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= 0001.3978.p (462 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313399|ref|YP_003777491.1| acyl-CoA carboxylase biotin sub... 743 0.0 gi|300309729|ref|YP_003773821.1| biotin carboxylase [Herbaspiril... 436 e-123 gi|300313973|ref|YP_003778065.1| acetyl/propionyl-CoA carboxylas... 343 2e-95 gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum... 313 2e-86 gi|300310711|ref|YP_003774803.1| carbamoyl-phosphate synthase la... 58 1e-09 >gi|300313399|ref|YP_003777491.1| acyl-CoA carboxylase biotin subunit [Herbaspirillum seropedicae SmR1] Length = 462 Score = 743 bits (1919), Expect = 0.0, Method: Compositional matrix adjust. Identities = 397/462 (85%), Positives = 425/462 (91%) Query: 1 MNSSIHKLLVANRGEIAVRIIRAAQALGIPTVAACSEADQDSLAARMADEVQIIGPARAD 60 M +S+ KLL+ANRGEIAVRIIRAAQALGI TVAACS+AD DSLAARMADEVQ IGPARAD Sbjct: 1 MTTSLRKLLIANRGEIAVRIIRAAQALGITTVAACSDADTDSLAARMADEVQRIGPARAD 60 Query: 61 RSYLNGEALLHAAKASGANAIHPGYGFLSENADFAEAVTAAGLIFVGPQAETIRRMGDKA 120 RSYLN +ALL AA+ SGA+A+HPGYGFLSENA FAEAV AAGLIFVGPQA+TIRRMGDKA Sbjct: 61 RSYLNVDALLKAARDSGADALHPGYGFLSENAAFAEAVNAAGLIFVGPQADTIRRMGDKA 120 Query: 121 EARRTAAAAGVPVVPGSPGELEDLPSALACAEQIGYPLLIKASAGGGGRGIRIAHDAAEL 180 EARRTAAAAGVPVVPGS GELEDL +ALACA++IGYPLLIKASAGGGGRGIR+A DA EL Sbjct: 121 EARRTAAAAGVPVVPGSAGELEDLATALACADEIGYPLLIKASAGGGGRGIRMARDATEL 180 Query: 181 AREFPVAQGEAKAAFGSGAVYLERFIGQARHIEVQILGDGQRAVHLFERECSLQRRRQKV 240 AREFP+AQ EA+AAFGS AVYLERFI +ARHIEVQILGDG+RAVHLFERECSLQRRRQKV Sbjct: 181 AREFPLAQAEAQAAFGSAAVYLERFIRRARHIEVQILGDGERAVHLFERECSLQRRRQKV 240 Query: 241 FEEAPSPALTPAQRSALCDSAVRLAEGLRYRGAGTLEYLFDAHSGEFFFIEMNTRIQVEH 300 EEAPSPALTPAQR ALCDSAVRLAE L YRGAGTLEYLFD SGEFFFIEMNTRIQVEH Sbjct: 241 LEEAPSPALTPAQRQALCDSAVRLAERLHYRGAGTLEYLFDDESGEFFFIEMNTRIQVEH 300 Query: 301 PVTEMITGIDLVQAMLRIAGGEPLPWQQSEIQMEGAALEMRINAEDPARNFFPCPGTVAE 360 PVTEMITGIDLVQAMLRIAGGEPL QQS+I+M+GAALEMRINAEDP RNFFPCPGTVAE Sbjct: 301 PVTEMITGIDLVQAMLRIAGGEPLGLQQSDIRMQGAALEMRINAEDPERNFFPCPGTVAE 360 Query: 361 LRWPQGPGIRVESHLYPGYRVPPYYDSLLAKLVVHGADRAQAIARAQAALAATQLTGMAT 420 L+WPQG GIRVESHLY GYR+PPYYDSLLAKLVVHG DRAQAIARAQAA+ AT++TGMAT Sbjct: 361 LQWPQGEGIRVESHLYAGYRIPPYYDSLLAKLVVHGKDRAQAIARAQAAVLATRITGMAT 420 Query: 421 TLPLHQWLLADERVRHARFDTGALESWLAERAAQRSAQLEEA 462 TL LHQWLLAD