quality control: alternatives to reversed-phase ... qc lecture.pdf · topics 1) effect of pore and...
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Israel lectures 4/10-5/10/2010
Quality Control:
Alternatives to Reversed-Phase
Chromatography for Protein
and Peptide Analysis
Andrew Alpert
PolyLC Inc.
Columbia, MD U.S.A.
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TOPICS
1) Effect of pore and particle diameter
2) Effect of organic solvents
3) Alternatives to reversed-phase HPLC for
protein variantsa) Size-Exclusion
b) HIC
c) Ion-exchange
d) HILIC
4) Alternatives for peptide QC
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min7 8 9 10 11 12 13 14
mAU
0
100
200
300
400
500
600
700
800
Growth Factor on PolyCAT A: Comparison of 3- vs. 5-µm
COLUMNS:
35x4.6-mm; 1000-Å
MINOR VARIANTS
RESOLVED WITH
THE 3-µm COLUMN
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DISULFIDE TRISULFIDE
Effect of Pore Diameter
- Resolution is better
with wider pores –
Sample: rec Human Growth
Hormone (21 kDa)
COLUMN: PolyPROPYL A
(Hydrophobic Interaction
Chromatography)
- Data courtesy of Benny
Welinder, Novo Nordisk -
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0,0 10,0 20,0 30,0 40,0 55,0
-25
50
100
150
200
250mA
min
3
2
1
WVL:214 nm
40% 2-PrOH
20% 2-PrOH
0% 2-PrOH
Column: 102SE0510(PolySULFOETHYL A)
Mobile Phase:
A: 20mM KH2PO4, pH3.0
B: A + 500mM NaCl
Gradient:
0% B in 5min, 0% to 20% B in 10 min, 20% B to 40% B in 30min, 40% B to 0% B in 5min and 0% B in 5min
Flow:
0.3 ml/min
SCX Analysis of multiPEGylated Protein
- selectivity increases with % solvent -
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Effect of Solvents on Protein HPLC
OPTIMUM %
PROTEIN SOLVENT
bFGF 0
Bovine 20Somatotropin
Many growth factors 30-40
Histones, 60-70
Membrane proteins
Optimal concentration must bedetermined on a case-by-case basis
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SEC(separation by size)
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SEC-TOF-MS of intact proteins: Reduced Antibody (L.J. Brady et al., J. Am. Soc. Mass Spectrom. 19 (2008) 502)
Mobile phase: 0.1% formic acid,0.1 ml/min
Column: PolyHYDROXYETHYL A,250x2.1 mm, 300-Å;
An SEC column was chosen with
pores narrow enough for intact
proteins to elute in the Vo peak,
which is run into the MS. Total
analysis time: 8’.
Light chain MS Heavy chain MS
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Screening Combinatorial Libraries for Potential Drug Candidates via ALIS:
Automated Ligand Identification System
(D.A. Annis et al., Int. J. Mass Spectrom. 238 (2004) 77)
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Combinatorial Drug Screening via ALIS:
Theory Practice
Target protein
+ bound high
affinity ligands
(sent to mass
spectrometer)
Nonbound low
affinity ligands
(sent to waste)
IMPORTANT: The Vo peak must elute in < 30 seconds or even
high-affinity ligands will start to diffuse off the target protein.
