SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_041278825.1 NCBI__GCF_000025945.1:WP_041278825.1 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 8 hits to proteins with known functional sites (download)

6addA The crystal structure of rv2747 from mycobacterium tuberculosis in complex with coa and nlq (see paper)
34% identity, 84% coverage: 1:130/154 of query aligns to 5:136/168 of 6addA

query
sites
6addA

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binding coenzyme a: Y24 (≠ F20), I28 (≠ V25), V75 (≠ L69), A76 (= A70), V77 (= V71), T82 (≠ Q76), G83 (= G77), H84 (≠ R78), G85 (= G79), G87 (= G81), H88 (≠ R82), T110 (= T104), E112 (≠ Q106), F115 (= F109)
binding n~2~-acetyl-l-glutamine: K27 (≠ R23), I28 (≠ V25), L30 (= L27), T74 (≠ S68), L109 (= L103)

Sites not aligning to the query:

5yo2A The crystal structure of rv2747 from mycobacterium tuberculosis in complex with acetyl coa and l-arginine (see paper)
34% identity, 84% coverage: 1:130/154 of query aligns to 5:136/168 of 5yo2A

query
sites
5yo2A

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binding acetyl coenzyme *a: Y24 (≠ F20), I28 (≠ V25), I72 (= I66), R73 (= R67), T74 (≠ S68), V75 (≠ L69), V77 (= V71), T82 (≠ Q76), G83 (= G77), H84 (≠ R78), G85 (= G79), G87 (= G81), H88 (≠ R82), T110 (= T104), E112 (≠ Q106), F115 (= F109), F116 (= F110)
binding arginine: G26 (≠ E22), L29 (= L26), L30 (= L27), R73 (= R67), L109 (= L103)

Sites not aligning to the query:

binding arginine: 147

5ygeA Arga complexed with acecoa and glutamate (see paper)
34% identity, 84% coverage: 1:130/154 of query aligns to 6:137/169 of 5ygeA

query
sites
5ygeA

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binding acetyl coenzyme *a: Y25 (≠ F20), I73 (= I66), V76 (≠ L69), A77 (= A70), V78 (= V71), T83 (≠ Q76), G84 (= G77), H85 (≠ R78), G86 (= G79), G88 (= G81), H89 (≠ R82), T111 (= T104), E113 (≠ Q106), F117 (= F110)
binding glutamic acid: K33 (≠ R29), E44 (≠ D40), H64 (≠ Q57), R74 (= R67)

Sites not aligning to the query:

binding acetyl coenzyme *a: 1, 2

4i49A Structure of ngnags bound with bisubstrate analog coa-NAG (see paper)
35% identity, 84% coverage: 2:130/154 of query aligns to 277:407/424 of 4i49A

query
sites
4i49A

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binding (2S)-2-({(3S,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-10,14,20-trioxo-2,4,6-trioxa-18-thia-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaicosan-20-yl}amino)pentanedioic acid (non-preferred name): I300 (≠ V25), L301 (= L26), L302 (= L27), R304 (= R29), A343 (≠ R67), C344 (≠ S68), L345 (= L69), A346 (= A70), V347 (= V71), Q352 (= Q76), D353 (≠ G77), G355 (= G79), G357 (= G81), E358 (≠ R82), L379 (= L103), S380 (vs. gap), T383 (≠ Q106), W386 (≠ F109), F387 (= F110)

Sites not aligning to the query:

binding (2S)-2-({(3S,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-10,14,20-trioxo-2,4,6-trioxa-18-thia-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaicosan-20-yl}amino)pentanedioic acid (non-preferred name): 413, 415

3d2mA Crystal structure of n-acetylglutamate synthase from neisseria gonorrhoeae complexed with coenzyme a and l-glutamate (see paper)
35% identity, 84% coverage: 2:130/154 of query aligns to 277:407/424 of 3d2mA

query
sites
3d2mA

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binding coenzyme a: L345 (= L69), V347 (= V71), Q352 (= Q76), D353 (≠ G77), G355 (= G79), G357 (= G81), E358 (≠ R82), S380 (vs. gap), T383 (≠ Q106), W386 (≠ F109)
binding glutamic acid: L302 (= L27), R304 (= R29), A343 (≠ R67), C344 (≠ S68), L379 (= L103)

