SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_007693632.1 NCBI__GCF_000336675.1:WP_007693632.1 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 4 hits to proteins with known functional sites (download)

7cagA Mycobacterium smegmatis lpqy-sugabc complex in the catalytic intermediate state (see paper)
33% identity, 87% coverage: 28:311/327 of query aligns to 5:274/285 of 7cagA

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binding alpha-D-glucopyranose: E159 (≠ D201), K162 (= K204), R216 (= R258), D219 (= D261)

4ki0F Crystal structure of the maltose-binding protein/maltose transporter complex in an outward-facing conformation bound to maltohexaose (see paper)
31% identity, 48% coverage: 102:258/327 of query aligns to 260:422/490 of 4ki0F

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binding alpha-D-glucopyranose: Y310 (≠ W151), N361 (≠ D201), G365 (≠ T205), Y368 (≠ F208), S418 (≠ A254), N422 (≠ R258)

P02916 Maltose/maltodextrin transport system permease protein MalF from Escherichia coli (strain K12) (see 4 papers)
31% identity, 48% coverage: 102:258/327 of query aligns to 275:437/514 of P02916

query
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L334 (≠ M160) mutation to W: Ability to transport lactose in a saturable manner.
L372 (= L197) mutation to W: Growth on maltose but not on media containing either maltoheptaose or maltoheptaose plus maltose.
N376 (≠ D201) mutation N->K,H: No growth on maltose.
G380 (≠ T205) mutation G->C,S: No growth on maltose.
E401 (≠ D226) mutation E->A,C,K,L: Reduction of transport rate.
S403 (≠ A228) mutation S->C,D,K,L: Reduction of transport rate.
G407 (= G232) mutation G->A,P: No effect.
P420 (= P245) mutation to A: No effect.

P94529 Arabinooligosaccharides transport system permease protein AraP from Bacillus subtilis (strain 168) (see paper)
26% identity, 73% coverage: 28:266/327 of query aligns to 27:248/313 of P94529

query
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E205 (≠ S223) mutation to A: Has no effect on the growth rate.
E208 (≠ D226) mutation to A: Small negative impact in the uptake of arabinotriose. Shows an increase of about 10% in the doubling time.
D213 (≠ A231) mutation to A: Severely impairs the uptake of arabinotriose. Shows a 3.6-fold increase of the doubling time.

Query Sequence

>WP_007693632.1 NCBI__GCF_000336675.1:WP_007693632.1
MATEQSTERGAQSGGAYTRLVRWVEGLSEAAFAYLLLVPAFLVLAVIAFWPLVSTFNMSL
HADSISGAAQIGEFVGFENYVNLLTGKLDTVALPQPFLDPTQPFQSALVVTLIFTIASVF
FETIIGFGQALVLDQDFRGRRWVRVAIIIPWAVPIVIQGMIFFLLFQPGIGFGVDIVQAL
GMSGTPLVDSAEALPILILADVWKTSAFMALLILAGLQSVDRSLYDVAKVAGASRWQQFK
MITFPLVLPTVIVAVLFRTIDAMRIYGLIETTSSCTTVPSLSCLVVSTFSTRRYGTASAV
AFVTAAIIGIVVSFYIVKYWRDSQEGI

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