2B7H | pdb_00002b7h

Hemoglobin from Cerdocyon thous, a canidae from Brazil, at 2.2 Angstroms resolution

PDB DOI: https://doi.org/10.2210/pdb2B7H/pdb

Classification: OXYGEN STORAGE/TRANSPORT
Organism(s): Cerdocyon thous
Mutation(s): No

Deposited: 2005-10-04 Released: 2006-09-12
Deposition Author(s): Esteves, G.F., Silva, V.C., Bloch Jr., C., Medrano, F.J., Barbosa, J.A.R.G., Freitas, S.M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free:
0.233 (Depositor), 0.234 (DCC)
R-Value Work:
0.165 (Depositor), 0.167 (DCC)
R-Value Observed:
0.169 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure and biophysical characterization of the Cerdocyon thous, a Canidae from Brazil.

Esteves, G.F., Silva, V.C., Bloch Jr., C., Medrano, F.J., Barbosa, J.A.R.G., Freitas, S.M.

To be published.

Macromolecule Content

Total Structure Weight: 65.3 kDa
Atom Count: 5,037
Modeled Residue Count: 571
Deposited Residue Count: 574
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hemoglobin alpha chain	A, C	141	Cerdocyon thous	Mutation(s): 0
UniProt
Find proteins for P60523 (Chrysocyon brachyurus) Explore P60523 Go to UniProtKB: P60523
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P60523
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
hemoglobin beta chain	B, D	146	Cerdocyon thous	Mutation(s): 0
UniProt
Find proteins for P60526 (Chrysocyon brachyurus) Explore P60526 Go to UniProtKB: P60526
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P60526
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM Query on HEM Download:Ideal Coordinates CCD File SDF format, chain J [auth D] SDF format, chain I [auth C] SDF format, chain G [auth B] SDF format, chain F [auth A] MOL2 format, chain J [auth D] MOL2 format, chain I [auth C] MOL2 format, chain G [auth B] MOL2 format, chain F [auth A] mmCIF format, chain J [auth D] mmCIF format, chain I [auth C] mmCIF format, chain G [auth B] mmCIF format, chain F [auth A]	F [auth A], G [auth B], I [auth C], J [auth D]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain F [auth A] Focus chain G [auth B] Focus chain I [auth C] Focus chain J [auth D] Interactions & Density Focus chain F [auth A] Focus chain G [auth B] Focus chain I [auth C] Focus chain J [auth D]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain H [auth C] SDF format, chain E [auth A] MOL2 format, chain H [auth C] MOL2 format, chain E [auth A] mmCIF format, chain H [auth C] mmCIF format, chain E [auth A]	E [auth A], H [auth C]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain E [auth A] Focus chain H [auth C] Interactions & Density Focus chain E [auth A] Focus chain H [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.233 (Depositor), 0.234 (DCC)
R-Value Work: 0.165 (Depositor), 0.167 (DCC)
R-Value Observed: 0.169 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.731	α = 90
b = 84.237	β = 90
c = 130.285	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2006-09-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2006-09-12
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.3: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description