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Getting 'Biological Unit' information from database.
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3J0A
Asym. Unit
Info
Asym.Unit (212 KB)
Biol.Unit 1 (203 KB)
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(1)
Title
:
HOMOLOGY MODEL OF HUMAN TOLL-LIKE RECEPTOR 5 FITTED INTO AN ELECTRON MICROSCOPY SINGLE PARTICLE RECONSTRUCTION
Authors
:
Y. Modis, K. Zhou, R. Kanai, P. Lee, H. W. Wang
Date
:
02 Jun 11 (Deposition) - 28 Dec 11 (Release) - 07 Mar 12 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
26.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Toll-Like Receptor 5, Membrane Protein, Leucine-Rich Repeat, Asymmetric Homodimer, Glycoprotein, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Zhou, R. Kanai, P. Lee, H. W. Wang, Y. Modis
Toll-Like Receptor 5 Forms Asymmetric Dimers In The Absence Of Flagellin.
J. Struct. Biol. V. 177 402 2012
[
close entry info
]
Hetero Components
(2, 28)
Info
All Hetero Components
1a: ALPHA-L-FUCOSE (FUCa)
1b: ALPHA-L-FUCOSE (FUCb)
1c: ALPHA-L-FUCOSE (FUCc)
1d: ALPHA-L-FUCOSE (FUCd)
1e: ALPHA-L-FUCOSE (FUCe)
1f: ALPHA-L-FUCOSE (FUCf)
1g: ALPHA-L-FUCOSE (FUCg)
1h: ALPHA-L-FUCOSE (FUCh)
1i: ALPHA-L-FUCOSE (FUCi)
1j: ALPHA-L-FUCOSE (FUCj)
1k: ALPHA-L-FUCOSE (FUCk)
1l: ALPHA-L-FUCOSE (FUCl)
1m: ALPHA-L-FUCOSE (FUCm)
1n: ALPHA-L-FUCOSE (FUCn)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
2c: N-ACETYL-D-GLUCOSAMINE (NAGc)
2d: N-ACETYL-D-GLUCOSAMINE (NAGd)
2e: N-ACETYL-D-GLUCOSAMINE (NAGe)
2f: N-ACETYL-D-GLUCOSAMINE (NAGf)
2g: N-ACETYL-D-GLUCOSAMINE (NAGg)
2h: N-ACETYL-D-GLUCOSAMINE (NAGh)
2i: N-ACETYL-D-GLUCOSAMINE (NAGi)
2j: N-ACETYL-D-GLUCOSAMINE (NAGj)
2k: N-ACETYL-D-GLUCOSAMINE (NAGk)
2l: N-ACETYL-D-GLUCOSAMINE (NAGl)
2m: N-ACETYL-D-GLUCOSAMINE (NAGm)
2n: N-ACETYL-D-GLUCOSAMINE (NAGn)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FUC
14
Ligand/Ion
ALPHA-L-FUCOSE
2
NAG
14
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(28, 28)
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)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:36 , ASN A:37 , GLN A:43 , FUC A:1038
BINDING SITE FOR RESIDUE NAG A 1037
02
AC2
SOFTWARE
CYS A:36 , LEU A:38 , NAG A:1037
BINDING SITE FOR RESIDUE FUC A 1038
03
AC3
SOFTWARE
ASN A:46 , FUC A:2047
BINDING SITE FOR RESIDUE NAG A 2046
04
AC4
SOFTWARE
GLU A:70 , NAG A:2046
BINDING SITE FOR RESIDUE FUC A 2047
05
AC5
SOFTWARE
SER A:213 , TRP A:216 , ILE A:242 , ASN A:245 , FUC A:1246
BINDING SITE FOR RESIDUE NAG A 1245
06
AC6
SOFTWARE
NAG A:1245
BINDING SITE FOR RESIDUE FUC A 1246
07
AC7
SOFTWARE
ASN A:318 , VAL A:340 , ASN A:342 , TYR A:364 , FUC A:1343
BINDING SITE FOR RESIDUE NAG A 1342
08
AC8
SOFTWARE
ALA A:320 , NAG A:1342
BINDING SITE FOR RESIDUE FUC A 1343
09
AC9
SOFTWARE
ASN A:422 , FUC A:1423
BINDING SITE FOR RESIDUE NAG A 1422
10
BC1
SOFTWARE
NAG A:1422
BINDING SITE FOR RESIDUE FUC A 1423
11
BC2
SOFTWARE
ASN A:595 , LEU A:624 , FUC A:1596
BINDING SITE FOR RESIDUE NAG A 1595
12
BC3
SOFTWARE
NAG A:1595
BINDING SITE FOR RESIDUE FUC A 1596
13
BC4
SOFTWARE
HIS A:596 , THR A:597 , ASN A:598 , FUC A:2599
BINDING SITE FOR RESIDUE NAG A 2598
14
BC5
SOFTWARE
NAG A:2598
BINDING SITE FOR RESIDUE FUC A 2599
15
BC6
SOFTWARE
CYS B:36 , ASN B:37 , VAL B:41 , GLN B:43 , FUC B:1038
BINDING SITE FOR RESIDUE NAG B 1037
16
BC7
SOFTWARE
CYS B:36 , TYR B:57 , NAG B:1037
BINDING SITE FOR RESIDUE FUC B 1038
17
BC8
SOFTWARE
LEU B:45 , ASN B:46 , FUC B:2047
BINDING SITE FOR RESIDUE NAG B 2046
18
BC9
SOFTWARE
GLU B:70 , NAG B:2046
BINDING SITE FOR RESIDUE FUC B 2047
19
CC1
SOFTWARE
VAL B:212 , SER B:213 , ILE B:242 , ASN B:245 , FUC B:1246
