SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_011383333.1 NCBI__GCF_000009985.1:WP_011383333.1 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 1 hits to proteins with known functional sites (download)

8b01B Cryo-em structure of the tripartite atp-independent periplasmic (trap) transporter siaqm from photobacterium profundum in a nanodisc (see paper)
27% identity, 26% coverage: 197:373/687 of query aligns to 60:235/427 of 8b01B

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8b01B

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binding sodium ion: S103 (≠ G240), S106 (≠ N243), G107 (= G244), G145 (= G282), V148 (≠ M285), P149 (= P286), P150 (= P287)

Sites not aligning to the query:

binding sodium ion: 325, 326, 366, 367, 369, 372, 373

Query Sequence

>WP_011383333.1 NCBI__GCF_000009985.1:WP_011383333.1
MSQQDEKDVDLAEIDTKGEVFGHGVESRGIFWIAIAFSVFQIVTAAYSPLSSLPVRSIHV
GFLLLMVFALYAAMGRGNPVKVATAWALGGLSFILSLYHLIYEGELVQRSGDPSTTDLVV
GTVMVALVFEAARRLMGWALPALCLVFVAYAAFGEILPAPLGHRGYGFDQIINQYFLGTE
GIFGIPCYVSATYIFLFILFGSFLEQAGMIRLFTDVALGTVGHTKGGPAKVAVVTSGLMG
TINGSGIANVVTTGALTIPLMKRFGYRSEFAGAVEATASMGGQIMPPVMGAVAFIMAETL
NISYAEVCKAAAIPALLYYASAIWMVHLEAGIAGLHGMPKDQCPSAQGALRRQWYLMVPL
AALVYLLLAGFTPMFSGTVGLALTAIVILGSSIAANIGGMAGRVVFWGVLGIASSAFFKL
GINVVVVTVAVLVGVNFFVRGGRETMRMTVRGLVEGARSAVPVGVACTLVGTIIGTMTLT
GIAGSFTQGLVSMSGGSLFLTLILTMIASLILGMGIPTIPTYIITSSLVAPMLFKMGVPL
VVSHMYVFYFGILADLTPPVGLAAFAAASIARSNFFVTGWWAVRVAMAGFVVPFMAVYDP
SLMMVSGSLFDTAYVVIKALLAIGLWGAATIGYLWAPMKMWERAVAVLAAFLLVAAVPLT
DEIGFALSAVFLAWHWMRARRVAIQGA

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