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.
1BUU
Asym. Unit
Info
Asym.Unit (32 KB)
Biol.Unit 1 (81 KB)
Biol.Unit 2 (81 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
ONE HO3+ FORM OF RAT MANNOSE-BINDING PROTEIN A
Authors
:
K. K. -S. Ng, S. Park-Snyder, W. I. Weis
Date
:
06 Sep 98 (Deposition) - 09 Sep 98 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A
Biol. Unit 1: A (3x)
Biol. Unit 2: A (3x)
Keywords
:
Lectin, Host Defense, Metalloprotein, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. K. Ng, S. Park-Snyder, W. I. Weis
Ca2+-Dependent Structural Changes In C-Type Mannose-Binding Proteins.
Biochemistry V. 37 17965 1998
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: HOLMIUM ATOM (HOa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HO
1
Ligand/Ion
HOLMIUM ATOM
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: HO1 (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:161 , GLU A:165 , ASP A:188 , GLU A:193 , ASP A:194 , HOH A:252
BINDING SITE FOR RESIDUE HO A 222
2
HO1
AUTHOR
ASP A:161 , GLU A:165 , ASP A:188 , GLU A:193 , ASP A:194 , HOH A:252
THIS IS DESIGNATED CALCIUM SITE 1 IN THE CALCIUM -BOUND MBP STRUCTURES
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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: C_TYPE_LECTIN_2 (A:106-218)
2: C_TYPE_LECTIN_1 (A:195-217)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C_TYPE_LECTIN_2
PS50041
C-type lectin domain profile.
MBL1_RAT
123-235
1
A:106-218
2
C_TYPE_LECTIN_1
PS00615
C-type lectin domain signature.
MBL1_RAT
212-234
1
A:195-217
[
close PROSITE info
]
Exons
(3, 3)
Info
All Exons
Exon 1.3 (A:73-73)
Exon 1.4 (A:73-98)
Exon 1.5 (A:98-221)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2/1.3
2: Boundary 1.3/1.4
3: Boundary 1.4/1.5
4: Boundary 1.5/-
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
ENSRNOT00000015723
1
ENSRNOE00000411163
chr16:
17591820-17591881
62
MBL1_RAT
-
0
0
-
-
1.2
ENSRNOT00000015723
2
ENSRNOE00000110617
chr16:
17593783-17593943
161
MBL1_RAT
1-51
51
0
-
-
1.3
ENSRNOT00000015723
3
ENSRNOE00000110943
chr16:
17594301-17594417
117
MBL1_RAT
51-90
40
1
A:73-73
1
1.4
ENSRNOT00000015723
4
ENSRNOE00000111237
chr16:
17596168-17596242
75
MBL1_RAT
90-115
26
1
A:73-98
26
1.5
ENSRNOT00000015723
5
ENSRNOE00000111555
chr16:
17597083-17597859
777
MBL1_RAT
115-238
124
1
A:98-221
124
[
close EXON info
]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1buua1 (A:105-221)
2a: SCOP_d1buua2 (A:73-104)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
C-type lectin domain
(182)
Protein domain
:
Mannose-binding protein A, C-lectin domain
(39)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(38)
1a
d1buua1
A:105-221
Class
:
Coiled coil proteins
(689)
Fold
:
Parallel coiled-coil
(407)
Superfamily
:
Triple coiled coil domain of C-type lectins
(54)
Family
:
Triple coiled coil domain of C-type lectins
(54)
Protein domain
:
Mannose-binding protein A
(23)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(22)
2a
d1buua2
A:73-104
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1buuA00 (A:73-221)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Mannose-Binding Protein A; Chain A
(180)
Homologous Superfamily
:
Mannose-Binding Protein A, subunit A
(180)
Norway rat (Rattus norvegicus)
(32)
1a
1buuA00
A:73-221
[
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
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 (32 KB)
Header - Asym.Unit
Biol.Unit 1 (81 KB)
Header - Biol.Unit 1
Biol.Unit 2 (81 KB)
Header - Biol.Unit 2
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
1BUU
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
