PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1MM2
Asym. Unit
Info
Asym.Unit (302 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(20 )
Title
:
SOLUTION STRUCTURE OF THE 2ND PHD DOMAIN FROM MI2B
Authors
:
A. H. Y. Kwan, D. A. Gell, A. Verger, M. Crossley, J. M. Matthews, J. P. Mackay
Date
:
02 Sep 02 (Deposition) - 22 Jul 03 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Phd, Zinc Finger, Protein Scaffold, Dna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. H. Y. Kwan, D. A. Gell, A. Verger, M. Crossley, J. M. Matthews, J. P. Mackay
Engineering A Protein Scaffold From A Phd Finger
Structure V. 11 803 2003
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: ZINC ION (ZNa)
1b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:24 , CYS A:27 , CYS A:50 , CYS A:53
BINDING SITE FOR RESIDUE ZN A 62
2
AC2
SOFTWARE
CYS A:12 , CYS A:15 , HIS A:32 , CYS A:35
BINDING SITE FOR RESIDUE ZN A 63
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available in "Model" view)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: ZF_PHD_2 (-|A:9-56)
2: ZF_PHD_1 (-|A:12-53)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZF_PHD_2
PS50016
Zinc finger PHD-type profile.
CHD4_HUMAN
370-417
449-496
1
-
A:9-56
2
ZF_PHD_1
PS01359
Zinc finger PHD-type signature.
CHD4_HUMAN
373-414
452-493
1
-
A:12-53
[
close PROSITE info
]
Exons
(2, 2)
Info
All Exons
Exon 1.10 (A:1-54 (gaps))
Exon 1.11 (A:55-61)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.9/1.10
2: Boundary 1.10/1.11
3: Boundary 1.11/1.12
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000357008
1
ENSE00001414099
chr12:
6716551-6716466
86
CHD4_HUMAN
-
0
0
-
-
1.2
ENST00000357008
2
ENSE00001403794
chr12:
6715617-6715440
178
CHD4_HUMAN
1-34
34
0
-
-
1.3
ENST00000357008
3
ENSE00000715332
chr12:
6711663-6711542
122
CHD4_HUMAN
34-74
41
0
-
-
1.4
ENST00000357008
4
ENSE00000715331
chr12:
6711341-6711126
216
CHD4_HUMAN
75-146
72
0
-
-
1.5
ENST00000357008
5
ENSE00001774127
chr12:
6710932-6710814
119
CHD4_HUMAN
147-186
40
0
-
-
1.6
ENST00000357008
6
ENSE00000715329
chr12:
6710696-6710455
242
CHD4_HUMAN
186-267
82
0
-
-
1.7
ENST00000357008
7
ENSE00000715327
chr12:
6710219-6710092
128
CHD4_HUMAN
267-309
43
0
-
-
1.8
ENST00000357008
8
ENSE00000715326
chr12:
6709835-6709700
136
CHD4_HUMAN
310-355
46
0
-
-
1.9
ENST00000357008
9
ENSE00000715325
chr12:
6709561-6709383
179
CHD4_HUMAN
355-414
60
0
-
-
1.10
ENST00000357008
10
ENSE00000715324
chr12:
6709178-6708939
240
CHD4_HUMAN
415-494
80
1
A:1-54 (gaps)
56
1.11
ENST00000357008
11
ENSE00000715321
chr12:
6707591-6707388
204
CHD4_HUMAN
495-562
68
1
A:55-61
7
1.12
ENST00000357008
12
ENSE00000715320
chr12:
6707265-6707060
206
CHD4_HUMAN
563-631
69
0
-
-
1.13
ENST00000357008
13
ENSE00000715319
chr12:
6705303-6705172
132
CHD4_HUMAN
631-675
45
0
-
-
1.14
ENST00000357008
14
ENSE00000715318
chr12:
6704596-6704500
97
CHD4_HUMAN
675-707
33
0
-
-
1.15
ENST00000357008
15
ENSE00000715316
chr12:
6703816-6703625
192
CHD4_HUMAN
708-771
64
0
-
-
1.16
ENST00000357008
16
ENSE00000715313
chr12:
6702782-6702582
201
CHD4_HUMAN
772-838
67
0
-
-
1.17
ENST00000357008
17
ENSE00000715311
chr12:
6702394-6702257
138
CHD4_HUMAN
839-884
46
0
-
-
1.18
