SitesBLAST

2:32 mutation Missing: Constitutively active and results in reduced lin-28 protein levels. Rescues the seam cell number and vulval developmental defects of the lin-28 n719 loss of function mutant.
11 D→A: Reduced ced-3-mediated cleavage in vitro.
23 E→A: Reduced ced-3-mediated cleavage in vitro.
24 D→A: Reduced ced-3-mediated cleavage in vitro.
31 D→A: Loss of ced-3-mediated cleavage in vitro. Partially prevents reduction of lin-28 protein levels in vivo. About 20 percent of mutants fail to reach adulthood. Defects in alae morphology.
31:32 Cleavage; by ced-3
32 N→M: Loss of ced-3-mediated cleavage in vitro. Prevents reduction of lin-28 protein levels in vitro.
128 G→E: In ma157.; G→R: In sy283.
133 P→S: In ve9.

7oiiB Cold-shock DNA-binding protein family (see paper)
72% identity, 58% coverage: 3:41/67 of query aligns to 1:39/39 of 7oiiB

query
sites
7oiiB

T
|
T

G

G

T
x
I

V
|
V

K
|
K

W
|
W

F

F

N

N

D

A

A

D

K

K

G

G

F

F

G

G

F
|
F

I

I

T
|
T

P

P

D
|
D

D

D

G
|
G

G

G

E

A

D

D

L

V

F
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F

A

A

H

H

F

F

S

S

A

A

I

I

N

Q

A

M

A

S

G

G

F

Y

K

R

S

A

binding : T1 (= T3), I3 (≠ T5), V4 (= V6), K5 (= K7), W6 (= W8), F15 (= F17), T17 (= T19), D19 (= D21), G21 (= G23), F26 (= F28)

7f3iA Crystal structure of human ybx2 csd in complex with m5c RNA in space group p212121
43% identity, 91% coverage: 4:64/67 of query aligns to 12:76/93 of 7f3iA

query
sites
7f3iA

G

G

T

T

V

V

K
|
K

W
|
W

F

F

N
|
N

D
x
V

A
x
R

K
x
N

G

G

F
x
Y

G

G

F
|
F

I

I

T

N

P

R

D

N

D

D

G

T

G

K

E

E

D
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D

L

V

F
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F

A

V

H
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H

F

Q

S

T

A

A

I

I

N

K

A

R

A

N

G

N

-

P

-

R

-

K

-

F

F

L

K

R

S

S

L

V

K

G

E

D

G

G

Q

E

K

T

V

V

S

E

F

F

E

D

V

V

T

V

Q

E

G

G

P

E

K
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K

G
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G

K

A

Q

E

A

A

S

T

N

N

I

V

binding : K15 (= K7), W16 (= W8), N18 (= N10), V19 (≠ D11), R20 (≠ A12), N21 (≠ K13), Y23 (≠ F15), F25 (= F17), D34 (= D26), F36 (= F28), H38 (= H30), K69 (= K57), G70 (= G58)

Sites not aligning to the query:

binding : 89

6a6jA Crystal structure of zebra fish y-box protein1 (yb-1) cold-shock domain in complex with 6mer m5c RNA (see paper)
43% identity, 91% coverage: 4:64/67 of query aligns to 9:73/90 of 6a6jA

query
sites
6a6jA

G

G

T

T

V

V

K

K

W
|
W

F

F

N
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N

D

V

A

R

K

N

G

G

F

Y

G

G

F
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F

I

I

T

N

P

R

D

N

D

D

G

T

G

K

E

E

D

D

L

V

F
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F

A

V

H
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H

F

Q

S

T

A

A

I

I

N

K

A

K

A

N

G

N

-

P

-

R

-

K

-

Y

F

L

K

R

S

S

L

V

K

G

E

D

G

G

Q

E

K

T

V

V

S

E

F

F

E

D

V

V

T

V

Q

E

G

G

P
x
E

K
|
K

G
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G

K
x
A

Q
x
E

A

A

S

A

N

N

I

V

binding zinc ion: E65 (≠ P56), E69 (≠ Q60)
binding : W13 (= W8), N15 (= N10), F22 (= F17), F33 (= F28), H35 (= H30), E65 (≠ P56), K66 (= K57), G67 (= G58), A68 (≠ K59)

