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= 0001.3980.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2... 568 e-163 gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum... 187 1e-48 gi|300311090|ref|YP_003775182.1| allophanate hydrolase subunit 2... 166 2e-42 >gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2 [Herbaspirillum seropedicae SmR1] Length = 325 Score = 568 bits (1465), Expect = e-163, Method: Compositional matrix adjust. Identities = 290/325 (89%), Positives = 307/325 (94%) Query: 1 MTIKVKQPGLATSVQDGGREGYYHLGIPPSGALDQYALRAANLLVGNAATSSALECTLLG 60 MTIKVKQPGLATSVQDGGREGYYHLGIPPSGALDQYALR+ANLLVGN A++SALEC+LLG Sbjct: 1 MTIKVKQPGLATSVQDGGREGYYHLGIPPSGALDQYALRSANLLVGNHASTSALECSLLG 60 Query: 61 PQLQFQRDALVAVTGARMQPRVDGLEQPLDTAFKVRSGQVLSFDYPKSGARSYIAIGGGI 120 PQL+F+ DALVAVTGARMQPRVDG E+PLDTAF VRSGQVLSFDYPK+GARSY+AI GGI Sbjct: 61 PQLEFRSDALVAVTGARMQPRVDGSERPLDTAFMVRSGQVLSFDYPKAGARSYLAIAGGI 120 Query: 121 DVPVVLESRSTYGLGALGGWQGRKLAKDDEIPLGRPSAQAMEGRALPLSLVPVYARQTTL 180 DVPVVLESRSTY LGALGGWQGRKLAKDDE+PLGR S +A+EGR LPLSLVPVY R+ TL Sbjct: 121 DVPVVLESRSTYALGALGGWQGRKLAKDDELPLGRASPKAIEGRTLPLSLVPVYDREATL 180 Query: 181 RVVPGLYIHRLTDDAVERFFADTWTVGSEADRIGYRFKGGQPMQFRPREQPFGAGSDPSN 240 RVVPGLYIHRLTD+AVERFF DTWTVGSEADRIGYRFKGGQ MQFRPREQPFGAGSDPSN Sbjct: 181 RVVPGLYIHRLTDEAVERFFDDTWTVGSEADRIGYRFKGGQAMQFRPREQPFGAGSDPSN 240 Query: 241 IVDACYPIGSIQIPGGLEPIVLLRDAVSGGGYATIGTVISADLDLIGQLQPNHQAQFERV 300 IVDACYPIGSIQIPGGLEPIVLLRDAVSGGGYATIGTVISADLDLIGQLQPNH+AQF RV Sbjct: 241 IVDACYPIGSIQIPGGLEPIVLLRDAVSGGGYATIGTVISADLDLIGQLQPNHKAQFVRV 300 Query: 301 TLEQALEARRHYQQRLQRLGSLLHH 325 TLEQALEARR YQQR+QRL S L + Sbjct: 301 TLEQALEARRQYQQRIQRLASFLDN 325 >gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum seropedicae SmR1] Length = 1207 Score = 187 bits (475), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 124/310 (40%), Positives = 171/310 (55%), Gaps = 9/310 (2%) Query: 2 TIKVKQPGLATSVQDG-GREGYYHLGIPPSGALDQYALRAANLLVGNAATSSALECTLLG 60 T++V PG T+VQD GR GY+ +G+PPSG +D+ ALR N L+GNA ++ LE T+ G Sbjct: 454 TVEVLAPGTQTTVQDHPGRIGYWAVGVPPSGPMDERALRLGNRLLGNAEEAAGLEVTMSG 513 Query: 61 PQLQFQRDALVAVTGARMQPRVDGLEQPLDTAFKVRSGQVLSF-DYPKSGARSYIAIGGG 119 P L+F A+V VTGA + +DG+ QP+ T + +G L +GARSY+A+ GG Sbjct: 514 PILRFNTAAMVVVTGAVIPVLLDGVAQPMATVLHIAAGSTLKLGAISGAGARSYLAVRGG 573 Query: 120 IDVPVVLESRSTYGLGALGGWQGRKLAKDDEIPLGRPSAQAME--GRALPLSLVPVYARQ 177 + VP L