ENST00000357008
18
ENSE00000715310
chr12:
6701983-6701862
122
CHD4_HUMAN
885-925
41
0
-
-
1.19
ENST00000357008
19
ENSE00001754995
chr12:
6701732-6701559
174
CHD4_HUMAN
925-983
59
0
-
-
1.20
ENST00000357008
20
ENSE00001800433
chr12:
6701223-6701082
142
CHD4_HUMAN
983-1030
48
0
-
-
1.21
ENST00000357008
21
ENSE00000715306
chr12:
6700991-6700860
132
CHD4_HUMAN
1031-1074
44
0
-
-
1.22
ENST00000357008
22
ENSE00001627364
chr12:
6700749-6700632
118
CHD4_HUMAN
1075-1114
40
0
-
-
1.23
ENST00000357008
23
ENSE00001711290
chr12:
6697588-6697464
125
CHD4_HUMAN
1114-1155
42
0
-
-
1.24
ENST00000357008
24
ENSE00000715303
chr12:
6697115-6696878
238
CHD4_HUMAN
1156-1235
80
0
-
-
1.25
ENST00000357008
25
ENSE00000715302
chr12:
6696725-6696550
176
CHD4_HUMAN
1235-1293
59
0
-
-
1.26a
ENST00000357008
26a
ENSE00001350281
chr12:
6692544-6692364
181
CHD4_HUMAN
1294-1354
61
0
-
-
1.26c
ENST00000357008
26c
ENSE00001293912
chr12:
6692279-6692193
87
CHD4_HUMAN
1354-1383
30
0
-
-
1.27
ENST00000357008
27
ENSE00000715298
chr12:
6692102-6692014
89
CHD4_HUMAN
1383-1412
30
0
-
-
1.28
ENST00000357008
28
ENSE00000715297
chr12:
6691914-6691781
134
CHD4_HUMAN
1413-1457
45
0
-
-
1.29
ENST00000357008
29
ENSE00000715296
chr12:
6691447-6691303
145
CHD4_HUMAN
1457-1505
49
0
-
-
1.30
ENST00000357008
30
ENSE00000715295
chr12:
6690980-6690815
166
CHD4_HUMAN
1506-1561
56
0
-
-
1.31
ENST00000357008
31
ENSE00000866932
chr12:
6690554-6690457
98
CHD4_HUMAN
1561-1593
33
0
-
-
1.32
ENST00000357008
32
ENSE00000866931
chr12:
6690339-6690210
130
CHD4_HUMAN
1594-1637
44
0
-
-
1.33
ENST00000357008
33
ENSE00000715293
chr12:
6688083-6688012
72
CHD4_HUMAN
1637-1661
25
0
-
-
1.34
ENST00000357008
34
ENSE00000715292
chr12:
6687712-6687575
138
CHD4_HUMAN
1661-1707
47
0
-
-
1.35
ENST00000357008
35
ENSE00000715291
chr12:
6687303-6687195
109
CHD4_HUMAN
1707-1743
37
0
-
-
1.36
ENST00000357008
36
ENSE00000715290
chr12:
6687083-6686951
133
CHD4_HUMAN
1743-1787
45
0
-
-
1.37
ENST00000357008
37
ENSE00001792380
chr12:
6682435-6682240
196
CHD4_HUMAN
1788-1853
66
0
-
-
1.38
ENST00000357008
38
ENSE00001183612
chr12:
6680198-6680035
164
CHD4_HUMAN
1853-1907
55
0
-
-
1.39
ENST00000357008
39
ENSE00001413114
chr12:
6679859-6679249
611
CHD4_HUMAN
1908-1912
5
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1mm2a_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
FYVE/PHD zinc finger
(57)
Superfamily
:
FYVE/PHD zinc finger
(57)
Family
:
PHD domain
(30)
Protein domain
:
Mi2-beta (CHD4)
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d1mm2a_
A:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1mm2A00 (A:1-61)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Herpes Virus-1
(49)
Homologous Superfamily
:
Zinc/RING finger domain, C3HC4 (zinc finger)
(47)
Human (Homo sapiens)
(26)
1a
1mm2A00
A:1-61
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_PHD_1mm2A01 (A:11-56)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
zf-FYVE-PHD
(57)
Family
:
PHD
(44)
Homo sapiens (Human)
(33)
1a
PHD-1mm2A01
A:11-56
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (302 KB)
Header - Asym.Unit
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1MM2
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
