[English] 日本語
![](img/lk-miru.gif)
- PDB-1lla: CRYSTAL STRUCTURE OF DEOXYGENATED LIMULUS POLYPHEMUS SUBUNIT II H... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1lla | ||||||
---|---|---|---|---|---|---|---|
Title | CRYSTAL STRUCTURE OF DEOXYGENATED LIMULUS POLYPHEMUS SUBUNIT II HEMOCYANIN AT 2.18 ANGSTROMS RESOLUTION: CLUES FOR A MECHANISM FOR ALLOSTERIC REGULATION | ||||||
![]() | HEMOCYANIN (SUBUNIT TYPE II) | ||||||
![]() | OXYGEN TRANSPORT | ||||||
Function / homology | ![]() chloride ion binding / oxygen transport / oxygen carrier activity / oxidoreductase activity / copper ion binding / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Hazes, B. / Hol, W.G.J. | ||||||
![]() | ![]() Title: Crystal structure of deoxygenated Limulus polyphemus subunit II hemocyanin at 2.18 A resolution: clues for a mechanism for allosteric regulation. Authors: Hazes, B. / Magnus, K.A. / Bonaventura, C. / Bonaventura, J. / Dauter, Z. / Kalk, K.H. / Hol, W.G. #1: ![]() Title: Hexamers of Subunit II from Limulus Hemocyanin (A 48-mer) Have the Same Quaternary Structure as Whole Panulirus Hemocyanin Molecules Authors: Magnus, K.A. / Lattman, E.E. / Volbeda, A. / Hol, W.G.J. #2: ![]() Title: Crystal Structure of Hexameric Haemocyanin from Panulirus Interruptus Refined at 3.2 Angstroms Resolution Authors: Volbeda, A. / Hol, W.G.J. #3: ![]() Title: Structure of Hemocyanin II from the Horshoe Crab Limulus Polyphemus Authors: Nakashima, H. / Behrens, P.Q. / Moore, M.D. / Yokota, E. / Riggs, A.F. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 141.1 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 109.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 417.2 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 429.9 KB | Display | |
Data in XML | ![]() | 26.8 KB | Display | |
Data in CIF | ![]() | 39.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Atom site foot note | 1: RESIDUE PRO 599 IS A CIS PROLINE. |
-
Components
#1: Protein | Mass: 72757.695 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() References: UniProt: P04253 | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
#2: Chemical | #3: Chemical | ChemComp-NA / | #4: Chemical | ChemComp-CL / | #5: Water | ChemComp-HOH / | Compound details | BASED ON OXYGEN BINDING STUDIES THAT MIMIC THE CRYSTALLIZATION CONDITIONS THE STRUCTURE IS BELIEVED ...BASED ON OXYGEN BINDING STUDIES THAT MIMIC THE CRYSTALLIZ | Sequence details | SEQUENCE ADVISORY NOTICE: THE SEQUENCE HAS BEEN CHANGED IN THREE POSITIONS COMPARED TO THE ...SEQUENCE ADVISORY NOTICE: THE SEQUENCE HAS BEEN CHANGED IN THREE POSITIONS COMPARED TO THE PUBLISHED SEQUENCE (NAKASHIMA, 1986). DIFFERENCE | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.59 Å3/Da / Density % sol: 52.59 % | ||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | *PLUS pH: 6 / Method: vapor diffusion, hanging dropDetails: taken from mangus, K.A. et al (1991). Proteins Struct. Funct. Genet., 9, 240-247. | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Radiation | Scattering type: x-ray |
---|---|
Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.18 Å / % possible obs: 97 % / Num. measured all: 38255 / Rmerge(I) obs: 0.046 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 2.18→10 Å / Rfactor Rwork: 0.174 / Rfactor obs: 0.174 / σ(F): 0 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.18→10 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.18 Å / Lowest resolution: 10 Å / σ(F): 0 / Rfactor all: 0.174 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 2.9 |