SitesBLAST
Comparing PP_2910 FitnessBrowser__Putida:PP_2910 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 15 hits to proteins with known functional sites (download)
8w78A Structure of drosophila melanogaster l-2-hydroxyglutarate dehydrogenase in complex with fad and 2-oxoglutarate (see paper)
41% identity, 94% coverage: 2:392/416 of query aligns to 3:403/410 of 8w78A
- binding 2-oxoglutaric acid: S48 (= S47), H52 (= H51), Y245 (= Y241), F254 (= F250), L255 (= L251), H258 (= H254), R349 (= R345)
- binding flavin-adenine dinucleotide: V8 (≠ I7), G11 (= G10), I12 (= I11), V13 (= V12), E34 (= E33), K35 (= K34), H42 (= H41), Q43 (= Q42), S44 (≠ T43), N47 (= N46), S48 (= S47), V50 (= V49), H52 (= H51), V173 (= V171), G203 (≠ S199), G204 (= G200), Q206 (≠ M202), R349 (= R345), P387 (= P376), G388 (≠ A377), A389 (= A378), T390 (= T379)
8w7fB Structure of drosophila melanogaster l-2-hydroxyglutarate dehydrogenase bound with fad and a sulfate ion (see paper)
40% identity, 94% coverage: 2:392/416 of query aligns to 3:405/412 of 8w7fB
- binding flavin-adenine dinucleotide: G11 (= G10), I12 (= I11), V13 (= V12), E34 (= E33), K35 (= K34), H42 (= H41), Q43 (= Q42), S44 (≠ T43), H46 (= H45), N47 (= N46), S48 (= S47), V50 (= V49), H52 (= H51), V173 (= V171), G205 (≠ S199), G206 (= G200), Q208 (≠ M202), Y231 (= Y225), V350 (= V344), R351 (= R345), P389 (= P376), G390 (≠ A377), A391 (= A378), T392 (= T379)
3dmeA Crystal structure of conserved exported protein from bordetella pertussis. Northeast structural genomics target ber141
29% identity, 64% coverage: 3:268/416 of query aligns to 4:271/366 of 3dmeA
- binding flavin-adenine dinucleotide: I8 (= I7), G9 (= G8), G11 (= G10), V12 (≠ I11), V13 (= V12), E32 (= E33), A33 (≠ K34), T41 (≠ Q42), S42 (≠ T43), R44 (≠ H45), N45 (= N46), S46 (= S47), V48 (= V49), H50 (= H51), P170 (≠ E170), L171 (≠ V171), A203 (≠ S199)
Sites not aligning to the query:
4x9mA Oxidized l-alpha-glycerophosphate oxidase from mycoplasma pneumoniae with fad bound (see paper)
25% identity, 76% coverage: 3:317/416 of query aligns to 5:314/384 of 4x9mA
- binding flavin-adenine dinucleotide: G10 (= G8), G12 (= G10), I14 (≠ V12), E33 (= E33), K34 (= K34), E41 (≠ H41), T42 (≠ Q42), S43 (≠ T43), A45 (≠ H45), N46 (= N46), S47 (= S47), V49 (= V49), H51 (= H51), E176 (= E170), V177 (= V171), A209 (≠ S199), G210 (= G200), Y212 (≠ M202), Y234 (= Y225)
- binding sn-glycerol-3-phosphate: S47 (= S47), H51 (= H51), K258 (≠ L251), G259 (= G252)
Sites not aligning to the query:
P75063 Glycerol 3-phosphate oxidase; GlpO; L-alpha-glycerophosphate oxidase; EC 1.1.3.21 from Mycoplasma pneumoniae (strain ATCC 29342 / M129 / Subtype 1) (Mycoplasmoides pneumoniae) (see paper)
25% identity, 76% coverage: 3:317/416 of query aligns to 5:314/384 of P75063
Sites not aligning to the query:
- 346:347 binding
- 352 binding
Q9UI17 Dimethylglycine dehydrogenase, mitochondrial; ME2GLYDH; EC 1.5.8.4 from Homo sapiens (Human) (see 4 papers)
26% identity, 57% coverage: 5:240/416 of query aligns to 53:278/866 of Q9UI17
- CV 59:60 (≠ IV 11:12) binding
- EK 80:81 (≠ KE 34:35) binding
- 87:95 (vs. 41:49, 33% identical) binding
- H91 (= H45) modified: Tele-8alpha-FAD histidine
- H109 (≠ C66) to R: in DMGDHD; shows 10 fold lower catalytic efficiency due to lower cofactor saturation and reduced thermal stability; dbSNP:rs121908331