Vo VtCOLUMN:
PolyHYDROXYETHYL A; 60-Å
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POLARITY MODES OF CHROMATOGRAPHY
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HIC(Hydrophobic Interaction Chromatography)
Gradient: high to low [salt]; nondenaturing
Elution order: Least to most hydrophobic
on the surface of the tertiary (3-D)
structure
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TIME (Min)
0.0 5.0 10.0 15.0 20.0 25.0
VO
LT
AG
E
0
100
200
300
400
500Fc
Fab
[O]
[O]
HIC of Fab and Fc Oxidation Products (Met[O])
COLUMN: PolyPROPYL A, 100x4.6-mm; 3-µm, 1500-Å
GRADIENT: Decreasing [(NH4)2SO4]
HIC is a good
way to separate
polarity variants of
proteins
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Ion-Exchange
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CATION-EXCHANGE OF PEPTIDES (SCX)
PolySULFOETHYL
Aspartamide
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SCX of Degraded Peptide: Pramlintide (Amylin)
- Good selectivity for charge variants -
SEQUENCE (37 residues):
KCNTATCATQRLANFLVHSS-
NNFGPILPPTNVGSNTY-NH2
COLUMN: PolySULFOETHYL A
- from Hekman et al., J. Pharmaceut. Biomed. Anal. 20 (1999) 763-772 -
Cyclic
Imide-21
Cyclic Imides
-22 and -35
S-S
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TIME (Min)
0.0 5.0 10.0 15.0 20.0
A22
0
0
40000
80000
120000
160000
phosphorylation
variants
Anion-Exchange of Ovalbumin Phosphorylation Variants
COLUMN: PolyWAX LP (#104WX0510) SAMPLE: Sigma Grade VI (99%)
GRADIENT: 10 mM K-PO4, pH 7.0; 60-300 mM NaCl in 20’
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Polysuccinimide
Aminopropyl-
silica___
Poly(succinimide)-
silica_____
Poly(aspartic
acid)- silica _
(PolyCAT A)
Preparation of
a Weak
Cation-Exchange
(WCX) material
- from Alpert, J. Chromatogr. 266 (1983) 23-37 -
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0
0.01
0.02
0.03
0.04
0.05
10 15 20 25 30
Ab
so
rban
ce
(2
80
nm
)
Time (minutes)
Lys9
Lys65
Lys68
Lys90
Lys22
[Met1+Lys9]
[Met1+Lys22]+
[Met1+Lys90]
Met1
(Lys25:
Not found)
PEGylation Positional Variants of TNF Soluble Receptor Type ICOLUMN: PolyCAT A (204CT0510) (data courtesy Scott Buckel - Amgen, Inc.)
GRADIENT: 30’, 1-160 mM KCl in 20 mM Na-OAc, pH 5.0, with 20% ACN
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min0 20 40 60
23.7
90
31.0
32
46.2
34
22.3
77
CEX of Monoclonal AntibodyCOLUMN: PolyCAT A (204CT0510)
The 3-peak pattern is characteristic. Minor peaks usually
reflect additional deamidation, oxidation or sialylation
AFTER
CARBOXY-
PEPTIDASE B
TREATMENT
# Lys or Arg lost
from C-termini
of heavy chains
2
1
0 (native sequence)
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Time (min)
0 5 10 15 20
Ab
so
rba
nc
e
0
20
40
60
80
100
CEX of Monoclonal AntibodyCOLUMN: PolySULFOETHYL A (104SE0315)
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min0 10 20 30 40 5060
Norm.
0
10
20
30
40
min5 10 15 20 25 30354045
Norm.
0
10
20
30
40
50
min0 2.5 5 7.5 10 12.5 15 17.5
Norm.
0
20
40
60
80
100
PEGylated Growth Factor:
Comparison of three CEX columns
TSK SP-NPR;
selectivity OK
TSK SP-5PW;
capacity OK
unPEGylated
PEGylated
multi-
PEGylated
PolyCAT A (#104CT0315);
Good selectivity and capacity
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min10 20 30 40 50 60
mAU
0
5
10
15
20
25
unPEGylated
PEGylated
Degraded PEGylation Reaction Mixture:
Analysis with a PolyCAT A column (item# 104CT0315)
“GIGO”:
“Garbage In,
Garbage Out”
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DEGRADATION OF PROTEINS
- DEAMIDATION AND DEHYDRATION -1) Favored if the residue on the C-terminal side is unhindered (Gly; Ala)
2) Consequences for biological activity: Negligible to serious!
