2XVT | pdb_00002xvt

Structure of the extracellular domain of human RAMP2

PDB DOI: https://doi.org/10.2210/pdb2XVT/pdb

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

Deposited: 2010-10-31 Released: 2010-12-29
Deposition Author(s): Quigley, A., Pike, A.C.W., Burgess-Brown, N., Krojer, T., Shrestha, L., Goubin, S., Kim, J., Das, S., Muniz, J.R.C., Canning, P., Chaikuad, A., Vollmar, M., von Delft, F., Arrowsmith, C.H., Weigelt, J., Edwards, A.M., Bountra, C., Barr, A.J., Carpenter, E.P.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free:
0.246 (Depositor), 0.250 (DCC)
R-Value Work:
0.197 (Depositor), 0.203 (DCC)
R-Value Observed:
0.199 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Structure of the Extracellular Domain of Human Ramp2

Quigley, A., Pike, A.C.W., Burgess-Brown, N., Krojer, T., Shrestha, L., Goubin, S., Kim, J., Das, S., Muniz, J.R.C., Canning, P., Chaikuad, A., Vollmar, M., von Delft, F., Arrowsmith, C.H., Weigelt, J., Edwards, A.M., Bountra, C., Barr, A.J., Carpenter, E.P.

To be published.

Macromolecule Content

Total Structure Weight: 65.36 kDa
Atom Count: 4,177
Modeled Residue Count: 469
Deposited Residue Count: 564
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RECEPTOR ACTIVITY-MODIFYING PROTEIN 2	A, B, C, D, E A, B, C, D, E, F	94	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O60895 (Homo sapiens) Explore O60895 Go to UniProtKB: O60895
PHAROS: O60895 GTEx: ENSG00000131477
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O60895
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain I [auth F] SDF format, chain H [auth F] SDF format, chain G [auth C] MOL2 format, chain I [auth F] MOL2 format, chain H [auth F] MOL2 format, chain G [auth C] mmCIF format, chain I [auth F] mmCIF format, chain H [auth F] mmCIF format, chain G [auth C]	G [auth C], H [auth F], I [auth F]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain G [auth C] Focus chain H [auth F] Focus chain I [auth F] Interactions & Density Focus chain G [auth C] Focus chain H [auth F] Focus chain I [auth F]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free: 0.246 (Depositor), 0.250 (DCC)
R-Value Work: 0.197 (Depositor), 0.203 (DCC)
R-Value Observed: 0.199 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.759	α = 90
b = 90.984	β = 90
c = 92.056	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

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Entry History

Deposition Data

Released Date: 2010-12-29

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-12-29
Type: Initial release
Version 1.1: 2013-03-06
Changes: Data collection
Version 1.2: 2014-12-10
Changes: Data collection, Version format compliance
Version 1.3: 2018-01-24
Changes: Database references
Version 1.4: 2024-11-13
Changes: Data collection, Database references, Derived calculations, Other, Refinement description, Structure summary

2XVT | pdb_00002xvt

Structure of the extracellular domain of human RAMP2

Literature

Structure of the Extracellular Domain of Human Ramp2

Biological Assembly 1

Biological Assembly 2

Biological Assembly 3

Biological Assembly 4

Biological Assembly 5

Biological Assembly 6

Biological Assembly 7

Biological Assembly 8

Macromolecules

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

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