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Asym. Unit
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Asym.Unit (1.7 MB)
Biol.Unit 1, α-C (4.9 MB)
Biol.Unit 1 (4.9 MB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ADENO-ASSOCIATED VIRUS SEROTYPE 3B
Authors
:
T. F. Lerch, Q. Xie, M. S. Chapman
Date
:
01 Nov 09 (Deposition) - 28 Apr 10 (Release) - 08 Dec 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T (3x)
Keywords
:
Virus, Capsid, Parvovirus, Icosahedral Virus, Beta Barrel, Single- Stranded, Dependovirus
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. F. Lerch, Q. Xie, M. S. Chapman
The Structure Of Adeno-Associated Virus Serotype 3B (Aav-3B): Insights Into Receptor Binding And Immune Evasion
Virology V. 403 26 2010
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 20)
Info
All Hetero Components
1a: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Ma)
1b: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mb)
1c: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mc)
1d: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Md)
1e: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Me)
1f: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mf)
1g: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mg)
1h: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mh)
1i: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mi)
1j: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mj)
1k: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mk)
1l: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Ml)
1m: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mm)
1n: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mn)
1o: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mo)
1p: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mp)
1q: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mq)
1r: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mr)
1s: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Ms)
1t: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE (D5Mt)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
D5M
20
Ligand/Ion
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
[
close Hetero Component info
]
Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PHE A:629 , HIS A:630 , PRO A:631 , GLY A:639
BINDING SITE FOR RESIDUE D5M A 999
02
AC2
SOFTWARE
PHE B:629 , HIS B:630 , PRO B:631 , GLY B:639
BINDING SITE FOR RESIDUE D5M B 999
03
AC3
SOFTWARE
PHE C:629 , HIS C:630 , PRO C:631 , GLY C:639
BINDING SITE FOR RESIDUE D5M C 999
04
AC4
SOFTWARE
PHE D:629 , HIS D:630 , PRO D:631 , GLY D:639
BINDING SITE FOR RESIDUE D5M D 999
05
AC5
SOFTWARE
PHE E:629 , HIS E:630 , PRO E:631 , GLY E:639
BINDING SITE FOR RESIDUE D5M E 999
06
AC6
SOFTWARE
PHE F:629 , HIS F:630 , PRO F:631 , GLY F:639
BINDING SITE FOR RESIDUE D5M F 999
07
AC7
SOFTWARE
PHE G:629 , HIS G:630 , PRO G:631 , GLY G:639
BINDING SITE FOR RESIDUE D5M G 999
08
AC8
SOFTWARE
PHE H:629 , HIS H:630 , PRO H:631 , GLY H:639
BINDING SITE FOR RESIDUE D5M H 999
09
AC9
SOFTWARE
PHE I:629 , HIS I:630 , PRO I:631 , GLY I:639
BINDING SITE FOR RESIDUE D5M I 999
10
BC1
SOFTWARE
PHE J:629 , HIS J:630 , PRO J:631 , GLY J:639
BINDING SITE FOR RESIDUE D5M J 999
11
BC2
SOFTWARE
PHE K:629 , HIS K:630 , PRO K:631 , GLY K:639
