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1NUD
Biol. Unit 2
Info
Asym.Unit (226 KB)
Biol.Unit 1 (112 KB)
Biol.Unit 2 (113 KB)
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(1)
Title
:
ROLE OF CALCIUM IONS IN THE ACTIVATION AND ACTIVITY OF THE TRANSGLUTAMINASE 3 ENZYME (3 CALCIUMS, ACTIVE FORM)
Authors
:
B. Ahvazi
Date
:
31 Jan 03 (Deposition) - 22 Apr 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Transglutaminase 3, X-Ray Crystallography, Metalloenzyme, Calcium Ion, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Ahvazi, K. M. Boeshans, W. Idler, U. Baxa, P. M. Steinert
Roles Of Calcium Ions In The Activation And Activity Of The Transglutaminase 3 Enzyme
J. Biol. Chem. V. 278 23834 2003
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: BROMIDE ION (BRa)
1b: BROMIDE ION (BRb)
1c: BROMIDE ION (BRc)
1d: BROMIDE ION (BRd)
1e: BROMIDE ION (BRe)
1f: BROMIDE ION (BRf)
1g: BROMIDE ION (BRg)
1h: BROMIDE ION (BRh)
1i: BROMIDE ION (BRi)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
3a: CHLORIDE ION (CLa)
3b: CHLORIDE ION (CLb)
3c: CHLORIDE ION (CLc)
3d: CHLORIDE ION (CLd)
3e: CHLORIDE ION (CLe)
3f: CHLORIDE ION (CLf)
3g: CHLORIDE ION (CLg)
3h: CHLORIDE ION (CLh)
View:
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Label:
Sorry, no Info available
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Sites
(12, 12)
Info
All Sites
01: AC9 (SOFTWARE)
02: BC1 (SOFTWARE)
03: BC2 (SOFTWARE)
04: BC3 (SOFTWARE)
05: BC4 (SOFTWARE)
06: BC5 (SOFTWARE)
07: BC6 (SOFTWARE)
08: BC7 (SOFTWARE)
09: BC8 (SOFTWARE)
10: BC9 (SOFTWARE)
11: CC1 (SOFTWARE)
12: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC9
SOFTWARE
PHE B:37 , GLN B:38 , SER B:98 , THR B:241
BINDING SITE FOR RESIDUE BR A 711
02
BC1
SOFTWARE
ALA B:221 , ASN B:224 , ASN B:226 , ASP B:228
BINDING SITE FOR RESIDUE CA B 701
03
BC2
SOFTWARE
ASN B:393 , SER B:415 , GLU B:443 , GLU B:448 , HOH B:838
BINDING SITE FOR RESIDUE CA B 702
04
BC3
SOFTWARE
ASP B:301 , ASP B:303 , ASN B:305 , SER B:307 , ASP B:324
BINDING SITE FOR RESIDUE CA B 703
05
BC4
SOFTWARE
ASP B:183 , SER B:186
BINDING SITE FOR RESIDUE CL B 704
06
BC5
SOFTWARE
ASN B:430 , GLN B:669
BINDING SITE FOR RESIDUE CL B 705
07
BC6
SOFTWARE
HOH B:824
BINDING SITE FOR RESIDUE CL B 706
08
BC7
SOFTWARE
ARG B:291
BINDING SITE FOR RESIDUE CL B 707
09
BC8
SOFTWARE
ARG B:169 , ARG B:587 , ILE B:590 , HOH B:884
BINDING SITE FOR RESIDUE BR B 708
10
BC9
SOFTWARE
GLU B:28 , THR B:129 , PHE B:130
BINDING SITE FOR RESIDUE BR B 709
11
CC1
SOFTWARE
TRP B:236
BINDING SITE FOR RESIDUE BR B 710
12
CC2
SOFTWARE
VAL B:488 , ARG B:587
BINDING SITE FOR RESIDUE BR B 711
[
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SAPs(SNPs)/Variants
(6, 6)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_040067 (T12K, chain B, )
2: VAR_040068 (I162L, chain B, )
3: VAR_040069 (S248N, chain B, )
4: VAR_040070 (R561R, chain B, )
5: VAR_040071 (R653R, chain B, )
6: VAR_055360 (L686M, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_040067
T
13
K
TGM3_HUMAN
Polymorphism
214803
B
T
12
K
2
UniProt
VAR_040068
I
163
L
TGM3_HUMAN
Polymorphism
6048066
B
I
162
L
3
UniProt
VAR_040069
S
249
N
TGM3_HUMAN
Polymorphism
214814
B
S
248
N
4
UniProt
VAR_040070
K
562
R
TGM3_HUMAN
Polymorphism
1042617
B
R
561
R
5
UniProt
VAR_040071
G
654
R
TGM3_HUMAN
Polymorphism
214830
B
R
653
R
6
UniProt
VAR_055360
L
687
M
TGM3_HUMAN
Polymorphism
45581032
B
L
686
M
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: TRANSGLUTAMINASES (B:270-287)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRANSGLUTAMINASES
PS00547
Transglutaminases active site.
