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2E9X
Asym. Unit
Info
Asym.Unit (247 KB)
Biol.Unit 1 (123 KB)
Biol.Unit 2 (124 KB)
Biol.Unit 3 (242 KB)
Biol.Unit 4 (242 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF HUMAN GINS CORE COMPLEX
Authors
:
K. Kamada, F. Hanaoka
Date
:
27 Jan 07 (Deposition) - 10 Apr 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: A,B,C,D,E,F,G,H (1x)
Biol. Unit 4: A,B,C,D,E,F,G,H (1x)
Keywords
:
Gins Complex, Eukaryotic Dna Replication
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Kamada, Y. Kubota, T. Arata, Y. Shindo, F. Hanaoka
Structure Of The Human Gins Complex And Its Assembly And Functional Interface In Replication Initiation
Nat. Struct. Mol. Biol. V. 14 388 2007
(for further references see the
PDB file header
)
[
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]
Hetero Components
(1, 6)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
6
Ligand/Ion
SULFATE ION
[
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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
ASP A:139 , MET A:140 , LYS A:141 , HOH A:1038
BINDING SITE FOR RESIDUE SO4 A 1001
2
AC2
SOFTWARE
ARG A:91 , GLY A:95 , SER A:96 , HOH A:1013 , HOH A:1014
BINDING SITE FOR RESIDUE SO4 A 1002
3
AC3
SOFTWARE
PRO A:99 , ASN A:100 , HOH A:1025 , ARG B:137 , ASP F:133 , ARG F:137 , HOH F:1013
BINDING SITE FOR RESIDUE SO4 A 1003
4
AC4
SOFTWARE
ARG H:174 , ARG H:176
BINDING SITE FOR RESIDUE SO4 H 1004
5
AC5
SOFTWARE
LYS C:1090 , TRP C:1096 , ARG F:75 , ARG F:79
BINDING SITE FOR RESIDUE SO4 F 1005
6
AC6
SOFTWARE
ASP E:139 , MET E:140 , LYS E:141 , HOH E:1030
BINDING SITE FOR RESIDUE SO4 E 1006
[
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]
SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_051606 (V97I, chain A/E, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051606
V
97
I
PSF1_HUMAN
Polymorphism
6076347
A/E
V
97
I
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
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Exons
(20, 40)
Info
All Exons
Exon 1.1 (B:1-30 | F:1-30)
Exon 1.2 (B:31-69 | F:31-69)
Exon 1.3 (B:69-102 | F:69-102)
Exon 1.4 (B:102-144 | F:102-144)
Exon 1.5 (B:145-175 | F:145-175)
Exon 2.1b (A:1-25 | E:1-25)
Exon 2.3b (A:26-47 | E:26-47)
Exon 2.4a (A:47-80 | E:47-80)
Exon 2.5 (A:80-110 | E:80-110)
Exon 2.7 (A:111-144 | E:111-144)
Exon 3.1h (D:21-32 | H:21-32)
Exon 3.2b (D:33-61 | H:33-61)
Exon 3.3a (D:62-99 (gaps) | H:62-99 (gaps))
Exon 3.4 (D:100-132 | H:100-132)
Exon 3.5 (D:132-162 | H:132-162)
Exon 3.6b (D:162-192 | H:162-192)
Exon 3.6h (D:192-223 | H:192-223)
Exon 4.1b (C:1001-1062 (gaps) | G:1-62 (gaps))
Exon 4.3 (C:1063-1140 | G:63-140)
Exon 4.4b (C:1141-1192 | G:141-192)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/-
07: Boundary -/2.1b
08: Boundary 2.1b/2.3b
09: Boundary 2.3b/2.4a
10: Boundary 2.4a/2.5
11: Boundary 2.5/2.7
12: Boundary 2.7/2.8
13: Boundary 3.1a/3.1h
14: Boundary 3.1h/3.2b
15: Boundary 3.2b/3.3a
16: Boundary 3.3a/3.4
17: Boundary 3.4/3.5
18: Boundary 3.5/3.6b
19: Boundary 3.6b/3.6h
20: Boundary 3.6h/-
21: Boundary -/4.1b
22: Boundary 4.1b/4.3
23: Boundary 4.3/4.4b
24: Boundary 4.4b/-
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
ENST00000253462
1
ENSE00001303150
chr16:
85722605-85722415
191
PSF2_HUMAN
1-30
30
2
B:1-30
F:1-30
30
30
1.2
ENST00000253462
2
ENSE00000945757
chr16:
85721180-85721066
115
PSF2_HUMAN
31-69
39
2
B:31-69
F:31-69
39
39
1.3
ENST00000253462
3
ENSE00000945758
chr16:
85715287-85715188
100
PSF2_HUMAN
69-102
34
2
B:69-102
F:69-102
34
34
1.4
ENST00000253462
4
ENSE00000897887
chr16:
85712272-85712146
127
PSF2_HUMAN
102-144
43
2
B:102-144
F:102-144
43
43
1.5
ENST00000253462
5
ENSE00001305255
chr16:
85711943-85709804
2140
PSF2_HUMAN
145-185
41
2
B:145-175
F:145-175
31
31
2.1b
ENST00000262460
1b
ENSE00001825970
chr20:
25388363-25388531
169
PSF1_HUMAN
1-25
25
2
A:1-25
E:1-25
25
25
2.3b
ENST00000262460
3b
ENSE00000661036
chr20:
25394426-25394490
65
PSF1_HUMAN
26-47
22
2
A:26-47
E:26-47
22
22
2.4a
ENST00000262460
4a
ENSE00000661037
chr20:
25397740-25397838
