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- Biological Assembly 1 (CIF - gz)
- Biological Assembly 1 (PDB - gz)
2BZH|pdb_00002bzh
CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH A RUTHENIUM ORGANOMETALLIC LIGAND RU1
- PDB DOI: https://doi.org/10.2210/pdb2BZH/pdb
- Classification: TRANSFERASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21
- Mutation(s): Yes
- Deposited: 2005-08-18 Released: 2005-12-08
- Deposition Author(s): Debreczeni, J.E.,Bullock, A.,Knapp, S.,von Delft, F.,Sundstrom, M.,Arrowsmith, C.,Weigelt, J.,Edwards, A.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.190 (Depositor), 0.200 (DCC)
- R-Value Work: 0.157 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.159 (Depositor)
Starting Model:experimental
View more details
wwPDB Validation 3D Report Full Report
This is version 1.5 of the entry. See complete history.
Literature
Download MendeleyCrystal Structure of the Human Pim1 in Complex with Ruthenium Organometallic Ligands
Debreczeni, J.E., Bullock, A., Knapp, S., von Delft, F., Sundstrom, M., Arrowsmith, C., Weigelt, J., Edwards, A.To be published.
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (HB1)
Global Symmetry: Asymmetric - C1
Global Stoichiometry: Monomer - A1
Find Similar Assemblies
Biological assembly 1 assigned by authors and generated by PISA (software)
Macromolecule Content
- Total Structure Weight: 36.21 kDa
- Atom Count: 2,505
- Modeled Residue Count: 275
- Deposited Residue Count: 313
- Unique protein chains: 1
Macromolecules
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| PROTO-ONCOGENE SERINE THREONINE PROTEIN KINASE PIM1 | A [auth B] | 313 | Homo sapiens | Mutation(s): 1 EC: 2.7.1.37 (PDB Primary Data), 2.7.11.1 (UniProt) |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P11309 (Homo sapiens) Explore P11309 Go to UniProtKB: P11309 | |||||
PHAROS: P11309 GTEx: ENSG00000137193 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P11309 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HB1 Query on HB1 Download Ideal Coordinates CCD File | B | RUTHENIUM-PYRIDOCARBAZOLE-1 C23 H13 N3 O3 Ru HQDDSWVENMEGOZ-UHFFFAOYSA-N |  | ||
| EDO Query on EDO Download Ideal Coordinates CCD File | C [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CL Query on CL Download Ideal Coordinates CCD File | D [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.190 (Depositor), 0.200 (DCC)
- R-Value Work: 0.157 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.159 (Depositor)
Space Group: P 65
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 97.529 | α = 90 |
| b = 97.529 | β = 90 |
| c = 80.726 | γ = 120 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| DENZO | data reduction |
| SCALEPACK | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2005-12-08 Deposition Author(s): Debreczeni, J.E.,Bullock, A.,Knapp, S.,von Delft, F.,Sundstrom, M.,Arrowsmith, C.,Weigelt, J.,Edwards, A.
Revision History (Full details and data files)
- Version 1.0: 2005-12-08
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.2: 2018-01-24
Changes: Database references, Structure summary - Version 1.3: 2018-04-04
Changes: Data collection - Version 1.4: 2019-05-08
Changes: Data collection, Experimental preparation - Version 1.5: 2023-12-13
Changes: Data collection, Database references, Other, Refinement description
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