BINDING SITE FOR RESIDUE NAG B 1245
20
CC2
SOFTWARE
TRP B:216 , NAG B:1245
BINDING SITE FOR RESIDUE FUC B 1246
21
CC3
SOFTWARE
VAL B:340 , ASN B:342 , TYR B:364 , FUC B:1343
BINDING SITE FOR RESIDUE NAG B 1342
22
CC4
SOFTWARE
NAG B:1342
BINDING SITE FOR RESIDUE FUC B 1343
23
CC5
SOFTWARE
ILE B:402 , ASN B:422 , FUC B:1423
BINDING SITE FOR RESIDUE NAG B 1422
24
CC6
SOFTWARE
NAG B:1422
BINDING SITE FOR RESIDUE FUC B 1423
25
CC7
SOFTWARE
ASN B:592 , ASN B:595 , LEU B:624 , FUC B:1596
BINDING SITE FOR RESIDUE NAG B 1595
26
CC8
SOFTWARE
ASN B:592 , HIS B:596 , NAG B:1595
BINDING SITE FOR RESIDUE FUC B 1596
27
CC9
SOFTWARE
HIS B:596 , THR B:597 , ASN B:598 , FUC B:2599
BINDING SITE FOR RESIDUE NAG B 2598
28
DC1
SOFTWARE
NAG B:2598
BINDING SITE FOR RESIDUE FUC B 2599
[
close Site info
]
SAPs(SNPs)/Variants
(9, 16)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_032455 (T82I, chain A/B, )
2: VAR_032456 (P112A, chain A/B, )
3: VAR_061856 (N143T, chain A/B, )
4: VAR_061857 (Q181K, chain A/B, )
5: VAR_018399 (N592S, chain A/B, )
6: VAR_018400 (F616L, chain A/B, )
7: VAR_070457 (I644F, chain A/B, )
8: VAR_061858 (L769F, chain A, )
9: VAR_047454 (F822L, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_032455
T
82
I
TLR5_HUMAN
Polymorphism
764535
A/B
T
82
I
2
UniProt
VAR_032456
P
112
A
TLR5_HUMAN
Polymorphism
5744166
A/B
P
112
A
3
UniProt
VAR_061856
N
143
T
TLR5_HUMAN
Polymorphism
5744167
A/B
N
143
T
4
UniProt
VAR_061857
Q
181
K
TLR5_HUMAN
Polymorphism
45528236
A/B
Q
181
K
5
UniProt
VAR_018399
N
592
S
TLR5_HUMAN
Polymorphism
2072493
A/B
N
592
S
6
UniProt
VAR_018400
F
616
L
TLR5_HUMAN
Polymorphism
5744174
A/B
F
616
L
7
UniProt
VAR_070457
I
644
F
TLR5_HUMAN
Polymorphism
5744175
A/B
I
644
F
8
UniProt
VAR_061858
L
769
F
TLR5_HUMAN
Polymorphism
56243703
A
L
769
F
9
UniProt
VAR_047454
F
822
L
TLR5_HUMAN
Polymorphism
7512943
A
F
822
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 25)
Info
All PROSITE Patterns/Profiles
1: LRR (A:96-117,B:96-117|A:146-167,B:146-...)
2: TIR (A:691-827)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LRR
PS51450
Leucine-rich repeat profile.
TLR5_HUMAN
96-117
146-167
171-192
313-334
337-358
385-406
422-445
449-470
474-494
503-524
527-547
549-570
24
A:96-117
B:96-117
A:146-167
B:146-167
A:171-192
B:171-192
A:313-334
B:313-334
A:337-358
B:337-358
A:385-406
B:385-406
A:422-445
B:422-445
A:449-470
B:449-470
A:474-494
B:474-494
A:503-524
B:503-524
A:527-547
B:527-547
A:549-570
B:549-570
2
TIR
PS50104
TIR domain profile.
TLR5_HUMAN
691-827
1
A:691-827
[
close PROSITE info
]
Exons
(1, 2)
Info
All Exons
Exon 1.7b (A:23-845 (gaps) | B:23-664 (gaps))
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.6/1.7b
2: Boundary 1.7b/-
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
1.1a
ENST00000366881
1a
ENSE00001442886
chr1:
223316624-223316538
87
TLR5_HUMAN
-
0
0
-
-
1.2a
ENST00000366881
2a
ENSE00001442885
chr1:
223315105-223314990
116
TLR5_HUMAN
-
0
0
-
-
1.3b
ENST00000366881
3b
ENSE00001442884
chr1:
223310605-223310520
86
TLR5_HUMAN
-
0
0
-
-
1.4
ENST00000366881
4
ENSE00001377361
chr1:
223308206-223308024
183
TLR5_HUMAN
-
0
0
-
-
1.6
ENST00000366881
6
ENSE00001382825
chr1:
223305981-223305817
165
TLR5_HUMAN
-
0
0
-
-
1.7b
ENST00000366881
7b
ENSE00001442883
chr1:
223286377-223283647
2731
TLR5_HUMAN
1-860
860
2
A:23-845 (gaps)
B:23-664 (gaps)
823
642
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
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)
Protein
Nucleic
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Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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