Comparing GFF2613 FitnessBrowser__psRCH2:GFF2613 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 20 (the maximum) hits to proteins with known functional sites (download)
A3QCW5 C4-dicarboxylate-binding periplasmic protein DctP from Shewanella loihica (strain ATCC BAA-1088 / PV-4) (see paper)
53% identity, 95% coverage: 16:327/329 of query aligns to 18:335/336 of A3QCW5
7bbrA Crystal structure of the sugar acid binding protein dctpam from advenella mimigardefordensis strain dpn7t (see paper)
29% identity, 91% coverage: 25:322/329 of query aligns to 5:302/310 of 7bbrA
7bcrA Crystal structure of the sugar acid binding protein dctpam from advenella mimigardefordensis strain dpn7t in complex with galactonate (see paper)
29% identity, 91% coverage: 25:322/329 of query aligns to 4:301/310 of 7bcrA
7bcpA Crystal structure of the sugar acid binding protein dctpam from advenella mimigardefordensis strain dpn7t in complex with gluconate (see paper)
29% identity, 91% coverage: 25:322/329 of query aligns to 4:301/310 of 7bcpA
7bcoA Crystal structure of the sugar acid binding protein dctpam from advenella mimigardefordensis strain dpn7t in complex with d-foconate (see paper)
29% identity, 91% coverage: 25:322/329 of query aligns to 4:301/310 of 7bcoA
7bcnA Crystal structure of the sugar acid binding protein dctpam from advenella mimigardefordensis strain dpn7t in complex with xylonic acid (see paper)
29% identity, 91% coverage: 25:322/329 of query aligns to 4:301/310 of 7bcnA
4x8rA Crystal structure of a trap periplasmic solute binding protein from rhodobacter sphaeroides (rsph17029_2138, target efi-510205) with bound glucuronate
30% identity, 87% coverage: 26:311/329 of query aligns to 4:287/304 of 4x8rA
4n8yA Crystal structure of a trap periplasmic solute binding protein from bradyrhizobium sp. Btai1 b (bbta_0128), target efi-510056 (bbta_0128), complex with alpha/beta-d-galacturonate (see paper)
29% identity, 78% coverage: 57:314/329 of query aligns to 32:287/300 of 4n8yA
Sites not aligning to the query:
Q0B2F6 Solute-binding protein Bamb_6123 from Burkholderia ambifaria (strain ATCC BAA-244 / AMMD) (Burkholderia cepacia (strain AMMD)) (see paper)
28% identity, 93% coverage: 8:312/329 of query aligns to 11:312/328 of Q0B2F6
4n17A Crystal structure of a trap periplasmic solute binding protein from burkholderia ambifaria (bam_6123), target efi-510059, with bound beta-d-galacturonate (see paper)
29% identity, 78% coverage: 57:312/329 of query aligns to 32:286/301 of 4n17A
Sites not aligning to the query:
4n15A Crystal structure of a trap periplasmic solute binding protein from burkholderia ambifaria (bam_6123), target efi-510059, with bound beta-d-glucuronate (see paper)
29% identity, 78% coverage: 57:312/329 of query aligns to 32:286/301 of 4n15A
Sites not aligning to the query:
4p8bA Crystal structure of a trap periplasmic solute binding protein from ralstonia eutropha h16 (h16_a1328), target efi-510189, with bound (s)-2-hydroxy-2-methyl-3-oxobutanoate ((s)-2-acetolactate) (see paper)
27% identity, 91% coverage: 29:326/329 of query aligns to 6:310/314 of 4p8bA
7t3eA Structure of the sialic acid bound tripartite atp-independent periplasmic (trap) periplasmic component siap from photobacterium profundum (see paper)
30% identity, 81% coverage: 57:321/329 of query aligns to 34:295/300 of 7t3eA
Sites not aligning to the query:
P44542 Sialic acid-binding periplasmic protein SiaP; Extracytoplasmic solute receptor protein SiaP; N-acetylneuraminic-binding protein; Neu5Ac-binding protein from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (see 2 papers)
26% identity, 94% coverage: 9:316/329 of query aligns to 9:314/329 of P44542
4pddA Crystal structure of a trap periplasmic solute binding protein from polaromonas sp js666 (bpro_0088, target efi-510167) bound to d- erythronate (see paper)
27% identity, 91% coverage: 28:325/329 of query aligns to 4:299/303 of 4pddA
4nq8B Crystal structure of a trap periplasmic solute binding protein from bordetella bronchispeptica (bb3421), target efi-510039, with density modeled as pantoate (see paper)
26% identity, 90% coverage: 26:322/329 of query aligns to 2:295/301 of 4nq8B
4pakA Crystal structure of a trap periplasmic solute binding protein from verminephrobacter eiseniae ef01-2 (veis_3954, target efi-510324) a nephridial symbiont of the earthworm eisenia foetida, bound to (r)- pantoic acid (see paper)
29% identity, 91% coverage: 26:326/329 of query aligns to 5:303/304 of 4pakA
4p9kA Crystal structure of a trap periplasmic solute binding protein from verminephrobacter eiseniae ef01-2 (veis_3954, target efi-510324) a nephridial symbiont of the earthworm eisenia foetida, bound to d- erythronate with residual density suggestive of superposition with copurified alternative ligand. (see paper)
29% identity, 91% coverage: 26:326/329 of query aligns to 4:302/303 of 4p9kA
2cexB Structure of a sialic acid binding protein (siap) in the presence of the sialic acid acid analogue neu5ac2en (see paper)
26% identity, 88% coverage: 28:316/329 of query aligns to 4:290/305 of 2cexB
Sites not aligning to the query:
2v4cA Structure of sialic acid binding protein (siap) in the presence of kdn (see paper)
26% identity, 88% coverage: 28:316/329 of query aligns to 5:291/309 of 2v4cA
>GFF2613 FitnessBrowser__psRCH2:GFF2613
MLSNKLKALACALSFSIAGLVHADPVTIKFAHVVADNTPKGQGALLFKKLAEERLPGKVK
VEVYPNSSLFGDGKEMEALLLGDVHMLAPSLAKFEHYAKAIQIYDLPFLFDDLAAADRFQ
SGPQGKALLRAMEDKNITGLAYWHNGMKQLSANKPLREPKDARGLKFRVQASAVLDEQFK
AVRANPRKMSFAEVYQGLQTGVVNGTENTWSNYESQKVHEVQPYMTASDHGLIDYMVITN
TKFWNGLPEDLRGELETIMEEVTAEVNRQADDLNQQARQAIAASGKTEIIELTPEQRAQW
REAMKPVWKKFENEIGAELIEAAQAANRS
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SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.
Lawrence Berkeley National Laboratory