2W97: EIF4E

Crystal Structure of eIF4E Bound to Glycerol and eIF4G1 peptide. Determined by X-ray diffraction at 2.29 Å resolution. Released 31 Mar 2010.

Method: X-ray diffraction
Resolution: 2.29 Å
Organism: HOMO SAPIENS
Chains: 4
Atoms: 3,483
Mol. weight: 55.23 kDa
Ligands: MGO
Released: 31 Mar 2010

Explore 2W97 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2W97 contains 23 α-helices and 16 β-strands across 4 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 11 helices, 8 β-strands

Element	Residues	Length	Sheet
β-strand	38-48	11	1
α-helix	57-59	3
β-strand	60-68	9	1
α-helix	69-78	10
α-helix	82-84	3
α-helix	86	1
β-strand	90-95	6	1
β-strand	111-116	6	1
α-helix	119-121	3
α-helix	122-126	5
α-helix	127-138	12
α-helix	143-148	6
β-strand	149-155	7	1
β-strand	162-167	6	1
α-helix	173-187	15
β-strand	196-199	4	1
α-helix	200-204	5
α-helix	212-213	2
β-strand	215-216	2	1

Chain B: 10 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	31-33	3
β-strand	38-49	12	2
β-strand	60-68	9	2
α-helix	69-78	10
α-helix	82-84	3
α-helix	86	1
β-strand	89-95	7	2
β-strand	111-116	6	2
α-helix	119-121	3
α-helix	122-126	5
α-helix	127-138	12
α-helix	143-148	6
β-strand	149-155	7	2
β-strand	162-167	6	2
α-helix	173-186	14
β-strand	196-199	4	2
α-helix	200-205	6
β-strand	215-216	2	2

Chain E: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	626-631	6

Chain F: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	626-630	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Eukaryotic translation initiation factor 4E	A	protein	217	HOMO SAPIENS	P06730 (AlphaFold model)
Eukaryotic translation initiation factor 4E	B	protein	217	HOMO SAPIENS	P06730 (AlphaFold model)
Eukaryotic translation initiation factor 4 gamma 1	E, F	protein	14	HOMO SAPIENS	Q04637 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2W97_1 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E (chains A)
MATVEPETTPTPNPPTTEEEKTESNQEVANPEHYIKHPLQNRWALWFFKNDKSKTWQANL
RLISKFDTVEDFWALYNHIQLSSNLMPGCDYSLFKDGIEPMWEDEKNKRGGRWLITLNKQ
QRRSDLDRFWLETLLCLIGESFDDYSDDVCGAVVNVRAKGDKIAIWTTECENREAVTHIG
RVYKERLGLPPKIVIGYQSHADTATKSGSTTKNRFVV

Sequence of entity 2 (B), FASTA

>2W97_2 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E (chains B)
MATVEPETTPTPNPPTTEEEKTESNQEVANPEHYIKHPLQNRWALWFFKKDKSKTWQANL
RLISKFDTVEDFWALYNHIQLSSNLMPGCDYSLFKDGIEPMWEDEKNKRGGRWLITLNKQ
QRRSDLDRFWLETLLCLIGESFDDYSDDVCGAVVNVRAKGDKIAIWTTECENREAVTHIG
RVYKERLGLPPKIVIGYQSHADTATKSGSTTKNRFVV

Sequence of entity 3 (E, F), FASTA

>2W97_3 EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA 1 (chains E, F)
KKRYDREFLLGFQF

Ligands and cofactors

ID	Name	Formula	Copies
MGO	[[(2R,3S,4R,5R)-5-(6-amino-3-methyl-4-oxo-5H-IMIDAZO[4,5-c]pyridin-1-yl)-3,4-di…	C12 H20 N4 O14 P3	1

Water and common crystallization additives (GOL, SO4, PGE) are not listed.

Primary citation

Crystallization of eIF4E complexed with eIF4GI peptide and glycerol reveals distinct structural differences around the cap-binding site. Brown, C.J., Verma, C.S., Walkinshaw, M.D. et al. Cell Cycle (2009) 8:1905-1911. DOI 10.4161/cc.8.12.8742 · PubMed

Other PDB entries of the same protein (UniProt P06730 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4TPW 1.5 Å, The co-complex structure of the translation initiation factor eIF4E with the inhibitor…
5T46 1.53 Å, Crystal structure of the human eIF4E-eIF4G complex
8QM8 1.58 Å, Potential drug binding sites for translation initiation factor eIF4E
4TQB 1.59 Å, The co-complex structure of the translation initiation factor eIF4E with the inhibitor…
5ZJY 1.59 Å, Stapled-peptides tailored against initiation of translation
7D6Y 1.67 Å, eIF4E in Complex with a Disulphide-Free Autonomous VH Domain
5ZJZ 1.67 Å, Stapled-peptides tailored against initiation of translation
5EI3 1.71 Å, Co-crystal structure of eIF4E with nucleotide mimetic inhibitor.
4UED 1.75 Å, Complex of human eIF4E with the 4E binding protein 4E-BP1
5ZK9 1.76 Å, Stapled-peptides tailored against initiation of translation
4TQC 1.8 Å, The co-complex structure of the translation initiation factor eIF4E with the inhibitor…
5ZML 1.8 Å, Stapled-peptides tailored against initiation of translation

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