RV+ ARFDTGALE+WLAER R+ QLEEA Sbjct: 421 TLSLHQWLLADARVQSARFDTGALETWLAERTDTRAKQLEEA 462 >gi|300309729|ref|YP_003773821.1| biotin carboxylase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 436 bits (1120), Expect = e-123, Method: Compositional matrix adjust. Identities = 229/453 (50%), Positives = 307/453 (67%), Gaps = 5/453 (1%) Query: 7 KLLVANRGEIAVRIIRAAQALGIPTVAACSEADQDSLAARMADEVQIIGPARADRSYLNG 66 K+L+ANRGEIA+RI RA + LGI TV SEAD+++ ++ADE IGPA + SYLN Sbjct: 4 KILIANRGEIALRIQRACRELGIKTVVVHSEADREAKYVKLADESVCIGPAPSTLSYLNM 63 Query: 67 EALLHAAKASGANAIHPGYGFLSENADFAEAVTAAGLIFVGPQAETIRRMGDKAEARRTA 126 A++ AA+ + A AIHPGYGFLSENADFAE V +G +F+GP+AE IR MGDK A++ Sbjct: 64 PAIISAAEVTDAQAIHPGYGFLSENADFAERVEKSGFVFIGPRAENIRMMGDKVSAKQAM 123 Query: 127 AAAGVPVVPGSPGELEDLPSALA-CAEQIGYPLLIKASAGGGGRGIRIAHDAAELAREFP 185 AGVP VPGS G L D P + A +IGYP++IKA+ GGGGRG+R+ H A L Sbjct: 124 IRAGVPCVPGSDGALPDNPKEIVQIARKIGYPVIIKAAGGGGGRGMRVVHTEAALINAVT 183 Query: 186 VAQGEAKAAFGSGAVYLERFIGQARHIEVQILGDGQR-AVHLFERECSLQRRRQKVFEEA 244 + + EA AAFG+ VY+E+++ RH+E+QIL D + A+ L ER+CS+QRR QKV EEA Sbjct: 184 MTKTEAGAAFGNPEVYMEKYLENPRHVEIQILADEHKQAIWLGERDCSMQRRHQKVIEEA 243 Query: 245 PSPALTPAQRSALCDSAVRLAEGLRYRGAGTLEYLFDAHSGEFFFIEMNTRIQVEHPVTE 304 P+P + + + + YRGAGT E+L++ + EF+FIEMNTR+QVEHPVTE Sbjct: 244 PAPGIPRKIIEKIGERCAEACRKMNYRGAGTFEFLYE--NEEFYFIEMNTRVQVEHPVTE 301 Query: 305 MITGIDLVQAMLRIAGGEPLPWQQSEIQMEGAALEMRINAEDPARNFFPCPGTVAELRWP 364 MITG+D+VQ +RIA GE L ++Q +I+++G A+E RINAEDP + F P PG + P Sbjct: 302 MITGVDIVQEQIRIAAGEKLRYRQRDIELKGHAIECRINAEDPFK-FIPSPGRITAWHVP 360 Query: 365 QGPGIRVESHLYPGYRVPPYYDSLLAKLVVHGADRAQAIARAQAALAATQLTGMATTLPL 424 GPGIRV+SH Y GY VPP YDS++ K++ +GA R QAI R Q AL+ + G++T +PL Sbjct: 361 GGPGIRVDSHAYSGYFVPPNYDSMVGKVIAYGATREQAIRRMQIALSEMVVEGISTNIPL 420 Query: 425 HQWLLADERVRHARFDTGALESWLAERAAQRSA 457 H+ L+ D R + LE L+ER A A Sbjct: 421 HRELMVDARFFEGGTNIHYLEHKLSERPASPEA 453 >gi|300313973|ref|YP_003778065.1| acetyl/propionyl-CoA carboxylase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 671 Score = 343 bits (879), Expect = 2e-95, Method: Compositional matrix adjust. Identities = 205/453 (45%), Positives = 291/453 (64%), Gaps = 15/453 (3%) Query: 7 KLLVANRGEIAVRIIRAAQALGIPTVAACSEADQDSLAARMADEVQIIGPARADRSYLNG 66 K+L+ANRGEIA R+ A+ LGI TVA S+AD + DE +GPA A SYL Sbjct: 