1W7Q

Feglymycin P65 crystal form

PDB DOI: https://doi.org/10.2210/pdb1W7Q/pdb

Classification: ANTIBIOTIC
Organism(s): Streptomyces sp.
Mutation(s): No

Deposited: 2004-09-08 Released: 2005-03-08
Deposition Author(s): Bunkoczi, G., Vertesy, L., Sheldrick, G.M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.10 Å
R-Value Free:
0.195 (Depositor)
R-Value Work:
0.170 (DCC)
R-Value Observed:
0.169 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

The Antiviral Antibiotic Feglymycin: First Direct Methods Solution of a 1000Plus Equal-Atom Structure

Bunkoczi, G., Vertesy, L., Sheldrick, G.M.

(2005) Angew Chem Int Ed Engl 44: 1340

PubMed: 15674989 Search on PubMed
DOI: https://doi.org/10.1002/anie.200461933
Primary Citation of Related Structures:
1W7Q, 1W7R

Organizational Affiliation

Lehrstuhl für Strukturchemie, Georg-August Universität, Tammannstrasse 4, 37077 Göttingen, Germany.

Macromolecule Content

Total Structure Weight: 13.93 kDa
Atom Count: 1,089
Modelled Residue Count: 78
Deposited Residue Count: 78
Unique protein chains: 1

Macromolecules

Find similar proteins by: Sequence | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FEGLYMYCIN	A, B, C, D, E A, B, C, D, E, F	13	Streptomyces sp.	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain Z [auth B] SDF format, chain AA [auth B] SDF format, chain BA [auth C] SDF format, chain CA [auth C] SDF format, chain DA [auth C] SDF format, chain EA [auth C] SDF format, chain FA [auth C] SDF format, chain HA [auth D] SDF format, chain I [auth A] SDF format, chain IA [auth D] SDF format, chain J [auth A] SDF format, chain JA [auth D] SDF format, chain K [auth A] SDF format, chain KA [auth D] SDF format, chain L [auth A] SDF format, chain LA [auth D] SDF format, chain M [auth A] SDF format, chain MA [auth D] SDF format, chain N [auth A] SDF format, chain NA [auth D] SDF format, chain O [auth A] SDF format, chain OA [auth D] SDF format, chain P [auth A] SDF format, chain PA [auth D] SDF format, chain Q [auth A] SDF format, chain QA [auth D] SDF format, chain R [auth A] SDF format, chain RA [auth D] SDF format, chain S [auth A] SDF format, chain SA [auth D] SDF format, chain T [auth A] SDF format, chain U [auth A] SDF format, chain UA [auth E] SDF format, chain V [auth A] SDF format, chain VA [auth E] SDF format, chain X [auth B] SDF format, chain Y [auth B] MOL2 format, chain Z [auth B] MOL2 format, chain AA [auth B] MOL2 format, chain BA [auth C] MOL2 format, chain CA [auth C] MOL2 format, chain DA [auth C] MOL2 format, chain EA [auth C] MOL2 format, chain FA [auth C] MOL2 format, chain HA [auth D] MOL2 format, chain I [auth A] MOL2 format, chain IA [auth D] MOL2 format, chain J [auth A] MOL2 format, chain JA [auth D] MOL2 format, chain K [auth A] MOL2 format, chain KA [auth D] MOL2 format, chain L [auth A] MOL2 format, chain LA [auth D] MOL2 format, chain M [auth A] MOL2 format, chain MA [auth D] MOL2 format, chain N [auth A] MOL2 format, chain NA [auth D] MOL2 format, chain O [auth A] MOL2 format, chain OA [auth D] MOL2 format, chain P [auth A] MOL2 format, chain PA [auth D] MOL2 format, chain Q [auth A] MOL2 format, chain QA [auth D] MOL2 format, chain R [auth A] MOL2 format, chain RA [auth D] MOL2 format, chain S [auth A] MOL2 format, chain SA [auth D] MOL2 format, chain T [auth A] MOL2 format, chain U [auth A] MOL2 format, chain UA [auth E] MOL2 format, chain V [auth A] MOL2 format, chain VA [auth E] MOL2 format, chain X [auth B] MOL2 format, chain Y [auth B] mmCIF format, chain Z [auth B] mmCIF format, chain AA [auth B] mmCIF format, chain BA [auth C] mmCIF format, chain CA [auth C] mmCIF format, chain DA [auth C] mmCIF format, chain EA [auth C] mmCIF format, chain FA [auth C] mmCIF format, chain HA [auth D] mmCIF format, chain I [auth A] mmCIF format, chain IA [auth D] mmCIF format, chain J [auth A] mmCIF format, chain JA [auth D] mmCIF format, chain K [auth A] mmCIF format, chain KA [auth D] mmCIF format, chain L [auth A] mmCIF format, chain LA [auth D] mmCIF format, chain M [auth A] mmCIF format, chain MA [auth D] mmCIF format, chain N [auth A] mmCIF format, chain NA [auth D] mmCIF format, chain O [auth A] mmCIF format, chain OA [auth D] mmCIF format, chain P [auth A] mmCIF format, chain PA [auth D] mmCIF format, chain Q [auth A] mmCIF format, chain QA [auth D] mmCIF format, chain R [auth A] mmCIF format, chain RA [auth D] mmCIF format, chain S [auth A] mmCIF format, chain SA [auth D] mmCIF format, chain T [auth A] mmCIF format, chain U [auth A] mmCIF format, chain UA [auth E] mmCIF format, chain V [auth A] mmCIF format, chain VA [auth E] mmCIF format, chain X [auth B] mmCIF format, chain Y [auth B]	AA [auth B] BA [auth C] CA [auth C] DA [auth C] EA [auth C] AA [auth B], BA [auth C], CA [auth C], DA [auth C], EA [auth C], FA [auth C], HA [auth D], I [auth A], IA [auth D], J [auth A], JA [auth D], K [auth A], KA [auth D], L [auth A], LA [auth D], M [auth A], MA [auth D], N [auth A], NA [auth D], O [auth A], OA [auth D], P [auth A], PA [auth D], Q [auth A], QA [auth D], R [auth A], RA [auth D], S [auth A], SA [auth D], T [auth A], U [auth A], UA [auth E], V [auth A], VA [auth E], X [auth B], Y [auth B], Z [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain AA [auth B] Focus chain BA [auth C] Focus chain CA [auth C] Focus chain DA [auth C] Focus chain EA [auth C] Focus chain FA [auth C] Focus chain HA [auth D] Focus chain I [auth A] Focus chain IA [auth D] Focus chain J [auth A] Focus chain JA [auth D] Focus chain K [auth A] Focus chain KA [auth D] Focus chain L [auth A] Focus chain LA [auth D] Focus chain M [auth A] Focus chain MA [auth D] Focus chain N [auth A] Focus chain NA [auth D] Focus chain O [auth A] Focus chain OA [auth D] Focus chain P [auth A] Focus chain PA [auth D] Focus chain Q [auth A] Focus chain QA [auth D] Focus chain R [auth A] Focus chain RA [auth D] Focus chain S [auth A] Focus chain SA [auth D] Focus chain T [auth A] Focus chain U [auth A] Focus chain UA [auth E] Focus chain V [auth A] Focus chain VA [auth E] Focus chain X [auth B] Focus chain Y [auth B] Focus chain Z [auth B] Interactions & Density Focus chain AA [auth B] Focus chain BA [auth C] Focus chain CA [auth C] Focus chain DA [auth C] Focus chain EA [auth C] Focus chain FA [auth C] Focus chain HA [auth D] Focus chain I [auth A] Focus chain IA [auth D] Focus chain J [auth A] Focus chain JA [auth D] Focus chain K [auth A] Focus chain KA [auth D] Focus chain L [auth A] Focus chain LA [auth D] Focus chain M [auth A] Focus chain MA [auth D] Focus chain N [auth A] Focus chain NA [auth D] Focus chain O [auth A] Focus chain OA [auth D] Focus chain P [auth A] Focus chain PA [auth D] Focus chain Q [auth A] Focus chain QA [auth D] Focus chain R [auth A] Focus chain RA [auth D] Focus chain S [auth A] Focus chain SA [auth D] Focus chain T [auth A] Focus chain U [auth A] Focus chain UA [auth E] Focus chain V [auth A] Focus chain VA [auth E] Focus chain X [auth B] Focus chain Y [auth B] Focus chain Z [auth B]
EOH Query on EOH Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain GA [auth D] SDF format, chain H [auth A] SDF format, chain TA [auth E] SDF format, chain W [auth B] MOL2 format, chain G [auth A] MOL2 format, chain GA [auth D] MOL2 format, chain H [auth A] MOL2 format, chain TA [auth E] MOL2 format, chain W [auth B] mmCIF format, chain G [auth A] mmCIF format, chain GA [auth D] mmCIF format, chain H [auth A] mmCIF format, chain TA [auth E] mmCIF format, chain W [auth B]	G [auth A], GA [auth D], H [auth A], TA [auth E], W [auth B]	ETHANOL C₂ H₆ O LFQSCWFLJHTTHZ-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain GA [auth D] Focus chain H [auth A] Focus chain TA [auth E] Focus chain W [auth B] Interactions & Density Focus chain G [auth A] Focus chain GA [auth D] Focus chain H [auth A] Focus chain TA [auth E] Focus chain W [auth B]

