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4BOF
Asym. Unit
Info
Asym.Unit (1.1 MB)
Biol.Unit 1 (282 KB)
Biol.Unit 2 (282 KB)
Biol.Unit 3 (281 KB)
Biol.Unit 4 (283 KB)
Biol.Unit 5 (283 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ARGININE DEIMINASE FROM GROUP A STREPTOCOCCUS
Authors
:
A. Henningham, D. J. Ericsson, K. Langer, L. Casey, B. Jovcevski, G. S. C J. A. Aquilina, M. R. Batzloff, B. Kobe, M. J. Walker
Date
:
20 May 13 (Deposition) - 21 Aug 13 (Release) - 28 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.48
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,H (1x)
Biol. Unit 2: B,C (1x)
Biol. Unit 3: F,G (1x)
Biol. Unit 4: D,E (1x)
Biol. Unit 5: D,E (1x)
Keywords
:
Hydrolase, Vaccine
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Henningham, D. J. Ericsson, K. Langer, L. W. Casey, B. Jovcevski, G. S. Chhatwal, J. A. Aquilina, M. R. Batzloff, B. Kobe, M. J. Walker
Structure-Informed Design Of An Enzymatically Inactive Vaccine Component For Group A Streptococcus.
Mbio V. 4 2013
[
close entry info
]
Hetero Components
(3, 19)
Info
All Hetero Components
1a: TETRAETHYLENE GLYCOL (PG4a)
2a: TRIETHYLENE GLYCOL (PGEa)
2b: TRIETHYLENE GLYCOL (PGEb)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
PG4
1
Ligand/Ion
TETRAETHYLENE GLYCOL
2
PGE
2
Ligand/Ion
TRIETHYLENE GLYCOL
3
SO4
16
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(19, 19)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:367 , ASN A:368 , ARG A:369 , ILE A:387 , HIS A:388 , GLY A:389 , SER A:390 , PHE H:46
BINDING SITE FOR RESIDUE SO4 A 420
02
AC2
SOFTWARE
GLY A:100 , ARG A:101 , GLY A:142 , THR A:144 , ASP A:145 , GLU D:246
BINDING SITE FOR RESIDUE SO4 A 421
03
AC3
SOFTWARE
LEU A:71 , ASN A:160 , LEU A:161 , PHE A:163 , THR A:164 , PRO A:167 , PHE A:168 , ARG A:185 , GLU A:188 , THR A:189 , GLY A:192
BINDING SITE FOR RESIDUE PGE A 422
04
AC4
SOFTWARE
TYR B:367 , ASN B:368 , ARG B:369 , ILE B:387 , HIS B:388 , GLY B:389 , SER B:390 , PHE C:46
BINDING SITE FOR RESIDUE SO4 B 420
05
AC5
SOFTWARE
GLY B:100 , ARG B:101 , GLY B:142 , LEU B:143 , THR B:144 , ASP B:145 , GLU G:246
BINDING SITE FOR RESIDUE SO4 B 421
06
AC6
SOFTWARE
TYR C:367 , ASN C:368 , ARG C:369 , ILE C:387 , HIS C:388 , GLY C:389 , SER C:390
BINDING SITE FOR RESIDUE SO4 C 420
07
AC7
SOFTWARE
GLY C:100 , ARG C:101 , LEU C:143 , THR C:144 , ASP C:145 , GLU F:246
BINDING SITE FOR RESIDUE SO4 C 421
08
AC8
SOFTWARE
TYR D:367 , ASN D:368 , ARG D:369 , ILE D:387 , HIS D:388 , GLY D:389 , SER D:390 , PHE E:46
BINDING SITE FOR RESIDUE SO4 D 420
09
AC9
SOFTWARE
GLU A:246 , GLY D:100 , ARG D:101 , GLY D:142 , LEU D:143 , THR D:144 , ASP D:145
BINDING SITE FOR RESIDUE SO4 D 421
10
BC1
SOFTWARE
PHE D:46 , TYR E:367 , ASN E:368 , ARG E:369 , ILE E:387 , HIS E:388 , GLY E:389 , SER E:390
BINDING SITE FOR RESIDUE SO4 E 420
