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= 0028.0276.p (344 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311090|ref|YP_003775182.1| allophanate hydrolase subunit 2... 664 0.0 gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2... 172 4e-44 gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum... 132 4e-32 >gi|300311090|ref|YP_003775182.1| allophanate hydrolase subunit 2 [Herbaspirillum seropedicae SmR1] Length = 344 Score = 664 bits (1714), Expect = 0.0, Method: Compositional matrix adjust. Identities = 333/344 (96%), Positives = 339/344 (98%) Query: 1 MIDIIQPGMLASVQDMGRTGHRSLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA 60 MIDIIQPGMLASVQDMGR GHR LGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA Sbjct: 1 MIDIIQPGMLASVQDMGRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA 60 Query: 61 ELRFTRDTRIALGGDDIGATLDGKPVAACWSIPVRAGSVLKLSLAAADSPEQAPRHSMRT 120 ELRFTR TRIALGGDDIGATLDGKP+AACWSIPVRAGS+LKLSLAAADSPEQAPRHSMRT Sbjct: 61 ELRFTRATRIALGGDDIGATLDGKPIAACWSIPVRAGSILKLSLAAADSPEQAPRHSMRT 120 Query: 121 YLAVAGGIDVPVVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDASAASAAVHGPAFGVRS 180 YLAVAGGIDVP+VLGSRSTDLKAGFGGHQGRALKRGDKLPIGDA AA+AAVHGPAFGVRS Sbjct: 121 YLAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFGVRS 180 Query: 181 PRWSGLALRADEHSQHVTLRVLPGPEFDQFSKTAREALWSDTWRVTPNSNRMGYRLEGPE 240 PRWSGLALRADEHSQHVTLRVLP PEFDQFSK+AREALWSDTWRVTPNSNRMGYRLEGPE Sbjct: 181 PRWSGLALRADEHSQHVTLRVLPAPEFDQFSKSAREALWSDTWRVTPNSNRMGYRLEGPE 240 Query: 241 LKRKQGRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGADLWKLAQAPLN 300 LKRKQGRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGADLWKLAQAPLN Sbjct: 241 LKRKQGRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGADLWKLAQAPLN 300 Query: 301 ATLRLEPCELADALAAAEEQQRYLDSIRATVAALDWSRATLYKK 344 ATLRLEPCE+ADALAAAEEQQRYLDSIRATVAALDWSRATLYKK Sbjct: 301 ATLRLEPCEMADALAAAEEQQRYLDSIRATVAALDWSRATLYKK 344 >gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2 [Herbaspirillum seropedicae SmR1] Length = 325 Score = 172 bits (435), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 122/326 (37%), Positives = 166/326 (50%), Gaps = 31/326 (9%) Query: 2 IDIIQPGMLASVQDMGRTGHRSLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVAE 61 I + QPG+ SVQD GR G+ LGI P GAL+ AL SANLLVGN + LE ++ + Sbjct: 3 IKVKQPGLATSVQDGGREGYYHLGIPPSGALDQYALRSANLLVGNHASTSALECSLLGPQ 62 Query: 62 LRFTRDTRIALGGDDIGATLDGKPVAACWSIPVRAGSVLKLSLAAADSPEQAPRHSMRTY 121 L F D +A+ G + +DG + VR+G VL P+ R+Y Sbjct: 63 LEFRSDALVAVTGARMQPRVDGSERPLDTAFMVRSGQVLSFDY---------PKAGARSY 113 Query: 122 LAVAGGIDVPVVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDASAASAAVHGPAFGVRSP 181 LA+AGGIDVPVVL SRST GG QGR L + D+LP+G AS A+ G Sbjct: 114 LAIAGGIDVPVVLESRSTYALGALGGWQGRKLAKDDELPLGRAS--PKAIEG-------- 163 Query: 182 RWSGLALRADEHSQHVTLRVLPGPEFDQFSKTAREALWSDTWRVTPNSNRMGYRLEGPEL 241 R L+L + + TLRV+PG + + A E + DTW V ++R+GYR +G + Sbjct: 164 RTLPLSL-VPVYDREATLRVVPGLYIHRLTDEAVERFFDDTWTVGSEADRIGYRFKGGQA 222 Query: 242 KRKQGRDM-LSHGVVP----------GVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGAD 290 + + R+ G P G IQ+P +PI+L+ DA + GGY IG +I AD Sbjct: 223 MQFRPREQPFGAGSDPSNIVDACYPIGSIQIPGGLEPIVLLRDAVSGGGYATIGTVISAD 282 Query: 291 LWKLAQAPLNATLRLEPCELADALAA 316 L + Q N + L AL A Sbjct: 283 LDLIGQLQPNHKAQFVRVTLEQALEA 308 >gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum seropedicae SmR1] Length = 1207 Score = 132 bits (332), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 118/355 (33%), Positives = 166/355 (46%), Gaps = 38/355 (10%) Query: 2 IDIIQPGMLASVQDM-GRTGHRSLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA 60 ++++ PG +VQD GR G+ ++G+ P G ++ AL N L+GN +AAGLE+TM Sbjct: 455 VEVLAPGTQTTVQDHPGRIGYWAVGVPPSGPMDERALRLGNRLLGNAEEAAGLEVTMSGP 514 Query: 61 ELRFTRDTRIALGGDDIGATLDGKPVAACWSIPVRAGSVLKL-SLAAADSPEQAPRHSMR 119 LRF + + G I LDG + + AGS LKL +++ A + R Sbjct: 515 ILRFNTAAMVVVTGAVIPVLLDGVAQPMATVLHIAAGSTLKLGAISGAGA---------R 565 Query: 120 TYLAVAGGIDVPVVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDASAASAAVHGPAFGVR 179 +YLAV GG+ VP LGSRST FGGH GRAL GD L + +A + G Sbjct: 566 SYLAVRGGVQVPTYLGSRSTFTLGQFGGHAGRALASGDILHLAPLAADAMTQAGQTL--- 622 Query: 180 SPRWSGLALRADEHSQHVTLRVLPGPEF--DQFSKTAREALWSDTWRVTPNSNRMGYRLE 237 P AL A +RV+ GP + F+ E ++ W V NS+R G RL Sbjct: 623 -PAALYPALEAVRQ-----VRVIYGPHGAPEYFTPAYMETFFATDWEVHFNSSRTGVRLI 676 Query: 238 G--PELKRKQGRDMLSHGVVPGVIQVPPSG---------QPIILMGDAQTTGGYPKIGVI 286 G PE R G + G+ P I P P+IL D + GG+ + Sbjct: 677 GPKPEWVRDSGGEA---GLHPSNIHDNPYAVGAVDFTGDMPVILGPDGPSLGGFVCPVTV 733 Query: 287 IGADLWKLAQAPLNATLRLEPCELADALAAAEEQQRYLDSIRATVAALDWSRATL 341 I ADLW++ Q +R P E+ A A Q + S++ +DWS A L Sbjct: 734 IEADLWQIGQLKAGDKVRFVPVEVNTARRIALAAQAGVASLQPQ--PVDWSPAPL 786 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 0.318 0.135 0.403 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: 1,141,498 Number of extensions: 49952 Number of successful extensions: 185 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 179 Number of HSP's successfully gapped: 3 Length of query: 344 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 258 Effective length of database: 1,212,660 Effective search space: 312866280 Effective search space used: 312866280 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 (21.7 bits) S2: 131 (55.1 bits)