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 1
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000220 Query on PRD_000220	A, B, C, D, E A, B, C, D, E, F	FEGLYMYCIN	Polypeptide / Antimicrobial, Antiretroviral		Interactions Focus chain A Focus chain B Focus chain C Focus chain D Focus chain E Focus chain F Interactions & Density Focus chain A Focus chain B Focus chain C Focus chain D Focus chain E Focus chain F

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.10 Å
R-Value Free: 0.195 (Depositor)
R-Value Work: 0.170 (DCC)
R-Value Observed: 0.169 (Depositor)

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.544	α = 90
b = 83.544	β = 90
c = 35.734	γ = 120

Software Package:

Software Name	Purpose
SHELXL-97	refinement
SAINT	data reduction
SADABS	data scaling
SHELXD	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2005-03-08

Deposition Author(s):

Bunkoczi, G.

Vertesy, L.

Sheldrick, G.M.

Revision History (Full details and data files)

Version 1.0: 2005-03-08
Type: Initial release
Version 1.1: 2011-07-13
Changes: Atomic model, Database references, Derived calculations, Structure summary, Version format compliance
Version 1.2: 2012-11-30
Changes: Other
Version 1.3: 2017-07-12
Changes: Derived calculations
Version 1.4: 2018-05-30
Changes: Advisory, Data collection
Version 1.5: 2019-05-22
Changes: Data collection, Refinement description