- H2O
- NH3
(pKa ~ 4.1)
(pKa ~ 3.1)
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CASE STUDY: Degradation of Human Growth Hormone(from Benny Welinder [Novo Nordisk], WCBP ’98)
191 residues
total; pI = 5.0
Asn 149 and
Asn 152 (*):
prone to
deamidation
Asp 130 (**):
prone to
dehydration
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Degradation of rec Human Growth Hormone: Effect of pH
High pH:
Deamidation
of Asn-
Neutral/Acid pH:
Dehydration
of Asp-
COLUMN: PolyCAT A
GRADIENT: 130-145
mM NH4–acetate, pH
4.0, with 40% ACN; 30°
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DEAMIDATION AND DEHYDRATION OF rHGH
- Effect of pH on Kinetics of Variant Formation -
Cyclic imide-130 Desamido-149+
Desamido-152
isoAsp-130
1) Stability of rec HGH is maximal for formulation ~ pH 6.1.
2) IMPORTANT TO OBTAIN KINETICS DATA LIKE THIS FOR EVERY
BIOPHARMACEUTICAL IF DEAMIDATION IS A PROBLEM!
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Method Development:
Analysis of a Growth Factor
via Cation-Exchange
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AU
0.00
0.02
0.04
Minutes
16.00 18.00 20.00 22.00 24.00 26.00 28.00 30.00 32.00 34.00
Growth Factor on PolyCAT A
- Effects of pore & particle size -
Best selectivity with
small particles &
wide pores
5 µm, 1000 Å
3 µm, 1000 Å
3 µm, 300 Å
Deamidation
variants
Met[O] or
incorrect-S-S-
(biologicallyinactive)
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Growth Factor
Variants on
PolyCAT A
(104CT0315)
- batch selectivity
differences -
Lot-to-lot
differences
difficulty of
separation
Test different
lots to find the
selectivity your
protein requires
Lot #1
Lot #2
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0% PEG
2% PEG
Analysis of
Growth Factor on
PolyCAT A
- PEG (Polyethylene
Glycol) sometimes
improves selectivity
when added to the
mobile phase -
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Growth Factor Variants on
EDTA-treated PolyCAT A
column (104CT0315)
EDTA treatment passivates
metal surfaces
nonspecific protein
interactions (but may let
3-µm silica escape the frits!).
Test on a case-by-case basis.
after
- better separation of variants -
beforetreatment
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A different growth factor
yields a similar profile in
cation-exchange HPLC
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Structure of a Protein in the TGF-β Family (many growth factors):
Two ~ 120-aa Polypeptide Chains Linked in a Cysteine Knot
three -S-S- links
within each chain one -S-S- link between chains
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Minutes
0 2 4 6 8 10 12 14 16 18 20 22 24
mV
olts
0
100
200
300
400
500
mV
olts
0
100
200
300
400
500
Cation-Exchange HPLC of BMP-14 (Bone Morphogenetic Protein 14)COLUMN: PolyCAT A, 100x4.6-mm; 3-µm, 1000-Å (item# 104CT0310; ser# A2562C)
MOBILE PHASE: A) 20 mM K-PO4, pH 6.0, with 20% ACN; B) Same + 0.6 M NaCl
GRADIENT: 20’ linear, 0-100% B, then 5’ at 100% B 1.0 ml/min A220
SAMPLE: 25 µg BMP-14 in 20 µl of (Mobile Phase A:10 mM HCl = 2:1)
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Minutes
9.0 9.5 10.0 10.5 11.0 11.5 12.0 12.5 13.0 13.5 14.0
mV
olts
0
2
4
6
8
10
12
14
mV
olts
0
2
4
6
8
10
12
14
BMP-14: Blowup to show deamidation variants
1
2
3
4
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Minutes
0 2 4 6 8 10 12 14 16 18 20 22 24
mV
olts
0
5
10
15
20
25
30
35
mV
olts
0
5
10
15
20
25
30
35
BMP-14: More gradual gradient to improve separation of
variants; resembles preceding growth factor’s profile
QUESTION: Do all recombinant growth factors contain ~ 8%
Met[O] or mismatched -S-S- variants (@ cysteine knot motif)?
