SitesBLAST

89:90 binding alpha-D-glucosamine 6-phosphate; binding N-acetyl-D-glucosamine 6-phosphate
133:135 binding alpha-D-glucosamine 6-phosphate; binding N-acetyl-D-glucosamine 6-phosphate
145 binding alpha-D-glucosamine 6-phosphate; binding N-acetyl-D-glucosamine 6-phosphate
165:167 binding alpha-D-glucosamine 6-phosphate; binding N-acetyl-D-glucosamine 6-phosphate
209 I→E: Abolishes GlcNAc6P binding.; I→L: No or little effects on GlcNAc6P binding.
222 binding alpha-D-glucosamine 6-phosphate; binding N-acetyl-D-glucosamine 6-phosphate; E→D: No or little effects on GlcNAc6P binding.
224 A→R: Abolishes GlcNAc6P binding.
228 binding alpha-D-glucosamine 6-phosphate; binding N-acetyl-D-glucosamine 6-phosphate

4u0yA Crystal structure of the DNA-binding domains of yvoa in complex with palindromic operator DNA (see paper)
100% identity, 100% coverage: 1:74/74 of query aligns to 2:75/75 of 4u0yA

query
sites
4u0yA

N

N

I

I

N

N

K

K

Q

Q

S

S

P

P

I

I

P

P

I

I

Y

Y

Q

Q

I

I

M

M

E

E

Q

Q

L

L

K

K

T

T

Q

Q

I

I

K

K

N

N

G

G

E

E

L

L

Q

Q

P

P

D

D

M

M

P

P

L

L

P

P

S
|
S

E
|
E

R
|
R

E

E

Y

Y

A

A

E

E

Q

Q

F

F

G

G

I

I

S
|
S

R
|
R

M
|
M

T

T

V

V

R
|
R

Q

Q

A

A

L

L

S

S

N

N

L

L

V

V

N

N

E

E

G

G

L

L

Y

Y

R
|
R

L

L

K
|
K

G
|
G

R
|
R

G
|
G

T
|
T

F

F

V

V

S

S

binding : S36 (= S35), E37 (= E36), R38 (= R37), S47 (= S46), R48 (= R47), M49 (= M48), R52 (= R51), R66 (= R65), K68 (= K67), G69 (= G68), G69 (= G68), R70 (= R69), G71 (= G70), T72 (= T71)

5d4sB Crystal structure of arar(dbd) in complex with operator orx1 (see paper)
45% identity, 91% coverage: 8:74/74 of query aligns to 17:83/83 of 5d4sB

query
sites
5d4sB

I

L

P
|
P

I
x
K

Y
|
Y

Y

A

Q

Q

I

V

M

K

E

E

Q

E

L

I

K

S

T

S

Q

W

I

I

K

N

N

Q

G

G

E

K

L

I

Q

L

P

P

D

D

M

Q

P

K

L

I

P

P

S
x
T

E
|
E

R

N

E

E

Y

L

A

M

E

Q

Q

Q

F

F

G

G

I

V

S
|
S

R
|
R

M
x
H

T
|
T

V

I

R
|
R

Q

K

A

A

L

I

S

G

N

D

L

L

V

V

N

S

E

Q

G

G

L

L

Y

Y

R

S

L

V

K
x
Q

G
|
G

R

G

G
|
G

T

T

F

F

V

V

S

A

binding : P18 (= P9), K19 (≠ I10), Y20 (= Y11), T44 (≠ S35), E45 (= E36), S55 (= S46), R56 (= R47), H57 (≠ M48), T58 (= T49), R60 (= R51), Q76 (≠ K67), Q76 (≠ K67), G77 (= G68), G77 (= G68), G79 (= G70)

O86331 HTH-type transcriptional regulator Rv0792c from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
45% identity, 91% coverage: 8:74/74 of query aligns to 20:86/269 of O86331

query
sites
O86331

I

V

P

P

I

A

Y

S

Y

T

Q

Q

I

L

M

A

E

E

Q

A

L

L

K

K

T

A

Q

Q

I

I

K

I

N

Q

G

Q

E

R

L

L

Q

P

P

R

D

G

M

G

P

R

L

L

P

P

S

S

E

E

R
|
R

E

E

Y

L

A

I

E

D

Q

R

F

S

G

G

I

L

S

S

R

R

M

V

T

T

V

V

R

R

Q

A

A

A

L

V

S

G

N

M

L

L

V

Q

N

R

E

Q

G

G

L

W

L

L

Y

V

R

R

L

R

K

Q

G
|
G

R

L

G

G

T

T

F

F

V

V

S

A

R49 (= R37) mutation to A: Decreases binding to DNA.
G80 (= G68) mutation to D: Decreases binding to DNA.

