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1KV3
Asym. Unit
Info
Asym.Unit (648 KB)
Biol.Unit 1 (219 KB)
Biol.Unit 2 (218 KB)
Biol.Unit 3 (218 KB)
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(1)
Title
:
HUMAN TISSUE TRANSGLUTAMINASE IN GDP BOUND FORM
Authors
:
S. Liu, R. A. Cerione, J. Clardy
Date
:
24 Jan 02 (Deposition) - 13 Mar 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,F (1x)
Biol. Unit 3: D,E (1x)
Keywords
:
Tissue Transglutaminase; Gtp Binding Protein; Crystallography, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Liu, R. A. Cerione, J. Clardy
Structural Basis For The Guanine Nucleotide-Binding Activity Of Tissue Transglutaminase And Its Regulation Of Transamidation Activity.
Proc. Natl. Acad. Sci. Usa V. 99 2743 2002
(for further references see the
PDB file header
)
[
close entry info
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
1b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
1c: GUANOSINE-5'-DIPHOSPHATE (GDPc)
1d: GUANOSINE-5'-DIPHOSPHATE (GDPd)
1e: GUANOSINE-5'-DIPHOSPHATE (GDPe)
1f: GUANOSINE-5'-DIPHOSPHATE (GDPf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GDP
6
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
[
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PHE A:174 , ARG A:476 , ARG A:478 , VAL A:479 , GLY A:480 , GLN A:481 , SER A:482 , MET A:483 , ARG A:580 , LEU A:582 , TYR A:583
BINDING SITE FOR RESIDUE GDP A 700
2
AC2
SOFTWARE
PHE B:174 , ARG B:476 , ARG B:478 , VAL B:479 , GLY B:480 , GLN B:481 , SER B:482 , MET B:483 , ARG B:580 , LEU B:582 , TYR B:583
BINDING SITE FOR RESIDUE GDP B 701
3
AC3
SOFTWARE
PHE C:174 , ARG C:476 , ARG C:478 , VAL C:479 , GLY C:480 , GLN C:481 , SER C:482 , MET C:483 , ARG C:580 , LEU C:582 , TYR C:583 , HOH C:751
BINDING SITE FOR RESIDUE GDP C 702
4
AC4
SOFTWARE
PHE D:174 , ARG D:476 , ARG D:478 , VAL D:479 , GLY D:480 , GLN D:481 , SER D:482 , MET D:483 , ARG D:580 , LEU D:582 , TYR D:583
BINDING SITE FOR RESIDUE GDP D 703
5
AC5
SOFTWARE
PHE E:174 , ARG E:476 , ARG E:478 , VAL E:479 , GLY E:480 , GLN E:481 , SER E:482 , MET E:483 , ARG E:580 , LEU E:582 , TYR E:583
BINDING SITE FOR RESIDUE GDP E 704
6
AC6
SOFTWARE
PHE F:174 , ARG F:476 , ARG F:478 , VAL F:479 , GLY F:480 , GLN F:481 , SER F:482 , MET F:483 , ARG F:580 , LEU F:582 , TYR F:583
BINDING SITE FOR RESIDUE GDP F 705
[
close Site info
]
SAPs(SNPs)/Variants
(8, 48)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_052553 (R76H, chain A/B/C/D/E/F, )
2: VAR_055357 (R214H, chain A/B/C/D/E/F, )
3: VAR_055358 (Q324R, chain A/B/C/D/E/F, )
4: VAR_037998 (M330R, chain A/B/C/D/E/F, )
5: VAR_037999 (I331N, chain A/B/C/D/E/F, )
6: VAR_055359 (R436W, chain A/B/C/D/E/F, )
7: VAR_052554 (P536S, chain A/B/C/D/E/F, )
8: VAR_036554 (G660V, chain A/B/C/D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_052553
R
76
H
TGM2_HUMAN
Polymorphism
41274720
A/B/C/D/E/F
R
76
H
2
UniProt
VAR_055357
R
214
H
TGM2_HUMAN
Polymorphism
45530133
A/B/C/D/E/F
R
214
H
3
UniProt
VAR_055358
Q
324
R
TGM2_HUMAN
Polymorphism
45567334
A/B/C/D/E/F
Q
324
R
4
UniProt
VAR_037998
M
330
R
TGM2_HUMAN
Unclassified
---
A/B/C/D/E/F
M
330
R
5
UniProt
VAR_037999
I
331
N
TGM2_HUMAN
Unclassified
---
A/B/C/D/E/F
I
331
N
6
UniProt
VAR_055359
R
436
W
TGM2_HUMAN
Polymorphism
45629036
A/B/C/D/E/F
R
436
W
7
UniProt
VAR_052554
P
536
S
TGM2_HUMAN
Polymorphism
45556333
A/B/C/D/E/F
P
536
S
8
UniProt
VAR_036554
G
660
V
TGM2_HUMAN
Unclassified
---
A/B/C/D/E/F
G
660
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: TRANSGLUTAMINASES (A:275-292,B:275-292,C:275-292,D:27...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRANSGLUTAMINASES
PS00547
Transglutaminases active site.
