SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_012973513.1 NCBI__GCF_000010725.1:WP_012973513.1 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 18 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)
66% identity, 98% coverage: 3:201/203 of query aligns to 539:734/758 of O14289

query
sites
O14289

K

K

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F

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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)
41% identity, 98% coverage: 1:199/203 of query aligns to 1:192/198 of P9WK95

query
sites
P9WK95

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K154 (≠ E161) modified: Isoglutamyl lysine isopeptide (Lys-Gln) (interchain with Q-Cter in protein Pup)

2pkpA Crystal structure of 3-isopropylmalate dehydratase (leud)from methhanocaldococcus jannaschii dsm2661 (mj1271) (see paper)
34% identity, 66% coverage: 18:151/203 of query aligns to 13:126/167 of 2pkpA

query
sites
2pkpA

N
x
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binding zinc ion: D13 (≠ N18), C63 (= C79)

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)
34% identity, 66% coverage: 18:151/203 of query aligns to 13:126/170 of Q58667

query
sites
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 (= T32) 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.

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)
36% identity, 28% coverage: 70:125/203 of query aligns to 805:860/931 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.

P20004 Aconitate hydratase, mitochondrial; Aconitase; Citrate hydro-lyase; EC 4.2.1.3 from Bos taurus (Bovine) (see 2 papers)
37% identity, 32% coverage: 55:119/203 of query aligns to 643:707/780 of P20004

query
sites
P20004

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SR 670:671 (= SR 82:83) 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

P19414 Aconitate hydratase, mitochondrial; Aconitase; Citrate hydro-lyase; EC 4.2.1.3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 2 papers)
32% identity, 40% coverage: 48:129/203 of query aligns to 633:724/778 of P19414

query
sites
P19414

Y

Y

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Sites not aligning to the query:

1:16 modified: transit peptide, Mitochondrion
604 R→K: Strongly diminishes the catalytic activity towards both known substrates, aconitate and homoaconitate.

5acnA Structure of activated aconitase. Formation of the (4fe-4s) cluster in the crystal (see paper)
35% identity, 32% coverage: 55:119/203 of query aligns to 616:680/754 of 5acnA

query
sites
5acnA

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active site: S642 (= S81), R644 (= R83)
binding tricarballylic acid: R666 (≠ D105)

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

P09339 Aconitate hydratase A; ACN; Aconitase; Aconitate/2-methylaconitate hydratase; Iron-responsive protein-like; IRP-like; RNA-binding protein; EC 4.2.1.3; EC 4.2.1.- from Bacillus subtilis (strain 168) (see 2 papers)
33% identity, 40% coverage: 48:129/203 of query aligns to 757:841/909 of P09339

query
sites
P09339

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Sites not aligning to the query:

1 modified: Initiator methionine, Removed
450 C→S: Loss of aconitase activity. It is glutamate auxotroph and accumulates citrate. Exhibits overexpression of the citB promoter and accumulates high levels of inactive aconitase.
741 R→E: Same aconitase activity compared to the wild-type. It is glutamate prototroph and accumulates citrate. Exhibits overexpression of the citB promoter and accumulates high levels of active aconitase.

P39533 Homocitrate dehydratase, mitochondrial; Aconitase 2; EC 4.2.1.- from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see paper)
27% identity, 56% coverage: 48:161/203 of query aligns to 636:760/789 of P39533

query
sites
P39533

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L

A

V

P

K

S

S

F

F

A

A

D

R

I

I

F

H

Y

E

N

T

N

N

C

L

F

K

K

K

N

Q

G

G

I

V

L

L

P

P

I

L

K

T

L

F

P

A

K

N

E

E

Q

S

-

D

-

Y

-

D

-

K

-

I

-

S

-

G

-

D

-

V

-

L

-

E

-

T

-

L

-

N

-

L

V

V

D

D

L

M

L

I

L

A

D

K

D

D

A

G

S

N

R

N

G

G

S

G

N

E

A

-

V

-

T

-

V

I

D

D

L

V

E

K

K

-

Q

-

T

-

I

I

T

T

G

K

P

P

D

N

G

G

G

E

T

S

L

F

S

T

F

I

E

K

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.