New shoulder;
deamidation variant?
Another new
shoulder?
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Method Development:
Analysis of a Sialylated,
MultiPEGylated Protein
(GCSF) via Cation-Exchange
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SCX Analysis of multiPEGylated Protein
- Effect of sialidase treatment -
COLUMN: 202SE0510 0.1 ml/min
MOBILE PHASE: 5 mM K-P04, pH 3.0, with 30% 1-PrOH + 10% 1-BuOH; 0-50 mM NaCl
0 13 25 38 50 63 75 88 110
-50
100
200
350mA
min
1
WVL:214 nm
20,0
50,0
0,0
20,0
0,0
before sialidase
after sialidase
PER MOLECULE:
4-5 PEGs (at Lys-);
1-2 sialic acid res.
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10,0 25,0 37,5 50,0 62,5 75,0 87,5 100,0
-75
0
100
200
300
400
500mA
min
2
WVL:214 nm
Column: PolySULFOETHYL A, 200x2.1mm I.D., 5µm, 1000Å
Mobile Phase:A: 5mM KH2PO4, pH 3.0;
30% 1-PrOH, 10% 1-BuOH
B: A + 50mM NaCl
Flow: 0.1 ml/min
Gradient: 10 – 25 mM NaCl over 80 minInj. 30µg
SDS-PAGEApplication
SCX Analysis of multiPEGylated Protein
- Preliminary characterization before sialidase treatment -
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10,0 25,0 37,5 50,0 62,5 75,0 87,5 100,0
-100
0
100
200
300mA
min
2
1
WVL:214 nm
+ Sialidase7.5 µg
- Sialidase7.5 µg
SDS-PAGE
SCX Analysis of multiPEGylated Protein
- Characterization after sialidase treatment; the
PAGE analysis permitted post-sialidase peaks to
be paired with their pre-sialidase versions -
![Page 43: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/43.jpg)
tt Mixed-Bed
Ion-Exchange
HPLC of
Intact Proteins
![Page 44: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/44.jpg)
Mixed-Bed IEX of E. coli Lysate Proteins
COLUMN (WCX): PolyCAT A, 200x4.6-mm; 5-µm, 1000-Å
GUARD CARTRIDGE (WAX): PolyWAX LP, 10x4-mm; 5-µm, 1000-Å
GRADIENT (40’ linear): 0-0.6 M NaCl in 10 mM KH2PO4, pH 6.2,
with 5% ACN
DETECTION: Fluorescence (ex = 280 nm; em = 350 nm)
WCX Column only (big void vol. peak)
WCX Column + WAX Cartridge (* = acidic proteins?)
* ** * *
![Page 45: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/45.jpg)
4 5 6 7 8 9 10 11 12 130
200
400
600
800
1000
1200
# o
f p
rote
ins
pI value
pI Distribution of the Predicted Mouse Proteome
From: H. Wang et al.,
J. Proteome Res. 5
(2006) 361
Acidic proteins; Basic proteins;
Use anion-exchange Use cation-exchange
![Page 46: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/46.jpg)
Minutes0 5 10 15 20 25
mV
olts
0
50
100
150
200
Minutes0 5 10 15 20 25
mV
olts
0
50
100
150
200
Minutes0 5 10 15 20 25
mV
olts
0
50
100
150
200
Anion-Exchange only
(104WX0510)
Cation-Exchange only
(104CT0510)
Mixed-Bed
(204CTWX0510)
Fig. 1. Comparison of regular IEX columns to the mixed-bed column. Sample: Yeast lysate. All
materials were 5-µm, 1000-Å pore diameter. The mixed-bed column was 200x4.6-mm while the others were
100x4.6-mm. Flow rate: 1 ml/min. Detection: A280. Gradient: 0-300 mM NaCl in 20 mM MES, pH 6.0.
