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.
4WJG
Biol. Unit 1
Info
Asym.Unit (1.9 MB)
Biol.Unit 1 (662 KB)
Biol.Unit 2 (663 KB)
Biol.Unit 3 (664 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF T. BRUCEI HAPTOGLOBIN-HEMOGLOBIN RECEPTOR BINDING TO HUMAN HAPTOGLOBIN-HEMOGLOBIN
Authors
:
K. Stoedkilde, M. Torvund-Jensen, S. K. Moestrup, C. B. F. Andersen
Date
:
30 Sep 14 (Deposition) - 26 Nov 14 (Release) - 03 Dec 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,1,2,3,4
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J (1x)
Biol. Unit 2: K,L,M,N,O,P,Q,R,S,T (1x)
Biol. Unit 3: U,V,W,X,Y,Z,1,2,3,4 (1x)
Keywords
:
Endocytosis, Trypanosome, Receptor
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Stdkilde, M. Torvund-Jensen, S. K. Moestrup, C. B. Andersen
Structural Basis For Trypanosomal Haem Acquisition And Susceptibility To The Host Innate Immune System.
Nat Commun V. 5 5487 2014
[
close entry info
]
Hetero Components
(3, 22)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
1c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
1d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
1e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
1f: PROTOPORPHYRIN IX CONTAINING FE (HEMf)
1g: PROTOPORPHYRIN IX CONTAINING FE (HEMg)
1h: PROTOPORPHYRIN IX CONTAINING FE (HEMh)
1i: PROTOPORPHYRIN IX CONTAINING FE (HEMi)
1j: PROTOPORPHYRIN IX CONTAINING FE (HEMj)
1k: PROTOPORPHYRIN IX CONTAINING FE (HEMk)
1l: PROTOPORPHYRIN IX CONTAINING FE (HEMl)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
2ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
2ac: N-ACETYL-D-GLUCOSAMINE (NAGac)
2ad: N-ACETYL-D-GLUCOSAMINE (NAGad)
2ae: N-ACETYL-D-GLUCOSAMINE (NAGae)
2af: N-ACETYL-D-GLUCOSAMINE (NAGaf)
2ag: N-ACETYL-D-GLUCOSAMINE (NAGag)
2ah: N-ACETYL-D-GLUCOSAMINE (NAGah)
2ai: N-ACETYL-D-GLUCOSAMINE (NAGai)
2aj: N-ACETYL-D-GLUCOSAMINE (NAGaj)
2ak: N-ACETYL-D-GLUCOSAMINE (NAGak)
2al: N-ACETYL-D-GLUCOSAMINE (NAGal)
2am: N-ACETYL-D-GLUCOSAMINE (NAGam)
2an: N-ACETYL-D-GLUCOSAMINE (NAGan)
2ao: N-ACETYL-D-GLUCOSAMINE (NAGao)
2ap: N-ACETYL-D-GLUCOSAMINE (NAGap)
2aq: N-ACETYL-D-GLUCOSAMINE (NAGaq)
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)
2o: N-ACETYL-D-GLUCOSAMINE (NAGo)
2p: N-ACETYL-D-GLUCOSAMINE (NAGp)
2q: N-ACETYL-D-GLUCOSAMINE (NAGq)
2r: N-ACETYL-D-GLUCOSAMINE (NAGr)
2s: N-ACETYL-D-GLUCOSAMINE (NAGs)
2t: N-ACETYL-D-GLUCOSAMINE (NAGt)
2u: N-ACETYL-D-GLUCOSAMINE (NAGu)
2v: N-ACETYL-D-GLUCOSAMINE (NAGv)
2w: N-ACETYL-D-GLUCOSAMINE (NAGw)
2x: N-ACETYL-D-GLUCOSAMINE (NAGx)
2y: N-ACETYL-D-GLUCOSAMINE (NAGy)
2z: N-ACETYL-D-GLUCOSAMINE (NAGz)
3a: OXYGEN MOLECULE (OXYa)
3b: OXYGEN MOLECULE (OXYb)
3c: OXYGEN MOLECULE (OXYc)
3d: OXYGEN MOLECULE (OXYd)
3e: OXYGEN MOLECULE (OXYe)
3f: OXYGEN MOLECULE (OXYf)
3g: OXYGEN MOLECULE (OXYg)
3h: OXYGEN MOLECULE (OXYh)
3i: OXYGEN MOLECULE (OXYi)
3j: OXYGEN MOLECULE (OXYj)
3k: OXYGEN MOLECULE (OXYk)
3l: OXYGEN MOLECULE (OXYl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEM
4
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
NAG
14
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
3
OXY
4
Ligand/Ion
OXYGEN MOLECULE
[
close Hetero Component info
]
Sites
(21, 21)
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: AF3 (SOFTWARE)
10: AF4 (SOFTWARE)
11: AF5 (SOFTWARE)
12: AF6 (SOFTWARE)
13: AF7 (SOFTWARE)
14: AF8 (SOFTWARE)
15: AF9 (SOFTWARE)
16: AG1 (SOFTWARE)
17: AG2 (SOFTWARE)
18: AG3 (SOFTWARE)
19: AG4 (SOFTWARE)
