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= 0001.0826.p (324 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm... 630 0.0 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 68 1e-12 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 56 5e-09 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 630 bits (1626), Expect = 0.0, Method: Compositional matrix adjust. Identities = 311/324 (95%), Positives = 317/324 (97%) Query: 1 MNSKRRALLGAAICMGLGSSAMSFSALAADKPLTMGFSQVGAESEWRTANTVSIKEAAKA 60 MNSKRRALLGAAIC+ LGSSAMS A AADKPLTMGFSQVGAESEWRTANTVSIK+AAK Sbjct: 1 MNSKRRALLGAAICLSLGSSAMSLPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ 60 Query: 61 AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD 120 AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD Sbjct: 61 AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD 120 Query: 121 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK 180 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK Sbjct: 121 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK 180 Query: 181 AGFEEIIKSEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLFAHNDDMAIGAIQA 240 AGFEE+IK EPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVL+AHNDDMAIGAIQA Sbjct: 181 AGFEEVIKGEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA 240 Query: 241 IEEAGLKPGKDITIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP 300 IEEAG+KPGKDI IISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP Sbjct: 241 IEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP 300 Query: 301 KRITTEEGVFPAEVAAKEFPNRKY 324 KRITTEEG+FPAEVAAKEFPNRKY Sbjct: 301 KRITTEEGIFPAEVAAKEFPNRKY 324 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 84/308 (27%), Positives = 144/308 (46%), Gaps = 26/308 (8%) Query: 5 RRALLGAAICMGLGSSAMSFSALAADKPL-TMGFSQVGAESEWRTANTVSIKEAAKAAGV 63 + LLGAA+ + A + A A PL + GF + ++ A +A K V Sbjct: 3 KNKLLGAALGLAFAMGASAAQAQEAYIPLISKGF-----QHQFWQAVKAGADQAGKDYKV 57 Query: 64 NLKF--ADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTDR 121 + F + + + Q+ + + +A+K I F+ + +L++A+AAKIPV+ D Sbjct: 58 KVTFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFDS 117 Query: 122 AVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPA--GDINIVELQGTVGSAPAIDR 179 V D + VT +D R A +K + G++ +V T S +DR Sbjct: 118 GV---DSDIPVTTATTD----NRAAAALAADKMAELVGKEGEVAVVAHDQT--SRTGVDR 168 Query: 180 KAGFEEIIKS-EPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLFAHNDDMAIGAI 238 + GF E IKS P++K++ Q G + K EV ++ L+A KI +F N+ AIG + Sbjct: 169 RDGFLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAY-PKIKGIFGTNEGSAIGVV 227 Query: 239 QAIEEAGLKPGKDITIISIDGVKGAFEAMMAGKLNVTVECSPL-LGPQLMQIAKDIKAGK 297 ++E K I II D K +A+ G + + +P+ +G + ++ A G+ Sbjct: 228 NGVKEMKRK----IIIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKGE 283 Query: 298 EVPKRITT 305 ++PK I T Sbjct: 284 KLPKVIDT 291 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 55.8 bits (133), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 113/238 (47%), Gaps = 14/238 (5%) Query: 33 LTMGFSQVGAESEWRTANTVSIKEAAKAAGVNLKFADAQQKQENQVKAIRSFIAQKVDVI 92 L +G S + + + ++ EAAK+ G + DA Q+ I + Q +D++ Sbjct: 26 LKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIATDAAHNVAKQIADIEDMLQQNIDIL 85 Query: 93 AFSPVVESGWETVLREAKAAKIPVILTDRAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLE 152 +P +G E ++ AKA + V+ AV+ + F+GS + G ++ R L + Sbjct: 86 LINPTDSAGVEAAVKAAKARNVIVV----AVDANASGPVDMFVGSKNKDAGYQSCRALAD 141 Query: 153 KAKSMPAGDINIVELQGTVGSAPAIDRKAGFEEIIKSEPRLKIIRSQTGDFTRAKGKEVM 212 G++ I++ + P + R G ++ + +K++ +Q G R+ V+ Sbjct: 142 AIGG--KGEVAILD---GIPVVPILQRVEGCKQALAEYKDIKLVATQNGRQDRSVALGVV 196 Query: 213 EAFLKAEGKKINVLFAHNDDMAIGAIQAIEEAGLKPGKDITIISIDGVKGAFEAMMAG 270 E +++ + +F+ ND A+GA+ AI+ + GKDI + S+DG A +A+ G Sbjct: 197 ENMIQSR-PNLKGIFSVNDGGAMGALAAIQGS----GKDIKLTSVDGAPEAVKAIADG 249 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 0.316 0.131 0.362 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: 869,715 Number of extensions: 32354 Number of successful extensions: 134 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 131 Number of HSP's successfully gapped: 5 Length of query: 324 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 239 Effective length of database: 1,217,395 Effective search space: 290957405 Effective search space used: 290957405 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 131 (55.1 bits)