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3P8H
Biol. Unit 2
Info
Asym.Unit (162 KB)
Biol.Unit 1 (56 KB)
Biol.Unit 2 (55 KB)
Biol.Unit 3 (55 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF L3MBTL1 (MBT REPEAT) IN COMPLEX WITH A NICOTINAMIDE ANTAGONIST
Authors
:
R. Lam, J. M. Herold, H. Ouyang, W. Tempel, C. Gao, M. Ravichandran, G. Se C. Bountra, J. Weigelt, C. H. Arrowsmith, A. M. Edwards, M. Vedadi, D. K S. V. Frye, P. J. Brown, Structural Genomics Consortium (Sgc)
Date
:
13 Oct 10 (Deposition) - 03 Nov 10 (Release) - 11 May 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.55
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Keywords
:
Lethal(3) Malignant Brain Tumor-Like Protein, L(3)Mbt-Like Protein, Structural Genomics Consortium, Sgc, Mbt Repeat, Transcriptional Repression, Methylated Lysines On Histone Proteins, Transcription
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. M. Herold, T. J. Wigle, J. L. Norris, R. Lam, V. K. Korboukh, C. Gao, L. A. Ingerman, D. B. Kireev, G. Senisterra, M. Vedadi, A. Tripathy, P. J. Brown, C. H. Arrowsmith, J. Jin, W. P. Janzen, S. V. Frye
Small-Molecule Ligands Of Methyl-Lysine Binding Proteins.
J. Med. Chem. V. 54 2504 2011
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: 3-BROMO-5-[(4-PYRROLIDIN-1-YLPIPER... (P8Ha)
2b: 3-BROMO-5-[(4-PYRROLIDIN-1-YLPIPER... (P8Hb)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
-1
Ligand/Ion
GLYCEROL
2
P8H
1
Ligand/Ion
3-BROMO-5-[(4-PYRROLIDIN-1-YLPIPERIDIN-1-YL)CARBONYL]PYRIDINE
3
SO4
1
Ligand/Ion
SULFATE ION
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC5 (SOFTWARE)
3: AC6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:355 , ASN A:358 , SER A:360 , LEU A:361 , CYS A:363 , PHE A:379 , TRP A:382 , TYR A:386 , TRP B:402 , GLN B:406
BINDING SITE FOR RESIDUE P8H A 600
2
AC5
SOFTWARE
ASP B:355 , ASN B:358 , SER B:360 , LEU B:361 , CYS B:363 , TRP B:382 , TYR B:386
BINDING SITE FOR RESIDUE P8H B 600
3
AC6
SOFTWARE
TYR B:275 , SER B:276 , HIS B:279 , LYS B:307
BINDING SITE FOR RESIDUE SO4 B 610
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_051098 (I479M, chain B, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051098
I
479
M
LMBL1_HUMAN
Polymorphism
6017104
B
I
479
M
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: MBT (B:206-306,B:314-413,B:422-517)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MBT
PS51079
MBT repeat profile.
LMBL1_HUMAN
206-306
314-413
422-517
3
-
B:206-306
-
-
B:314-413
-
-
B:422-517
-
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 9)
Info
All SCOP Domains
1a: SCOP_d3p8ha1 (A:206-313)
1b: SCOP_d3p8ha2 (A:314-421)
1c: SCOP_d3p8ha3 (A:422-518)
1d: SCOP_d3p8hb1 (B:206-309)
1e: SCOP_d3p8hb2 (B:314-421)
1f: SCOP_d3p8hb3 (B:422-519)
1g: SCOP_d3p8hc1 (C:206-313)
1h: SCOP_d3p8hc2 (C:314-421)
1i: SCOP_d3p8hc3 (C:422-519)
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Class
:
All beta proteins
(24004)
Fold
:
SH3-like barrel
(1035)
Superfamily
:
Tudor/PWWP/MBT
(72)
Family
:
automated matches
(24)
Protein domain
:
automated matches
(24)
Human (Homo sapiens) [TaxId: 9606]
(20)
1a
d3p8ha1
A:206-313
1b
d3p8ha2
A:314-421
1c
d3p8ha3
A:422-518
1d
d3p8hb1
B:206-309
1e
d3p8hb2
B:314-421
1f
d3p8hb3
B:422-519
1g
d3p8hc1
C:206-313
1h
d3p8hc2
C:314-421
1i
d3p8hc3
C:422-519
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CATH Domains
(0, 0)
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all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 9)
Info
all PFAM domains
1a: PFAM_MBT_3p8hC01 (C:453-519)
1b: PFAM_MBT_3p8hC02 (C:453-519)
1c: PFAM_MBT_3p8hC03 (C:453-519)
1d: PFAM_MBT_3p8hC04 (C:453-519)
1e: PFAM_MBT_3p8hC05 (C:453-519)
1f: PFAM_MBT_3p8hC06 (C:453-519)
1g: PFAM_MBT_3p8hC07 (C:453-519)
1h: PFAM_MBT_3p8hC08 (C:453-519)
1i: PFAM_MBT_3p8hC09 (C:453-519)
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Clan
:
Tudor
(88)
Family
:
MBT
(24)
Homo sapiens (Human)
(20)
1a
MBT-3p8hC01
C:453-519
1b
MBT-3p8hC02
C:453-519
1c
MBT-3p8hC03
C:453-519
1d
MBT-3p8hC04
C:453-519
1e
MBT-3p8hC05
C:453-519
1f
MBT-3p8hC06
C:453-519
1g
MBT-3p8hC07
C:453-519
1h
MBT-3p8hC08
C:453-519
1i
MBT-3p8hC09
C:453-519
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Chain B
Asymmetric Unit 1
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Asym.Unit (162 KB)
Header - Asym.Unit
Biol.Unit 1 (56 KB)
Header - Biol.Unit 1
Biol.Unit 2 (55 KB)
Header - Biol.Unit 2
Biol.Unit 3 (55 KB)
Header - Biol.Unit 3
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