SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_004040925.1 NCBI__GCF_000337315.1:WP_004040925.1 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 12 hits to proteins with known functional sites (download)

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)
42% identity, 89% coverage: 18:173/176 of query aligns to 5:159/170 of Q58667

query
sites
Q58667

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R26 (≠ V39) 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 (≠ S40) 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)
42% identity, 89% coverage: 18:173/176 of query aligns to 5:159/167 of 2pkpA

query
sites
2pkpA

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binding zinc ion: D13 (≠ N26), C63 (≠ S76)

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)
38% identity, 50% coverage: 26:113/176 of query aligns to 554:652/758 of O14289

query
sites
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)
36% identity, 62% coverage: 26:134/176 of query aligns to 18:126/198 of P9WK95

query
sites
P9WK95

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Sites not aligning to the query:

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

5acnA Structure of activated aconitase. Formation of the (4fe-4s) cluster in the crystal (see paper)
45% identity, 31% coverage: 68:122/176 of query aligns to 632:687/754 of 5acnA

query
sites
5acnA

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active site: S642 (= S78), R644 (= R80)
binding tricarballylic acid: R666 (= R102)

Sites not aligning to the query:

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

A0QX20 Aconitate hydratase A; ACN; Aconitase; (2R,3S)-2-methylisocitrate dehydratase; (2S,3R)-3-hydroxybutane-1,2,3-tricarboxylate dehydratase; Iron-responsive protein-like; IRP-like; Probable 2-methyl-cis-aconitate hydratase; RNA-binding protein; EC 4.2.1.3; EC 4.2.1.99 from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155) (Mycobacterium smegmatis) (see paper)
40% identity, 31% coverage: 68:122/176 of query aligns to 812:866/943 of A0QX20

query
sites
A0QX20

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Sites not aligning to the query:

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

D9X0I3 Aconitate hydratase A; ACN; Aconitase; EC 4.2.1.3 from Streptomyces viridochromogenes (strain DSM 40736 / JCM 4977 / BCRC 1201 / Tue 494) (see paper)
42% identity, 30% coverage: 68:119/176 of query aligns to 806:857/931 of D9X0I3

query
sites
D9X0I3

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Sites not aligning to the query:

125:129 mutation Missing: Retains 40% of aconitase activity. Improves RNA-binding ability.
538 C→A: Loss of aconitase activity. Cannot rescue the growth defect of a disruption mutant and results in only a slight increase in PTT production in the mutant. Shows weak IRE-binding activity.
763 R→E: Loss of aconitase activity and IRE-binding activity; when associated with E-767.
767 Q→E: Loss of aconitase activity and IRE-binding activity; when associated with E-763.

8acnA Crystal structures of aconitase with isocitrate and nitroisocitrate bound (see paper)
45% identity, 31% coverage: 68:122/176 of query aligns to 631:686/753 of 8acnA

query
sites
8acnA

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active site: S641 (= S78), R643 (= R80)
binding nitroisocitric acid: S641 (= S78), S642 (= S79), R643 (= R80)

Sites not aligning to the query:

active site: 99, 100, 164, 446
binding nitroisocitric acid: 71, 74, 100, 164, 165, 446, 451, 579
binding iron/sulfur cluster: 100, 164, 166, 356, 357, 420, 423, 424

1fghA Complex with 4-hydroxy-trans-aconitate (see paper)
45% identity, 31% coverage: 68:122/176 of query aligns to 631:686/753 of 1fghA

query
sites
1fghA

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active site: S641 (= S78), R643 (= R80)
binding 4-hydroxy-aconitate ion: S641 (= S78), S642 (= S79), R643 (= R80)

Sites not aligning to the query:

active site: 99, 100, 164, 446
binding 4-hydroxy-aconitate ion: 71, 74, 100, 164, 165, 446, 451, 579
binding iron/sulfur cluster: 100, 164, 166, 356, 357, 420, 423, 424, 451

1amjA Steric and conformational features of the aconitase mechanism (see paper)
45% identity, 31% coverage: 68:122/176 of query aligns to 631:686/753 of 1amjA

query
sites
1amjA

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active site: S641 (= S78), R643 (= R80)
binding sulfate ion: R643 (= R80)

Sites not aligning to the query:

active site: 99, 100, 164, 446
binding iron/sulfur cluster: 144, 166, 357, 420, 423
binding sulfate ion: 71, 579

1amiA Steric and conformational features of the aconitase mechanism (see paper)
45% identity, 31% coverage: 68:122/176 of query aligns to 631:686/753 of 1amiA

query
sites
1amiA

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active site: S641 (= S78), R643 (= R80)
binding alpha-methylisocitric acid: S641 (= S78), S642 (= S79), R643 (= R80)

Sites not aligning to the query:

active site: 99, 100, 164, 446
binding alpha-methylisocitric acid: 71, 74, 100, 164, 165, 446, 451, 579
binding iron/sulfur cluster: 100, 144, 164, 166, 356, 357, 420, 423, 445

1acoA Crystal structure of aconitase with transaconitate bound (see paper)
45% identity, 31% coverage: 68:122/176 of query aligns to 631:686/753 of 1acoA

query
sites
1acoA

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active site: S641 (= S78), R643 (= R80)
binding aconitate ion: S641 (= S78), S642 (= S79), R643 (= R80)

Sites not aligning to the query:

active site: 99, 100, 164, 446
binding iron/sulfur cluster: 100, 144, 164, 166, 356, 357, 420, 423, 445
binding aconitate ion: 71, 164, 165, 446, 451, 579

Query Sequence

>WP_004040925.1 NCBI__GCF_000337315.1:WP_004040925.1
MTDAFAGDGGRPDPAEPGRAWVFGDNIDTDQITPSRFIVSSDPDELATHAFEDLRPEFSE
SVEPGDFVVAGENFGSGSSREHSPLSLVGAGVSAVVAQSFARIFFRNAINLGLPVLICPG
ADVIEDDDEIHVDLDAGVVTNHTRDETYEAEALPEFLQSLVEQGGLKAYTKAKLDG

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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