7zlaB Cryo-em structure of holo-pdxr from bacillus clausii bound to its target DNA in the half-closed conformation (see paper)
33% identity, 97% coverage: 2:73/74 of query aligns to 2:73/458 of 7zlaB

query
sites
7zlaB

I

L

N

N

K
x
R

Q

D

S

L

P

P

I

T

P
|
P

I
x
L

Y
|
Y

Y

E

Q

Q

I

L

M

Y

E

A

Q

H

L

I

K

K

T

T

Q

E

I

I

K

T

N

E

G

G

E

R

L

I

Q

G

P

Y

D

G

M

T

P

K

L

L

P

P

S
|
S

E
x
K

R
|
R

E
x
K

Y

L

A

A

E

D

Q

S

F

L

G

K

I

L

S

S

R
x
Q

M
x
N

T
|
T

V

V

R

E

Q

A

A

A

L

Y

S

E

N

Q

L

L

V

V

N

A

E

E

G

G

L

Y

L

V

Y

E

R

V

L

I

K

P

G
x
R

R

K

G

G

T

F

F

Y

V

V

binding : R4 (≠ K4), P9 (= P9), L10 (≠ I10), Y11 (= Y11), S35 (= S35), K36 (≠ E36), R37 (= R37), K38 (≠ E38), Q47 (≠ R47), Q47 (≠ R47), N48 (≠ M48), T49 (= T49), R68 (≠ G68)

7zn5B Cryo-em structure of holo-pdxr from bacillus clausii bound to its target DNA in the closed conformation, c2 symmetry. (see paper)
34% identity, 91% coverage: 7:73/74 of query aligns to 4:70/435 of 7zn5B

query
sites
7zn5B

P

P

I

T

P
|
P

I

L

Y

Y

Y

E

Q

Q

I

L

M

Y

E

A

Q

H

L

I

K

K

T

T

Q

E

I

I

K

T

N

E

G

G

E

R

L

I

Q

G

P

Y

D

G

M

T

P

K

L

L

P

P

S
|
S

E

K

R
|
R

E
x
K

Y

L

A

A

E

D

Q

S

F

L

G

K

I

L

S
|
S

R
x
Q

M
x
N

T

T

V

V

R
x
E

Q

A

A

A

L

Y

S

E

N

Q

L

L

V

V

N

A

E

E

G

G

L

Y

L

V

Y

E

R

V

L

I

K

P

G
x
R

R
x
K

G

G

T

F

F

Y

V

V

binding : P6 (= P9), S32 (= S35), R34 (= R37), K35 (≠ E38), S43 (= S46), Q44 (≠ R47), N45 (≠ M48), E48 (≠ R51), R65 (≠ G68), K66 (≠ R69)

Sites not aligning to the query:

binding : 341

6za0A Structure of the transcriptional repressor atu1419 (vanr) in complex with a fortuitous citrate from agrobacterium fabrum (p21212 space group) (see paper)
49% identity, 77% coverage: 17:73/74 of query aligns to 8:63/240 of 6za0A

query
sites
6za0A

Q

E

L

L

K

R

T

E

Q

K

I

I

K

L

N

S

G

G

E

E

L

L

Q

P

P

G

D

G

M

M

P

R

L

L

P

-

S

F

E

E

R

V

E

S

Y

T

A

A

E

E

Q

L

F

L

G

D

I

I

S

S

R

R

M

T

T

P

V

V

R

R

Q

E

A

A

L

L

S

S

N

R

L

L

V

T

N

E

E

E

G

G

L

L

Y

N

R

R

L

L

K

P

G

G

R

G

G

G

T

F

F

V

V

V

Sites not aligning to the query:

binding zinc ion: 129, 133, 184, 206

P31460 Galactonate operon transcriptional repressor; HTH-type transcriptional repressor DgoR from Escherichia coli (strain K12) (see 3 papers)
35% identity, 84% coverage: 13:74/74 of query aligns to 8:69/229 of P31460

