3G7X | pdb_00003g7x

Female-specific histamine-binding protein 2, D24R mutant

PDB DOI: https://doi.org/10.2210/pdb3G7X/pdb

Classification: IMMUNE SYSTEM
Organism(s): Rhipicephalus appendiculatus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2009-02-11 Released: 2010-02-16
Deposition Author(s): Dennis, C.A., Homans, S.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free:
0.214 (Depositor), 0.213 (DCC)
R-Value Work:
0.179 (Depositor), 0.195 (DCC)
R-Value Observed:
0.181 (Depositor)

Starting Model: experimental
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This is version 1.4 of the entry. See complete history.

Literature

Entropic contributions to binding in a 'Hydrophilic' Ligand-Protein Interaction

Syme, N.R., Dennis, C.A., Bronowska, A., Paesen, G., Homans, S.W.

To be published.

Macromolecule Content

Total Structure Weight: 39.55 kDa
Atom Count: 3,282
Modeled Residue Count: 341
Deposited Residue Count: 342
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Female-specific histamine-binding protein 2	A, B	171	Rhipicephalus appendiculatus	Mutation(s): 1
UniProt
Find proteins for O77421 (Rhipicephalus appendiculatus) Explore O77421 Go to UniProtKB: O77421
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O77421
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HSM Query on HSM Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain F [auth B] MOL2 format, chain C [auth A] MOL2 format, chain F [auth B] mmCIF format, chain C [auth A] mmCIF format, chain F [auth B]	C [auth A], F [auth B]	HISTAMINE C₅ H₉ N₃ NTYJJOPFIAHURM-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain F [auth B] Interactions & Density Focus chain C [auth A] Focus chain F [auth B]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain G [auth B] SDF format, chain E [auth A] SDF format, chain D [auth A] MOL2 format, chain G [auth B] MOL2 format, chain E [auth A] MOL2 format, chain D [auth A] mmCIF format, chain G [auth B] mmCIF format, chain E [auth A] mmCIF format, chain D [auth A]	D [auth A], E [auth A], G [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain G [auth B] Interactions & Density Focus chain D [auth A] Focus chain E [auth A] Focus chain G [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.214 (Depositor), 0.213 (DCC)
R-Value Work: 0.179 (Depositor), 0.195 (DCC)
R-Value Observed: 0.181 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.225	α = 90
b = 78.728	β = 90
c = 77.651	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
AMoRE	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2010-02-16

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-02-16
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2021-10-20
Changes: Database references, Derived calculations
Version 1.3: 2023-09-06
Changes: Data collection, Refinement description
Version 1.4: 2024-10-30
Changes: Structure summary

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.