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3BUK
Asym. Unit
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Asym.Unit (93 KB)
Biol.Unit 1 (87 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE NEUROTROPHIN-3 AND P75NTR SYMMETRICAL COMPLEX
Authors
:
T. Jiang, Y. Gong, P. Cao, H. J. Yu
Date
:
02 Jan 08 (Deposition) - 15 Jul 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Ligand-Receptor Complex, Beta-Sheet, Neurotrophin-3, P75Ntr, Cleavage On Pair Of Basic Residues, Glycoprotein, Growth Factor, Secreted, Apoptosis, Developmental Protein, Differentiation, Membrane, Neurogenesis, Transmembrane, Signaling Protein
(Keyword Search:
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)
Reference
:
Y. Gong, P. Cao, H. J. Yu, T. Jiang
Crystal Structure Of The Neurotrophin-3 And P75Ntr Symmetrical Complex.
Nature V. 454 789 2008
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: N-ACETYL-D-GLUCOSAMINE (NAGa)
1b: N-ACETYL-D-GLUCOSAMINE (NAGb)
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No.
Name
Count
Type
Full Name
1
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN C:32
BINDING SITE FOR RESIDUE NAG C 168
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(3, 16)
Info
All PROSITE Patterns/Profiles
1: TNFR_NGFR_2 (C:3-36,D:3-36|C:38-79,D:38-79|C:80...)
2: TNFR_NGFR_1 (C:39-79,D:39-79|C:79-118,D:79-118|...)
3: NGF_1 (A:66-79,B:66-79)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TNFR_NGFR_2
PS50050
TNFR/NGFR family cysteine-rich region domain profile.
TNR16_RAT
32-65
67-108
109-147
149-189
8
C:3-36
D:3-36
C:38-79
D:38-79
C:80-118
D:80-118
C:120-160
D:120-160
2
TNFR_NGFR_1
PS00652
TNFR/NGFR family cysteine-rich region signature.
TNR16_RAT
68-108
108-147
150-189
6
C:39-79
D:39-79
C:79-118
D:79-118
C:121-160
D:121-160
3
NGF_1
PS00248
Nerve growth factor family signature.
NTF3_HUMAN
204-217
2
A:66-79
B:66-79
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Exons
(1, 2)
Info
All Exons
Exon 1.2a (A:5-115 | B:5-115)
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1: Boundary -/1.2a
2: Boundary 1.2a/-
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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
1.2a
ENST00000331010
2a
ENSE00001740540
chr12:
5603311-5604344
1034
NTF3_HUMAN
1-281
281
2
A:5-115
B:5-115
111
111
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SCOP Domains
(2, 10)
Info
All SCOP Domains
1a: SCOP_d3buka_ (A:)
1b: SCOP_d3bukb_ (B:)
2a: SCOP_d3bukc1 (C:3-56)
2b: SCOP_d3bukd3 (D:96-137)
2c: SCOP_d3bukd4 (D:138-161)
2d: SCOP_d3bukc2 (C:57-95)
2e: SCOP_d3bukc3 (C:96-137)
2f: SCOP_d3bukc4 (C:138-161)
2g: SCOP_d3bukd1 (D:3-56)
2h: SCOP_d3bukd2 (D:57-95)
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)
Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
Cystine-knot cytokines
(124)
Superfamily
:
Cystine-knot cytokines
(124)
Family
:
Neurotrophin
(20)
Protein domain
:
automated matches
(4)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d3buka_
A:
1b
d3bukb_
B:
Fold
:
TNF receptor-like
(25)
Superfamily
:
TNF receptor-like
(25)
Family
:
TNF receptor-like
(16)
Protein domain
:
Low affinity neurotrophin receptor p75NTR
(2)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(2)
2a
d3bukc1
C:3-56
2b
d3bukd3
D:96-137
2c
d3bukd4
D:138-161
2d
d3bukc2
C:57-95
2e
d3bukc3
C:96-137
2f
d3bukc4
C:138-161
2g
d3bukd1
D:3-56
2h
d3bukd2
D:57-95
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_3bukA00 (A:5-115)
1b: CATH_3bukB00 (B:5-115)
2a: CATH_3bukC02 (C:83-161)
2b: CATH_3bukD02 (D:83-161)
2c: CATH_3bukC01 (C:3-82)
2d: CATH_3bukD01 (D:3-82)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Cystine Knot Cytokines, subunit B
(102)
Homologous Superfamily
:
Cystine-knot cytokines
(102)
Human (Homo sapiens)
(84)
1a
3bukA00
A:5-115
1b
3bukB00
B:5-115
Topology
:
Tumor Necrosis Factor Receptor, subunit A; domain 2
(17)
Homologous Superfamily
:
Tumor Necrosis Factor Receptor, subunit A, domain 2
(16)
Human (Homo sapiens)
(13)
2a
3bukC02
C:83-161
2b
3bukD02
D:83-161
2c
3bukC01
C:3-82
2d
3bukD01
D:3-82
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Pfam Domains
(0, 0)
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