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= 0029.0059.p (227 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312812|ref|YP_003776904.1| glutamate/aspartate ABC transpo... 371 e-104 gi|300313149|ref|YP_003777241.1| glutamate/aspartate ABC transpo... 212 2e-56 gi|300313611|ref|YP_003777703.1| amino acid ABC transporter perm... 126 2e-30 gi|300309410|ref|YP_003773502.1| glutamine ABC transporter perme... 102 3e-23 gi|300311471|ref|YP_003775563.1| amino acid ABC transporter perm... 96 2e-21 >gi|300312812|ref|YP_003776904.1| glutamate/aspartate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 371 bits (952), Expect = e-104, Method: Compositional matrix adjust. Identities = 179/224 (79%), Positives = 205/224 (91%) Query: 1 MSYQFDFSSITPAAVAVLGHGMAISLQITATAIVFGIVWGTLLAMMRLSPSKPLQWFASG 60 M+Y+FDFS++TPAA+ VLG G+ +SL+IT AIVFG+VWGTLLAMMRLS PLQWFA+G Sbjct: 1 MAYEFDFSAVTPAALRVLGDGLLVSLKITLVAIVFGMVWGTLLAMMRLSRHSPLQWFAAG 60 Query: 61 YVNLFRSIPLVMVLLWFFLIVPQLLQKVFHLSASNDLRMISALVAFSLFEAAYYSEIIRA 120 YVNLFRSIPLVMVLLWFFLIVPQLLQK+F LS +NDLRM SALVAF+LFEAAYY+EIIRA Sbjct: 61 YVNLFRSIPLVMVLLWFFLIVPQLLQKLFGLSPANDLRMTSALVAFALFEAAYYAEIIRA 120 Query: 121 GIKSVARGQLAAAFALGLTYTQTMRLIVLPQAFRNMVPLLLTQGIILFQDTSLVYVSALA 180 GI SV+RGQ+AAA+ALGLTY Q M +++LPQAFRNMVPLLLTQGI+LFQDTSLVYVSALA Sbjct: 121 GINSVSRGQMAAAYALGLTYPQAMGMVILPQAFRNMVPLLLTQGIVLFQDTSLVYVSALA 180 Query: 181 DFFGRAYGIGERDGRIIELLFFAGAVYFAICFSVSLCVKRFQKK 224 DFFGRAY IGER+GRIIE+LF AGAVYF ICFS+SL VKR++KK Sbjct: 181 DFFGRAYSIGERNGRIIEMLFVAGAVYFIICFSMSLMVKRYRKK 224 >gi|300313149|ref|YP_003777241.1| glutamate/aspartate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 231 Score = 212 bits (540), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 113/225 (50%), Positives = 154/225 (68%), Gaps = 6/225 (2%) Query: 4 QFDFSSITPAAVAVLGHGMAISLQITATAIVFGIVWGTLLAMMRLSPSKPLQWFASGYVN 63 FDF I + + G+ +L +T +A+ GI+ GTLLAMMRLS +KPL + A+ YVN Sbjct: 4 NFDFDVIQRSWFYLFTTGLKFTLILTFSAMAGGIILGTLLAMMRLSSNKPLSFIATTYVN 63 Query: 64 LFRSIPLVMVLLWFFLIVPQLLQKVFHLSASNDLRM---ISALVAFSLFEAAYYSEIIRA 120 L RSIPLV+V+ WF+ +VP + + + AS +++ SAL+ F LFEAAYY EI+R+ Sbjct: 64 LIRSIPLVLVIFWFYFLVPFI--GAWMIGASEPIQVGAFQSALITFILFEAAYYCEIMRS 121 Query: 121 GIKSVARGQLAAAFALGLTYTQTMRLIVLPQAFRNMVPLLLTQGIILFQDTSLVYV-SAL 179 GI+S+ RGQ+ A +A+G+ Y Q M +VLPQAFRNM P+LLTQ I+LFQD SLVYV ++ Sbjct: 122 GIQSIPRGQVFAGYAIGMNYWQMMGNVVLPQAFRNMTPILLTQTIVLFQDVSLVYVLGSV 181 Query: 180 ADFFGRAYGIGERDGRIIELLFFAGAVYFAICFSVSLCVKRFQKK 224 DF A I +RDGR++E+ F VYF + F +S VKRFQKK Sbjct: 182 PDFVTSASKIAQRDGRLVEMYLFVAVVYFVLSFGLSTLVKRFQKK 226 >gi|300313611|ref|YP_003777703.