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2ZJS
Asym. Unit
Info
Asym.Unit (146 KB)
Biol.Unit 1 (75 KB)
Biol.Unit 2 (69 KB)
Biol.Unit 3 (139 KB)
Biol.Unit 4 (145 KB)
Biol.Unit 5 (134 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SECYE TRANSLOCON FROM THERMUS THERMOPHILUS WITH A FAB FRAGMENT
Authors
:
T. Tsukazaki, H. Mori, S. Fukai, R. Ishitani, A. Perederina, D. G. Vassy K. Ito, O. Nureki
Date
:
08 Mar 08 (Deposition) - 14 Oct 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : E,H,L,Y
Biol. Unit 1: E,Y (1x)
Biol. Unit 2: H,L (1x)
Biol. Unit 3: E,H,L,Y (1x)
Biol. Unit 4: E,Y (2x)
Biol. Unit 5: H,L (2x)
Keywords
:
Translocon, Sec, Protein-Conducting-Channel, Membrane, Protein Transport, Translocation, Transmembrane, Transport, Protein Transport-Immune System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Tsukazaki, H. Mori, S. Fukai, R. Ishitani, T. Mori, N. Dohmae, A. Perederina, Y. Sugita, D. G. Vassylyev, K. Ito, O. Nureki
Conformational Transition Of Sec Machinery Inferred From Bacterial Secye Structures
Nature V. 455 988 2008
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: ZINC ION (ZNa)
1b: ZINC ION (ZNb)
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No.
Name
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Type
Full Name
1
ZN
2
Ligand/Ion
ZINC ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS H:43 , GLU L:185 , HIS L:189
BINDING SITE FOR RESIDUE ZN L 223
2
AC2
SOFTWARE
GLU Y:138 , ASP Y:293
BINDING SITE FOR RESIDUE ZN Y 435
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (L:192-198)
2: SECY_2 (Y:170-187)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
IGKC_MOUSE
84-90
1
L:192-198
2
SECY_2
PS00756
Protein secY signature 2.
SECY_THET8
170-187
1
Y:170-187
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2zjsh1 (H:120-220)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Mouse (Mus musculus) [TaxId: 10090]
(414)
1a
d2zjsh1
H:120-220
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_2zjsY00 (Y:1-422)
2a: CATH_2zjsE00 (E:12-57)
3a: CATH_2zjsL02 (L:108-211)
3b: CATH_2zjsH01 (H:1-119)
3c: CATH_2zjsL01 (L:1-107)
3d: CATH_2zjsH02 (H:120-218)
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)
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Preprotein translocase SecY subunit
(5)
Homologous Superfamily
:
Preprotein translocase SecY subunit domain
(5)
Thermus thermophilus. Organism_taxid: 274.
(1)
1a
2zjsY00
Y:1-422
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
Preprotein translocase secy subunit
(1)
Thermus thermophilus. Organism_taxid: 274.
(1)
2a
2zjsE00
E:12-57
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Thermus thermophilus. Organism_taxid: 274.
(1)
3a
2zjsL02
L:108-211
3b
2zjsH01
H:1-119
3c
2zjsL01
L:1-107
3d
2zjsH02
H:120-218
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Pfam Domains
(1, 1)
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all PFAM domains
1a: PFAM_SecE_2zjsE01 (E:12-57)
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Clan
:
no clan defined [family: SecE]
(3)
Family
:
SecE
(3)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
1a
SecE-2zjsE01
E:12-57
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Asymmetric Unit 1
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Asym.Unit (146 KB)
Header - Asym.Unit
Biol.Unit 1 (75 KB)
Header - Biol.Unit 1
Biol.Unit 2 (69 KB)
Header - Biol.Unit 2
Biol.Unit 3 (139 KB)
Header - Biol.Unit 3
Biol.Unit 4 (145 KB)
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Biol.Unit 5 (134 KB)
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