TGM3_HUMAN
271-288
1
-
B:270-287
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Exons
(0, 0)
Info
All Exons
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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
(3, 8)
Info
All SCOP Domains
1a: SCOP_d1nuda1 (A:1-140)
1b: SCOP_d1nudb1 (B:1-140)
2a: SCOP_d1nuda2 (A:480-593)
2b: SCOP_d1nuda3 (A:594-692)
2c: SCOP_d1nudb2 (B:480-593)
2d: SCOP_d1nudb3 (B:594-692)
3a: SCOP_d1nuda4 (A:141-460)
3b: SCOP_d1nudb4 (B:141-460)
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)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
E set domains
(509)
Family
:
Transglutaminase N-terminal domain
(17)
Protein domain
:
Transglutaminase N-terminal domain
(17)
Human (Homo sapiens), TGase E3 [TaxId: 9606]
(5)
1a
d1nuda1
A:1-140
1b
d1nudb1
B:1-140
Superfamily
:
Transglutaminase, two C-terminal domains
(18)
Family
:
Transglutaminase, two C-terminal domains
(17)
Protein domain
:
Transglutaminase, two C-terminal domains
(17)
Human (Homo sapiens), TGase E3 [TaxId: 9606]
(5)
2a
d1nuda2
A:480-593
2b
d1nuda3
A:594-692
2c
d1nudb2
B:480-593
2d
d1nudb3
B:594-692
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cysteine proteinases
(392)
Superfamily
:
Cysteine proteinases
(392)
Family
:
Transglutaminase core
(22)
Protein domain
:
Transglutaminase catalytic domain
(17)
Human (Homo sapiens), TGase E3 [TaxId: 9606]
(5)
3a
d1nuda4
A:141-460
3b
d1nudb4
B:141-460
[
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]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1nudA02 (A:143-480)
1b: CATH_1nudB02 (B:143-480)
2a: CATH_1nudA04 (A:595-691)
2b: CATH_1nudB04 (B:595-691)
2c: CATH_1nudA03 (A:481-594)
2d: CATH_1nudB03 (B:481-594)
2e: CATH_1nudA01 (A:1-142)
2f: CATH_1nudB01 (B:1-142)
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Architectures
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Topologies
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Coagulation Factor XIII; Chain A, domain 2
(19)
Homologous Superfamily
:
Coagulation Factor XIII, subunit A, domain 2
(19)
Human (Homo sapiens)
(18)
1a
1nudA02
A:143-480
1b
1nudB02
B:143-480
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
2a
1nudA04
A:595-691
2b
1nudB04
B:595-691
2c
1nudA03
A:481-594
2d
1nudB03
B:481-594
2e
1nudA01
A:1-142
2f
1nudB01
B:1-142
[
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Pfam Domains
(3, 8)
Info
all PFAM domains
1a: PFAM_Transglut_C_1nudB01 (B:594-692)
1b: PFAM_Transglut_C_1nudB02 (B:594-692)
1c: PFAM_Transglut_C_1nudB03 (B:594-692)
1d: PFAM_Transglut_C_1nudB04 (B:594-692)
2a: PFAM_Transglut_core_1nudB05 (B:239-354)
2b: PFAM_Transglut_core_1nudB06 (B:239-354)
3a: PFAM_Transglut_N_1nudB07 (B:3-119)
3b: PFAM_Transglut_N_1nudB08 (B:3-119)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
E-set
(290)
Family
:
Transglut_C
(8)
Homo sapiens (Human)
(8)
1a
Transglut_C-1nudB01
B:594-692
1b
Transglut_C-1nudB02
B:594-692
1c
Transglut_C-1nudB03
B:594-692
1d
Transglut_C-1nudB04
B:594-692
Clan
:
Peptidase_CA
(169)
Family
:
Transglut_core
(7)
Homo sapiens (Human)
(7)
2a
Transglut_core-1nudB05
B:239-354
2b
Transglut_core-1nudB06
B:239-354
Clan
:
no clan defined [family: Transglut_N]
(7)
Family
:
Transglut_N
(7)
Homo sapiens (Human)
(7)
3a
Transglut_N-1nudB07
B:3-119
3b
Transglut_N-1nudB08
B:3-119
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