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= 0001.1620.p (347 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... 634 0.0 gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2... 161 6e-41 gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum... 131 9e-32 >gi|300311090|ref|YP_003775182.1| allophanate hydrolase subunit 2 [Herbaspirillum seropedicae SmR1] Length = 344 Score = 634 bits (1635), Expect = 0.0, Method: Compositional matrix adjust. Identities = 317/347 (91%), Positives = 335/347 (96%), Gaps = 3/347 (0%) Query: 1 MIEILQPGMLASVQDMGRYGHRSQGIHPGGALNTLALASANLLVGNPIEAAGLEITMGVA 60 MI+I+QPGMLASVQDMGRYGHR GIHPGGALNTLALASANLLVGNP++AAGLEITMGVA Sbjct: 1 MIDIIQPGMLASVQDMGRYGHRRLGIHPGGALNTLALASANLLVGNPVDAAGLEITMGVA 60 Query: 61 ELRFTRATRIALGGDDIGATLDGQPIAACWSVPVQAGSVLKLSPSAADSLNSPDQAPRHS 120 ELRFTRATRIALGGDDIGATLDG+PIAACWS+PV+AGS+LKLS +AADS P+QAPRHS Sbjct: 61 ELRFTRATRIALGGDDIGATLDGKPIAACWSIPVRAGSILKLSLAAADS---PEQAPRHS 117 Query: 121 MRTYLAVAGGIDVPLVLGSRSTDLKAGFGGLQGRPLKRGDKLPIGDAQAASEAVHGPAFG 180 MRTYLAVAGGIDVPLVLGSRSTDLKAGFGG QGR LKRGDKLPIGDAQAA+ AVHGPAFG Sbjct: 118 MRTYLAVAGGIDVPLVLGSRSTDLKAGFGGHQGRALKRGDKLPIGDAQAAAAAVHGPAFG 177 Query: 181 VRSPRWSGLALRADEHSQHVTLRVLPGPEFEQFSKASREALWSDTWRVTPNSNRMGYRLQ 240 VRSPRWSGLALRADEHSQHVTLRVLP PEF+QFSK++REALWSDTWRVTPNSNRMGYRL+ Sbjct: 178 VRSPRWSGLALRADEHSQHVTLRVLPAPEFDQFSKSAREALWSDTWRVTPNSNRMGYRLE 237 Query: 241 GPELKRKHSRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVVIGADLWKLAQA 300 GPELKRK RDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGV+IGADLWKLAQA Sbjct: 238 GPELKRKQGRDMLSHGVVPGVIQVPPSGQPIILMGDAQTTGGYPKIGVIIGADLWKLAQA 297 Query: 301 PLNATLRLEPCELADALAAAEEQQRYLDAIRATVAALDWSRATLYKK 347 PLNATLRLEPCE+ADALAAAEEQQRYLD+IRATVAALDWSRATLYKK Sbjct: 298 PLNATLRLEPCEMADALAAAEEQQRYLDSIRATVAALDWSRATLYKK 344 >gi|300313401|ref|YP_003777493.1| allophanate hydrolase subunit 2 [Herbaspirillum seropedicae SmR1] Length = 325 Score = 161 bits (408), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 117/329 (35%), Positives = 166/329 (50%), Gaps = 34/329 (10%) Query: 2 IEILQPGMLASVQDMGRYGHRSQGIHPGGALNTLALASANLLVGNPIEAAGLEITMGVAE 61 I++ QPG+ SVQD GR G+ GI P GAL+ AL SANLLVGN + LE ++ + Sbjct: 3 IKVKQPGLATSVQDGGREGYYHLGIPPSGALDQYALRSANLLVGNHASTSALECSLLGPQ 62 Query: 62 LRFTRATRIALGGDDIGATLDGQPIAACWSVPVQAGSVLKLSPSAADSLNSPDQAPRHSM 121 L F +A+ G + +DG + V++G VL P+ Sbjct: 63 LEFRSDALVAVTGARMQPRVDGSERPLDTAFMVRSGQVLSFD------------YPKAGA 110 Query: 122 RTYLAVAGGIDVPLVLGSRSTDLKAGFGGLQGRPLKRGDKLPIGDAQAASEAVHGPAFGV 181 R+YLA+AGGIDVP+VL SRST GG QGR