query
sites
P31460

Q

R

I

I

M

V

E

I

Q

T

L

L

K

G

T

K

Q

Q

I

I

K

V

N

H

G

G

E

K

L

Y

Q

V

P

P

D

G

M

S

P

P

L

L

P

P

S

A

E

E

R

A

E

E

Y
x
L

A

C

E

E

Q

E

F

F

G

A

I
x
T

S

S

R
|
R

M

N

T

I

V

I

R
|
R

Q

E

A

V

L

F

S

R

N
x
S

L

L

V

M

N

A

E

K

G

R

L

L

L

I

Y

E

R

M

L

K

K

R

G

Y

R

R

G

G

T

A

F

F

V

V

S

A

L34 (≠ Y39) mutation to A: Loss of DNA-binding ability and repressor activity.
T40 (≠ I45) mutation to I: Loss of DNA-binding ability and repressor activity.
R42 (= R47) mutation to C: Loss of DNA-binding ability and repressor activity.
R46 (= R51) mutation to A: Loss of DNA-binding ability and repressor activity.
S51 (≠ N56) mutation to L: Loss of DNA-binding ability and repressor activity.

Sites not aligning to the query:

7 D→A: Loss of DNA-binding ability and repressor activity.
102 R→A: Shows a decreased binding to both DNA and D-galactonate.; R→Q: Completely non-responsive to D-galactonate. Does not affect binding affinity for the dgo operator.
106 E→K: Completely non-responsive to D-galactonate. Does not affect binding affinity for the dgo operator.
146 binding Zn(2+); D→A: Shows increased DNA binding but can be slightly reverted in the presence of D-galactonate. Strong decrease in binding to D-galactonate.; D→N: Completely non-responsive to D-galactonate. Shows a slight loss of repression ability.
150 binding Zn(2+); H→A: Shows a decreased binding to both DNA and D-galactonate.; H→Y: Completely non-responsive to D-galactonate.
173 Q→A: Shows a decreased binding to both DNA and D-galactonate.
179 R→A: Shows no significant effect on the binding to DNA and D-galactonate.
181 W→A: Shows no significant effect on the binding to DNA and D-galactonate.
184 D→A: Shows a decreased binding to both DNA and D-galactonate.
191 T→A: Shows a decreased binding to both DNA and D-galactonate.; T→M: Completely non-responsive to D-galactonate. Does not affect binding affinity for the dgo operator.
192 L→F: Completely non-responsive to D-galactonate. Does not affect binding affinity for the dgo operator.
195 binding Zn(2+); H→A: Shows a decreased binding to both DNA and D-galactonate.; H→Y: Completely non-responsive to D-galactonate.
221 S→A: Shows increased DNA binding but can be slightly reverted in the presence of D-galactonate.; S→L: Decreases sensitivity to D-galactonate. Does not affect binding affinity for the dgo operator.
224 mutation R->A,E: Shows a decreased binding to both DNA and D-galactonate.

6za3A Structure of the transcriptional repressor atu1419 (vanr) from agrobacterium fabrum in complex a palindromic DNA (c2221 space group) (see paper)
49% identity, 77% coverage: 17:73/74 of query aligns to 10:65/238 of 6za3A

query
sites
6za3A

Q

E

L

L

K

R

T

E

Q

K

I

I

K

L

N

S

G

G

E

E

L

L

Q

P

P

G

D

G

M

M

P
x
R

L

L

P

-

S
x
F

E
|
E

R

V

E

S

Y

T

A

A

E

E

Q

L

F

L

G

D

I

I

S
|
S

R
|
R

M
x
T

T
x
P

V

V

R

R

Q

E

A

A

L

L

S

S

N

R

L

L

V

T

N

E

E

E

G

G

L

L

Y

N

R

R

L

L

K

P

G

G

R

G

G

G

T

F

F

V

V

V

binding : R25 (≠ P32), F27 (≠ S35), E28 (= E36), S38 (= S46), R39 (= R47), T40 (≠ M48), P41 (≠ T49)

Sites not aligning to the query:

binding zinc ion: 131, 135, 186, 208
binding : 2, 3

3by6C Crystal structure of a transcriptional regulator from oenococcus oeni
32% identity, 89% coverage: 9:74/74 of query aligns to 11:76/120 of 3by6C

query
sites
3by6C

P

P

I

V

Y

Y

Y

L

Q

Q

I

L

M

V

E

D

Q

R

L

I

K

K

T

N

Q

E

I

V

K

A

N

T

G

D

E

V

L

L

Q

S

P

A

D

N

M

D

P

Q

L

L

P

P

S
|
S

E

V

R
|
R

E

E

Y

T

A

A

E

L

Q

Q

F

E

G

K

I

I

S

N

R

P

M

N

T

T

V

V

R

A

Q

K

A

A

L

Y

S

K

N

E

L

L

V

E

N

A

E

Q

G

K

L

V

L

I

Y

R

R

T

L

I

K

P

G

G

R

K

G

G

T

T

F

F

V

I

S

T

binding calcium ion: S37 (= S35), R39 (= R37)

