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= 0011.0310.p (219 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311602|ref|YP_003775694.1| glutamine ABC transporter perme... 270 6e-74 gi|300313889|ref|YP_003777981.1| amino acid ABC transporter perm... 109 1e-25 gi|300310495|ref|YP_003774587.1| amino acid ABC transporter perm... 94 9e-21 gi|300313166|ref|YP_003777258.1| amino acid ABC transporter perm... 92 2e-20 gi|300312809|ref|YP_003776901.1| glutamine ABC transporter perme... 91 7e-20 >gi|300311602|ref|YP_003775694.1| glutamine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 221 Score = 270 bits (690), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 138/149 (92%), Positives = 139/149 (93%), Gaps = 4/149 (2%) Query: 1 MKLDFSGVWESWPSLVHGTLVTVEITAASLVVGCVLGLLVGLGRLSPQRRVIYGLCTIYL 60 MKLDFSGVWESWPSLVHGTLVTVEITAASLVVGCVLGLLVGLGRLSPQRRVIYGLCTIYL Sbjct: 1 MKLDFSGVWESWPSLVHGTLVTVEITAASLVVGCVLGLLVGLGRLSPQRRVIYGLCTIYL 60 Query: 61 TLVRGTPLLVQLFLWFFGLPHVGVILPAYVCGILGLGIYSGAYVSEIVRGAIQSIERGQM 120 TLVRGTPLLVQLFLWFFGLPHVGVILPAYVCGILGLGIYSGAYVSEIVRGAIQSIERGQM Sbjct: 61 TLVRGTPLLVQLFLWFFGLPHVGVILPAYVCGILGLGIYSGAYVSEIVRGAIQSIERGQM 120 Query: 121 EAARSLGLPYRMAM----YPAAGLRTHDP 145 EAARSLGLPYRMAM P A +R P Sbjct: 121 EAARSLGLPYRMAMRRVILPQAFVRMIPP 149 >gi|300313889|ref|YP_003777981.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 277 Score = 109 bits (273), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 51/128 (39%), Positives = 81/128 (63%), Gaps = 1/128 (0%) Query: 1 MKLDFSGVWESWPSLVHGTLVTVEITAASLVVGCVLGLLVGLGRLSPQRRVIYGLCTIYL 60 LDFS + WP +HG +T+++T +++VG +G+ V + SP R + G C+ Y+ Sbjct: 3 FSLDFSPLAPYWPVFLHGAWLTLKMTTLAVIVGVAIGIFVAFAKNSPHRWLARG-CSAYI 61 Query: 61 TLVRGTPLLVQLFLWFFGLPHVGVILPAYVCGILGLGIYSGAYVSEIVRGAIQSIERGQM 120 +VR TP LVQ+FL +FGL +G+ +P + +L + I AY +EI+R + S+ RGQ+ Sbjct: 62 EVVRNTPFLVQIFLLYFGLASLGIRMPTFAAAVLAMIINIAAYAAEIIRAGLDSVPRGQI 121 Query: 121 EAARSLGL 128 EAA+ LGL Sbjct: 122 EAAQCLGL 129 >gi|300310495|ref|YP_003774587.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 218 Score = 94.0 bits (232), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 50/124 (40%), Positives = 80/124 (64%), Gaps = 1/124 (0%) Query: 5 FSGVWESWPSLVHGTLVTVEITAASLVVGCVLGLLVGLGRLSPQRRVIYGLCTIYLTLVR 64 V + P L+ G LVTVE+T S ++ V+GLL+ L ++S + V TI + ++R Sbjct: 3 LQNVLDFLPILLKGALVTVEVTIYSFLLSSVIGLLLALMKVSRLKPVALAGATI-VNIIR 61 Query: 65 GTPLLVQLFLWFFGLPHVGVILPAYVCGILGLGIYSGAYVSEIVRGAIQSIERGQMEAAR 124 G P++VQLF +F LP +G+ L A+ G++GLGI AY +E R I++++ GQ+EAA+ Sbjct: 62 GLPIIVQLFYIYFVLPDIGIQLSAFQAGVVGLGIAYSAYQAENFRAGIEAVDMGQIEAAQ 121 Query: 125 SLGL 128 S+G+ Sbjct: 122 SIGM 125 >gi|300313166|ref|YP_003777258.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 92.4 bits (228), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 58/156 (37%), Positives = 86/156 (55%), Gaps = 13/156 (8%) Query: 2 KLDFSGVWESWPSLVHGTLVTVEITAASLVVGCVLGLL---VGLGRLSPQRRVIYGLCTI 58 DF V+ +W L+ G +T++++A S+V+G +G L G RL+ R GL Sbjct: 4 TFDFMSVFANWDRLLMGAWLTIQLSALSIVLGFAVGTLCAIAGKSRLALVR----GLVLA 59 Query: 59 YLTLVRGTPLLVQLFLWFFGLPHVGVILPAYVCGILGLGIYSGAYVSEIVRGAIQSIERG 118 Y+ ++R TPLLVQ+FL FFGL +G L A ++ L + GAY +EI+R I SI G Sbjct: 60 YVEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTVNVGAYTTEIMRAGINSIHPG 119 Query: 119 QMEAARSLGLP-----YRMAMYPAAGLRTHDPATGQ 149 Q+EAA LG+ + + + PA R + T Q Sbjct: 120 QIEAAECLGMSRFHVYWHVVLLPAVE-RVYPSLTSQ 154 >gi|300312809|ref|YP_003776901.1| glutamine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 218 Score = 90.9 bits (224), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 63/154 (40%), Positives = 92/154 (59%), Gaps = 7/154 (4%) Query: 1 MKLDFSGVWESWPSLVHGTLVTVEITAASLVVGCVLGLLVGLGRLSPQRRVIYGLCTIYL 60 M DFS + +S P+L+ G VTV ITAA LV G ++GLL GL R + ++ G+ Y+ Sbjct: 1 MDFDFSVITDSLPALLEGAKVTVLITAAGLVGGTLVGLLAGLMR-AYGNTLLKGIGFGYV 59 Query: 61 TLVRGTPLLVQLFLWFFGLP-HVGVILPAYVCGILGLGIYSGAYVSEIVRGAIQSIERGQ 119 VRGTP++VQ+ +F LP +G+ + + + + SGAY++EIVRGA S+ RG Sbjct: 60 EFVRGTPIVVQVMFIYFALPVLLGIRVDPMTAAVTSIVVNSGAYIAEIVRGAFLSVPRGL 119 Query: 120 MEAARSLGLP-YRMAMY---PAAGLRTHDPATGQ 149 EA +LGLP +R+ + P A +R PA G Sbjct: 120 REAGLALGLPVWRVLAFVIGPVA-IRRMVPAMGN 152 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 0.327 0.143 0.454 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: 717,407 Number of extensions: 30753 Number of successful extensions: 153 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 138 Number of HSP's successfully gapped: 19 Length of query: 219 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 137 Effective length of database: 1,231,600 Effective search space: 168729200 Effective search space used: 168729200 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 128 (53.9 bits)