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3HMX
Asym. Unit
Info
Asym.Unit (316 KB)
Biol.Unit 1 (307 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF USTEKINUMAB FAB/IL-12 COMPLEX
Authors
:
J. Luo
Date
:
29 May 09 (Deposition) - 09 Jun 10 (Release) - 22 Jul 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,H,L
Biol. Unit 1: A,B,H,L (1x)
Keywords
:
Ustekinumab, Cnto1275, Il-12, Il-23, Antibody, Fab, Monoclonal Antibody, Immune System, Cytokine, Disulfide Bond, Glycoprotein, Immunoglobulin Domain, Secreted, Growth Factor, Cytokine-Mmune System Complex, Cytokine-Immune System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Luo, S. J. Wu, E. R. Lacy, Y. Orlovsky, A. Baker, A. Teplyakov, G. Obmolova, G. A. Heavner, H. T. Richter, J. Benson
Structural Basis For The Dual Recognition Of Il-12 And Il-2 By Ustekinumab.
J. Mol. Biol. V. 402 797 2010
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Hetero Components
(3, 5)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
1
Ligand/Ion
BETA-D-MANNOSE
2
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TRP A:2 , GLU A:12 , HIS A:83 , ASP A:191 , TYR A:198 , ASN A:200 , NAG A:502
BINDING SITE FOR RESIDUE NAG A 501
2
AC2
SOFTWARE
TRP A:2 , GLU A:12 , NAG A:501 , BMA A:503
BINDING SITE FOR RESIDUE NAG A 502
3
AC3
SOFTWARE
TRP A:2 , NAG A:502 , MAN A:504 , MAN A:505 , SER L:156
BINDING SITE FOR RESIDUE BMA A 503
4
AC4
SOFTWARE
BMA A:503 , GLY L:157
BINDING SITE FOR RESIDUE MAN A 504
5
AC5
SOFTWARE
HOH A:319 , BMA A:503
BINDING SITE FOR RESIDUE MAN A 505
[
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_020001 (V11I, chain A, )
2: VAR_049170 (V276F, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_020001
V
33
I
IL12B_HUMAN
Polymorphism
3213096
A
V
11
I
2
UniProt
VAR_049170
V
298
F
IL12B_HUMAN
Polymorphism
3213119
A
V
276
F
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: HEMATOPO_REC_L_F3 (A:211-253)
2: FN3 (A:215-305)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HEMATOPO_REC_L_F3
PS01354
Long hematopoietin receptor, soluble alpha chains family signature.
IL12B_HUMAN
233-275
1
A:211-253
2
FN3
PS50853
Fibronectin type-III domain profile.
IL12B_HUMAN
237-328
1
A:215-305
[
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Exons
(6, 6)
Info
All Exons
Exon 1.2 (A:1-8)
Exon 1.3 (A:8-100)
Exon 1.4 (A:100-139)
Exon 1.5 (A:139-211)
Exon 1.6 (A:211-256)
Exon 1.7 (A:264-305 (gaps))
View:
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All Exon Boundaries
1: Boundary 1.1/1.2
2: Boundary 1.2/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5
5: Boundary 1.5/1.6
6: Boundary 1.6/1.7
7: Boundary 1.7/1.8
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
1.1
ENST00000231228
1
ENSE00001230769
chr5:
158757895-158757440
456
IL12B_HUMAN
-
0
0
-
-
1.2
ENST00000231228
2
ENSE00000797276
chr5:
158753790-158753703
88
IL12B_HUMAN
1-30
30
1
A:1-8
8
1.3
ENST00000231228
3
ENSE00000768666
chr5:
158750337-158750062
276
IL12B_HUMAN
30-122
93
1
A:8-100
93
1.4
ENST00000231228
4
ENSE00000768664
chr5:
158749519-158749402
118
IL12B_HUMAN
122-161
40
1
A:100-139
40
1.5
ENST00000231228
5
ENSE00000768662
chr5:
158747528-158747314
215
IL12B_HUMAN
161-233
73
1
A:139-211
73
1.6
ENST00000231228
6
ENSE00000768660
chr5:
158745901-158745744
158
IL12B_HUMAN
233-285
53
1
A:211-256
46
1.7
ENST00000231228
7
ENSE00001371782
chr5:
158743824-158743693
132
IL12B_HUMAN
286-328
43
1
A:264-305 (gaps)
42
1.8
ENST00000231228
8
ENSE00000797274
chr5:
158743108-158741791
1318
IL12B_HUMAN
-
0
0
-
-
[
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SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d3hmxb_ (B:)
2a: SCOP_d3hmxl1 (L:1-106)
3a: SCOP_d3hmxl2 (L:107-214)
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Protein Domains
(
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(
)
Organisms
(
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(
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Class
:
All alpha proteins
(14657)
Fold
:
4-helical cytokines
(168)
Superfamily
:
4-helical cytokines
(168)
Family
:
Long-chain cytokines
(46)
Protein domain
:
automated matches
(10)
Human (Homo sapiens) [TaxId: 9606]
(10)
1a
d3hmxb_
B:
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)
2a
d3hmxl1
L:1-106
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
automated matches
(652)
Human (Homo sapiens) [TaxId: 9606]
(334)
3a
d3hmxl2
L:107-214
[
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_3hmxL02 (L:108-214)
1b: CATH_3hmxH02 (H:120-220)
1c: CATH_3hmxH01 (H:1-119)
1d: CATH_3hmxA02 (A:103-210)
1e: CATH_3hmxA01 (A:1-84)
1f: CATH_3hmxA03 (A:214-304)
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Topologies
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)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
1a
3hmxL02
L:108-214
1b
3hmxH02
H:120-220
1c
3hmxH01
H:1-119
1d
3hmxA02
A:103-210
1e
3hmxA01
A:1-84
1f
3hmxA03
A:214-304
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Sorry, no Info available
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Sidechain
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Protein & NOT Site
Protein & NOT PROSITE
Chain A
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Chain H
Chain L
Asymmetric Unit 1
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Asym.Unit (316 KB)
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