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.
2FLM
Biol. Unit 1
Info
Asym.Unit (46 KB)
Biol.Unit 1 (81 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
HUMAN TRANSTHYRETIN (TTR) COMPLEXED WITH BIVALANT AMYLOID INHIBITOR (6 CARBON LINKER)
Authors
:
S. K. Palaninathan, J. W. Kelly, J. C. Sacchettini
Date
:
06 Jan 06 (Deposition) - 28 Feb 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Ttr, Amyloid, Transthyretin, Hormone-Growth Factor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. S. Green, S. K. Palaninathan, J. C. Sacchettini, J. W. Kelly
Synthesis And Characterization Of Potent Bivalent Amyloidosis Inhibitors That Bind Prior To Transthyretin Tetramerization.
J. Am. Chem. Soc. V. 125 13404 2003
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: 4'-{6-[4-(2-CARBOXYPHENYLAMINO)-PH... (6CAa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
6CA
2
Ligand/Ion
4'-{6-[4-(2-CARBOXYPHENYLAMINO)-PHENOXY]-HEXYLOXY}-BIPHENYL-4-CARBOXYLIC ACID
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:15 , LEU A:17 , LEU A:110 , SER A:117 , HOH A:256 , HOH A:273 , LYS B:15 , LEU B:17 , LEU B:110 , SER B:117
BINDING SITE FOR RESIDUE 6CA A 201
[
close Site info
]
SAPs(SNPs)/Variants
(86, 342)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_007547 (C10R, chain A/B, )
02: VAR_038959 (L12P, chain A/B, )
03: VAR_038960 (M13I, chain A/B, )
04: VAR_007548 (D18E, chain A/B, )
05: VAR_007549 (D18G, chain A/B, )
06: VAR_007550 (V20I, chain A/B, )
07: VAR_038961 (S23N, chain A/B, )
08: VAR_007551 (P24S, chain A/B, )
09: VAR_010658 (V28M, chain A/B, )
10: VAR_007552 (V30A, chain A/B, )
11: VAR_038962 (V30G, chain A/B, )
12: VAR_007553 (V30L, chain A/B, )
13: VAR_007554 (V30M, chain A/B, )
14: VAR_038963 (F33C, chain A/B, )
15: VAR_007555 (F33I, chain A/B, )
16: VAR_007556 (F33L, chain A/B, )
17: VAR_038964 (F33V, chain A/B, )
18: VAR_038965 (R34T, chain A/B, )
19: VAR_038966 (K35N, chain A/B, )
20: VAR_007557 (A36P, chain A/B, )
21: VAR_038967 (D38A, chain A/B, )
22: VAR_038968 (D38V, chain A/B, )
23: VAR_038969 (W41L, chain A/B, )
24: VAR_038970 (E42D, chain A/B, )
25: VAR_007558 (E42G, chain A/B, )
26: VAR_038971 (F44S, chain A/B, )
27: VAR_007559 (A45D, chain A/B, )
28: VAR_038972 (A45S, chain A/B, )
29: VAR_007560 (A45T, chain A/B, )
30: VAR_007561 (G47A, chain A/B, )
31: VAR_038973 (G47E, chain A/B, )
32: VAR_007562 (G47R, chain A/B, )
33: VAR_007563 (G47V, chain A/B, )
34: VAR_007564 (T49A, chain A/B, )
35: VAR_038974 (T49I, chain A/B, )
36: VAR_007565 (S50I, chain A/B, )
37: VAR_007566 (S50R, chain A/B, )
38: VAR_007567 (S52P, chain A/B, )
39: VAR_038975 (G53E, chain A/B, )
40: VAR_007568 (E54G, chain A/B, )
41: VAR_038976 (E54K, chain A/B, )
42: VAR_007569 (L55P, chain A/B, )
43: VAR_038977 (L55Q, chain A/B, )
44: VAR_007570 (L58H, chain A/B, )
45: VAR_007571 (L58R, chain A/B, )
46: VAR_007572 (T59K, chain A/B, )
47: VAR_007573 (T60A, chain A/B, )
48: VAR_038978 (E61G, chain A/B, )
49: VAR_007574 (E61K, chain A/B, )
50: VAR_007575 (F64L, chain A/B, )
51: VAR_007576 (I68L, chain A/B, )
52: VAR_007577 (Y69H, chain A/B, )
53: VAR_007578 (K70N, chain A/B, )
54: VAR_007579 (V71A, chain A/B, )
55: VAR_007580 (I73V, chain A/B, )
56: VAR_007581 (D74H, chain A/B, )
57: VAR_007582 (S77Y, chain A/B, )
58: VAR_038979 (Y78F, chain A/B, )
59: VAR_007583 (I84N, chain A/B, )
60: VAR_007584 (I84S, chain A/B, )
61: VAR_038980 (I84T, chain A/B, )
62: VAR_010659 (E89K, chain A/B, )
63: VAR_007585 (E89Q, chain A/B, )
64: VAR_007586 (H90N, chain A/B, )
65: VAR_007587 (A91S, chain A/B, )
66: VAR_038981 (V94A, chain A/B, )
67: VAR_007588 (A97G, chain A/B, )
68: VAR_038982 (A97S, chain A/B, )
69: VAR_007589 (G101S, chain A, )
70: VAR_007590 (P102R, chain A/B, )
71: VAR_007591 (R104C, chain A/B, )
72: VAR_038983 (R104H, chain A/B, )
73: VAR_038984 (T106N, chain A/B, )
74: VAR_038985 (I107M, chain A/B, )
75: VAR_007592 (I107V, chain A/B, )
76: VAR_007593 (A109T, chain A/B, )
77: VAR_007594 (L111M, chain A/B, )
78: VAR_007595 (Y114C, chain A/B, )
79: VAR_007598 (Y114H, chain A/B, )
80: VAR_007596 (Y116S, chain A/B, )
81: VAR_007597 (Y116V, chain A/B, )
82: VAR_007599 (T119M, chain A/B, )
83: VAR_038986 (A120S, chain A/B, )
84: VAR_038987 (V122A, chain A/B, )
85: VAR_007600 (V122I, chain A/B, )
86: VAR_038988 (N124S, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_007547
C
30
R