TGM2_HUMAN
275-292
6
A:275-292
B:275-292
C:275-292
D:275-292
E:275-292
F:275-292
[
close PROSITE info
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Exons
(12, 72)
Info
All Exons
Exon 1.3b (A:15-64 (gaps) | B:15-64 (gaps) | ...)
Exon 1.4a (A:64-145 (gaps) | B:64-145 (gaps) ...)
Exon 1.5b (A:145-184 | B:145-184 | C:145-184 ...)
Exon 1.6 (A:185-227 | B:185-227 | C:185-227 ...)
Exon 1.7b (A:228-287 | B:228-287 | C:228-287 ...)
Exon 1.8 (A:287-332 | B:287-332 | C:287-332 ...)
Exon 1.9 (A:332-367 | B:332-367 | C:332-367 ...)
Exon 1.10 (A:367-448 | B:367-448 | C:367-448 ...)
Exon 1.11a (A:448-539 | B:448-539 | C:448-539 ...)
Exon 1.12b (A:539-592 | B:539-592 | C:539-592 ...)
Exon 1.13b (A:593-638 | B:593-638 | C:593-638 ...)
Exon 1.14a (A:638-687 | B:638-687 | C:638-687 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.2a/1.3b
02: Boundary 1.3b/1.4a
03: Boundary 1.4a/1.5b
04: Boundary 1.5b/1.6
05: Boundary 1.6/1.7b
06: Boundary 1.7b/1.8
07: Boundary 1.8/1.9
08: Boundary 1.9/1.10
09: Boundary 1.10/1.11a
10: Boundary 1.11a/1.12b
11: Boundary 1.12b/1.13b
12: Boundary 1.13b/1.14a
13: Boundary 1.14a/-
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
1.2a
ENST00000361475
2a
ENSE00001922845
chr20:
36793774-36793591
184
TGM2_HUMAN
1-4
4
0
-
-
1.3b
ENST00000361475
3b
ENSE00000800527
chr20:
36790001-36789822
180
TGM2_HUMAN
4-64
61
6
A:15-64 (gaps)
B:15-64 (gaps)
C:15-64 (gaps)
D:15-64 (gaps)
E:15-64 (gaps)
F:15-64 (gaps)
50
50
50
50
50
50
1.4a
ENST00000361475
4a
ENSE00000661931
chr20:
36784491-36784249
243
TGM2_HUMAN
64-145
82
6
A:64-145 (gaps)
B:64-145 (gaps)
C:64-145 (gaps)
D:64-145 (gaps)
E:64-145 (gaps)
F:64-145 (gaps)
82
82
82
82
82
82
1.5b
ENST00000361475
5b
ENSE00000661930
chr20:
36779459-36779341
119
TGM2_HUMAN
145-184
40
6
A:145-184
B:145-184
C:145-184
D:145-184
E:145-184
F:145-184
40
40
40
40
40
40
1.6
ENST00000361475
6
ENSE00000800526
chr20:
36776491-36776363
129
TGM2_HUMAN
185-227
43
6
A:185-227
B:185-227
C:185-227
D:185-227
E:185-227
F:185-227
43
43
43
43
43
43
1.7b
ENST00000361475
7b
ENSE00000800525
chr20:
36775296-36775119
178
TGM2_HUMAN
228-287
60
6
A:228-287
B:228-287
C:228-287
D:228-287
E:228-287
F:228-287
60
60
60
60
60
60
1.8
ENST00000361475
8
ENSE00000661927
chr20:
36770601-36770466
136
TGM2_HUMAN
287-332
46
6
A:287-332
B:287-332
C:287-332
D:287-332
