SitesBLAST
Comparing WP_012411500.1 NCBI__GCF_000020025.1:WP_012411500.1 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)
3dc2A Crystal structure of serine bound d-3-phosphoglycerate dehydrogenase from mycobacterium tuberculosis (see paper)
41% identity, 96% coverage: 4:508/526 of query aligns to 4:507/526 of 3dc2A
- active site: N96 (= N96), R230 (= R230), D254 (= D254), E259 (= E259), H277 (= H278)
- binding serine: Y458 (≠ H459), D460 (= D461), R461 (≠ M462), P462 (= P463), G463 (= G464), A464 (≠ I465), L465 (≠ I466), L484 (≠ V485)
3ddnB Crystal structure of hydroxypyruvic acid phosphate bound d-3- phosphoglycerate dehydrogenase in mycobacterium tuberculosis (see paper)
41% identity, 96% coverage: 4:508/526 of query aligns to 5:506/525 of 3ddnB
O43175 D-3-phosphoglycerate dehydrogenase; 3-PGDH; 2-oxoglutarate reductase; Malate dehydrogenase; EC 1.1.1.95; EC 1.1.1.399; EC 1.1.1.37 from Homo sapiens (Human) (see 3 papers)
43% identity, 76% coverage: 1:398/526 of query aligns to 6:404/533 of O43175
- T78 (≠ V72) binding NAD(+)
- R135 (= R129) to W: in PHGDHD; results in a 2-fold decrease in enzyme activity with 3-phosphohydroxypyruvate, but no change in substrate affinity; dbSNP:rs267606949
- RI 155:156 (≠ KI 149:150) binding NAD(+)
- D175 (= D169) binding NAD(+)
- T207 (≠ I201) binding NAD(+)
- CAR 234:236 (= CAR 228:230) binding NAD(+)
- D260 (= D254) binding NAD(+)
- V261 (= V255) to M: in PHGDHD; results in a four-fold decrease in substrate affinity and a slight increase in maximal enzyme activity with 3-phosphohydroxypyruvate; dbSNP:rs267606947
- HLGA 283:286 (= HLGA 278:281) binding NAD(+)
- A373 (= A368) to T: in PHGDHD; results in almost undetectable enzyme activity with 3-phosphohydroxypyruvate; dbSNP:rs201553627
- G377 (= G372) to S: in PHGDHD; results in a 2-fold decrease in enzyme activity with 3-phosphohydroxypyruvate, but no change in substrate affinity; dbSNP:rs267606948
Sites not aligning to the query:
- 1 modified: Initiator methionine, Removed
- 2 modified: N-acetylalanine
- 425 V → M: in PHGDHD; results in almost undetectable enzyme activity with 3-phosphohydroxypyruvate; dbSNP:rs121907988
- 490 V → M: in PHGDHD; results in almost undetectable enzyme activity with 3-phosphohydroxypyruvate; dbSNP:rs121907987
6plfA Crystal structure of human phgdh complexed with compound 1 (see paper)
46% identity, 58% coverage: 1:304/526 of query aligns to 2:305/305 of 6plfA
7ewhA Crystal structure of human phgdh in complex with homoharringtonine (see paper)
46% identity, 57% coverage: 1:302/526 of query aligns to 1:302/302 of 7ewhA
- binding (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine: L146 (≠ V145), G147 (= G146), L148 (= L147), G149 (= G148), R150 (≠ K149), I151 (= I150), G152 (= G151), D170 (= D169), H201 (= H200), T202 (≠ I201), P203 (= P202)
6rihA Crystal structure of phgdh in complex with compound 9 (see paper)
46% identity, 57% coverage: 1:302/526 of query aligns to 1:302/302 of 6rihA
6plgA Crystal structure of human phgdh complexed with compound 15 (see paper)
46% identity, 57% coverage: 1:302/526 of query aligns to 1:302/303 of 6plgA
7dkmA Phgdh covalently linked to oridonin (see paper)
46% identity, 57% coverage: 1:302/526 of query aligns to 2:303/306 of 7dkmA
