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Searching for up to 100 curated homologs for GFF3389 FitnessBrowser__Phaeo:GFF3389 (361 a.a.)

Found high-coverage hits (≥70%) to 23 curated proteins.

You can add additional sequences or change the %identity threshold for inclusion. Once you have selected sequences, you can build an alignment and a tree.

Hits with ≥ 30% identity

SPUD_PSEAB / Q02UB7 Putrescine-binding periplasmic protein SpuD from Pseudomonas aeruginosa (strain UCBPP-PA14) (see paper)
SPUD_PSEAE / Q9I6J1 Putrescine-binding periplasmic protein SpuD from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
    54% identity, 99% coverage of query (387 bits)

3ttmA / Q9I6J1 Crystal structure of spud in complex with putrescine (see paper)
    55% identity, 93% coverage of query (379 bits)

SPUE_PSEAE / Q9I6J0 Spermidine-binding periplasmic protein SpuE from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
    50% identity, 99% coverage of query (367 bits)

PotF / b0854 putrescine ABC transporter periplasmic binding protein (EC 7.6.2.11; EC 7.6.2.16) from Escherichia coli K-12 substr. MG1655 (see 2 papers)
PotF / P31133 putrescine ABC transporter periplasmic binding protein (EC 7.6.2.11) from Escherichia coli (strain K12) (see 5 papers)
POTF_ECOLI / P31133 Putrescine-binding periplasmic protein PotF from Escherichia coli (strain K12) (see 3 papers)
TC 3.A.1.11.2 / P31133 PotF aka B0854, component of Putrescine porter from Escherichia coli (see 7 papers)
    48% identity, 99% coverage of query (365 bits)

7oyxB E.Coli's putrescine receptor variant potf/d (4jdf) with mutations e39d y87s f88y s247d in complex with spermidine
    49% identity, 94% coverage of query (360 bits)

3ttnA / Q9I6J0 Crystal structures of polyamine receptors spud and spue from pseudomonas aeruginosa (see paper)
    52% identity, 93% coverage of query (359 bits)

6ye7A E.Coli's putrescine receptor potf complexed with cadaverine
    50% identity, 94% coverage of query (359 bits)

6ye6A E.Coli's putrescine receptor potf complexed with agmatine
    50% identity, 94% coverage of query (359 bits)

6ye0B E.Coli's putrescine receptor potf complexed with putrescine
    50% identity, 94% coverage of query (359 bits)

1a99A Putrescine receptor (potf) from e. Coli
    50% identity, 94% coverage of query (359 bits)

7oywA / P31133 E.Coli's putrescine receptor variant potf/d (4jdf) with mutations e39d f88l s247d in complex with spermidine (see paper)
    49% identity, 94% coverage of query (357 bits)

7oyvA E.Coli's putrescine receptor variant potf/d (4jdf) with mutations e39d f88a s247d in complex with spermidine
    49% identity, 94% coverage of query (355 bits)

PAGBP_PSEAE / Q9I0P5 Putrescine/agmatine-binding protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
    39% identity, 100% coverage of query (285 bits)

PCABP_PSEAE / Q9HY16 Putrescine/cadaverine-binding protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
    33% identity, 99% coverage of query (201 bits)

7xjnA / Q9KS37 Structure of vcpotd1 in complex with norspermidine
    31% identity, 87% coverage of query (162 bits)

A0A116LEI2 ABC-type polyamine transporter (subunit 1/4) (EC 7.6.2.11) from Streptococcus suis (see paper)
    31% identity, 95% coverage of query (162 bits)

PotD / b1123 spermidine preferential ABC transporter periplasmic binding protein (EC 7.6.2.11; EC 7.6.2.16) from Escherichia coli K-12 substr. MG1655 (see 5 papers)
PotD / P0AFK9 spermidine preferential ABC transporter periplasmic binding protein (EC 7.6.2.11) from Escherichia coli (strain K12) (see 11 papers)
POTD_ECOLI / P0AFK9 Spermidine/putrescine-binding periplasmic protein; SPBP from Escherichia coli (strain K12) (see paper)
TC 3.A.1.11.1 / P0AFK9 Spermidine/putrescine-binding periplasmic protein PotD aka B1123, component of Polyamine (putrescine/spermidine) uptake porter from Escherichia coli (see 8 papers)
potD spermidine/putrescine ABC transporter, periplasmic spermidine/putrescine-binding protein PotD from Escherichia coli K12 (see 9 papers)
    32% identity, 86% coverage of query (161 bits)

1poy1 / P0AFK9 Spermidine/putrescine-binding protein complexed with spermidine (dimer form) (see paper)
    32% identity, 86% coverage of query (161 bits)

4eqbA 1.5 angstrom crystal structure of spermidine/putrescine abc transporter substrate-binding protein potd from streptococcus pneumoniae strain canada mdr_19a in complex with calcium and hepes
    30% identity, 94% coverage of query (160 bits)

Build an alignment

Build an alignment for GFF3389 and 19 homologs with ≥ 30% identity

Select sequences

Add sequences from UniProt, PDB, RefSeq, or MicrobesOnline (separate identifiers with commas or spaces):

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Additional hits (identity < 30%)

TC 3.A.1.11.7 / Q97Q45 Spermidine/putrescine ABC transporter, spermidine/putrescine-binding protein, component of The spermidine/putrescine uptake porter, PotABCD from Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
    28% identity, 94% coverage of query (155 bits)

Q8YM93 ABC-type polyamine transporter (subunit 2/3) (EC 7.6.2.11) from Nostoc sp. PCC 7120 = FACHB-418 (see paper)
    28% identity, 97% coverage of query (152 bits)

O83661 ABC-type putrescine transporter (EC 7.6.2.16) from Treponema pallidum (see paper)
    30% identity, 75% coverage of query (114 bits)

NSPS_VIBCH / Q9KU25 Norspermidine sensor; Norspermidine-binding protein from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) (see paper)
    24% identity, 92% coverage of query (61.6 bits)

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by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory