SitesBLAST

binding : M1 (≠ Q3), K6 (= K8), W7 (= W9), K24 (≠ S26), D25 (= D27), F27 (= F29), Q45 (= Q47), S48 (≠ Q50), F49 (= F51), E52 (≠ K54), A55 (≠ P57), K56 (= K58), A57 (≠ G59), G61 (≠ A63), N62 (≠ E64), V63 (≠ I65), S65 (≠ P67), L66 (= L68)

O54310 Cold shock-like protein from Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8) (see paper)
59% identity, 94% coverage: 5:68/68 of query aligns to 3:65/66 of O54310

query
sites
O54310

G

G

K

K

V

V

K

K

W

W

F

F

N
x
D

A

S

E

K

K

K

G

G

F

Y

G

G

F

F

I

I

T

T

P

K

D

D

A

E

G

G

S

-

D

D

V

V

F

F

A

V

H

H

F

W

S

S

A

A

I

I

E

E

G

M

R

E

G

G

Y

F

R

K

S

T

L

L

N

K

E

E

G

G

Q

Q

A

V

V

V

Q

E

F

F

E

E

V

I

K

Q

D

E

G

G

P

K

K

K

G

G

P

P

Q

Q

A

A

E
x
H

I

V

R

K

P

V

L

V

D9 (≠ N11) mutation to N: Destabilization at high temperature.
H61 (≠ E64) mutation to N: No effect on thermal stability.

2haxA Crystal structure of bacillus caldolyticus cold shock protein in complex with hexathymidine (see paper)
61% identity, 97% coverage: 3:68/68 of query aligns to 2:66/66 of 2haxA

query
sites
2haxA

Q

Q

T

R

G

G

K

K

V

V

K

K

W
|
W

F

F

N
|
N

A
x
N

E
|
E

K
|
K

G
|
G

F
x
Y

G

G

F
|
F

I

I

T

E

P

V

D

E

A

-

G

G

S

S

D
|
D

V

V

F
|
F

A

V

H
|
H

F
|
F

S

T

A

A

I

I

E

Q

G

G

R

E

G

G

Y
x
F

R
x
K

S

T

L

L

N

E

E

E

G

G

Q

Q

A

E

V

V

Q

S

F

F

E

E

V

I

K

V

D

Q

G

G

P

N

K
x
R

G

G

P
|
P

Q
|
Q

A

A

E

N

I

V

R

V

P

K

L

L

binding : W8 (= W9), N10 (= N11), N11 (≠ A12), E12 (= E13), K13 (= K14), G14 (= G15), Y15 (≠ F16), F17 (= F18), D25 (= D27), F27 (= F29), H29 (= H31), F30 (= F32), F38 (≠ Y40), K39 (≠ R41), R56 (≠ K58), P58 (= P60), Q59 (= Q61)

1c9oA Crystal structure analysis of the bacillus caldolyticus cold shock protein bc-csp (see paper)
61% identity, 97% coverage: 3:68/68 of query aligns to 2:66/66 of 1c9oA

query
sites
1c9oA

Q

Q

T

R

G

G

K

K

V

V

K

K

W

W

F

F

N

N

A

N

E

E

K

K

G

G

F

Y

G

G

F

F

I

I

T

E

P
x
V

D

E

A

-

G

G

G
|
G

S

S

D

D

V

V

F

F

A

V

H

H

F

F

S

T

A

A

I

I

E

Q

G

G

R

E

G

G

Y

F

R

K

S

T

L

L

N

E

E

E

G

G

Q

Q

A

E

V

V

Q

S

F

F

E

E

V

I

K

V

D

Q

G

G

P

N

K

R

G

G

P

P

Q

Q

A

A

E

N

I

V

R

V

P

K

L

L

binding sodium ion: V20 (≠ P21), G23 (= G25)

