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= 0001.0032.p (323 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... 635 0.0 gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm... 66 5e-12 gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 55 1e-08 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 635 bits (1637), Expect = 0.0, Method: Compositional matrix adjust. Identities = 316/324 (97%), Positives = 320/324 (98%), Gaps = 1/324 (0%) Query: 1 MNSKRRALLGAAICMSLGS-AVSFPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ 59 MNSKRRALLGAAIC+SLGS A+S PAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ Sbjct: 1 MNSKRRALLGAAICLSLGSSAMSLPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ 60 Query: 60 AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD 119 AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD Sbjct: 61 AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD 120 Query: 120 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLDKAKSMPAGDINIVELQGTVGSAPAIDRK 179 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLL+KAKSMPAGDINIVELQGTVGSAPAIDRK Sbjct: 121 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK 180 Query: 180 AGFEEVIKSEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA 239 AGFEEVIK EPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA Sbjct: 181 AGFEEVIKGEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA 240 Query: 240 IEEAGLKPGKDITIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP 299 IEEAG+KPGKDI IISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP Sbjct: 241 IEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP 300 Query: 300 KRITTEEGIFPAEVAAKEFPNRKY 323 KRITTEEGIFPAEVAAKEFPNRKY Sbjct: 301 KRITTEEGIFPAEVAAKEFPNRKY 324 >gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 65.9 bits (159), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 86/312 (27%), Positives = 146/312 (46%), Gaps = 35/312 (11%) Query: 5 RRALLGAAICMSLG-SAVSFPAFAADKPL-TMGFSQVGAESEWRTANTVSIKDAAKQAGV 62 + LLGAA+ ++ A + A A PL + GF W+ ++K A QAG Sbjct: 3 KNKLLGAALGLAFAMGASAAQAQEAYIPLISKGFQH----QFWQ-----AVKAGADQAGK 53 Query: 63 NLKFA------DAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVI 116 + K + + + Q+ + + +A+K I F+ + +L++A+AAKIPV+ Sbjct: 54 DYKVKVTFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVV 113 Query: 117 LTDRAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLDKAKSMPA--GDINIVELQGTVGSAP 174 D V D + VT +D R A DK + G++ +V T S Sbjct: 114 AFDSGV---DSDIPVTTATTD----NRAAAALAADKMAELVGKEGEVAVVAHDQT--SRT 164 Query: 175 AIDRKAGFEEVIKSE-PRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMA 233 +DR+ GF E IKS P++K++ Q G + K EV ++ L+A KI ++ N+ A Sbjct: 165 GVDRRDGFLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAY-PKIKGIFGTNEGSA 223 Query: 234 IGAIQAIEEAGLKPGKDITIISIDGVKGAFEAMMAGKLNVTVECSPL-LGPQLMQIAKDI 292 IG + ++E K I II D K +A+ G + + +P+ +G + ++ A Sbjct: 224 IGVVNGVKEMKRK----IIIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKA 279 Query: 293 KAGKEVPKRITT 304 G+++PK I T Sbjct: 280 IKGEKLPKVIDT 291 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 57/238 (23%), Positives = 112/238 (47%), Gaps = 14/238 (5%) Query: 32 LTMGFSQVGAESEWRTANTVSIKDAAKQAGVNLKFADAQQKQENQVKAIRSFIAQKVDVI 91 L +G S + + + ++ +AAK G + DA Q+ I + Q +D++ Sbjct: 26 LKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIATDAAHNVAKQIADIEDMLQQNIDIL 85 Query: 92 AFSPVVESGWETVLREAKAAKIPVILTDRAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLD 151 +P +G E ++ AKA + V+ AV+ + F+GS + G ++ R L D Sbjct: 86 LINPTDSAGVEAAVKAAKARNVIVV----AVDANASGPVDMFVGSKNKDAGYQSCRALAD 141 Query: 152 KAKSMPAGDINIVELQGTVGSAPAIDRKAGFEEVIKSEPRLKIIRSQTGDFTRAKGKEVM 211 G++ I++ + P + R G ++ + +K++ +Q G R+ V+ Sbjct: 142 AIGG--KGEVAILD---GIPVVPILQRVEGCKQALAEYKDIKLVATQNGRQDRSVALGVV 196 Query: 212 EAFLKAEGKKINVLYAHNDDMAIGAIQAIEEAGLKPGKDITIISIDGVKGAFEAMMAG 269 E +++ + +++ 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 0.132 0.366 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: 881,448 Number of extensions: 33284 Number of successful extensions: 127 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 122 Number of HSP's successfully gapped: 5 Length of query: 323 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 238 Effective length of database: 1,217,395 Effective search space: 289740010 Effective search space used: 289740010 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)