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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1YSX
Asym. Unit
Info
Asym.Unit (61 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
SOLUTION STRUCTURE OF DOMAIN 3 FROM HUMAN SERUM ALBUMIN COMPLEXED TO AN ANTI-APOPTOTIC LIGAND DIRECTED AGAINST BCL-XL AND BCL-2
Authors
:
T. Oltersdorf, S. W. Elmore, A. R. Shoemaker, R. C. Armstrong, D. J. Augeri, B. A. Belli, M. Bruncko, T. L. Deckwerth, J. Dinges, P. J. Hajduk, M. K. Joseph, S. Kitada, S. J. Korsmeyer, A. R. Kunzer, A. Letai, C. Li, M. J. Mitten, D. G. Nettesheim, S. Ng, P. M. Nimmer, J. M. O'Connor, A. Oleksijew, A. M. Petros, J. C. Reed, W. Shen, S. K. Tahir, C. B. Thompson, K. J. Tomaselli, B. Wang, M. D. Wendt, H. Zhang, S. W. Fesik, S. H. Rosenberg
Date
:
09 Feb 05 (Deposition) - 07 Jun 05 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A
Keywords
:
Complex, Apoptosis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Oltersdorf, S. W. Elmore, A. R. Shoemaker, R. C. Armstrong, D. J. Augeri, B. A. Belli, M. Bruncko, T. L. Deckwerth, J. Dinges, P. J. Hajduk, M. K. Joseph, S. Kitada, S. J. Korsmeyer, A. R. Kunzer, A. Letai, C. Li, M. J. Mitten, D. G. Nettesheim, S. Ng, P. M. Nimmer, J. M. O'Connor, A. Oleksijew, A. M. Petros, J. C. Reed, W. Shen, S. K. Tahir, C. B. Thompson, K. J. Tomaselli, B. Wang, M. D. Wendt, H. Zhang, S. W. Fesik, S. H. Rosenberg
An Inhibitor Of Bcl-2 Family Proteins Induces Regression Of Solid Tumours
Nature V. 435 677 2005
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: 4-({2-[(2,4-DIMETHYLPHENYL)SULFANY... (4EBa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
4EB
1
Ligand/Ion
4-({2-[(2,4-DIMETHYLPHENYL)SULFANYL]ETHYL}AMINO)-N-[(4'-FLUORO-1,1'-BIPHENYL-4-YL)CARBONYL]-3-NITROBENZENESULFONAMIDE
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:391 , CYS A:392 , LEU A:407 , TYR A:411 , LYS A:414 , VAL A:415 , THR A:422 , LEU A:423 , VAL A:426 , TYR A:452 , LEU A:460 , HIS A:464
BINDING SITE FOR RESIDUE 4EB A 1000
[
close Site info
]
SAPs(SNPs)/Variants
(18, 18)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_014294 (E396K, chain A, )
02: VAR_013017 (R410C, chain A, )
03: VAR_014295 (K466E, chain A, )
04: VAR_000534 (E479K, chain A, )
05: VAR_000535 (D494N, chain A, )
06: VAR_000536 (E501K, chain A, )
07: VAR_000537 (E505K, chain A, )
08: VAR_013018 (V533M, chain A, )
09: VAR_000538 (K536E, chain A, )
10: VAR_000539 (K541E, chain A, )
11: VAR_000541 (D550A, chain A, )
12: VAR_000540 (D550G, chain A, )
13: VAR_013019 (K560E, chain A, )
14: VAR_000542 (D563N, chain A, )
15: VAR_000543 (E565K, chain A, )
16: VAR_000544 (E570K, chain A, )
17: VAR_000545 (K573E, chain A, )
18: VAR_000546 (K574N, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_014294
E
420
K
ALBU_HUMAN
Polymorphism
---
A
E
396
K
02
UniProt
VAR_013017
R
434
C
ALBU_HUMAN
Unclassified
---
A
R
410
C
03
UniProt
VAR_014295
K
490
E
ALBU_HUMAN
Polymorphism
1063469
A
K
466
E
04
UniProt
VAR_000534
E
503
K
ALBU_HUMAN
Unclassified
---
A
E
479
K
05
UniProt
VAR_000535
D
518
N
ALBU_HUMAN
Unclassified
---
A
D
494
N
06
UniProt
VAR_000536
E
525
K
ALBU_HUMAN
Unclassified
---
A
E
501
K
07
UniProt
VAR_000537
E
529
K
ALBU_HUMAN
Unclassified
---
A
E
505
K
08
UniProt
VAR_013018
V
557
M
ALBU_HUMAN
Polymorphism
78284052
A
V
533
M
09
UniProt
VAR_000538
K
560
E
ALBU_HUMAN
Unclassified
---
A
K
536
E
10
UniProt
VAR_000539
K
565
E
ALBU_HUMAN
Unclassified
---
A
K
541
E
11
UniProt
VAR_000541
D
574
A
ALBU_HUMAN
Unclassified
---
A
D
550
A
12
UniProt
VAR_000540
D
574
G
ALBU_HUMAN
Unclassified
---
A
D
550
G
13
UniProt
VAR_013019
K
584
E
ALBU_HUMAN
Unclassified
---
A
K
560
E
14
UniProt
VAR_000542
D
587
N
ALBU_HUMAN
Unclassified
---
A
D
563
N
15
UniProt
VAR_000543
E
589
K
ALBU_HUMAN
Unclassified
---
A
E
565
K
16
UniProt
VAR_000544
E
594
K
ALBU_HUMAN
Unclassified
---
A
E
570
K
17
UniProt
VAR_000545
K
597
E
ALBU_HUMAN
Unclassified
---
A
K
573
E
18
UniProt
VAR_000546
K
598
N
ALBU_HUMAN
Unclassified
---
A
K
574
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ALBUMIN_1 (-|-|A:551-575)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALBUMIN_1
PS00212
Albumin domain signature.