BINDING SITE FOR RESIDUE D5M K 999
12
BC3
SOFTWARE
PHE L:629 , HIS L:630 , PRO L:631 , GLY L:639
BINDING SITE FOR RESIDUE D5M L 999
13
BC4
SOFTWARE
PHE M:629 , HIS M:630 , PRO M:631 , GLY M:639
BINDING SITE FOR RESIDUE D5M M 999
14
BC5
SOFTWARE
PHE N:629 , HIS N:630 , PRO N:631 , GLY N:639
BINDING SITE FOR RESIDUE D5M N 999
15
BC6
SOFTWARE
PHE O:629 , HIS O:630 , PRO O:631 , GLY O:639
BINDING SITE FOR RESIDUE D5M O 999
16
BC7
SOFTWARE
PHE P:629 , HIS P:630 , PRO P:631 , GLY P:639
BINDING SITE FOR RESIDUE D5M P 999
17
BC8
SOFTWARE
PHE Q:629 , HIS Q:630 , PRO Q:631 , GLY Q:639
BINDING SITE FOR RESIDUE D5M Q 999
18
BC9
SOFTWARE
PHE R:629 , HIS R:630 , PRO R:631 , GLY R:639
BINDING SITE FOR RESIDUE D5M R 999
19
CC1
SOFTWARE
PHE S:629 , HIS S:630 , PRO S:631 , GLY S:639
BINDING SITE FOR RESIDUE D5M S 999
20
CC2
SOFTWARE
PHE T:629 , HIS T:630 , PRO T:631 , GLY T:639
BINDING SITE FOR RESIDUE D5M T 999
[
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:
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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, 20)
Info
All SCOP Domains
1a: SCOP_d3kiea_ (A:)
1b: SCOP_d3kieb_ (B:)
1c: SCOP_d3kiec_ (C:)
1d: SCOP_d3kied_ (D:)
1e: SCOP_d3kiee_ (E:)
1f: SCOP_d3kief_ (F:)
1g: SCOP_d3kieg_ (G:)
1h: SCOP_d3kieh_ (H:)
1i: SCOP_d3kiei_ (I:)
1j: SCOP_d3kiej_ (J:)
1k: SCOP_d3kiek_ (K:)
1l: SCOP_d3kiel_ (L:)
1m: SCOP_d3kiem_ (M:)
1n: SCOP_d3kien_ (N:)
1o: SCOP_d3kieo_ (O:)
1p: SCOP_d3kiep_ (P:)
1q: SCOP_d3kieq_ (Q:)
1r: SCOP_d3kier_ (R:)
1s: SCOP_d3kies_ (S:)
1t: SCOP_d3kiet_ (T:)
View:
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)
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)
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(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Nucleoplasmin-like/VP (viral coat and capsid proteins)
(278)
Superfamily
:
ssDNA viruses
(39)
Family
:
Parvoviridae-like VP
(31)
Protein domain
:
automated matches
(15)
Adeno-associated virus 3b [TaxId: 68742]
(2)
1a
d3kiea_
A:
1b
d3kieb_
B:
1c
d3kiec_
C:
1d
d3kied_
D:
1e
d3kiee_
E:
1f
d3kief_
F:
1g
d3kieg_
G:
1h
d3kieh_
H:
1i
d3kiei_
I:
1j
d3kiej_
J:
1k
d3kiek_
K:
1l
d3kiel_
L:
1m
d3kiem_
M:
1n
d3kien_
N:
1o
d3kieo_
O:
1p
d3kiep_
P:
1q
d3kieq_
Q:
1r
d3kier_
R:
1s
d3kies_
S:
1t
d3kiet_
T:
[
close SCOP info
]
CATH Domains
(1, 20)
Info
all CATH domains
1a: CATH_3kieA00 (A:217-736)
1b: CATH_3kieB00 (B:217-736)
1c: CATH_3kieC00 (C:217-736)
1d: CATH_3kieD00 (D:217-736)
1e: CATH_3kieE00 (E:217-736)
1f: CATH_3kieF00 (F:217-736)
1g: CATH_3kieG00 (G:217-736)
1h: CATH_3kieH00 (H:217-736)
1i: CATH_3kieI00 (I:217-736)
1j: CATH_3kieJ00 (J:217-736)
1k: CATH_3kieK00 (K:217-736)
1l: CATH_3kieL00 (L:217-736)
1m: CATH_3kieM00 (M:217-736)
1n: CATH_3kieN00 (N:217-736)
1o: CATH_3kieO00 (O:217-736)
1p: CATH_3kieP00 (P:217-736)
1q: CATH_3kieQ00 (Q:217-736)
1r: CATH_3kieR00 (R:217-736)
1s: CATH_3kieS00 (S:217-736)
1t: CATH_3kieT00 (T:217-736)
View:
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)
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)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Complex
(381)
Topology
:
Empty Capsid Viral Protein 2
(22)
Homologous Superfamily
:
Empty Capsid Viral Protein 2
(22)
Adeno-associated virus 3b. Organism_taxid: 68742.
