SitesBLAST – Find functional sites

 

SitesBLAST

Comparing HSERO_RS22260 FitnessBrowser__HerbieS:HSERO_RS22260 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 4 hits to proteins with known functional sites (download)

A5W059 4-hydroxy-4-methyl-2-oxoglutarate aldolase/4-carboxy-4-hydroxy-2-oxoadipate aldolase; HMG/CHA aldolase; Oxaloacetate decarboxylase; OAA decarboxylase; EC 4.1.3.17; EC 4.1.1.112 from Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1) (see paper)
37% identity, 84% coverage: 8:199/229 of query aligns to 12:204/238 of A5W059

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3nojA The structure of hmg/cha aldolase from the protocatechuate degradation pathway of pseudomonas putida (see paper)
37% identity, 84% coverage: 8:199/229 of query aligns to 11:203/235 of 3nojA

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1nxjA Structure of rv3853 from mycobacterium tuberculosis (see paper)
38% identity, 55% coverage: 52:176/229 of query aligns to 33:156/156 of 1nxjA

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Sites not aligning to the query:

2yjvC Crystal structure of e. Coli regulator of ribonuclease activity a (rraa) bound to fragment of dead-box protein rhlb (see paper)
26% identity, 59% coverage: 44:177/229 of query aligns to 18:154/158 of 2yjvC

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2yjvC
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Query Sequence

>HSERO_RS22260 FitnessBrowser__HerbieS:HSERO_RS22260
MSTQPDFIRDIERVDASVVAKAAQFPASILADVAGRRGTLCSRVAPLSPSMRVAGPAVTV
EVRPGDNLMIHAAMAIAKPGDVLVIDGKGDETCALMGEIMVSQCKASGLAGIIIYGSVRD
IEAIREIGFPVYAVGANPNGPTKNIAGRVNWPISVGGTAVQPGDLIVGDADGVVVVEREK
AGSLLEAAAKKVADETKRLTEIRGGGPLRPSWLEGALRKGGVLAEGESL

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