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1W16
Asym. Unit
Info
Asym.Unit (29 KB)
Biol.Unit 1 (23 KB)
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(1)
Title
:
RAT SYNAPTOTAGMIN 4 C2B DOMAIN IN THE ABSENCE OF CALCIUM
Authors
:
H. Dai, O. -H. Shin, M. Machius, D. R. Tomchick, T. C. Sudhof, J. Rizo
Date
:
16 Jun 04 (Deposition) - 13 Aug 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Metal Binding Protein, Synaptotagmin, Endocytosis/Exocytosis, Neurotransmitter Release, Transmembrane
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Dai, O. -H. Shin, M. Machius, D. R. Tomchick, T. C. Sudhof, J. Rizo
Structural Basis For The Evolutionary Inactivation Of Ca2+ Binding To Synaptotagmin 4
Nat. Struct. Mol. Biol. V. 11 844 2004
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Hetero Components
(2, 9)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
7
Ligand/Ion
CHLORIDE ION
2
NA
2
Ligand/Ion
SODIUM ION
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:339 , PHE A:360 , ASP A:361
BINDING SITE FOR RESIDUE NA A1001
2
AC2
SOFTWARE
GLU A:380 , SER A:383 , ASN A:385 , HOH A:2033 , HOH A:2035
BINDING SITE FOR RESIDUE NA A1002
3
AC3
SOFTWARE
ASN A:355
BINDING SITE FOR RESIDUE CL A3001
4
AC4
SOFTWARE
TRP A:419
BINDING SITE FOR RESIDUE CL A3002
5
AC5
SOFTWARE
TYR A:326 , LYS A:328 , ARG A:384
BINDING SITE FOR RESIDUE CL A3003
6
AC6
SOFTWARE
LYS A:341 , PHE A:358 , VAL A:359 , TRP A:419
BINDING SITE FOR RESIDUE CL A3004
7
AC7
SOFTWARE
LYS A:328 , ASN A:330 , ARG A:337 , ARG A:384 , HOH A:2051
BINDING SITE FOR RESIDUE CL A3005
8
AC8
SOFTWARE
LYS A:328 , ARG A:337 , LYS A:340
BINDING SITE FOR RESIDUE CL A3006
9
AC9
SOFTWARE
ARG A:312 , HIS A:313
BINDING SITE FOR RESIDUE CL A3007
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: C2 (-|A:302-392)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C2
PS50004
C2 domain profile.
SYT4_RAT
170-258
302-392
1
-
A:302-392
[
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Exons
(2, 2)
Info
All Exons
Exon 1.3 (A:288-324 (gaps))
Exon 1.4 (A:324-425 (gaps))
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All Exon Boundaries
1: Boundary 1.2/1.3
2: Boundary 1.3/1.4
3: Boundary 1.4/-
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
ENSRNOT00000023594
1
ENSRNOE00000166960
chr18:
23814489-23814218
272
SYT4_RAT
1-12
12
0
-
-
1.2
ENSRNOT00000023594
2
ENSRNOE00000166314
chr18:
23811409-23810595
815
SYT4_RAT
12-283
272
0
-
-
1.3
ENSRNOT00000023594
3
ENSRNOE00000166526
chr18:
23808854-23808734
121
SYT4_RAT
284-324
41
1
A:288-324 (gaps)
37
1.4
ENSRNOT00000023594
4
ENSRNOE00000165428
chr18:
23807748-23805080
2669
SYT4_RAT
324-425
102
1
A:324-425 (gaps)
102
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1w16a_ (A:)
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)
Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
C2 domain-like
(198)
Superfamily
:
C2 domain (Calcium/lipid-binding domain, CaLB)
(148)
Family
:
Synaptotagmin-like (S variant)
(38)
Protein domain
:
Synaptotagmin IV
(3)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(2)
1a
d1w16a_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1w16A00 (A:288-425)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
C2- domain Calcium/lipid binding domain
(78)
Rat (Rattus norvegicus)
(8)
1a
1w16A00
A:288-425
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_C2_1w16A01 (A:304-392)
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Clans
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Clan
:
C2
(71)
Family
:
C2
(34)
Rattus norvegicus (Rat)
(14)
1a
C2-1w16A01
A:304-392
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Chain A
Asymmetric Unit 1
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