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3PE4
Asym. Unit
Info
Asym.Unit (479 KB)
Biol.Unit 1 (241 KB)
Biol.Unit 2 (234 KB)
Biol.Unit 3 (478 KB)
Biol.Unit 4 (462 KB)
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(1)
Title
:
STRUCTURE OF HUMAN O-GLCNAC TRANSFERASE AND ITS COMPLEX WITH A PEPTIDE SUBSTRATE
Authors
:
M. B. Lazarus, Y. Nam, J. Jiang, P. Sliz, S. Walker
Date
:
25 Oct 10 (Deposition) - 19 Jan 11 (Release) - 09 Feb 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A,B (2x)
Biol. Unit 4: C,D (2x)
Keywords
:
Gt-B, Glycosyltransferase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. B. Lazarus, Y. Nam, J. Jiang, P. Sliz, S. Walker
Structure Of Human O-Glcnac Transferase And Its Complex Wit A Peptide Substrate.
Nature V. 469 564 2011
[
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
2a: URIDINE-5'-DIPHOSPHATE (UDPa)
2b: URIDINE-5'-DIPHOSPHATE (UDPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
3
Ligand/Ion
SULFATE ION
2
UDP
2
Ligand/Ion
URIDINE-5'-DIPHOSPHATE
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HOH A:4 , PRO A:559 , GLN A:839 , LYS A:842 , LEU A:866 , VAL A:895 , ALA A:896 , LYS A:898 , HIS A:901 , ARG A:904 , HIS A:920 , THR A:921 , THR A:922 , ASP A:925 , HOH A:1064 , HOH A:1087 , THR B:18 , VAL B:20 , SER B:21 , HOH B:27 , HOH B:57
BINDING SITE FOR RESIDUE UDP A 1212
2
AC2
SOFTWARE
GLY A:365 , LYS A:366 , LEU A:367 , GLN A:368 , HOH A:1070
BINDING SITE FOR RESIDUE SO4 A 5
3
AC3
SOFTWARE
GLY A:635 , HOH A:1103 , ASN B:24 , MET B:25
BINDING SITE FOR RESIDUE SO4 B 1
4
AC4
SOFTWARE
HOH C:9 , PRO C:559 , GLN C:839 , LYS C:842 , LEU C:866 , VAL C:895 , ALA C:896 , LYS C:898 , HIS C:901 , ARG C:904 , HIS C:920 , THR C:921 , THR C:922 , ASP C:925 , HOH C:1060 , HOH C:1086 , HOH C:1254 , THR D:18 , VAL D:20 , SER D:21 , HOH D:32 , HOH D:98
BINDING SITE FOR RESIDUE UDP C 1212
5
AC5
SOFTWARE
GLY C:635 , HOH C:1182 , ASN D:24 , MET D:25
BINDING SITE FOR RESIDUE SO4 D 3
[
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_064736 (L528P, chain A/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_064736
L
538
P
OGT1_HUMAN
Unclassified
---
A/C
L
528
P
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(1, 7)
Info
All PROSITE Patterns/Profiles
1: TPR (-|-|-|-|-|-|-|-|A:317-350|A:351-38...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TPR
PS50005
TPR repeat profile.
OGT1_HUMAN
21-54
89-122
123-156
157-190
191-224
225-258
259-292
293-326
327-360
361-394
395-428
429-462
7
-
-
-
-
-
-
-
-
A:317-350
A:351-384
C:351-384
A:385-418
C:385-418
A:419-452
C:419-452
[
close PROSITE info
]
Exons
(16, 32)
Info
All Exons
Exon 1.13 (B:13-26 (gaps) | D:13-26 (gaps))
Exon 2.10b (A:315-345 | C:336-345)
Exon 2.11c (A:346-379 | C:346-379)
Exon 2.12c (A:379-430 | C:379-430)
Exon 2.13 (A:431-464 | C:431-464)
Exon 2.14 (A:465-524 | C:465-524)
Exon 2.15 (A:525-577 | C:525-577)
Exon 2.16 (A:578-607 | C:578-607)
Exon 2.17 (A:608-649 | C:608-649)
Exon 2.18 (A:650-706 | C:650-706)
Exon 2.19 (A:707-745 (gaps) | C:707-745 (gaps...)
Exon 2.20 (A:746-802 (gaps) | C:746-802 (gaps...)
