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1KFU
Asym. Unit
Info
Asym.Unit (156 KB)
Biol.Unit 1 (151 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN M-CALPAIN FORM II
Authors
:
S. Strobl, C. Fernandez-Catalan, M. Braun, R. Huber, H. Masumoto, K. Na A. Irie, H. Sorimachi, G. Bourenkow, H. Bartunik, K. Suzuki, W. Bode
Date
:
23 Nov 01 (Deposition) - 07 Dec 01 (Release) - 02 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : L,S
Biol. Unit 1: L,S (1x)
Keywords
:
Regulation, Papain-Like, Thiol-Protease, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Strobl, C. Fernandez-Catalan, M. Braun, R. Huber, H. Masumoto, K. Nakagawa, A. Irie, H. Sorimachi, G. Bourenkow, H. Bartunik, K. Suzuki, W. Bode
The Crystal Structure Of Calcium-Free Human M-Calpain Suggests An Electrostatic Switch Mechanism For Activation B Calcium.
Proc. Natl. Acad. Sci. Usa V. 97 588 2000
(for further references see the
PDB file header
)
[
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Hetero Components
(0, 0)
Info
All Hetero Components
View:
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Label:
Sorry, no Info available
[
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]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
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]
SAPs(SNPs)/Variants
(7, 7)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_014435 (E22E, chain L, )
2: VAR_021404 (S68G, chain L, )
3: VAR_021405 (K476R, chain L, )
4: VAR_021406 (E521Q, chain L, )
5: VAR_014436 (K568Q, chain L, )
6: VAR_021407 (K677Q, chain L, )
7: VAR_021089 (M924V, chain S, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_014435
D
22
E
CAN2_HUMAN
Polymorphism
25655
L
E
22
E
2
UniProt
VAR_021404
S
68
G
CAN2_HUMAN
Polymorphism
2230083
L
S
68
G
3
UniProt
VAR_021405
K
476
R
CAN2_HUMAN
Polymorphism
9804140
L
K
476
R
4
UniProt
VAR_021406
E
521
Q
CAN2_HUMAN
Polymorphism
28370127
L
E
521
Q
5
UniProt
VAR_014436
K
568
Q
CAN2_HUMAN
Polymorphism
17599
L
K
568
Q
6
UniProt
VAR_021407
K
677
Q
CAN2_HUMAN
Polymorphism
2230082
L
K
677
Q
7
UniProt
VAR_021089
M
224
V
CPNS1_HUMAN
Polymorphism
17878750
S
M
924
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(4, 12)
Info
All PROSITE Patterns/Profiles
1: CALPAIN_CAT (L:45-344)
2: THIOL_PROTEASE_CYS (L:99-110)
3: EF_HAND_1 (S:852-864|S:882-894,L:585-597|L:61...)
4: EF_HAND_2 (S:869-904|S:839-867|S:934-968,L:60...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CALPAIN_CAT
PS50203
Cysteine proteinase, calpain-type, catalytic domain profile.
CAN2_HUMAN
45-344
1
L:45-344
2
THIOL_PROTEASE_CYS
PS00139
Eukaryotic thiol (cysteine) proteases cysteine active site.
CAN2_HUMAN
99-110
1
L:99-110
3
EF_HAND_1
PS00018
EF-hand calcium-binding domain.
CPNS1_HUMAN
152-164
182-194
2
S:852-864
S:882-894
CAN2_HUMAN
585-597
615-627
2
L:585-597
L:615-627
4
EF_HAND_2
PS50222
EF-hand calcium-binding domain profile.
