Het-PDB Navi2 (PDB: 1EG0)

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Ligands
Code	Name		Style	Show	Link

Non-standard Residues
Code	Name	Show
4SU	4-thiouridine-5'-monophosphate
5MU	5-methyluridine 5'-monophosphate
H2U	5,6-dihydrouridine-5'-monophosphate
N	Any 5'-monophosphate nucleotide
OMC	O2'-methylycytidine-5'-monophosphate
PSU	Pseudouridine-5'-monophosphate

Glycosylation
Code	Name	Emphasize

Modification
Code	Name	Show

Download interaction data: 1EG0

Code :

1EG0 PDBj RCSB PDB PDBe

Header :

RIBOSOME

Title :

FITTING OF COMPONENTS WITH KNOWN STRUCTURE INTO AN 11.5 A CRYO-EM MAP OF THE E.COLI 70S RIBOSOME

Release Data :

2000-03-06

Compound :

mol_id	molecule	chains
1	FRAGMENT OF 16S RRNA HELIX 23	I
	fragment: RESIDUES 673-713 other_details: MODELED AS ANALOGOUS FRAGMENT OF T. THERMOPHILUS TAKEN FROM PDB ENTRY 1QD7

mol_id	molecule	chains
2	FRAGMENT OF 23S RRNA	L
	fragment: RESIDUES 1051-1108 other_details: T. MARITIMA RNA SEQUENCE AND MODEL TAKEN FROM PDB ENTRY 1MMS

mol_id	molecule	chains
3	HELIX 95 OF 23S RRNA	M
	other_details: E.COLI RNA SEQUENCE AND MODEL TAKEN FROM PDB ENTRY 480D

mol_id	molecule	chains	synonym
4	FORMYL-METHIONYL-TRNA	O	FMET-TRNA
	other_details: E.COLI FMET-TRNA SEQUENCE AND MODEL TAKEN FROM PDB ENTRY 2FMT

mol_id	molecule	chains
5	PROTEIN (S4 RIBOSOMAL PROTEIN)	A
	other_details: MODELED BY ANALOGOUS PROTEIN OF B. STEAROTHERMOPHILUS TAKEN FROM PDB ENTRY 1C06

mol_id	molecule	chains
6	PROTEIN (S5 RIBOSOMAL PROTEIN)	B
	other_details: MODELED BY ANALOGOUS PROTEIN OF B. STEAROTHERMOPHILUS TAKEN FROM PDB ENTRY 1PKP

mol_id	molecule	chains
7	PROTEIN (S6 RIBOSOMAL PROTEIN)	C
	other_details: MODELED BY ANALOGOUS PROTEIN OF T.THERMOPHILUS TAKEN FROM PDB ENTRY 1RIS

mol_id	molecule	chains
8	PROTEIN (S7 RIBOSOMAL PROTEIN)	D
	other_details: MODELED BY ANALOGOUS PROTEIN OF T. THERMOPHILUS TAKEN FROM PDB ENTRY 1RSS

mol_id	molecule	chains
9	PROTEIN (S8 RIBOSOMAL PROTEIN)	E
	other_details: MODELED BY ANALOGOUS PROTEIN OF T. THERMOPHILUS TAKEN FROM PDB ENTRY 1AN7

mol_id	molecule	chains
10	PROTEIN (S15 RIBOSOMAL PROTEIN)	F
	other_details: MODELED BY ANALOGOUS PROTEIN OF B. STEAROTHERMOPHILUS TAKEN FROM PDB ENTRY 1A32

mol_id	molecule	chains
11	PROTEIN (S17 RIBOSOMAL PROTEIN)	G
	other_details: MODELED BY ANALOGOUS PROTEIN OF B. STEAROTHERMOPHILUS TAKEN FROM PDB ENTRIES 1RIP AND 1QD7

mol_id	molecule	chains
12	PROTEIN (S20 RIBOSOMAL PROTEIN)	H
	other_details: MODELED BY ANALOGOUS PROTEIN OF T. THERMOPHILUS TAKEN FROM PDB ENTRY 1QD7

mol_id	molecule	chains
13	PROTEIN (RIBOSOMAL PROTEIN L1)	N
	other_details: MODELED BY ANALOGOUS PROTEIN OF T. THERMOPHILUS TAKEN FROM PDB ENTRY 1AD2

mol_id	molecule	chains
14	PROTEIN (RIBOSOMAL PROTEIN L6)	J
	mutation: B. STEAROTHERMOPHILUS SEQUENCE AND MODEL other_details: MODELED BY ANALOGOUS PROTEIN OF T. STEAROTHERMOPHILUS TAKEN FROM PDB ENTRY 1RL6

mol_id	molecule	chains
15	PROTEIN (RIBOSOMAL PROTEIN L11)	K
	other_details: MODELED BY ANALOGOUS PROTEIN OF T. MARITIMA TAKEN FROM PDB ENTRY 1MMS

Source :

mol_id	organism_scientific
1	Escherichia coli (taxid:562)

mol_id	organism_scientific
2	Escherichia coli (taxid:562)

mol_id	organism_scientific
3	Escherichia coli (taxid:562)

mol_id	organism_scientific
4	Escherichia coli (taxid:562)

mol_id	organism_scientific
5	Escherichia coli (taxid:562)

mol_id	organism_scientific
6	Escherichia coli (taxid:562)

mol_id	organism_scientific
7	Escherichia coli (taxid:562)

mol_id	organism_scientific
8	Escherichia coli (taxid:562)

mol_id	organism_scientific
9	Escherichia coli (taxid:562)

mol_id	organism_scientific
10	Escherichia coli (taxid:562)

mol_id	organism_scientific
11	Escherichia coli (taxid:562)

mol_id	organism_scientific
12	Escherichia coli (taxid:562)

mol_id	organism_scientific
13	Escherichia coli (taxid:562)

mol_id	organism_scientific
14	Escherichia coli (taxid:562)

mol_id	organism_scientific
15	Escherichia coli (taxid:562)

Authors :

Gabashvili, I.S., Agrawal, R.K., Spahn, C.M.T., Grassucci, R.A., Svergun, D.I., Frank, J., Penczek, P.

