SitesBLAST
Comparing WP_028311383.1 NCBI__GCF_000482785.1:WP_028311383.1 to proteins with known functional sites using BLASTp with E ≤ 0.001.
Or try Sites on a Tree, PaperBLAST, Conserved Domains, or compare to all protein structures
Found 20 (the maximum) hits to proteins with known functional sites (download)
6a2fA Crystal structure of biosynthetic alanine racemase from pseudomonas aeruginosa (see paper)
48% identity, 98% coverage: 3:353/360 of query aligns to 2:355/358 of 6a2fA
- active site: K34 (= K35), R130 (= R130), H159 (= H159), R209 (= R207), Y254 (= Y252), S301 (= S299), D303 (= D301)
- binding acetate ion: Y254 (= Y252), R279 (= R277), L340 (≠ I338), Y342 (= Y340)
- binding d-lysine: Y254 (= Y252), Y273 (= Y271), S301 (= S299), M302 (= M300), D303 (= D301), M304 (= M302)
- binding malonate ion: K123 (= K123), R130 (= R130), L131 (= L131)
1rcqA The 1.45 a crystal structure of alanine racemase from a pathogenic bacterium, pseudomonas aeruginosa, contains both internal and external aldimine forms (see paper)
47% identity, 97% coverage: 3:350/360 of query aligns to 2:353/357 of 1rcqA
- active site: K33 (= K35), R129 (= R130), H158 (= H159), R208 (= R207), Y253 (= Y252), S300 (= S299), D302 (= D301)
- binding d-lysine: K33 (= K35), R129 (= R130), Y341 (= Y340)
- binding pyridoxal-5'-phosphate: V31 (= V33), K33 (= K35), Y37 (= Y39), H158 (= H159), N192 (= N191), S193 (= S192), R208 (= R207), G210 (= G209), I211 (= I210), Y341 (= Y340)
Q9HTQ2 Alanine racemase, catabolic; EC 5.1.1.1 from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
46% identity, 97% coverage: 3:350/360 of query aligns to 2:353/357 of Q9HTQ2
- K33 (= K35) modified: N6-(pyridoxal phosphate)lysine
- K122 (= K123) modified: N6-carboxylysine
2rjhA Crystal structure of biosynthetic alaine racemase in d-cycloserine- bound form from escherichia coli (see paper)
44% identity, 95% coverage: 9:350/360 of query aligns to 8:353/359 of 2rjhA
- active site: K34 (= K35), R129 (= R130), H159 (= H159), R209 (= R207), Y255 (= Y252), A302 (≠ S299), D304 (= D301)
- binding d-[3-hydroxy-2-methyl-5-phosphonooxymethyl-pyridin-4-ylmethyl]-n,o-cycloserylamide: K34 (= K35), Y38 (= Y39), R129 (= R130), H159 (= H159), A193 (≠ N191), S194 (= S192), R209 (= R207), G211 (= G209), I212 (= I210), Y255 (= Y252), A302 (≠ S299), M303 (= M300), Y343 (= Y340)
P0A6B4 Alanine racemase, biosynthetic; EC 5.1.1.1 from Escherichia coli (strain K12) (see paper)
44% identity, 95% coverage: 9:350/360 of query aligns to 8:353/359 of P0A6B4
- K34 (= K35) modified: N6-(pyridoxal phosphate)lysine
- K122 (= K123) modified: N6-carboxylysine
- D164 (= D164) mutation to A: Slightly reduces affinity for D-Ala and L-Ala.; mutation to K: Reduces catalytic activity. Slightly reduces affinity for D-Ala and L-Ala.
- E165 (≠ L165) mutation to A: Slightly reduces affinity for D-Ala and L-Ala.; mutation to K: Reduces catalytic activity. Slightly reduces affinity for D-Ala and L-Ala.
- P219 (= P217) mutation to A: No effect on catalytic activity. No effect on affinity for D-Ala and L-Ala.
- E221 (≠ G219) mutation E->A,K,P: Slightly increases catalytic activity. Slightly increases affinity for D-Ala and L-Ala.