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
C
10
R
02
UniProt
VAR_038959
L
32
P
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
L
12
P
03
UniProt
VAR_038960
M
33
I
TTHY_HUMAN
Polymorphism
---
A/B
M
13
I
04
UniProt
VAR_007548
D
38
E
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
D
18
E
05
UniProt
VAR_007549
D
38
G
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
D
18
G
06
UniProt
VAR_007550
V
40
I
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
V
20
I
07
UniProt
VAR_038961
S
43
N
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
S
23
N
08
UniProt
VAR_007551
P
44
S
TTHY_HUMAN
Disease (AMYL-TTR)
11541790
A/B
P
24
S
09
UniProt
VAR_010658
V
48
M
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
V
28
M
10
UniProt
VAR_007552
V
50
A
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
V
30
A
11
UniProt
VAR_038962
V
50
G
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
V
30
G
12
UniProt
VAR_007553
V
50
L
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
V
30
L
13
UniProt
VAR_007554
V
50
M
TTHY_HUMAN
Disease (AMYL-TTR)
28933979
A/B
V
30
M
14
UniProt
VAR_038963
F
53
C
TTHY_HUMAN
Unclassified
---
A/B
F
33
C
15
UniProt
VAR_007555
F
53
I
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
F
33
I
16
UniProt
VAR_007556
F
53
L
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
F
33
L
17
UniProt
VAR_038964
F
53
V
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
F
33
V
18
UniProt
VAR_038965
R
54
T
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
R
34
T
19
UniProt
VAR_038966
K
55
N
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
K
35
N
20
UniProt
VAR_007557
A
56
P
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
36
P
21
UniProt
VAR_038967
D
58
A
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
D
38
A
22
UniProt
VAR_038968
D
58
V
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
D
38
V
23
UniProt
VAR_038969
W
61
L
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
W
41
L
24
UniProt
VAR_038970
E
62
D
TTHY_HUMAN
Disease (AMYL-TTR)
11541796
A/B
E
42
D
25
UniProt
VAR_007558
E
62
G
TTHY_HUMAN
Disease (AMYL-TTR)
11541796
A/B
E
42
G
26
UniProt
VAR_038971
F
64
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
F
44
S
27
UniProt
VAR_007559
A
65
D
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
45
D
28
UniProt
VAR_038972
A
65
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
45
S
29
UniProt
VAR_007560
A
65
T
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
45
T
30
UniProt
VAR_007561
G
67
A
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
G
47
A
31
UniProt
VAR_038973
G
67
E
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
G
47
E
32
UniProt
VAR_007562
G
67
R
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
G
47
R
33
UniProt
VAR_007563
G
67
V
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
G
47
V
34
UniProt
VAR_007564
T
69
A
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
T
49
A
35
UniProt
VAR_038974
T
69
I
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
T
49
I
36
UniProt
VAR_007565
S
70
I
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
S
50
I
37
UniProt
VAR_007566
S
70
R
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
S
50
R
38
UniProt
VAR_007567
S
72
P
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
S
52
P
39
UniProt
VAR_038975
G
73
E
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
G
53
E
40
UniProt
VAR_007568
E
74
G
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
E
54
G
41
UniProt
VAR_038976
E
74
K
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
E
54
K
42
UniProt
VAR_007569
L
75
P
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
L
55
P
43
UniProt
VAR_038977
L
75
Q
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
L
55
Q
44
UniProt
VAR_007570
L
78
H
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
L
58
H
45
UniProt
VAR_007571
L
78
R
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
L
58
R
46
UniProt
VAR_007572
T
79
K
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
T
59
K
47
UniProt
VAR_007573
T
80
A
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
T
60
A
48
UniProt
VAR_038978
E
81
G
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
E
61
G
49
UniProt
VAR_007574
E
81
K
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
E
61
K
50
UniProt
VAR_007575
F
84
L
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
F
64
L
51
UniProt
VAR_007576
I
88
L