E:287-332
F:287-332
46
46
46
46
46
46
1.9
ENST00000361475
9
ENSE00000661926
chr20:
36769787-36769684
104
TGM2_HUMAN
332-367
36
6
A:332-367
B:332-367
C:332-367
D:332-367
E:332-367
F:332-367
36
36
36
36
36
36
1.10
ENST00000361475
10
ENSE00000661925
chr20:
36768056-36767814
243
TGM2_HUMAN
367-448
82
6
A:367-448
B:367-448
C:367-448
D:367-448
E:367-448
F:367-448
82
82
82
82
82
82
1.11a
ENST00000361475
11a
ENSE00000661924
chr20:
36766787-36766515
273
TGM2_HUMAN
448-539
92
6
A:448-539
B:448-539
C:448-539
D:448-539
E:448-539
F:448-539
92
92
92
92
92
92
1.12b
ENST00000361475
12b
ENSE00000661923
chr20:
36760902-36760742
161
TGM2_HUMAN
539-592
54
6
A:539-592
B:539-592
C:539-592
D:539-592
E:539-592
F:539-592
54
54
54
54
54
54
1.13b
ENST00000361475
13b
ENSE00000661922
chr20:
36759631-36759495
137
TGM2_HUMAN
593-638
46
6
A:593-638
B:593-638
C:593-638
D:593-638
E:593-638
F:593-638
46
46
46
46
46
46
1.14a
ENST00000361475
14a
ENSE00001904837
chr20:
36758771-36756863
1909
TGM2_HUMAN
638-687
50
6
A:638-687
B:638-687
C:638-687
D:638-687
E:638-687
F:638-687
50
50
50
50
50
50
[
close EXON info
]
SCOP Domains
(3, 24)
Info
All SCOP Domains
1a: SCOP_d1kv3a1 (A:15-145)
1b: SCOP_d1kv3b1 (B:15-145)
1c: SCOP_d1kv3c1 (C:15-145)
1d: SCOP_d1kv3d1 (D:15-145)
1e: SCOP_d1kv3e1 (E:15-145)
1f: SCOP_d1kv3f1 (F:15-145)
2a: SCOP_d1kv3a2 (A:469-585)
2b: SCOP_d1kv3e2 (E:469-585)
2c: SCOP_d1kv3e3 (E:586-687)
2d: SCOP_d1kv3f2 (F:469-585)
2e: SCOP_d1kv3f3 (F:586-687)
2f: SCOP_d1kv3a3 (A:586-687)
2g: SCOP_d1kv3b2 (B:469-585)
2h: SCOP_d1kv3b3 (B:586-687)
2i: SCOP_d1kv3c2 (C:469-585)
2j: SCOP_d1kv3c3 (C:586-687)
2k: SCOP_d1kv3d2 (D:469-585)
2l: SCOP_d1kv3d3 (D:586-687)
3a: SCOP_d1kv3a4 (A:146-468)
3b: SCOP_d1kv3b4 (B:146-468)
3c: SCOP_d1kv3c4 (C:146-468)
3d: SCOP_d1kv3d4 (D:146-468)
3e: SCOP_d1kv3e4 (E:146-468)
3f: SCOP_d1kv3f4 (F:146-468)
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Folds
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Superfamilies
(
)
(
)
Families
(
)
(
)
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), tissue isozyme [TaxId: 9606]
(3)
1a
d1kv3a1
A:15-145
1b
d1kv3b1
B:15-145
1c
d1kv3c1
C:15-145
1d
d1kv3d1
D:15-145
1e
d1kv3e1
E:15-145
1f
d1kv3f1
F:15-145
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), tissue isozyme [TaxId: 9606]
(3)
2a
d1kv3a2
A:469-585
2b
d1kv3e2