4xbjA Y274f alanine racemase from e. Coli inhibited by l-ala-p (see paper)
44% identity, 95% coverage: 9:350/360 of query aligns to 6:351/357 of 4xbjA
- active site: K32 (= K35), R127 (= R130), H157 (= H159), R207 (= R207), Y253 (= Y252), A300 (≠ S299), D302 (= D301)
- binding {1-[(3-hydroxy-methyl-5-phosphonooxy-methyl-pyridin-4-ylmethyl)-amino]-ethyl}-phosphonic acid: V30 (= V33), K32 (= K35), Y36 (= Y39), R127 (= R130), H157 (= H159), A191 (≠ N191), S192 (= S192), R207 (= R207), G209 (= G209), I210 (= I210), Y253 (= Y252), A300 (≠ S299), M301 (= M300), Y341 (= Y340)
3b8tA Crystal structure of escherichia coli alaine racemase mutant p219a (see paper)
44% identity, 95% coverage: 9:350/360 of query aligns to 8:353/359 of 3b8tA
- active site: K34 (= K35), R129 (= R130), H159 (= H159), R209 (= R207), Y255 (= Y252), A302 (≠ S299), D304 (= D301)
- binding pyridoxal-5'-phosphate: V32 (= V33), K34 (= K35), Y38 (= Y39), L78 (= L79), H159 (= H159), A193 (≠ N191), S194 (= S192), R209 (= R207), G211 (= G209), I212 (= I210), Y343 (= Y340)
3e5pB Crystal structure of alanine racemase from e.Faecalis (see paper)
34% identity, 98% coverage: 3:353/360 of query aligns to 7:369/371 of 3e5pB
- active site: K40 (= K35), R139 (= R130), H169 (= H159), R222 (= R207), Y267 (= Y252), C313 (≠ S299), D315 (= D301)
- binding pyridoxal-5'-phosphate: K40 (= K35), Y44 (= Y39), R139 (= R130), H169 (= H159), S207 (= S192), G224 (= G209), V225 (≠ I210), Y356 (= Y340)
3e6eA Crystal structure of alanine racemase from e.Faecalis complex with cycloserine (see paper)
34% identity, 98% coverage: 3:353/360 of query aligns to 6:368/370 of 3e6eA
- active site: K39 (= K35), R138 (= R130), H168 (= H159), R221 (= R207), Y266 (= Y252), C312 (≠ S299), D314 (= D301)
- binding d-[3-hydroxy-2-methyl-5-phosphonooxymethyl-pyridin-4-ylmethyl]-n,o-cycloserylamide: K39 (= K35), Y43 (= Y39), L85 (= L79), R138 (= R130), H168 (= H159), S206 (= S192), R221 (= R207), G223 (= G209), V224 (≠ I210), Y266 (= Y252), Y285 (= Y271), M313 (= M300), Y355 (= Y340)
5yycA Crystal structure of alanine racemase from bacillus pseudofirmus (of4) (see paper)
32% identity, 97% coverage: 3:352/360 of query aligns to 7:364/368 of 5yycA
- active site: K41 (= K35), R139 (= R130), H169 (= H159), R225 (= R207), Y269 (= Y252), C316 (≠ S299), D318 (= D301)
- binding pyridoxal-5'-phosphate: K41 (= K35), Y45 (= Y39), R139 (= R130), H169 (= H159), N209 (= N191), S210 (= S192), R225 (= R207), G227 (= G209), I228 (= I210), Y352 (= Y340)
4y2wA Crystal structure of a thermostable alanine racemase from thermoanaerobacter tengcongensis mb4 (see paper)
28% identity, 97% coverage: 3:352/360 of query aligns to 7:372/388 of 4y2wA
- active site: K40 (= K35), R138 (= R130), H168 (= H159), R224 (= R207), Y268 (= Y252), C315 (≠ S299), D317 (= D301)
- binding alanine: Y268 (= Y252), Y287 (= Y271), C315 (≠ S299), M316 (= M300)
- binding phosphate ion: N208 (= N191), A209 (≠ S192), I227 (= I210)
P0A2W8 Alanine racemase; EC 5.1.1.1 from Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) (see paper)
32% identity, 98% coverage: 3:353/360 of query aligns to 7:365/367 of P0A2W8
- K129 (= K123) modified: N6-carboxylysine
6g58A Structure of the alanine racemase from staphylococcus aureus in complex with a pyridoxal 5' phosphate-derivative (see paper)
31% identity, 97% coverage: 3:352/360 of query aligns to 7:366/382 of 6g58A
- active site: K39 (= K35), R138 (= R130), H168 (= H159), R219 (= R207), Y265 (= Y252), C311 (≠ S299), D313 (= D301)
- binding (6-but-3-ynyl-4-methyl-5-oxidanyl-pyridin-3-yl)methyl dihydrogen phosphate: K39 (= K35), Y43 (= Y39), L85 (= L79), K131 (= K123), R138 (= R130), H168 (= H159), S204 (= S192), R219 (= R207), G221 (= G209), I222 (= I210), Y354 (= Y340)
6g59A Structure of the alanine racemase from staphylococcus aureus in complex with an pyridoxal-6- phosphate derivative (see paper)
31% identity, 97% coverage: 3:352/360 of query aligns to 12:371/387 of 6g59A
- active site: K44 (= K35), R143 (= R130), H173 (= H159), R224 (= R207), Y270 (= Y252), C316 (≠ S299), D318 (= D301)
- binding (6-ethynyl-4-methanoyl-5-oxidanyl-pyridin-3-yl)methyl dihydrogen phosphate: K44 (= K35), Y48 (= Y39), L90 (= L79), H173 (= H159), S209 (= S192), R224 (= R207), G226 (= G209), I227 (= I210), Y359 (= Y340)
7xllA Alanine racemase from lactobacillus sakei uonuma-1. (see paper)
31% identity, 97% coverage: 3:352/360 of query aligns to 7:372/378 of 7xllA
Sites not aligning to the query:
1bd0A Alanine racemase complexed with alanine phosphonate (see paper)
33% identity, 97% coverage: 3:352/360 of query aligns to 5:365/381 of 1bd0A
- active site: K38 (= K35), R135 (= R130), H165 (= H159), R218 (= R207), Y264 (= Y252), C310 (≠ S299), D312 (= D301)
- binding {1-[(3-hydroxy-methyl-5-phosphonooxy-methyl-pyridin-4-ylmethyl)-amino]-ethyl}-phosphonic acid: K38 (= K35), Y42 (= Y39), R135 (= R130), H165 (= H159), N202 (= N191), S203 (= S192), R218 (= R207), G220 (= G209), I221 (= I210), Y264 (= Y252), C310 (≠ S299), M311 (= M300), Y353 (= Y340)
P10724 Alanine racemase; EC 5.1.1.1 from Geobacillus stearothermophilus (Bacillus stearothermophilus) (see 8 papers)
33% identity, 97% coverage: 3:352/360 of query aligns to 6:366/388 of P10724
- K39 (= K35) modified: N6-(pyridoxal phosphate)lysine; mutation to A: Loss of activity.
