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3MJH
Asym. Unit
Info
Asym.Unit (77 KB)
Biol.Unit 1 (38 KB)
Biol.Unit 2 (37 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN RAB5A IN COMPLEX WITH THE C2H2 ZINC FINGER OF EEA1
Authors
:
A. K. Mishra, S. Eathiraj, D. G. Lambright
Date
:
12 Apr 10 (Deposition) - 05 May 10 (Release) - 14 Jul 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.03
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Protein-Zinc Finger Complex, Beta Beta Alpha Fold, Beta Hairpin, Rab5A Gtpase, Eea1, Protein Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Mishra, S. Eathiraj, S. Corvera, D. G. Lambright
Structural Basis For Rab Gtpase Recognition And Endosome Tethering By The C2H2 Zinc Finger Of Early Endosomal Autoantigen 1 (Eea1).
Proc. Natl. Acad. Sci. Usa V. 107 10866 2010
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
1b: GUANOSINE-5'-TRIPHOSPHATE (GTPb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GTP
2
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
2
MG
2
Ligand/Ion
MAGNESIUM ION
3
ZN
2
Ligand/Ion
ZINC 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
HOH A:6 , SER A:29 , ALA A:30 , VAL A:31 , GLY A:32 , LYS A:33 , SER A:34 , SER A:35 , PHE A:45 , HIS A:46 , GLU A:47 , GLN A:49 , SER A:51 , THR A:52 , GLY A:78 , ASN A:133 , LYS A:134 , ASP A:136 , SER A:163 , ALA A:164 , LYS A:165 , HOH A:196 , MG A:201 , HOH A:259 , HOH A:302 , HOH A:306
BINDING SITE FOR RESIDUE GTP A 200
2
AC2
SOFTWARE
SER A:34 , THR A:52 , GTP A:200 , HOH A:302 , HOH A:306
BINDING SITE FOR RESIDUE MG A 201
3
AC3
SOFTWARE
CYS B:43 , CYS B:46 , HIS B:59 , HIS B:64
BINDING SITE FOR RESIDUE ZN B 70
4
AC4
SOFTWARE
HOH C:12 , SER C:29 , ALA C:30 , VAL C:31 , GLY C:32 , LYS C:33 , SER C:34 , SER C:35 , PHE C:45 , HIS C:46 , GLU C:47 , GLN C:49 , THR C:52 , GLY C:78 , ASN C:133 , LYS C:134 , ASP C:136 , LEU C:137 , SER C:163 , ALA C:164 , LYS C:165 , HOH C:193 , MG C:201 , HOH C:272 , HOH C:274 , HOH C:306
BINDING SITE FOR RESIDUE GTP C 200
5
AC5
SOFTWARE
SER C:34 , THR C:52 , GTP C:200 , HOH C:272 , HOH C:274
BINDING SITE FOR RESIDUE MG C 201
6
AC6
SOFTWARE
CYS D:43 , CYS D:46 , HIS D:59 , HIS D:64
BINDING SITE FOR RESIDUE ZN D 70
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ZINC_FINGER_C2H2_1 (B:43-64,D:43-64)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZINC_FINGER_C2H2_1
PS00028
Zinc finger C2H2 type domain signature.
EEA1_HUMAN
43-64
2
B:43-64
D:43-64
[
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]
Exons
(7, 14)
Info
All Exons
Exon 1.2b (A:16-55 | C:17-55)
Exon 1.4c (A:55-105 | C:55-105)
Exon 1.5b (A:106-146 | C:106-146)
Exon 1.6a (A:147-178 | C:147-178)
Exon 1.7e (A:178-183 | C:178-183)
Exon 2.3 (B:36-39 | D:37-39)
Exon 2.4 (B:40-69 | D:40-69)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1a/1.2b
2: Boundary 1.2b/1.4c
3: Boundary 1.4c/1.5b
4: Boundary 1.5b/1.6a
5: Boundary 1.6a/1.7e
6: Boundary 1.7e/-
7: Boundary 2.1/2.3
8: Boundary 2.3/2.4
9: Boundary 2.4/2.5
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
1.1a
ENST00000273047
1a
ENSE00001769725
chr3:
19988571-19989013
443
RAB5A_HUMAN
-
0
0
-
-
1.2b
ENST00000273047
2b
ENSE00001162720
chr3:
19992298-19992553
256
RAB5A_HUMAN
1-55
55
2
A:16-55
C:17-55
40
39
1.4c
ENST00000273047
4c
ENSE00001691424
chr3:
20017093-20017244
152
RAB5A_HUMAN
55-105
51
2
A:55-105
C:55-105
51
51
1.5b
ENST00000273047
5b
ENSE00001783762
chr3:
20017539-20017661
123
RAB5A_HUMAN
106-146
41
2
A:106-146
C:106-146
41
41
1.6a
ENST00000273047
6a
ENSE00001688303
chr3:
20019802-20019895
94
RAB5A_HUMAN
147-178
32
2
A:147-178
C:147-178
