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= 0012.0167.p (318 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310842|ref|YP_003774934.1| cobalamin biosynthesis transmem... 516 e-148 gi|300311955|ref|YP_003776047.1| cobalamin biosynthesis CobD/Cbi... 79 6e-16 >gi|300310842|ref|YP_003774934.1| cobalamin biosynthesis transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 516 bits (1329), Expect = e-148, Method: Compositional matrix adjust. Identities = 261/319 (81%), Positives = 287/319 (89%), Gaps = 1/319 (0%) Query: 1 MTFLSILFALLIEQLKPLRADNPIYAWIKSFAARIENWFNAGHAHHGRLGWFVMVGALTV 60 MTFLSILFALLIEQLKPLRADNP+YA IKSFAA IE WFNAG HHGRLGW MVGALTV Sbjct: 1 MTFLSILFALLIEQLKPLRADNPVYASIKSFAATIEGWFNAGQVHHGRLGWVAMVGALTV 60 Query: 61 PAGLIYWVCLRISPLAALAWNVLIVYMTLGFRHYSHYFTSIQLALNTGDDVAARALLAEW 120 P L+YW+ L +S +AA AWNVL+VY+TLGFRHYSHYFTSIQLALN+GD++ ARALLAEW Sbjct: 61 PVALVYWLLLHVSLVAAFAWNVLVVYLTLGFRHYSHYFTSIQLALNSGDEMTARALLAEW 120 Query: 121 TKEDTSDLDVSEISRIAAEKALVTTHRHVFGVFFWFLMPVGPALAVMYRVSEYLARAWNE 180 T++DT+ +DVSEISRIA+E+AL+TTHRHVFGVFFWFLMPVGPALAVMYRV+EYL+RAWNE Sbjct: 121 TRQDTTGMDVSEISRIASERALITTHRHVFGVFFWFLMPVGPALAVMYRVAEYLSRAWNE 180 Query: 181 PDHMKQEVFGRFAERAFYWIDWIPARFTAAAFAVVGNFEDAIYAWRNFADRWQDEAVGII 240 PDHMK E FGRFA +AFYWIDWIPAR TAAAFAVVGNFEDAIYAWRNFA RW DE+ GII Sbjct: 181 PDHMKFEAFGRFAAQAFYWIDWIPARLTAAAFAVVGNFEDAIYAWRNFASRWDDESAGII 240 Query: 241 LSAGGGAMGVRFGTPAESASG-VLPIDAATVDSTLEAADGFPGDQPSPRTLQSTVGLVWR 299 L+AGGGAMGVRFGT E+A+G +LP DAATVDS E DG PGD PSPRTLQSTVGLVWR Sbjct: 241 LAAGGGAMGVRFGTEKEAAAGIILPADAATVDSMPEETDGLPGDTPSPRTLQSTVGLVWR 300 Query: 300 AMLLWMFLLLLLSVAVWMG 318 A+LLWMFLLLLLSVAVWMG Sbjct: 301 ALLLWMFLLLLLSVAVWMG 319 >gi|300311955|ref|YP_003776047.1| cobalamin biosynthesis CobD/CbiB [Herbaspirillum seropedicae SmR1] Length = 317 Score = 78.6 bits (192), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 48/156 (30%), Positives = 71/156 (45%), Gaps = 2/156 (1%) Query: 86 YMTLGFRHYSHYFTSIQLALNTGDDVAARALLAEWTKEDTSDLDVSEISRIAAEKALVTT 145 Y +G R + I AL G+ AR L A DT E+++ E L Sbjct: 93 YFCIGLRSLREHTLPIAQALGAGELAQARRLTAWIVSRDTRSASEQELAKAGVESLLENG 152 Query: 146 HRHVFGVFFWFLMPVGPALAVMYRVSEYLARAWNEPDHMKQEVFGRFAERAFYWIDWIPA 205 + VFG FWFL+ GP A+++R+S L W + + FG A R ++W PA Sbjct: 153 NDAVFGTLFWFLLAGGPG-ALLFRLSNTLDAMWGY-RNARFLYFGWAAARIDDALNWCPA 210 Query: 206 RFTAAAFAVVGNFEDAIYAWRNFADRWQDEAVGIIL 241 R TA ++AV+G A+ W+ A W G ++ Sbjct: 211 RLTALSYAVLGQRRQALACWKEQAPAWSSPNAGPVM 246 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 0.138 0.453 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: 1,096,817 Number of extensions: 48638 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 2 Length of query: 318 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 233 Effective length of database: 1,217,395 Effective search space: 283653035 Effective search space used: 283653035 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: 130 (54.7 bits)