- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY 3.50 Å
- Oligo State
- hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-mer
- Ligands
- 117 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
- 5 x ZN: ZINC ION(Non-covalent)
ZN.117: 4 residues within 4Å:- Chain 3: C.23, C.26, C.74, C.77
4 PLIP interactions:4 interactions with chain 3- Metal complexes: 3:C.23, 3:C.26, 3:C.74, 3:C.77
ZN.118: 6 residues within 4Å:- Chain 4: T.55, C.56, C.59, T.61, V.62, L.63
1 PLIP interactions:1 interactions with chain 4- Metal complexes: 4:T.61
ZN.119: 5 residues within 4Å:- Chain 8: C.121, C.124, C.139, K.141, C.142
2 PLIP interactions:2 interactions with chain 8- Metal complexes: 8:C.124, 8:C.139
ZN.123: 5 residues within 4Å:- Chain e: C.236, T.238, C.239, C.259, S.264
1 PLIP interactions:1 interactions with chain e- Metal complexes: e:C.236
ZN.124: 5 residues within 4Å:- Chain f: C.99, S.101, C.121, K.126, T.128
2 PLIP interactions:2 interactions with chain f- Metal complexes: f:K.126, f:T.128
- 1 x MET: METHIONINE(Non-covalent)
- 1 x GCP: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)
GCP.122: 21 residues within 4Å:- Chain d: H.108, V.109, A.110, H.111, G.112, K.113, S.114, T.115, R.127, N.135, I.136, P.195, G.196, N.249, K.250, L.253, A.285, Q.286
- Chain e: T.238, S.264, R.266
19 PLIP interactions:16 interactions with chain d, 3 interactions with chain e- Hydrogen bonds: d:A.110, d:G.112, d:K.113, d:K.113, d:K.113, d:S.114, d:S.114, d:S.114, d:T.115, d:G.196, d:G.196, d:N.249, d:A.285, d:Q.286, e:T.238, e:S.264, e:S.264
- Salt bridges: d:R.127, d:D.252
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Llacer, J.L. et al., Translational initiation factor eIF5 replaces eIF1 on the 40S ribosomal subunit to promote start-codon recognition. Elife (2018)
- Release Date
- 2018-12-05
- Peptides
- 40S ribosomal protein S0: D
40S ribosomal protein S1: E
KLLA0F09812p: F
KLLA0D08305p: G
40S ribosomal protein S4: H
KLLA0D10659p: I
40S ribosomal protein S6: J
40S ribosomal protein S7: K
40S ribosomal protein S8: L
KLLA0E23673p: M
KLLA0B08173p: N
KLLA0A10483p: O
40S ribosomal protein S12: P
KLLA0F18040p: Q
40S ribosomal protein S14: R
KLLA0F07843p: S
40S ribosomal protein S16: T
KLLA0B01474p: U
KLLA0B01562p: V
KLLA0A07194p: W
KLLA0F25542p: X
40S ribosomal protein S21: Y
40S ribosomal protein S22: Z
KLLA0B11231p: 0
40S ribosomal protein S24: 1
KLLA0B06182p: 2
40S ribosomal protein S26: 3
40S ribosomal protein S27: 4
40S ribosomal protein S28: 5
40S ribosomal protein S29: 6
40S ribosomal protein S30: 7
Ubiquitin-40S ribosomal protein S27a: 8
KLLA0E12277p: 9
60S ribosomal protein L41-A: a
Eukaryotic translation initiation factor 1A: b
Eukaryotic translation initiation factor 2 subunit alpha: c
Eukaryotic translation initiation factor 2 subunit gamma: d
Eukaryotic translation initiation factor 2 subunit beta: e
Eukaryotic translation initiation factor 5: f
Eukaryotic translation initiation factor 3 subunit A: g
Eukaryotic translation initiation factor 3 subunit B: h
eIF3c,eIF3c: i
Eukaryotic translation initiation factor 3 subunit G: j
Eukaryotic translation initiation factor 3 subunit I: k - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:D
AE
BF
CG
DH
EI
FJ
GK
HL
IM
JN
KO
LP
MQ
NR
OS
PT
QU
RV
SW
TX
UY
VZ
W0
X1
Y2
Z3
a4
b5
c6
d7
e8
f9
ga
hb
ic
jd
ke
lf
mg
oh
pi
qj
rk
s
SMTL ID : 6fyx.1
Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)
40S ribosomal protein S0
40S ribosomal protein S1
KLLA0F09812p
KLLA0D08305p
40S ribosomal protein S4
KLLA0D10659p
40S ribosomal protein S6
