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1KXG
Biol. Unit 1
Info
Asym.Unit (160 KB)
Biol.Unit 1 (79 KB)
Biol.Unit 2 (79 KB)
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(1)
Title
:
THE 2.0 ANG RESOLUTION STRUCTURE OF BLYS, B LYMPHOCYTE STIMULATOR.
Authors
:
D. A. Oren, Y. Li, Y. Volovik, T. S. Morris, C. Dharia, K. Das, O. Galperina, R. Gentz, E. Arnold
Date
:
31 Jan 02 (Deposition) - 20 Mar 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Baff, Tall-1, Thank, Ztnf4, Cytokine, Tnf Superfamily, Jellyroll, Beta-Sandwich
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. A. Oren, Y. Li, Y. Volovik, T. S. Morris, C. Dharia, K. Das, O. Galperina, R. Gentz, E. Arnold
Structural Basis Of Blys Receptor Recognition.
Nat. Struct. Biol. V. 9 288 2002
(for further references see the
PDB file header
)
[
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]
Hetero Components
(2, 14)
Info
All Hetero Components
1a: CITRIC ACID (CITa)
1b: CITRIC ACID (CITb)
2a: 1,4-DIETHYLENE DIOXIDE (DIOa)
2b: 1,4-DIETHYLENE DIOXIDE (DIOb)
2c: 1,4-DIETHYLENE DIOXIDE (DIOc)
2d: 1,4-DIETHYLENE DIOXIDE (DIOd)
2e: 1,4-DIETHYLENE DIOXIDE (DIOe)
2f: 1,4-DIETHYLENE DIOXIDE (DIOf)
2g: 1,4-DIETHYLENE DIOXIDE (DIOg)
2h: 1,4-DIETHYLENE DIOXIDE (DIOh)
2i: 1,4-DIETHYLENE DIOXIDE (DIOi)
2j: 1,4-DIETHYLENE DIOXIDE (DIOj)
2k: 1,4-DIETHYLENE DIOXIDE (DIOk)
2l: 1,4-DIETHYLENE DIOXIDE (DIOl)
2m: 1,4-DIETHYLENE DIOXIDE (DIOm)
2n: 1,4-DIETHYLENE DIOXIDE (DIOn)
2o: 1,4-DIETHYLENE DIOXIDE (DIOo)
2p: 1,4-DIETHYLENE DIOXIDE (DIOp)
2q: 1,4-DIETHYLENE DIOXIDE (DIOq)
2r: 1,4-DIETHYLENE DIOXIDE (DIOr)
2s: 1,4-DIETHYLENE DIOXIDE (DIOs)
2t: 1,4-DIETHYLENE DIOXIDE (DIOt)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
3f: MAGNESIUM ION (MGf)
3g: MAGNESIUM ION (MGg)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CIT
1
Ligand/Ion
CITRIC ACID
2
DIO
13
Ligand/Ion
1,4-DIETHYLENE DIOXIDE
3
MG
-1
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(20, 20)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC6 (SOFTWARE)
05: AC7 (SOFTWARE)
06: AC8 (SOFTWARE)
07: AC9 (SOFTWARE)
08: BC1 (SOFTWARE)
09: BC2 (SOFTWARE)
10: BC3 (SOFTWARE)
11: BC4 (SOFTWARE)
12: BC5 (SOFTWARE)
13: BC6 (SOFTWARE)
14: BC7 (SOFTWARE)
15: BC8 (SOFTWARE)
16: CC5 (SOFTWARE)
17: CC6 (SOFTWARE)
18: CC7 (SOFTWARE)
19: CC8 (SOFTWARE)
20: CC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:234 , HOH A:504 , GLN B:234 , MG B:702 , HOH B:1019 , GLN C:234 , HOH C:1017
BINDING SITE FOR RESIDUE MG A 701
02
AC2
SOFTWARE
HOH A:504 , HOH A:507 , MG A:701 , HOH B:1019 , HOH B:1020 , HOH C:1017 , HOH C:1018
BINDING SITE FOR RESIDUE MG B 702
03
AC5
SOFTWARE
HOH A:10 , CIT A:889 , HOH F:395 , CIT F:888
BINDING SITE FOR RESIDUE MG A 901
04
AC6
SOFTWARE
CIT A:889 , ARG F:214 , LYS F:252 , HOH F:395 , CIT F:888
BINDING SITE FOR RESIDUE MG F 902
05
AC7
SOFTWARE
HOH A:10 , ARG A:214 , LYS A:252 , CIT A:889 , CIT F:888
BINDING SITE FOR RESIDUE MG A 903
06
AC8
SOFTWARE
HOH A:4 , HOH A:44 , ARG A:214 , LYS A:252 , CIT A:889 , MG A:901 , MG A:903 , ARG F:214 , LYS F:216 , HIS F:218 , PHE F:220 , GLU F:223 , GLU F:254 , HOH F:344 , MG F:902
BINDING SITE FOR RESIDUE CIT F 888
07
AC9
SOFTWARE
HOH A:2 , ARG A:214 , LYS A:216 , HIS A:218 , PHE A:220 , GLU A:223 , GLU A:254 , HOH A:389 , MG A:901 , MG A:903 , ARG F:214 , LYS F:252 , HOH F:349 , CIT F:888 , MG F:902