4 KILIANRGEIACRVAATARRLGIATVAVYSDADARAKHVAACDESVRLGPAPARESYLCA 63 Query: 67 EALLHAAKASGANAIHPGYGFLSENADFAEAVTAAGLIFVGPQAETIRRMGDKAEARRTA 126 E ++ AA A+GA AIHPGYGFLSENA FA+A AGL+F+GP A I MG KA A+ Sbjct: 64 EKIIAAALATGAQAIHPGYGFLSENAGFAQACAQAGLVFIGPPASAIEAMGSKAAAKALM 123 Query: 127 AAAGVPVVPGSPGELEDLPSALACAEQIGYPLLIKASAGGGGRGIRIAHDAAELAREFPV 186 A VP+VPG GE ++ + A++IGYP+L+KASAGGGG+G+R+ + + Sbjct: 124 EQAAVPLVPGYHGEEQESGLLHSQADRIGYPVLLKASAGGGGKGMRVVERSEDFDAALAS 183 Query: 187 AQGEAKAAFGSGAVYLERFIGQARHIEVQILGDGQ-RAVHLFERECSLQRRRQKVFEEAP 245 + EA A+FG V +E+++ + RHIE+Q+ DG V+LFER+CS+QRR QKV EEAP Sbjct: 184 CKREAIASFGDDRVLVEKYLTRPRHIEIQVFADGHGHCVYLFERDCSVQRRHQKVLEEAP 243 Query: 246 SPALTPAQRSALCDSAVRLAEGLRYRGAGTLEYLFDAHSGEFFFIEMNTRIQVEHPVTEM 305 +P ++ +R+A+ ++AV A + Y GAGT+E++ + G F+F+EMNTR+QVEHPVTEM Sbjct: 244 APGMSEERRAAMGEAAVAAARAVGYVGAGTVEFIAN-QDGSFYFMEMNTRLQVEHPVTEM 302 Query: 306 ITGIDLVQAMLRIAGGEPLPWQQSEIQMEGAALEMRINAEDPARNFFPCPGTVAELRW-- 363 ITG+DLV+ LR+A G+ LP +Q ++++ G A+E RI AE+P + F P GT+ +R Sbjct: 303 ITGLDLVEWQLRVAAGQALPLKQEQLRIHGHAIEARIYAENPEKGFLPAIGTLTRMRSAA 362 Query: 364 ----------PQGPG-IRVESHLYPGYRVPPYYDSLLAKLVVHGADRAQAIARAQAALAA 412 P P +R+++ + G + P+YD ++AKL+V G DR A+ Q ALA Sbjct: 363 AVEFRLGQSAPGDPAHVRIDAGVREGDAISPFYDPMIAKLIVWGPDRDAALRNMQRALAQ 422 Query: 413 TQLTGMATTLPLHQWLLADERVRHARFDTGALE 445 Q+ G+AT + Q L+A + A DTG +E Sbjct: 423 YQVVGLATNIAFLQRLVAGQAFSTAALDTGLIE 455 >gi|300313753|ref|YP_003777845.1| urea amidolyase [Herbaspirillum seropedicae SmR1] Length = 1207 Score = 313 bits (803), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 175/391 (44%), Positives = 254/391 (64%), Gaps = 6/391 (1%) Query: 8 LLVANRGEIAVRIIRAAQALGIPTVAACSEADQDSLAARMADEVQIIGPARADRSYLNGE 67 LL+ANRG IA RI+R + L + V SEAD SL AD +G A ++YL + Sbjct: 5 LLIANRGAIACRILRTLRTLDVTGVCVYSEADLGSLHVLQADRAISLGEGPAAQTYLAVD 64 Query: 68 ALLHAAKASGANAIHPGYGFLSENADFAEAVTAAGLIFVGPQAETIRRMGDKAEARRTAA 127 +L AA+ SGA AIHPGYGFLSENA FAEA AAG+ FVGP +R G K AR A Sbjct: 65 KILAAARDSGAQAIHPGYGFLSENAAFAEACEAAGIAFVGPTPAQLRIFGLKHTARALAR 124 Query: 128 AAGVPVVPGSPGELEDLPSALACAEQIGYPLLIKASAGGGGRGIRIAHDAAELAREFPVA 187 GVP++ G+ LE + ALA A ++GYP+++K++AGGGG G+R+ AELA F Sbjct: 125 EQGVPMLEGT-DLLESIDDALAAASRVGYPVMLKSTAGGGGIGMRVCRSDAELADAFDSV 183 Query: 188 QGEAKAAFGSGAVYLERFIGQARHIEVQILGDGQ-RAVHLFERECSLQRRRQKVFEEAPS 