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= 0023.0003.p (156 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate tran... 136 7e-34 gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, d... 105 2e-24 >gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate transport system dctQ-M fusion permease large permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 136 bits (343), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 72/103 (69%), Positives = 86/103 (83%), Gaps = 3/103 (2%) Query: 1 MKHLDFRRIYPMLVEAATLSGAILLIIGMATSMAWALTQSGFSAKLVSLMQGVPGGGFGF 60 M+HL F+R+YPML+E+A LSGAILLIIGMAT+MAWALTQSGFSAKLV+LMQGVPGGG GF Sbjct: 462 MRHLSFKRLYPMLIESAALSGAILLIIGMATAMAWALTQSGFSAKLVALMQGVPGGGVGF 521 Query: 61 LLITIVIFIVLGSILEGXIVIFIVLGSI--PIAFAFGTATMAY 101 LLITIVIFIVLGS+LEG I ++ G + P+A + G + Y Sbjct: 522 LLITIVIFIVLGSLLEGIPAI-VLFGPLLFPVARSLGVHDVHY 563 Score = 103 bits (256), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 55/62 (88%), Positives = 58/62 (93%) Query: 84 VLGSIPIAFAFGTATMAYLTIATGAPMMIVVSRMDEGMSSLILLSVPLFVLLGSLLEISG 143 V G IPIAFAFGTATMAYL +AT AP+MIVVSRMDEGMSSLILLSVPLFVLLGSLLE+SG Sbjct: 217 VAGGIPIAFAFGTATMAYLALATTAPLMIVVSRMDEGMSSLILLSVPLFVLLGSLLEMSG 276 Query: 144 LA 145 LA Sbjct: 277 LA 278 >gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, dicarboxylate transport protein [Herbaspirillum seropedicae SmR1] Length = 618 Score = 105 bits (261), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 57/102 (55%), Positives = 71/102 (69%), Gaps = 3/102 (2%) Query: 2 KHLDFRRIYPMLVEAATLSGAILLIIGMATSMAWALTQSGFSAKLVSLMQGVPGGGFGFL 61 + D++R+YPMLV+ A LSGAIL IIG AT M+WALTQSGFS L M VPGG +GFL Sbjct: 454 RKFDWKRLYPMLVDTAALSGAILFIIGTATGMSWALTQSGFSHALAEAMTSVPGGKYGFL 513 Query: 62 LITIVIFIVLGSILEG--XIVIFIVLGSIPIAFAFGTATMAY 101 L++I FIVLGS+LEG +V+F L P+A A G + Y Sbjct: 514 LVSIAAFIVLGSVLEGIPAMVLFAPL-LFPVAKAIGVHEVHY 554 Score = 73.6 bits (179), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 38/69 (55%), Positives = 52/69 (75%) Query: 77 GXIVIFIVLGSIPIAFAFGTATMAYLTIATGAPMMIVVSRMDEGMSSLILLSVPLFVLLG 136 G ++ VL IPIAF FG AT+A++ T +P+ +V R DEGMSSLILL+VPLF+LLG Sbjct: 205 GLVLAVSVLLGIPIAFCFGLATVAFMLTVTTSPLAVVAGRFDEGMSSLILLAVPLFILLG 264 Query: 137 SLLEISGLA 145 L+E++G+A Sbjct: 265 HLVEMTGMA 273 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 0.330 0.145 0.419 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: 334,125 Number of extensions: 8348 Number of successful extensions: 95 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 94 Number of HSP's successfully gapped: 4 Length of query: 156 Length of database: 1,619,870 Length adjustment: 78 Effective length of query: 78 Effective length of database: 1,250,540 Effective search space: 97542120 Effective search space used: 97542120 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 (21.8 bits) S2: 126 (53.1 bits)