Brand  (β version)

PDB ID: 1YIT

Hetero Atom Contents

  The number of atoms exceeds 100,000.
  So, it can not be displayed here.

Select unit:

Select hetatm:   

close
information
centroid:
interaction residue:

Select chain:   Sequence  

Data format:   

Color scheme of protein:

Ligands
Code Name Style Show Link
CD Cadmium ion PoSSuM
CL Chloride ion PoSSuM
K Potassium ion PoSSuM
MG Magnesium ion PoSSuM
NA Sodium ion PoSSuM
VIR Virginiamycin m1 PoSSuM
Non-standard Residues
Code Name Show
004 (2s)-amino(phenyl)ethanoic acid
1MA 6-hydro-1-methyladenosine-5'-monophosphate
DBB D-alpha-aminobutyric acid
MEA N-methylphenylalanine
MHV 4-oxo-L-pipecolic acid
MHW 3-hydroxypicolinic acid
OMG O2'-methylguanosine-5'-monophosphate
OMU O2'-methyluridine 5'-monophosphate
PSU Pseudouridine-5'-monophosphate
UR3 3-methyluridine-5'-monophoshate
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 1YIT   PDBj   RCSB PDB   PDBe
Header : RIBOSOME/ANTIBIOTIC
Title : Crystal Structure Of Virginiamycin M and S Bound To The 50S Ribosomal Subunit Of Haloarcula Marismortui
Release Data : 2005-04-26
Compound :
mol_id molecule chains
1 23S RIBOSOMAL RNA 0
other_details: ENCODED BY RRNA OPERON
mol_id molecule chains
2 50S RIBOSOMAL PROTEIN L37E 1
mol_id molecule chains
3 50S RIBOSOMAL PROTEIN L39E 2
mol_id molecule chains
4 50S RIBOSOMAL PROTEIN L44E 3
mol_id molecule chains synonym
5 VIRGINIAMYCIN S1 8 VIRGINIAMYCIN FACTOR S1, VIRGINIAMYCIN S
mol_id molecule chains
6 5S RIBOSOMAL RNA 9
mol_id molecule chains
7 50S RIBOSOMAL PROTEIN L2P A
mol_id molecule chains
8 50S RIBOSOMAL PROTEIN L3P B
mol_id molecule chains
9 50S RIBOSOMAL PROTEIN L4E C
mol_id molecule chains
10 50S RIBOSOMAL PROTEIN L5P D
mol_id molecule chains
11 50S RIBOSOMAL PROTEIN L6P E
mol_id molecule chains
12 50S RIBOSOMAL PROTEIN L7AE F
mol_id molecule chains
13 ACIDIC RIBOSOMAL PROTEIN P0 HOMOLOG G
mol_id molecule chains
14 50S RIBOSOMAL PROTEIN L10E H
mol_id molecule chains
15 50S RIBOSOMAL PROTEIN L11P I
mol_id molecule chains
16 50S RIBOSOMAL PROTEIN L13P J
mol_id molecule chains
17 50S RIBOSOMAL PROTEIN L14P K
mol_id molecule chains
18 50S RIBOSOMAL PROTEIN L15P L
mol_id molecule chains
19 50S RIBOSOMAL PROTEIN L15E M
mol_id molecule chains
20 50S RIBOSOMAL PROTEIN L18P N
mol_id molecule chains
21 50S RIBOSOMAL PROTEIN L18E O
mol_id molecule chains
22 50S RIBOSOMAL PROTEIN L19E P
mol_id molecule chains
23 50S RIBOSOMAL PROTEIN L21E Q
mol_id molecule chains
24 50S RIBOSOMAL PROTEIN L22P R
mol_id molecule chains
25 50S RIBOSOMAL PROTEIN L23P S
mol_id molecule chains
26 50S RIBOSOMAL PROTEIN L24P T
mol_id molecule chains
27 50S RIBOSOMAL PROTEIN L24E U
mol_id molecule chains
28 50S RIBOSOMAL PROTEIN L29P V
mol_id molecule chains
29 50S RIBOSOMAL PROTEIN L30P W
mol_id molecule chains
30 50S RIBOSOMAL PROTEIN L31E X
mol_id molecule chains
31 50S RIBOSOMAL PROTEIN L32E Y
mol_id molecule chains
32 50S RIBOSOMAL PROTEIN L37AE Z
Source :
mol_id organism_scientific
1 HALOARCULA MARISMORTUI  (taxid:2238)
synthetic: yes
mol_id organism_scientific
2 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
3 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
4 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
5 STREPTOMYCES VIRGINIAE  (taxid:1961)
mol_id organism_scientific
6 HALOARCULA MARISMORTUI  (taxid:2238)
synthetic: yes
mol_id organism_scientific
7 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
8 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
9 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
10 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
11 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
12 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
13 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
14 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
15 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
16 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
17 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
18 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
19 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
20 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
21 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
22 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
23 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
24 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
25 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
26 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
27 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
28 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
29 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
30 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
31 HALOARCULA MARISMORTUI  (taxid:2238)
mol_id organism_scientific
32 HALOARCULA MARISMORTUI  (taxid:2238)
Authors : Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.
Keywords : VIRGINIAMYCIN M, VIRGINIAMYCIN S, PEPTIDYL TRANSFERASE, RIBOSOME, STREPTOGRAMIN, RIBOSOME-ANTIBIOTIC COMPLEX, ANTIBIOTIC, CYCLOHEXADEPSIPEPTIDE
Exp. method : X-RAY DIFFRACTION ( 2.80 Å )
Citation :

