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2ZCB
Asym. Unit
Info
Asym.Unit (46 KB)
Biol.Unit 1 (15 KB)
Biol.Unit 2 (15 KB)
Biol.Unit 3 (15 KB)
Biol.Unit 4 (42 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF UBIQUITIN P37A/P38A
Authors
:
R. Kitahara, T. Tanaka, E. Sakata, Y. Yamaguchi, K. Kato, S. Yokoyama
Date
:
08 Nov 07 (Deposition) - 20 Nov 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: A,B,C (1x)
Keywords
:
Ub-Fold, Cytoplasm, Nucleus, Phosphorylation, Ubl Conjugation, Signaling Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Kitahara, T. Tanaka, E. Sakata, Y. Yamaguchi, S. Yokoyama, K. Kato
Crystal Structure Of Ubiquitin P37A/P38A
To Be Published
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 5)
Info
All Hetero Components
1a: ZINC ION (ZNa)
1b: ZINC ION (ZNb)
1c: ZINC ION (ZNc)
1d: ZINC ION (ZNd)
1e: ZINC ION (ZNe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
5
Ligand/Ion
ZINC ION
[
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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
HIS A:68 , HOH A:87 , ASP C:39 , HOH C:235
BINDING SITE FOR RESIDUE ZN A 77
2
AC2
SOFTWARE
HIS B:68 , HOH B:161 , HOH B:227 , HOH B:242 , HIS C:68
BINDING SITE FOR RESIDUE ZN B 77
3
AC3
SOFTWARE
GLU A:18 , ASP B:21 , HOH B:154 , HOH B:155 , HOH C:147
BINDING SITE FOR RESIDUE ZN A 78
4
AC4
SOFTWARE
ASP A:21 , HOH A:99 , HOH A:114 , HOH A:147 , GLU C:18 , HOH C:153
BINDING SITE FOR RESIDUE ZN A 79
5
AC5
SOFTWARE
GLU B:18 , ASP C:21 , HOH C:151 , HOH C:233
BINDING SITE FOR RESIDUE ZN B 78
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: UBIQUITIN_2 (A:1-74,B:1-73,C:1-72,A:1-74,B:1-73...)
2: UBIQUITIN_1 (A:27-52,B:27-52,C:27-52,A:27-52,B:...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UBIQUITIN_2
PS50053
Ubiquitin domain profile.
RS27A_HUMAN
1-76
3
A:1-74
B:1-73
C:1-72
RL40_HUMAN
1-76
3
A:1-74
B:1-73
C:1-72
UBB_HUMAN
1-76
77-152
153-228
3
-
-
A:1-74
B:1-73
C:1-72
UBC_HUMAN
1-76
77-152
153-228
229-304
305-380
381-456
457-532
533-608
609-684
3
-
-
-
-
-
-
-
-
A:1-74
B:1-73
C:1-72
2
UBIQUITIN_1
PS00299
Ubiquitin domain signature.
RS27A_HUMAN
27-52
3
A:27-52
B:27-52
C:27-52
RL40_HUMAN
27-52
3
A:27-52
B:27-52
C:27-52
UBB_HUMAN
27-52
103-128
179-204
3
-
-
A:27-52
B:27-52
C:27-52
UBC_HUMAN
27-52
103-128
179-204
255-280
331-356
407-432
483-508
559-584
635-660
3
-
-
-
-
-
-
-
-
A:27-52
B:27-52
C:27-52
[
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]
Exons
(1, 3)
Info
All Exons
Exon 1.2 (A:1-74 | B:1-73 | C:1-72)
View:
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All Exon Boundaries
1: Boundary 1.1/1.2
2: Boundary 1.2/-
View:
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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
ENST00000339647
1
ENSE00001257182
chr12:
125399577-125399133
445
UBC_HUMAN
-
0
0
-
-
1.2
ENST00000339647
2
ENSE00001406973
chr12:
125398320-125396194
2127
UBC_HUMAN
1-686
686
3
A:1-74
B:1-73
C:1-72
74
73
72
[
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]
SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d2zcba_ (A:)
1b: SCOP_d2zcbb_ (B:)
1c: SCOP_d2zcbc_ (C:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
Ubiquitin-like
(546)
Family
:
Ubiquitin-related
(337)
Protein domain
:
automated matches
(80)
Human (Homo sapiens) [TaxId: 9606]
(62)
1a
d2zcba_
A:
1b
d2zcbb_
B:
1c
d2zcbc_
C:
[
close SCOP info
]
CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2zcbA00 (A:1-74)
1b: CATH_2zcbB00 (B:1-73)
1c: CATH_2zcbC00 (C:1-72)
View:
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(
)
(
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)
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)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin-like (UB roll)
(674)
Homologous Superfamily
:
Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
(286)
Human (Homo sapiens)
(177)
1a
2zcbA00
A:1-74
1b
2zcbB00
B:1-73
1c
2zcbC00
C:1-72
[
close CATH info
]
Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_ubiquitin_2zcbC01 (C:6-72)
1b: PFAM_ubiquitin_2zcbC02 (C:6-72)
1c: PFAM_ubiquitin_2zcbC03 (C:6-72)
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Clans
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(
)
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)
(
)
Clan
:
Ubiquitin
(279)
Family
:
ubiquitin
(99)
Homo sapiens (Human)
(67)
1a
ubiquitin-2zcbC01
C:6-72
1b
ubiquitin-2zcbC02
C:6-72
1c
ubiquitin-2zcbC03
C:6-72
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Chain C
Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Show PDB file:
Asym.Unit (46 KB)
Header - Asym.Unit
Biol.Unit 1 (15 KB)
Header - Biol.Unit 1
Biol.Unit 2 (15 KB)
Header - Biol.Unit 2
Biol.Unit 3 (15 KB)
Header - Biol.Unit 3
Biol.Unit 4 (42 KB)
Header - Biol.Unit 4
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