SitesBLAST
Comparing WP_012569212.1 NCBI__GCF_000016185.1:WP_012569212.1 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)
B4XMC6 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Helicobacter pylori (Campylobacter pylori) (see paper)
45% identity, 90% coverage: 32:425/436 of query aligns to 13:399/405 of B4XMC6
- K46 (= K70) modified: N6-(pyridoxal phosphate)lysine
- I148 (= I172) 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 (= G249) binding pyridoxal 5'-phosphate
- EPGR 259:262 (= EPGR 284:287) binding pyridoxal 5'-phosphate
- Y358 (= Y384) binding pyridoxal 5'-phosphate
4xg1B Psychromonas ingrahamii diaminopimelate decarboxylase with llp
43% identity, 96% coverage: 9:426/436 of query aligns to 3:415/418 of 4xg1B
- active site: K60 (= K70), H199 (= H209), E273 (= E284)
- binding (2S)-2-amino-6-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid: K60 (= K70), D79 (= D89), H199 (= H209), S202 (= S212), G239 (= G249), E273 (= E284), G275 (= G286), R276 (= R287), R310 (= R323), Y314 (= Y327), C345 (= C355), E346 (= E356), Y373 (= Y384)
- binding propane: A35 (= A40), E38 (≠ R43), E206 (≠ K216), I207 (≠ T217), A208 (≠ S218)
3c5qA Crystal structure of diaminopimelate decarboxylase (i148l mutant) from helicobacter pylori complexed with l-lysine
45% identity, 90% coverage: 32:424/436 of query aligns to 11:390/394 of 3c5qA
- active site: K44 (= K70), H183 (= H209), E257 (= E284)
- binding lysine: L146 (≠ I172), R260 (= R287), R294 (= R323), Y298 (= Y327), Y351 (= Y384)
- binding pyridoxal-5'-phosphate: K44 (= K70), D63 (= D89), H183 (= H209), S186 (= S212), G223 (= G249), E257 (= E284), P258 (= P285), G259 (= G286), R260 (= R287), Y351 (= Y384)
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)
39% identity, 96% coverage: 12:430/436 of query aligns to 14:437/438 of Q58497
- K73 (= K70) modified: N6-(pyridoxal phosphate)lysine
- S217 (= S212) binding pyridoxal 5'-phosphate
- G254 (= G249) binding pyridoxal 5'-phosphate
- EPGR 294:297 (= EPGR 284:287) binding pyridoxal 5'-phosphate
- Y391 (= Y384) binding pyridoxal 5'-phosphate
1twiA Crystal structure of diaminopimelate decarboxylase from m. Jannaschii in co-complex with l-lysine (see paper)
39% identity, 96% coverage: 12:430/436 of query aligns to 10:433/434 of 1twiA
- active site: K69 (= K70), H210 (= H209), E290 (= E284)
- binding lysine: S213 (= S212), R293 (= R287), R329 (= R323), Y333 (= Y327), Y387 (= Y384)
- binding pyridoxal-5'-phosphate: A67 (= A68), K69 (= K70), D88 (= D89), N111 (≠ S112), H210 (= H209), S213 (= S212), G250 (= G249), E290 (= E284), G292 (= G286), R293 (= R287), Y387 (= Y384)
1tufA Crystal structure of diaminopimelate decarboxylase from m. Jannaschi (see paper)
39% identity, 96% coverage: 12:430/436 of query aligns to 10:433/434 of 1tufA
4xg1A Psychromonas ingrahamii diaminopimelate decarboxylase with llp
41% identity, 96% coverage: 9:426/436 of query aligns to 3:390/393 of 4xg1A
- active site: K55 (= K70), H178 (= H209), E246 (= E284)
- binding (2S)-2-amino-6-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]hexanoic acid: K55 (= K70), D74 (= D89), S97 (= S112), H178 (= H209), S181 (= S212), G216 (= G249), E246 (= E284), G248 (= G286), R249 (= R287), R285 (= R323), Y289 (= Y327), C320 (= C355), E321 (= E356), Y348 (= Y384)
- binding propane: S121 (= S136), I122 (≠ L137)
2yxxA Crystal structure analysis of diaminopimelate decarboxylate (lysa)
38% identity, 90% coverage: 23:416/436 of query aligns to 3:375/385 of 2yxxA
- active site: K45 (= K70), H178 (= H209), E245 (= E284)
- binding pyridoxal-5'-phosphate: K45 (= K70), D64 (= D89), H178 (= H209), S181 (= S212), G213 (= G249), E245 (= E284), G247 (= G286), R248 (= R287), Y342 (= Y384)
Q9X1K5 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)
38% identity, 90% coverage: 23:416/436 of query aligns to 4:376/386 of Q9X1K5
- G214 (= G249) binding pyridoxal 5'-phosphate
- EIGR 246:249 (≠ EPGR 284:287) binding pyridoxal 5'-phosphate
- Y343 (= Y384) binding pyridoxal 5'-phosphate
6n2aA Meso-diaminopimelate decarboxylase from arabidopsis thaliana (isoform 1)
35% identity, 96% coverage: 3:421/436 of query aligns to 6:416/422 of 6n2aA
- binding lysine: K63 (= K70), R281 (= R287), R317 (= R323), Y321 (= Y327), C349 (= C355), E350 (= E356), Y378 (= Y384)
