1ILQ
CXCR-1 N-TERMINAL PEPTIDE BOUND TO INTERLEUKIN-8 (MINIMIZED MEAN)
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | ASSIGNMENT: SEE REFERENCE 1; RESTRAINTS: 3D 15N-EDITED-NOESY HSQC | 0.15 M | 5.50 | 1 atm | 308.00 | |||
2 | 3D 13C-FILTERED | 0.15 M | 5.50 | 1 atm | 308.00 | |||
3 | 13C-EDITED-NOESY HMQC | 0.15 M | 5.50 | 1 atm | 308.00 | |||
4 | 2D 15N-FILTERED NOESY | 0.15 M | 5.50 | 1 atm | 308.00 | |||
5 | 2D 13C-FILTERED NOESY (100MS) | 0.15 M | 5.50 | 1 atm | 308.00 | |||
6 | 15N-FILTERED NOESY (ALL MIXING TIMES = 100 MS) | 0.15 M | 5.50 | 1 atm | 308.00 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AMX 500 | 500 |
NMR Refinement | ||
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Method | Details | Software |
RESTRAINED MOLECULAR DYNAMICS | INITIAL COORDINATES FOR IL-8 WERE TAKEN FROM PDB ENTRY 1IL8; A LINEAR CHAIN FOR THE CXCR-1 FRAGMENT WAS BUILT IN INSIGHT (MSI). THE CXCR-1 FRAGMENT WAS POSITIONED RANDOMLY WITH RESPECT TO IL8 - OBTAIN 40 STARTING CONFORMATIONS. THE INITIAL STRUCTURES WERE THEN REFINED USING RMD WITH THE AMBER ALL ATOM FORCE FIELD AS IMPLIMENTED WITHIN DISCOVER. ALL OF IL8 MONOMER B AND PARTS OF IL8 MONOMER A (2-7, 22-38 AND 51-72) WERE KEPT FIXED DURING THE REFINEMENT SINCE CHEMICAL SHIFT CHANGES INDICATED THAT THESE PORTION OF THE MOLECULE WERE NOT PERTURBED BY PEPTIDE BINDING. THIS MODEL IS THE RESULT OF RESTRAINED ENERGY MINIMIZATION OF THE GEOMETRIC MEAN OF 20 STRUCTURES FROM THE ENSEMBLE (ENTRY 1ILP) SEE JRNL ENTRY FOR MORE DETAILS. | Discover |
NMR Ensemble Information | |
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Conformer Selection Criteria | LEAST RESTRAINT VIOLATION ENERGY |
Conformers Calculated Total Number | 40 |
Conformers Submitted Total Number | 1 |
Additional NMR Experimental Information | |
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Details | THE ASSIGNMENTS WERE MADE USING TRIPLE RESONANCE NMR EXPERIMENTS CONDUCTED ON 13C/15N LABELED IL-8 BOUND TO UNLABELED CXCR-1 PEPTIDE (SEE JRNL ENTRY FOR MORE DETAILS) NOE RESTRAINTS WERE OBTAINED FROM 15N EDITED EXPERIMENTS (INTRA IL8), 13C OR 15N FILTERED EXPERIMENTS (INTRA CXCR-1) OR 13C-FILTERED/ EDITED EXPERIMENTS (INTERMOLECULAR RESTRAINTS) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | Discover | BIOSYM | |
2 | structure solution | MSI DISCOVER DISCOVER | DISCOVER |