Exon 2.21a (A:803-853 | C:803-853)
Exon 2.22a (A:854-938 | C:854-938)
Exon 2.23 (A:938-979 | C:938-979)
Exon 2.24d (A:979-1028 | C:979-1028)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.12/1.13
02: Boundary 1.13/1.14c
03: Boundary 2.9b/2.10b
04: Boundary 2.10b/2.11c
05: Boundary 2.11c/2.12c
06: Boundary 2.12c/2.13
07: Boundary 2.13/2.14
08: Boundary 2.14/2.15
09: Boundary 2.15/2.16
10: Boundary 2.16/2.17
11: Boundary 2.17/2.18
12: Boundary 2.18/2.19
13: Boundary 2.19/2.20
14: Boundary 2.20/2.21a
15: Boundary 2.21a/2.22a
16: Boundary 2.22a/2.23
17: Boundary 2.23/2.24d
18: Boundary 2.24d/-
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
1.1b
ENST00000349736
1b
ENSE00001937660
chr20:
524465-524316
150
CSK21_HUMAN
-
0
0
-
-
1.3
ENST00000349736
3
ENSE00001709328
chr20:
489304-489095
210
CSK21_HUMAN
1-34
34
0
-
-
1.4
ENST00000349736
4
ENSE00001688643
chr20:
485873-485762
112
CSK21_HUMAN
34-71
38
0
-
-
1.5
ENST00000349736
5
ENSE00001705871
chr20:
480578-480477
102
CSK21_HUMAN
72-105
34
0
-
-
1.6
ENST00000349736
6
ENSE00001598088
chr20:
479949-479899
51
CSK21_HUMAN
106-122
17
0
-
-
1.7
ENST00000349736
7
ENSE00001618963
chr20:
478424-478365
60
CSK21_HUMAN
123-142
20
0
-
-
1.8
ENST00000349736
8
ENSE00000655095
chr20:
476446-476363
84
CSK21_HUMAN
143-170
28
0
-
-
1.9
ENST00000349736
9
ENSE00000655092
chr20:
473008-472898
111
CSK21_HUMAN
171-207
37
0
-
-
1.10
ENST00000349736
10
ENSE00001666435
chr20:
470525-470424
102
CSK21_HUMAN
208-241
34
0
-
-
1.11b
ENST00000349736
11b
ENSE00000655089
chr20:
469422-469322
101
CSK21_HUMAN
242-275
34
0
-
-
1.12
ENST00000349736
12
ENSE00000655088
chr20:
468219-468071
149
CSK21_HUMAN
275-325
51
0
-
-
1.13
ENST00000349736
13
ENSE00000655087
chr20:
467106-467020
87
CSK21_HUMAN
325-354
30
2
B:13-26 (gaps)
D:13-26 (gaps)
28
28
1.14c
ENST00000349736
14c
ENSE00001891680
chr20:
464720-461741
2980
CSK21_HUMAN
354-391
38
0
-
-
2.1a
ENST00000373719
1a
ENSE00001225746
X:70752933-70753186
254
OGT1_HUMAN
1-13
13
0
-
-
2.3a
ENST00000373719
3a
ENSE00001632316
X:70756028-70756208
181
OGT1_HUMAN
13-73
61
0
-
-
2.5
ENST00000373719
5
ENSE00000978988
X:70757679-70757922
244
OGT1_HUMAN
73-154
82
0
-
-
2.6b
ENST00000373719
6b
ENSE00000978989
X:70764417-70764485
69
OGT1_HUMAN
155-177
23
0
-
-
2.6f
ENST00000373719
6f
ENSE00001154534
X:70767757-70767873
117
OGT1_HUMAN
178-216
39
0
-
-
2.8
ENST00000373719
8
ENSE00001387445
X:70774363-70774442
80
OGT1_HUMAN
217-243
27
0
-
-
2.9b
ENST00000373719
9b
ENSE00001160307
X:70775040-70775235
196
OGT1_HUMAN
243-308
66
0
-
-
2.10b
ENST00000373719
10b
ENSE00001374459
X:70775804-70775944
141
OGT1_HUMAN
309-355
47
2
A:315-345
C:336-345
31
10
2.11c
ENST00000373719
11c
ENSE00001371885
X:70776530-70776630
101
OGT1_HUMAN
356-389
34
2
A:346-379
C:346-379
34
34
2.12c
ENST00000373719
12c
ENSE00001387530
X:70776802-70776955
154