ALBU_HUMAN
185-209
377-401
575-599
1
-
-
A:551-575
[
close PROSITE info
]
Exons
(5, 5)
Info
All Exons
Exon 1.12 (A:385-406)
Exon 1.13b (A:406-452)
Exon 1.14b (A:453-527)
Exon 1.16b (A:527-571)
Exon 1.18a (A:572-584)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.11a/1.12
2: Boundary 1.12/1.13b
3: Boundary 1.13b/1.14b
4: Boundary 1.14b/1.16b
5: Boundary 1.16b/1.18a
6: Boundary 1.18a/1.20j
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
1.2a
ENST00000295897
2a
ENSE00002075693
chr4:
74269956-74270123
168
ALBU_HUMAN
1-27
27
0
-
-
1.3a
ENST00000295897
3a
ENSE00001076782
chr4:
74270833-74270890
58
ALBU_HUMAN
27-46
20
0
-
-
1.4b
ENST00000295897
4b
ENSE00001076799
chr4:
74272346-74272478
133
ALBU_HUMAN
46-90
45
0
-
-
1.5a
ENST00000295897
5a
ENSE00001076811
chr4:
74274311-74274522
212
ALBU_HUMAN
91-161
71
0
-
-
1.7d
ENST00000295897
7d
ENSE00001076808
chr4:
74275072-74275204
133
ALBU_HUMAN
161-205
45
0
-
-
1.8a
ENST00000295897
8a
ENSE00001076797
chr4:
74276029-74276126
98
ALBU_HUMAN
206-238
33
0
-
-
1.9a
ENST00000295897
9a
ENSE00001076788
chr4:
74277713-74277842
130
ALBU_HUMAN
238-281
44
0
-
-
1.10b
ENST00000295897
10b
ENSE00001076792
chr4:
74279137-74279351
215
ALBU_HUMAN
282-353
72
0
-
-
1.11a
ENST00000295897
11a
ENSE00001076805
chr4:
74280752-74280884
133
ALBU_HUMAN
353-397
45
0
-
-
1.12
ENST00000295897
12
ENSE00001076781
chr4:
74281973-74282070
98
ALBU_HUMAN
398-430
33
1
A:385-406
22
1.13b
ENST00000295897
13b
ENSE00001076796
chr4:
74283248-74283386
139
ALBU_HUMAN
430-476
47
1
A:406-452
47
1.14b
ENST00000295897
14b
ENSE00001076790
chr4:
74283805-74284028
224
ALBU_HUMAN
477-551
75
1
A:453-527
75
1.16b
ENST00000295897
16b
ENSE00001076802
chr4:
74285224-74285356
133
ALBU_HUMAN
551-595
45
1
A:527-571
45
1.18a
ENST00000295897
18a
ENSE00001076795
chr4:
74285971-74286038
68
ALBU_HUMAN
596-609
14
1
A:572-584
13
1.20j
ENST00000295897
20j
ENSE00001823230
chr4:
74286809-74287129
321
ALBU_HUMAN
-
0
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1ysxa1 (A:389-584)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Serum albumin-like
(99)
Superfamily
:
Serum albumin-like
(99)
Family
:
Serum albumin-like
(75)
Protein domain
:
Serum albumin
(69)
Human (Homo sapiens) [TaxId: 9606]
(69)
1a
d1ysxa1
A:389-584
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Serum_albumin_1ysxA01 (A:388-568)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Serum_albumin
(23)
Family
:
Serum_albumin
(23)
Homo sapiens (Human)
(22)
1a
Serum_albumin-1ysxA01
A:388-568
[
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 (61 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
1YSX
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