6lmrA Solution structure of cold shock domain and ssdna complex (see paper)
43% identity, 91% coverage: 4:64/67 of query aligns to 11:75/90 of 6lmrA

query
sites
6lmrA

G

G

T

T

V

V

K

K

W
|
W

F

F

N
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N

D

V

A
x
R

K

N

G

G

F

Y

G

G

F
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F

I

I

T

N

P

R

D

N

D

D

G

T

G

K

E

E

D

D

L

V

F
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F

A

V

H
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H

F

Q

S

T

A

A

I

I

N

K

A

K

A

N

G

N

-

P

-

R

-

K

-

Y

F

L

K

R

S

S

L

V

K

G

E

D

G

G

Q

E

K

T

V

V

S

E

F

F

E

D

V

V

T

V

Q

E

G

G

P
x
E

K
|
K

G

G

K

A

Q
x
E

A

A

S

A

N

N

I

V

binding : W15 (= W8), N17 (= N10), R19 (≠ A12), F24 (= F17), F35 (= F28), H37 (= H30), E67 (≠ P56), K68 (= K57), E71 (≠ Q60)

Sites not aligning to the query:

binding : 87, 88

B5DE31 Y-box-binding protein 1; YB-1; ZfY1; Y-box transcription factor from Danio rerio (Zebrafish) (Brachydanio rerio) (see paper)
42% identity, 93% coverage: 4:65/67 of query aligns to 41:106/310 of B5DE31

query
sites
B5DE31

G

G

T

T

V

V

K

K

W
|
W

F
|
F

N
|
N

D
x
V

A
x
R

K
x
N

G

G

F

Y

G

G

F

F

I

I

T

N

P

R

D

N

D

D

G

T

G

K

E

E

D

D

L

V

F

F

A

V

H

H

F

Q

S

T

A

A

I

I

N

K

A

K

A

N

G

N

-

P

-

R

-

K

-

Y

F

L

K

R

S

S

L

V

K

G

E

D

G

G

Q

E

K

T

V

V

S

E

F

F

E

D

V

V

T

V

Q

E

G

G

P

E

K

K

G

G

K

A

Q

E

A

A

S

A

N

N

I

V

V

T

W45 (= W8) Important for C5-methylcytosine-recognition; mutation to A: Abolished binding to C5-methylcytosine (m5C)-containing mRNAs.; mutation to F: Decreased binding to C5-methylcytosine (m5C)-containing mRNAs. Decreased ability to discriminate between m5C-containing and unmethylated mRNAs.
WFNVRN 45:50 (≠ WFNDAK 8:13) C5-methylcytosine binding

Q28618 Y-box-binding protein 1; YB-1; Nuclease-sensitive element-binding protein 1; Y-box transcription factor; p50 from Oryctolagus cuniculus (Rabbit) (see 2 papers)
42% identity, 93% coverage: 4:65/67 of query aligns to 61:126/324 of Q28618

query
sites
Q28618

G

G

T

T

V

V

K

K

W

W

F

F

N

N

D

V

A

R

K

N

G

G

F

Y

G

G

F

F

I

I

T

N

P

R

D

N

D

D

G

T

G

K

E

E

D

D

L

V

F

F

A

V

H

H

F

Q

S

T

A

A

I

I

N

K

A

K

A

N

G

N

-

P

-

R

-

K

-

Y

F

L

K

R

S
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S

L

V

K

G

E

D

G

G

Q

E

K

T

V

V

S

E

F

F

E

D

V

V

T

V

Q

E

G

G

P

E

K

K

G

G

K

A

Q

E

A

A

S

A

N

N

I

V

V

T

S102 (= S41) modified: Phosphoserine; by PKB/AKT1; mutation to A: Abolishes phosphorylation by PKB/AKT1.