40S ribosomal protein S7
40S ribosomal protein S8
KLLA0E23673p
KLLA0B08173p
KLLA0A10483p
40S ribosomal protein S12
KLLA0F18040p
40S ribosomal protein S14
KLLA0F07843p
40S ribosomal protein S16
KLLA0B01474p
KLLA0B01562p
KLLA0A07194p
KLLA0F25542p
40S ribosomal protein S21
40S ribosomal protein S22
KLLA0B11231p
40S ribosomal protein S24
KLLA0B06182p
40S ribosomal protein S26
40S ribosomal protein S27
40S ribosomal protein S28
40S ribosomal protein S29
40S ribosomal protein S30
Ubiquitin-40S ribosomal protein S27a
KLLA0E12277p
60S ribosomal protein L41-A
Eukaryotic translation initiation factor 1A
Eukaryotic translation initiation factor 2 subunit alpha
Eukaryotic translation initiation factor 2 subunit gamma
Eukaryotic translation initiation factor 2 subunit beta
Eukaryotic translation initiation factor 5
Eukaryotic translation initiation factor 3 subunit A
Eukaryotic translation initiation factor 3 subunit B
eIF3c,eIF3c
Eukaryotic translation initiation factor 3 subunit G
Eukaryotic translation initiation factor 3 subunit I
Related Entries With Identical Sequence
3j6x.40 | 3j6y.40 | 3j77.41 | 3j78.41 | 3j80.1 | 3j81.1 | 3jam.1 | 3jap.1 | 4u1e.1 | 4u3m.73 | 4u3m.149 | 4u3n.73 | 4u3n.149 | 4u3u.73 | 4u3u.149 | 4u4n.73 | 4u4n.149 | 4u4o.73 | 4u4o.149 | 4u4q.73 | 4u4q.149 | 4u4r.73 | 4u4r.149 | 4u4u.73 | 4u4u.149 | 4u4y.73 | 4u4y.149 | 4u4z.73 | 4u4z.149 | 4u50.73 more...less...4u50.148 | 4u51.73 | 4u51.149 | 4u52.73 | 4u52.149 | 4u53.73 | 4u53.149 | 4u55.73 | 4u55.148 | 4u56.73 | 4u56.148 | 4u6f.73 | 4u6f.148 | 4uer.1 | 4v6i.68 | 4v88.73 | 4v88.149 | 4v8t.1 | 4v8y.74 | 4v8z.74 | 4v91.1 | 5a5u.1 | 5dat.73 | 5dat.149 | 5dc3.73 | 5dc3.149 | 5dge.73 | 5dge.149 | 5dgf.73 | 5dgf.149 | 5dgv.73 | 5dgv.149 | 5fci.73 | 5fci.149 | 5fcj.73 | 5fcj.149 | 5gak.1 | 5i4l.73 | 5i4l.149 | 5it7.39 | 5it7.66 | 5it7.68 | 5it7.72 | 5it9.1 | 5juo.41 | 5jup.41 | 5jus.41 | 5jut.41 | 5juu.41 | 5lyb.73 | 5lyb.149 | 5m1j.69 | 5mc6.56 | 5mei.39 | 5mei.81 | 5ndg.73 | 5ndg.148 | 5ndv.39 | 5ndv.113 | 5ndw.121 | 5ndw.122 | 5obm.39 | 5obm.117 | 5on6.39 | 5on6.82 | 5tbw.39 | 5tbw.81 | 5tga.73 | 5tga.149 | 5tgm.73 | 5tgm.149 | 5xyi.1 | 6fyy.1 | 6gq1.41 | 6gqb.41 | 6gqv.41 | 6gsm.1 | 6gsn.1 | 6hd7.1 | 6hhq.39 | 6hhq.81 | 6i3m.1 | 6i7o.72 | 6i7o.147 | 6i7t.1 | 6jly.1 | 6jlz.1 | 6q8y.19 | 6qg0.1 | 6qg1.1 | 6qg2.1 | 6qg3.1 | 6qg5.1 | 6qg6.1 | 6s47.39 | 6snt.72 | 6sv4.72 | 6sv4.147 | 6sv4.222 | 6t4q.71 | 6t7i.72 | 6t7t.72 | 6t83.72 | 6t83.146 | 6tb3.73 | 6tnu.72 | 6uz7.45 | 6uz7.46 | 6uz7.47 | 6uz7.48 | 6uz7.49 | 6uz7.50 | 6uz7.51 | 6uz7.52 | 6uz7.53 | 6uz7.54 | 6uz7.55 | 6uz7.56 | 6uz7.57 | 6uz7.58 | 6uz7.59 | 6uz7.60 | 6uz7.61 | 6uz7.62 | 6uz7.63 | 6uz7.64 | 6uz7.65 | 6uz7.66 | 6uz7.67 | 6uz7.68 | 6uz7.69 | 6uz7.70 | 6uz7.71 | 6uz7.72 | 6uz7.73 | 6uz7.74 | 6uz7.75 | 6uz7.76 | 6uz7.77 | 6xiq.43 | 6xir.40 | 6z6j.73 | 6z6k.73 | 6zce.1 | 6zu9.1 | 7b7d.72 | 7mpi.73 | 7mpj.73 | 7n8b.39 | 7nrc.74 | 7nrd.73 | 7olc.43 | 7olc.47 | 7old.43 | 7old.47 | 7osa.40 | 7osm.40 | 7rr5.39 | 7too.1 | 7top.1 | 7z3n.44 | 7z3n.48 | 7z3o.44 | 7z3o.48 | 7zpq.72 | 7zrs.72 | 7zuw.72 | 7zux.72 | 7zw0.75 | 7zw0.78 | 8aaf.1 | 8agt.1 | 8agu.1 | 8agv.1 | 8agw.1 | 8agx.1 | 8agz.1 | 8bip.1 | 8bjq.1 | 8bn3.70 | 8bqd.72 | 8bqx.73 | 8cah.1 | 8cas.1 | 8ccs.50 | 8cdl.50 | 8cdr.51 | 8ceh.51 | 8cf5.51 | 8cg8.51 | 8cgn.50 | 8civ.51 | 8cku.51 | 8cmj.51 | 8eub.70 | 8evp.72 | 8evq.72 | 8evr.72 | 8evs.72 | 8evt.72 | 8ewb.72 | 8ewc.72 | 8i7j.1 | 8k2d.73 | 8k82.73 | 8k82.74 | 8oo0.43 | 8oo0.47 | 8pv8.1 | 8rw1.1 | 8s8d.1 | 8s8e.1 | 8s8f.1 | 8s8g.1 | 8s8h.1 | 8s8i.1 | 8s8j.1 | 8y0u.41