Sites not aligning to the query:

active site: 26
binding glutamic acid: 413, 415

3b8gA Crysta structure of n-acetylglutamate synthase from neisseria gonorrhoeae complexed with coenzyme a and n-acetyl-glutamate (see paper)
35% identity, 84% coverage: 2:130/154 of query aligns to 277:407/424 of 3b8gA

query
sites
3b8gA

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binding coenzyme a: I300 (≠ V25), L345 (= L69), V347 (= V71), Q352 (= Q76), D353 (≠ G77), G355 (= G79), Y356 (≠ I80), G357 (= G81), E358 (≠ R82), S380 (vs. gap), T383 (≠ Q106), E385 (≠ A108), W386 (≠ F109)
binding n-acetyl-l-glutamate: L302 (= L27), R304 (= R29), A343 (≠ R67), C344 (≠ S68), L379 (= L103)

Sites not aligning to the query:

active site: 26
binding n-acetyl-l-glutamate: 413, 415

2r8vA Native structure of n-acetylglutamate synthase from neisseria gonorrhoeae (see paper)
35% identity, 84% coverage: 2:130/154 of query aligns to 277:407/424 of 2r8vA

query
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2r8vA

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binding acetyl coenzyme *a: I300 (≠ V25), L301 (= L26), L345 (= L69), V347 (= V71), Q352 (= Q76), D353 (≠ G77), G355 (= G79), G357 (= G81), E358 (≠ R82), T383 (≠ Q106), E385 (≠ A108), W386 (≠ F109), F387 (= F110)

Sites not aligning to the query:

active site: 26

3d2pA Crystal structure of n-acetylglutamate synthase from neisseria gonorrhoeae complexed with coenzyme a and l-arginine (see paper)
34% identity, 84% coverage: 2:130/154 of query aligns to 285:411/424 of 3d2pA

query
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3d2pA

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G

H

R

R

S

S

I

R

S

E

S

Y

L

L

Y

E

D

N

K

H

I

I

R

S

D

E

F

F

V

S

V

I

Y

L

E

E

E

H

D

D

G

G

E

N

V

L

V

Y

G

G

V

C

C

A

A

A

L

L

Q

K

I

T

S

F

W

A

E

E

-

A

N

D

L

C

A

G

E

E

I

I

R

A

S

C

L
|
L

A

A

V
|
V

V

S

D

P

G

Q

A

A

Q
|
Q

G
x
D

R

G

G
|
G

I

Y

G
|
G

R
x
E

Q

R

L

L

V

L

E

A

T

H

C

I

L

I

A

D

E

K

A

A

R

R

A

G

F

I

K

G

I

I

T

S

K

R

I

L

F

F

T

A

L

L

-

S

T

T

Y

N

Q

T

D

G

A
x
E

F
x
W

F

F

R

A

R

E

L

R

G

G

F

F

Y

Q

D

T

I

A

D

S

K

E

K

D

D

E

L

L

P

P

H

E

K

T

I

R

W

R

S

K

D

D

binding coenzyme a: L303 (≠ F20), L349 (= L69), V351 (= V71), Q356 (= Q76), D357 (≠ G77), G359 (= G79), G361 (= G81), E362 (≠ R82), E389 (≠ A108), W390 (≠ F109)

Sites not aligning to the query:

active site: 26
binding arginine: 13, 197, 216, 253, 266, 267, 269, 270, 271, 274, 276

Query Sequence

>WP_041278825.1 NCBI__GCF_000025945.1:WP_041278825.1
MIRNATMADVPHIHSLLNDFAERGVLLGRSISSLYDKIRDFVVYEEDGEVVGVCALQISW
ENLAEIRSLAVVDGAQGRGIGRQLVETCLAEARAFKITKIFTLTYQDAFFRRLGFYDIDK
KDLPHKIWSDCLHCPKFPNCDENALAFDQVLTEG

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