SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_069330801.1 NCBI__GCF_003046325.1:WP_069330801.1 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 11 hits to proteins with known functional sites (download)

Q6BF16 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; 2-oxo-3-deoxygalactonate 6-phosphate aldolase; 6-phospho-2-dehydro-3-deoxygalactonate aldolase; 6-phospho-2-keto-3-deoxygalactonate aldolase; KDPGal aldolase; EC 4.1.2.21 from Escherichia coli (strain K12) (see paper)
47% identity, 97% coverage: 4:199/202 of query aligns to 8:203/205 of Q6BF16

query
sites
Q6BF16

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E37 (= E33) mutation to N: 50-fold decrease in catalytic efficiency and 6-fold decrease of binding affinity.
K126 (= K122) active site, Schiff-base intermediate with substrate
V154 (= V150) mutation to T: Little stereoselectivity, accepting KDPG and KDPGal as substrate with roughly equal efficacy. Reduced the preference for KDPGal. It diminishes the activity against KDPGal and increases activity against KDPG.

2v82A Kdpgal complexed to kdpgal (see paper)
47% identity, 97% coverage: 4:199/202 of query aligns to 7:202/205 of 2v82A

query
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2v82A

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active site: E36 (= E33), N40 (= N37), K125 (= K122)
binding 2-keto-deoxy-galactose: R13 (= R10), T65 (= T62), V84 (= V81), T85 (≠ S82), K125 (= K122), F127 (= F124), V153 (= V150), G175 (= G172), S176 (≠ T173)

Sites not aligning to the query:

binding 2-keto-deoxy-galactose: 205

1wa3D Mechanism of the class i kdpg aldolase (see paper)
32% identity, 95% coverage: 2:193/202 of query aligns to 8:196/203 of 1wa3D

query
sites
1wa3D

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active site: E39 (= E33), T43 (≠ N37), K128 (= K122)
binding pyruvic acid: T68 (= T62), S88 (= S82), P89 (= P83), K128 (= K122), F130 (= F124)
binding sulfate ion: G157 (= G152), G177 (= G172), S178 (≠ T173)

6oviA Crystal structure of kdpg aldolase from legionella pneumophila with pyruvate captured at low ph as a covalent carbinolamine intermediate
31% identity, 69% coverage: 2:140/202 of query aligns to 11:146/210 of 6oviA

query
sites
6oviA

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binding 2,2-bis(oxidanyl)propanoic acid: E42 (= E33), R46 (≠ N37), T70 (= T62), P91 (= P83), K130 (= K122), F132 (= F124)

1euaA Schiff base intermediate in kdpg aldolase from escherichia coli (see paper)
31% identity, 62% coverage: 19:143/202 of query aligns to 31:152/213 of 1euaA

query
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1euaA

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active site: E45 (= E33), R49 (≠ N37), K133 (= K122)
binding pyruvic acid: E45 (= E33), T73 (= T62), I92 (≠ V81), K133 (= K122)

P0A955 KHG/KDPG aldolase; (4S)-4-hydroxy-2-oxoglutarate aldolase; 2-dehydro-3-deoxy-phosphogluconate aldolase; 2-keto-3-deoxy-6-phosphogluconate aldolase; KDPG aldolase; 2-keto-4-hydroxyglutarate aldolase; KHG aldolase; Ketohydroxyglutarate aldolase; Entner-Douderoff aldolase; Oxaloacetate decarboxylase; Phospho-2-dehydro-3-deoxygluconate aldolase; Phospho-2-keto-3-deoxygluconate aldolase; EC 4.1.3.42; EC 4.1.2.14; EC 4.1.1.112 from Escherichia coli (strain K12) (see 5 papers)
31% identity, 62% coverage: 19:143/202 of query aligns to 31:152/213 of P0A955

query
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P0A955

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E45 (= E33) mutation to N: Aldolase activity is significantly impaired.
R49 (≠ N37) binding pyruvate
T73 (= T62) binding pyruvate
K133 (= K122) active site, Schiff-base intermediate with substrate; binding covalent; mutation to Q: Absence of aldolase activity. Has reduced catalytic efficiency relative to wild-type protein but demonstrates a considerably altered substrate profile with an enhanced activity against pyridine carboxaldehyde, benzaldehyde and alpha-ketobutyrate; when associated with K-161.

