Align glutamate N-acetyltransferase/amino-acid acetyltransferase; EC 2.3.1.35 2.3.1.1 (characterized)
to candidate WP_086508388.1 BZY95_RS02285 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ
Query= CharProtDB::CH_000559 (406 letters) >NCBI__GCF_002151265.1:WP_086508388.1 Length = 409 Score = 389 bits (999), Expect = e-113 Identities = 218/416 (52%), Positives = 274/416 (65%), Gaps = 17/416 (4%) Query: 1 MAVNLTEKTAEQLPDIDGIALYTAQAGVKKPGHTDLTLIAVAAGSTVGAVFTTNRFCAAP 60 MAV T A +P I+G+ L +A AG+KKPG DL +I + AG+ V FT N FCAAP Sbjct: 1 MAVGETRFPA--MPVIEGLRLGSAMAGIKKPGRRDLVVIEIPAGARVAGSFTLNAFCAAP 58 Query: 61 VHIAKSHLFD----EDGVRALVINTGNANAGTGAQGRIDALAVCAAAARQIGCKPNQVMP 116 V +AK HL + +G R LVINTGNANAGTG G DA A CA AR G + V+P Sbjct: 59 VTVAKQHLAECHGRGEGARLLVINTGNANAGTGETGLRDARATCAELARLAGVPADSVLP 118 Query: 117 FSTGVILEPLPADKIIAALPKM------QPAFWNEAARAIMTTDTVPKAASREGKVGDQH 170 FSTGVI EPLP ++++A LP+ A W +A I+TTDT PK AS ++G+ H Sbjct: 119 FSTGVIGEPLPMERLLAGLPQALETLSGDSAAWQQAGEGILTTDTRPKGASVTLEMGE-H 177 Query: 171 TVRATGIAKGSGMIHPNMATMLGFIATDAKVSQPVLQLMTQEIADETFNTITVDGDTSTN 230 TV GI+KGSGMI PNMATML F+ATDA + Q +L + +E D +FN I+VDGDTSTN Sbjct: 178 TVTINGISKGSGMIKPNMATMLAFVATDANIEQALLDALLRETVDRSFNCISVDGDTSTN 237 Query: 231 DSFVIIATGKNSQSEIDNIADPRYAQLKELLCSLALELAQAIVRDGEGATKFITVRVENA 290 D+ ++IATG+ +D + A + L + ELAQAIVRDGEGATKF+T++V+ A Sbjct: 238 DACMLIATGRGPTVA----SDEQVAIFRNGLQRVMTELAQAIVRDGEGATKFVTLQVQEA 293 Query: 291 KTCDEARQAAYAAARSPLVKTAFFASDPNLGKRLAAIGYADVADLDTDLVEMYLDDILVA 350 T +EA A+ A SPLVKTA FASD N G+ LAA+G A + D D V + L D+ + Sbjct: 294 ATREEALDVAFTVAHSPLVKTALFASDANWGRILAAVGRAPLHDFDVGRVTIDLGDVRLV 353 Query: 351 EHGGRAASYTEAQGQAVMSKDEITVRIKLHRGQAAATVYTCDLSHGYVSINADYRS 406 E GGRAASYTE G VM ++EI +RI L RG+ ATV+T DLSH YVSINADYRS Sbjct: 354 EQGGRAASYTEEDGSRVMREEEIVIRIALGRGEEGATVWTTDLSHDYVSINADYRS 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: 406 Number of extensions: 16 Number of successful extensions: 5 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 Apr 10 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