32
32
1.7e
ENST00000273047
7e
ENSE00001368096
chr3:
20025200-20026667
1468
RAB5A_HUMAN
178-215
38
2
A:178-183
C:178-183
6
6
2.1
ENST00000322349
1
ENSE00001477661
chr12:
93323107-93322819
289
EEA1_HUMAN
1-8
8
0
-
-
2.3
ENST00000322349
3
ENSE00001282982
chr12:
93285497-93285405
93
EEA1_HUMAN
9-39
31
2
B:36-39
D:37-39
4
3
2.4
ENST00000322349
4
ENSE00000676847
chr12:
93258763-93258636
128
EEA1_HUMAN
40-82
43
2
B:40-69
D:40-69
30
30
2.5
ENST00000322349
5
ENSE00000676849
chr12:
93251261-93251207
55
EEA1_HUMAN
82-100
19
0
-
-
2.6
ENST00000322349
6
ENSE00000676865
chr12:
93251116-93251051
66
EEA1_HUMAN
101-122
22
0
-
-
2.7
ENST00000322349
7
ENSE00000676885
chr12:
93247730-93247691
40
EEA1_HUMAN
123-136
14
0
-
-
2.8
ENST00000322349
8
ENSE00000676904
chr12:
93246801-93246688
114
EEA1_HUMAN
136-174
39
0
-
-
2.9
ENST00000322349
9
ENSE00000676922
chr12:
93246072-93245951
122
EEA1_HUMAN
174-214
41
0
-
-
2.10
ENST00000322349
10
ENSE00000676940
chr12:
93245042-93244887
156
EEA1_HUMAN
215-266
52
0
-
-
2.11
ENST00000322349
11
ENSE00000676942
chr12:
93236357-93236241
117
EEA1_HUMAN
267-305
39
0
-
-
2.12
ENST00000322349
12
ENSE00000921615
chr12:
93226626-93226288
339
EEA1_HUMAN
306-418
113
0
-
-
2.13
ENST00000322349
13
ENSE00000676944
chr12:
93221837-93221688
150
EEA1_HUMAN
419-468
50
0
-
-
2.14
ENST00000322349
14
ENSE00000676945
chr12:
93220061-93219942
120
EEA1_HUMAN
469-508
40
0
-
-
2.15
ENST00000322349
15
ENSE00000921614
chr12:
93213287-93213084
204
EEA1_HUMAN
509-576
68
0
-
-
2.16
ENST00000322349
16
ENSE00000921613
chr12:
93210176-93209976
201
EEA1_HUMAN
577-643
67
0
-
-
2.17
ENST00000322349
17
ENSE00000921612
chr12:
93206869-93206756
114
EEA1_HUMAN
644-681
38
0
-
-
2.18
ENST00000322349
18
ENSE00000921611
chr12:
93205210-93205055
156
EEA1_HUMAN
682-733
52
0
-
-
2.19
ENST00000322349
19
ENSE00000921610
chr12:
93202932-93202793
140
EEA1_HUMAN
734-780
47
0
-
-
2.20
ENST00000322349
20
ENSE00000921609
chr12:
93196510-93196180
331
EEA1_HUMAN
780-890
111
0
-
-
2.21
ENST00000322349
21
ENSE00000921608
chr12:
93195477-93195376
102
EEA1_HUMAN
891-924
34
0
-
-
2.22
ENST00000322349
22
ENSE00000921607
chr12:
93192862-93192668
195
EEA1_HUMAN
925-989
65
0
-
-
2.23
ENST00000322349
23
ENSE00000921606
chr12:
93181825-93181643
183
EEA1_HUMAN
990-1050
61
0
-
-
2.24
ENST00000322349
24
ENSE00000921605
chr12:
93175911-93175726
186
EEA1_HUMAN
1051-1112
62
0
-
-
2.25
ENST00000322349
25
ENSE00000921604
chr12:
93174187-93174056
132
EEA1_HUMAN
1113-1156
44
0
-
-
2.26
ENST00000322349
26
ENSE00000921603
chr12:
93173076-93172891
186
EEA1_HUMAN
1157-1218
62
0
-
-
2.27
ENST00000322349
27
ENSE00000921602
chr12:
93171955-93171717
239
EEA1_HUMAN
1219-1298
80
0
-
-
2.28
ENST00000322349
28
ENSE00000921601
chr12:
93171439-93171319
121
EEA1_HUMAN
1298-1338
41
0
-
-
2.29
ENST00000322349
29
ENSE00000921600
chr12:
93170718-93170620
99
EEA1_HUMAN
1339-1371
33
0
-
-
2.30b
ENST00000322349
30b
ENSE00001198267
chr12:
93169909-93166286
3624
EEA1_HUMAN
1372-1411
40
0
-
-
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3mjha_ (A:)
1b: SCOP_d3mjhc_ (C:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
Rab5a
(12)
Human (Homo sapiens) [TaxId: 9606]
(12)
1a
d3mjha_
A:
1b
d3mjhc_
C:
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Ras_3mjhC01 (C:22-183)
1b: PFAM_Ras_3mjhC02 (C:22-183)
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(
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Organisms
(
)
(
)
Clan
:
P-loop_NTPase
(1112)
Family
:
Ras
(176)
Homo sapiens (Human)
(141)
1a
Ras-3mjhC01
C:22-183
1b
Ras-3mjhC02
C:22-183
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