246 + + F V++E++I +ARH+EVQ+ GDG+ + L R+CS+QRR QKV EE P+ Sbjct: 184 RRLGQNNFSDAGVFIEKYIERARHLEVQVFGDGRGEVIALGVRDCSVQRRNQKVLEETPA 243 Query: 247 PALTPAQRSALCDSAVRLAEGLRYRGAGTLEYLFDAHSGEFFFIEMNTRIQVEHPVTEMI 306 P L ALC +A++LA+ + YR AGT+E+++D+ +G+F+F+E+NTR+QVEH VTE + Sbjct: 244 PNLPDGMAEALCAAAIKLAKAVNYRSAGTVEFVYDSLAGQFYFLEVNTRLQVEHGVTEQV 303 Query: 307 TGIDLVQAMLRIAGGE--PLPWQQSEIQMEGAALEMRINAEDPARNFFPCPGTVAELRWP 364 G+DLV+ M+ +A G+ PL + +Q G A++ R+ AEDP R F PCPG + + +P Sbjct: 304 WGVDLVRWMIELAAGDLPPLAQLAAGLQPRGHAIQARLYAEDPGRQFQPCPGLLTAVDFP 363 Query: 365 --QGPGIRVESHLYPGYRVPPYYDSLLAKLV 393 G +R+++ + G + PY+D ++AKL+ Sbjct: 364 PVDGQALRIDTWVEAGCEIAPYFDPMIAKLI 394 >gi|300310711|ref|YP_003774803.1| carbamoyl-phosphate synthase large subunit [Herbaspirillum seropedicae SmR1] Length = 1077 Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 62/247 (25%), Positives = 96/247 (38%), Gaps = 36/247 (14%) Query: 100 AAGLIFVGPQAETIRRMGDKAEARRTAAAAGVPVVPGSPGELEDLPSALACAEQIGYPLL 159 A G+ VG + I D+ ++ G+ P E AL A++IGYPL+ Sbjct: 651 ANGVPIVGTSPDMIDAAEDRERFQKLLQDLGLRQPPNRTARTE--ADALQLAQEIGYPLV 708 Query: 160 IKASAGGGGRGIRIAHDAAELAREFPVAQGEAKAAFGSGAVYLERFIGQARHIEVQILGD 219 ++ S GGR + I H+ +L R EA V L+RF+ A ++V L D Sbjct: 709 VRPSYVLGGRAMEIVHEQRDLERYMR----EAVKVSHDSPVLLDRFLNDAIEVDVDCLSD 764 Query: 220 GQRA-------------VHLFERECSLQRRRQKVFEEAPSPALTPAQRSALCDSAVRLAE 266 G+R VH + CSL P +L+ L +A+ Sbjct: 765 GERTFIGGVMEHIEQAGVHSGDSACSL-----------PPYSLSKDTIEELKRQTALMAK 813 Query: 267 GLRYRGAGTLEYLF-----DAHSGE-FFFIEMNTRIQVEHPVTEMITGIDLVQAMLRIAG 320 GL G +++ D + + F +E+N R P TG+ L + R Sbjct: 814 GLNVVGLMNVQFAIQQSEVDGKTVDTVFVLEVNPRASRTVPFVSKATGLQLAKIAARCMV 873 Query: 321 GEPLPWQ 327 G+ L Q Sbjct: 874 GQSLDSQ 880 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 0.134 0.389 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: 1,336,533 Number of extensions: 53205 Number of successful extensions: 242 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 230 Number of HSP's successfully gapped: 5 Length of query: 462 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 373 Effective length of database: 1,198,455 Effective search space: 447023715 Effective search space used: 447023715 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 (21.8 bits) S2: 132 (55.5 bits)