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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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Getting 'PROSITE' information from database.
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Getting 'Exon' information from database.
1VYO
Asym. Unit
Info
Asym.Unit (52 KB)
Biol.Unit 1 (90 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF AVIDIN
Authors
:
T. T. Airenne, M. S. Johnson, T. A. Salminen
Date
:
03 May 04 (Deposition) - 20 Jul 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.48
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Glycoprotein, Glycoprotein, Biotin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Repo, T. A. Paldanius, V. P. Hytonen, T. K. Nyholm, K. K. Halling, J. Huuskonen, O. T. Pentikainen, K. Rissanen, J. P. Slotte, T. T. Airenne, T. A. Salminen, M. S. Kulomaa, M. S. Johnson
Binding Properties Of Haba-Type Azo Derivatives To Avidin And Avidin-Related Protein 4.
Chem. Biol. V. 13 1029 2006
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
6
Ligand/Ion
GLYCEROL
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TRP A:70 , THR A:77 , TRP A:97 , TRP A:110 , ASN A:118 , GOL A:502 , HOH A:2008
BINDING SITE FOR RESIDUE GOL A 501
2
AC2
SOFTWARE
VAL A:37 , THR A:38 , ALA A:39 , TRP A:70 , PHE A:72 , SER A:73 , SER A:75 , GOL A:501
BINDING SITE FOR RESIDUE GOL A 502
3
AC3
SOFTWARE
LEU A:14 , ASP A:109 , TRP A:110 , GLY A:116 , ILE A:117 , HOH A:2066 , HOH A:2067 , HOH A:2068 , LYS B:94
BINDING SITE FOR RESIDUE GOL A 503
4
AC4
SOFTWARE
ALA A:22 , ASN A:24 , GLU A:28 , THR A:30 , HOH B:2053
BINDING SITE FOR RESIDUE GOL A 504
5
AC5
SOFTWARE
TRP B:70 , THR B:77 , TRP B:97 , ASN B:118 , GOL B:502 , HOH B:2080
BINDING SITE FOR RESIDUE GOL B 501
6
AC6
SOFTWARE
VAL B:37 , THR B:38 , ALA B:39 , TRP B:70 , SER B:73 , SER B:75 , LEU B:99 , GOL B:501
BINDING SITE FOR RESIDUE GOL B 502
[
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_AVID_CHICK_001 (I34T, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_AVID_CHICK_001
*
I
58
T
AVID_CHICK
---
---
A/B
I
34
T
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 3)
Info
All PROSITE Patterns/Profiles
1: AVIDIN_2 (B:2-123)
2: AVIDIN_1 (A:108-122,B:108-122)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
AVIDIN_2
PS51326
Avidin-like domain profile.
AVID_CHICK
26-149
1
B:2-123
2
AVIDIN_1
PS00577
Avidin-like domain signature.
AVID_CHICK
132-146
2
A:108-122
B:108-122
[
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]
Exons
(4, 8)
Info
All Exons
Exon 1.1 (A:3-3 | B:2-3)
Exon 1.4 (A:4-74 | B:4-74)
Exon 1.5 (A:74-114 | B:74-114)
Exon 1.6a (A:114-123 | B:114-123)
View:
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.4
3: Boundary 1.4/1.5
4: Boundary 1.5/1.6a
5: Boundary 1.6a/-
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
ENSGALT00000003855
1
ENSGALE00000024242
Z:8485802-8485882
81
AVID_CHICK
1-27
27
2
A:3-3
B:2-3
1
2
1.4
ENSGALT00000003855
4
ENSGALE00000024240
Z:8501440-8501650
211
AVID_CHICK
28-98
71
2
A:4-74
B:4-74
71
71
1.5
ENSGALT00000003855
5
ENSGALE00000024243
Z:8502076-8502196
121
AVID_CHICK
98-138
41
2
A:74-114
B:74-114
41
41
1.6a
ENSGALT00000003855
6a
ENSGALE00000024241
Z:8502284-8502409
126
AVID_CHICK
138-152
15
2
A:114-123
B:114-123
10
10
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1vyoa_ (A:)
1b: SCOP_d1vyob_ (B:)
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Classes
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(
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Streptavidin-like
(225)
Superfamily
:
Avidin/streptavidin
(197)
Family
:
Avidin/streptavidin
(181)
Protein domain
:
automated matches
(50)
Chicken (Gallus gallus) [TaxId: 9031]
(23)
1a
d1vyoa_
A:
1b
d1vyob_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1vyoA00 (A:3-123)
1b: CATH_1vyoB00 (B:2-123)
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)
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Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Lipocalin
(526)
Homologous Superfamily
:
[code=2.40.128.30, no name defined]
(148)
Chicken (Gallus gallus)
(26)
1a
1vyoA00
A:3-123
1b
1vyoB00
B:2-123
[
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]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Avidin_1vyoB01 (B:4-122)
1b: PFAM_Avidin_1vyoB02 (B:4-122)
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Clans
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(
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(
)
(
)
Clan
:
no clan defined [family: Avidin]
(113)
Family
:
Avidin
(113)
Gallus gallus (Chicken)
(13)
1a
Avidin-1vyoB01
B:4-122
1b
Avidin-1vyoB02
B:4-122
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Asymmetric Unit 1
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