99
PSF1_HUMAN
47-80
34
2
A:47-80
E:47-80
34
34
2.5
ENST00000262460
5
ENSE00000661038
chr20:
25398741-25398831
91
PSF1_HUMAN
80-110
31
2
A:80-110
E:80-110
31
31
2.7
ENST00000262460
7
ENSE00001597298
chr20:
25405847-25405963
117
PSF1_HUMAN
111-149
39
2
A:111-144
E:111-144
34
34
2.8
ENST00000262460
8
ENSE00001798595
chr20:
25422338-25422412
75
PSF1_HUMAN
150-174
25
0
-
-
2.10b
ENST00000262460
10b
ENSE00001660487
chr20:
25426559-25429191
2633
PSF1_HUMAN
175-196
22
0
-
-
3.1a
ENST00000276533
1a
ENSE00001746541
chr8:
41386725-41386915
191
SLD5_HUMAN
-
0
0
-
-
3.1h
ENST00000276533
1h
ENSE00002164027
chr8:
41387703-41387817
115
SLD5_HUMAN
1-32
32
2
D:21-32
H:21-32
12
12
3.2b
ENST00000276533
2b
ENSE00001790337
chr8:
41393879-41393965
87
SLD5_HUMAN
33-61
29
2
D:33-61
H:33-61
29
29
3.3a
ENST00000276533
3a
ENSE00001683597
chr8:
41394699-41394812
114
SLD5_HUMAN
62-99
38
2
D:62-99 (gaps)
H:62-99 (gaps)
38
38
3.4
ENST00000276533
4
ENSE00001128877
chr8:
41397197-41397294
98
SLD5_HUMAN
100-132
33
2
D:100-132
H:100-132
33
33
3.5
ENST00000276533
5
ENSE00000980549
chr8:
41397435-41397523
89
SLD5_HUMAN
132-162
31
2
D:132-162
H:132-162
31
31
3.6b
ENST00000276533
6b
ENSE00000980550
chr8:
41399328-41399418
91
SLD5_HUMAN
162-192
31
2
D:162-192
H:162-192
31
31
3.6h
ENST00000276533
6h
ENSE00001253142
chr8:
41399510-41402565
3056
SLD5_HUMAN
192-223
32
2
D:192-223
H:192-223
32
32
4.1b
ENST00000318129
1b
ENSE00001827766
chr16:
58426325-58426691
367
PSF3_HUMAN
1-62
62
2
C:1001-1062 (gaps)
G:1-62 (gaps)
62
62
4.3
ENST00000318129
3
ENSE00001218868
chr16:
58437002-58437235
234
PSF3_HUMAN
63-140
78
2
C:1063-1140
G:63-140
78
78
4.4b
ENST00000318129
4b
ENSE00001829311
chr16:
58438403-58440048
1646
PSF3_HUMAN
141-216
76
2
C:1141-1192
G:141-192
52
52
[
close EXON info
]
SCOP Domains
(7, 14)
Info
All SCOP Domains
1a: SCOP_d2e9xa1 (A:1-144)
1b: SCOP_d2e9xe_ (E:)
2a: SCOP_d2e9xb1 (B:62-175)
2b: SCOP_d2e9xf1 (F:62-175)
3a: SCOP_d2e9xc1 (C:1088-1192)
3b: SCOP_d2e9xg1 (G:88-192)
4a: SCOP_d2e9xd1 (D:21-165)
4b: SCOP_d2e9xh1 (H:21-165)
5a: SCOP_d2e9xb2 (B:1-61)
5b: SCOP_d2e9xf2 (F:1-61)
6a: SCOP_d2e9xc2 (C:1001-1087)
6b: SCOP_d2e9xg2 (G:1-87)
7a: SCOP_d2e9xd2 (D:166-223)
7b: SCOP_d2e9xh2 (H:166-223)
View:
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Classes
(
)
(
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Folds
(
)
(
)
Superfamilies
(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
GINS helical bundle-like
(13)
Superfamily
:
GINS helical bundle-like
(13)
Family
:
PSF1 N-terminal domain-like
(3)
Protein domain
:
DNA replication complex GINS protein PSF1
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2e9xa1
A:1-144
1b
d2e9xe_
E:
Family
:
PSF2 C-terminal domain-like
(3)
Protein domain
:
DNA replication complex GINS protein PSF2
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d2e9xb1
B:62-175
2b
d2e9xf1
F:62-175
Family
:
PSF3 C-terminal domain-like
(3)
Protein domain
:
GINS complex subunit 3, PSF3
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
3a
d2e9xc1
C:1088-1192
3b
d2e9xg1
G:88-192
Family
:
SLD5 N-terminal domain-like
(4)
Protein domain
:
GINS complex subunit 4, SLD5
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
4a
d2e9xd1
D:21-165
4b
d2e9xh1
H:21-165
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
GINS/PriA/YqbF domain
(11)
Superfamily
:
PriA/YqbF domain
(11)
Family
:
automated matches
(3)
Protein domain
:
automated matches
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
5a
d2e9xb2
B:1-61
5b
d2e9xf2
F:1-61
Family
:
PSF3 N-terminal domain-like
(3)
Protein domain
:
GINS complex subunit 3, PSF3
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
6a
d2e9xc2
C:1001-1087
6b
d2e9xg2
G:1-87
Family
:
SLD5 C-terminal domain-like
(2)
Protein domain
:
GINS complex subunit 4, SLD5
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
7a
d2e9xd2
D:166-223
7b
d2e9xh2
H:166-223
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asym.Unit (247 KB)
Header - Asym.Unit
Biol.Unit 1 (123 KB)
Header - Biol.Unit 1
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