- binding pyridoxal-5'-phosphate: K63 (= K70), H202 (= H209), S205 (= S212), G242 (= G249), E278 (= E284), G280 (= G286), R281 (= R287), Y378 (= Y384)
5x7mA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
33% identity, 97% coverage: 5:425/436 of query aligns to 14:443/443 of 5x7mA
5x7nA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
33% identity, 96% coverage: 5:424/436 of query aligns to 14:442/442 of 5x7nA
- binding lysine: K73 (= K70), R341 (= R323), Y345 (= Y327), Y402 (= Y384), M406 (= M388)
- binding pyridoxal-5'-phosphate: K73 (= K70), H115 (≠ S112), H214 (= H209), G254 (= G248), G255 (= G249), E297 (= E284), G299 (= G286), R300 (= R287), Y402 (= Y384)
P00861 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Escherichia coli (strain K12)
34% identity, 93% coverage: 13:417/436 of query aligns to 9:411/420 of P00861
- K54 (= K70) modified: N6-(pyridoxal phosphate)lysine
- G227 (= G249) binding pyridoxal 5'-phosphate
- EPGR 268:271 (= EPGR 284:287) binding pyridoxal 5'-phosphate
- Y378 (= Y384) binding pyridoxal 5'-phosphate
P9WIU7 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
34% identity, 94% coverage: 14:424/436 of query aligns to 22:445/447 of P9WIU7
- K72 (= K70) modified: N6-(pyridoxal phosphate)lysine
- C93 (≠ V91) modified: Interchain (with C-375)
- G258 (= G249) binding pyridoxal 5'-phosphate
- EPGR 300:303 (= EPGR 284:287) binding pyridoxal 5'-phosphate
- C375 (= C355) modified: Interchain (with C-72)
- Y405 (= Y384) binding pyridoxal 5'-phosphate
1knwA Crystal structure of diaminopimelate decarboxylase
34% identity, 93% coverage: 13:417/436 of query aligns to 8:410/421 of 1knwA
1ko0A Crystal structure of a d,l-lysine complex of diaminopimelate decarboxylase
34% identity, 93% coverage: 13:417/436 of query aligns to 8:410/419 of 1ko0A
- binding d-lysine: K53 (= K70), T156 (= T174), H190 (= H209), Y310 (= Y327), Y377 (= Y384)
- binding lysine: K53 (= K70), R270 (= R287), R306 (= R323), Y310 (= Y327), Y377 (= Y384)
- binding pyridoxal-5'-phosphate: A51 (= A68), K53 (= K70), H190 (= H209), G226 (= G249), E267 (= E284), P268 (= P285), G269 (= G286), R270 (= R287), Y377 (= Y384)
1hkvA Mycobacterium diaminopimelate dicarboxylase (lysa) (see paper)
34% identity, 94% coverage: 14:424/436 of query aligns to 21:444/446 of 1hkvA
- binding lysine: E375 (= E356), S376 (= S357)
- binding pyridoxal-5'-phosphate: A69 (= A68), K71 (= K70), R160 (= R159), H210 (≠ A207), H212 (= H209), G256 (= G248), G257 (= G249), E299 (= E284), G301 (= G286), R302 (= R287), Y404 (= Y384)
7ru7A Crystal structure of btrk, a decarboxylase involved in butirosin biosynthesis
29% identity, 94% coverage: 16:424/436 of query aligns to 1:410/412 of 7ru7A
8d5rA Structure of y430f d-ornithine/d-lysine decarboxylase complex with d- ornithine (see paper)
30% identity, 95% coverage: 9:424/436 of query aligns to 23:455/461 of 8d5rA
- binding n~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-d-ornithine: A78 (= A68), K80 (= K70), H210 (= H209), D213 (≠ S212), G251 (= G249), E299 (= E284), G301 (= G286), R302 (= R287), Y414 (= Y384)
- binding 1,4-diaminobutane: Q350 (≠ S325), H351 (≠ L326), D353 (= D328)
8d5dA Structure of y430f d-ornithine/d-lysine decarboxylase complex with d- arginine (see paper)
30% identity, 95% coverage: 9:424/436 of query aligns to 22:453/458 of 8d5dA
- binding (E)-N~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene)-D-arginine: K79 (= K70), H208 (= H209), D211 (≠ S212), G249 (= G249), E297 (= E284), G299 (= G286), R300 (= R287), D346 (≠ R323), F350 (≠ Y327), C377 (= C355), D378 (≠ E356), Y412 (= Y384)
Query Sequence
>WP_012569212.1 NCBI__GCF_000016185.1:WP_012569212.1
MAKVPSPGFAYRDGELHVEDVPLSAIAAEAGTPAYVYSTAELRANWRAYADAFDLDGPGG
RDVAVCYALKANSNLAVIRTLTALGAGADVVSVGEMQRALVAGIPADRIVFSGVGKTRDE
LAAALKAGIHQINVESLPELDLLSAVASGLGLVAPVALRVNPDVDAQTHGKIATGRKEDK
FGIDWSQAGAAFARAAALPGLRPLGVAIHIGSQLLKTSPFALAFAKVAELVTDLRAHGIG
IERIDLGGGVGVPYREEDIGPDHRAYAQVVRETVGHLGCHITLEPGRSLVASAGVLLSRV
VHVKEGLHRRFLVLDAAMNDLIRPSLYDAWHTILPVRQPARGAPLSAMDVVGPVCESGDT
FAKGRRLPPMQAGDLVAILTAGAYGAVMASTYNSRPLVPEVLVAGGERAVVRRRPTLEEL
LAMESVPAWLPPPGSR
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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