A complex mixture of proteins always contains some that elute in the void volume on a single IEX column.
With a mixed-bed column the number that do this is minimal1,2. This helps to insure more uniform
distribution of the proteins for proteomics fractionations.
![Page 47: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/47.jpg)
Minutes0 10 20 30 40 50
mV
olts
0
5
10
15
200
20
40
60
80
Blowup to show
low-abundance
proteins
Full-scale
Fig. 2. Mixed-bed IEX of yeast lysate with a volatile mobile phase.
COLUMN: Same mixed-bed as in Fig. 1. DETECTION: 280 nm
MOBILE PHASE: 20-800 mM ammonium acetate, pH 6.0 FLOW: 1 ml/min
GRADIENT: 0-12’: 0-10%B; 12-30’: 10-60%B; 30-40’: 60-100%B 40-50’: 100%B
![Page 48: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/48.jpg)
Minutes0 10 20 30 40 50
mV
olts
0
200
400
Example of Sample Simplification via General-Purpose
Chromatography: Mixed-bed IEX-SPE of serumHPLC: Mixed-bed column (204CTWX0510) 1 ml/min.
Gradient: 3-segment, 20-800 mM NH4-OAc, pH 7.0 A280
Sample: 25µl serum + 75 µl 10 mM NH4-OAc
![Page 49: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/49.jpg)
Minutes0 10 20 30 40 50
mV
olts
0
100
200
FiltrateFr.1 (50 mM)
Fr.2 (250 mM)
Fr.3 (400 mM)Fr.4 (800 mM)
mV
olts
0
200
400 Serum
IEX-SPE Fractions
Fractionation of
serum via mixed-
bed IEX-SPE
Analysis: Mixed-bed
HPLC column
Gradient: 20-800 mM
NH4-OAc, pH 7.0
Fractionationseems to be
lossless
![Page 50: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/50.jpg)
Fractions from mixed-bed IEX-SPE of serum - blowup
SPE: 100 µg TopTip™ of PolyCAT A & PolyWAX LP; TT1000CATWAX-2015
HPLC: Mixed-bed column (204CTWX0510) 1 ml/min. A280 Gradient: 20-800 mM NH4-OAc, pH 7.0
Samples: 100µl of 200µl collected fraction (Filtrate: 100µl of 400µl)
Minutes0 10 20 30 40 50
A2
80
0
Filtrate
Fr.1 (50 mM)
Fr.2 (250 mM)
Fr.3 (400 mM)
Fr.4 (800 mM)
Result: reproducible
fractions with
minimal overlap
that elute in
predictable ranges
![Page 51: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/51.jpg)
SPE-IEX Fraction 4 on Mixed-Bed IEX Column (fast flow):
Control, Gout and Rheumatoid Arthritis Serum Samples
Sample: 6 mg. of each serum 300 µl each Fraction 4; 100 µl analyzed per run
Gradient: 300-800 mM NH4-OAc, pH 7.0 (load at 20 mM) Column: 102CTWX0510
Flow: 0.8 ml/min Detection: 280 nm UHPLC System: SSI Corp.
MINUTES
0 2 4 6 8 10 12 14 16 18 20
AB
SO
RB
AN
CE
(m
AU
)
-0.5
0.0
0.5
1.0
1.5
2.0
2.5
3.0
GOUT
RA
CONTROL
CONTROL
(elevated)
(elevated)
![Page 52: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/52.jpg)
HILIC(Hydrophilic Interaction Chromatography)
![Page 53: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/53.jpg)
![Page 54: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/54.jpg)
RPC-HILIC Purification of Variant Glycopeptides
from a Tryptic Digest of -Interferon
HILIC of Glycopeptide Asn-97 HILIC of Glycopeptide Asn-25
PolyHYDROXYETHYL A
(150x1.0-mm)
RPC (Vydac C-18) of
total digest from CHO
batch culture
ADJACENT PEAKS
DIFFER BY ONE
CARBOHYDRATE
RESIDUE OR
POSITION
Data courtesy of J. Zhang
and D. Wang (MIT)
![Page 55: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/55.jpg)
HILIC of Intact Mitochondrial Membrane Proteins
Column: PolyHYDROXYETHYL A (100 x 2.1 mm)
Gradient: 20 mM ammonium formate, pH 3.7, + 0.5% HFIP; (63% 2-PrOH + 22.5% ACN) to 30% 2-PrOH
Sample: 2-PrOH/ACN (pH 3.7) extract of bovine heart mitochondria
From: Carroll et al (2006) PNAS 103, 16170-16175.