Structures of Mlsbk Antibiotics Bound to Mutated Large Ribosomal Subunits Provide a Structural Explanation for Resistance.

TU, D.,Blaha, G.,Moore, P.B.  et al.
(2005)  Cell(Cambridge,Mass.)  121 : 257

PubMed: 15851032
DOI: 10.1016/J.CELL.2005.02.005

Reaction

Chain : A
UniProt : P20276 (RL2_HALMA)
Reaction : -
Chain : C
UniProt : P12735 (RL4_HALMA)
Reaction : -
Chain : D
UniProt : P14124 (RL5_HALMA)
Reaction : -
Chain : E
UniProt : P14135 (RL6_HALMA)
Reaction : -
Chain : F
UniProt : P12743 (RL7A_HALMA)
Reaction : -
Chain : G
UniProt : P15825 (RL10_HALMA)
Reaction : -
Chain : J
UniProt : P29198 (RL13_HALMA)
Reaction : -
Chain : K
UniProt : P22450 (RL14_HALMA)
Reaction : -
Chain : L
UniProt : P12737 (RL15_HALMA)
Reaction : -
Chain : N
UniProt : P14123 (RL18_HALMA)
Reaction : -
Chain : O
UniProt : P12733 (RL18E_HALMA)
Reaction : -
Chain : P
UniProt : P14119 (RL19E_HALMA)
Reaction : -
Chain : Q
UniProt : P12734 (RL21_HALMA)
Reaction : -
Chain : R
UniProt : P10970 (RL22_HALMA)
Reaction : -
Chain : S
UniProt : P12732 (RL23_HALMA)
Reaction : -
Chain : T
UniProt : P10972 (RL24_HALMA)
Reaction : -
Chain : U
UniProt : P14116 (RL24E_HALMA)
Reaction : -
Chain : V
UniProt : P10971 (RL29_HALMA)
Reaction : -
Chain : W
UniProt : P14121 (RL30_HALMA)
Reaction : -
Chain : X
UniProt : P18138 (RL31_HALMA)
Reaction : -
Chain : Y
UniProt : P12736 (RL32_HALMA)
Reaction : -
Chain : 1
UniProt : P32410 (RL37_HALMA)
Reaction : -
Chain : 2
UniProt : P22452 (RL39_HALMA)
Reaction : -
Chain : 3
UniProt : P32411 (RL44E_HALMA)
Reaction : -