4ABD

Fragments bound to bovine trypsin for the SAMPL challenge

Structural Biology Knowledgebase: 4ABD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.165
  • R-Value Work: 0.145

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4ABD

Classification: HYDROLASE

Total Structure Weight: 24027.15

Macromolecule Entities
Molecule Chains Length Organism Details
CATIONIC TRYPSIN A 223 Bos taurus EC#: 3.4.21.4 IUBMB

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
EDO
Query on EDO

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
JSmol
SW2
Query on SW2

A 1-[3-(1H-pyrrol-1-yl)phenyl]methanamine
C11 H12 N2
XLBYUDUEHVKUKQ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
SW2 N/A in BindingDB
N/A in BindingMoad
Kd: 40000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.165
  • R-Value Work: 0.145
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 54.08 α = 90.00
b = 58.35 β = 90.00
c = 66.89 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-12-08
  • Released Date: 2012-02-08
  • Deposition author(s): Newman, J., Peat, T.S.

Revision History

  • 2014-02-05
    Type: Citation | Details: REMARK 1, JRNL
  • 2014-01-08
    Type: Citation | Details: REMARK 1
  • 2014-01-08
    Type: Other | Details: MASTER