Courtesy of John Walker, Medical Research Council Dunn Human Nutrition Unit, Cambridge, U. K.
(ND3)
ND1
ND4
F-ATPase-a +
F-ATPase-A6L
ND2
CI-B9
CIII-IX
CIV-VIII
F-ATPase-g
+ CIV-VIIa+ CIV-VIIc
CIV-VIb
Usmg5
BRP44LBRP44
CIV-VIc + 6.8 KDa
proteolipid
F-ATPase-f
![Page 56: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/56.jpg)
-20
30
80
130
180
0 5 10 15 20 25 30
Time [min]
Ab
so
rba
nc
e 2
80
nm
[a
.u.]
-20
30
80
130
0 5 10 15 20 25 30
Time [min]
Ab
so
rba
nc
e 2
80
nm
[a
.u.]
-20
80
180
280
0 5 10 15 20 25 30
Time [min]
Ab
so
rba
nc
e 2
80
nm
[a
.u.]
HILIC of Intact Apolipoproteins:Separation of Glycation Variants
Mobile Phase A: 50 mM NH4-formate, pH 3.7, in 50% 2-PrOH, 25% ACN, & 0.5% HFIP
Mobile Phase B: 50 mM formic acid + 10% 2-PrOH + 0.5% HFIP + ~ 5 mg/L Trp
Flow: 1 ml/min. Temp: 24°C Gradient: 0-5’: 0% B; 5-35’: 0-100% B
apoA-I (human)
apoA-I
Cyt C (equine)
Cyt C
apoM
(human)
apoM
COLUMN: PolyHYDROXYETHYL A,
200x4.6-mm; 5µm, 300-Å
SAMPLE: 100 µg
COLUMN: TSK Amide-80, 250x4.6-mm; 5µm, 80-Å
SAMPLE: 100 µg
COLUMN: TSK Amide-80, 250x4.6-mm; 5µm, 80-Å
SAMPLE: 1 mg apoM
aglyco-
complex
biantennary,
no Gal (20.5 KDa)
complex
non-biantennary,
2 Gal, 2 Neu5Ac
(20.9 KDa)
complex
non-biantennary,
2 Gal, 2 Neu5Ac
(21.2 KDa)
![Page 57: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/57.jpg)
HILIC on an Ion-Exchange Column~ 60-70% organic solvent present
during the salt gradient
RESULTHydrophilic interactions superimposed
on electrostatic effects
![Page 58: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/58.jpg)
Minutes
0 2 4 6 8 10 12 14
Volts
0
100
200
300
400
500
Volts
0
100
200
300
400
5000
.080
1.9
97
2.3
57
2.5
70
2.9
46
3.0
93
3.3
05
3.4
78
3.9
58
4.1
98
4.4
55
4.6
88
5.0
60
5.5
03
6.4
56
7.6
77
8.2
57
9.8
13
10.1
63
10.7
71
12.7
63
12.8
78
13.1
60
13.3
61
13.9
93
14.5
35
14.6
17
14.9
48
Detector 1-220nm
Retention Time
Minutes
0 2 4 6 8 10 12 14
Volts
0
50
100
150
200
250
Volts
0
50
100
150
200
250
0.0
78
0.2
44
2.0
58
2.2
53
2.5
88
3.1
22
3.3
80
3.7
51
4.1
98
4.4
75
5.2
08
5.3
90
5.8
62
7.4
95
7.9
98
8.4
78
9.1
06
9.6
55
10.3
68
10.9
55 1
1.7
96
12.5
98
13.2
38
14.3
80
Detector 1-220nm
Retention Time
ERLIC of synthetic peptide:
LIFAGKQLEDGR
COLUMN: PolyWAX LP,
200x4.6-mm, 5µm, 300Å
MOBILE PHASE:
20 mM sodium methylphosphonate,
pH 2.0, with %ACN as noted
70%
75%
![Page 59: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/59.jpg)
min0 10 20 30 40 50 60 70
mAU
-20
0
20
40
60
80
100
120
140
DAD1 B, Sig=215,4 Ref=off (K:\HPCHEM\4\DATA\20516A5\003-0401.D)
SCX-HILIC of Lung
Surfactant Protein
(lipid:protein = 500:1)
COLUMN: PolySULFOETHYL A,
200x4.6-mm; 5-µm; 1000-Å
MOBILE PHASE (1 ml/min):
5’ hold, then 0-100% B in 60’
A) 0.1% methylphosphonic acid +
5 mM NaClO4, pH 3, with 70% ACN
B) Same but 100 mM NaClO4
DETECTION: A215
SAMPLE: 24 µg protein/80 µl
Surfactant
Protein
Variants
Lecithins,
steroids, &
other lipids
![Page 60: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/60.jpg)
Histone H4 Acetylation & Methylation VariantsCOLUMN: PolyCAT A (104CT0315; HILIC mode)
27.0 32.0 37.0 42.0 47.0 52.0 57.0 62.0
VO
LT
AG
E0 Acetyl
1 Acetyl
2 Acetyl
H2AMETHYLATION
TIME (Min)20 30 40 50 60 70
VO
LT
AG
E
0
4-Acetyl3-Acetyl
2-Acetyl
1-Acetyl
0-Acetyl
H2A
METHYLATION
(courtesy James Pesavento - U. of Ill.)
MITOSIS
INTERPHASE
The most minor
variants can be
the most critical
![Page 61: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/61.jpg)
TIME (Min)
0 10 20 30 40 50 60
AB
SO
RB
AN
CE
Histone H3(1-50) ex HeLa Cells; Acetylation & Methylation VariantsHILIC on PolyCAT A; [NaClO4] and [ACN]
3,4Ac
2Ac
2Ac
1Ac
1Ac
0Ac
0Ac
butyrate-
treated
control
(courtesy Benjamin
Garcia - U. of Ill.)
![Page 62: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/62.jpg)
Chicken Erythrocyte Histone H1 Isoforms on PolyCAT A
C-18
CEX:
0%
ACN
CEX:
40%
ACN
CEX: 70%
ACN
- much
better
selectivity!
![Page 63: Quality Control: Alternatives to Reversed-Phase ... QC lecture.pdf · TOPICS 1) Effect of pore and particle diameter 2) Effect of organic solvents 3) Alternatives to reversed-phase](https://reader031.vdocuments.site/reader031/viewer/2022022119/5d06336f88c9933c618d44c8/html5/thumbnails/63.jpg)
S
Minutes
0.0 0.4 0.8 1.2 1.6 2.0 2.4
mA
U
0
100
200
300
400
500
F
A
A2
C
A1c
Hemoglobin FASC Standard: Fast Flow AnalysisCOLUMN: PolyCAT A, 100x3.0-mm; 5-µm, 1000-Å FLOW: 3.5 ml/min A415 Pressure: 5379 psi
GRADIENT: 0-2’: 11-45% B; 2-2.5’: 45-100% B
A) 20 mM Bis-tris + 2 mM KCN, pH 6.96 B) 20 mM Bis-tris + 2 mM KCN + 200 mM NaCl, pH 6.55