11
BC2
SOFTWARE
GLY E:100 , ARG E:101 , GLY E:142 , LEU E:143 , THR E:144 , ASP E:145 , GLU H:246
BINDING SITE FOR RESIDUE SO4 E 421
12
BC3
SOFTWARE
TYR F:367 , ASN F:368 , ARG F:369 , ILE F:387 , HIS F:388 , GLY F:389 , SER F:390 , HOH F:2056
BINDING SITE FOR RESIDUE SO4 F 420
13
BC4
SOFTWARE
GLU C:246 , GLY F:100 , ARG F:101 , GLY F:142 , LEU F:143 , THR F:144 , ASP F:145
BINDING SITE FOR RESIDUE SO4 F 421
14
BC5
SOFTWARE
GLU F:29 , ASP F:43 , ILE F:44 , PRO F:45 , PHE F:46 , LEU F:47 , ARG F:394 , HOH F:2062 , ARG G:347 , ASN G:351 , ARG G:369 , THR G:371 , VAL G:393 , ARG G:396
BINDING SITE FOR RESIDUE PG4 F 422
15
BC6
SOFTWARE
ALA F:96 , ASN F:97 , ALA F:154 , ASP F:156 , PRO F:157 , THR F:184 , ARG F:187
BINDING SITE FOR RESIDUE PGE F 423
16
BC7
SOFTWARE
HOH F:2014 , TYR G:367 , ASN G:368 , ARG G:369 , ILE G:387 , HIS G:388 , GLY G:389 , SER G:390
BINDING SITE FOR RESIDUE SO4 G 420
17
BC8
SOFTWARE
GLU B:246 , GLY G:100 , ARG G:101 , GLY G:142 , LEU G:143 , THR G:144 , ASP G:145
BINDING SITE FOR RESIDUE SO4 G 421
18
BC9
SOFTWARE
HOH A:2014 , TYR H:367 , ASN H:368 , ARG H:369 , ILE H:387 , HIS H:388 , GLY H:389 , SER H:390
BINDING SITE FOR RESIDUE SO4 H 420
19
CC1
SOFTWARE
GLU E:246 , GLY H:100 , ARG H:101 , GLY H:142 , LEU H:143 , THR H:144 , ASP H:145
BINDING SITE FOR RESIDUE SO4 H 421
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
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.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d4bofa_ (A:)
1b: SCOP_d4bofb_ (B:)
1c: SCOP_d4bofc_ (C:)
1d: SCOP_d4bofd_ (D:)
1e: SCOP_d4bofe_ (E:)
1f: SCOP_d4boff_ (F:)
1g: SCOP_d4bofg_ (G:)
1h: SCOP_d4bofh_ (H:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Pentein, beta/alpha-propeller
(68)
Superfamily
:
Pentein
(68)
Family
:
automated matches
(17)
Protein domain
:
automated matches
(17)
Streptococcus pyogenes [TaxId: 1314]
(1)
1a
d4bofa_
A:
1b
d4bofb_
B:
1c
d4bofc_
C:
1d
d4bofd_
D:
1e
d4bofe_
E:
1f
d4boff_
F:
1g
d4bofg_
G:
1h
d4bofh_
H:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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]
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
Asymmetric Unit 1
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Miscellaneous
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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)
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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).
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Show PDB file:
Asym.Unit (1.1 MB)
Header - Asym.Unit
Biol.Unit 1 (282 KB)
Header - Biol.Unit 1
Biol.Unit 2 (282 KB)
Header - Biol.Unit 2
Biol.Unit 3 (281 KB)
Header - Biol.Unit 3
Biol.Unit 4 (283 KB)
Header - Biol.Unit 4
Biol.Unit 5 (283 KB)
Header - Biol.Unit 5
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