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- PDB-2hbg: GLYCERA DIBRANCHIATA HEMOGLOBIN. STRUCTURE AND REFINEMENT AT 1.5 ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2hbg | ||||||
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Title | GLYCERA DIBRANCHIATA HEMOGLOBIN. STRUCTURE AND REFINEMENT AT 1.5 ANGSTROMS RESOLUTION | ||||||
![]() | HEMOGLOBIN (DEOXY) | ||||||
![]() | OXYGEN TRANSPORT | ||||||
Function / homology | ![]() oxygen carrier activity / oxygen binding / response to hypoxia / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Arents, G.A. / Love, W.E. | ||||||
![]() | ![]() Title: Glycera dibranchiata hemoglobin. Structure and refinement at 1.5 A resolution. Authors: Arents, G. / Love, W.E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 44.2 KB | Display | ![]() |
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PDB format | ![]() | 30.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 779.3 KB | Display | ![]() |
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Full document | ![]() | 782.8 KB | Display | |
Data in XML | ![]() | 10.6 KB | Display | |
Data in CIF | ![]() | 14.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Atom site foot note | 1: SIX RESIDUES HAVE THEIR SIDE CHAINS MODELED IN MORE THAN ONE CONFORMATION. THEY ARE LEU 31, LYS 84, ASN 95, SER 109, SER 112, AND SER 143. |
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Components
#1: Protein | Mass: 14935.230 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() |
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#2: Chemical | ChemComp-HEM / |
#3: Water | ChemComp-HOH / |
Sequence details | THERE ARE A NUMBER OF SEQUENCE DIFFERENCES BETWEEN THE SEQUENCE PRESENTED IN THIS ENTRY AND THAT IN ...THERE ARE A NUMBER OF SEQUENCE DIFFERENCE |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 46.52 % | ||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 4 ℃ / pH: 6.8 / Method: unknown / Details: took Padlan & Love (1974) from original paper | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 1.5 Å / Lowest resolution: 10250 Å / Num. all: 49447 / Num. obs: 19421 / % possible obs: 0.06 % / Num. measured all: 53 / Rmerge F obs: 1.5 |
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Reflection shell | *PLUS Highest resolution: 1.5 Å / Lowest resolution: 1.8 Å / % possible obs: 0.14 % / Num. possible: 8536 / Num. unique obs: 1195 |
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Processing
Software | Name: PROLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Rfactor obs: 0.127 / Highest resolution: 1.5 Å Details: LEUCINE 31 SHOWS THREE POSSIBLE GAUCHE CONFORMATIONS OF ATOMS CD1 AND CD2. THESE ARE PRESENTED AS THREE ALTERNATE CONFORMATIONS. NOTE THAT ONLY THREE SETS OF COORDINATES WERE USED TO MODEL ...Details: LEUCINE 31 SHOWS THREE POSSIBLE GAUCHE CONFORMATIONS OF ATOMS CD1 AND CD2. THESE ARE PRESENTED AS THREE ALTERNATE CONFORMATIONS. NOTE THAT ONLY THREE SETS OF COORDINATES WERE USED TO MODEL THIS DISORDER AND, THEREFORE, THE SIX ATOMS APPEAR AS THREE ATOMS IN A GRAPHICAL VIEW OF THE ENTRY. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 1.5 Å
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Refine LS restraints |
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Software | *PLUS Name: PROLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 1.5 Å / Lowest resolution: 10 Å / Num. reflection all: 10250 / Rfactor obs: 0.127 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: p_planar_d / Dev ideal: 0.07 |