20: AG8 (SOFTWARE)
21: AH5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:42 , PHE A:43 , PHE A:46 , LYS A:61 , ALA A:65 , LEU A:86 , HIS A:87 , LEU A:91 , VAL A:93 , ASN A:97 , PHE A:98 , LEU A:101 , VAL A:132 , LEU A:136 , OXY A:202
binding site for residue HEM A 201
02
AC2
SOFTWARE
PHE A:43 , HIS A:58 , VAL A:62 , HEM A:201
binding site for residue OXY A 202
03
AC3
SOFTWARE
PHE B:41 , PHE B:42 , LYS B:66 , ALA B:70 , LEU B:88 , HIS B:92 , VAL B:98 , ASN B:102 , PHE B:103 , LEU B:106 , LEU B:141 , OXY B:202 , LYS E:56 , SER E:59 , LYS E:164
binding site for residue HEM B 201
04
AC4
SOFTWARE
PHE B:42 , HIS B:63 , VAL B:67 , HEM B:201
binding site for residue OXY B 202
05
AC5
SOFTWARE
TYR F:42 , PHE F:43 , PHE F:46 , HIS F:58 , ALA F:65 , LEU F:83 , LEU F:86 , HIS F:87 , LEU F:91 , VAL F:93 , LEU F:101 , VAL F:132 , OXY F:202
binding site for residue HEM F 201
06
AC6
SOFTWARE
PHE F:43 , HIS F:58 , VAL F:62 , HEM F:201
binding site for residue OXY F 202
07
AC7
SOFTWARE
PHE G:41 , PHE G:42 , LYS G:66 , ALA G:70 , LEU G:88 , HIS G:92 , VAL G:98 , ASN G:102 , PHE G:103 , LEU G:106 , LEU G:141 , OXY G:202 , LYS J:56 , SER J:59 , LYS J:164
binding site for residue HEM G 201
08
AC8
SOFTWARE
PHE G:42 , HIS G:63 , VAL G:67 , HEM G:201
binding site for residue OXY G 202
09
AF3
SOFTWARE
ASN C:180 , PHE C:288
binding site for Mono-Saccharide NAG C 1001 bound to ASN C 180
10
AF4
SOFTWARE
HIS C:178 , HIS C:179 , ASN C:203
binding site for Poly-Saccharide residues NAG C 1002 through NAG C 1003 bound to ASN C 203
11
AF5
SOFTWARE
ASN C:207
binding site for Mono-Saccharide NAG C 1004 bound to ASN C 207
12
AF6
SOFTWARE
ASN C:237 , GLN C:240 , GLU C:332 , ALA T:36 , LYS T:183
binding site for Poly-Saccharide residues NAG C 1005 through NAG C 1006 bound to ASN C 237
13
AF7
SOFTWARE
LEU E:134 , ASN E:137
binding site for Mono-Saccharide NAG E 1001 bound to ASN E 137
14
AF8
SOFTWARE
THR E:205 , SER E:206 , ASN E:241
binding site for Mono-Saccharide NAG E 1002 bound to ASN E 241
15
AF9
SOFTWARE
ASN H:180 , THR H:182 , PHE H:288
binding site for Mono-Saccharide NAG H 1001 bound to ASN H 180
16
AG1
SOFTWARE
ASN H:203 , HIS H:204
binding site for Mono-Saccharide NAG H 1002 bound to ASN H 203
17
AG2
SOFTWARE
ASN H:237 , GLN H:240 , GLU H:332 , ALA O:36 , LYS O:183 , ASN O:185
binding site for Poly-Saccharide residues NAG H 1003 through NAG H 1004 bound to ASN H 237
18
AG3
SOFTWARE
ASN J:137
binding site for Mono-Saccharide NAG J 1001 bound to ASN J 137
19
AG4
SOFTWARE
THR J:205 , SER J:206 , ASN J:241
binding site for Mono-Saccharide NAG J 1002 bound to ASN J 241
20
AG8
SOFTWARE
ALA J:36 , ASN M:237 , GLN M:240 , GLU M:332
binding site for Poly-Saccharide residues NAG M 1005 through NAG M 1006 bound to ASN M 237
21
AH5
SOFTWARE
ALA E:180 , LYS E:183 , ASN R:237 , GLN R:240 , GLU R:332
binding site for Poly-Saccharide residues NAG R 1005 through NAG R 1006 bound to ASN R 237
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
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
(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
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
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 (1.9 MB)
Header - Asym.Unit
Biol.Unit 1 (662 KB)
Header - Biol.Unit 1
Biol.Unit 2 (663 KB)
Header - Biol.Unit 2
Biol.Unit 3 (664 KB)
Header - Biol.Unit 3
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
4WJG
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