P16276 Aconitate hydratase, mitochondrial; Aconitase; Citrate hydro-lyase; EC 4.2.1.3 from Sus scrofa (Pig) (see 3 papers)
35% identity, 32% coverage: 55:119/203 of query aligns to 643:707/781 of P16276

query
sites
P16276

I

V

P

P

D

D

F

T

V

A

L

R

N

Y

R

Y

Q

K

A

Q

Y

H

R

G

K

I

A

R

S

W

I

V

L

V

V

I

A

G

G

D

D

E

N

N

F

Y

G

G

C

E

G

G

S

S

S
|
S

R
|
R

E

E

H

H

A

R

P

A

W

L

A

E

L

P

A

R

D

H

F

L

G

G

I

G

R

R

C

A

I

I

A

T

P

K

S

S

F

F

A

A

D

R

I

I

F

H

Y

E

N

T

N

N

C

L

F

K

K

K

N

Q

G

G

I

L

L

L

P

P

I

L

SR 670:671 (= SR 82:83) binding substrate

Sites not aligning to the query:

28 modified: Pyrrolidone carboxylic acid
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

8acnA Crystal structures of aconitase with isocitrate and nitroisocitrate bound (see paper)
35% identity, 32% coverage: 55:119/203 of query aligns to 615:679/753 of 8acnA

query
sites
8acnA

I

V

P

P

D

D

F

T

V

A

L

R

N

Y

R

Y

Q

K

A

Q

Y

H

R

G

K

I

A

R

S

W

I

V

L

V

V

I

A

G

G

D

D

E

N

N

F

Y

G

G

C

E

G

G

S
|
S

R
|
R

E

E

H

H

A

S

P

A

W

L

A

E

L

P

A

R

D

F

F

L

G

G

I

G

R

R

C

A

I

I

A

T

P

K

S

S

F

F

A

A

D

R

I

I

F

H

Y

E

N

T

N

N

C

L

F

K

K

K

N

Q

G

G

I

L

L

L

P

P

I

L

active site: S641 (= S81), R643 (= R83)
binding nitroisocitric acid: S641 (= S81), S642 (= S82), R643 (= R83)

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)
35% identity, 32% coverage: 55:119/203 of query aligns to 615:679/753 of 1fghA

query
sites
1fghA

I

V

P

P

D

D

F

T

V

A

L

R

N

Y

R

Y

Q

K

A

Q

Y

H

R

G

K

I

A

R

S

W

I

V

L

V

V

I

A

G

G

D

D

E

N

N

F

Y

G

G

C

E

G

G

S
|
S

R
|
R

E

E

H

H

A

S

P

A

W

L

A

E

L

P

A

R

D

F

F

L

G

G

I

G

R

R

C

A

I

I

A

T

P

K

S

S

F

F

A

A

D

R

I

I

F

H

Y

E

N

T

N

N

C

L

F

K

K

K

N

Q

G

G

I

L

L

L

P

P

I

L

active site: S641 (= S81), R643 (= R83)
binding 4-hydroxy-aconitate ion: S641 (= S81), S642 (= S82), R643 (= R83)

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)
35% identity, 32% coverage: 55:119/203 of query aligns to 615:679/753 of 1amjA

query
sites
1amjA

I

V

P

P

D

D

F

T

V

A

L

R

N

Y

R

Y

Q

K

A

Q

Y

H

R

G

K

I

A

R

S

W

I

V

L

V

V

I

A

G

G

D

D

E

N

N

F

Y

G

G

C

E

G

G

S
|
S

S

S

R
|
R

E

E

H

H

A

S

P

A

W

L

A

E

L

P

A

R

D

F

F

L

G

G

I

G

R

R

C

A

I

I

A

T

P

K

S

S

F

F

A

A

D

R

I

I

F

H

Y

E

N

T

N

N

C

L

F

K

K

K

N

Q

G

G

I

L

L

L

P

P

I

L

active site: S641 (= S81), R643 (= R83)
binding sulfate ion: R643 (= R83)

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)
35% identity, 32% coverage: 55:119/203 of query aligns to 615:679/753 of 1amiA

query
sites
1amiA

I

V

P

P

D

D

F

T

V

A

L

R

N

Y

R

Y

Q

K

A

Q

Y

H

R

G

K

I

A

R

S

W

I

V

L

V

V

I

A

G

G

D

D

E

N

N

F

Y

G

G

C

E

G

G

S
|
S

R
|
R

E

E

H

H

A

S

P

A

W

L

A

E

L

P

A

R

D

F

F

L

G

G

I

G

R

R

C

A

I

I

A

T

P

K

S

S

F

F

A

A

D

R

I

I

F

H

Y

E

N

T

N

N

C

L

F

K

K

K

N

Q

G

G

I

L

L

L

P

P

I

L

active site: S641 (= S81), R643 (= R83)
binding alpha-methylisocitric acid: S641 (= S81), S642 (= S82), R643 (= R83)

