SitesBLAST – Find functional sites

 

SitesBLAST

Comparing RR42_RS34615 FitnessBrowser__Cup4G11:RR42_RS34615 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)

3nojA The structure of hmg/cha aldolase from the protocatechuate degradation pathway of pseudomonas putida (see paper)
36% identity, 89% coverage: 25:230/232 of query aligns to 20:226/235 of 3nojA

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3nojA
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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)
36% identity, 89% coverage: 25:230/232 of query aligns to 21:227/238 of A5W059

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A5W059
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1nxjA Structure of rv3853 from mycobacterium tuberculosis (see paper)
32% identity, 68% coverage: 29:185/232 of query aligns to 3:156/156 of 1nxjA

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1nxjA
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2yjvC Crystal structure of e. Coli regulator of ribonuclease activity a (rraa) bound to fragment of dead-box protein rhlb (see paper)
35% identity, 52% coverage: 64:183/232 of query aligns to 33:151/158 of 2yjvC

query
sites
2yjvC
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I

Query Sequence

>RR42_RS34615 FitnessBrowser__Cup4G11:RR42_RS34615
MSNEATQAWPAGYRINPCAAGPAPDIVAAFREMPVAAIGDAMSRNIGTIGLRPYHSRPDT
VLCGPAVTVRVRPGDNLMIHKALMMVRPGDVLVIDGGGDITQALVGGLMRTTCVARQLGG
LVIDGAVRDVLEWAEDGMPIFARGHTHRGPSKDGPGEVNVPVSCAGMAVMPGDLIVGDAD
GVIAVPAAEAADLLQRTRAHLRKEAKIRADNAAGTSDPERFDAALRAKGLPV

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