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2QQL
Biol. Unit 2
Info
Asym.Unit (165 KB)
Biol.Unit 1 (310 KB)
Biol.Unit 2 (158 KB)
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(1)
Title
:
NEUROPILIN-2 A1A2B1B2 DOMAINS IN COMPLEX WITH A SEMAPHORIN-BLOCKING FAB
Authors
:
B. A. Appleton, C. Wiesmann
Date
:
26 Jul 07 (Deposition) - 20 Nov 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,H,L
Biol. Unit 1: A,H,L (2x)
Biol. Unit 2: A,H,L (1x)
Keywords
:
Vegf Receptor, Semaphorin Receptor, Phage-Derived Antibody, Developmental Protein, Differentiation, Glycoprotein, Membrane, Neurogenesis, Transmembrane, Hormone, Signaling Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. A. Appleton, P. Wu, J. Maloney, J. Yin, W. C. Liang, S. Stawicki, K. Mortara, K. K. Bowman, J. M. Elliott, W. Desmarais, J. F. Bazan, A. Bagri, M. Tessier-Lavigne, A. W. Koch, Y. Wu, R. J. Watts, C. Wiesman
Structural Studies Of Neuropilin/Antibody Complexes Provide Insights Into Semaphorin And Vegf Binding
Embo J. V. 26 4902 2007
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Hetero Components
(0, 0)
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Sites
(0, 0)
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Sorry, no Info available
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SAPs(SNPs)/Variants
(5, 5)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_047754 (K123K, chain A, )
2: VAR_066403 (W148R, chain L, )
3: VAR_003897 (V191L, chain L, )
4: VAR_067537 (R334C, chain A, )
5: VAR_067538 (R428W, chain A, )
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_047754
R
123
K
NRP2_HUMAN
Polymorphism
849541
A
K
123
K
2
UniProt
VAR_066403
W
40
R
IGKC_HUMAN
Disease (IGKCD)
---
L
W
148
R
3
UniProt
VAR_003897
V
83
L
IGKC_HUMAN
Unclassified
---
L
V
191
L
4
UniProt
VAR_067537
R
334
C
NRP2_HUMAN
Polymorphism
114144673
A
R
334
C
5
UniProt
VAR_067538
R
428
W
NRP2_HUMAN
Polymorphism
139711818
A
R
428
W
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(6, 10)
Info
All PROSITE Patterns/Profiles
1: CUB (A:149-267)
2: IG_MHC (L:192-198)
3: FA58C_3 (A:434-592)
4: FA58C_1 (A:473-505)
5: FA58C_2 (A:575-592)
6: MAM_2 (A:601-601)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CUB
PS01180
CUB domain profile.
NRP2_HUMAN
28-142
149-267
2
A:28-142
A:149-267
2
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
IGKC_HUMAN
85-91
1
L:192-198
3
FA58C_3
PS50022
Coagulation factors 5/8 type C domain (FA58C) profile.
NRP2_HUMAN
277-427
434-592
2
A:277-427
A:434-592
4
FA58C_1
PS01285
Coagulation factors 5/8 type C domain (FA58C) signature 1.
NRP2_HUMAN
317-346
473-505
2
A:317-346
A:473-505
5
FA58C_2
PS01286
Coagulation factors 5/8 type C domain (FA58C) signature 2.
NRP2_HUMAN
411-427
575-592
2
A:411-427
A:575-592
6
MAM_2
PS50060
MAM domain profile.
NRP2_HUMAN
644-802
1
A:601-601
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2qqll1 (L:1-106)
2a: SCOP_d2qqll2 (L:107-214)
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Protein Domains
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Organisms
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(
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Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Human (Homo sapiens) [TaxId: 9606]
(448)
1a
d2qqll1
L:1-106
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
automated matches
(652)
Human (Homo sapiens) [TaxId: 9606]
(334)
2a
d2qqll2
L:107-214
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CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_2qqlL02 (L:109-214)
1b: CATH_2qqlH02 (H:114-216)
1c: CATH_2qqlH01 (H:1-113)
1d: CATH_2qqlL01 (L:1-108)
2a: CATH_2qqlA02 (A:147-274)
2b: CATH_2qqlA01 (A:26-146)
3a: CATH_2qqlA04 (A:432-601)
3b: CATH_2qqlA03 (A:275-431)
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)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
1a
2qqlL02
L:109-214
1b
2qqlH02
H:114-216
1c
2qqlH01
H:1-113
1d
2qqlL01
L:1-108
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.290, no name defined]
(10)
Human (Homo sapiens)
(7)
2a
2qqlA02
A:147-274
2b
2qqlA01
A:26-146
Homologous Superfamily
:
Galactose-binding domain-like
(195)
Human (Homo sapiens)
(39)
3a
2qqlA04
A:432-601
3b
2qqlA03
A:275-431
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_CUB_2qqlA01 (A:149-264)
1b: PFAM_CUB_2qqlA02 (A:149-264)
2a: PFAM_F5_F8_type_C_2qqlA03 (A:449-589)
2b: PFAM_F5_F8_type_C_2qqlA04 (A:449-589)
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)
Clan
:
CUB
(11)
Family
:
CUB
(11)
Homo sapiens (Human)
(8)
1a
CUB-2qqlA01
A:149-264
1b
CUB-2qqlA02
A:149-264
Clan
:
GBD
(153)
Family
:
F5_F8_type_C
(45)
Homo sapiens (Human)
(10)
2a
F5_F8_type_C-2qqlA03
A:449-589
2b
F5_F8_type_C-2qqlA04
A:449-589
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Asymmetric Unit 1
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