SitesBLAST
Comparing WP_012965319.1 NCBI__GCF_000025505.1:WP_012965319.1 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 20 (the maximum) hits to proteins with known functional sites (download)
1twiA Crystal structure of diaminopimelate decarboxylase from m. Jannaschii in co-complex with l-lysine (see paper)
46% identity, 100% coverage: 3:419/419 of query aligns to 8:434/434 of 1twiA
- active site: K69 (= K56), H210 (= H194), E290 (= E274)
- binding lysine: S213 (= S197), R293 (= R277), R329 (= R312), Y333 (= Y316), Y387 (= Y372)
- binding pyridoxal-5'-phosphate: A67 (= A54), K69 (= K56), D88 (= D75), N111 (= N98), H210 (= H194), S213 (= S197), G250 (= G234), E290 (= E274), G292 (= G276), R293 (= R277), Y387 (= Y372)
Q58497 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii) (see paper)
46% identity, 100% coverage: 3:419/419 of query aligns to 12:438/438 of Q58497
- K73 (= K56) modified: N6-(pyridoxal phosphate)lysine
- S217 (= S197) binding pyridoxal 5'-phosphate
- G254 (= G234) binding pyridoxal 5'-phosphate
- EPGR 294:297 (= EPGR 274:277) binding pyridoxal 5'-phosphate
- Y391 (= Y372) binding pyridoxal 5'-phosphate
1tufA Crystal structure of diaminopimelate decarboxylase from m. Jannaschi (see paper)
46% identity, 100% coverage: 3:419/419 of query aligns to 8:434/434 of 1tufA
4xg1B Psychromonas ingrahamii diaminopimelate decarboxylase with llp
41% identity, 98% coverage: 6:414/419 of query aligns to 8:415/418 of 4xg1B
- active site: K60 (= K56), H199 (= H194), E273 (= E274)
- binding (2S)-2-amino-6-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid: K60 (= K56), D79 (= D75), H199 (= H194), S202 (= S197), G239 (= G234), E273 (= E274), G275 (= G276), R276 (= R277), R310 (= R312), Y314 (= Y316), C345 (= C343), E346 (= E344), Y373 (= Y372)
- binding propane: A35 (= A33), E38 (≠ K36), E206 (= E201), I207 (= I202), A208 (≠ S203)
B4XMC6 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Helicobacter pylori (Campylobacter pylori) (see paper)
40% identity, 93% coverage: 18:408/419 of query aligns to 6:394/405 of B4XMC6
- K46 (= K56) modified: N6-(pyridoxal phosphate)lysine
- I148 (= I157) mutation to A: Nearly no change in substrate affinity and 47-fold decrease in catalytic activity.; mutation to D: 2-fold decrease in substrate affinity and 235-fold decrease in catalytic activity.; mutation to F: 4-fold increase in substrate affinity and 23-fold decrease in catalytic activity.; mutation to G: Nearly no change in substrate affinity and 235-fold decrease in catalytic activity.; mutation to K: Nearly no change in substrate affinity and 55-fold decrease in catalytic activity.; mutation to L: 13-fold increase in substrate affinity and 40-fold decrease in catalytic activity.