CPNS1_HUMAN
169-204
139-167
234-268
3
S:869-904
S:839-867
S:934-968
CAN2_HUMAN
602-637
572-597
667-700
3
L:602-637
L:572-597
L:667-700
[
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]
Exons
(29, 29)
Info
All Exons
Exon 1.4 (S:785-811)
Exon 1.5 (S:812-831)
Exon 1.6 (S:831-852)
Exon 1.7 (S:853-875)
Exon 1.8 (S:876-902)
Exon 1.9 (S:902-941)
Exon 1.10 (S:941-960)
Exon 1.11 (S:961-968)
Exon 2.2a (L:2-79)
Exon 2.3b (L:80-103)
Exon 2.5 (L:103-142)
Exon 2.6 (L:143-187)
Exon 2.7b (L:187-243)
Exon 2.8a (L:244-271)
Exon 2.9 (L:272-300)
Exon 2.10a (L:300-325)
Exon 2.11 (L:325-379)
Exon 2.12 (L:379-435)
Exon 2.14a (L:436-439)
Exon 2.15c (L:440-510)
Exon 2.16a (L:510-522)
Exon 2.17 (L:523-544)
Exon 2.18 (L:545-564)
Exon 2.19 (L:564-585)
Exon 2.20a (L:586-608)
Exon 2.20e (L:609-635)
Exon 2.21b (L:635-674)
Exon 2.22a (L:674-693)
Exon 2.23b (L:694-700)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.3/1.4
02: Boundary 1.4/1.5
03: Boundary 1.5/1.6
04: Boundary 1.6/1.7
05: Boundary 1.7/1.8
06: Boundary 1.8/1.9
07: Boundary 1.9/1.10
08: Boundary 1.10/1.11
09: Boundary 1.11/-
10: Boundary -/2.2a
11: Boundary 2.2a/2.3b
12: Boundary 2.3b/2.5
13: Boundary 2.5/2.6
14: Boundary 2.6/2.7b
15: Boundary 2.7b/2.8a
16: Boundary 2.8a/2.9
17: Boundary 2.9/2.10a
18: Boundary 2.10a/2.11
19: Boundary 2.11/2.12
20: Boundary 2.12/2.14a
21: Boundary 2.14a/2.15c
22: Boundary 2.15c/2.16a
23: Boundary 2.16a/2.17
24: Boundary 2.17/2.18
25: Boundary 2.18/2.19
26: Boundary 2.19/2.20a
27: Boundary 2.20a/2.20e
28: Boundary 2.20e/2.21b
29: Boundary 2.21b/2.22a
30: Boundary 2.22a/2.23b
31: Boundary 2.23b/-
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
ENST00000246533
1
ENSE00001179629
chr19:
36630918-36631059
142
CPNS1_HUMAN
-
0
0
-
-
1.2a
ENST00000246533
2a
ENSE00001057386
chr19:
36631899-36632122
224
CPNS1_HUMAN
1-70
70
0
-
-
1.3
ENST00000246533
3
ENSE00000862921
chr19:
36633202-36633235
34
CPNS1_HUMAN
70-81
12
0
-
-
1.4
ENST00000246533
4
ENSE00000698002
chr19:
36633554-36633643
90
CPNS1_HUMAN
82-111
30
1
S:785-811
27
1.5
ENST00000246533
5
ENSE00000697999
chr19:
36633811-36633868
58
CPNS1_HUMAN
112-131
20
1
S:812-831
20
1.6
ENST00000246533
6
ENSE00000697997
chr19:
36633966-36634030
65
CPNS1_HUMAN
131-152
22
1
S:831-852
22
1.7
ENST00000246533
7
ENSE00000697995
chr19:
36636708-36636776
69
CPNS1_HUMAN
153-175
23
1
S:853-875
23
1.8
ENST00000246533
8
ENSE00000697993
chr19:
36636878-36636956
79
CPNS1_HUMAN
176-202
27
1
S:876-902
27
1.9
ENST00000246533
9
ENSE00000862922
chr19:
36637098-36637214
117
CPNS1_HUMAN
202-241
40
1
S:902-941
40
1.10
ENST00000246533
10
ENSE00000862923
chr19:
36640480-36640538
59
CPNS1_HUMAN
241-260
20
1
S:941-960
20
1.11
ENST00000246533
11
ENSE00001179556
chr19:
36640715-36641254
540
CPNS1_HUMAN
261-268
8
1
S:961-968
8
2.2a
ENST00000295006
2a
ENSE00001903247
chr1:
223900034-223900579
546
CAN2_HUMAN
1-79
79
1
L:2-79
78
2.3b
ENST00000295006
3b
ENSE00001069725
chr1:
223905464-223905533
70
CAN2_HUMAN
80-103
24
1
L:80-103
24
2.5
ENST00000295006
5
ENSE00001069721
chr1:
223931802-223931920
119
CAN2_HUMAN
103-142
40
1
L:103-142
40
2.6
ENST00000295006
6
ENSE00001708453
chr1:
223933008-223933141
134
CAN2_HUMAN
143-187
45
1
L:143-187
45
2.7b
ENST00000295006
7b
ENSE00001069731
chr1:
223934699-223934867
169
CAN2_HUMAN
187-243
57
1
L:187-243
57
2.8a
ENST00000295006
8a
ENSE00001069713
chr1:
223936741-223936824
84
CAN2_HUMAN
244-271
28
1
L:244-271
28
2.9
ENST00000295006
9
ENSE00001069714
chr1:
223938592-223938677
86
CAN2_HUMAN
272-300
29
1
L:272-300
29
2.10a
ENST00000295006
10a
ENSE00001069732
chr1:
223939699-223939773
75
CAN2_HUMAN
300-325
26
1
L:300-325
26
2.11
ENST00000295006
11
ENSE00001069712
chr1:
223940498-223940658
161
CAN2_HUMAN
325-379
55
1
L:325-379
55
2.12
ENST00000295006
12
ENSE00001332607
chr1:
223943182-223943351
170
CAN2_HUMAN
379-435
57
1
L:379-435
57
2.14a
ENST00000295006
14a
ENSE00001788213
chr1:
223945071-223945082
12
CAN2_HUMAN
436-439
4
1
L:436-439
4
2.15c
ENST00000295006
15c
ENSE00001132647
