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- PDB-1ith: STRUCTURE DETERMINATION AND REFINEMENT OF HOMOTETRAMERIC HEMOGLOB... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1ith | ||||||
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Title | STRUCTURE DETERMINATION AND REFINEMENT OF HOMOTETRAMERIC HEMOGLOBIN FROM URECHIS CAUPO AT 2.5 ANGSTROMS RESOLUTION | ||||||
![]() | HEMOGLOBIN (CYANO MET) | ||||||
![]() | OXYGEN TRANSPORT | ||||||
Function / homology | ![]() oxygen carrier activity / oxygen binding / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Hackert, M. / Kolatkar, P. / Ernst, S.R. / Ogata, C.M. / Hendrickson, W.A. / Merritt, E.A. / Phizackerley, R.P. | ||||||
![]() | ![]() Title: Structure determination and refinement of homotetrameric hemoglobin from Urechis caupo at 2.5 A resolution. Authors: Kolatkar, P.R. / Ernst, S.R. / Hackert, M.L. / Ogata, C.M. / Hendrickson, W.A. / Merritt, E.A. / Phizackerley, R.P. #1: ![]() Title: Novel Subunit Structure Observed for Noncooperative Hemoglobin from Urechis Caupo Authors: Kolatkar, P.R. / Meador, W.E. / Stanfield, R.L. / Hackert, M.L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 70.5 KB | Display | ![]() |
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PDB format | ![]() | 53 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 16.2 KB | Display | |
Data in CIF | ![]() | 21.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar 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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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-1, -0.0027, -0.0007), Vector: Details | THE TWO NON-CRYSTALLOGRAPHIC SUBUNITS ARE RELATED BY A MOLECULAR TWO-FOLD AXIS (179.8 DEGREE ROTATION) LOCATED IN THE BC PLANE AT 35 DEGREES FROM THE B AXIS (SEE REFERENCE 1). THE BACKBONE (N, C-ALPHA, C, O, + FE) RMS FIT = 0.317. THE TRANSFORMATION PRESENTED ON *MTRIX* RECORDS BELOW WILL YIELD APPROXIMATE COORDINATES FOR CHAIN *A* WHEN APPLIED TO CHAIN *B*. | |
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Components
#1: Protein | Mass: 15048.366 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() #2: Chemical | #3: Chemical | #4: Water | ChemComp-HOH / | Sequence details | RESIDUE 4 OF EACH CHAIN IS PRESENTED AS ALA IN THIS ENTRY. BOTH PIR AND SWISSPROT DATABASES LISTED ...RESIDUE 4 OF EACH CHAIN IS PRESENTED AS ALA IN THIS ENTRY. BOTH PIR AND SWISSPROT DATABASES LISTED THIS RESIDUE AS THR AT THE TIME THAT THIS ENTRY WAS PREPARED. THIS WAS BASED ON CDNA SEQUENCE OBTAINED FROM ONE CLONE. HOWEVER, AMINO ACID SEQUENCING | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.64 Å3/Da / Density % sol: 53.44 % | ||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7.8 / Method: unknownDetails: taken from Kolatkar, P.P. et al(1988), J. Biol. Chem., 263, 3462-3465. | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
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Processing
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Refinement | Rfactor Rwork: 0.147 / Rfactor obs: 0.147 / Highest resolution: 2.5 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 2.5 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.5 Å / Lowest resolution: 5 Å / Num. reflection obs: 8350 / σ(I): 3 / Rfactor obs: 0.147 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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