E:469-585
2c
d1kv3e3
E:586-687
2d
d1kv3f2
F:469-585
2e
d1kv3f3
F:586-687
2f
d1kv3a3
A:586-687
2g
d1kv3b2
B:469-585
2h
d1kv3b3
B:586-687
2i
d1kv3c2
C:469-585
2j
d1kv3c3
C:586-687
2k
d1kv3d2
D:469-585
2l
d1kv3d3
D:586-687
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), tissue isozyme [TaxId: 9606]
(3)
3a
d1kv3a4
A:146-468
3b
d1kv3b4
B:146-468
3c
d1kv3c4
C:146-468
3d
d1kv3d4
D:146-468
3e
d1kv3e4
E:146-468
3f
d1kv3f4
F:146-468
[
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]
CATH Domains
(2, 24)
Info
all CATH domains
1a: CATH_1kv3A02 (A:148-470)
1b: CATH_1kv3B02 (B:148-470)
1c: CATH_1kv3C02 (C:148-470)
1d: CATH_1kv3D02 (D:148-470)
1e: CATH_1kv3E02 (E:148-470)
1f: CATH_1kv3F02 (F:148-470)
2a: CATH_1kv3A04 (A:588-685)
2b: CATH_1kv3B04 (B:588-685)
2c: CATH_1kv3C04 (C:588-685)
2d: CATH_1kv3D04 (D:588-685)
2e: CATH_1kv3E04 (E:588-685)
2f: CATH_1kv3F04 (F:588-685)
2g: CATH_1kv3A01 (A:15-147)
2h: CATH_1kv3B01 (B:15-147)
2i: CATH_1kv3C01 (C:15-147)
2j: CATH_1kv3D01 (D:15-147)
2k: CATH_1kv3E01 (E:15-147)
2l: CATH_1kv3F01 (F:15-147)
2m: CATH_1kv3A03 (A:471-587)
2n: CATH_1kv3B03 (B:471-587)
2o: CATH_1kv3C03 (C:471-587)
2p: CATH_1kv3D03 (D:471-587)
2q: CATH_1kv3E03 (E:471-587)
2r: CATH_1kv3F03 (F:471-587)
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)
(
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Architectures
(
)
(
)
Topologies
(
)
(
)
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
1kv3A02
A:148-470
1b
1kv3B02
B:148-470
1c
1kv3C02
C:148-470
1d
1kv3D02
D:148-470
1e
1kv3E02
E:148-470
1f
1kv3F02
F:148-470
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
2a
1kv3A04
A:588-685
2b
1kv3B04
B:588-685
2c
1kv3C04
C:588-685
2d
1kv3D04
D:588-685
2e
1kv3E04
E:588-685
2f
1kv3F04
F:588-685
2g
1kv3A01
A:15-147
2h
1kv3B01
B:15-147
2i
1kv3C01
C:15-147
2j
1kv3D01
D:15-147
2k
1kv3E01
E:15-147
2l
1kv3F01
F:15-147
2m
1kv3A03
A:471-587
2n
1kv3B03
B:471-587
2o
1kv3C03
C:471-587
2p
1kv3D03
D:471-587
2q
1kv3E03
E:471-587
2r
1kv3F03
F:471-587
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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Asym.Unit (648 KB)
Header - Asym.Unit
Biol.Unit 1 (219 KB)
Header - Biol.Unit 1
Biol.Unit 2 (218 KB)
Header - Biol.Unit 2
Biol.Unit 3 (218 KB)
Header - Biol.Unit 3
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