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= 0264.0044.p (472 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM0234 [E] COG1982 Arginine/lysine/ornithine decarboxylases 143 5e-34 slr0528 [M] COG0769 UDP-N-acetylmuramyl tripeptide synthase 60 1e-08 RSc2843 [M] COG0773 UDP-N-acetylmuramate-alanine ligase 58 3e-08 PA4411 [M] COG0773 UDP-N-acetylmuramate-alanine ligase 56 1e-07 >STM0234 [E] COG1982 Arginine/lysine/ornithine decarboxylases Length = 204 Score = 143 bits (361), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 0/462 (0%), Positives = 0/462 (0%), Gaps = 54/462 (11%) Query: 14 VLGLAKSGVQVAK-VLHERGADVTVNDKKERDQSPEASELESLGISVICGGHPEGLIHPG 72 + A + + N + E I I + ++ Sbjct: 5 SMIHAIVDQYSHCEWVENSMSANENNLIWIDLEMTGLD-PERDRIIEIATLVTDANLNIL 63 Query: 73 VSLVVKNPGIPYSVPPVQKALELGIEVVTEVEVAY-HLCAAPMIGITGSNGKXXXXXWVG 131 + S + + + T + + WV Sbjct: 64 AEGP--TIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVP 121 Query: 132 RMLDAAGMHPIVAGNIGTPLCQAAQEAHADNWMVVELSSFQLKGTKAFRPKVG--CLLNV 189 + I EA+ S + + R K Sbjct: 122 AGKSPICGNSIGQDRRFLFKYMPELEAY--FHYRYLDVSTLKELAR--RWKPEILDGFTK 177 Query: 190 AETHLDYHGGMEDYIASKAKLFANQGPSDTAVLNWDDPVCRELVPYIKAGILPFSMTEEL 249 Sbjct: 178 - 236 Query: 250 VQGVFVRPAFVPDTEDDLKRMIVYRDYSESETEIAAVDSIGLPGRFNV---EXXXXXXXX 306 Sbjct: 237 --------------------------- 269 Query: 307 XXXXXXXXXXXXEVLVNFRGVEHRLEYVAEKAGAAYYNNSKATNSKATSMALASFRKPVV 366 Sbjct: 270 - 328 Query: 367 LIAGGLDRGSDYMELLPVLG-GVKALVALGQTRDKLAAVAGMAGVKRIISVDNGESAAAV 425 Sbjct: 329 ---------- 378 Query: 426 LQEAVREASALAEAGDIVLLSPACASWDMFTSYEERGRIFKE 467 Sbjct: 379 420 >slr0528 [M] COG0769 UDP-N-acetylmuramyl tripeptide synthase Length = 211 Score = 59.7 bits (143), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 0/141 (0%), Positives = 0/141 (0%), Gaps = 21/141 (14%) Query: 114 MIGITGSNGKXXXXXWVGRMLDAAGMHPIVAGNI-------------GTPLC-----QAA 155 + + V + A Sbjct: 121 TANVVLNTAFGWPTIAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLI 180 Query: 156 QEAHADN-WMVVELSSFQLKGTKAFRPKVGC--LLNVAETHLDYHGGMEDYIASKAKLFA 212 S ++ ++ KV Sbjct: 181 LHGRYTCIARKPRCGSCIIEDLCEYKEKVDI 240 Query: 213 NQGPSDTAVLNWDDPVCRELV 233 Sbjct: 241 261 >RSc2843 [M] COG0773 UDP-N-acetylmuramate-alanine ligase Length = 483 Score = 58.2 bits (139), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 79/334 (23%), Positives = 135/334 (40%), Gaps = 23/334 (6%) Query: 10 KEVVVLGLAKSGVQ-VAKVLHERGADVTVNDKKERDQSPEASELESLGISVICGGHPEGL 68 K + +G+ +G+ +A+VL G VT +D QS L +LG +V+ G PE + Sbjct: 6 KNIHFVGIGGAGMSGIAEVLLNLGYRVTGSDLG---QSAATQRLTALGATVMQGHAPEHV 62 Query: 69 IHPGVSLVVKNPGIPYSVPPVQKALELGIEVVTE-VEVAYHLCAAPMIGITGSNGKXXXX 127 + G + VV + + P V A I +V V +A + I I G++GK Sbjct: 63 V--GANAVVVSTAVRGDNPEVLAARAKRIPIVPRAVMLAELMRLKQGIAIAGTHGKTTTT 120 Query: 128 XWVGRMLDAAGMHPIVAGNIGTPLCQAAQEAH--ADNWMVVELSSFQLKGTKAFRPKVGC 185 V +L G+ P IG L A A +++V E F P + Sbjct: 121 SLVASVLAEGGLDPTFV--IGGRLNSAGANARLGTGDFIVAEADESDASFLNLF-PVIEV 177 Query: 186 LLNVAETHLDYHGGMEDYIASKAKL--FANQGP-SDTAVLNWDDPVCRELVPYIKAGILP 242 + N+ H+D +G D+ K F ++ P AVL DDP RE++P++ ++ Sbjct: 178 ITNIDADHMDTYG--HDFARLKQAFIEFTHRLPFYGIAVLCVDDPNVREILPFVSKPVVR 235 Query: 243 FSMTEELVQGVFVRPAFVPDTEDDLKRMIVYRDYSESETEIAAVDSIGLPGRFNVEXXXX 302 + E+ VR + ++ ++ + +E ++ ++ LPG NV+ Sbjct: 236 YGFAED----AQVRAVNARAVDGRMEFTVIRQLNGHAEPPLSI--TLNLPGMHNVQNALA 289 Query: 303 XXXXXXXXXXXXXXXXEVLVNFRGVEHRLEYVAE 336 + L F GV R + E Sbjct: 290 AIAIATELEVPDEAIVKALAEFNGVGRRFQRYGE 323 >PA4411 [M] COG0773 UDP-N-acetylmuramate-alanine ligase Length = 480 Score = 56.2 bits (134), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 60/229 (26%), Positives = 95/229 (41%), Gaps = 12/229 (5%) Query: 24 VAKVLHERGADVTVNDKKERDQSPEASELESLGISVICGGHPEGLIHPGVSLVVKNPGIP 83 +A+VL G +V+ +D K S LE G + G E G ++V + I Sbjct: 31 IAEVLLNLGYEVSGSDLK---ASAVTERLEKFGAQIFIGHQAENA--DGADVLVVSSAIN 85 Query: 84 YSVPPVQKALELGIEVVTEVEVAYHLCAAPM-IGITGSNGKXXXXXWVGRMLDAAGMHPI 142 + P V ALE I VV E+ L I + G++GK + + A G+ P Sbjct: 86 RANPEVASALERRIPVVPRAEMLAELMRYRHGIAVAGTHGKTTTTSLIASVFAAGGLDPT 145 Query: 143 VAGNIGTPLCQAAQEAH--ADNWMVVELSSFQLKGTKAFRPKVGCLLNVAETHLDYHGGM 200 IG L A A A ++V E +P V + N+ H+ +GG Sbjct: 146 FV--IGGRLNAAGTNAQLGASRYLVAEADESDASFLH-LQPMVAVVTNIDADHMATYGGD 202 Query: 201 EDYIASKAKLFANQGP-SDTAVLNWDDPVCRELVPYIKAGILPFSMTEE 248 + + F + P AV+ DDPV RE++P I + + ++E+ Sbjct: 203 FNKLKKTFVEFLHNLPFYGLAVMCVDDPVVREILPQIARPTVTYGLSED 251 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.317 0.134 0.389 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 33,066,605 Number of extensions: 1298386 Number of successful extensions: 5310 Number of sequences better than 1.0e-05: 16 Number of HSP's gapped: 5320 Number of HSP's successfully gapped: 17 Length of query: 472 Length of database: 38,378,431 Length adjustment: 110 Effective length of query: 362 Effective length of database: 25,691,691 Effective search space: 9300392142 Effective search space used: 9300392142 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 118 (50.1 bits)