Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: native gel electrophoresis

Macromolecule Content

• Total Structure Weight: 37544.70 
• Atom Count: 2404 
• Residue Count: 295 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

6NLC

Crystal structure of HMCES SRAP domain in complex with 6-nucleotide 3' overhang DNA

• DOI: 10.2210/pdb6NLC/pdb

• Classification: DNA BINDING PROTEIN/DNA
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli


• Deposited: 2019-01-08 Released: 2019-01-30 
• Deposition Author(s): Halabelian, L., Ravichandran, M., Li, Y., Zeng, H., Bountra, C., Edwards, A.M., Arrowsmith, C.H., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.274 
• R-Value Work: 0.221 

Literature

Crystal structure of HMCES SRAP domain in complex with 3' overhang DNA

Halabelian, L., Li, Y., Ravichandran, M., Zeng, H., Bountra, C., Edwards, A.M., Arrowsmith, C.H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein	A	277	Homo sapiens	Mutation(s): 0  Gene Names: HMCES (C3orf37, DC12, SRAPD1)
Find proteins for Q96FZ2 (Homo sapiens) Go to Gene View: HMCES Go to UniProtKB:  Q96FZ2

Entity ID: 2
Molecule	Chains	Length	Organism
DNA (5'-D(*CP*CP*AP*GP*AP*CP*GP*TP*TP*G)-3')	B	12	synthetic construct

Entity ID: 3
Molecule	Chains	Length	Organism
DNA (5'-D(*GP*TP*CP*TP*GP*G)-3')	C	6	synthetic construct

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
UNX	A, B	UNKNOWN ATOM OR ION X *
EDO	A, C	1,2-ETHANEDIOL ETHYLENE GLYCOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.274 
• R-Value Work: 0.221 
• Space Group: I 1 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 55.863	α = 90.00
b = 52.060	β = 93.11
c = 148.309	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2019-01-08 
• Released Date: 2019-01-30 
• Deposition Author(s): Halabelian, L., Ravichandran, M., Li, Y., Zeng, H., Bountra, C., Edwards, A.M., Arrowsmith, C.H., Structural Genomics Consortium (SGC)

Revision History 

• Version 1.0: 2019-01-30
  Type: Initial release