SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_019555901.1 NCBI__GCF_000381085.1:WP_019555901.1 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 6 hits to proteins with known functional sites (download)

O14289 3-isopropylmalate dehydratase; Alpha-IPM isomerase; IPMI; Isopropylmalate isomerase; EC 4.2.1.33 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
51% identity, 98% coverage: 3:210/212 of query aligns to 539:734/758 of O14289

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O14289

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Sites not aligning to the query:

486 modified: Phosphoserine
488 modified: Phosphoserine

P9WK95 3-isopropylmalate dehydratase small subunit; Alpha-IPM isomerase; IPMI; Isopropylmalate isomerase; EC 4.2.1.33 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
40% identity, 94% coverage: 1:200/212 of query aligns to 1:184/198 of P9WK95

query
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P9WK95

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K154 (≠ E170) modified: Isoglutamyl lysine isopeptide (Lys-Gln) (interchain with Q-Cter in protein Pup)

Q58667 Methanogen homoaconitase small subunit; HACN; Homoaconitate hydratase; EC 4.2.1.114 from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii) (see paper)
35% identity, 53% coverage: 18:129/212 of query aligns to 13:104/170 of Q58667

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Q58667

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R26 (≠ K31) mutation R->K,V: Allows the recognition of substrates of IPMI enzymes since it becomes able to efficiently catalyze citraconate hydration and 3-isopropylmalate dehydration. Largely decreases substrate affinity for cis-homo(1-3)-aconitate.
T27 (≠ S32) mutation to A: Largely decreases substrate affinity for cis-homo(1-3)-aconitate while slightly increases activity on these substrates, and also decreases substrate affinity for maleate. Gains the ability to hydrate citraconate, an IPMI substrate.

2pkpA Crystal structure of 3-isopropylmalate dehydratase (leud)from methhanocaldococcus jannaschii dsm2661 (mj1271) (see paper)
35% identity, 53% coverage: 18:129/212 of query aligns to 13:104/167 of 2pkpA

query
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2pkpA

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binding zinc ion: D13 (≠ N18), C63 (= C88)

P20004 Aconitate hydratase, mitochondrial; Aconitase; Citrate hydro-lyase; EC 4.2.1.3 from Bos taurus (Bovine) (see 2 papers)
35% identity, 35% coverage: 58:132/212 of query aligns to 630:711/780 of P20004

query
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P20004

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SR 670:671 (= SR 91:92) binding substrate

Sites not aligning to the query:

99 binding substrate
192:194 binding substrate
385 binding [4Fe-4S] cluster
448 binding [4Fe-4S] cluster
451 binding [4Fe-4S] cluster
474 binding substrate
479 binding substrate
607 binding substrate

P39533 Homocitrate dehydratase, mitochondrial; Aconitase 2; EC 4.2.1.- from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see paper)
27% identity, 50% coverage: 80:186/212 of query aligns to 661:785/789 of P39533

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P39533

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Sites not aligning to the query:

610 K→R: Reduces catalytic activity towards homoaconitate by 45% and increases the activity towards aconitate by a factor 116.

Query Sequence

>WP_019555901.1 NCBI__GCF_000381085.1:WP_019555901.1
MEKFIKKTSIVAPMDRANVDTDAIIPKQFLKSIKRSGFGPNLFDEWRYEDVGQPDSDNSA
RPLRKEFVLNQPRYQSAHILLARENFGCGSSREHAPWALKDYGFDVVIAPSFADIFFNNC
FKNGIVPIVLEEAVVDGLFKDVFATEGYQLTVDLAAQQIIRPNGEAILFEVDTFRKHCLM
NGLDDIGLTLAYQDDIKAYEVKTKKTTPWLFN

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