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= 0020.0222.p (415 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasm... 850 0.0 gi|300313831|ref|YP_003777923.1| sugar ABC transporter periplasm... 71 2e-13 gi|300313992|ref|YP_003778084.1| extracellular solute-binding, f... 60 2e-10 >gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 415 Score = 850 bits (2197), Expect = 0.0, Method: Compositional matrix adjust. Identities = 412/415 (99%), Positives = 414/415 (99%) Query: 1 MKKMIRMGVIAGCLAATTAWSTAATAGTLAINIAYKGAVQRAVWQSTMDEFKKANPDVDI 60 MKKMIRMGVIAGCLAAT AW+TAATAGTLAINIAYKGAVQRAVWQSTMDEFKKANPDVDI Sbjct: 1 MKKMIRMGVIAGCLAATAAWNTAATAGTLAINIAYKGAVQRAVWQSTMDEFKKANPDVDI 60 Query: 61 KPSFIEEEAYKVQLPGWLSTQAPDIINWHNGERMAFYASRGLLEDVSEDWKKNGWDATYA 120 KPSFIEEEAYKVQLPGWLSTQAPDIINWHNGERMAFYASRGLLEDVSEDWKKNGWDATYA Sbjct: 61 KPSFIEEEAYKVQLPGWLSTQAPDIINWHNGERMAFYASRGLLEDVSEDWKKNGWDATYA 120 Query: 121 STKEASSWHGKQYSVPTVYYSWGMFYRKDLFKKVGIAGEPKTWDEFLDACKKLKAAGIAP 180 STKEASSWHGKQYSVPTVYYSWGMFYRKDLFKKVGIAGEPKTWDEFLDACKKLKAAGIAP Sbjct: 121 STKEASSWHGKQYSVPTVYYSWGMFYRKDLFKKVGIAGEPKTWDEFLDACKKLKAAGIAP 180 Query: 181 IAVGGRDAWTLAGWFDYLDLRINGNAFHQQLMAGDIAYTDARVKKVYTAWKSLIDNKYFI 240 IAVGGRDAWTLAGWFDYLDLRINGNAFHQQLMAGDIAYTDARVKKV+TAWKSLIDNKYFI Sbjct: 181 IAVGGRDAWTLAGWFDYLDLRINGNAFHQQLMAGDIAYTDARVKKVHTAWKSLIDNKYFI 240 Query: 241 DNALSYDLDGAQPFLFQGKAAMMLMGTFIAKGFPAKLAPEMGYFQFPIIDANVPTAEEGP 300 DNALSYDLDGAQPFLFQGKAAMMLMGTFIAKGFPAKLAPEMGYFQFPIIDANVPTAEEGP Sbjct: 241 DNALSYDLDGAQPFLFQGKAAMMLMGTFIAKGFPAKLAPEMGYFQFPIIDANVPTAEEGP 300 Query: 301 TESIHIPAKARNKADARRFIAFVGTPAISAKLAEGLGSLPANSKSPAPTEPISRIGFEIL 360 TESIHIPAKARNKADARRFIAFVGTPAISAKLAEGLGSLPANSKSPAPTEPISRIGFEIL Sbjct: 301 TESIHIPAKARNKADARRFIAFVGTPAISAKLAEGLGSLPANSKSPAPTEPISRIGFEIL 360 Query: 361 SNAKGGISQFYDRDMTKEMADEGMKGMQKFVSDPTRIDDVLNELEQSRKRIYKKS 415 SNAKGGISQFYDRDMTKEMADEGMKGMQKFVSDPTRIDDVLNELEQSRKRIYKKS Sbjct: 361 SNAKGGISQFYDRDMTKEMADEGMKGMQKFVSDPTRIDDVLNELEQSRKRIYKKS 415 >gi|300313831|ref|YP_003777923.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 446 Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 79/300 (26%), Positives = 132/300 (44%), Gaps = 51/300 (17%) Query: 6 RMGVIAGCLAATTAW---------------STAATAGTLAINIAYKGAVQRAVWQSTMDE 50 R G+ A CL A T W A G+L + + A +R +++ Sbjct: 16 RCGLAAVCLCALTLWLGGLPAQAQSPSSPVPPATATGSLQVLHWWTSASERQAINVVVNQ 75 Query: 51 FKKAN---PDVDIKPSFIEEEAYKVQLPGWLSTQAPDIINWHNGERMAFYASRGLLED-- 105 K + DV I P A KV L+ +AP++ NG +A GLL + Sbjct: 