SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing 14217 b0071 isopropylmalate isomerase small subunit (NCBI) 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 5 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)
50% identity, 96% coverage: 4:196/201 of query aligns to 539:727/758 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)
43% identity, 96% coverage: 3:194/201 of query aligns to 2:185/198 of P9WK95

query
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P9WK95

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K154 (≠ T163) 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, 67% coverage: 19:153/201 of query aligns to 13:125/170 of Q58667

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Q58667

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R26 (≠ Q32) 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 (≠ K33) 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, 67% coverage: 19:153/201 of query aligns to 13:125/167 of 2pkpA

query
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2pkpA

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binding zinc ion: D13 (≠ N19), C63 (= C82)

5acnA Structure of activated aconitase. Formation of the (4fe-4s) cluster in the crystal (see paper)
34% identity, 35% coverage: 57:126/201 of query aligns to 615:684/754 of 5acnA

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active site: S642 (= S84), R644 (= R86)
binding tricarballylic acid: R666 (≠ D108)

Sites not aligning to the query:

active site: 100, 101, 165, 447
binding fe3-s4 cluster: 101, 145, 147, 165, 167, 357, 358, 421, 424, 425, 446
binding tricarballylic acid: 198, 235, 730

Query Sequence

>14217 b0071 isopropylmalate isomerase small subunit (NCBI)
MAEKFIKHTGLVVPLDAANVDTDAIIPKQFLQKVTRTGFGAHLFNDWRFLDEKGQQPNPD
FVLNFPQYQGASILLARENFGCGSSREHAPWALTDYGFKVVIAPSFADIFYGNSFNNQLL
PVKLSDAEVDELFALVKANPGIHFDVDLEAQEVKAGEKTYRFTIDAFRRHCMMNGLDSIG
LTLQHDDAIAAYEAKQPAFMN

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