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1S78
Biol. Unit 1
Info
Asym.Unit (323 KB)
Biol.Unit 1 (158 KB)
Biol.Unit 2 (161 KB)
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(1)
Title
:
INSIGHTS INTO ERBB SIGNALING FROM THE STRUCTURE OF THE ERBB2-PERTUZUMAB COMPLEX
Authors
:
M. C. Franklin, K. D. Carey, F. F. Vajdos, D. J. Leahy, A. M. De Vos, M. X. S
Date
:
29 Jan 04 (Deposition) - 27 Apr 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.25
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,C,D (1x)
Biol. Unit 2: B,E,F (1x)
Keywords
:
Receptor-Antibody Complex, Fab Fragment, Cysteine-Rich Domain, Leucine-Rich Repeat, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. C. Franklin, K. D. Carey, F. F. Vajdos, D. J. Leahy, A. M. De Vos, M. X. Sliwkowski
Insights Into Erbb Signaling From The Structure Of The Erbb2-Pertuzumab Complex.
Cancer Cell V. 5 317 2004
(for further references see the
PDB file header
)
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Hetero Components
(1, 5)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
2c: N-ACETYL-D-GLUCOSAMINE (NAGc)
2d: N-ACETYL-D-GLUCOSAMINE (NAGd)
2e: N-ACETYL-D-GLUCOSAMINE (NAGe)
2f: N-ACETYL-D-GLUCOSAMINE (NAGf)
2g: N-ACETYL-D-GLUCOSAMINE (NAGg)
2h: N-ACETYL-D-GLUCOSAMINE (NAGh)
2i: N-ACETYL-D-GLUCOSAMINE (NAGi)
2j: N-ACETYL-D-GLUCOSAMINE (NAGj)
2k: N-ACETYL-D-GLUCOSAMINE (NAGk)
2l: N-ACETYL-D-GLUCOSAMINE (NAGl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
-1
Ligand/Ion
BETA-D-MANNOSE
2
NAG
5
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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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
ASN A:165 , NAG A:1002 , ASN B:89
BINDING SITE FOR RESIDUE NAG A 1001
2
AC2
SOFTWARE
NAG A:1001
BINDING SITE FOR RESIDUE NAG A 1002
3
AC3
SOFTWARE
ALA A:232 , CYS A:233 , ASN A:237 , NAG A:1004
BINDING SITE FOR RESIDUE NAG A 1003
4
AC4
SOFTWARE
GLN A:32 , NAG A:1003
BINDING SITE FOR RESIDUE NAG A 1004
5
AC5
SOFTWARE
GLN A:462 , VAL A:507 , ASN A:508
BINDING SITE FOR RESIDUE NAG A 1006
6
AC6
SOFTWARE
ASN A:89 , ASN B:165 , NAG B:1002
BINDING SITE FOR RESIDUE NAG B 1001
[
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_016317 (W430C, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_016317
W
452
C
ERBB2_HUMAN
Polymorphism
4252633
A
W
430
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(6, 16)
Info
All SCOP Domains
1a: SCOP_d1s78d2 (D:114-216)
1b: SCOP_d1s78f2 (F:114-216)
2a: SCOP_d1s78c2 (C:108-214)
2b: SCOP_d1s78e2 (E:108-214)
3a: SCOP_d1s78d1 (D:1-113)
3b: SCOP_d1s78f1 (F:1-113)
4a: SCOP_d1s78c1 (C:1-107)
4b: SCOP_d1s78e1 (E:1-107)
5a: SCOP_d1s78a1 (A:1-165)
5b: SCOP_d1s78a2 (A:323-488)
5c: SCOP_d1s78b1 (B:1-165)
5d: SCOP_d1s78b2 (B:323-488)
6a: SCOP_d1s78a3 (A:166-322)
6b: SCOP_d1s78a4 (A:489-564)
6c: SCOP_d1s78b3 (B:166-322)
6d: SCOP_d1s78b4 (B:489-577)
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Classes
(
)
(
)
Folds
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)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Human (Homo sapiens) [TaxId: 9606]
(179)
1a
d1s78d2
D:114-216
1b
d1s78f2
F:114-216
Protein domain
:
Immunoglobulin light chain kappa constant domain, CL-kappa
(495)
Human (Homo sapiens) [TaxId: 9606]
(144)
2a
d1s78c2
C:108-214
2b
d1s78e2
E:108-214
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Engineered (including hybrid species)