2es2A Crystal structure analysis of the bacillus subtilis cold shock protein bs-cspb in complex with hexathymidine (see paper)
64% identity, 90% coverage: 5:65/68 of query aligns to 4:63/67 of 2es2A

query
sites
2es2A

G

G

K

K

V

V

K
|
K

W
|
W

F
|
F

N

N

A

S

E

E

K

K

G

G

F
|
F

G

G

F
|
F

I

I

T

E

P

V

D

E

A

-

G

G

G

Q

S

D

D
|
D

V

V

F
|
F

A

V

H
|
H

F

F

S

S

A

A

I

I

E

Q

G

G

R

E

G

G

Y

F

R

K

S

T

L

L

N

E

E
|
E

G

G

Q

Q

A

A

V

V

Q

S

F

F

E

E

V

I

K

V

D

E

G

G

P

N

K
x
R

G

G

P

P

Q
|
Q

A

A

E

N

I

V

binding calcium ion: F9 (= F10), E43 (= E45)
binding : K7 (= K8), W8 (= W9), F15 (= F16), F17 (= F18), D25 (= D27), F27 (= F29), H29 (= H31), R56 (≠ K58), Q59 (= Q61)

Sites not aligning to the query:

binding calcium ion: 1, 3

3pf4B Crystal structure of bs-cspb in complex with r(gucuuua) (see paper)
64% identity, 90% coverage: 5:65/68 of query aligns to 4:63/66 of 3pf4B

query
sites
3pf4B

G

G

K

K

V

V

K
|
K

W
|
W

F

F

N
|
N

A

S

E

E

K

K

G

G

F
|
F

G

G

F
|
F

I

I

T

E

P

V

D

E

A

-

G

G

G

Q

S

D

D
|
D

V

V

F
|
F

A

V

H
|
H

F

F

S

S

A

A

I

I

E

Q

G

G

R

E

G

G

Y

F

R

K

S

T

L

L

N

E

E

E

G

G

Q

Q

A

A

V

V

Q

S

F

F

E

E

V

I

K

V

D

E

G

G

P

N

K

R

G

G

P

P

Q

Q

A

A

E

N

I

V

binding : K7 (= K8), W8 (= W9), N10 (= N11), F15 (= F16), F17 (= F18), D25 (= D27), F27 (= F29), H29 (= H31)

7oiiB Cold-shock DNA-binding protein family (see paper)
79% identity, 57% coverage: 4:42/68 of query aligns to 1:39/39 of 7oiiB

query
sites
7oiiB

T
|
T

G

G

K
x
I

V
|
V

K
|
K

W
|
W

F

F

N

N

A

A

E

D

K

K

G

G

F

F

G

G

F
|
F

I

I

T
|
T

P

P

D
|
D

A

D

G
|
G

G

G

S

A

D

D

V

V

F
|
F

A

A

H

H

F

F

S

S

A

A

I

I

E

Q

G

M

R

S

G

G

Y

Y

R

R

S

A

binding : T1 (= T4), I3 (≠ K6), V4 (= V7), K5 (= K8), W6 (= W9), F15 (= F18), T17 (= T20), D19 (= D22), G21 (= G24), F26 (= F29)

P92186 Protein lin-28; Abnormal cell lineage protein 28 from Caenorhabditis elegans (see 3 papers)
42% identity, 81% coverage: 5:59/68 of query aligns to 55:109/227 of P92186

query
sites
P92186

G
|
G

K

S

V

C

K

K

W

W

F

F

N

N

A

V

E

S

K

K

G

G

F

Y

G

G

F

F

I

V

T

I

P

D

D

D

A

I

G

T

G

G

S

E

D

D

V

L

F

F

A

V

H

H

F

Q

S

S

A

N

I

L

E

N

G
x
M

R

Q

G

G

Y

F

R
|
R

S

S

L

L

N

D

E

E

G

G

Q

E

A

R

V

V

Q

S

F

Y

E

Y

V

I

K

Q

D

E

G

R

P

S

K

N

G

G

G55 (= G5) mutation to S: In n1119; loss of function.
M87 (≠ G37) mutation to I: In ga73; when associated with Q-91.
R91 (= R41) mutation to Q: In ga73; when associated with I-87.

Sites not aligning to the query:

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.

