4GZ0

Mus Musculus Tdp2-DNA Substrate Analog (5'-6-aminohexanol) Complex

PDB DOI: https://doi.org/10.2210/pdb4GZ0/pdb
NAKB: 4GZ0

Classification: HYDROLASE/dna
Organism(s): Mus musculus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2012-09-05 Released: 2012-10-31
Deposition Author(s): Schellenberg, M.J., Williams, R.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.11 Å
R-Value Free: 0.193
R-Value Work: 0.160
R-Value Observed: 0.162

wwPDB Validation 3D Report Full Report

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

Literature

Mechanism of repair of 5'-topoisomerase II-DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2.

Schellenberg, M.J., Appel, C.D., Adhikari, S., Robertson, P.D., Ramsden, D.A., Williams, R.S.

(2012) Nat Struct Mol Biol 19: 1363-1371

PubMed: 23104055 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1038/nsmb.2418
Primary Citation of Related Structures:
4GYZ, 4GZ0, 4GZ1, 4GZ2

PubMed Abstract:
The topoisomerase II (topo II) DNA incision-and-ligation cycle can be poisoned (for example following treatment with cancer chemotherapeutics) to generate cytotoxic DNA double-strand breaks (DSBs) with topo II covalently conjugated to DNA. Tyrosyl-DNA phosphodiesterase 2 (Tdp2) protects genomic integrity by reversing 5'-phosphotyrosyl-linked topo II-DNA adducts. Here, X-ray structures of mouse Tdp2-DNA complexes reveal that Tdp2 β-2-helix-β DNA damage-binding 'grasp', helical 'cap' and DNA lesion-binding elements fuse to form an elongated protein-DNA conjugate substrate-interaction groove. The Tdp2 DNA-binding surface is highly tailored for engagement of 5'-adducted single-stranded DNA ends and restricts nonspecific endonucleolytic or exonucleolytic processing. Structural, mutational and functional analyses support a single-metal ion catalytic mechanism for the exonuclease-endonuclease-phosphatase (EEP) nuclease superfamily and establish a molecular framework for targeted small-molecule blockade of Tdp2-mediated resistance to anticancer topoisomerase drugs.

Organizational Affiliation

Laboratory of Structural Biology, National Institute of Environmental Health Sciences, US National Institutes of Health, Department of Health and Human Services, North Carolina, USA.

Macromolecule Content

Total Structure Weight: 198.65 kDa
Atom Count: 14,788
Modelled Residue Count: 1,552
Deposited Residue Count: 1,590
Unique protein chains: 1
Unique nucleic acid chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosyl-DNA phosphodiesterase 2	A B E G [auth K] I [auth G] A, B, E, G [auth K], I [auth G], K [auth I]	256	Mus musculus	Mutation(s): 0 Gene Names: Tdp2, Ttrap EC: 3.1.4
UniProt
Find proteins for Q9JJX7 (Mus musculus) Explore Q9JJX7 Go to UniProtKB: Q9JJX7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9JJX7
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(PCPCPGPAPAPTPTPCP*G)-3')	C D F H [auth L] J [auth H] C, D, F, H [auth L], J [auth H], L [auth J]	9	N/A
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
6AH Query on 6AH Download Ideal Coordinates CCD File SDF format, chain ID [auth L] SDF format, chain MB [auth C] SDF format, chain NB [auth D] SDF format, chain PC [auth F] SDF format, chain VE [auth J] SDF format, chain XD [auth H] MOL2 format, chain ID [auth L] MOL2 format, chain MB [auth C] MOL2 format, chain NB [auth D] MOL2 format, chain PC [auth F] MOL2 format, chain VE [auth J] MOL2 format, chain XD [auth H] mmCIF format, chain ID [auth L] mmCIF format, chain MB [auth C] mmCIF format, chain NB [auth D] mmCIF format, chain PC [auth F] mmCIF format, chain VE [auth J] mmCIF format, chain XD [auth H]	ID [auth L] MB [auth C] NB [auth D] PC [auth F] VE [auth J] ID [auth L], MB [auth C], NB [auth D], PC [auth F], VE [auth J], XD [auth H]	6-aminohexan-1-ol C₆ H₁₅ N O SUTWPJHCRAITLU-UHFFFAOYSA-N		Interactions Focus chain ID [auth L] Focus chain MB [auth C] Focus chain NB [auth D] Focus chain PC [auth F] Focus chain VE [auth J] Focus chain XD [auth H] Interactions & Density Focus chain ID [auth L] Focus chain MB [auth C] Focus chain NB [auth D] Focus chain PC [auth F] Focus chain VE [auth J] Focus chain XD [auth H]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain AA [auth A] SDF format, chain AB [auth B] SDF format, chain AC [auth E] SDF format, chain AD [auth K] SDF format, chain AE [auth H] SDF format, chain BA [auth A] SDF format, chain BB [auth B] SDF format, chain BC [auth E] SDF format, chain BD [auth K] SDF format, chain BE [auth I] SDF format, chain CA [auth A] SDF format, chain CB [auth B] SDF format, chain CC [auth E] SDF format, chain CD [auth K] SDF format, chain CE [auth I] SDF format, chain DA [auth A] SDF format, chain DB [auth B] SDF format, chain DC [auth E] SDF format, chain DD [auth K] SDF format, chain DE [auth I] SDF format, chain EA [auth A] SDF format, chain EB [auth B] SDF format, chain EC [auth E] SDF format, chain ED [auth K] SDF format, chain EE [auth I] SDF format, chain FA [auth A] SDF format, chain FB [auth B] SDF format, chain FC [auth E] SDF format, chain FE [auth I] SDF format, chain GA [auth A] SDF format, chain GB [auth B] SDF format, chain GC [auth E] SDF format, chain GE [auth I] SDF format, chain HA [auth A] SDF format, chain HB [auth B] SDF format, chain HC [auth E] SDF format, chain HE [auth I] SDF format, chain IB [auth B] SDF format, chain IC [auth E] SDF format, chain IE [auth I] SDF format, chain JC [auth E] SDF format, chain JD [auth G] SDF format, chain JE [auth I] SDF format, chain KC [auth E] SDF format, chain KD [auth G] SDF format, chain KE [auth I] SDF format, chain LD [auth G] SDF format, chain LE [auth I] SDF format, chain M [auth A] SDF format, chain MD [auth G] SDF format, chain ME [auth I] SDF format, chain N [auth A] SDF format, chain NA [auth B] SDF format, chain ND [auth G] SDF format, chain NE [auth I] SDF format, chain O [auth A] SDF format, chain OA [auth B] SDF format, chain OB [auth D] SDF format, chain OD [auth G] SDF format, chain OE [auth I] SDF format, chain P [auth A] SDF format, chain PA [auth B] SDF format, chain PB [auth D] SDF format, chain PD [auth G] SDF format, chain PE [auth I] SDF format, chain Q [auth A] SDF format, chain QA [auth B] SDF format, chain QB [auth D] SDF format, chain QC [auth F] SDF format, chain QD [auth G] SDF format, chain QE [auth I] SDF format, chain R [auth A] SDF format, chain RA [auth B] SDF format, chain RB [auth E] SDF format, chain RC [auth K] SDF format, chain RD [auth G] SDF format, chain S [auth A] SDF format, chain SA [auth B] SDF format, chain SB [auth E] SDF format, chain SC [auth K] SDF format, chain SD [auth G] SDF format, chain T [auth A] SDF format, chain TA [auth B] SDF format, chain TB [auth E] SDF format, chain TC [auth K] SDF format, chain TD [auth G] SDF format, chain U [auth A] SDF format, chain UA [auth B] SDF format, chain UB [auth E] SDF format, chain UC [auth K] SDF format, chain V [auth A] SDF format, chain VA [auth B] SDF format, chain VB [auth E] SDF format, chain VC [auth K] SDF format, chain W [auth A] SDF format, chain WA [auth B] SDF format, chain WB [auth E] SDF format, chain WC [auth K] SDF format, chain WE [auth J] SDF format, chain X [auth A] SDF format, chain XA [auth B] SDF format, chain XB [auth E] SDF format, chain XC [auth K] SDF format, chain Y [auth A] SDF format, chain YA [auth B] SDF format, chain YB [auth E] SDF format, chain YC [auth K] SDF format, chain YD [auth H] SDF format, chain Z [auth A] SDF format, chain ZA [auth B] SDF format, chain ZB [auth E] SDF format, chain ZC [auth K] SDF format, chain ZD [auth H] MOL2 format, chain AA [auth A] MOL2 format, chain AB [auth B] MOL2 format, chain AC [auth E] MOL2 format, chain AD [auth K] MOL2 format, chain AE [auth H] MOL2 format, chain BA [auth A] MOL2 format, chain BB [auth B] MOL2 format, chain BC [auth E] MOL2 format, chain BD [auth K] MOL2 format, chain BE [auth I] MOL2 format, chain CA [auth A] MOL2 format, chain CB [auth B] MOL2 format, chain CC [auth E] MOL2 format, chain CD [auth K] MOL2 format, chain CE [auth I] MOL2 format, chain DA [auth A] MOL2 format, chain DB [auth B] MOL2 format, chain DC [auth E] MOL2 format, chain DD [auth K] MOL2 format, chain DE [auth I] MOL2 format, chain EA [auth A] MOL2 format, chain EB [auth B] MOL2 format, chain EC [auth E] MOL2 format, chain ED [auth K] MOL2 format, chain EE [auth I] MOL2 format, chain FA [auth A] MOL2 format, chain FB [auth B] MOL2 format, chain FC [auth E] MOL2 format, chain FE [auth I] MOL2 format, chain GA [auth A] MOL2 format, chain GB [auth B] MOL2 format, chain GC [auth E] MOL2 format, chain GE [auth I] MOL2 format, chain HA [auth A] MOL2 format, chain HB [auth B] MOL2 format, chain HC [auth E] MOL2 format, chain HE [auth I] MOL2 format, chain IB [auth B] MOL2 format, chain IC [auth E] MOL2 format, chain IE [auth I] MOL2 format, chain JC [auth E] MOL2 format, chain JD [auth G] MOL2 format, chain JE [auth I] MOL2 format, chain KC [auth E] MOL2 format, chain KD [auth G] MOL2 format, chain KE [auth I] MOL2 format, chain LD [auth G] MOL2 format, chain LE [auth I] MOL2 format, chain M [auth A] MOL2 format, chain MD [auth G] MOL2 format, chain ME [auth I] MOL2 format, chain N [auth A] MOL2 format, chain NA [auth B] MOL2 format, chain ND [auth G] MOL2 format, chain NE [auth I] MOL2 format, chain O [auth A] MOL2 format, chain OA [auth B] MOL2 format, chain OB [auth D] MOL2 format, chain OD [auth G] MOL2 format, chain OE [auth I] MOL2 format, chain P [auth A] MOL2 format, chain PA [auth B] MOL2 format, chain PB [auth D] MOL2 format, chain PD [auth G] MOL2 format, chain PE [auth I] MOL2 format, chain Q [auth A] MOL2 format, chain QA [auth B] MOL2 format, chain QB [auth D] MOL2 format, chain QC [auth F] MOL2 format, chain QD [auth G] MOL2 format, chain QE [auth I] MOL2 format, chain R [auth A] MOL2 format, chain RA [auth B] MOL2 format, chain RB [auth E] MOL2 format, chain RC [auth K] MOL2 format, chain RD [auth G] MOL2 format, chain S [auth A] MOL2 format, chain SA [auth B] MOL2 format, chain SB [auth E] MOL2 format, chain SC [auth K] MOL2 format, chain SD [auth G] MOL2 format, chain T [auth A] MOL2 format, chain TA [auth B] MOL2 format, chain TB [auth E] MOL2 format, chain TC [auth K] MOL2 format, chain TD [auth G] MOL2 format, chain U [auth A] MOL2 format, chain UA [auth B] MOL2 format, chain UB [auth E] MOL2 format, chain UC [auth K] MOL2 format, chain V [auth A] MOL2 format, chain VA [auth B] MOL2 format, chain VB [auth E] MOL2 format, chain VC [auth K] MOL2 format, chain W [auth A] MOL2 format, chain WA [auth B] MOL2 format, chain WB [auth E] MOL2 format, chain WC [auth K] MOL2 format, chain WE [auth J] MOL2 format, chain X [auth A] MOL2 format, chain XA [auth B] MOL2 format, chain XB [auth E] MOL2 format, chain XC [auth K] MOL2 format, chain Y [auth A] MOL2 format, chain YA [auth B] MOL2 format, chain YB [auth E] MOL2 format, chain YC [auth K] MOL2 format, chain YD [auth H] MOL2 format, chain Z [auth A] MOL2 format, chain ZA [auth B] MOL2 format, chain ZB [auth E] MOL2 format, chain ZC [auth K] MOL2 format, chain ZD [auth H] mmCIF format, chain AA [auth A] mmCIF format, chain AB [auth B] mmCIF format, chain AC [auth E] mmCIF format, chain AD [auth K] mmCIF format, chain AE [auth H] mmCIF format, chain BA [auth A] mmCIF format, chain BB [auth B] mmCIF format, chain BC [auth E] mmCIF format, chain BD [auth K] mmCIF format, chain BE [auth I] mmCIF format, chain CA [auth A] mmCIF format, chain CB [auth B] mmCIF format, chain CC [auth E] mmCIF format, chain CD [auth K] mmCIF format, chain CE [auth I] mmCIF format, chain DA [auth A] mmCIF format, chain DB [auth B] mmCIF format, chain DC [auth E] mmCIF format, chain DD [auth K] mmCIF format, chain DE [auth I] mmCIF format, chain EA [auth A] mmCIF format, chain EB [auth B] mmCIF format, chain EC [auth E] mmCIF format, chain ED [auth K] mmCIF format, chain EE [auth I] mmCIF format, chain FA [auth A] mmCIF format, chain FB [auth B] mmCIF format, chain FC [auth E] mmCIF format, chain FE [auth I] mmCIF format, chain GA [auth A] mmCIF format, chain GB [auth B] mmCIF format, chain GC [auth E] mmCIF format, chain GE [auth I] mmCIF format, chain HA [auth A] mmCIF format, chain HB [auth B] mmCIF format, chain HC [auth E] mmCIF format, chain HE [auth I] mmCIF format, chain IB [auth B] mmCIF format, chain IC [auth E] mmCIF format, chain IE [auth I] mmCIF format, chain JC [auth E] mmCIF format, chain JD [auth G] mmCIF format, chain JE [auth I] mmCIF format, chain KC [auth E] mmCIF format, chain KD [auth G] mmCIF format, chain KE [auth I] mmCIF format, chain LD [auth G] mmCIF format, chain LE [auth I] mmCIF format, chain M [auth A] mmCIF format, chain MD [auth G] mmCIF format, chain ME [auth I] mmCIF format, chain N [auth A] mmCIF format, chain NA [auth B] mmCIF format, chain ND [auth G] mmCIF format, chain NE [auth I] mmCIF format, chain O [auth A] mmCIF format, chain OA [auth B] mmCIF format, chain OB [auth D] mmCIF format, chain OD [auth G] mmCIF format, chain OE [auth I] mmCIF format, chain P [auth A] mmCIF format, chain PA [auth B] mmCIF format, chain PB [auth D] mmCIF format, chain PD [auth G] mmCIF format, chain PE [auth I] mmCIF format, chain Q [auth A] mmCIF format, chain QA [auth B] mmCIF format, chain QB [auth D] mmCIF format, chain QC [auth F] mmCIF format, chain QD [auth G] mmCIF format, chain QE [auth I] mmCIF format, chain R [auth A] mmCIF format, chain RA [auth B] mmCIF format, chain RB [auth E] mmCIF format, chain RC [auth K] mmCIF format, chain RD [auth G] mmCIF format, chain S [auth A] mmCIF format, chain SA [auth B] mmCIF format, chain SB [auth E] mmCIF format, chain SC [auth K] mmCIF format, chain SD [auth G] mmCIF format, chain T [auth A] mmCIF format, chain TA [auth B] mmCIF format, chain TB [auth E] mmCIF format, chain TC [auth K] mmCIF format, chain TD [auth G] mmCIF format, chain U [auth A] mmCIF format, chain UA [auth B] mmCIF format, chain UB [auth E] mmCIF format, chain UC [auth K] mmCIF format, chain V [auth A] mmCIF format, chain VA [auth B] mmCIF format, chain VB [auth E] mmCIF format, chain VC [auth K] mmCIF format, chain W [auth A] mmCIF format, chain WA [auth B] mmCIF format, chain WB [auth E] mmCIF format, chain WC [auth K] mmCIF format, chain WE [auth J] mmCIF format, chain X [auth A] mmCIF format, chain XA [auth B] mmCIF format, chain XB [auth E] mmCIF format, chain XC [auth K] mmCIF format, chain Y [auth A] mmCIF format, chain YA [auth B] mmCIF format, chain YB [auth E] mmCIF format, chain YC [auth K] mmCIF format, chain YD [auth H] mmCIF format, chain Z [auth A] mmCIF format, chain ZA [auth B] mmCIF format, chain ZB [auth E] mmCIF format, chain ZC [auth K] mmCIF format, chain ZD [auth H]	AA [auth A] AB [auth B] AC [auth E] AD [auth K] AE [auth H] AA [auth A], AB [auth B], AC [auth E], AD [auth K], AE [auth H], BA [auth A], BB [auth B], BC [auth E], BD [auth K], BE [auth I], CA [auth A], CB [auth B], CC [auth E], CD [auth K], CE [auth I], DA [auth A], DB [auth B], DC [auth E], DD [auth K], DE [auth I], EA [auth A], EB [auth B], EC [auth E], ED [auth K], EE [auth I], FA [auth A], FB [auth B], FC [auth E], FE [auth I], GA [auth A], GB [auth B], GC [auth E], GE [auth I], HA [auth A], HB [auth B], HC [auth E], HE [auth I], IB [auth B], IC [auth E], IE [auth I], JC [auth E], JD [auth G], JE [auth I], KC [auth E], KD [auth G], KE [auth I], LD [auth G], LE [auth I], M [auth A], MD [auth G], ME [auth I], N [auth A], NA [auth B], ND [auth G], NE [auth I], O [auth A], OA [auth B], OB [auth D], OD [auth G], OE [auth I], P [auth A], PA [auth B], PB [auth D], PD [auth G], PE [auth I], Q [auth A], QA [auth B], QB [auth D], QC [auth F], QD [auth G], QE [auth I], R [auth A], RA [auth B], RB [auth E], RC [auth K], RD [auth G], S [auth A], SA [auth B], SB [auth E], SC [auth K], SD [auth G], T [auth A], TA [auth B], TB [auth E], TC [auth K], TD [auth G], U [auth A], UA [auth B], UB [auth E], UC [auth K], V [auth A], VA [auth B], VB [auth E], VC [auth K], W [auth A], WA [auth B], WB [auth E], WC [auth K], WE [auth J], X [auth A], XA [auth B], XB [auth E], XC [auth K], Y [auth A], YA [auth B], YB [auth E], YC [auth K], YD [auth H], Z [auth A], ZA [auth B], ZB [auth E], ZC [auth K], ZD [auth H]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain AA [auth A] Focus chain AB [auth B] Focus chain AC [auth E] Focus chain AD [auth K] Focus chain AE [auth H] Focus chain BA [auth A] Focus chain BB [auth B] Focus chain BC [auth E] Focus chain BD [auth K] Focus chain BE [auth I] Focus chain CA [auth A] Focus chain CB [auth B] Focus chain CC [auth E] Focus chain CD [auth K] Focus chain CE [auth I] Focus chain DA [auth A] Focus chain DB [auth B] Focus chain DC [auth E] Focus chain DD [auth K] Focus chain DE [auth I] Focus chain EA [auth A] Focus chain EB [auth B] Focus chain EC [auth E] Focus chain ED [auth K] Focus chain EE [auth I] Focus chain FA [auth A] Focus chain FB [auth B] Focus chain FC [auth E] Focus chain FE [auth I] Focus chain GA [auth A] Focus chain GB [auth B] Focus chain GC [auth E] Focus chain GE [auth I] Focus chain HA [auth A] Focus chain HB [auth B] Focus chain HC [auth E] Focus chain HE [auth I] Focus chain IB [auth B] Focus chain IC [auth E] Focus chain IE [auth I] Focus chain JC [auth E] Focus chain JD [auth G] Focus chain JE [auth I] Focus chain KC [auth E] Focus chain KD [auth G] Focus chain KE [auth I] Focus chain LD [auth G] Focus chain LE [auth I] Focus chain M [auth A] Focus chain MD [auth G] Focus chain ME [auth I] Focus chain N [auth A] Focus chain NA [auth B] Focus chain ND [auth G] Focus chain NE [auth I] Focus chain O [auth A] Focus chain OA [auth B] Focus chain OB [auth D] Focus chain OD [auth G] Focus chain OE [auth I] Focus chain P [auth A] Focus chain PA [auth B] Focus chain PB [auth D] Focus chain PD [auth G] Focus chain PE [auth I] Focus chain Q [auth A] Focus chain QA [auth B] Focus chain QB [auth D] Focus chain QC [auth F] Focus chain QD [auth G] Focus chain QE [auth I] Focus chain R [auth A] Focus chain RA [auth B] Focus chain RB [auth E] Focus chain RC [auth K] Focus chain RD [auth G] Focus chain S [auth A] Focus chain SA [auth B] Focus chain SB [auth E] Focus chain SC [auth K] Focus chain SD [auth G] Focus chain T [auth A] Focus chain TA [auth B] Focus chain TB [auth E] Focus chain TC [auth K] Focus chain TD [auth G] Focus chain U [auth A] Focus chain UA [auth B] Focus chain UB [auth E] Focus chain UC [auth K] Focus chain V [auth A] Focus chain VA [auth B] Focus chain VB [auth E] Focus chain VC [auth K] Focus chain W [auth A] Focus chain WA [auth B] Focus chain WB [auth E] Focus chain WC [auth K] Focus chain WE [auth J] Focus chain X [auth A] Focus chain XA [auth B] Focus chain XB [auth E] Focus chain XC [auth K] Focus chain Y [auth A] Focus chain YA [auth B] Focus chain YB [auth E] Focus chain YC [auth K] Focus chain YD [auth H] Focus chain Z [auth A] Focus chain ZA [auth B] Focus chain ZB [auth E] Focus chain ZC [auth K] Focus chain ZD [auth H] Interactions & Density Focus chain AA [auth A] Focus chain AB [auth B] Focus chain AC [auth E] Focus chain AD [auth K] Focus chain AE [auth H] Focus chain BA [auth A] Focus chain BB [auth B] Focus chain BC [auth E] Focus chain BD [auth K] Focus chain BE [auth I] Focus chain CA [auth A] Focus chain CB [auth B] Focus chain CC [auth E] Focus chain CD [auth K] Focus chain CE [auth I] Focus chain DA [auth A] Focus chain DB [auth B] Focus chain DC [auth E] Focus chain DD [auth K] Focus chain DE [auth I] Focus chain EA [auth A] Focus chain EB [auth B] Focus chain EC [auth E] Focus chain ED [auth K] Focus chain EE [auth I] Focus chain FA [auth A] Focus chain FB [auth B] Focus chain FC [auth E] Focus chain FE [auth I] Focus chain GA [auth A] Focus chain GB [auth B] Focus chain GC [auth E] Focus chain GE [auth I] Focus chain HA [auth A] Focus chain HB [auth B] Focus chain HC [auth E] Focus chain HE [auth I] Focus chain IB [auth B] Focus chain IC [auth E] Focus chain IE [auth I] Focus chain JC [auth E] Focus chain JD [auth G] Focus chain JE [auth I] Focus chain KC [auth E] Focus chain KD [auth G] Focus chain KE [auth I] Focus chain LD [auth G] Focus chain LE [auth I] Focus chain M [auth A] Focus chain MD [auth G] Focus chain ME [auth I] Focus chain N [auth A] Focus chain NA [auth B] Focus chain ND [auth G] Focus chain NE [auth I] Focus chain O [auth A] Focus chain OA [auth B] Focus chain OB [auth D] Focus chain OD [auth G] Focus chain OE [auth I] Focus chain P [auth A] Focus chain PA [auth B] Focus chain PB [auth D] Focus chain PD [auth G] Focus chain PE [auth I] Focus chain Q [auth A] Focus chain QA [auth B] Focus chain QB [auth D] Focus chain QC [auth F] Focus chain QD [auth G] Focus chain QE [auth I] Focus chain R [auth A] Focus chain RA [auth B] Focus chain RB [auth E] Focus chain RC [auth K] Focus chain RD [auth G] Focus chain S [auth A] Focus chain SA [auth B] Focus chain SB [auth E] Focus chain SC [auth K] Focus chain SD [auth G] Focus chain T [auth A] Focus chain TA [auth B] Focus chain TB [auth E] Focus chain TC [auth K] Focus chain TD [auth G] Focus chain U [auth A] Focus chain UA [auth B] Focus chain UB [auth E] Focus chain UC [auth K] Focus chain V [auth A] Focus chain VA [auth B] Focus chain VB [auth E] Focus chain VC [auth K] Focus chain W [auth A] Focus chain WA [auth B] Focus chain WB [auth E] Focus chain WC [auth K] Focus chain WE [auth J] Focus chain X [auth A] Focus chain XA [auth B] Focus chain XB [auth E] Focus chain XC [auth K] Focus chain Y [auth A] Focus chain YA [auth B] Focus chain YB [auth E] Focus chain YC [auth K] Focus chain YD [auth H] Focus chain Z [auth A] Focus chain ZA [auth B] Focus chain ZB [auth E] Focus chain ZC [auth K] Focus chain ZD [auth H]
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain FD [auth K] SDF format, chain GD [auth K] SDF format, chain HD [auth K] SDF format, chain IA [auth A] SDF format, chain JA [auth A] SDF format, chain JB [auth B] SDF format, chain KA [auth A] SDF format, chain KB [auth B] SDF format, chain LA [auth A] SDF format, chain LB [auth B] SDF format, chain LC [auth E] SDF format, chain MA [auth A] SDF format, chain MC [auth E] SDF format, chain NC [auth E] SDF format, chain OC [auth E] SDF format, chain RE [auth I] SDF format, chain SE [auth I] SDF format, chain TE [auth I] SDF format, chain UD [auth G] SDF format, chain UE [auth I] SDF format, chain VD [auth G] SDF format, chain WD [auth G] MOL2 format, chain FD [auth K] MOL2 format, chain GD [auth K] MOL2 format, chain HD [auth K] MOL2 format, chain IA [auth A] MOL2 format, chain JA [auth A] MOL2 format, chain JB [auth B] MOL2 format, chain KA [auth A] MOL2 format, chain KB [auth B] MOL2 format, chain LA [auth A] MOL2 format, chain LB [auth B] MOL2 format, chain LC [auth E] MOL2 format, chain MA [auth A] MOL2 format, chain MC [auth E] MOL2 format, chain NC [auth E] MOL2 format, chain OC [auth E] MOL2 format, chain RE [auth I] MOL2 format, chain SE [auth I] MOL2 format, chain TE [auth I] MOL2 format, chain UD [auth G] MOL2 format, chain UE [auth I] MOL2 format, chain VD [auth G] MOL2 format, chain WD [auth G] mmCIF format, chain FD [auth K] mmCIF format, chain GD [auth K] mmCIF format, chain HD [auth K] mmCIF format, chain IA [auth A] mmCIF format, chain JA [auth A] mmCIF format, chain JB [auth B] mmCIF format, chain KA [auth A] mmCIF format, chain KB [auth B] mmCIF format, chain LA [auth A] mmCIF format, chain LB [auth B] mmCIF format, chain LC [auth E] mmCIF format, chain MA [auth A] mmCIF format, chain MC [auth E] mmCIF format, chain NC [auth E] mmCIF format, chain OC [auth E] mmCIF format, chain RE [auth I] mmCIF format, chain SE [auth I] mmCIF format, chain TE [auth I] mmCIF format, chain UD [auth G] mmCIF format, chain UE [auth I] mmCIF format, chain VD [auth G] mmCIF format, chain WD [auth G]	FD [auth K] GD [auth K] HD [auth K] IA [auth A] JA [auth A] FD [auth K], GD [auth K], HD [auth K], IA [auth A], JA [auth A], JB [auth B], KA [auth A], KB [auth B], LA [auth A], LB [auth B], LC [auth E], MA [auth A], MC [auth E], NC [auth E], OC [auth E], RE [auth I], SE [auth I], TE [auth I], UD [auth G], UE [auth I], VD [auth G], WD [auth G]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain FD [auth K] Focus chain GD [auth K] Focus chain HD [auth K] Focus chain IA [auth A] Focus chain JA [auth A] Focus chain JB [auth B] Focus chain KA [auth A] Focus chain KB [auth B] Focus chain LA [auth A] Focus chain LB [auth B] Focus chain LC [auth E] Focus chain MA [auth A] Focus chain MC [auth E] Focus chain NC [auth E] Focus chain OC [auth E] Focus chain RE [auth I] Focus chain SE [auth I] Focus chain TE [auth I] Focus chain UD [auth G] Focus chain UE [auth I] Focus chain VD [auth G] Focus chain WD [auth G] Interactions & Density Focus chain FD [auth K] Focus chain GD [auth K] Focus chain HD [auth K] Focus chain IA [auth A] Focus chain JA [auth A] Focus chain JB [auth B] Focus chain KA [auth A] Focus chain KB [auth B] Focus chain LA [auth A] Focus chain LB [auth B] Focus chain LC [auth E] Focus chain MA [auth A] Focus chain MC [auth E] Focus chain NC [auth E] Focus chain OC [auth E] Focus chain RE [auth I] Focus chain SE [auth I] Focus chain TE [auth I] Focus chain UD [auth G] Focus chain UE [auth I] Focus chain VD [auth G] Focus chain WD [auth G]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.11 Å
R-Value Free: 0.193
R-Value Work: 0.160
R-Value Observed: 0.162
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 117.9	α = 90
b = 121.1	β = 90
c = 167.3	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
DENZO	data reduction
PHASER	phasing
SCALEPACK	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2012-10-31

Deposition Author(s):

Schellenberg, M.J.

Williams, R.S.

Revision History (Full details and data files)

Version 1.0: 2012-10-31
Type: Initial release
Version 1.1: 2012-11-21
Changes: Database references
Version 1.2: 2012-11-28
Changes: Database references
Version 1.3: 2013-01-02
Changes: Database references
Version 1.4: 2019-07-17
Changes: Data collection, Derived calculations, Refinement description
Version 1.5: 2024-02-28
Changes: Data collection, Database references, Derived calculations