Brand  (β version)

PDB ID: 6YAN

Hetero Atom Contents

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Ligands
Code Name Style Show Link
Non-standard Residues
Code Name Show
C4J (5s)-5-{3-[(3s)-3-amino-3-carboxypropyl]-1-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl}-2,5-anhydro-1-O-phosphono-L-arabinitol
T6A N-[N-(9-B-D-ribofuranosylpurin-6-yl)carbamoyl]threonine-5'-monophosphate
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 6YAN   PDBj   RCSB PDB   PDBe
Header : TRANSLATION
Title : Mammalian 48S late-stage translation initiation complex with histone 4 mRNA
Release Data : 2020-04-08
Compound :
mol_id molecule chains synonym
1 60s ribosomal protein l41 l eL41
mol_id molecule chains synonym
2 40S ribosomal protein SA C 37 kDa laminin receptor precursor,37LRP,37/67 kDa laminin receptor,LRP/LR,67 kDa laminin receptor,67LR,Laminin receptor 1,LamR,Laminin-binding protein precursor p40,LBP/p40
mol_id molecule chains
3 ribosomal protein eS1 D
mol_id molecule chains
4 40S ribosomal protein uS5 E
mol_id molecule chains
5 Ribosomal protein S3 F
mol_id molecule chains
6 40S ribosomal protein S4 G
mol_id molecule chains
7 Ribosomal protein S5 H
mol_id molecule chains
8 40S ribosomal protein S6 I
mol_id molecule chains
9 ribosomal protein eS7 J
mol_id molecule chains
10 40S ribosomal protein S8 K
mol_id molecule chains
11 Ribosomal protein S9 (Predicted) L
mol_id molecule chains
12 40S ribosomal protein eS10 M
mol_id molecule chains
13 Ribosomal protein S11 N
mol_id molecule chains
14 40S ribosomal protein S12 O
mol_id molecule chains
15 ribosomal protein uS15 P
mol_id molecule chains
16 40S ribosomal protein uS11 Q
mol_id molecule chains
17 ribosomal protein uS9 S
mol_id molecule chains
18 ribosomal protein eS17 T
mol_id molecule chains
19 40S ribosomal protein eS19 V
mol_id molecule chains
20 Ribosomal_S10 domain-containing protein W
mol_id molecule chains
21 40S ribosomal protein S21 X
mol_id molecule chains
22 Ribosomal protein S15a Y
mol_id molecule chains
23 40S ribosomal protein uS12 Z
mol_id molecule chains
24 40S ribosomal protein S24 a
mol_id molecule chains
25 40S ribosomal protein eS26 b
mol_id molecule chains
26 40S ribosomal protein S27 c
mol_id molecule chains
27 ribosomal protein eS28 d
mol_id molecule chains
28 ribosomal protein uS14 e
mol_id molecule chains
29 ribosomal protein eS31 f
mol_id molecule chains
30 ribosomal protein RACK1 g
mol_id molecule chains
31 ribosomal protein eS25 h
mol_id molecule chains
32 40S ribosomal protein eS30 i
mol_id molecule chains
33 18S ribosomal RNA 2
other_details: U at position 1244 is modified
mol_id molecule chains
34 histone 4 (H4) mRNA 3
mol_id molecule chains
35 Eukaryotic translation initiation factor 2 subunit 1 A
mol_id molecule chains
36 eukaryotic translation initiation factor 2 subunit gamma B
mol_id molecule chains
37 40S ribosomal protein uS13 U
mol_id molecule chains
38 Ribosomal protein S15 R
mol_id molecule chains
39 initiator methionylated tRNA 1
other_details: adenine at position 37 is modified (threonyl-carbomoyl-adenosine (t6A))
Source :
mol_id organism_scientific organism_common
1 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
2 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
3 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
4 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
5 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
6 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
7 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
8 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
9 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
10 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
11 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
12 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
13 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
14 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
15 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
16 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
17 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
18 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
19 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
20 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
21 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
22 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
23 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
24 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
25 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
26 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
27 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
28 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
29 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
30 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
31 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
32 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
33 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
34 Mus musculus  (taxid:10090) House mouse
synthetic: yes
mol_id organism_scientific organism_common
35 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
36 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
37 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
38 Oryctolagus cuniculus  (taxid:9986) Rabbit
mol_id organism_scientific organism_common
39 Oryctolagus cuniculus  (taxid:9986) Rabbit
Authors : Bochler, A., Simonetti, A., Guca, E., Hashem, Y.
Keywords : initiation complex, 48S, eukaryotic initiation factor 1A, rabbit, TRANSLATION
Exp. method : ELECTRON MICROSCOPY ( 3.48 Å )
Citation :

Structural Insights into the Mammalian Late-Stage Initiation Complexes.