- G225 (= G234) binding pyridoxal 5'-phosphate
- EPGR 259:262 (= EPGR 274:277) binding pyridoxal 5'-phosphate
- Y358 (= Y372) binding pyridoxal 5'-phosphate
2yxxA Crystal structure analysis of diaminopimelate decarboxylate (lysa)
42% identity, 93% coverage: 19:408/419 of query aligns to 6:379/385 of 2yxxA
- active site: K45 (= K56), H178 (= H194), E245 (= E274)
- binding pyridoxal-5'-phosphate: K45 (= K56), D64 (= D75), H178 (= H194), S181 (= S197), G213 (= G234), E245 (= E274), G247 (= G276), R248 (= R277), Y342 (= Y372)
Q9X1K5 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)
42% identity, 93% coverage: 19:408/419 of query aligns to 7:380/386 of Q9X1K5
- G214 (= G234) binding pyridoxal 5'-phosphate
- EIGR 246:249 (≠ EPGR 274:277) binding pyridoxal 5'-phosphate
- Y343 (= Y372) binding pyridoxal 5'-phosphate
6n2aA Meso-diaminopimelate decarboxylase from arabidopsis thaliana (isoform 1)
38% identity, 97% coverage: 3:407/419 of query aligns to 7:414/422 of 6n2aA
- binding lysine: K63 (= K56), R281 (= R277), R317 (= R312), Y321 (= Y316), C349 (= C343), E350 (= E344), Y378 (= Y372)
- binding pyridoxal-5'-phosphate: K63 (= K56), H202 (= H194), S205 (= S197), G242 (= G234), E278 (= E274), G280 (= G276), R281 (= R277), Y378 (= Y372)
3c5qA Crystal structure of diaminopimelate decarboxylase (i148l mutant) from helicobacter pylori complexed with l-lysine
39% identity, 93% coverage: 18:408/419 of query aligns to 4:386/394 of 3c5qA
- active site: K44 (= K56), H183 (= H194), E257 (= E274)
- binding lysine: L146 (≠ I157), R260 (= R277), R294 (= R312), Y298 (= Y316), Y351 (= Y372)
- binding pyridoxal-5'-phosphate: K44 (= K56), D63 (= D75), H183 (= H194), S186 (= S197), G223 (= G234), E257 (= E274), P258 (= P275), G259 (= G276), R260 (= R277), Y351 (= Y372)
4xg1A Psychromonas ingrahamii diaminopimelate decarboxylase with llp
38% identity, 97% coverage: 9:414/419 of query aligns to 9:390/393 of 4xg1A
- active site: K55 (= K56), H178 (= H194), E246 (= E274)
- binding (2S)-2-amino-6-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid: K55 (= K56), D74 (= D75), S97 (≠ N98), H178 (= H194), S181 (= S197), G216 (= G234), E246 (= E274), G248 (= G276), R249 (= R277), R285 (= R312), Y289 (= Y316), C320 (= C343), E321 (= E344), Y348 (= Y372)
- binding propane: S121 (= S121), I122 (≠ V122)
1hkvA Mycobacterium diaminopimelate dicarboxylase (lysa) (see paper)
31% identity, 96% coverage: 7:410/419 of query aligns to 21:442/446 of 1hkvA
- binding lysine: E375 (= E344), S376 (= S345)
- binding pyridoxal-5'-phosphate: A69 (= A54), K71 (= K56), R160 (= R144), H210 (= H192), H212 (= H194), G256 (= G233), G257 (= G234), E299 (= E274), G301 (= G276), R302 (= R277), Y404 (= Y372)
P9WIU7 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
31% identity, 96% coverage: 7:410/419 of query aligns to 22:443/447 of P9WIU7
- K72 (= K56) modified: N6-(pyridoxal phosphate)lysine
- C93 (≠ F77) modified: Interchain (with C-375)
- G258 (= G234) binding pyridoxal 5'-phosphate
- EPGR 300:303 (= EPGR 274:277) binding pyridoxal 5'-phosphate
- C375 (= C343) modified: Interchain (with C-72)
- Y405 (= Y372) binding pyridoxal 5'-phosphate
5x7mA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