BINDING SITE FOR RESIDUE CIT A 889
08
BC1
SOFTWARE
LYS A:160 , PHE A:165 , ASN A:183 , GLN A:260
BINDING SITE FOR RESIDUE DIO A 1001
09
BC2
SOFTWARE
GLN A:234 , SER A:244 , TYR A:246 , SER B:244 , TYR B:246 , TYR C:246
BINDING SITE FOR RESIDUE DIO A 1002
10
BC3
SOFTWARE
LEU A:282 , PHE B:194 , PHE C:194 , LEU C:282
BINDING SITE FOR RESIDUE DIO C 1003
11
BC4
SOFTWARE
HOH A:509 , HOH A:510 , HOH A:511 , HOH C:1020
BINDING SITE FOR RESIDUE DIO A 1004
12
BC5
SOFTWARE
ILE B:158 , PHE B:165 , ASN B:183
BINDING SITE FOR RESIDUE DIO B 1005
13
BC6
SOFTWARE
GLY C:209 , LEU C:211 , ARG C:231 , CYS C:232 , PRO C:264
BINDING SITE FOR RESIDUE DIO C 1006
14
BC7
SOFTWARE
PHE C:165 , ASN C:183 , LYS C:184 , GLN C:260
BINDING SITE FOR RESIDUE DIO C 1007
15
BC8
SOFTWARE
TYR C:192 , LYS C:252 , HOH C:1022 , HIS E:218
BINDING SITE FOR RESIDUE DIO C 1008
16
CC5
SOFTWARE
ALA C:268 , GLN C:269 , ILE C:270
BINDING SITE FOR RESIDUE DIO C 1014
17
CC6
SOFTWARE
THR A:157 , ALA A:268 , GLN A:269 , ILE A:270
BINDING SITE FOR RESIDUE DIO A 1015
18
CC7
SOFTWARE
HIS C:218 , TYR E:192 , LYS E:252 , HOH F:371
BINDING SITE FOR RESIDUE DIO C 1016
19
CC8
SOFTWARE
LYS A:215 , LYS A:216 , VAL A:217 , GLY A:256 , GLU A:258
BINDING SITE FOR RESIDUE DIO A 1017
20
CC9
SOFTWARE
GLY B:209 , ARG B:231 , PRO B:264
BINDING SITE FOR RESIDUE DIO B 1018
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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]
PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: TNF_2 (A:148-284,B:148-284,C:148-284)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TNF_2
PS50049
TNF family profile.
TN13B_HUMAN
148-284
3
A:148-284
B:148-284
C:148-284
-
-
-
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1kxga_ (A:)
1b: SCOP_d1kxgb_ (B:)
1c: SCOP_d1kxgc_ (C:)
1d: SCOP_d1kxgd_ (D:)
1e: SCOP_d1kxge_ (E:)
1f: SCOP_d1kxgf_ (F:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
TNF-like
(100)
Superfamily
:
TNF-like
(100)
Family
:
TNF-like
(82)
Protein domain
:
Soluble part of TALL-1, sTALL-1 (BAFF)
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d1kxga_
A:
1b
d1kxgb_
B:
1c
d1kxgc_
C:
1d
d1kxgd_
D:
1e
d1kxge_
E:
1f
d1kxgf_
F:
[
close SCOP info
]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1kxgA00 (A:142-285)
1b: CATH_1kxgB00 (B:142-285)
1c: CATH_1kxgC00 (C:142-285)
1d: CATH_1kxgD00 (D:142-285)
1e: CATH_1kxgE00 (E:142-285)
1f: CATH_1kxgF00 (F:142-285)
View:
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Classes
(
)
(
)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.40, no name defined]
(56)
Human (Homo sapiens)
(38)
1a
1kxgA00
A:142-285
1b
1kxgB00
B:142-285
1c
1kxgC00
C:142-285
1d
1kxgD00
D:142-285
1e
1kxgE00
E:142-285
1f
1kxgF00
F:142-285
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_TNF_1kxgF01 (F:168-284)
1b: PFAM_TNF_1kxgF02 (F:168-284)
1c: PFAM_TNF_1kxgF03 (F:168-284)
1d: PFAM_TNF_1kxgF04 (F:168-284)
1e: PFAM_TNF_1kxgF05 (F:168-284)
1f: PFAM_TNF_1kxgF06 (F:168-284)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
C1q_TNF
(45)
Family
:
TNF
(37)
Homo sapiens (Human)
(26)
1a
TNF-1kxgF01
F:168-284
1b
TNF-1kxgF02
F:168-284
1c
TNF-1kxgF03
F:168-284
1d
TNF-1kxgF04
F:168-284
1e
TNF-1kxgF05
F:168-284
1f
TNF-1kxgF06
F:168-284
[
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]
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