+
Open data
-
Basic information
Entry | Database: PDB / ID: 1hbr | ||||||
---|---|---|---|---|---|---|---|
Title | R-STATE FORM OF CHICKEN HEMOGLOBIN D | ||||||
![]() | (PROTEIN (HEMOGLOBIN D)) x 2 | ||||||
![]() | OXYGEN STORAGE/TRANSPORT / HEMOGLOBIN D (R-STATE) 1 / HEMOGLOBIN / AVIAN / HIGH COOPERATIITY / OXYGEN TRANSPORT / OXYGEN STORAGE-TRANSPORT COMPLEX | ||||||
Function / homology | ![]() Erythrocytes take up carbon dioxide and release oxygen / Erythrocytes take up oxygen and release carbon dioxide / Scavenging of heme from plasma / cellular oxidant detoxification / hemoglobin binding / haptoglobin-hemoglobin complex / organic acid binding / hemoglobin complex / Neutrophil degranulation / hydrogen peroxide catabolic process ...Erythrocytes take up carbon dioxide and release oxygen / Erythrocytes take up oxygen and release carbon dioxide / Scavenging of heme from plasma / cellular oxidant detoxification / hemoglobin binding / haptoglobin-hemoglobin complex / organic acid binding / hemoglobin complex / Neutrophil degranulation / hydrogen peroxide catabolic process / oxygen carrier activity / oxygen binding / iron ion binding / heme binding / extracellular space / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Knapp, E. / Oliveira, M.A. / Xie, Q. / Ernst, S.R. / Riggs, A.F. / Hackert, M.L. | ||||||
![]() | ![]() Title: The structural and functional analysis of the hemoglobin D component from chicken. Authors: Knapp, J.E. / Oliveira, M.A. / Xie, Q. / Ernst, S.R. / Riggs, A.F. / Hackert, M.L. #1: ![]() Title: Structure of Human Oxyhaemoglobin at 2.1 A Resolution Authors: Shaanan, B. #2: ![]() Title: The Nucleotide Sequence of the Adult Chicken Alpha-Globin Genes Authors: Dodgson, J.B. / Engel, J.D. #3: ![]() Title: Analysis of the Adult Chicken Beta-Globin Gene Authors: Dolan, M. / Dodgson, J.B. / Engel, J.D. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 128.8 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 100 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 672.8 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 689.2 KB | Display | |
Data in XML | ![]() | 15 KB | Display | |
Data in CIF | ![]() | 21.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1hhoS S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.883125, -0.046056, 0.466871), Vector: |
-
Components
#1: Protein | Mass: 15715.911 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() #2: Protein | Mass: 16357.919 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() #3: Chemical | ChemComp-HEM / #4: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.6 Å3/Da / Density % sol: 52.7 % | |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | pH: 7 / Details: pH 7.0 | |||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.5 / Method: unknown | |||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 298 K |
---|---|
Diffraction source | Source: ![]() |
Detector | Type: SDMS / Detector: AREA DETECTOR / Date: Mar 1, 1994 / Details: NO MIRRORS |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→10 Å / Num. obs: 29702 / % possible obs: 99.1 % / Redundancy: 9.6 % / Biso Wilson estimate: 28 Å2 / Rsym value: 8.1 / Net I/σ(I): 15.5 |
Reflection shell | Resolution: 2.3→2.5 Å / Redundancy: 3.6 % / Mean I/σ(I) obs: 2.3 / Rsym value: 23.9 / % possible all: 97.7 |
Reflection | *PLUS Redundancy: 6.8 % / Rmerge(I) obs: 0.068 |
Reflection shell | *PLUS Rmerge(I) obs: 0.239 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1HHO Resolution: 2.3→10 Å / Rfactor Rfree error: 0.005 / Data cutoff high absF: 10000000 / Data cutoff low absF: 0.001 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 32.1 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→10 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.3→2.44 Å / Rfactor Rfree error: 0.017 / Total num. of bins used: 6
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Xplor file |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|