SRST+ LG GG GR LA D + L +A AM G+ LP +L P Sbjct: 574 VQVPTYLGSRSTFTLGQFGGHAGRALASGDILHLAPLAADAMTQAGQTLPAALYPALEAV 633 Query: 178 TTLRVVPGLY--IHRLTDDAVERFFADTWTVGSEADRIGYRFKGGQPMQFRPREQPFGAG 235 +RV+ G + T +E FFA W V + R G R G +P R+ AG Sbjct: 634 RQVRVIYGPHGAPEYFTPAYMETFFATDWEVHFNSSRTGVRLIGPKPEWV--RDSGGEAG 691 Query: 236 SDPSNIVDACYPIGSIQIPGGLEPIVLLRDAVSGGGYATIGTVISADLDLIGQLQPNHQA 295 PSNI D Y +G++ G + P++L D S GG+ TVI ADL IGQL+ + Sbjct: 692 LHPSNIHDNPYAVGAVDFTGDM-PVILGPDGPSLGGFVCPVTVIEADLWQIGQLKAGDKV 750 Query: 296 QFERVTLEQA 305 +F V + A Sbjct: 751 RFVPVEVNTA 760 >gi|300311090|ref|YP_003775182.1| allophanate hydrolase subunit 2 [Herbaspirillum seropedicae SmR1] Length = 344 Score = 166 bits (420), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 115/337 (34%), Positives = 170/337 (50%), Gaps = 31/337 (9%) Query: 3 IKVKQPGLATSVQDGGREGYYHLGIPPSGALDQYALRAANLLVGNAATSSALECTLLGPQ 62 I + QPG+ SVQD GR G+ LGI P GAL+ AL +ANLLVGN ++ LE T+ + Sbjct: 2 IDIIQPGMLASVQDMGRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVAE 61 Query: 63 LQFQRDALVAVTGARMQPRVDGLEQPLDTAFKVRSGQVLSFDY---------PKSGARSY 113 L+F R +A+ G + +DG + VR+G +L P+ R+Y Sbjct: 62 LRFTRATRIALGGDDIGATLDGKPIAACWSIPVRAGSILKLSLAAADSPEQAPRHSMRTY 121 Query: 114 IAIGGGIDVPVVLESRSTYGLGALGGWQGRKLAKDDEIPLGR----------PSAQAMEG 163 +A+ GGIDVP+VL SRST GG QGR L + D++P+G P+ Sbjct: 122 LAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFGVRSP 181 Query: 164 RALPLSL-VPVYARQTTLRVVPGLYIHRLTDDAVERFFADTWTVGSEADRIGYRFKGGQP 222 R L+L +++ TLRV+P + + A E ++DTW V ++R+GYR +G + Sbjct: 182 RWSGLALRADEHSQHVTLRVLPAPEFDQFSKSAREALWSDTWRVTPNSNRMGYRLEGPEL 241 Query: 223 MQFRPREQPFGAGSDPSNIVDACYPIGSIQIPGGLEPIVLLRDAVSGGGYATIGTVISAD 282 + + R+ G P G IQ+P +PI+L+ DA + GGY IG +I AD Sbjct: 242 KRKQGRDM-LSHGVVP----------GVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGAD 290 Query: 283 LDLIGQLQPNHQAQFERVTLEQALEARRHYQQRLQRL 319 L + Q N + E + AL A Q+ L + Sbjct: 291 LWKLAQAPLNATLRLEPCEMADALAAAEEQQRYLDSI 327 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 0.319 0.138 0.409 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: 1,120,861 Number of extensions: 51784 Number of successful extensions: 153 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 146 Number of HSP's successfully gapped: 3 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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 (21.7 bits) S2: 131 (55.1 bits)