Sites not aligning to the query:

219:220 Cleavage; by 20S proteasomal protease

P67809 Y-box-binding protein 1; YB-1; CCAAT-binding transcription factor I subunit A; CBF-A; DNA-binding protein B; DBPB; Enhancer factor I subunit A; EFI-A; Nuclease-sensitive element-binding protein 1; Y-box transcription factor from Homo sapiens (Human) (see 5 papers)
42% identity, 93% coverage: 4:65/67 of query aligns to 61:126/324 of P67809

query
sites
P67809

G
|
G

T
|
T

V
|
V

K
|
K

W
|
W

F
|
F

N
|
N

D
x
V

A
x
R

K
x
N

G
|
G

F

Y

G

G

F

F

I

I

T

N

P

R

D

N

D

D

G

T

G

K

E

E

D

D

L

V

F

F

A

V

H

H

F

Q

S

T

A

A

I

I

N

K

A

K

A

N

G

N

-

P

-

R

-

K

-

Y

F

L

K

R

S
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S

L

V

K

G

E

D

G

G

Q

E

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V

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E

F

F

E

D

V

V

T

V

Q

E

G

G

P

E

K

K

G

G

K

A

Q

E

A

A

S

A

N

N

I

V

V

T

W65 (= W8) Important for C5-methylcytosine-recognition; mutation to A: Abolished binding to C5-methylcytosine (m5C)-containing mRNAs.; mutation to F: Decreased binding to C5-methylcytosine (m5C)-containing mRNAs. Decreased ability to discriminate between m5C-containing and unmethylated mRNAs.
WFNVRN 65:70 (≠ WFNDAK 8:13) C5-methylcytosine binding
S102 (= S41) modified: Phosphoserine; by PKB/AKT1; mutation to A: Loss of phosphorylation by PKB/AKT1. Inhibits translocation to the nucleus and tumor cell growth.

Sites not aligning to the query:

1 modified: Initiator methionine, Removed
2 modified: N-acetylserine
15:71 Interaction with ss-DNA
137 modified: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)
165 modified: Phosphoserine
301 modified: N6-acetyllysine; K→A: Abrogates unconventional secretion.
304 modified: N6-acetyllysine; K→A: Abrogates unconventional secretion.

Q9Z2C8 Y-box-binding protein 2; FRGY2 homolog; Germ cell-specific Y-box-binding protein from Mus musculus (Mouse) (see paper)
45% identity, 93% coverage: 4:65/67 of query aligns to 98:163/360 of Q9Z2C8

query
sites
Q9Z2C8

G
|
G

T
|
T

V
|
V

K
|
K

W
|
W

F
|
F

N
|
N

D
x
V

A
x
R

K
x
N

G
|
G

F
x
Y

G
|
G

F
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F

I
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I

T
x
N

P
x
R

D
x
N

D
|
D

G
x
T

G
x
K

E
|
E

D
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D

L
x
V

F
|
F

A
x
V

H
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H

F
x
Q

S
x
T

A
|
A

I
|
I

-
x
K

-
x
R

-
x
N

N
|
N

A
x
P

A
x
R

G
x
K

F
|
F

-
x
L

K
x
R

S
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S

L
x
V

K
x
G

E
x
D

G
|
G

Q
x
E

K
x
T

V
|
V

S
x
E

F
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F

E
x
D

V
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V

T
x
V

Q
x
E

G
|
G

P
x
E

K
|
K

G
|
G

K
x
A

Q
x
R

A
|
A

S
x
A

N
|
N

I
x
V

V
x
T

Y109 (≠ F15) mutation to A: Abolishes cytoplasmic retention and mRNA-binding affinity; when associated with A-111.
F111 (= F17) mutation to A: Abolishes cytoplasmic retention and mRNA-binding affinity; when associated with A-109.

