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2WQZ
Asym. Unit
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Asym.Unit (234 KB)
Biol.Unit 1 (114 KB)
Biol.Unit 2 (115 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SYNAPTIC PROTEIN NEUROLIGIN-4 IN COMPLEX WITH NEUREXIN-BETA 1: ALTERNATIVE REFINEMENT
Authors
:
I. P. Fabrichny, P. Leone, G. Sulzenbacher, D. Comoletti, M. T. Miller, Y. Bourne, P. Marchot
Date
:
28 Aug 09 (Deposition) - 08 Sep 09 (Release) - 24 Aug 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,D (1x)
Biol. Unit 2: B,C (1x)
Keywords
:
Transmembrane, Disulfide Bond, Alpha/Beta-Hydrolase Cholinesterase Autism Brain, Alternative Promoter Usage, Membrane, Glycoprotein, Cell Adhesion
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. P. Fabrichny, P. Leone, G. Sulzenbacher, D. Comoletti, M. T. Miller P. Taylor, Y. Bourne, P. Marchot
Structural Analysis Of The Synaptic Protein Neuroligin And Its Beta-Neurexin Complex: Determinants For Folding And Cell Adhesion.
Neuron V. 56 979 2007
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:102 , THR A:104 , GLN A:105
BINDING SITE FOR RESIDUE NAG A1599
2
AC2
SOFTWARE
ASN A:511 , ARG D:286
BINDING SITE FOR RESIDUE NAG A1600
3
AC3
SOFTWARE
ASP C:137 , VAL C:154 , GLY C:155 , ILE C:236 , ASN C:238
BINDING SITE FOR RESIDUE CA C1289
4
AC4
SOFTWARE
ASP D:137 , VAL D:154 , ILE D:236 , ASN D:238
BINDING SITE FOR RESIDUE CA D1289
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_036576 (G214S, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_036576
G
214
S
NLGNX_HUMAN
Unclassified
---
A/B
G
214
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: LAM_G_DOMAIN (C:87-285,D:87-285)
2: CARBOXYLESTERASE_B_2 (A:144-154,B:144-154)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LAM_G_DOMAIN
PS50025
Laminin G domain profile.
NRX1B_RAT
87-285
2
C:87-285
D:87-285
2
CARBOXYLESTERASE_B_2
PS00941
Carboxylesterases type-B signature 2.
NLGNX_HUMAN
144-154
2
A:144-154
B:144-154
[
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Exons
(5, 10)
Info
All Exons
Exon 1.6c (A:36-158 (gaps) | B:41-158)
Exon 1.8 (A:158-209 (gaps) | B:158-209)
Exon 1.9 (A:209-271 | B:209-271)
Exon 1.10a (A:271-534 | B:271-534)
Exon 1.11d (A:534-598 (gaps) | B:534-599 (gaps...)
View:
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All Exon Boundaries
1: Boundary 1.1a/1.6c
2: Boundary 1.6c/1.8
3: Boundary 1.8/1.9
4: Boundary 1.9/1.10a
5: Boundary 1.10a/1.11d
6: Boundary 1.11d/-
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
1.1a
ENST00000381095
1a
ENSE00001487516
X:6146904-6146582
323
NLGNX_HUMAN
-
0
0
-
-
1.6c
ENST00000381095
6c
ENSE00001487515
X:6069812-6069036
777
NLGNX_HUMAN
1-158
158
2
A:36-158 (gaps)
B:41-158
137
118
1.8
ENST00000381095
8
ENSE00001803933
X:5947473-5947321
153
NLGNX_HUMAN
158-209
52
2
A:158-209 (gaps)
B:158-209
52
52
1.9
ENST00000381095
9
ENSE00001655655
X:5827280-5827095
186
NLGNX_HUMAN
209-271
63
2
A:209-271
B:209-271
63
63
1.10a
ENST00000381095
10a
ENSE00001648911
X:5821907-5821118
790
NLGNX_HUMAN
271-534
264
2
A:271-534
B:271-534
264
264
1.11d
ENST00000381095
11d
ENSE00001827176
X:5811707-5808067
3641
NLGNX_HUMAN
534-816
283
2
A:534-598 (gaps)
B:534-599 (gaps)
65
66
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2wqzc_ (C:)
1b: SCOP_d2wqzd_ (D:)
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Classes
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)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Concanavalin A-like lectins/glucanases
(797)
Superfamily
:
Concanavalin A-like lectins/glucanases
(797)
Family
:
Laminin G-like module
(37)
Protein domain
:
Ligand-binding domain of neurexin 1beta
(7)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(5)
1a
d2wqzc_
C:
1b
d2wqzd_
D:
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2wqzB00 (B:41-599)
1b: CATH_2wqzA00 (A:36-598)
2a: CATH_2wqzC00 (C:82-288)
2b: CATH_2wqzD00 (D:82-288)
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1820, no name defined]
(692)
Human (Homo sapiens)
(118)
1a
2wqzB00
B:41-599
1b
2wqzA00
A:36-598
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.200, no name defined]
(421)
Human (Homo sapiens)
(49)
2a
2wqzC00
C:82-288
2b
2wqzD00
D:82-288
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_COesterase_2wqzB01 (B:43-590)
1b: PFAM_COesterase_2wqzB02 (B:43-590)
2a: PFAM_Laminin_G_2_2wqzD01 (D:117-266)
2b: PFAM_Laminin_G_2_2wqzD02 (D:117-266)
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)
Families
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)
Organisms
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)
(
)
Clan
:
AB_hydrolase
(347)
Family
:
COesterase
(79)
Homo sapiens (Human)
(38)
1a
COesterase-2wqzB01
B:43-590
1b
COesterase-2wqzB02
B:43-590
Clan
:
Concanavalin
(293)
Family
:
Laminin_G_2
(14)
Rattus norvegicus (Rat)
(4)
2a
Laminin_G_2-2wqzD01
D:117-266
2b
Laminin_G_2-2wqzD02
D:117-266
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Asymmetric Unit 1
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Asym.Unit (234 KB)
Header - Asym.Unit
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