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 247 Score = 126 bits (316), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 89/242 (36%), Positives = 128/242 (52%), Gaps = 20/242 (8%) Query: 6 DFS-SITPAAVAVLGHGMAISLQITATAIVFGIVWGTLLAMMRLS---------PSKPLQ 55 DF SI + G+ ++LQ++ +I+ G V G L+ M+RL+ P K ++ Sbjct: 2 DFRWSIIQGYAPLFAKGVLMTLQVSLISILIGTVIGLLVGMLRLAEVQHGPWKWPLKSMR 61 Query: 56 WFASGYVNLFRSIPL-VMVLLWFFLIVPQLLQKVFHLSASNDL-RMI--------SALVA 105 W A YV FR PL V ++L F ++P L+Q+ L + +L R I S VA Sbjct: 62 WLAGFYVAFFRGTPLFVQIMLIHFAVMPVLVQQEHGLLITGELARTIKQDYGAFLSGTVA 121 Query: 106 FSLFEAAYYSEIIRAGIKSVARGQLAAAFALGLTYTQTMRLIVLPQAFRNMVPLLLTQGI 165 SL AY SEI RAGI+S+ RGQ AA +LG+ Y TMR +VLPQAFR M+P L + I Sbjct: 122 LSLNAGAYISEIFRAGIQSIERGQSYAAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEAI 181 Query: 166 ILFQDTSLVYVSALADFFGRAYGIGERDGRIIELLFFAGAVYFAICFSVSLCVKRFQKKA 225 L +D+SLV LA+ A + R E +YF++ ++L V R + K Sbjct: 182 TLLKDSSLVSAIGLAELAYAARTVAGTYARYWEPYITISVLYFSMTICLALVVARLESKY 241 Query: 226 TA 227 +A Sbjct: 242 SA 243 >gi|300309410|ref|YP_003773502.1| glutamine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 250 Score = 102 bits (253), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 73/225 (32%), Positives = 113/225 (50%), Gaps = 20/225 (8%) Query: 20 HGMAISLQITATAIVFGIVWGTLLAMMRLSPSKP----------LQWFASGYVNLFRSIP 69 G ++L+ ++ G WG +L + RL+ ++ +QW YV+ R P Sbjct: 19 EGTWMTLKAAIICVIAGTCWGLVLGVGRLAEARHGFWKYFLCYCVQWPIRFYVSFLRGTP 78 Query: 70 L-VMVLLWFFLIVPQLLQKVFHLSASNDL-RMI--------SALVAFSLFEAAYYSEIIR 119 L V +LL F ++P L+ L S DL R I SA++A +L AY SEI R Sbjct: 79 LFVQILLIHFALMPMLINPSGGLILSGDLAREIRSHYGAFASAVLAITLNSGAYVSEIFR 138 Query: 120 AGIKSVARGQLAAAFALGLTYTQTMRLIVLPQAFRNMVPLLLTQGIILFQDTSLVYVSAL 179 AGI+S+ RGQ A+ +LG++Y T+R +VLPQAFR M+P L I + +D+SL L Sbjct: 139 AGIQSIDRGQSEASRSLGMSYLATLRRVVLPQAFRRMLPPLGNNAIAIVKDSSLASAIGL 198 Query: 180 ADFFGRAYGIGERDGRIIELLFFAGAVYFAICFSVSLCVKRFQKK 224 A+ A + R E +Y+ I ++S V+ + + Sbjct: 199 AELAYAARTVSGAYARYWEPYLTISVIYWLITLALSALVRHLEAR 243 >gi|300311471|ref|YP_003775563.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 221 Score = 96.3 bits (238), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 67/211 (31%), Positives = 108/211 (51%), Gaps = 8/211 (3%) Query: 14 AVAVLGHGMAISLQITATAIVFGIVWGTLLAMMRLSPSKPLQWFASGYVNLFRSIPLVMV 73 A L G+ +L +++ G+V G +LA+ R+ P +P+ W A+ YV++ R PL++ Sbjct: 12 AAPTLAKGVGYTLLFALASMLGGLVLGFVLAVARIVPWRPIHWPAAIYVSMMRGTPLLVQ 71 Query: 74 LLWFFLIVPQLLQKVFHLSASNDLRMISALVAFSLFEAAYYSEIIRAGIKSVARGQLAAA 133 + + +P + + L+A ++ SL +AY SE +R I V RGQ AA Sbjct: 72 IFVVYYGLPGMGIEFSPLTA--------GVLTLSLNASAYLSESLRGAILGVTRGQWNAA 123 Query: 134 FALGLTYTQTMRLIVLPQAFRNMVPLLLTQGIILFQDTSLVYVSALADFFGRAYGIGERD 193 F++GLTY QT+R I++PQA R VP + I L +DTSLV V + + + Sbjct: 124 FSVGLTYFQTLRYIIVPQAVRIAVPSMSNTLISLIKDTSLVSVITVTELMLATKEVIAVT 183 Query: 194 GRIIELLFFAGAVYFAICFSVSLCVKRFQKK 224 R + L A A+Y+ + R +KK Sbjct: 184 FRPLPLYVAAAAIYWMLSLCFEALQHRLEKK 214 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 0.332 0.141 0.417 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: 642,328 Number of extensions: 25049 Number of successful extensions: 160 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 19 Length of query: 227 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 145 Effective length of database: 1,231,600 Effective search space: 178582000 Effective search space used: 178582000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (22.0 bits) S2: 129 (54.3 bits)