OGT1_HUMAN
389-440
52
2
A:379-430
C:379-430
52
52
2.13
ENST00000373719
13
ENSE00001386377
X:70777045-70777146
102
OGT1_HUMAN
441-474
34
2
A:431-464
C:431-464
34
34
2.14
ENST00000373719
14
ENSE00001373577
X:70777343-70777522
180
OGT1_HUMAN
475-534
60
2
A:465-524
C:465-524
60
60
2.15
ENST00000373719
15
ENSE00001371266
X:70779117-70779275
159
OGT1_HUMAN
535-587
53
2
A:525-577
C:525-577
53
53
2.16
ENST00000373719
16
ENSE00000979031
X:70779438-70779527
90
OGT1_HUMAN
588-617
30
2
A:578-607
C:578-607
30
30
2.17
ENST00000373719
17
ENSE00000979032
X:70781625-70781750
126
OGT1_HUMAN
618-659
42
2
A:608-649
C:608-649
42
42
2.18
ENST00000373719
18
ENSE00000979033
X:70782697-70782867
171
OGT1_HUMAN
660-716
57
2
A:650-706
C:650-706
57
57
2.19
ENST00000373719
19
ENSE00000979034
X:70782980-70783096
117
OGT1_HUMAN
717-755
39
2
A:707-745 (gaps)
C:707-745 (gaps)
39
39
2.20
ENST00000373719
20
ENSE00001385236
X:70783179-70783349
171
OGT1_HUMAN
756-812
57
2
A:746-802 (gaps)
C:746-802 (gaps)
57
57
2.21a
ENST00000373719
21a
ENSE00001368007
X:70784451-70784603
153
OGT1_HUMAN
813-863
51
2
A:803-853
C:803-853
51
51
2.22a
ENST00000373719
22a
ENSE00001389126
X:70787350-70787602
253
OGT1_HUMAN
864-948
85
2
A:854-938
C:854-938
85
85
2.23
ENST00000373719
23
ENSE00001160190
X:70787843-70787966
124
OGT1_HUMAN
948-989
42
2
A:938-979
C:938-979
42
42
2.24d
ENST00000373719
24d
ENSE00001820698
X:70793470-70795747
2278
OGT1_HUMAN
989-1046
58
2
A:979-1028
C:979-1028
50
50
[
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SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(2, 11)
Info
all PFAM domains
1a: PFAM_Glyco_transf_41_3pe4C01 (C:546-1014)
1b: PFAM_Glyco_transf_41_3pe4C02 (C:546-1014)
2a: PFAM_TPR_1_3pe4C03 (C:419-452)
2b: PFAM_TPR_1_3pe4C04 (C:419-452)
2c: PFAM_TPR_1_3pe4C05 (C:419-452)
2d: PFAM_TPR_1_3pe4C06 (C:419-452)
2e: PFAM_TPR_1_3pe4C07 (C:419-452)
2f: PFAM_TPR_1_3pe4C08 (C:419-452)
2g: PFAM_TPR_1_3pe4C09 (C:419-452)
2h: PFAM_TPR_1_3pe4C10 (C:419-452)
2i: PFAM_TPR_1_3pe4C11 (C:419-452)
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Clans
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(
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Organisms
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(
)
Clan
:
GT-B
(132)
Family
:
Glyco_transf_41
(5)
Homo sapiens (Human)
(2)
1a
Glyco_transf_41-3pe4C01
C:546-1014
1b
Glyco_transf_41-3pe4C02
C:546-1014
Clan
:
TPR
(230)
Family
:
TPR_1
(18)
Homo sapiens (Human)
(11)
2a
TPR_1-3pe4C03
C:419-452
2b
TPR_1-3pe4C04
C:419-452
2c
TPR_1-3pe4C05
C:419-452
2d
TPR_1-3pe4C06
C:419-452
2e
TPR_1-3pe4C07
C:419-452
2f
TPR_1-3pe4C08
C:419-452
2g
TPR_1-3pe4C09
C:419-452
2h
TPR_1-3pe4C10
C:419-452
2i
TPR_1-3pe4C11
C:419-452
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Asym.Unit (479 KB)
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