ATVDQFAQQQAVFGIETALKALSEKKPQSAL 301 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 84/290 (28%), Positives = 135/290 (46%), Gaps = 24/290 (8%) Query: 13 LALGAATATAQAADKPLKSVGVTLGDLANPFFVAIAKGAESGAHKINPDAKVTVV----S 68 A+GA+ A AQ A PL S G + F+ A+ ++GA + D KV V Sbjct: 15 FAMGASAAQAQEAYIPLISKG-----FQHQFWQAV----KAGADQAGKDYKVKVTFEGPE 65 Query: 69 SKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDVAAEGADV- 127 ++ ++ Q+ + +A K I A DSK P +KKA+ A I VVA D + +D+ Sbjct: 66 TEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDSGVD-SDIP 124 Query: 128 --TVMSDNTMAGAESCKFIADKLQGKGNVVIVNGPPVSAV-MDRVTGCKAEFKKS-PGIK 183 T +DN A A + +A+ + +G V +V S +DR G K + P IK Sbjct: 125 VTTATTDNRAAAALAADKMAELVGKEGEVAVVAHDQTSRTGVDRRDGFLERIKSAYPKIK 184 Query: 184 ILSDNQNAGGSRDGGMTTMSNLLAAQGKIDGVFAINDPTAIGAELAIRQAKRSDIKVITG 243 ++S AG T S +L A KI G+F N+ +AIG +++ KR I I G Sbjct: 185 VVSVQYGAGDQLKSTEVTKS-ILQAYPKIKGIFGTNEGSAIGVVNGVKEMKRKII--IIG 241 Query: 244 VDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGYQVMNGRAPEKAV 293 D + A+++ + A + Q+P G+ ++V + + G K + Sbjct: 242 YDSGKQQKDAIRE--GIMAGAITQNPVGIGYKTVEAAVKAIKGEKLPKVI 289 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 66.2 bits (160), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 77/257 (29%), Positives = 121/257 (47%), Gaps = 20/257 (7%) Query: 10 CATLALGAATATAQAADKPLKSVGVTLGDLANPFFVAIAKGAESGAHKINPDAKVTVVSS 69 C +L A + A AADKPL ++G + + + A + A + + K Sbjct: 14 CLSLGSSAMSLPAFAADKPL-TMGFSQVGAESEWRTANTVSIKDAAKQAGVNLKFADAQQ 72 Query: 70 KYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDVAAEGADVTV 129 K + QV I +FIA KVD+I + G +++A+ A I V+ D A +D ++ Sbjct: 73 KQE--NQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTDRAVNVSDKSL 130 Query: 130 M-----SDNTMAGAESCKFIADKLQ----GKGNVVIVNGPPVSA-VMDRVTGCKAEFKKS 179 SD G + +++ +K + G N+V + G SA +DR G + K Sbjct: 131 YVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRKAGFEEVIKGE 190 Query: 180 PGIKILSDNQNAGGSRDGGMTTMSNLLAAQG-KIDGVFAINDPTAIGAELAIRQAKR--- 235 P +KI+ +Q +R G M L A+G KI+ ++A ND AIGA AI +A Sbjct: 191 PRLKIIR-SQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQAIEEAGMKPG 249 Query: 236 SDIKVIT--GVDGAPDA 250 DI +I+ GV GA +A Sbjct: 250 KDIIIISIDGVKGAFEA 266 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 0.314 0.130 0.359 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: 841,502 Number of extensions: 31570 Number of successful extensions: 126 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 119 Number of HSP's successfully gapped: 8 Length of query: 316 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 231 Effective length of database: 1,217,395 Effective search space: 281218245 Effective search space used: 281218245 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 130 (54.7 bits)