L + D+LP+G +A+ +A+ G Sbjct: 111 RSYLAIAGGIDVPVVLESRSTYALGALGGWQGRKLAKDDELPLG--RASPKAIEG----- 163 Query: 182 RSPRWSGLALRADEHSQHVTLRVLPGPEFEQFSKASREALWSDTWRVTPNSNRMGYRLQG 241 R L+L + + TLRV+PG + + + E + DTW V ++R+GYR +G Sbjct: 164 ---RTLPLSL-VPVYDREATLRVVPGLYIHRLTDEAVERFFDDTWTVGSEADRIGYRFKG 219 Query: 242 PELKRKHSRDM-LSHGVVP----------GVIQVPPSGQPIILMGDAQTTGGYPKIGVVI 290 + + R+ G P G IQ+P +PI+L+ DA + GGY IG VI Sbjct: 220 GQAMQFRPREQPFGAGSDPSNIVDACYPIGSIQIPGGLEPIVLLRDAVSGGGYATIGTVI 279 Query: 291 GADLWKLAQAPLNATLRLEPCELADALAA 319 ADL + Q N + L AL A Sbjct: 280 SADLDLIGQLQPNHKAQFVRVTLEQALEA 308 >gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum seropedicae SmR1] Length = 1207 Score = 131 bits (329), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 128/364 (35%), Positives = 172/364 (47%), Gaps = 53/364 (14%) Query: 2 IEILQPGMLASVQDM-GRYGHRSQGIHPGGALNTLALASANLLVGNPIEAAGLEITMGVA 60 +E+L PG +VQD GR G+ + G+ P G ++ AL N L+GN EAAGLE+TM Sbjct: 455 VEVLAPGTQTTVQDHPGRIGYWAVGVPPSGPMDERALRLGNRLLGNAEEAAGLEVTMSGP 514 Query: 61 ELRFTRATRIALGGDDIGATLDG--QPIAACWSVPVQAGSVLKLSPSAADSLNSPDQAPR 118 LRF A + + G I LDG QP+A + + AGS LKL + Sbjct: 515 ILRFNTAAMVVVTGAVIPVLLDGVAQPMATV--LHIAAGSTLKLGAISG----------- 561 Query: 119 HSMRTYLAVAGGIDVPLVLGSRSTDLKAGFGGLQGRPLKRGDKLPIGDAQAASEAVHGPA 178 R+YLAV GG+ VP LGSRST FGG GR L GD L + A A++A+ Sbjct: 562 AGARSYLAVRGGVQVPTYLGSRSTFTLGQFGGHAGRALASGDILHL--APLAADAMTQAG 619 Query: 179 FGVRSPRWSGL-ALRADEHSQHVTLRVLPGPEF--EQFSKASREALWSDTWRVTPNSNRM 235 + + + L A+R +RV+ GP E F+ A E ++ W V NS+R Sbjct: 620 QTLPAALYPALEAVR--------QVRVIYGPHGAPEYFTPAYMETFFATDWEVHFNSSRT 671 Query: 236 GYRLQGPELKRKHSRDMLSH-GVVPGVIQVPPSG---------QPIILMGDAQTTGGYPK 285 G RL GP K + RD G+ P I P P+IL D + GG+ Sbjct: 672 GVRLIGP--KPEWVRDSGGEAGLHPSNIHDNPYAVGAVDFTGDMPVILGPDGPSLGGFVC 729 Query: 286 IGVVIGADLWKLAQAPLNATLRLEPCELADALAAAEEQQRYLDAIRATVAAL-----DWS 340 VI ADLW++ Q +R P E+ A +R A +A VA+L DWS Sbjct: 730 PVTVIEADLWQIGQLKAGDKVRFVPVEVNTA-------RRIALAAQAGVASLQPQPVDWS 782 Query: 341 RATL 344 A L Sbjct: 783 PAPL 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 0.317 0.134 0.401 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: 1,157,262 Number of extensions: 50790 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 160 Number of HSP's successfully gapped: 3 Length of query: 347 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 261 Effective length of database: 1,212,660 Effective search space: 316504260 Effective search space used: 316504260 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)