(2)
1a
3kieA00
A:217-736
1b
3kieB00
B:217-736
1c
3kieC00
C:217-736
1d
3kieD00
D:217-736
1e
3kieE00
E:217-736
1f
3kieF00
F:217-736
1g
3kieG00
G:217-736
1h
3kieH00
H:217-736
1i
3kieI00
I:217-736
1j
3kieJ00
J:217-736
1k
3kieK00
K:217-736
1l
3kieL00
L:217-736
1m
3kieM00
M:217-736
1n
3kieN00
N:217-736
1o
3kieO00
O:217-736
1p
3kieP00
P:217-736
1q
3kieQ00
Q:217-736
1r
3kieR00
R:217-736
1s
3kieS00
S:217-736
1t
3kieT00
T:217-736
[
close CATH info
]
Pfam Domains
(1, 20)
Info
all PFAM domains
1a: PFAM_Parvo_coat_3kieT01 (T:217-714)
1b: PFAM_Parvo_coat_3kieT02 (T:217-714)
1c: PFAM_Parvo_coat_3kieT03 (T:217-714)
1d: PFAM_Parvo_coat_3kieT04 (T:217-714)
1e: PFAM_Parvo_coat_3kieT05 (T:217-714)
1f: PFAM_Parvo_coat_3kieT06 (T:217-714)
1g: PFAM_Parvo_coat_3kieT07 (T:217-714)
1h: PFAM_Parvo_coat_3kieT08 (T:217-714)
1i: PFAM_Parvo_coat_3kieT09 (T:217-714)
1j: PFAM_Parvo_coat_3kieT10 (T:217-714)
1k: PFAM_Parvo_coat_3kieT11 (T:217-714)
1l: PFAM_Parvo_coat_3kieT12 (T:217-714)
1m: PFAM_Parvo_coat_3kieT13 (T:217-714)
1n: PFAM_Parvo_coat_3kieT14 (T:217-714)
1o: PFAM_Parvo_coat_3kieT15 (T:217-714)
1p: PFAM_Parvo_coat_3kieT16 (T:217-714)
1q: PFAM_Parvo_coat_3kieT17 (T:217-714)
1r: PFAM_Parvo_coat_3kieT18 (T:217-714)
1s: PFAM_Parvo_coat_3kieT19 (T:217-714)
1t: PFAM_Parvo_coat_3kieT20 (T:217-714)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Parvo_coat]
(8)
Family
:
Parvo_coat
(8)
Adeno-associated virus 3B
(2)
1a
Parvo_coat-3kieT01
T:217-714
1b
Parvo_coat-3kieT02
T:217-714
1c
Parvo_coat-3kieT03
T:217-714
1d
Parvo_coat-3kieT04
T:217-714
1e
Parvo_coat-3kieT05
T:217-714
1f
Parvo_coat-3kieT06
T:217-714
1g
Parvo_coat-3kieT07
T:217-714
1h
Parvo_coat-3kieT08
T:217-714
1i
Parvo_coat-3kieT09
T:217-714
1j
Parvo_coat-3kieT10
T:217-714
1k
Parvo_coat-3kieT11
T:217-714
1l
Parvo_coat-3kieT12
T:217-714
1m
Parvo_coat-3kieT13
T:217-714
1n
Parvo_coat-3kieT14
T:217-714
1o
Parvo_coat-3kieT15
T:217-714
1p
Parvo_coat-3kieT16
T:217-714
1q
Parvo_coat-3kieT17
T:217-714
1r
Parvo_coat-3kieT18
T:217-714
1s
Parvo_coat-3kieT19
T:217-714
1t
Parvo_coat-3kieT20
T:217-714
[
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]
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