6lmrA Solution structure of cold shock domain and ssdna complex (see paper)
45% identity, 90% coverage: 5:65/68 of query aligns to 11:75/90 of 6lmrA

query
sites
6lmrA

G

G

K

T

V

V

K

K

W
|
W

F

F

N
|
N

A

V

E
x
R

K

N

G

G

F

Y

G

G

F
|
F

I

I

T

N

P

R

D

N

A

D

G

T

G

K

S

E

D

D

V

V

F
|
F

A

V

H
|
H

F

Q

S

T

A

A

I

I

E

K

G

K

-

N

-

P

R

R

G

K

Y

Y

-

L

R

R

S

S

L

V

N

G

E

D

G

G

Q

E

A

T

V

V

Q

E

F

F

E

D

V

V

K

V

D

E

G

G

P
x
E

K
|
K

G

G

P

A

Q
x
E

A

A

E

N

I

V

binding : W15 (= W9), N17 (= N11), R19 (≠ E13), F24 (= F18), F35 (= F29), H37 (= H31), E67 (≠ P57), K68 (= K58), E71 (≠ Q61)

Sites not aligning to the query:

binding : 87, 88

6a6jA Crystal structure of zebra fish y-box protein1 (yb-1) cold-shock domain in complex with 6mer m5c RNA (see paper)
45% identity, 90% coverage: 5:65/68 of query aligns to 9:73/90 of 6a6jA

query
sites
6a6jA

G

G

K

T

V

V

K

K

W
|
W

F

F

N
|
N

A

V

E

R

K

N

G

G

F

Y

G

G

F
|
F

I

I

T

N

P

R

D

N

A

D

G

T

G

K

S

E

D

D

V

V

F
|
F

A

V

H
|
H

F

Q

S

T

A

A

I

I

E

K

G

K

-

N

-

P

R

R

G

K

Y

Y

-

L

R

R

S

S

L

V

N

G

E

D

G

G

Q

E

A

T

V

V

Q

E

F

F

E

D

V

V

K

V

D

E

G

G

P
x
E

K
|
K

G
|
G

P
x
A

Q
x
E

A

A

E

N

I

V

binding zinc ion: E65 (≠ P57), E69 (≠ Q61)
binding : W13 (= W9), N15 (= N11), F22 (= F18), F33 (= F29), H35 (= H31), E65 (≠ P57), K66 (= K58), G67 (= G59), A68 (≠ P60)

B5DE31 Y-box-binding protein 1; YB-1; ZfY1; Y-box transcription factor from Danio rerio (Zebrafish) (Brachydanio rerio) (see paper)
45% identity, 90% coverage: 5:65/68 of query aligns to 41:105/310 of B5DE31

query
sites
B5DE31

G

G

K

T

V

V

K

K

W
|
W

F
|
F

N
|
N

A
x
V

E
x
R

K
x
N

G

G

F

Y

G

G

F

F

I

I

T

N

P

R

D

N

A

D

G

T

G

K

S

E

D

D

V

V

F

F

A

V

H

H

F

Q

S

T

A

A

I

I

E

K

G

K

-

N

-

P

R

R

G

K

Y

Y

-

L

R

R

S

S

L

V

N

G

E

D

G

G

Q

E

A

T

V

V

Q

E

F

F

E

D

V

V

K

V

D

E

G

G

P

E

K

K

G

G

P

A

Q

E

A

A

E

N

I

V

W45 (= W9) 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 (≠ WFNAEK 9:14) C5-methylcytosine binding

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)
45% identity, 90% coverage: 5:65/68 of query aligns to 61:125/324 of P67809

query
sites
P67809

G
|
G

K
x
T

V
|
V

K
|
K

W
|
W

F
|
F

N
|
N

A
x
V

E
x
R

K
x
N

G
|
G

F

Y

G

G

F

F

I

I

T

N

P

R

D

N

A

D

G

T

G

K

S

E

D

D

V

V

F

F

A

V

H

H

F

Q

S

T

A

A

I

I

E

K

G

K

-

N

-

P

R

R

G

K

Y

Y

-

L

R

R

S
|
S

L

V

N

G

E

D

G

G

Q

E

A

T

V

V

Q

E

F

F

E

D

V

V

K

V

D

E

G

G

P

E

K

K

G

G

P

A

Q

E

A

A

E

N

I

V

W65 (= W9) 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 (≠ WFNAEK 9:14) C5-methylcytosine binding
S102 (= S42) 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.

