Comparing GFF3305 FitnessBrowser__Marino:GFF3305 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)
4petA Crystal structure of a trap periplasmic solute binding protein from colwellia psychrerythraea (cps_0129, target efi-510097) with bound calcium and pyruvate (see paper)
64% identity, 91% coverage: 29:353/358 of query aligns to 4:328/329 of 4petA
5cm6A Crystal structure of a trap periplasmic solute binding protein from pseudoalteromonas atlantica t6c(patl_2292, target efi-510180) with bound sodium and pyruvate
65% identity, 91% coverage: 29:353/358 of query aligns to 3:327/331 of 5cm6A
7ug8B Crystal structure of a solute receptor from synechococcus cc9311 in complex with alpha-ketovaleric and calcium
37% identity, 88% coverage: 32:347/358 of query aligns to 8:322/330 of 7ug8B
2hzlB Crystal structures of a sodium-alpha-keto acid binding subunit from a trap transporter in its closed forms (see paper)
37% identity, 90% coverage: 30:350/358 of query aligns to 5:324/337 of 2hzlB
Q3J1R2 Alpha-keto acid-binding periplasmic protein TakP; Extracytoplasmic solute receptor protein TakP; TRAP transporter alpha-keto acid-binding subunit P; TRAP-T family sorbitol/mannitol transporter, periplasmic binding protein, SmoM from Cereibacter sphaeroides (strain ATCC 17023 / DSM 158 / JCM 6121 / CCUG 31486 / LMG 2827 / NBRC 12203 / NCIMB 8253 / ATH 2.4.1.) (Rhodobacter sphaeroides) (see paper)
37% identity, 90% coverage: 30:350/358 of query aligns to 33:352/365 of Q3J1R2
4yicA Crystal structure of a trap transporter solute binding protein (ipr025997) from bordetella bronchiseptica rb50 (bb0280, target efi- 500035) with bound picolinic acid
33% identity, 92% coverage: 25:352/358 of query aligns to 1:327/344 of 4yicA
Q5SK82 Lactate-binding periplasmic protein TTHA0766; ABC transporter, solute-binding protein; Extracytoplasmic solute receptor protein TTHA0766; TRAP transporter lactate-binding subunit P from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8) (see paper)
31% identity, 80% coverage: 4:289/358 of query aligns to 7:300/361 of Q5SK82
Sites not aligning to the query:
2zzwA Crystal structure of a periplasmic substrate binding protein in complex with zinc and lactate (see paper)
33% identity, 67% coverage: 49:289/358 of query aligns to 22:269/330 of 2zzwA
2zzvA Crystal structure of a periplasmic substrate binding protein in complex with calcium and lactate (see paper)
33% identity, 67% coverage: 49:289/358 of query aligns to 22:269/330 of 2zzvA
4pe3A Crystal structure of a trap periplasmic solute binding protein from rhodobacter sphaeroides (rsph17029_3620, target efi-510199), apo open structure (see paper)
29% identity, 64% coverage: 39:266/358 of query aligns to 14:238/315 of 4pe3A
Sites not aligning to the query:
7e9yA Crystal structure of elacco1 (see paper)
33% identity, 45% coverage: 49:208/358 of query aligns to 22:182/563 of 7e9yA
Sites not aligning to the query:
4xf5A Crystal structure of a trap periplasmic solute binding protein from chromohalobacter salexigens dsm 3043 (csal_0678), target efi-501078, with bound (s)-(+)-2-amino-1-propanol.
23% identity, 78% coverage: 57:335/358 of query aligns to 29:303/317 of 4xf5A
Sites not aligning to the query:
4uabA Crystal structure of a trap periplasmic solute binding protein from chromohalobacter salexigens dsm 3043 (csal_0678), target efi-501078, with bound ethanolamine (see paper)
23% identity, 78% coverage: 57:335/358 of query aligns to 28:302/315 of 4uabA
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)
24% identity, 78% coverage: 38:317/358 of query aligns to 12:294/314 of 4p8bA
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)
25% identity, 73% coverage: 7:269/358 of query aligns to 4:265/329 of P44542
4x8rA Crystal structure of a trap periplasmic solute binding protein from rhodobacter sphaeroides (rsph17029_2138, target efi-510205) with bound glucuronate
24% identity, 66% coverage: 30:264/358 of query aligns to 5:237/304 of 4x8rA
2cexB Structure of a sialic acid binding protein (siap) in the presence of the sialic acid acid analogue neu5ac2en (see paper)
26% identity, 61% coverage: 51:269/358 of query aligns to 23:241/305 of 2cexB
Sites not aligning to the query:
2cexA Structure of a sialic acid binding protein (siap) in the presence of the sialic acid acid analogue neu5ac2en (see paper)
26% identity, 61% coverage: 51:269/358 of query aligns to 23:241/304 of 2cexA
Sites not aligning to the query:
3b50A Structure of h. Influenzae sialic acid binding protein bound to neu5ac. (see paper)
26% identity, 61% coverage: 51:269/358 of query aligns to 24:242/310 of 3b50A
Sites not aligning to the query:
2wx9A Crystal structure of the sialic acid binding periplasmic protein siap (see paper)
26% identity, 61% coverage: 51:269/358 of query aligns to 24:242/308 of 2wx9A
Sites not aligning to the query:
>GFF3305 FitnessBrowser__Marino:GFF3305
MKIRSVLSAAVLAVATTFASSQALAQDTFTLRLAETWGPNFPIFGDTTKRFAETVEKMSD
GRLKVRIDSANKHKAPLGVFDMVKAGQYDMGHSASYYWKGKVPETLFFTSMPFGMIAMEQ
YAWFYHGGGMELMQEVYEPHNMLSFPGGNTGVQMGGWFRKEINSIDDLKGLKMRIPGFAG
EVFAEVGVNPTNIAPGELYTALERNTIDAVEWVGPALDLRLGFQQIADYYYTGWHEPATE
LQFLVNKRVWDKLPADLQEIMRVAMRTASYDMLVQSQHANAEAWANIKEEYPNVQIKQFP
DDVFDAMYAANEKLLDEAAEGSEMAAKIIESQQNYLEKSRAYTDISERAYLNTMAEVE
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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