- binding nicotinamide-adenine-dinucleotide: T74 (≠ V72), A102 (= A100), G148 (= G146), R151 (≠ K149), I152 (= I150), Y170 (= Y168), D171 (= D169), P172 (= P170), I173 (≠ F171), H202 (= H200), T203 (≠ I201), P204 (= P202), T209 (= T207), C230 (= C228), A231 (= A229), R232 (= R230), H279 (= H278), G281 (= G280)
- binding (1beta,6beta,7beta,8alpha,9beta,10alpha,13alpha,14R,16beta)-1,6,7,14-tetrahydroxy-7,20-epoxykauran-15-one: C14 (≠ A13), K17 (≠ D16), I18 (= I17), E293 (≠ I292)
6rj5A Crystal structure of phgdh in complex with compound 39 (see paper)
46% identity, 57% coverage: 1:301/526 of query aligns to 1:301/301 of 6rj5A
6cwaA Crystal structure phgdh in complex with nadh and 3-phosphoglycerate at 1.77 a resolution (see paper)
46% identity, 57% coverage: 3:300/526 of query aligns to 2:299/299 of 6cwaA
- binding 1,4-dihydronicotinamide adenine dinucleotide: N96 (= N96), A100 (= A100), R149 (≠ K149), I150 (= I150), Y168 (= Y168), D169 (= D169), P170 (= P170), I171 (≠ F171), H200 (= H200), T201 (≠ I201), P202 (= P202), T207 (= T207), C228 (= C228), A229 (= A229), R230 (= R230), H277 (= H278), G279 (= G280)
6rj3A Crystal structure of phgdh in complex with compound 15 (see paper)
46% identity, 56% coverage: 3:298/526 of query aligns to 2:297/297 of 6rj3A
6rj2A Crystal structure of phgdh in complex with compound 40 (see paper)
46% identity, 57% coverage: 4:302/526 of query aligns to 1:299/299 of 6rj2A
- binding ~{N}-[(1~{R})-1-[4-(ethanoylsulfamoyl)phenyl]ethyl]-2-methyl-5-phenyl-pyrazole-3-carboxamide: G146 (= G148), I148 (= I150), Y166 (= Y168), D167 (= D169), P168 (= P170), I169 (≠ F171), I170 (= I172), H198 (= H200), T199 (≠ I201), L208 (= L210), R228 (= R230)
6plfB Crystal structure of human phgdh complexed with compound 1 (see paper)
44% identity, 57% coverage: 3:301/526 of query aligns to 2:292/292 of 6plfB
- binding 4-{(1S)-1-[(5-chloro-6-{[(5S)-2-oxo-1,3-oxazolidin-5-yl]methoxy}-1H-indole-2-carbonyl)amino]-2-hydroxyethyl}benzoic acid: R141 (≠ K149), Y160 (= Y168), D161 (= D169), P162 (= P170), I164 (= I172), L179 (= L187), T193 (≠ I201), P194 (= P202), S198 (≠ E206), L202 (= L210)
1wwkA Crystal structure of phosphoglycerate dehydrogenase from pyrococcus horikoshii ot3
40% identity, 57% coverage: 3:304/526 of query aligns to 2:304/304 of 1wwkA
- active site: S96 (≠ N96), R230 (= R230), D254 (= D254), E259 (= E259), H278 (= H278)
- binding nicotinamide-adenine-dinucleotide: V100 (≠ A100), G146 (= G146), F147 (≠ L147), G148 (= G148), R149 (≠ K149), I150 (= I150), Y168 (= Y168), D169 (= D169), P170 (= P170), V201 (≠ I201), P202 (= P202), T207 (= T207), T228 (≠ C228), S229 (≠ A229), D254 (= D254), H278 (= H278), G280 (= G280)
5aovA Ternary crystal structure of pyrococcus furiosus glyoxylate hydroxypyruvate reductase in presence of glyoxylate (see paper)
40% identity, 56% coverage: 3:298/526 of query aligns to 4:308/334 of 5aovA
- active site: L100 (≠ N96), R241 (= R230), D265 (= D254), E270 (= E259), H288 (= H278)
- binding glyoxylic acid: M52 (≠ R48), L53 (≠ S49), L53 (≠ S49), Y74 (≠ A70), A75 (≠ G71), V76 (= V72), G77 (= G73), R241 (= R230), H288 (= H278)
- binding nadp nicotinamide-adenine-dinucleotide phosphate: V76 (= V72), T104 (≠ A100), F158 (≠ L147), G159 (= G148), R160 (≠ K149), I161 (= I150), S180 (≠ D169), R181 (≠ P170), A211 (≠ H200), V212 (≠ I201), P213 (= P202), T218 (= T207), I239 (≠ C228), A240 (= A229), R241 (= R230), H288 (= H278), G290 (= G280)
7cvpA The crystal structure of human phgdh from biortus.