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)
45% identity, 90% coverage: 5:65/68 of query aligns to 61:125/324 of Q28618

query
sites
Q28618

G

G

K

T

V

V

K

K

W

W

F

F

N

N

A

V

E

R

K

N

G

G

F

Y

G

G

F

F

I

I

T

N

P

R

D

N

A

D

G

T

G

K

S

E

D

D

V

V

F

F

A

V

H

H

F

Q

S

T

A

A

I

I

E

K

G

K

-

N

-

P

R

R

G

K

Y

Y

-

L

R

R

S
|
S

L

V

N

G

E

D

G

G

Q

E

A

T

V

V

Q

E

F

F

E

D

V

V

K

V

D

E

G

G

P

E

K

K

G

G

P

A

Q

E

A

A

E

N

I

V

S102 (= S42) 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

7f3iA Crystal structure of human ybx2 csd in complex with m5c RNA in space group p212121
40% identity, 90% coverage: 5:65/68 of query aligns to 12:76/93 of 7f3iA

query
sites
7f3iA

G

G

K

T

V

V

K
|
K

W
|
W

F

F

N
|
N

A
x
V

E
x
R

K
x
N

G

G

F
x
Y

G

G

F
|
F

I

I

T

N

P

R

D

N

A

D

G

T

G

K

S

E

D
|
D

V

V

F
|
F

A

V

H
|
H

F

Q

S

T

A

A

I

I

E

K

G

R

R

N

G

N

-

P

-

R

-

K

-

F

Y

L

R

R

S

S

L

V

N

G

E

D

G

G

Q

E

A

T

V

V

Q

E

F

F

E

D

V

V

K

V

D

E

G

G

P

E

K
|
K

G
|
G

P

A

Q

E

A

A

A

T

E

N

I

V

binding : K15 (= K8), W16 (= W9), N18 (= N11), V19 (≠ A12), R20 (≠ E13), N21 (≠ K14), Y23 (≠ F16), F25 (= F18), D34 (= D27), F36 (= F29), H38 (= H31), K69 (= K58), G70 (= G59)

Sites not aligning to the query:

binding : 89

Q9Z2C8 Y-box-binding protein 2; FRGY2 homolog; Germ cell-specific Y-box-binding protein from Mus musculus (Mouse) (see paper)
42% identity, 90% coverage: 5:65/68 of query aligns to 98:162/360 of Q9Z2C8

query
sites
Q9Z2C8

G
|
G

K
x
T

V
|
V

K
|
K

W
|
W

F
|
F

N
|
N

A
x
V

E
x
R

K
x
N

G
|
G

F
x
Y

G
|
G

F
|
F

I
|
I

T
x
N

P
x
R

D
x
N

A
x
D

G
x
T

G
x
K

S
x
E

D
|
D

V
|
V

F
|
F

A
x
V

H
|
H

F
x
Q

S
x
T

A
|
A

I
|
I

E
x
K

G
x
R

R
x
N

G
x
N

-
x
P

-
x
R

-
x
K

-
x
F

Y
x
L

R
|
R

S
|
S

L
x
V

N
x
G

E
x
D

G
|
G

Q
x
E

A
x
T

V
|
V

Q
x
E

F
|
F

E
x
D

V
|
V

K
x
V

D
x
E

G
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G

P
x
E

K
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K

G
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G

P
x
A

Q
x
R

A
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A

E
x
N

I
x
V

Y109 (≠ F16) mutation to A: Abolishes cytoplasmic retention and mRNA-binding affinity; when associated with A-111.
F111 (= F18) 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

5udzA Human lin28a in complex with let-7f-1 microrna pre-element (see paper)
40% identity, 90% coverage: 5:65/68 of query aligns to 10:77/139 of 5udzA

query
sites
5udzA

G

G

K

I

V

C

K

K

W
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W

F
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F

N
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N

A
x
V

E
x
R

K
x
M

G

G

F
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F

G

G

F
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F

I

L

T

S

P

M

D

T

A

A

G

R

G

A

S

G

-

V

-

A

-

L

-

D

-

P

-

V

D

D

V

V

F
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F

A

V

H
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H

F
x
Q

S

S

A

K

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H

G

M

R

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G

G

Y
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F

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R

S

S

L

L

N

K

E

E

G

G

Q

E

A

A

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V

Q

E

F

F

E

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F

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K

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E

A

S

A

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binding : W14 (= W9), F15 (= F10), N16 (= N11), V17 (≠ A12), R18 (≠ E13), M19 (≠ K14), F21 (= F16), F23 (= F18), F41 (= F29), H43 (= H31), Q44 (≠ F32), F52 (≠ Y40), R53 (= R41), K70 (= K58), G71 (= G59), E73 (≠ Q61)

Sites not aligning to the query:

binding zinc ion: 98, 101, 106, 111, 120, 123, 128, 133
binding : 93, 95, 97, 98, 99, 107, 108, 116, 118, 119, 120, 121, 122, 129, 130, 136