31% identity, 97% coverage: 6:410/419 of query aligns to 22:440/443 of 5x7mA
5x7nA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
31% identity, 97% coverage: 6:410/419 of query aligns to 22:440/442 of 5x7nA
- binding lysine: K73 (= K56), R341 (= R312), Y345 (= Y316), Y402 (= Y372), M406 (= M376)
- binding pyridoxal-5'-phosphate: K73 (= K56), H115 (≠ N98), H214 (= H194), G254 (= G233), G255 (= G234), E297 (= E274), G299 (= G276), R300 (= R277), Y402 (= Y372)
P00861 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Escherichia coli (strain K12)
33% identity, 93% coverage: 15:405/419 of query aligns to 16:411/420 of P00861
- K54 (= K56) modified: N6-(pyridoxal phosphate)lysine
- G227 (= G234) binding pyridoxal 5'-phosphate
- EPGR 268:271 (= EPGR 274:277) binding pyridoxal 5'-phosphate
- Y378 (= Y372) binding pyridoxal 5'-phosphate
1ko0A Crystal structure of a d,l-lysine complex of diaminopimelate decarboxylase
33% identity, 93% coverage: 15:405/419 of query aligns to 15:410/419 of 1ko0A
- binding d-lysine: K53 (= K56), T156 (= T159), H190 (= H194), Y310 (= Y316), Y377 (= Y372)
- binding lysine: K53 (= K56), R270 (= R277), R306 (= R312), Y310 (= Y316), Y377 (= Y372)
- binding pyridoxal-5'-phosphate: A51 (= A54), K53 (= K56), H190 (= H194), G226 (= G234), E267 (= E274), P268 (= P275), G269 (= G276), R270 (= R277), Y377 (= Y372)
1knwA Crystal structure of diaminopimelate decarboxylase
33% identity, 93% coverage: 15:405/419 of query aligns to 15:410/421 of 1knwA
8d5rA Structure of y430f d-ornithine/d-lysine decarboxylase complex with d- ornithine (see paper)
30% identity, 97% coverage: 2:409/419 of query aligns to 23:452/461 of 8d5rA
- binding n~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-d-ornithine: A78 (= A54), K80 (= K56), H210 (= H194), D213 (≠ S197), G251 (= G234), E299 (= E274), G301 (= G276), R302 (= R277), Y414 (= Y372)
- binding 1,4-diaminobutane: Q350 (≠ A314), H351 (≠ M315), D353 (≠ G317)
8d4iA Structure of y430f d-ornithine/d-lysine decarboxylase complex with putrescine (see paper)
30% identity, 97% coverage: 2:409/419 of query aligns to 23:454/462 of 8d4iA
8d88A Structure of y430f d-ornithine/d-lysine decarboxylase complex with d- lysine (see paper)
30% identity, 97% coverage: 2:409/419 of query aligns to 23:454/461 of 8d88A
- binding pentane-1,5-diamine: Q352 (≠ A314), H353 (≠ M315), D355 (≠ G317)
- binding N~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-D-lysine: A78 (= A54), K80 (= K56), H212 (= H194), D215 (≠ S197), G253 (= G234), E301 (= E274), G303 (= G276), R304 (= R277), Y416 (= Y372)
Query Sequence
>WP_012965319.1 NCBI__GCF_000025505.1:WP_012965319.1
MFESRNGVLHVEELSVIDLVERFGTPLYVTSYAKLKENIEAYKKAFNWARVLYAVKANNN
LAIMKVIAKENFGADVFSQGELYLSLLAGFDKKFILFNGNSKSEEEIKAGIESGVKFSVD
SVDELYTISEIASEMGEEVEIAFRVNPDIDPKTHPKIATGLKKSKFGIPAEQVVETYRLA
LELPNVVPIGIHCHIGSQITEISPFVEAVNKIFDLAERVEELGIDLKFVDVGGGLGIDYE
GKGVPTPEDLANALKPVYEERKSRLDSNPELWLEPGRSLVGNTTILLTRVNAVKRAYKNF
VAVDAGFNLLIRPAMYGAYHKIAVANKMDWEEEEVYTVVGPICESGDVLGEDRKLPRVEK
GDIIAVFDAGAYGFVMSSQYNGRPRCAEVLVKGSEAYVIREKESFGDLIAKQKIPEFLL
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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