47% identity, 42% coverage: 78:300/526 of query aligns to 33:254/254 of 7cvpA
- binding nicotinamide-adenine-dinucleotide: G101 (= G146), G103 (= G148), R104 (≠ K149), I105 (= I150), Y123 (= Y168), D124 (= D169), P125 (= P170), I126 (≠ F171), H155 (= H200), T156 (≠ I201), P157 (= P202), T162 (= T207), C183 (= C228), A184 (= A229), R185 (= R230), H232 (= H278), G234 (= G280)
P87228 Putative D-3-phosphoglycerate dehydrogenase; 3-PGDH; 2-oxoglutarate reductase; EC 1.1.1.95; EC 1.1.1.399 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
37% identity, 59% coverage: 3:314/526 of query aligns to 57:380/466 of P87228
- S87 (≠ K31) modified: Phosphoserine
- S258 (≠ T204) modified: Phosphoserine
6biiA Crystal structure of pyrococcus yayanosii glyoxylate hydroxypyruvate reductase in complex with NADP and malonate (re-refinement of 5aow) (see paper)
38% identity, 56% coverage: 3:298/526 of query aligns to 3:307/332 of 6biiA
- active site: L99 (≠ N96), R240 (= R230), D264 (= D254), E269 (= E259), H287 (= H278)
- binding nadp nicotinamide-adenine-dinucleotide phosphate: V75 (= V72), T103 (≠ A100), G156 (= G146), F157 (≠ L147), G158 (= G148), R159 (≠ K149), I160 (= I150), A179 (≠ D169), R180 (≠ P170), S181 (≠ F171), K183 (≠ S173), V211 (≠ I201), P212 (= P202), E216 (= E206), T217 (= T207), V238 (≠ C228), A239 (= A229), R240 (= R230), D264 (= D254), H287 (= H278), G289 (= G280)
2eklA Structure of st1218 protein from sulfolobus tokodaii
39% identity, 55% coverage: 3:291/526 of query aligns to 6:295/312 of 2eklA
- active site: S100 (≠ N96), R232 (= R230), D256 (= D254), E261 (= E259), H282 (= H278)
- binding nicotinamide-adenine-dinucleotide: I76 (≠ V72), S100 (≠ N96), G148 (= G146), G150 (= G148), R151 (≠ K149), I152 (= I150), Y170 (= Y168), D171 (= D169), I172 (≠ P170), L173 (≠ F171), H202 (= H200), V203 (≠ I201), T204 (≠ P202), I212 (≠ L210), T230 (≠ C228), S231 (≠ A229), D256 (= D254), G284 (= G280)
5ofwA Crystal structure of human 3-phosphoglycerate dehydrogenase in complex with 3-chloro-4-fluorobenzamide (see paper)
49% identity, 37% coverage: 95:287/526 of query aligns to 2:193/195 of 5ofwA
- active site: N3 (= N96), R137 (= R230), D161 (= D254), E166 (= E259), H184 (= H278)
- binding 3-chloranyl-4-fluoranyl-benzamide: G53 (= G146), Y75 (= Y168), P77 (= P170), T108 (≠ I201), S113 (≠ E206), T114 (= T207), L117 (= L210)
Query Sequence
>WP_012411500.1 NCBI__GCF_000020025.1:WP_012411500.1
MSKVLVSDSIDQAGIDILSQVATVDVKIGLKPAQLLEIIGEYDALMIRSSTRVTQEIIEA
GTQLKIIGRAGVGVDNVDVPAATRRGIVVVNSPEGNTIAAAEHALAMILALSRHIPDANA
SVKRGAWDRNSFVGAEVYKKTLGVVGLGKIGSHVAAVAKTMGMKLLAYDPFISTERAEQI
GCQLVELDLLFQQADYITLHIPKTPETTHLINATTLAKMKPTARIINCARGGIIDEVALA
AALKAGKIGGAALDVFESEPLGESELRSLGKEVILTPHLGASTAEAQVNVAIDVAEQIRD
VLLGLPARSAVNIPGLGPDVLEELKPYMQLAETLGNLVGQLAGGRVEVLNIRLQGELATN
KSQPLVVAALKGLLYQALRERVNYVNASIEAKERGIRVIETRDASIRDYAGTLHLEATGT
LGTHSVTGALLGEREIHLTDVDGFPINVPPSKYMLFTLHRDMPGIIGKLGSLLGSFNVNI
ASMQVGRKIVRGDAVMALSIDDPLPEGILDEIIKVPGIRDAYTVTL
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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