Simonetti, A.,Guca, E.,Bochler, A.  et al.
(2020)  Cell Rep  31 : 107497 - 107497

PubMed: 32268096
DOI: 10.1016/j.celrep.2020.03.061

Reaction

Chain : l
UniProt : A0A087WNH4 (A0A087WNH4_RABIT)
Reaction : -
Chain : C
UniProt : G1TLT8 (G1TLT8_RABIT)
Reaction : -
Chain : D
UniProt : G1TN72 (G1TN72_RABIT)
Reaction : -
Chain : F
UniProt : G1TNM3 (G1TNM3_RABIT)
Reaction: EC: Evidence:
Physiological Direction:
2'-deoxyribonucleotide-(2'-deoxyribose 5'-phosphate)-2'- deoxyribonucleotide-DNA = a 3'-end 2'-deoxyribonucleotide-(2,3- dehydro-2,3-deoxyribose 5'-phosphate)-DNA + a 5'-end 5'-monophospho- 2'-deoxyribonucleoside-DNA + H(+) 4.2.99.18 ARBA:ARBA00024490
-
Chain : G
UniProt : G1TK17 (G1TK17_RABIT)
Reaction : -
Chain : H
UniProt : G1TFM5 (G1TFM5_RABIT)
Reaction : -
Chain : I
UniProt : G1TM55 (G1TM55_RABIT)
Reaction : -
Chain : J
UniProt : G1SVB0 (G1SVB0_RABIT)
Reaction : -
Chain : K
UniProt : G1TJW1 (G1TJW1_RABIT)
Reaction : -
Chain : L
UniProt : B7NZS8 (B7NZS8_RABIT)
Reaction : -
Chain : M
UniProt : G1TPV3 (G1TPV3_RABIT)
Reaction : -
Chain : N
UniProt : G1TRM4 (G1TRM4_RABIT)
Reaction : -
Chain : O
UniProt : G1SFR8 (G1SFR8_RABIT)
Reaction : -
Chain : P
UniProt : G1SP51 (G1SP51_RABIT)
Reaction : -
Chain : Q
UniProt : G1T1F0 (G1T1F0_RABIT)
Reaction : -
Chain : S
UniProt : G1SGX4 (G1SGX4_RABIT)
Reaction : -
Chain : T
UniProt : G1TU13 (G1TU13_RABIT)
Reaction : -
Chain : V
UniProt : G1TN62 (G1TN62_RABIT)
Reaction : -
Chain : W
UniProt : A0A5F9CX53 (A0A5F9CX53_RABIT)
Reaction : -
Chain : X
UniProt : G1TM82 (G1TM82_RABIT)
Reaction : -
Chain : Y
UniProt : G1TG89 (G1TG89_RABIT)
Reaction : -
Chain : Z
UniProt : G1SZ47 (G1SZ47_RABIT)
Reaction : -
Chain : a
UniProt : G1TS40 (G1TS40_RABIT)
Reaction : -
Chain : b
UniProt : G1TFE8 (G1TFE8_RABIT)
Reaction : -
Chain : c
UniProt : G1TZ76 (G1TZ76_RABIT)
Reaction : -
Chain : d
UniProt : G1TIB4 (G1TIB4_RABIT)
Reaction : -
Chain : e
UniProt : G1U7M4 (G1U7M4_RABIT)
Reaction : -
Chain : f
UniProt : G1SK22 (G1SK22_RABIT)
Reaction : -
Chain : g
UniProt : G1SJB4 (G1SJB4_RABIT)
Reaction : -
Chain : h
UniProt : G1TDB3 (G1TDB3_RABIT)
Reaction : -
Chain : i
UniProt : G1T8A2 (G1T8A2_RABIT)
Reaction : -
Chain : A
UniProt : G1T2G4 (G1T2G4_RABIT)
Reaction : -
Chain : U
UniProt : G1TPG3 (G1TPG3_RABIT)
Reaction : -
Chain : R
UniProt : G1U0Q2 (G1U0Q2_RABIT)
Reaction : -