Keywords :

70S RIBOSOME, LOW RESOLUTION MODEL, RIBOSOME

Exp. method :

ELECTRON MICROSCOPY ( 11.5 Å )

Citation :

Solution structure of the E. coli 70S ribosome at 11.5 A resolution.

Gabashvili, I.S.,Agrawal, R.K.,Spahn, C.M. et al.
(2000) Cell(Cambridge,Mass.) 100 : 537 - 549

PubMed: 10721991
DOI: 10.1016/S0092-8674(00)80690-X

The Crystal Structure of Ribosomal Protein S4 Reveals a Two-Domain Molecule with an Extensive RNA-Binding Surface: One Domain Shows Structural Homology to the Ets DNA-Binding Motif

Davies, C.,Gerstner, R.B.,Draper, D.E. et al.
(1998) Embo J. 17 : 4545

DOI: 10.1093/emboj/17.16.4545

The Structure of Ribosomal Protein S5 Reveals Sites of Interaction with 16S Rrna

Ramakrishnan, V.,White, S.W.
(1992) Nature 358 : 768

DOI: 10.1038/358768a0

Crystal Structure of the Ribosomal Protein S6 from Thermus Thermophilus

Lindahl, M.,Svensson, L.A.,Liljas, A. et al.
(1994) Embo J. 13 : 1249

The Structure of Ribosomal Protein S7 at 1.9 A Resolution Reveals a Beta- Hairpin Motif that Binds Double-Stranded Nucleic Acids

Wimberly, B.T.,White, S.W.,Ramakrishnan, V.
(1997) Structure 5 : 1187

DOI: 10.1016/S0969-2126(97)00269-4

Crystal Structure of Ribosomal Protein S8 from Thermus Thermophilus Reveals a High Degree of Structural Conservation of a Specific RNA Binding Site

Nevskaya, N.,Tischenko, S.,Nikulin, A. et al.
(1998) J.Mol.Biol. 279 : 233

DOI: 10.1006/jmbi.1998.1758

Conformational Variability of the N-Terminal Helix in the Structure of Ribosomal Protein S15

Clemons Jr., W.M.,Davies, C.R.,White, S.W. et al.
(1998) Structure 6 : 429

Solution Structure of Prokaryotic Ribosomal Protein S17 by High-Resolution NMR Spectroscopy

Jaishree, T.,Ramakrishnan, V.,White, S.W.
(1996) Biochemistry 35 : 2845

DOI: 10.1021/bi951062i

Structure of a bacterial 30S ribosomal subunit at 5.5 A resolution

Clemons Jr., W.M.,May, J.L.C.,Wimberly, B.T. et al.
(1999) Nature 400 : 833 - 840

Ribosomal Protein L6: Structural Evidence of Gene Duplication from a Primitive RNA-Binding Protein

Golden, B.L.,Davies, C.,Ramakrishnan, V. et al.
(1993) Embo J. 12 : 4901

A Detailed View of a Ribosomal Active Site: The Structure of the L11-RNA Complex

Wimberly, B.T.,Guymon, R.,Mccutcheon, J.P. et al.
(1999) Cell(Cambridge,Mass.) 97 : 491

DOI: 10.1016/S0092-8674(00)80759-X

The Two Faces of the Escherichia Coli 23 S Rrna Sarcin/Ricin Domain: The Structure at 1.11 A Resolution

Correll, C.C.,Wool, I.G.,Munishkin, A.
(1999) J.Mol.Biol. 292 : 275

DOI: 10.1006/jmbi.1999.3072

Crystal Structure of the RNA Binding Ribosomal Prot L1 from Thermus Thermophilus

Nikonov, S.,Nevskaya, N.,Eliseikina, I. et al.
(1996) Embo J. 15 : 1350

Crystal Structure of Methionyl-Trnafmet Transformylase Complexed with the Initiator Formyl-Methionyl-Trnafmet

Schmitt, E.,Panvert, M.,Blanquet, S. et al.
(1998) Embo J. 17 : 6819

DOI: 10.1093/emboj/17.23.6819

Chain :	A
UniProt :	P81288 (RS4_GEOSE)
Reaction :	-

Chain :	B
UniProt :	P02357 (RS5_GEOSE)
Reaction :	-

Chain :	C
UniProt :	P23370 (RS6_THETH)
Reaction :	-

Chain :	D
UniProt :	P17291 (RS7_THET8)
Reaction :	-

Chain :	F
UniProt :	P80378 (RS15_THETH)
Reaction :	-

Chain :	G
UniProt :	P23828 (RS17_GEOSE)
Reaction :	-

Chain :	N
UniProt :	P27150 (RL1_THETH)
Reaction :	-

Chain :	J
UniProt :	P02391 (RL6_GEOSE)
Reaction :	-

Chain :	K
UniProt :	P29395 (RL11_THEMA)
Reaction :	-

PDB ID: 1EG0

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