4X1V | pdb_00004x1v

Crystal structure of the 2nd SH3 domain from human CD2AP (CMS) in complex with a proline-rich peptide (aa 76-91) from human ARAP1

PDB DOI: https://doi.org/10.2210/pdb4X1V/pdb

Classification: SIGNALING PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2014-11-25 Released: 2016-02-17
Deposition Author(s): Rouka, E., Krojer, T., von Delft, F., Knapp, S., Kirsch, K.H., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Feller, S.M., Simister, P.C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.58 Å
R-Value Free:
0.200 (Depositor), 0.210 (DCC)
R-Value Work:
0.160 (Depositor), 0.170 (DCC)
R-Value Observed:
0.162 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of the 2nd SH3 domain from human CD2AP (CMS) in complex with a proline-rich peptide (aa 76-91) from human ARAP1

Rouka, E., Feller, S.M., Simister, P.C.

To be published.

Macromolecule Content

Total Structure Weight: 9.43 kDa
Atom Count: 681
Modelled Residue Count: 74
Deposited Residue Count: 81
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CD2-associated protein	A	65	Homo sapiens	Mutation(s): 0 Gene Names: CD2AP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y5K6 (Homo sapiens) Explore Q9Y5K6 Go to UniProtKB: Q9Y5K6
PHAROS: Q9Y5K6 GTEx: ENSG00000198087
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9Y5K6
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1	B	16	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q96P48 (Homo sapiens) Explore Q96P48 Go to UniProtKB: Q96P48
PHAROS: Q96P48 GTEx: ENSG00000186635
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q96P48
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.58 Å
R-Value Free: 0.200 (Depositor), 0.210 (DCC)
R-Value Work: 0.160 (Depositor), 0.170 (DCC)
R-Value Observed: 0.162 (Depositor)

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.59	α = 90
b = 44.59	β = 90
c = 32.94	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SCALA	data scaling
MOSFLM	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2016-02-17

Deposition Author(s):

Arrowsmith, C.H.

Revision History (Full details and data files)

Version 1.0: 2016-02-17
Type: Initial release
Version 1.1: 2016-02-24
Changes: Other
Version 1.2: 2024-05-08
Changes: Data collection, Database references

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.