SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing 7026102 FitnessBrowser__ANA3:7026102 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 3 hits to proteins with known functional sites (download)

Q63342 Dimethylglycine dehydrogenase, mitochondrial; ME2GLYDH; EC 1.5.8.4 from Rattus norvegicus (Rat) (see 2 papers)
26% identity, 52% coverage: 16:272/491 of query aligns to 30:274/857 of Q63342

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CV 52:53 (≠ YS 38:39) binding
EK 73:74 (≠ EA 60:61) binding
80:88 (vs. 67:76, 30% identical) binding
H84 (≠ R71) modified: Tele-8alpha-FAD histidine
V212 (= V213) binding
W244 (≠ Y245) binding

Sites not aligning to the query:

390:395 binding
573:575 binding
669 binding
676:678 binding
737 binding

4pabB Crystal structure of the precursor form of rat dmgdh complexed with tetrahydrofolate (see paper)
26% identity, 50% coverage: 29:272/491 of query aligns to 6:237/824 of 4pabB

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active site: T53 (≠ G78), E102 (≠ N140), H226 (≠ S261)
binding flavin-adenine dinucleotide: I11 (= I34), G12 (= G35), G14 (= G37), C15 (≠ Y38), V16 (≠ S39), L35 (= L59), E36 (= E60), K37 (≠ A61), G43 (= G67), S44 (≠ A68), T45 (≠ S69), H47 (≠ R71), A48 (≠ N72), A49 (≠ G73), G50 (= G74), L51 (= L76), V175 (= V213), A204 (≠ V242), G205 (≠ E243), W207 (≠ Y245), H226 (≠ S261), Y228 (≠ L263)

Sites not aligning to the query:

active site: 255, 536
binding flavin-adenine dinucleotide: 326, 328, 353, 355, 356, 357, 358
binding (6s)-5,6,7,8-tetrahydrofolate: 523, 536, 538, 550, 612, 613, 632, 639, 680, 700

Q9UI17 Dimethylglycine dehydrogenase, mitochondrial; ME2GLYDH; EC 1.5.8.4 from Homo sapiens (Human) (see 4 papers)
24% identity, 51% coverage: 21:272/491 of query aligns to 38:281/866 of Q9UI17

query
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CV 59:60 (≠ YS 38:39) binding
EK 80:81 (≠ EA 60:61) binding
87:95 (vs. 67:76, 30% identical) binding
H91 (≠ R71) modified: Tele-8alpha-FAD histidine
H109 (≠ E91) to R: in DMGDHD; shows 10 fold lower catalytic efficiency due to lower cofactor saturation and reduced thermal stability; dbSNP:rs121908331
V219 (= V213) binding
S279 (≠ T270) to P: in dbSNP:rs532964

Sites not aligning to the query:

397:402 binding
530 A → G: in dbSNP:rs1805073
646 S → P: in dbSNP:rs1805074

Query Sequence

>7026102 FitnessBrowser__ANA3:7026102
MKERGFWFDTEPQLNQRAVLPPLEQDITADVAIIGAGYSGLWTAYYLKQYQPNLSVVILE
AEYIGQGASGRNGGWLMGSFSGDVAYLNRLEGEQRLIAKAIIQETISEVATVCAKHHIDC
DLHHGGNLRVAARYPEQLANIKAELAQWRADGFGEEDIRWLDKTELDKQVSMAEGQAALF
TPHCARIHPAKLVCGLADLVQSLGVKIYERTSVNHMAHLGDALTQLQTPQGNVRAAIVVP
AVEGYLRQLSGLGRFTLPVQSLLIATEPLTNVTWDAIGLANRATFSDASRIVTYGQRSPD
NRLIFGARGGYGFGAKIRTEFGFDPKLFNGKFPVNQSPPQCAFEGEFGFRYQLLLALFPQ
LKGVQITHGWGGTLALARRFAPHAIFDQSLGLGLIGGYGGEGVGAANLFARTLVDLILGR
DTQLASMPWAFNASVQQVLAPWEREPLPWLAYHGMNKIFAWEDRLYSQPKSAAWQKGLAK
RLANRLEGLMS

Or try a new SitesBLAST search

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