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Asym. Unit
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Asym.Unit (808 KB)
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Models
(20 )
Title
:
THREE-DIMENSIONAL STRUCTURE OF THE SYNAPTOTAGMIN 1 C2B-DOMAIN: SYNAPTOTAGMIN 1 AS A PHOSPHOLIPID BINDING MACHINE
Authors
:
I. Fernandez, D. Arac, J. Ubach, S. H. Gerber, O. Shin, Y. Gao, R. G. W. Anderson, T. C. Sudhof, J. Rizo
Date
:
12 Oct 01 (Deposition) - 23 Jan 02 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
C2B-Domain, C2-Domain, Synaptotagmin I, Calcium-Binding, Phospholipid-Binding, Synapsis, Neurotransmitter Release, Synaptic Vesicle Exocytosis, Endocytosis/Exocytosis Complex
(Keyword Search:
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Reference
:
I. Fernandez, D. Arac, J. Ubach, S. H. Gerber, O. Shin, Y. Gao, R. G. Anderson, T. C. Sudhof, J. Rizo
Three-Dimensional Structure Of The Synaptotagmin 1 C2B-Domain: Synaptotagmin 1 As A Phospholipid Binding Machine.
Neuron V. 32 1057 2001
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:303 , ASP A:309 , ASP A:363 , TYR A:364 , ASP A:365 , CA A:501
BINDING SITE FOR RESIDUE CA A 500
2
AC2
SOFTWARE
MET A:302 , ASP A:303 , ASP A:363 , ASP A:365 , ASP A:371 , CA A:500
BINDING SITE FOR RESIDUE CA A 501
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available in "Model" view)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: C2 (-|A:286-377)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C2
PS50004
C2 domain profile.
SYT1_RAT
156-244
286-377
1
-
A:286-377
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Exons
(3, 3)
Info
All Exons
Exon 1.9 (A:272-309)
Exon 1.10 (A:309-353)
Exon 1.11 (A:354-419)
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All Exon Boundaries
1: Boundary 1.8/1.9
2: Boundary 1.9/1.10
3: Boundary 1.10/1.11
4: Boundary 1.11/-
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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
ENSRNOT00000048880
1
ENSRNOE00000351650
chr7:
47795496-47795335
162
SYT1_RAT
-
0
0
-
-
1.2
ENSRNOT00000048880
2
ENSRNOE00000347204
chr7:
47676650-47676550
101
SYT1_RAT
-
0
0
-
-
1.3
ENSRNOT00000048880
3
ENSRNOE00000362852
chr7:
47593840-47593779
62
SYT1_RAT
-
0
0
-
-
1.4
ENSRNOT00000048880
4
ENSRNOE00000059145
chr7:
47436218-47436039
180
SYT1_RAT
1-55
55
0
-
-
1.5
ENSRNOT00000048880
5
ENSRNOE00000059311
chr7:
47390137-47389953
185
SYT1_RAT
55-116
62
0
-
-
1.6
ENSRNOT00000048880
6
ENSRNOE00000059473
chr7:
47384355-47384233
123
SYT1_RAT
117-157
41
0
-
-
1.7
ENSRNOT00000048880
7
ENSRNOE00000059587
chr7:
47379588-47379421
168
SYT1_RAT
158-213
56
0
-
-
1.8
ENSRNOT00000048880
8
ENSRNOE00000364413
chr7:
47376456-47376289
168
SYT1_RAT
214-269
56
0
-
-
1.9
ENSRNOT00000048880
9
ENSRNOE00000306315
chr7:
47330574-47330457
118
SYT1_RAT
270-309
40
1
A:272-309
38
1.10
ENSRNOT00000048880
10
ENSRNOE00000059906
chr7:
47247255-47247122
134
SYT1_RAT
309-353
45
1
A:309-353
45
1.11
ENSRNOT00000048880
11
ENSRNOE00000317890
chr7:
47243869-47243375
495
SYT1_RAT
354-421
68
1
A:354-419
66
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1k5wa_ (A:)
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(
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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
:
Synaptogamin I
(17)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(7)
1a
d1k5wa_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1k5wA00 (A:272-419)
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Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
C2- domain Calcium/lipid binding domain
(78)
Norway rat (Rattus norvegicus)
(20)
1a
1k5wA00
A:272-419
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Pfam Domains
(1, 1)
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all PFAM domains
1a: PFAM_C2_1k5wA01 (A:289-377)
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Clan
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C2
(71)
Family
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C2
(34)
Rattus norvegicus (Rat)
(14)
1a
C2-1k5wA01
A:289-377
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Asymmetric Unit 1
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