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3IV2
Asym. Unit
Info
Asym.Unit (78 KB)
Biol.Unit 1 (72 KB)
Biol.Unit 2 (72 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MATURE APO-CATHEPSIN L C25A MUTANT
Authors
:
M. A. Adams-Cioaba, J. C. Krupa, J. S. Mort, C. Bountra, J. Weigelt, C. H. Arrowsmith, A. M. Edwards, A. Bochkarev, J. Min
Date
:
31 Aug 09 (Deposition) - 23 Mar 10 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Biol. Unit 2: A,B (1x)
Keywords
:
Protease, Mutant, Apo, Disulfide Bond, Glycoprotein, Hydrolase, Lysosome, Thiol Protease, Zymogen
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. A. Adams-Cioaba, J. C. Krupa, C. Xu, J. S. Mort, J. Min
Structural Basis For The Recognition And Cleavage Of Histon H3 By Cathepsin L.
Nat Commun V. 2 197 2011
[
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Hetero Components
(4, 11)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2a: SODIUM ION (NAa)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
5
Ligand/Ion
GLYCEROL
2
NA
1
Ligand/Ion
SODIUM ION
3
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
SO4
4
Ligand/Ion
SULFATE ION
[
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Sites
(11, 11)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:58 , PRO A:59 , ASP B:55 , CYS B:56 , SER B:57 , GLY B:58
BINDING SITE FOR RESIDUE NA B 300
02
AC2
SOFTWARE
ASN A:108
BINDING SITE FOR RESIDUE NAG A 301
03
AC3
SOFTWARE
GLN B:19 , GLY B:20 , GLN B:21 , CYS B:22
BINDING SITE FOR RESIDUE GOL B 302
04
AC4
SOFTWARE
GLY A:20 , GLU A:141 , TRP A:189 , HOH A:494
BINDING SITE FOR RESIDUE GOL A 303
05
AC5
SOFTWARE
ASN B:18 , GLY B:190 , GLU B:191 , GLU B:192 , HOH B:477
BINDING SITE FOR RESIDUE GOL B 304
06
AC6
SOFTWARE
GLN B:21 , HIS B:140 , GLU B:141
BINDING SITE FOR RESIDUE GOL B 305
07
AC7
SOFTWARE
HIS A:140 , GLU A:141 , SER A:142 , PRO A:154
BINDING SITE FOR RESIDUE GOL A 306
08
AC8
SOFTWARE
GLN A:19 , GLY A:23 , SER A:24 , ALA A:25 , HIS A:163 , HOH A:493
BINDING SITE FOR RESIDUE SO4 A 307
09
AC9
SOFTWARE
ASN A:18 , GLY A:190 , GLU A:191 , GLU A:192 , HOH A:454
BINDING SITE FOR RESIDUE SO4 A 308
10
BC1
SOFTWARE
LYS B:124
BINDING SITE FOR RESIDUE SO4 B 309
11
BC2
SOFTWARE
GLN B:19 , GLY B:23 , SER B:24 , ALA B:25 , HIS B:163
BINDING SITE FOR RESIDUE SO4 B 310
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: THIOL_PROTEASE_CYS (A:19-30,B:19-30)
2: THIOL_PROTEASE_HIS (A:161-171,B:161-171)
3: THIOL_PROTEASE_ASN (A:182-201,B: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
B:19-30
2
THIOL_PROTEASE_HIS
PS00639
Eukaryotic thiol (cysteine) proteases histidine active site.
CATL1_HUMAN
274-284
2
A:161-171
B:161-171
3
THIOL_PROTEASE_ASN
PS00640
Eukaryotic thiol (cysteine) proteases asparagine active site.
CATL1_HUMAN
295-314
2
A:182-201
B:182-201
[
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Exons
(5, 10)
Info
All Exons
Exon 1.4 (A:2-19 | B:1-19)
Exon 1.5a (A:20-94 | B:20-94)
Exon 1.6b (A:95-149 | B:95-149)
Exon 1.7 (A:149-188 | B:149-188 (gaps))
Exon 1.8c (A:188-220 | B:188-220)
View:
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All Exon Boundaries
1: Boundary 1.3a/1.4
2: Boundary 1.4/1.5a
3: Boundary 1.5a/1.6b
4: Boundary 1.6b/1.7
5: Boundary 1.7/1.8c
6: Boundary 1.8c/-
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
1.1a
ENST00000343150
1a
ENSE00001886667
chr9:
90340434-90341313
880
CATL1_HUMAN
-
0
0
-
-
1.2b
ENST00000343150
2b
ENSE00002159545
chr9:
90342509-90342644
136
CATL1_HUMAN
1-42
42
0
-
-
1.3a
ENST00000343150
3a
ENSE00001686191
chr9:
90342942-90343064
123
CATL1_HUMAN
43-83
41
0
-
-
1.4
ENST00000343150
4
ENSE00001692924
chr9:
90343165-90343311
147
CATL1_HUMAN
84-132
49
2
A:2-19
B:1-19
18
19
1.5a
ENST00000343150
5a
ENSE00000917752
chr9:
90343500-90343724
225
CATL1_HUMAN
133-207
75
2
A:20-94
B:20-94
75
75
1.6b
ENST00000343150
6b
ENSE00000917753
chr9:
90344488-90344650
163
CATL1_HUMAN
208-262
55
2
A:95-149
B:95-149
55
55
1.7
ENST00000343150
7
ENSE00001618315
chr9:
90345296-90345413
118
CATL1_HUMAN
262-301
40
2
A:149-188
B:149-188 (gaps)
40
40
1.8c
ENST00000343150
8c
ENSE00001931704
chr9:
90345923-90346307
385
CATL1_HUMAN
301-333
33
2
A:188-220
B:188-220
33
33
[
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]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3iv2a_ (A:)
1b: SCOP_d3iv2b_ (B:)
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Classes
(
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Folds
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cysteine proteinases
(392)
Superfamily
:
Cysteine proteinases
(392)
Family
:
automated matches
(52)
Protein domain
:
automated matches
(52)
Human (Homo sapiens) [TaxId: 9606]
(30)
1a
d3iv2a_
A:
1b
d3iv2b_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3iv2A00 (A:2-220)
1b: CATH_3iv2B00 (B:1-220)
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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
3iv2A00
A:2-220
1b
3iv2B00
B:1-220
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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