- V219 (= V171) binding
Sites not aligning to the query:
- 279 S → P: in dbSNP:rs532964
- 397:402 binding
- 530 A → G: in dbSNP:rs1805073
- 646 S → P: in dbSNP:rs1805074
Q63342 Dimethylglycine dehydrogenase, mitochondrial; ME2GLYDH; EC 1.5.8.4 from Rattus norvegicus (Rat) (see 2 papers)
26% identity, 57% coverage: 5:240/416 of query aligns to 46:271/857 of Q63342
- CV 52:53 (≠ IV 11:12) binding
- EK 73:74 (= EK 33:34) binding
- 80:88 (vs. 41:49, 33% identical) binding
- H84 (= H45) modified: Tele-8alpha-FAD histidine
- V212 (= V171) binding
- W244 (≠ M202) 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, 57% coverage: 5:240/416 of query aligns to 9:234/824 of 4pabB
- active site: T53 (≠ V54), E102 (≠ R101), H226 (= H232)
- binding flavin-adenine dinucleotide: I11 (= I7), G12 (= G8), G14 (= G10), C15 (≠ I11), V16 (= V12), L35 (= L32), E36 (= E33), K37 (= K34), G43 (≠ H41), S44 (≠ Q42), T45 (= T43), H47 (= H45), A48 (≠ N46), A49 (≠ S47), G50 (= G48), L51 (≠ V49), V175 (= V171), A204 (≠ S199), G205 (= G200), W207 (≠ M202), H226 (= H232), Y228 (≠ Q234)
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
3gsiA Crystal structure of d552a dimethylglycine oxidase mutant of arthrobacter globiformis in complex with tetrahydrofolate (see paper)
27% identity, 50% coverage: 4:212/416 of query aligns to 4:213/827 of 3gsiA
- binding flavin-adenine dinucleotide: G10 (= G10), I11 (= I11), V12 (= V12), D32 (≠ E35), Q33 (≠ S36), G41 (= G44), S42 (≠ H45), T43 (≠ N46), H45 (= H51), P47 (vs. gap), L49 (≠ V54), T170 (≠ E170), V171 (= V171), A200 (≠ S199), G201 (= G200), W203 (≠ M202)
Sites not aligning to the query:
- active site: 222, 256, 549
- binding flavin-adenine dinucleotide: 222, 256, 330, 331, 332, 357, 358, 359, 360
- binding magnesium ion: 254, 409
- binding (6s)-5,6,7,8-tetrahydrofolate: 505, 536, 551, 563, 629, 648, 655, 696
1pj6A Crystal structure of dimethylglycine oxidase of arthrobacter globiformis in complex with folic acid (see paper)
27% identity, 50% coverage: 4:212/416 of query aligns to 5:214/828 of 1pj6A
- binding flavin-adenine dinucleotide: G9 (= G8), G11 (= G10), I12 (= I11), V13 (= V12), D33 (≠ E35), Q34 (≠ S36), G42 (= G44), S43 (≠ H45), T44 (≠ N46), H46 (= H51), P48 (vs. gap), L50 (≠ V54), V172 (= V171), A201 (≠ S199), G202 (= G200), W204 (≠ M202)
Sites not aligning to the query:
1pj7A Structure of dimethylglycine oxidase of arthrobacter globiformis in complex with folinic acid (see paper)
27% identity, 50% coverage: 4:212/416 of query aligns to 4:213/827 of 1pj7A
- binding flavin-adenine dinucleotide: G8 (= G8), G10 (= G10), I11 (= I11), V12 (= V12), D32 (≠ E35), Q33 (≠ S36), G41 (= G44), S42 (≠ H45), T43 (≠ N46), H45 (= H51), P47 (vs. gap), L49 (≠ V54), T170 (≠ E170), V171 (= V171), A200 (≠ S199), G201 (= G200), W203 (≠ M202)
Sites not aligning to the query:
- active site: 222, 256, 549
- binding flavin-adenine dinucleotide: 222, 256, 331, 357, 358, 359, 360
- binding N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid: 505, 536, 549, 551, 563, 629, 648, 655, 696
Q9AGP8 Dimethylglycine oxidase; DMGO; EC 1.5.3.10 from Arthrobacter globiformis (see 2 papers)
27% identity, 50% coverage: 4:212/416 of query aligns to 7:216/830 of Q9AGP8
Sites not aligning to the query:
- 225 Important for catalytic activity; H→Q: Reduces catalytic efficiency 3-fold and substrate affinity 30-fold.
