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1ICF
Asym. Unit
Info
Asym.Unit (109 KB)
Biol.Unit 1 (54 KB)
Biol.Unit 2 (52 KB)
Biol.Unit 3 (104 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MHC CLASS II ASSOCIATED P41 II FRAGMENT IN COMPLEX WITH CATHEPSIN L
Authors
:
G. Guncar, G. Pungercic, I. Klemencic, V. Turk, D. Turk
Date
:
07 Jan 99 (Deposition) - 12 Jan 00 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,I,J
Biol. Unit 1: A,B,I (1x)
Biol. Unit 2: C,D,J (1x)
Biol. Unit 3: A,B,C,D,I,J (1x)
Keywords
:
Cysteine Proteinase, Cathepsin, Mhc Class Ii, Invariant Chain, Thyroglobulin Type-1 Domain, Hydrolase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. Guncar, G. Pungercic, I. Klemencic, V. Turk, D. Turk
Crystal Structure Of Mhc Class Ii-Associated P41 Ii Fragmen Bound To Cathepsin L Reveals The Structural Basis For Differentiation Between Cathepsins L And S.
Embo J. V. 18 793 1999
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: N-ACETYL-D-GLUCOSAMINE (NAGa)
1b: N-ACETYL-D-GLUCOSAMINE (NAGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: ACT (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN I:240 , THR I:242 , HOH I:284 , HOH I:333 , HOH I:334 , HOH I:335
BINDING SITE FOR RESIDUE NAG I 100
2
AC2
SOFTWARE
ASN J:240 , THR J:242 , HOH J:275 , HOH J:318 , HOH J:324
BINDING SITE FOR RESIDUE NAG J 100
3
ACT
AUTHOR
CYS A:25 , HIS A:163 , CYS C:25 , HIS C:163
ACTIVE SITE
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(5, 10)
Info
All PROSITE Patterns/Profiles
1: THIOL_PROTEASE_CYS (A:19-30,C:19-30)
2: THYROGLOBULIN_1_2 (I:194-255,J:194-255)
3: THYROGLOBULIN_1_1 (I:212-241,J:212-241)
4: THIOL_PROTEASE_HIS (A:161-171,C:161-171)
5: THIOL_PROTEASE_ASN (B:182-201,D:182-201)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THIOL_PROTEASE_CYS
PS00139
Eukaryotic thiol (cysteine) proteases cysteine active site.
CATL1_HUMAN
132-143
2
A:19-30
C:19-30
2
THYROGLOBULIN_1_2
PS51162
Thyroglobulin type-1 domain profile.
HG2A_HUMAN
210-271
2
I:194-255
J:194-255
3
THYROGLOBULIN_1_1
PS00484
Thyroglobulin type-1 repeat signature.
HG2A_HUMAN
228-257
2
I:212-241
J:212-241
4
THIOL_PROTEASE_HIS
PS00639
Eukaryotic thiol (cysteine) proteases histidine active site.
CATL1_HUMAN
274-284
2
A:161-171
C:161-171
5
THIOL_PROTEASE_ASN
PS00640
Eukaryotic thiol (cysteine) proteases asparagine active site.
CATL1_HUMAN
295-314
2
B:182-201
D:182-201
[
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]
Exons
(7, 16)
Info
All Exons
Exon 1.7 (I:194-257 | J:194-257)
Exon 1.8a (I:257-258 | J:257-258)
Exon 2.4 (A:1-19 | - | C:1-19 | -)
Exon 2.5a (A:20-94 | - | C:20-94 | -)
Exon 2.6b (A:95-149 | - | C:95-149 | -)
Exon 2.7 (A:149-175 | B:179-188 | C:149-175 ...)