- K129 (= K123) modified: N6-carboxylysine
- R136 (= R130) binding substrate
- H166 (= H159) mutation to A: 6.5-fold decrease in activity.
- R219 (= R207) mutation to A: 100-fold decrease in activity.; mutation to E: 1000-fold decrease in activity.; mutation to K: 4-fold decrease in activity.
- Y265 (= Y252) mutation to A: 5000-fold decrease in activity.; mutation to F: Loss of activity.; mutation to S: 2000-fold decrease in activity.
- M312 (= M300) binding substrate
- Y354 (= Y340) mutation to A: 54-fold increase in serine racemase activity.; mutation to N: 81-fold increase in serine racemase activity.; mutation to Q: 51-fold increase in serine racemase activity.
1sftA Alanine racemase (see paper)
33% identity, 97% coverage: 3:352/360 of query aligns to 5:365/382 of 1sftA
- active site: K38 (= K35), R135 (= R130), H165 (= H159), R218 (= R207), Y264 (= Y252), C310 (≠ S299), D312 (= D301)
- binding pyridoxal-5'-phosphate: K38 (= K35), Y42 (= Y39), L84 (= L79), R135 (= R130), H165 (= H159), S203 (= S192), R218 (= R207), G220 (= G209), I221 (= I210), Y353 (= Y340)
1ftxA Crystal structure of alanine racemase in complex with d-alanine phosphonate
33% identity, 97% coverage: 3:352/360 of query aligns to 5:365/380 of 1ftxA
- active site: K38 (= K35), R135 (= R130), H165 (= H159), R218 (= R207), Y264 (= Y252), C310 (≠ S299), D312 (= D301)
- binding (1s)-1-[((1e)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylene)amino]ethylphosphonic acid: K38 (= K35), Y42 (= Y39), R135 (= R130), H165 (= H159), N202 (= N191), S203 (= S192), R218 (= R207), G220 (= G209), I221 (= I210), Y264 (= Y252), C310 (≠ S299), M311 (= M300), Y353 (= Y340)
1l6gA Alanine racemase bound with n-(5'-phosphopyridoxyl)-d-alanine (see paper)
33% identity, 97% coverage: 3:352/360 of query aligns to 5:365/382 of 1l6gA
- active site: K38 (= K35), R135 (= R130), H165 (= H159), R218 (= R207), Y264 (= Y252), C310 (≠ S299), D312 (= D301)
- binding n-(5'-phosphopyridoxyl)-d-alanine: K38 (= K35), Y42 (= Y39), R135 (= R130), H165 (= H159), S203 (= S192), R218 (= R207), G220 (= G209), I221 (= I210), Y264 (= Y252), C310 (≠ S299), M311 (= M300), Y353 (= Y340)
Query Sequence
>WP_028311383.1 NCBI__GCF_000482785.1:WP_028311383.1
MPRPILASLDPSAVAHNLSRVRECAPRSRVWAVVKADAYGHGIEAVYPALASADGFALLE
IGEAARIRALGWTGPILLLEGFFDAADLEAVLELKLTPVLHDDAQIDMLLGMRPSAPVDV
FVKFNTGMNRLGYTDGRGRKAVERLRAASEVGTVGLMMHFPEADLPDGVAGPLGRFEAET
AGLPGPRSMANSASVLLHPATHADWVRPGILLYGGSPTGDRDGPAFDLKPAMELTSELIA
VQQLAPGEAAGYGQRFVAQRPTRVGVVACGYADGYPRHAPDGTPVMVAGRRCALAGRVSM
DMLTVDITDAPEAGIGSRVELFGRHLAVDEVARHCGTIGYELMCAVAPRVKRRVGFGEAG
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SitesBLAST's Database
SitesBLAST's database includes
(1) SwissProt
entries with experimentally-supported functional features;
and (2) protein structures with bound ligands, from the
BioLip database.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory