6VCS

SRA domain of UHRF1 in complex with DNA

PDB DOI: https://doi.org/10.2210/pdb6VCS/pdb
NAKB: 6VCS

Classification: DNA BINDING PROTEIN/DNA
Organism(s): Homo sapiens, synthetic construct
Expression System: Escherichia coli BL21(DE3), Escherichia coli
Mutation(s): No

Deposited: 2019-12-22 Released: 2020-03-04
Deposition Author(s): Dong, C., Tempel, W., Bountra, C., Edwards, A.M., Arrowsmith, C.H., Min, J., Structural Genomics Consortium (SGC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.258
R-Value Work: 0.237
R-Value Observed: 0.238

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

SRA domain of UHRF1 in complex with DNA

Dong, C., Tempel, W., Bountra, C., Edwards, A.M., Arrowsmith, C.H., Min, J., Structural Genomics Consortium (SGC)

To be published.

Macromolecule Content

Total Structure Weight: 78.95 kDa
Atom Count: 5,084
Modelled Residue Count: 595
Deposited Residue Count: 663
Unique protein chains: 2
Unique nucleic acid chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
E3 ubiquitin-protein ligase UHRF1	A, B, E	211	Homo sapiens	Mutation(s): 0 Gene Names: UHRF1, ICBP90, NP95, RNF106
UniProt & NIH Common Fund Data Resources
Find proteins for Q96T88 (Homo sapiens) Explore Q96T88 Go to UniProtKB: Q96T88
PHAROS: Q96T88 GTEx: ENSG00000276043
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q96T88
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
UNK-UNK-UNK-UNK	F [auth G]	6	Homo sapiens	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(GPCPCPTPGPTPAPCPAPGPGPC)-3')	C, D	12	synthetic construct
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
UNX Query on UNX Download Ideal Coordinates CCD File SDF format, chain AA [auth A] SDF format, chain AB [auth B] SDF format, chain BA [auth A] SDF format, chain BB [auth B] SDF format, chain CA [auth A] SDF format, chain CB [auth B] SDF format, chain DA [auth A] SDF format, chain DB [auth B] SDF format, chain EA [auth A] SDF format, chain EB [auth B] SDF format, chain FA [auth A] SDF format, chain FB [auth B] SDF format, chain G [auth A] SDF format, chain GA [auth A] SDF format, chain GB [auth B] SDF format, chain H [auth A] SDF format, chain HA [auth A] SDF format, chain HB [auth B] SDF format, chain I [auth A] SDF format, chain IA [auth A] SDF format, chain IB [auth E] SDF format, chain J [auth A] SDF format, chain JA [auth B] SDF format, chain JB [auth E] SDF format, chain K [auth A] SDF format, chain KA [auth B] SDF format, chain KB [auth E] SDF format, chain L [auth A] SDF format, chain LA [auth B] SDF format, chain LB [auth E] SDF format, chain M [auth A] SDF format, chain MA [auth B] SDF format, chain MB [auth E] SDF format, chain N [auth A] SDF format, chain NA [auth B] SDF format, chain NB [auth E] SDF format, chain O [auth A] SDF format, chain OA [auth B] SDF format, chain OB [auth E] SDF format, chain P [auth A] SDF format, chain PA [auth B] SDF format, chain PB [auth E] SDF format, chain Q [auth A] SDF format, chain QA [auth B] SDF format, chain QB [auth E] SDF format, chain R [auth A] SDF format, chain RA [auth B] SDF format, chain RB [auth E] SDF format, chain S [auth A] SDF format, chain SA [auth B] SDF format, chain SB [auth E] SDF format, chain T [auth A] SDF format, chain TA [auth B] SDF format, chain TB [auth E] SDF format, chain U [auth A] SDF format, chain UA [auth B] SDF format, chain V [auth A] SDF format, chain VA [auth B] SDF format, chain W [auth A] SDF format, chain WA [auth B] SDF format, chain X [auth A] SDF format, chain XA [auth B] SDF format, chain Y [auth A] SDF format, chain YA [auth B] SDF format, chain Z [auth A] SDF format, chain ZA [auth B] MOL2 format, chain AA [auth A] MOL2 format, chain AB [auth B] MOL2 format, chain BA [auth A] MOL2 format, chain BB [auth B] MOL2 format, chain CA [auth A] MOL2 format, chain CB [auth B] MOL2 format, chain DA [auth A] MOL2 format, chain DB [auth B] MOL2 format, chain EA [auth A] MOL2 format, chain EB [auth B] MOL2 format, chain FA [auth A] MOL2 format, chain FB [auth B] MOL2 format, chain G [auth A] MOL2 format, chain GA [auth A] MOL2 format, chain GB [auth B] MOL2 format, chain H [auth A] MOL2 format, chain HA [auth A] MOL2 format, chain HB [auth B] MOL2 format, chain I [auth A] MOL2 format, chain IA [auth A] MOL2 format, chain IB [auth E] MOL2 format, chain J [auth A] MOL2 format, chain JA [auth B] MOL2 format, chain JB [auth E] MOL2 format, chain K [auth A] MOL2 format, chain KA [auth B] MOL2 format, chain KB [auth E] MOL2 format, chain L [auth A] MOL2 format, chain LA [auth B] MOL2 format, chain LB [auth E] MOL2 format, chain M [auth A] MOL2 format, chain MA [auth B] MOL2 format, chain MB [auth E] MOL2 format, chain N [auth A] MOL2 format, chain NA [auth B] MOL2 format, chain NB [auth E] MOL2 format, chain O [auth A] MOL2 format, chain OA [auth B] MOL2 format, chain OB [auth E] MOL2 format, chain P [auth A] MOL2 format, chain PA [auth B] MOL2 format, chain PB [auth E] MOL2 format, chain Q [auth A] MOL2 format, chain QA [auth B] MOL2 format, chain QB [auth E] MOL2 format, chain R [auth A] MOL2 format, chain RA [auth B] MOL2 format, chain RB [auth E] MOL2 format, chain S [auth A] MOL2 format, chain SA [auth B] MOL2 format, chain SB [auth E] MOL2 format, chain T [auth A] MOL2 format, chain TA [auth B] MOL2 format, chain TB [auth E] MOL2 format, chain U [auth A] MOL2 format, chain UA [auth B] MOL2 format, chain V [auth A] MOL2 format, chain VA [auth B] MOL2 format, chain W [auth A] MOL2 format, chain WA [auth B] MOL2 format, chain X [auth A] MOL2 format, chain XA [auth B] MOL2 format, chain Y [auth A] MOL2 format, chain YA [auth B] MOL2 format, chain Z [auth A] MOL2 format, chain ZA [auth B]	AA [auth A] AB [auth B] BA [auth A] BB [auth B] CA [auth A] AA [auth A], AB [auth B], BA [auth A], BB [auth B], CA [auth A], CB [auth B], DA [auth A], DB [auth B], EA [auth A], EB [auth B], FA [auth A], FB [auth B], G [auth A], GA [auth A], GB [auth B], H [auth A], HA [auth A], HB [auth B], I [auth A], IA [auth A], IB [auth E], J [auth A], JA [auth B], JB [auth E], K [auth A], KA [auth B], KB [auth E], L [auth A], LA [auth B], LB [auth E], M [auth A], MA [auth B], MB [auth E], N [auth A], NA [auth B], NB [auth E], O [auth A], OA [auth B], OB [auth E], P [auth A], PA [auth B], PB [auth E], Q [auth A], QA [auth B], QB [auth E], R [auth A], RA [auth B], RB [auth E], S [auth A], SA [auth B], SB [auth E], T [auth A], TA [auth B], TB [auth E], U [auth A], UA [auth B], V [auth A], VA [auth B], W [auth A], WA [auth B], X [auth A], XA [auth B], Y [auth A], YA [auth B], Z [auth A], ZA [auth B]	UNKNOWN ATOM OR ION X		Interactions Focus chain AA [auth A] Focus chain AB [auth B] Focus chain BA [auth A] Focus chain BB [auth B] Focus chain CA [auth A] Focus chain CB [auth B] Focus chain DA [auth A] Focus chain DB [auth B] Focus chain EA [auth A] Focus chain EB [auth B] Focus chain FA [auth A] Focus chain FB [auth B] Focus chain G [auth A] Focus chain GA [auth A] Focus chain GB [auth B] Focus chain H [auth A] Focus chain HA [auth A] Focus chain HB [auth B] Focus chain I [auth A] Focus chain IA [auth A] Focus chain IB [auth E] Focus chain J [auth A] Focus chain JA [auth B] Focus chain JB [auth E] Focus chain K [auth A] Focus chain KA [auth B] Focus chain KB [auth E] Focus chain L [auth A] Focus chain LA [auth B] Focus chain LB [auth E] Focus chain M [auth A] Focus chain MA [auth B] Focus chain MB [auth E] Focus chain N [auth A] Focus chain NA [auth B] Focus chain NB [auth E] Focus chain O [auth A] Focus chain OA [auth B] Focus chain OB [auth E] Focus chain P [auth A] Focus chain PA [auth B] Focus chain PB [auth E] Focus chain Q [auth A] Focus chain QA [auth B] Focus chain QB [auth E] Focus chain R [auth A] Focus chain RA [auth B] Focus chain RB [auth E] Focus chain S [auth A] Focus chain SA [auth B] Focus chain SB [auth E] Focus chain T [auth A] Focus chain TA [auth B] Focus chain TB [auth E] Focus chain U [auth A] Focus chain UA [auth B] Focus chain V [auth A] Focus chain VA [auth B] Focus chain W [auth A] Focus chain WA [auth B] Focus chain X [auth A] Focus chain XA [auth B] Focus chain Y [auth A] Focus chain YA [auth B] Focus chain Z [auth A] Focus chain ZA [auth B] Interactions & Density Focus chain AA [auth A] Focus chain AB [auth B] Focus chain BA [auth A] Focus chain BB [auth B] Focus chain CA [auth A] Focus chain CB [auth B] Focus chain DA [auth A] Focus chain DB [auth B] Focus chain EA [auth A] Focus chain EB [auth B] Focus chain FA [auth A] Focus chain FB [auth B] Focus chain G [auth A] Focus chain GA [auth A] Focus chain GB [auth B] Focus chain H [auth A] Focus chain HA [auth A] Focus chain HB [auth B] Focus chain I [auth A] Focus chain IA [auth A] Focus chain IB [auth E] Focus chain J [auth A] Focus chain JA [auth B] Focus chain JB [auth E] Focus chain K [auth A] Focus chain KA [auth B] Focus chain KB [auth E] Focus chain L [auth A] Focus chain LA [auth B] Focus chain LB [auth E] Focus chain M [auth A] Focus chain MA [auth B] Focus chain MB [auth E] Focus chain N [auth A] Focus chain NA [auth B] Focus chain NB [auth E] Focus chain O [auth A] Focus chain OA [auth B] Focus chain OB [auth E] Focus chain P [auth A] Focus chain PA [auth B] Focus chain PB [auth E] Focus chain Q [auth A] Focus chain QA [auth B] Focus chain QB [auth E] Focus chain R [auth A] Focus chain RA [auth B] Focus chain RB [auth E] Focus chain S [auth A] Focus chain SA [auth B] Focus chain SB [auth E] Focus chain T [auth A] Focus chain TA [auth B] Focus chain TB [auth E] Focus chain U [auth A] Focus chain UA [auth B] Focus chain V [auth A] Focus chain VA [auth B] Focus chain W [auth A] Focus chain WA [auth B] Focus chain X [auth A] Focus chain XA [auth B] Focus chain Y [auth A] Focus chain YA [auth B] Focus chain Z [auth A] Focus chain ZA [auth B]