Align Acetylornithine aminotransferase; ACOAT; EC 2.6.1.11 (uncharacterized)
to candidate H281DRAFT_02621 H281DRAFT_02621 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase
Query= curated2:Q8TUZ5 (389 letters) >FitnessBrowser__Burk376:H281DRAFT_02621 Length = 447 Score = 219 bits (558), Expect = 1e-61 Identities = 147/432 (34%), Positives = 219/432 (50%), Gaps = 57/432 (13%) Query: 10 YHMNTYSRFPVTLVPGEGARVWDDEGNEYIDLVAGIAVNVLGHCHPAVVEAVKEQVERLI 69 +H + P+ V G+G + D G YID G AV+ LGH HP V+EA++ QV++L Sbjct: 5 FHRAPRASLPIA-VRGDGIEIVDSTGTRYIDACGGAAVSCLGHSHPRVIEAIQRQVQQLP 63 Query: 70 HCSNLYYNEPQAEA-ARLLAEAAPKDLNKVFFCNSGTESVECAIKLARKF------TGCT 122 + ++ AEA A LL EAAP++L V+F + G+E++E A+KLAR++ Sbjct: 64 YAHTSFFTTEPAEALADLLIEAAPRNLGHVYFVSGGSEAMEAALKLARQYFVEKGQPERR 123 Query: 123 KFIAFEGGFHGRTMGALSATWKPEFREPFEPLVPEFEHVP----YGDVNAVE-------- 170 FIA +HG T+GAL+ REPF P++ E HV Y + A E Sbjct: 124 HFIARRQSYHGNTLGALAIGGNAWRREPFLPILIEAHHVTPCFAYREQQAGETDEAFAQR 183 Query: 171 -------KAID---DDTAAVIVEPVQGEAGVRIPP-EGFLRELRELCDEHGLLLIVDEVQ 219 K ++ AA + E V G +PP + R++R +CD++G+LLI+DEV Sbjct: 184 LADELEAKILELGAQSVAAFVAETVVGATAGAVPPVREYFRKIRAVCDKYGVLLILDEVM 243 Query: 220 SGMGRTGQFFAFEHEDVLPDIVCLAKGLGGGV-PVGATIAREEVAEAFEPG----DHGST 274 SGMGRTG FA E + V PDI+ +AKGLG G P+GAT+ E+ G HG T Sbjct: 244 SGMGRTGHLFACEEDGVSPDILAIAKGLGAGYQPIGATLVSNEIFNTIVGGSGFFQHGHT 303 Query: 275 FGGNPLACAAVCAAVSTVLEENLPEAAERKGKLAMRILSEAE---DVVEEVRGRGLMMGV 331 + G+ ACAA + EE L + + +G+ L E + + +VRGRGL GV Sbjct: 304 YIGHATACAAALEVQKVIAEEQLLDNVKARGEQLRARLREWQANHPFIGDVRGRGLFTGV 363 Query: 332 EVGDDERAKD-----------VAREMLDRGAL-------VNVTSGDVIRLVPPLVIGEDE 373 E+ D +K + E + RG + V+ GD + + PP + + Sbjct: 364 ELVQDRASKTAFDPKHKLHAIIKSEAMKRGLMVYPMGGTVDGRIGDHVLIAPPFITTSAQ 423 Query: 374 LEKALAELADAL 385 ++ + LADA+ Sbjct: 424 IDTIVERLADAI 435 Lambda K H 0.318 0.137 0.405 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 1 Number of Hits to DB: 414 Number of extensions: 24 Number of successful extensions: 6 Number of sequences better than 1.0e-02: 1 Number of HSP's gapped: 1 Number of HSP's successfully gapped: 1 Length of query: 389 Length of database: 447 Length adjustment: 31 Effective length of query: 358 Effective length of database: 416 Effective search space: 148928 Effective search space used: 148928 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: 50 (23.9 bits)
This GapMind analysis is from Apr 09 2024. The underlying query database was built on Apr 09 2024.
Each pathway is defined by a set of rules based on individual steps or genes. Candidates for each step are identified by using ublast (a fast alternative to protein BLAST) against a database of manually-curated proteins (most of which are experimentally characterized) or by using HMMer with enzyme models (usually from TIGRFam). Ublast hits may be split across two different proteins.
A candidate for a step is "high confidence" if either:
Otherwise, a candidate is "medium confidence" if either:
Other blast hits with at least 50% coverage are "low confidence."
Steps with no high- or medium-confidence candidates may be considered "gaps." For the typical bacterium that can make all 20 amino acids, there are 1-2 gaps in amino acid biosynthesis pathways. For diverse bacteria and archaea that can utilize a carbon source, there is a complete high-confidence catabolic pathway (including a transporter) just 38% of the time, and there is a complete medium-confidence pathway 63% of the time. Gaps may be due to:
GapMind relies on the predicted proteins in the genome and does not search the six-frame translation. In most cases, you can search the six-frame translation by clicking on links to Curated BLAST for each step definition (in the per-step page).
For more information, see:
If you notice any errors or omissions in the step descriptions, or any questionable results, please let us know
by Morgan Price, Arkin group, Lawrence Berkeley National Laboratory