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1KHC
Asym. Unit
Info
Asym.Unit (31 KB)
Biol.Unit 1 (26 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE PWWP DOMAIN OF MAMMALIAN DNA METHYLTRANSFERASE DNMT3B
Authors
:
C. Qiu, K. Sawada, X. Zhang, X. Cheng
Date
:
29 Nov 01 (Deposition) - 27 Feb 02 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Five Beta-Sheets Barrel Followed By Five-Helix Bundle, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Qiu, K. Sawada, X. Zhang, X. Cheng
The Pwwp Domain Of Mammalian Dna Methyltransferase Dnmt3B Defines A New Family Of Dna-Binding Folds.
Nat. Struct. Biol. V. 9 217 2002
[
close entry info
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Hetero Components
(1, 22)
Info
All Hetero Components
1a: UNKNOWN ATOM OR ION (UNXa)
1b: UNKNOWN ATOM OR ION (UNXb)
1c: UNKNOWN ATOM OR ION (UNXc)
1d: UNKNOWN ATOM OR ION (UNXd)
1e: UNKNOWN ATOM OR ION (UNXe)
1f: UNKNOWN ATOM OR ION (UNXf)
1g: UNKNOWN ATOM OR ION (UNXg)
1h: UNKNOWN ATOM OR ION (UNXh)
1i: UNKNOWN ATOM OR ION (UNXi)
1j: UNKNOWN ATOM OR ION (UNXj)
1k: UNKNOWN ATOM OR ION (UNXk)
1l: UNKNOWN ATOM OR ION (UNXl)
1m: UNKNOWN ATOM OR ION (UNXm)
1n: UNKNOWN ATOM OR ION (UNXn)
1o: UNKNOWN ATOM OR ION (UNXo)
1p: UNKNOWN ATOM OR ION (UNXp)
1q: UNKNOWN ATOM OR ION (UNXq)
1r: UNKNOWN ATOM OR ION (UNXr)
1s: UNKNOWN ATOM OR ION (UNXs)
1t: UNKNOWN ATOM OR ION (UNXt)
1u: UNKNOWN ATOM OR ION (UNXu)
1v: UNKNOWN ATOM OR ION (UNXv)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
UNX
22
Ligand/Ion
UNKNOWN ATOM OR ION
[
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Sites
(22, 22)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
UNX A:164 , UNX A:165 , UNX A:166 , SER A:257
BINDING SITE FOR RESIDUE UNX A 163
02
AC2
SOFTWARE
UNX A:163 , UNX A:165 , UNX A:166 , PHE A:271 , GLY A:272
BINDING SITE FOR RESIDUE UNX A 164
03
AC3
SOFTWARE
UNX A:163 , UNX A:164 , UNX A:166 , SER A:257 , GLY A:274
BINDING SITE FOR RESIDUE UNX A 165
04
AC4
SOFTWARE
HOH A:40 , UNX A:163 , UNX A:164 , UNX A:165 , GLN A:269 , TRP A:270 , GLY A:274
BINDING SITE FOR RESIDUE UNX A 166
05
AC5
SOFTWARE
HOH A:100 , UNX A:168
BINDING SITE FOR RESIDUE UNX A 167
06
AC6
SOFTWARE
HOH A:61 , UNX A:167 , TRP A:342
BINDING SITE FOR RESIDUE UNX A 168
07
AC7
SOFTWARE
HOH A:103 , HOH A:120 , UNX A:170 , UNX A:171
BINDING SITE FOR RESIDUE UNX A 169
08
AC8
SOFTWARE
UNX A:169 , UNX A:171 , LYS A:348
BINDING SITE FOR RESIDUE UNX A 170
09
AC9
SOFTWARE
HOH A:88 , HOH A:100 , UNX A:169 , UNX A:170 , ALA A:297
BINDING SITE FOR RESIDUE UNX A 171
10
BC1
SOFTWARE
UNX A:173 , UNX A:174 , LYS A:315 , ARG A:319
BINDING SITE FOR RESIDUE UNX A 172
11
BC2
SOFTWARE
HOH A:121 , UNX A:172 , UNX A:174
BINDING SITE FOR RESIDUE UNX A 173
12
BC3
SOFTWARE
UNX A:172 , UNX A:173 , GLY A:233
BINDING SITE FOR RESIDUE UNX A 174
13
BC4
SOFTWARE
HOH A:7 , HOH A:130 , UNX A:176 , UNX A:177 , LYS A:315
BINDING SITE FOR RESIDUE UNX A 175
14
BC5
SOFTWARE
UNX A:175 , UNX A:177 , VAL A:318
BINDING SITE FOR RESIDUE UNX A 176
15
BC6
SOFTWARE
UNX A:175 , UNX A:176 , LYS A:315
BINDING SITE FOR RESIDUE UNX A 177
16
BC7
SOFTWARE
UNX A:179 , UNX A:181 , UNX A:182 , UNX A:183 , UNX A:184 , GLY A:288 , PHE A:290 , SER A:291 , GLN A:292
BINDING SITE FOR RESIDUE UNX A 178
17
BC8
SOFTWARE
HOH A:60 , UNX A:178 , UNX A:180 , UNX A:181 , ASP A:282 , GLN A:292
BINDING SITE FOR RESIDUE UNX A 179
18
BC9
SOFTWARE
HOH A:85 , HOH A:151 , UNX A:179 , UNX A:181 , UNX A:184 , GLY A:288
BINDING SITE FOR RESIDUE UNX A 180
19
CC1
SOFTWARE
UNX A:178 , UNX A:179 , UNX A:180 , UNX A:182 , UNX A:183 , UNX A:184 , ASP A:282
BINDING SITE FOR RESIDUE UNX A 181
20
CC2
SOFTWARE
UNX A:178 , UNX A:181 , UNX A:183 , UNX A:184 , ALA A:343 , GLY A:346
BINDING SITE FOR RESIDUE UNX A 182
21
CC3
SOFTWARE
UNX A:178 , UNX A:181 , UNX A:182 , ASP A:282 , SER A:291 , HIS A:344
BINDING SITE FOR RESIDUE UNX A 183
22
CC4
SOFTWARE
UNX A:178 , UNX A:180 , UNX A:181 , UNX A:182 , GLY A:288 , PHE A:347 , ILE A:352
BINDING SITE FOR RESIDUE UNX A 184
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: PWWP (A:232-290)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PWWP
PS50812
PWWP domain profile.
DNM3B_MOUSE
232-290
1
A:232-290
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1khca_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
SH3-like barrel
(1035)
Superfamily
:
Tudor/PWWP/MBT
(72)
Family
:
PWWP domain
(14)
Protein domain
:
DNA methyltransferase DNMT3B
(2)
Mouse (Mus musculus) [TaxId: 10090]
(1)
1a
d1khca_
A:
[
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]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1khcA02 (A:288-356)
2a: CATH_1khcA01 (A:223-287)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1
(23)
Homologous Superfamily
:
PWWP, helical domain
(2)
House mouse (Mus musculus)
(1)
1a
1khcA02
A:288-356
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
SH3 type barrels.
(648)
Homologous Superfamily
:
[code=2.30.30.160, no name defined]
(35)
House mouse (Mus musculus)
(2)
2a
1khcA01
A:223-287
[
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_PWWP_1khcA01 (A:229-302)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Tudor
(88)
Family
:
PWWP
(17)
Mus musculus (Mouse)
(2)
1a
PWWP-1khcA01
A:229-302
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]
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Chain A
Asymmetric Unit 1
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