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
I
68
L
52
UniProt
VAR_007577
Y
89
H
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
Y
69
H
53
UniProt
VAR_007578
K
90
N
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
K
70
N
54
UniProt
VAR_007579
V
91
A
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
V
71
A
55
UniProt
VAR_007580
I
93
V
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
I
73
V
56
UniProt
VAR_007581
D
94
H
TTHY_HUMAN
Polymorphism
---
A/B
D
74
H
57
UniProt
VAR_007582
S
97
Y
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
S
77
Y
58
UniProt
VAR_038979
Y
98
F
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
Y
78
F
59
UniProt
VAR_007583
I
104
N
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
I
84
N
60
UniProt
VAR_007584
I
104
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
I
84
S
61
UniProt
VAR_038980
I
104
T
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
I
84
T
62
UniProt
VAR_010659
E
109
K
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
E
89
K
63
UniProt
VAR_007585
E
109
Q
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
E
89
Q
64
UniProt
VAR_007586
H
110
N
TTHY_HUMAN
Polymorphism
---
A/B
H
90
N
65
UniProt
VAR_007587
A
111
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
91
S
66
UniProt
VAR_038981
V
114
A
TTHY_HUMAN
Unclassified
---
A/B
V
94
A
67
UniProt
VAR_007588
A
117
G
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
97
G
68
UniProt
VAR_038982
A
117
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
97
S
69
UniProt
VAR_007589
G
121
S
TTHY_HUMAN
Polymorphism
---
A
G
101
S
70
UniProt
VAR_007590
P
122
R
TTHY_HUMAN
Polymorphism
---
A/B
P
102
R
71
UniProt
VAR_007591
R
124
C
TTHY_HUMAN
Polymorphism
---
A/B
R
104
C
72
UniProt
VAR_038983
R
124
H
TTHY_HUMAN
Polymorphism
121918095
A/B
R
104
H
73
UniProt
VAR_038984
T
126
N
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
T
106
N
74
UniProt
VAR_038985
I
127
M
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
I
107
M
75
UniProt
VAR_007592
I
127
V
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
I
107
V
76
UniProt
VAR_007593
A
129
T
TTHY_HUMAN
Disease (DTTRH)
---
A/B
A
109
T
77
UniProt
VAR_007594
L
131
M
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
L
111
M
78
UniProt
VAR_007595
Y
134
C
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
Y
114
C
79
UniProt
VAR_007598
Y
134
H
TTHY_HUMAN
Disease (CTS1)
---
A/B
Y
114
H
80
UniProt
VAR_007596
Y
136
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
Y
116
S
81
UniProt
VAR_007597
Y
136
V
TTHY_HUMAN
Unclassified
---
A/B
Y
116
V
82
UniProt
VAR_007599
T
139
M
TTHY_HUMAN
Polymorphism
28933981
A/B
T
119
M
83
UniProt
VAR_038986
A
140
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
A
120
S
84
UniProt
VAR_038987
V
142
A
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
V
122
A
85
UniProt
VAR_007600
V
142
I
TTHY_HUMAN
Disease (AMYL-TTR)
28933980
A/B
V
122
I
86
UniProt
VAR_038988
N
144
S
TTHY_HUMAN
Disease (AMYL-TTR)
---
A/B
N
124
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: TRANSTHYRETIN_1 (A:15-30,B:15-30)
2: TRANSTHYRETIN_2 (A:105-117,B:105-117)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRANSTHYRETIN_1
PS00768
Transthyretin signature 1.
TTHY_HUMAN
35-50
4
A:15-30
B:15-30
2
TRANSTHYRETIN_2
PS00769
Transthyretin signature 2.
TTHY_HUMAN
125-137
4
A:105-117
B:105-117
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2flma_ (A:)
1b: SCOP_d2flmb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Prealbumin-like
(433)
Superfamily
:
Transthyretin (synonym: prealbumin)
(211)
Family
:
Transthyretin (synonym: prealbumin)
(198)
Protein domain
:
Transthyretin (synonym: prealbumin)
(194)
Human (Homo sapiens) [TaxId: 9606]
(184)
1a
d2flma_
A:
1b
d2flmb_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2flmA00 (A:10-124)
1b: CATH_2flmB00 (B:10-124)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
[code=2.60.40.180, no name defined]
(150)
Human (Homo sapiens)
(131)
1a
2flmA00
A:10-124
1b
2flmB00
B:10-124
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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
Chain B
Asymmetric Unit 1
Asymmetric Unit 2
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 (46 KB)
Header - Asym.Unit
Biol.Unit 1 (81 KB)
Header - Biol.Unit 1
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
2FLM
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