Exon 2.8c (- | B:188-220 | - | D:188-220)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.6a/1.7
2: Boundary 1.7/1.8a
3: Boundary 1.8a/1.8d
4: Boundary 2.3a/2.4
5: Boundary 2.4/2.5a
6: Boundary 2.5a/2.6b
7: Boundary 2.6b/2.7
8: Boundary 2.7/2.8c
9: Boundary 2.8c/-
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
1.1d
ENST00000009530
1d
ENSE00002143935
chr5:
149792314-149792188
127
HG2A_HUMAN
1-42
42
0
-
-
1.2a
ENST00000009530
2a
ENSE00000767447
chr5:
149786887-149786715
173
HG2A_HUMAN
42-100
59
0
-
-
1.2c
ENST00000009530
2c
ENSE00000439662
chr5:
149786523-149786444
80
HG2A_HUMAN
100-126
27
0
-
-
1.3a
ENST00000009530
3a
ENSE00000767449
chr5:
149785884-149785822
63
HG2A_HUMAN
127-147
21
0
-
-
1.5
ENST00000009530
5
ENSE00000767450
chr5:
149784743-149784648
96
HG2A_HUMAN
148-179
32
0
-
-
1.6a
ENST00000009530
6a
ENSE00000841201
chr5:
149784330-149784243
88
HG2A_HUMAN
180-209
30
0
-
-
1.7
ENST00000009530
7
ENSE00000767452
chr5:
149782875-149782684
192
HG2A_HUMAN
209-273
65
2
I:194-257
J:194-257
64
64
1.8a
ENST00000009530
8a
ENSE00001673543
chr5:
149782188-149782126
63
HG2A_HUMAN
273-294
22
2
I:257-258
J:257-258
2
2
1.8d
ENST00000009530
8d
ENSE00002129676
chr5:
149781813-149781715
99
HG2A_HUMAN
294-296
3
0
-
-
2.1a
ENST00000343150
1a
ENSE00001886667
chr9:
90340434-90341313
880
CATL1_HUMAN
-
0
0
-
-
2.2b
ENST00000343150
2b
ENSE00002159545
chr9:
90342509-90342644
136
CATL1_HUMAN
1-42
42
0
-
-
2.3a
ENST00000343150
3a
ENSE00001686191
chr9:
90342942-90343064
123
CATL1_HUMAN
43-83
41
0
-
-
2.4
ENST00000343150
4
ENSE00001692924
chr9:
90343165-90343311
147
CATL1_HUMAN
84-132
49
2
A:1-19
-
C:1-19
-
19
-
19
-
2.5a
ENST00000343150
5a
ENSE00000917752
chr9:
90343500-90343724
225
CATL1_HUMAN
133-207
75
2
A:20-94
-
C:20-94
-
75
-
75
-
2.6b
ENST00000343150
6b
ENSE00000917753
chr9:
90344488-90344650
163
CATL1_HUMAN
208-262
55
2
A:95-149
-
C:95-149
-
55
-
55
-
2.7
ENST00000343150
7
ENSE00001618315
chr9:
90345296-90345413
118
CATL1_HUMAN
262-301
40
4
A:149-175
B:179-188
C:149-175
D:179-188
27
10
27
10
2.8c
ENST00000343150
8c
ENSE00001931704
chr9:
90345923-90346307
385
CATL1_HUMAN
301-333
33
2
-
B:188-220
-
D:188-220
-
33
-
33
[
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SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1icf_1 (A:,B:)
1b: SCOP_d1icf_2 (C:,D:)
2a: SCOP_d1icfi_ (I:)
2b: SCOP_d1icfj_ (J:)
View:
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Classes
(
)
(
)
Folds
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(
)
Superfamilies
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cysteine proteinases
(392)
Superfamily
:
Cysteine proteinases
(392)
Family
:
Papain-like
(200)
Protein domain
:
(Pro)cathepsin L
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
1a
d1icf.1
A:,B:
1b
d1icf.2
C:,D:
Class
:
Small proteins
(3458)
Fold
:
Thyroglobulin type-1 domain
(9)
Superfamily
:
Thyroglobulin type-1 domain
(9)
Family
:
Thyroglobulin type-1 domain
(8)
Protein domain
:
Class II MHC associated p41 invariant chain fragment
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d1icfi_
I:
2b
d1icfj_
J:
[
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1icfA00 (A:1-175)
1b: CATH_1icfC00 (C:1-175)
2a: CATH_1icfI00 (I:194-258)
2b: CATH_1icfJ00 (J:194-258)
3a: CATH_1icfB00 (B:179-220)
3b: CATH_1icfD00 (D:179-220)
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Classes
(
)
(
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Architectures
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Cathepsin B; Chain A
(207)
Homologous Superfamily
:
Cysteine proteinases
(207)
Human (Homo sapiens)
(92)
1a
1icfA00
A:1-175
1b
1icfC00
C:1-175
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Invariant Chain; Chain I
(3)
Homologous Superfamily
:
Invariant Chain; Chain I
(3)
Human (Homo sapiens)
(2)
2a
1icfI00
I:194-258
2b
1icfJ00
J:194-258
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
Cysteine proteinases. Chain C
(5)
Human (Homo sapiens)
(5)
3a
1icfB00
B:179-220
3b
1icfD00
D:179-220
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Chain D
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Chain J
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