(68)
3a
d1s78d1
D:1-113
3b
d1s78f1
F:1-113
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Engineered (including hybrid species)
(61)
4a
d1s78c1
C:1-107
4b
d1s78e1
E:1-107
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
(112)
Superfamily
:
L domain-like
(93)
Family
:
L domain
(16)
Protein domain
:
Protooncoprotein Her2 extracellular domain
(3)
Human (Homo sapiens) [TaxId: 9606]
(2)
5a
d1s78a1
A:1-165
5b
d1s78a2
A:323-488
5c
d1s78b1
B:1-165
5d
d1s78b2
B:323-488
Class
:
Small proteins
(3458)
Fold
:
Knottins (small inhibitors, toxins, lectins)
(761)
Superfamily
:
Growth factor receptor domain
(25)
Family
:
Growth factor receptor domain
(18)
Protein domain
:
Protooncoprotein Her2 extracellular domain
(3)
Human (Homo sapiens) [TaxId: 9606]
(2)
6a
d1s78a3
A:166-322
6b
d1s78a4
A:489-564
6c
d1s78b3
B:166-322
6d
d1s78b4
B:489-577
[
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]
CATH Domains
(3, 16)
Info
all CATH domains
1a: CATH_1s78B01 (B:1-163)
1b: CATH_1s78A03 (A:316-510)
1c: CATH_1s78A01 (A:1-203)
1d: CATH_1s78B03 (B:319-486)
2a: CATH_1s78B02 (B:203-312)
2b: CATH_1s78A02 (A:204-315)
2c: CATH_1s78B04 (B:492-577)
2d: CATH_1s78A04 (A:511-564)
3a: CATH_1s78C02 (C:109-211)
3b: CATH_1s78D02 (D:114-213)
3c: CATH_1s78F02 (F:114-213)
3d: CATH_1s78D01 (D:1-113)
3e: CATH_1s78F01 (F:1-113)
3f: CATH_1s78E02 (E:109-211)
3g: CATH_1s78C01 (C:1-108)
3h: CATH_1s78E01 (E:1-108)
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(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Horseshoe
(92)
Topology
:
24 nucleotide stem-loop, u2 snrnp hairpin iv. U2 a'; Chain A
(17)
Homologous Superfamily
:
24 nucleotide stem-loop, u2 snrnp hairpin iv. U2 a'. Chain A, domain 1
(17)
Human (Homo sapiens)
(14)
1a
1s78B01
B:1-163
1b
1s78A03
A:316-510
1c
1s78A01
A:1-203
1d
1s78B03
B:319-486
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Hormone Receptor, Insulin-like Growth Factor Receptor 1; Chain A domain 2
(15)
Homologous Superfamily
:
Hormone Receptor, Insulin-like Growth Factor Receptor 1; Chain A, domain 2
(15)
Human (Homo sapiens)
(13)
2a
1s78B02
B:203-312
2b
1s78A02
A:204-315
2c
1s78B04
B:492-577
2d
1s78A04
A:511-564
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
3a
1s78C02
C:109-211
3b
1s78D02
D:114-213
3c
1s78F02
F:114-213
3d
1s78D01
D:1-113
3e
1s78F01
F:1-113
3f
1s78E02
E:109-211
3g
1s78C01
C:1-108
3h
1s78E01
E:1-108
[
close CATH info
]
Pfam Domains
(2, 6)
Info
all PFAM domains
1a: PFAM_Furin_like_1s78B01 (B:161-321)
1b: PFAM_Furin_like_1s78B02 (B:161-321)
2a: PFAM_Recep_L_domain_1s78B03 (B:344-464)
2b: PFAM_Recep_L_domain_1s78B04 (B:344-464)
2c: PFAM_Recep_L_domain_1s78B05 (B:344-464)
2d: PFAM_Recep_L_domain_1s78B06 (B:344-464)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Furin-like]
(12)
Family
:
Furin-like
(12)
Homo sapiens (Human)
(9)
1a
Furin-like-1s78B01
B:161-321
1b
Furin-like-1s78B02
B:161-321
Clan
:
no clan defined [family: Recep_L_domain]
(12)
Family
:
Recep_L_domain
(12)
Homo sapiens (Human)
(9)
2a
Recep_L_domain-1s78B03
B:344-464
2b
Recep_L_domain-1s78B04
B:344-464
2c
Recep_L_domain-1s78B05
B:344-464
2d
Recep_L_domain-1s78B06
B:344-464
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (323 KB)
Header - Asym.Unit
Biol.Unit 1 (158 KB)
Header - Biol.Unit 1
Biol.Unit 2 (161 KB)
Header - Biol.Unit 2
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