Sites not aligning to the query:

161 T→A: 13-fold decrease in catalytic efficiency with KDPG as substrate and 250-fold increase in catalytic efficiency with KDPGal as substrate.; T→K: Has reduced catalytic efficiency relative to wild-type protein but demonstrates a considerably altered substrate profile with an enhanced activity against pyridine carboxaldehyde, benzaldehyde and alpha-ketobutyrate; when associated with Q-133.; T→V: Shows little stereoselectivity, accepting KDPG and KDPGal as substrate with roughly equal efficacy. The change in specificity is accompanied by a very significant loss of activity against KDPG and a 5-fold increase in catalytic efficiency with KDPGal as substrate.
168 N→S: Shows activity significantly greater than wild-type.
184 S→A: 1.35-fold decrease in catalytic efficiency with KDPG as substrate. Has only a modest effect on the catalytic efficiency with KDG or KHO as substrate.; S→D: 300-fold decrease in catalytic efficiency with KDPG as substrate. Increases the efficiency for retro-aldol cleavage of both KDG and KHO. Enhances the selectivity for reaction with KHO compared to KDPG by 780-fold.; S→L: 4-fold decrease in catalytic efficiency with KDPG as substrate. Increases the efficiency for retro-aldol cleavage of both KDG and KHO. 40-fold increase in catalytic efficiency for the synthesis of KHPB, a precursor of nikkomycin, making this mutant a useful biocatalyst for the preparation of fine chemicals.

2c0aB Mechanism of the class i kdpg aldolase (see paper)
30% identity, 62% coverage: 19:143/202 of query aligns to 32:153/214 of 2c0aB

query
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2c0aB

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S

T

T

A

V

T

S

E

E

C

L

F

M

R

L

A

G

I

M

R

D

A

Y

G

G

A

L

D

K

G
x
E

L

F

K
|
K

L

F

F

F

P

P

A

A

S

E

L

A

A

N

G

G

P

-

A

-

G

G

L

V

Q

K

A

A

L

L

R

Q

A

A

V

I

L

A

P

G

P

P

active site: N46 (≠ E33), R50 (≠ N37), K134 (= K122)
binding phosphate ion: E132 (≠ G120)

Sites not aligning to the query:

binding phosphate ion: 1, 5, 8, 9, 10

1wauA Structure of kdpg aldolase e45n mutant (see paper)
30% identity, 62% coverage: 19:143/202 of query aligns to 31:152/213 of 1wauA

query
sites
1wauA

P

P

V

M

G

A

A

K

S

A

L

L

I

V

D

A

A

G

G

G

I

V

D

R

R

V

I

L

E
x
N

V

V

P

T

L

L

N
x
R

S

T

P

E

D

C

A

A

L

V

E

D

S

A

V

I

R

R

R

A

L

I

V

A

T

K

R

E

F

V

G

P

E

E

R

-

A

A

L

I

I

V

G

G

A

A

G

G

T

T

V

V

L

L

S

N

P

P

E

Q

D

Q

V

L

L

A

R

E

V

V

A

T

D

E

L

A

G

G

A

A

R

Q

L

F

V

A

V

I

S

S

P

P

D

G

C

L

N

T

E

E

E

P

V

L

I

L

A

K

A

A

S

A

K

T

A

E

Q

G

G

T

L

I

V

P

S

L

V

I

P

P

G

G

V

I

F

S

T

T

A

V

T

S

E

E

C

L

F

M

R

L

A

G

I

M

R

D

A

Y

G

G

A

L

D

K

G

E

L

F

K
|
K

L

F

F

F

P

P

A

A

S

E

L

A

A

N

G

G

P

-

A

-

G

G

L

V

Q

K

A

A

L

L

R

Q

A

A

V

I

L

A

P

G

P

P

active site: N45 (≠ E33), R49 (≠ N37), K133 (= K122)

Sites not aligning to the query:

binding sulfate ion: 162, 163, 184

3vcrA Crystal structure of a putative kdpg (2-keto-3-deoxy-6- phosphogluconate) aldolase from oleispira antarctica (see paper)
32% identity, 77% coverage: 2:157/202 of query aligns to 11:171/216 of 3vcrA

query
sites
3vcrA

S

T

R

K

P

P

I

L

I

I

A

P

I

V

L

I

R

-

G

-

I

V

T

I

P

D

D

D

E

L

V

V

E

H

-

A

-

I

P

P

V

M

G

A

A

K

S

A

L

L

I

V

D

A

A

G

G

G

I

V

D

H

R

L

I

L

E
|
E

V

V

P

T

L

L

N
x
R

S

T

P

E

D

A

A

G

L

L

E

A

S

A

V

I

R

S

R

A

L

I

V

K

T

K

R

A

F

V

G

P

E

E

R

-

A

A

L

I

I

V

G

G

A

A

G

G

T
|
T

V

V

L

C

S

T

P

A

E

D

D

D

V

F

L

Q

R

K

V

A

A

I

D

D

L

A

G

G

A

A

R

Q

L

F

V

I

V
|
V

S
|
S

P
|
P

D

G

C

L

N

T

E

P

E

E

V

L

I

I

A

E

A

K

S

A

K

K

A

Q

Q

V

G

K

L

L

-

D

-

G

-

Q

-

W

-

Q

-

G

V

V

S

F

V

L

P

P

G

G

V

V

F

A

T

T

A

A

T

S

E

E

C

V

F

M

R

I

A

A

I

A

R

Q

A

A

G

G

A

I

D

T

G

Q

L

L

K
|
K

L

C

F

F

P

P

A

A

S

S

L

A

A

I

G

G

P

G

A

A

G

K

L

L

Q

L

A

K

L

A

R

W

A

S

V

G

L

P

P

F

P

P

A

D

V

I

P

Q

V

F

Y

C

A

P

V

T

G

G

A

I

E

S

A

K

D

D

T

N

active site: E42 (= E33), R46 (≠ N37), K136 (= K122)
binding pyruvic acid: R46 (≠ N37), T70 (= T62), V89 (= V81), S90 (= S82), P91 (= P83)

