Align glutamate N-acetyltransferase/amino-acid acetyltransferase; EC 2.3.1.35 2.3.1.1 (characterized)
to candidate WP_085634949.1 MGEO_RS01660 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ
Query= CharProtDB::CH_000559 (406 letters) >NCBI__GCF_002115805.1:WP_085634949.1 Length = 409 Score = 280 bits (715), Expect = 7e-80 Identities = 173/408 (42%), Positives = 239/408 (58%), Gaps = 14/408 (3%) Query: 5 LTEKTAEQLPDIDGIALYTAQAGVKKPGHTDLTLIAVAAGSTVGAVFTTNRFCAAPVHIA 64 L K +LP I G+ TA AGVK G TD+ L + GS V FT + +A V Sbjct: 10 LAPKNFPELPVIKGVRFATAAAGVKYSGRTDVMLAVLDPGSRVAGAFTKSATRSANVLDC 69 Query: 65 KSHL-FDEDGVRALVINTGNANAGTGAQGRIDALAVCAAAARQIGCKPNQVMPFSTGVIL 123 +S + +D A+++N+GN+NA TG G A+CA AR N+V STGVI Sbjct: 70 QSKIRLTDDRGAAIIVNSGNSNAFTGRAGDESVQAICAEVARVTDLPANRVFTSSTGVIG 129 Query: 124 EPLPADKIIAALPKM----QPAFWNEAARAIMTTDTVPKAASREGKV-GDQHTVRATGIA 178 E LP D+I A + ++ A AA+AIMTTDT PK ++ + G + T+ GIA Sbjct: 130 ERLPHDRIAAKVEELYGNLDEAGLPNAAKAIMTTDTFPKGSTTSVDLPGGKVTI--AGIA 187 Query: 179 KGSGMIHPNMATMLGFIATDAKVSQPVLQLMTQEIADETFNTITVDGDTSTNDSFVIIAT 238 KGSGMI P+MATML +I TDAK++Q LQ + EI ++TFN+ITVD DTST+D+ ++ AT Sbjct: 188 KGSGMIAPDMATMLVYIFTDAKIAQSDLQALVSEINEKTFNSITVDSDTSTSDTLLVAAT 247 Query: 239 GKNSQSEIDNIADPRYAQLKELLCSLALELAQAIVRDGEGATKFITVRVENAKTCDEARQ 298 G + S + ++ L + +LA +VRDGEGATKF+ + V A +A+ Sbjct: 248 GASGVS-----VTAKDTAFRDGLHHVMQDLAHQVVRDGEGATKFLQITVTGALNDADAKT 302 Query: 299 AAYAAARSPLVKTAFFASDPNLGKRLAAIGYADVADLDTDLVEMYLDDILVAEHGGRAAS 358 A + A SPLVKTA DPN G+ + AIG + A D D + + D+ VA +G Sbjct: 303 HAMSIANSPLVKTAIAGEDPNWGRVVMAIGKSG-APADRDTLSISFGDVKVATNGWVDPD 361 Query: 359 YTEAQGQAVMSKDEITVRIKLHRGQAAATVYTCDLSHGYVSINADYRS 406 Y E QG A+M ++ I++ + L G ATV+TCDL+HGY+SINADYRS Sbjct: 362 YREEQGAAIMKQENISMTVDLGMGSGEATVWTCDLTHGYISINADYRS 409 Lambda K H 0.317 0.130 0.367 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: 385 Number of extensions: 21 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: 406 Length of database: 409 Length adjustment: 31 Effective length of query: 375 Effective length of database: 378 Effective search space: 141750 Effective search space used: 141750 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 Jul 26 2024. The underlying query database was built on Jul 25 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