4p9uE Fadr, fatty acid responsive transcription factor from vibrio cholerae, in complex with DNA (see paper)
40% identity, 72% coverage: 22:74/74 of query aligns to 15:67/272 of 4p9uE

query
sites
4p9uE

I

I

K

W

N

N

G

G

E

R

L

F

Q

P

P

P

D

G

M

S

P

I

L

L

P

P

S
x
A

E
|
E

R
|
R

E

E

Y

L

A

S

E

E

Q

L

F

I

G

G

I

V

S
x
T

R
|
R

M

T

T
|
T

V

L

R
|
R

Q

E

A

V

L

L

S

Q

N

R

L

L

V

A

N

R

E

D

G

G

L

W

L

L

Y

T

R
x
I

L

Q

K
x
H

G
|
G

R
x
K

G

P

T
|
T

F

K

V

V

S

N

binding : A28 (≠ S35), E29 (= E36), R30 (= R37), T39 (≠ S46), R40 (= R47), T42 (= T49), R44 (= R51), I58 (≠ R65), H60 (≠ K67), H60 (≠ K67), G61 (= G68), G61 (= G68), K62 (≠ R69), T64 (= T71)

Sites not aligning to the query:

binding : 3, 4

5dv5A The fatty acid-responsive fadr repressor of vibrio alginolyticus complex with palmitoyl-coa
40% identity, 72% coverage: 22:74/74 of query aligns to 15:67/267 of 5dv5A

query
sites
5dv5A

I
|
I

K
x
W

N

N

G

G

E

R

L

F

Q

P

P

P

D

G

M

S

P

I

L

L

P

P

S

A

E

E

R

R

E

E

Y

L

A

S

E

E

Q

L

F

I

G

G

I

V

S

T

R

R

M

T

T

T

V

L

R

R

Q

E

A

V

L

L

S

Q

N

R

L

L

V

A

N

R

E

D

G

G

L
x
W

L

L

Y

T

R

I

L

Q

K

H

G

G

R

K

G

P

T

T

F

K

V

V

S

N

binding Palmitoyl-CoA: I15 (= I22), W16 (≠ K23), W55 (≠ L62)

Sites not aligning to the query:

binding Palmitoyl-CoA: 69, 77, 81, 96, 97, 100, 101, 110, 113, 125, 148, 151, 179, 186, 189, 198, 199, 203, 203, 207, 211, 214, 240, 248, 251, 254, 255

4pdkA Fadr, fatty acid responsive transcription factor from vibrio cholerae, in complex with oleoyl-coa (see paper)
40% identity, 72% coverage: 22:74/74 of query aligns to 13:65/259 of 4pdkA

query
sites
4pdkA

I

I

K

W

N

N

G

G

E

R

L

F

Q

P

P
|
P

D

G

M

S

P

I

L

L

P

P

S

A

E

E

R

R

E

E

Y

L

A

S

E

E

Q

L

F

I

G

G

I

V

S

T

R

R

M

T

T

T

V

L

R

R

Q

E

A

V

L

L

S

Q

N

R

L

L

V

A

N

R

E

D

G

G

L

W

L

L

Y

T

R

I

L

Q

K

H

G

G

R

K

G

P

T

T

F

K

V

V

S

N

binding S-{(3R,5R,9R)-1-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaheptadecan-17-yl} (9Z)-octadec-9-enethioate (non-preferred name): P20 (= P29)

Sites not aligning to the query:

binding S-{(3R,5R,9R)-1-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaheptadecan-17-yl} (9Z)-octadec-9-enethioate (non-preferred name): 68, 94, 95, 96, 98, 99, 101, 104, 107, 108, 123, 146, 149, 177, 180, 184, 187, 188, 193, 196, 201, 205, 208, 209, 212, 246, 249, 252, 253

Query Sequence

>74 a.a. (NINKQSPIPI...)
NINKQSPIPIYYQIMEQLKTQIKNGELQPDMPLPSEREYAEQFGISRMTVRQALSNLVNE
GLLYRLKGRGTFVS

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