5xsfA Crystal structure of the 2-keto-3-deoxy-6-phosphogluconate aldolase of zymomonas mobilis zm4 with 3-phosphoglycerate
31% identity, 62% coverage: 16:140/202 of query aligns to 25:145/209 of 5xsfA

query
sites
5xsfA

E
x
D

V

A

E

K

P

P

V

I

G

A

A

E

S

A

L

L

I

V

D

A

A

G

G

G

I

L

D

N

R

V

I

L

E

E

V

V

P

T

L

L

N

R

S

T

P

P

D

C

A

A

L

L

E

E

S

A

V

I

R

K

R

I

L

M

V

K

T

E

R

V

F

P

G

G

E

-

R

-

A

A

L

V

I

V

G

G

A

A

G

G

T

T

V

V

L

L

S

N

P

A

E

K

D

M

V

L

L

D

R

Q

V

A

A

Q

D

E

L

A

G

G

A

C

R

E

L

F

V

F

V

V

S

S

P

P

D

G

C

L

N

T

E

A

E

D

V

L

I

G

A

K

A

H

S

A

K

V

A

A

Q

Q

G

K

L

A

V

A

S

L

V

L

P

P

G

G

V

V

F

A

T

N

A

A

T

A

E

D

C

V

F

M

R

L

A

G

I

L

R

D

A

L

G

G

A

L

D

D

G

R

L

F

K

K

L

F

F

F

P

P

A

A

S

E

L

N

A

I

G

G

P

-

A

-

G

G

L

L

Q

P

A

A

L

L

R

K

A

S

V

M

binding 3-hydroxypyruvic acid: D25 (≠ E16)

Sites not aligning to the query:

binding 3-hydroxypyruvic acid: 19, 21, 22

1mxsA Crystal structure of 2-keto-3-deoxy-6-phosphogluconate (kdpg) aldolase from pseudomonas putida. (see paper)
32% identity, 67% coverage: 4:139/202 of query aligns to 21:150/216 of 1mxsA

query
sites
1mxsA

P

P

I

V

I

I

A

T

I

I

L

A

R

R

G

-

I

-

T

-

P

E

D

E

E

D

V

I

E

L

P

P

V

L

G

A

A

D

S

A

L

L

I

A

D

A

A

G

G

G

I

I

D

R

R

T

I

L

E
|
E

V

V

P

T

L

L

N
x
R

S

S

P

Q

D

H

A

G

L

L

E

K

S

A

V

I

R

Q

R

V

L

L

V

R

T

E

R

Q

F

R

G

P

E

E

R

L

A

C

L

-

I

V

G

G

A

A

G

G

T
|
T

V

V

L

L

S

D

P

R

E

S

D

M

V

F

L

A

R

A

V

V

A

E

D

A

L

A

G

G

A

A

R

Q

L

F

V

V

V
|
V

S
x
T

P
|
P

D

G

C

I

N

T

E

E

E

D

V

I

I

L

A

E

A

A

S

G

K

V

A

D

Q

S

G

E

L

I

V

P

S

L

V

L

P

P

G

G

V

I

F

S

T

T

A

P

T

S

E

E

C

I

F

M

R

M

A

G

I

Y

R

A

A

L

G

G

A

Y

D

R

G

R

L

F

K
|
K

L

L

F

F

P

P

A

A

S

E

L

I

A

S

G

G

P

-

A

-

G

G

L

V

Q

A

A

A

L

I

R

K

A

A

active site: E47 (= E33), R51 (≠ N37), K135 (= K122)
binding sulfate ion: E47 (= E33), R51 (≠ N37), T75 (= T62), V94 (= V81), T95 (≠ S82), P96 (= P83), K135 (= K122)

Query Sequence

>WP_069330801.1 NCBI__GCF_003046325.1:WP_069330801.1
MSRPIIAILRGITPDEVEPVGASLIDAGIDRIEVPLNSPDALESVRRLVTRFGERALIGA
GTVLSPEDVLRVADLGARLVVSPDCNEEVIAASKAQGLVSVPGVFTATECFRAIRAGADG
LKLFPASLAGPAGLQALRAVLPPAVPVYAVGGAEADTLGIWQRAGADGFGIGTALYRPGR
AASDVADRARRLVAAFDEACGA

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