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2ZIS:
Crystal Structure of rat protein farnesyltransferase complexed with a bezoruran inhibitor and FPP
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PDB ID:
2ZIS
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MMDB ID:
69787
PDB Deposition Date:
2008/2/22
Updated in MMDB:
2023/11
Experimental Method:
x-ray diffraction
Resolution:
2.6 Å
Source Organism:
Rattus norvegicus
Similar Structures:
VAST+
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Biological Unit
Asymmetric Unit
Biological Unit for 2ZIS: dimeric; determined by author and by software (PISA)
Molecular Graphic
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Interactions
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A
A: Protein farnesyltransferase subunit alpha
B
B: Protein farnesyltransferase subunit beta
1
ACY: ACETIC ACID
2
ZN: ZINC ION
3
FPP: FARNESYL DIPHOSPHATE
4
NH8: 3-{2-[(S)-(4-cyanophenyl)(hydroxy)(1-methyl-1H-imidazol-5-yl)methyl]-5-nitro-1-benzofuran-7-yl}benzonitrile
1
ACY: ACETIC ACID
5
GOL: GLYCEROL
5
GOL: GLYCEROL
5
GOL: GLYCEROL
6
6:
6
6:
6
6:
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Format:
ASN.1 (Cn3D)
PDB
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Data Set:
alpha-Carbons
Single 3D structure
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Molecular Components in 2ZIS
Label
Count
Molecule
Proteins (2 molecules)
A
1
Protein Farnesyltransferase Subunit Alpha
(Gene symbol:
Fnta
)
1 Protein
SS Diagram
3D Domains
Domain Families
Super Families
1
100
200
300
377
377 residues, click to see VAST similar structures.
helix 94-109
helix 114-126
helix 131-144
helix 148-161
helix 167-179
helix 185-195
helix 200-213
helix 219-229
helix 234-247
helix 253-269
helix 275-284
helix 309-325
helix 330-346
helix 353-366
Domain 1 (1-146): click to see VAST similar structures
1
Domain 2 (147-216): click to see VAST similar structures
2
Domain 3 (217-296): click to see VAST similar structures
3
Domain 4 (297-377): click to see VAST similar structures
4
PLN02789 superfamily
cl33568(64-365): farnesyltranstransferase
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B
1
Protein Farnesyltransferase Subunit Beta
(Gene symbol:
Fntb
)
1 Protein
SS Diagram
3D Domains
Features
Domain Families
Specific Hits
Super Families
1
100
200
300
400
440
440 residues, click to see VAST similar structures.
helix 46-63
helix 78-90
helix 103-117
helix 123-136
helix 153-166
helix 177-186
helix 205-217
helix 252-265
helix 273-282
helix 311-321
helix 335-344
helix 363-376
helix 408-418
strand 187-190
strand 192-195
strand 235-238
strand 240-243
strand 346-349
strand 351-354
strand 377-382
strand 383-388
Domain 1 (71-171): click to see VAST similar structures
1
Domain 2 (172-328): click to see VAST similar structures
2
Domain 1 (329-398): click to see VAST similar structures
1
Domain 2 (399-440): click to see VAST similar structures
2
active site cavity
active site(23)
location: 98, residue: C
location: 101, residue: A
location: 102, residue: S
location: 105, residue: W
location: 109, residue: W
location: 152, residue: H
location: 154, residue: A
location: 155, residue: P
location: 157, residue: Y
location: 158, residue: A
location: 205, residue: R
location: 208, residue: Y
location: 209, residue: C
location: 251, residue: H
location: 253, residue: G
location: 257, residue: C
location: 300, residue: D
location: 302, residue: C
location: 303, residue: Y
location: 306, residue: W
location: 355, residue: D
location: 364, residue: Y
location: 365, residue: H
Zn2+ binding site
Zn2+ binding site(3)
location: 300, residue: D
location: 302, residue: C
location: 365, residue: H
lipid binding pocket
lipid binding(12)
location: 105, residue: W
location: 108, residue: Y
location: 205, residue: R
location: 208, residue: Y
location: 251, residue: H
location: 253, residue: G
location: 257, residue: C
location: 294, residue: R
location: 297, residue: K
location: 303, residue: Y
location: 306, residue: W
location: 364, residue: Y
peptide binding pocket
peptide(8)
location: 101, residue: A
location: 102, residue: S
location: 105, residue: W
location: 154, residue: A
location: 155, residue: P
location: 205, residue: R
location: 300, residue: D
location: 355, residue: D
heterodimer interface
heterodimer interface(12)
location: 200, residue: G
location: 238, residue: W
location: 248, residue: M
location: 249, residue: E
location: 254, residue: Y
location: 278, residue: Q
location: 281, residue: T
location: 283, residue: R
location: 284, residue: Q
location: 294, residue: R
location: 295, residue: C
location: 296, residue: N
FTase
cd02893 (78-376): Protein farnesyltransferase (FTase)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)
ISOPREN_C2_like superfamily
cl08267(78-376): This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2...
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Chemicals and Non-standard biopolymers (11 molecules)
1
2
ACETIC ACID
2
1
ZINC ION
3
1
FARNESYL DIPHOSPHATE
4
1
3-{2-[(S)-(4-cyanophenyl)(hydroxy)(1-methyl-1H-imidazol-5-yl)methyl]-5-nitro-1-benzofuran-7-yl}benzonitrile
5
3
GLYCEROL
6
3
Molecule information is not available.
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Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH.
"
MMDB and VAST+: tracking structural similarities between macromolecular complexes.
Nucleic Acids Res. 2014 Jan; 42(Database issue)
:D297-303
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