- 259 Important for catalytic activity; binding ; Y→F: Reduces catalytic efficiency 225-fold and substrate affinity 25-fold.
- 360:363 binding
- 539 binding
- 552 Important for catalytic activity; D→A: No effect on the activity.; D→N: Reduces activity 3-fold.
7cyxA Crystal strcuture of glycine oxidase from bacillus cereus atcc 14579 (see paper)
27% identity, 48% coverage: 2:202/416 of query aligns to 2:197/363 of 7cyxA
- binding flavin-adenine dinucleotide: I7 (= I7), G8 (= G8), G10 (= G10), V11 (≠ I11), I12 (≠ V12), V30 (≠ L32), E31 (= E33), K32 (= K34), E38 (≠ H41), A39 (≠ Q42), S40 (≠ T43), A43 (≠ N46), G45 (= G48), L46 (≠ V49), V171 (= V171)
Sites not aligning to the query:
- binding flavin-adenine dinucleotide: 200, 201, 203, 298, 300, 301, 326, 327, 328, 329, 330
Q8GAI3 4-methylaminobutanoate oxidase (formaldehyde-forming); MABO; Demethylating gamma-N-methylaminobutyrate oxidase; Gamma-N-methylaminobutyrate oxidase 1; EC 1.5.3.19 from Paenarthrobacter nicotinovorans (Arthrobacter nicotinovorans) (see paper)
23% identity, 50% coverage: 5:213/416 of query aligns to 29:238/824 of Q8GAI3
- W66 (≠ G44) mutation W->F,S: Contains a non-covalently bound FAD. Loss of enzyme activity.
- H67 (= H45) mutation to A: Contains a non-covalently bound FAD. Exhibits about 10% of the wild-type enzyme activity.
2gagB Heteroteterameric sarcosine: structure of a diflavin metaloenzyme at 1.85 a resolution (see paper)
26% identity, 46% coverage: 2:192/416 of query aligns to 20:217/403 of 2gagB
- active site: A61 (≠ G44), T64 (≠ S47), T65 (≠ G48)
- binding flavin-adenine dinucleotide: G26 (= G8), G28 (= G10), G29 (≠ I11), H30 (≠ V12), E51 (= E33), K52 (= K34), G58 (≠ H41), N59 (≠ Q42), M60 (≠ T43), R62 (≠ H45), N63 (= N46), T64 (≠ S47), I66 (≠ V49), V195 (= V171)
- binding flavin mononucleotide: A61 (≠ G44), R62 (≠ H45), H171 (≠ Y147)
- binding 2-furoic acid: T64 (≠ S47), I66 (≠ V49), R68 (≠ H51)
- binding sulfite ion: K170 (≠ N146)
Sites not aligning to the query:
- binding flavin-adenine dinucleotide: 224, 225, 227, 231, 246, 352, 353, 354, 355, 356, 357
- binding flavin mononucleotide: 250, 278, 321, 323
- binding 2-furoic acid: 263, 270, 357, 401
- binding sulfite ion: 276
Query Sequence
>PP_2910 FitnessBrowser__Putida:PP_2910
MYDFIIIGGGIVGMSTAMHLIKVYPDAKMLLLEKESGPARHQTGHNSGVIHAGVYYTPGS
LKARFCLEGNKATKAFCTQHGIRFDECGKLLVATNDLEMQRMKALWERTAANGLERYWLS
ADELREREPNIVGMGGIFVPSSGIVNYAQVTAAMAAEFQRAGGEIRYGAEVVGLQEQANE
VIVRTQRDELHSRFLVTCSGLMADRVVGMLGLRTEFVICPFRGEYYLLPKQHNQIVNHLI
YPIPDPSMPFLGVHLTRMIDGTVTVGPNAVLAMKREGYRKTDVSPSDLFQTLTTPGILKV
LAKNFRPGLIEMKNSLFKGGYLKQVQKYCPSIIKADLTPYPAGVRAQAVSRDGKLIDDFL
FVNTARSVNVCNAPSPAATSAIPIGAYIVEKVCEQVGLQGGSFPKADLSANQRAAS
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