chr1:
223946972-223947183
212
CAN2_HUMAN
440-510
71
1
L:440-510
71
2.16a
ENST00000295006
16a
ENSE00001069723
chr1:
223949283-223949319
37
CAN2_HUMAN
510-522
13
1
L:510-522
13
2.17
ENST00000295006
17
ENSE00001069716
chr1:
223949888-223949953
66
CAN2_HUMAN
523-544
22
1
L:523-544
22
2.18
ENST00000295006
18
ENSE00001069733
chr1:
223951852-223951909
58
CAN2_HUMAN
545-564
20
1
L:545-564
20
2.19
ENST00000295006
19
ENSE00001069717
chr1:
223954069-223954133
65
CAN2_HUMAN
564-585
22
1
L:564-585
22
2.20a
ENST00000295006
20a
ENSE00001069715
chr1:
223957543-223957611
69
CAN2_HUMAN
586-608
23
1
L:586-608
23
2.20e
ENST00000295006
20e
ENSE00001069718
chr1:
223958149-223958227
79
CAN2_HUMAN
609-635
27
1
L:609-635
27
2.21b
ENST00000295006
21b
ENSE00001069722
chr1:
223959511-223959627
117
CAN2_HUMAN
635-674
40
1
L:635-674
40
2.22a
ENST00000295006
22a
ENSE00001069727
chr1:
223959883-223959941
59
CAN2_HUMAN
674-693
20
1
L:674-693
20
2.23b
ENST00000295006
23b
ENSE00001852253
chr1:
223962536-223963720
1185
CAN2_HUMAN
694-700
7
1
L:694-700
7
[
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SCOP Domains
(4, 4)
Info
All SCOP Domains
1a: SCOP_d1kful1 (L:515-700)
2a: SCOP_d1kfus_ (S:)
3a: SCOP_d1kful2 (L:356-514)
4a: SCOP_d1kful3 (L:2-355)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
EF Hand-like
(739)
Superfamily
:
EF-hand
(657)
Family
:
Penta-EF-hand proteins
(30)
Protein domain
:
Calpain large subunit, C-terminal domain (domain IV)
(5)
Human (Homo sapiens), M-type [TaxId: 9606]
(2)
1a
d1kful1
L:515-700
Protein domain
:
Calpain small (regulatory) subunit (domain VI)
(16)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d1kfus_
S:
Class
:
All beta proteins
(24004)
Fold
:
Calpain large subunit, middle domain (domain III)
(5)
Superfamily
:
Calpain large subunit, middle domain (domain III)
(5)
Family
:
Calpain large subunit, middle domain (domain III)
(5)
Protein domain
:
Calpain large subunit, middle domain (domain III)
(5)
Human (Homo sapiens), M-type [TaxId: 9606]
(2)
3a
d1kful2
L:356-514
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cysteine proteinases
(392)
Superfamily
:
Cysteine proteinases
(392)
Family
:
Calpain large subunit, catalytic domain (domain II)
(19)
Protein domain
:
Calpain large subunit, catalytic domain (domain II)
(19)
Human (Homo sapiens), M-type [TaxId: 9606]
(2)
4a
d1kful3
L:2-355
[
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CATH Domains
(2, 3)
Info
all CATH domains
1a: CATH_1kfuL04 (L:514-700)
1b: CATH_1kfuS00 (S:785-968)
2a: CATH_1kfuL03 (L:353-513)
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(
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)
Homologous Superfamilies
(
)
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)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Recoverin; domain 1
(474)
Homologous Superfamily
:
EF-hand
(412)
Human (Homo sapiens)
(106)
1a
1kfuL04
L:514-700
1b
1kfuS00
S:785-968
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.380, no name defined]
(11)
Human (Homo sapiens)
(2)
2a
1kfuL03
L:353-513
[
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Pfam Domains
(4, 5)
Info
all PFAM domains
1a: PFAM_EF_hand_4_1kfuS01 (S:873-903)
2a: PFAM_EF_hand_6_1kfuL01 (L:544-604)
2b: PFAM_EF_hand_6_1kfuS02 (S:811-870)
3a: PFAM_Peptidase_C2_1kfuL02 (L:45-344)
4a: PFAM_Calpain_III_1kfuL03 (L:355-510)
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Organisms
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)
Clan
:
EF_hand
(270)
Family
:
EF_hand_4
(30)
Homo sapiens (Human)
(4)
1a
EF_hand_4-1kfuS01
S:873-903
Family
:
EF_hand_6
(75)
Homo sapiens (Human)
(34)
2a
EF_hand_6-1kfuL01
L:544-604
2b
EF_hand_6-1kfuS02
S:811-870
Clan
:
Peptidase_CA
(169)
Family
:
Peptidase_C2
(15)
Homo sapiens (Human)
(5)
3a
Peptidase_C2-1kfuL02
L:45-344
Clan
:
no clan defined [family: Calpain_III]
(5)
Family
:
Calpain_III
(5)
Homo sapiens (Human)
(3)
4a
Calpain_III-1kfuL03
L:355-510
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