Sites not aligning to the query:

89:171 Required for cytoplasmic retention
219:360 Required for mRNA-binding

4alpA The lin28b cold shock domain in complex with hexauridine (see paper)
37% identity, 96% coverage: 2:65/67 of query aligns to 7:77/87 of 4alpA

query
sites
4alpA

A

G

T

S

G

G

T

H

V

C

K

K

W

W

F

F

N

N

D

V

A

R

K

M

G
|
G

F

F

G

G

F

F

I

I

T

S

-

M

-

T

-

S

-

R

-

E

-

G

-

S

P

P

D

L

D

E

G

N

G

P

E

V

D

D

L

V

F

F

A

V

H

H

F
x
Q

S

S

A

K

I

L

N

Y

A

M

A

E

G

G

F
|
F

K
x
R

S

S

L

L

K

K

E

E

G

G

Q

E

K

P

V

V

S

E

F

F

E

T

V

F

T

K

Q

K

G

S

P

S

K

K

G

G

K

F

Q

E

A

S

S

L

N

R

I

V

V

T

binding : G19 (= G14), Q43 (≠ F31), F51 (= F39), R52 (≠ K40)

4a75A The lin28b cold shock domain in complex with hexathymidine. (see paper)
37% identity, 96% coverage: 2:65/67 of query aligns to 9:79/89 of 4a75A

query
sites
4a75A

A

G

T

S

G

G

T

H

V

C

K
|
K

W
|
W

F

F

N
|
N

D

V

A

R

K

M

G

G

F
|
F

G

G

F
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F

I

I

T

S

-

M

-

T

-

S

-

R

-

E

-

G

-

S

P

P

D

L

D

E

G

N

G

P

E

V

D
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D

L

V

F
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F

A

V

H
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H

F

Q

S

S

A

K

I

L

N

Y

A

M

A

E

G

G

F

F

K

R

S

S

L

L

K

K

E

E

G

G

Q

E

K

P

V

V

S

E

F

F

E

T

V

F

T

K

Q

K

G
x
S

P

S

K
|
K

G

G

K
x
F

Q

E

A

S

S

L

N

R

I

V

V

T

binding : K14 (= K7), W15 (= W8), N17 (= N10), F22 (= F15), F24 (= F17), D40 (= D26), F42 (= F28), H44 (= H30), S69 (≠ G55), K71 (= K57), F73 (≠ K59)

Q803L0 Protein lin-28 homolog A; Lin-28A from Danio rerio (Zebrafish) (Brachydanio rerio) (see paper)
36% identity, 94% coverage: 3:65/67 of query aligns to 35:104/202 of Q803L0

query
sites
Q803L0

T

S

G

G

T

V

V

C

K

K

W

W

F

F

N

N

D

V

A

R

K

M

G

G

F

F

G

G

F

F

I

L

T

S

P

M

D

T

-

H

-

R

-

E

-

G

-

I

-

C

-

L

D

D

G

S

G

P

E

V

D

D

L

V

F

F

A

V

H

H

F

Q

S

S

A

K

I

L

N

H

A

M

A

E

G

G

F

F

K

R

S

S

L

L

K

K

E

E

G

G

Q

E

K

A

V

V

S

E

F

F

E

T

V

F

T

K

Q

R

G

S

P

S

K

K

G

G

K

L

Q

E

A

S

S

L

N

Q

I

V

V

T

Sites not aligning to the query:

174 modified: Phosphoserine

Q6ZN17 Protein lin-28 homolog B; Lin-28B from Homo sapiens (Human) (see paper)
42% identity, 90% coverage: 2:61/67 of query aligns to 30:96/250 of Q6ZN17

query
sites
Q6ZN17

A

G

T

T

G

G

T

H

V

C

K

K

W

W

F

F

N

N

D

V

A

R

K

M

G

G

F

F

G

G

F

F

I

I

T

S

-

M

-

I

-

N

-

R

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E

-

G

-

S

P

P

D

L

D

D

G

I

G

P

E

V

D

D

L

V

F

F

A

V

H

H

F

Q

S

S

A

K

I

L

N

F

A

M

A

E

G

G

F

F

K

R

S

S

L

L

K

K

E

E

G

G

Q

E

K

P

V

V

S

E

F

F

E

T

V

F

T

K

Q

K

G

S

P

S

K

K

G

G

K

L

Q

E

A

S

Sites not aligning to the query:

112:125 Bipartite nuclear localization signal
239:250 Nucleolar localization signal

Query Sequence

>ABZR87_RS19675
MATGTVKWFNDAKGFGFITPDDGGEDLFAHFSAINAAGFKSLKEGQKVSFEVTQGPKGKQ
ASNIVPQ

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