Q9H9Z2 Protein lin-28 homolog A; Lin-28A; Zinc finger CCHC domain-containing protein 1 from Homo sapiens (Human) (see 2 papers)
40% identity, 90% coverage: 5:65/68 of query aligns to 42:109/209 of Q9H9Z2

query
sites
Q9H9Z2

G

G

K

I

V

C

K

K

W
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W

F

F

N

N

A

V

E

R

K

M

G

G

F

F

G

G

F
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F

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S

P

M

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T

A

A

G

R

G

A

S

G

-

V

-

A

-

L

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-

P

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D

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F
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F

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V

H

H

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S

A

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H

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M

R

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G

G

Y

F

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R

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S

L

L

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K

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E

G

G

Q

E

A

A

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Q

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W46 (= W9) mutation to A: Does not affect localization to P-bodies; when associated with A-55 and A-73.
F55 (= F18) mutation to A: Does not affect localization to P-bodies; when associated with A-46 and A-73.
F73 (= F29) mutation to A: Does not affect localization to P-bodies; when associated with A-46 and A-55.

Sites not aligning to the query:

147 H→A: Abolishes ability to suppress pre-let-7 biogenesis and localization to P-bodies without affecting pre-let-7 binding; when associated with A-169.
169 H→A: Abolishes ability to suppress pre-let-7 biogenesis and localization to P-bodies without affecting pre-let-7 binding; when associated with A-147.

4alpA The lin28b cold shock domain in complex with hexauridine (see paper)
39% identity, 91% coverage: 4:65/68 of query aligns to 8:76/87 of 4alpA

query
sites
4alpA

T

S

G

G

K

H

V

C

K

K

W

W

F

F

N

N

A

V

E

R

K

M

G
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G

F

F

G

G

F

F

I

I

T

S

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M

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T

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R

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-

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binding : G19 (= G15), Q43 (≠ F32), F51 (≠ Y40), R52 (= R41)

Q8K3Y3 Protein lin-28 homolog A; Lin-28A; Testis-expressed protein 17 from Mus musculus (Mouse) (see 2 papers)
39% identity, 91% coverage: 4:65/68 of query aligns to 41:109/209 of Q8K3Y3

query
sites
Q8K3Y3

T

A

G
|
G

K

I

V
x
C

K
|
K

W
|
W

F
|
F

N

N

A

V

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R

K

M

G

G

F

F

G

G

F

F

I

L

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S

P

M

D

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A

A

G

R

G

A

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G

-

V

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A

-

L

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D

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P

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D

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F

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M

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R

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S

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G42 (= G5) mutation to S: Erroneous subcellular location. No positive effect on terminal myogenic differentiation.
CKWF 44:47 (≠ VKWF 7:10) mutation Missing: Erroneous subcellular location. No positive effect on terminal myogenic differentiation.
M81 (≠ G37) mutation to I: Erroneous subcellular location; when associated with Q-85. No positive effect on terminal myogenic differentiation; when associated with Q-85.
R85 (= R41) mutation to Q: Erroneous subcellular location; when associated with I-81. No positive effect on terminal myogenic differentiation; when associated with I-81.

Sites not aligning to the query:

119 G→R: Erroneous subcellular location; when associated with S-124. No positive effect on terminal myogenic differentiation; when associated with S-124.
124 P→S: Erroneous subcellular location; when associated with R-119. No positive effect on terminal myogenic differentiation; when associated with R-119.
138:139 mutation Missing: No effect on subcellular location; when associated with S-142. Normal terminal myogenic differentiation; when associated with S-142.
139:142 CYNC→AYNA: Disrupts 5'-GGAG-3' motif interaction. Disrupts oligoU-addition to pre-miRNA pre-let-7 by TUT4.
142 C→S: No effect on subcellular location; when associated with 44-C--F-47. Normal terminal myogenic differentiation; when associated with 44-C--F-47.
161:164 CHFC→AHFA: Disrupts 5'-GGAG-3' motif interaction. Binds miRNA but not TUT4.

Query Sequence

>ABCV34_RS11730
MAQTGKVKWFNAEKGFGFITPDAGGSDVFAHFSAIEGRGYRSLNEGQAVQFEVKDGPKGP
QAAEIRPL

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