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= 0029.0317.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... 691 0.0 gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2... 164 1e-41 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 = 691 bits (1782), Expect = 0.0, Method: Compositional matrix adjust. Identities = 344/344 (100%), Positives = 344/344 (100%) Query: 1 MIDIIQPGMLASVQDMGRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA 60 MIDIIQPGMLASVQDMGRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA Sbjct: 1 MIDIIQPGMLASVQDMGRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA 60 Query: 61 ELRFTRATRIALGGDDIGATLDGKPIAACWSIPVRAGSILKLSLAAADSPEQAPRHSMRT 120 ELRFTRATRIALGGDDIGATLDGKPIAACWSIPVRAGSILKLSLAAADSPEQAPRHSMRT Sbjct: 61 ELRFTRATRIALGGDDIGATLDGKPIAACWSIPVRAGSILKLSLAAADSPEQAPRHSMRT 120 Query: 121 YLAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFGVRS 180 YLAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFGVRS Sbjct: 121 YLAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFGVRS 180 Query: 181 PRWSGLALRADEHSQHVTLRVLPAPEFDQFSKSAREALWSDTWRVTPNSNRMGYRLEGPE 240 PRWSGLALRADEHSQHVTLRVLPAPEFDQFSKSAREALWSDTWRVTPNSNRMGYRLEGPE Sbjct: 181 PRWSGLALRADEHSQHVTLRVLPAPEFDQFSKSAREALWSDTWRVTPNSNRMGYRLEGPE 240 Query: 241 LKRKQGRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGADLWKLAQAPLN 300 LKRKQGRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGADLWKLAQAPLN Sbjct: 241 LKRKQGRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGADLWKLAQAPLN 300 Query: 301 ATLRLEPCEMADALAAAEEQQRYLDSIRATVAALDWSRATLYKK 344 ATLRLEPCEMADALAAAEEQQRYLDSIRATVAALDWSRATLYKK Sbjct: 301 ATLRLEPCEMADALAAAEEQQRYLDSIRATVAALDWSRATLYKK 344 >gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2 [Herbaspirillum seropedicae SmR1] Length = 325 Score = 164 bits (414), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 116/326 (35%), Positives = 165/326 (50%), Gaps = 31/326 (9%) Query: 2 IDIIQPGMLASVQDMGRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVAE 61 I + QPG+ SVQD GR G+ LGI P GAL+ AL SANLLVGN + LE ++ + Sbjct: 3 IKVKQPGLATSVQDGGREGYYHLGIPPSGALDQYALRSANLLVGNHASTSALECSLLGPQ 62 Query: 62 LRFTRATRIALGGDDIGATLDGKPIAACWSIPVRAGSILKLSLAAADSPEQAPRHSMRTY 121 L F +A+ G + +DG + VR+G +L P+ R+Y Sbjct: 63 LEFRSDALVAVTGARMQPRVDGSERPLDTAFMVRSGQVLSFDY---------PKAGARSY 113 Query: 122 LAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFGVRSP 181 LA+AGGIDVP+VL SRST GG QGR L + D+LP+G +A+ A+ G Sbjct: 114 LAIAGGIDVPVVLESRSTYALGALGGWQGRKLAKDDELPLG--RASPKAIEG-------- 163 Query: 182 RWSGLALRADEHSQHVTLRVLPAPEFDQFSKSAREALWSDTWRVTPNSNRMGYRLEGPEL 241 R L+L + + TLRV+P + + 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 LWKLAQAPLNATLRLEPCEMADALAA 316 L + Q N + + 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 = 122/357 (34%), Positives = 168/357 (47%), Gaps = 42/357 (11%) Query: 2 IDIIQPGMLASVQDM-GRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA 60 ++++ PG +VQD GR G+ +G+ P G ++ AL N L+GN +AAGLE+TM Sbjct: 455 VEVLAPGTQTTVQDHPGRIGYWAVGVPPSGPMDERALRLGNRLLGNAEEAAGLEVTMSGP 514 Query: 61 ELRFTRATRIALGGDDIGATLDG--KPIAACWSIPVRAGSILKL-SLAAADSPEQAPRHS 117 LRF A + + G I LDG +P+A I AGS LKL +++ A + Sbjct: 515 ILRFNTAAMVVVTGAVIPVLLDGVAQPMATVLHIA--AGSTLKLGAISGAGA-------- 564 Query: 118 MRTYLAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFG 177 R+YLAV GG+ VP LGSRST FGGH GRAL GD L + A A G Sbjct: 565 -RSYLAVRGGVQVPTYLGSRSTFTLGQFGGHAGRALASGDILHLAPLAADAMTQAGQTL- 622 Query: 178 VRSPRWSGLALRADEHSQHVTLRVLP--APEFDQFSKSAREALWSDTWRVTPNSNRMGYR 235 A E + V + P APE+ F+ + E ++ W V NS+R G R Sbjct: 623 ------PAALYPALEAVRQVRVIYGPHGAPEY--FTPAYMETFFATDWEVHFNSSRTGVR 674 Query: 236 LEG--PELKRKQGRDMLSHGVVPGVIQVPPSG---------QPIILMGDAQTTGGYPKIG 284 L G PE R G + G+ P I P P+IL D + GG+ Sbjct: 675 LIGPKPEWVRDSGGEA---GLHPSNIHDNPYAVGAVDFTGDMPVILGPDGPSLGGFVCPV 731 Query: 285 VIIGADLWKLAQAPLNATLRLEPCEMADALAAAEEQQRYLDSIRATVAALDWSRATL 341 +I ADLW++ Q +R P E+ A A Q + S++ +DWS A L Sbjct: 732 TVIEADLWQIGQLKAGDKVRFVPVEVNTARRIALAAQAGVASLQPQ--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 0.319 0.135 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: 1,177,782 Number of extensions: 52922 Number of successful extensions: 197 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 191 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 131 (55.1 bits)