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)
35% identity, 32% coverage: 55:119/203 of query aligns to 615:679/753 of 1acoA

query
sites
1acoA

I

V

P

P

D

D

F

T

V

A

L

R

N

Y

R

Y

Q

K

A

Q

Y

H

R

G

K

I

A

R

S

W

I

V

L

V

V

I

A

G

G

D

D

E

N

N

F

Y

G

G

C

E

G

G

S
|
S

R
|
R

E

E

H

H

A

S

P

A

W

L

A

E

L

P

A

R

D

F

F

L

G

G

I

G

R

R

C

A

I

I

A

T

P

K

S

S

F

F

A

A

D

R

I

I

F

H

Y

E

N

T

N

N

C

L

F

K

K

K

N

Q

G

G

I

L

L

L

P

P

I

L

active site: S641 (= S81), R643 (= R83)
binding aconitate ion: S641 (= S81), S642 (= S82), R643 (= R83)

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

P21399 Cytoplasmic aconitate hydratase; Aconitase; Citrate hydro-lyase; Ferritin repressor protein; Iron regulatory protein 1; IRP1; Iron-responsive element-binding protein 1; IRE-BP 1; EC 4.2.1.3 from Homo sapiens (Human) (see 2 papers)
34% identity, 40% coverage: 48:129/203 of query aligns to 743:827/889 of P21399

query
sites
P21399

Y

H

T

L

P

P

D

S

G

G

Q

-

E

E

I

I

P

L

D

D

F

V

V

F

L

D

N

A

R

A

Q

E

A

R

Y

Y

R

Q

K

Q

A

A

S

G

-

L

-

P

-

L

I

I

L

V

V

L

A

A

G

G

D

K

N

E

F

Y

G

G

C

A

G

G

S
|
S

S

S

R
|
R

E

D

H

W

A

A

P

A

W

K

A

G

L

P

A

F

D

L

F

L

G

G

I

I

R

K

C

A

I

V

I

L

A

A

P

E

S

S

F

Y

A

E

D

R

I

I

F

H

Y

R

N

S

N

N

C

L

F

V

K

G

N

M

G

G

I

V

L

I

P

P

I

L

K

E

-

Y

L

L

P

P

K

G

E

E

Q

N

V

A

D

D

L

A

L

L

S778 (= S81) mutation to A: No effect on iron-regulated RNA binding. Loss of aconitase activity.
R780 (= R83) mutation to Q: Nearly abolishes RNA binding.

Sites not aligning to the query:

300 C→S: No effect on aconitase activity or on RNA binding.
318 T → M: in dbSNP:rs150373174
437 C→S: Loss of aconitase activity. Leads to constitutive RNA binding, irrespective of iron levels.
503 C→S: Loss of aconitase activity. Leads to constitutive RNA binding, irrespective of iron levels.
506 C→S: Loss of aconitase activity. Leads to constitutive RNA binding, irrespective of iron levels.
536 R→Q: Strongly reduced RNA binding.
541 R→Q: Strongly reduced RNA binding.
699 R→K: No effect on RNA binding.

2b3xA Structure of an orthorhombic crystal form of human cytosolic aconitase (irp1) (see paper)
34% identity, 40% coverage: 48:129/203 of query aligns to 742:826/888 of 2b3xA

query
sites
2b3xA

Y

H

T

L

P

P

D

S

G

G

Q

-

E

E

I

I

P

L

D

D

F

V

V

F

L

D

N

A

R

A

Q

E

A

R

Y

Y

R

Q

K

Q

A

A

S

G

-

L

-

P

-

L

I

I

L

V

V

L

A

A

G

G

D

K

N

E

F

Y

G

G

C

A

G

G

S
|
S

S

S

R
|
R

E

D

H

W

A

A

P

A

W

K

A

G

L

P

A

F

D

L

F

L

G

G

I

I

R

K

C

A

I

V

I

L

A

A

P

E

S

S

F

Y

A

E

D

R

I

I

F

H

Y

R

N

S

N

N

C

L

F

V

K

G

N

M

G

G

I

V

L

I

P

P

I

L

K

E

-

Y

L

L

P

P

K

G

E

E

Q

N

V

A

D

D

L

A

L

L

active site: S777 (= S81), R779 (= R83)

Sites not aligning to the query:

active site: 124, 125, 204, 535
binding iron/sulfur cluster: 175, 206, 436, 502, 505, 506, 534

Query Sequence

>WP_012973513.1 NCBI__GCF_000010725.1:WP_012973513.1
MEKFTVLTGVAAPLPMINVDTDMIIPKQFLKTIKRTGLGKHLFDEMRYTPDGQEIPDFVL
NRQAYRKASILVAGDNFGCGSSREHAPWALADFGIRCIIAPSFADIFYNNCFKNGILPIK
LPKEQVDLLLDDASRGSNAVVTVDLEKQTITGPDGGTLSFELDPFRKHCLLNGLDDIGLT
LQQSAHIDGYEGKQRAGQPWMWG

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