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= 0002.0055.p (223 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309770|ref|YP_003773862.1| phosphomethylpyrimidine kinase ... 396 e-112 gi|300313137|ref|YP_003777229.1| phosphomethylpyrimidine kinase ... 69 2e-13 >gi|300309770|ref|YP_003773862.1| phosphomethylpyrimidine kinase [Herbaspirillum seropedicae SmR1] Length = 288 Score = 396 bits (1018), Expect = e-112, Method: Compositional matrix adjust. Identities = 204/223 (91%), Positives = 214/223 (95%) Query: 1 VRHQAQVLIDRFDIAAVKLGIAGSRENAEVIAGLIRQLRARDPHLPVVLDPVLANGKGDQ 60 VRHQAQVLIDRFDIAAVKLGIAGSRENAEVIA LIRQLR R+P LPVVLDPVLANGKGDQ Sbjct: 66 VRHQAQVLIDRFDIAAVKLGIAGSRENAEVIADLIRQLRERNPQLPVVLDPVLANGKGDQ 125 Query: 61 LSRDDAARVIEPLYELATVITPNLNEARRLCGDVEPARQAALLMERGCAHVLLKGGHGPQ 120 LSRDDA RVIEPLYELATVITPNLNEARRLCGDVEP +QAALLM RGCAHVLLKGGHGPQ Sbjct: 126 LSRDDAVRVIEPLYELATVITPNLNEARRLCGDVEPTQQAALLMARGCAHVLLKGGHGPQ 185 Query: 121 EQDVINRWFGQLFRSEFAEEAIESARWRWTRLPDEFHGSGCTLAAALSACLARGLPMREA 180 EQDVINRW+GQLFRSEFAEEAIE+ARWRWTRLPDEFHGSGCTLAAALSACLARGLPMR+A Sbjct: 186 EQDVINRWYGQLFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLARGLPMRQA 245 Query: 181 IDLAQQYTQHALSTSYAIAEGQRIPNRVPAFEPVIDAAVAAGA 223 I+LAQ YTQHAL+TSYAIA+GQRIP+RVPAFE V+DAA AAGA Sbjct: 246 IELAQHYTQHALATSYAIADGQRIPHRVPAFEAVVDAAPAAGA 288 >gi|300313137|ref|YP_003777229.1| phosphomethylpyrimidine kinase [Herbaspirillum seropedicae SmR1] Length = 282 Score = 69.3 bits (168), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 70/217 (32%), Positives = 107/217 (49%), Gaps = 27/217 (12%) Query: 1 VRHQAQVLIDRFDIAAVKLGIAGSRENAEVIAGLIRQLRARDPHLPVVLDPVLANGKGDQ 60 V QA+V+++ +AA K+G GS EN VIA ++ P +P++LDP + +Q Sbjct: 63 VADQARVILEDMAVAAFKVGNVGSIENISVIAEIVSDY----PDVPLILDP-FTSALANQ 117 Query: 61 LSRDDAARVI-EPLYELATVITPNLNEARRLCGDV-EPARQAALLM------ERGCAHVL 112 DD I E L AT++ + E RL EP AL++ E GC ++L Sbjct: 118 EDEDDRLIAIRELLIPQATLMVASAGELARLAETWREPVPGDALMLDAMRIIEMGCEYLL 177 Query: 113 LKGGHGPQEQDVINRWFGQ--LFRSEFAEEAIESARWRWTRLPDEFHGSGCTLAAALSAC 170 + Q++ N F + L R + W RLP F G+G TL+AA++A Sbjct: 178 VTNTQT-DLQEIANSLFDESGLVRQD-----------AWQRLPGSFVGAGTTLSAAMAAM 225 Query: 171 LARGLPMREAIDLAQQYTQHALSTSYAIAEGQRIPNR 207 LA GL + A AQ++T AL+ + I G+ +P+R Sbjct: 226 LANGLEVPLAAAEAQEFTLAALANAQRIGMGKLVPDR 262 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 0.321 0.136 0.406 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: 722,835 Number of extensions: 29939 Number of successful extensions: 116 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 114 Number of HSP's successfully gapped: 2 Length of query: 223 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 141 Effective length of database: 1,231,600 Effective search space: 173655600 Effective search space used: 173655600 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 129 (54.3 bits)