76 LAKQDIQWRDVAI-PGGAGMGAAKVLKSMVLANRAPEVTQL-NGVVFGEWADLGLLLELD 133 Query: 106 ---VSEDWKKNGWDATYASTKEASSWHGKQYSVPT-VYYSWGMFYRKDLFKKVGIAGEPK 161 V +W+K + ++ HG + P ++ ++Y +FK+ ++ PK Sbjct: 134 NVAVQGNWEKQMFPTVWSLLNN----HGHVVAAPLGIHRINSLYYNVAVFKRYNLS-PPK 188 Query: 162 TWDEFLDACKKLKAAGIAPIAVGGRDAWTLAGWFDYLDLRINGNAFHQQLMA--GDIAYT 219 TWDEF KKL+ +G+ P+A +AW LA F+ L L +G A++++L AY Sbjct: 189 TWDEFDQIVKKLQGSGVVPLAQSA-EAWQLATLFENLALAESGPAYYRKLFVEMSPAAYL 247 Query: 220 DARVKKVYTAWKSL-------IDNKYFIDNALSYDLDGAQPFLFQGKAAMMLMGTFIAKG 272 DAR+ + ++L + + + + A S + G+AAM++MG + AKG Sbjct: 248 DARMLHILKRLRALAGAMAQPVRERPWTEVARS---------MVSGEAAMLIMGDW-AKG 297 >gi|300313992|ref|YP_003778084.1| extracellular solute-binding, family 1 protein [Herbaspirillum seropedicae SmR1] Length = 473 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 75/313 (23%), Positives = 136/313 (43%), Gaps = 12/313 (3%) Query: 45 QSTMDEFKKANPDVDIKPSFIEEEAYKVQL-PGWLSTQAPDIINWHNGERMAFYASRGLL 103 Q D F +P V I F+ + + L P + PDI++ + A A +GLL Sbjct: 92 QRVCDGFMHEHPGVRINLQFMIGNSVEENLKPRATTDSLPDIVSVNASPYTASLADQGLL 151 Query: 104 EDVSEDWKKNGWDATYASTKEASSWHGKQYSVPTVYYSWGMFYRKDLFKKVGIAGEPKTW 163 D+ + +G +E ++ G ++ +P+ + ++Y DLF++ GI P + Sbjct: 152 ADLGQTRSWHGLLDIL--QREWTAPGGCRFGLPSGVATTLIYYHPDLFERAGIQALPGDF 209 Query: 164 DEFLDACKKLKAAGIAPIAVGGRDAWTLA-GWFDYLDLRINGNA---FHQQLMAGDIAYT 219 ++FL A L+ AGI P+A+ G L G F Y + ++ + Q + G +A Sbjct: 210 EQFLAAGAALRRAGITPLALSGGFPNMLGNGPFSYGFANLVASSTPDWRQHIANGTLALD 269 Query: 220 DARVKKVYTAWKSLIDNKYFIDNALSYDLDGAQPFLFQGKAAMMLMGTFIAKGFPAKLAP 279 +A+ V++ ++L+ + L D +G+AAM G++ A Sbjct: 270 NAQGWAVFSRLRTLMTRHLVQADCLRAGYDATLRQFAEGRAAMTFQGSWAAGVLMQGRGQ 329 Query: 280 EMGYFQFPIIDANVPTAEEGPTES---IHIPAKARNKADARRFIAFVGTPAISAKLAEGL 336 +G F P D + P +E+ I AR++ A RF+ ++ + + Sbjct: 330 PVGVFVPPWNDKDQPRQAVIGSETGFAIAQRISARHRQAAARFLDYLFGAGLPVWQGKRQ 389 Query: 337 GSLPANSKSPAPT 349 LP K+PAP+ Sbjct: 390 NILP--FKTPAPS 400 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 0.318 0.133 0.407 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: 1,304,167 Number of extensions: 56699 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 180 Number of HSP's successfully gapped: 3 Length of query: 415 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 327 Effective length of database: 1,203,190 Effective search space: 393443130 Effective search space used: 393443130 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 (21.7 bits) S2: 132 (55.5 bits)