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Making the Leap Rita Steed LC Columns Application Engineer June 26, 2018 June 26, 2018 Agilent Technologies 1 Small Molecule Biologics
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Page 1: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Making the Leap

Rita Steed

LC Columns Application EngineerJune 26, 2018

June 26, 2018 Agilent Technologies1

Small Molecule – Biologics

Page 2: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Outline

➢ Small and/or biomolecules; Similarities/differences

➢ Column Choice

➢ Things to Consider

➢ Method Conditions

➢ Troubleshooting

June 26, 2018 Agilent Restricted 2

Page 3: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Define

Types of chromatography• Similar

• Different

Sample types• Simple

• Complex

Functional groups

• Polarity

June 26, 2018 Agilent Restricted 3

Small and/or Biomolecule; Similarities/Differences

Page 4: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Small v. Biomolecules

Small Molecules

Size – MW <1000 (although some may be somewhat larger)

Structure – Simple

Drugs, pesticides, chemicals…

Manufacturing – Chemical synthesis, predictable process

Characterization – straightforward

Stability – Stable

Biologics

Size – Mostly >1000 with some exceptions

Structure – Diverse; need to consider chemistry, biology, and biochemistry

MAbs, aggregates, charge variants, conjugates, peptides, amino acids, nucleic acids

Manufacturing – living cells; “”dirty” (early) process with similar components; difficult to control

Characterization – complex molecular makeup; heterogeneity

Stability – Sensitive to external conditions; Temp,

pH, Shearing, Folding, Glycoforms

June 26, 20184 Agilent Restricted

Page 5: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Do you know what this is?

C22H30N6O4S

MW=476.6 g/mol

N

N

H3C

SO O

NH

NN

N

O CH3

CH3O

CH3

Sildenafil

June 26, 20185 Agilent Restricted

Page 6: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Polarity of Functional Groups – Nonionic

Elution Order and Solubility are Affected

Chemical Symbol Common Name Comments-- C -- C -- Hydrocarbon (sat'd.) non-polar, non-ionic-- C = C -- Hydrocarbon (unsat'd.) non-polar, non-ionic-- C = C -- C = C --Hydrocarbon (conjugated.)non-polar, non-ionic

Aromatic Ring (benzene) non-polar, non-ionic

-- C -- Cl Chlorinated (halogenated) sl. polar, non-ionic-- C -- O -- C -- Ether sl. polar, non-ionic-- CO2R Ester (R= organic chain) mod.polar, non-ionic--C = O Carbonyl (aldehyde, ketone) mod. polar, non-ionic--CONH2 Amide polar, non-ionic

Affect Solubility and Elution Order

Functional Group Polarity)

)

)

Page 7: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Elution Order and Solubility are Affected

Chemical SymbolCommon NameComments

Phenolic ring polar, slightly ionic

--COH Alcohol polar, non-ionic-- C -- COOHCarboxylic Acidpolar, ionic, acidic-- C -- COO(Na)Acid Salt polar, ionic, acidic-- C -- NH2Amine (primary, ) polar, ionic, basic-- C -- NH3Cl Amine Salt polar, ionic, basic

--OH

Functional Group Polarity

Affect Solubility and Elution Order

Polarity of Functional Groups

)

Page 8: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Do you know what this is ?

C6470H10012N1726O2013S42

MW = 145421.50 g/molDIQMTQSPSS LSASVGDRVT ITCRASQDVN TAVAWYQQKP GKAPKLLIYS ASFLYSGVPS RFSGSRSGTD FTLTISSLQP

EDFATYYCQQ HYTTPPTFGQ GTKVEIKRTV AAPSVFIFPP SDEQLKSGTA SVVCLLNNFY PREAKVQWKV DNALQSGNSQ

ESVTEQDSKD STYSLSSTLT LSKADYEKHK VYACEVTHQG LSSPVTKSFN RGEC

EVQLVESGGG LVQPGGSLRL SCAASGFNIK DTYIHWVRQA PGKGLEWVAR IYPTNGYTRY ADSVKGRFTI SADTSKNTAY

LQMNSLRAED TAVYYCSRWG GDGFYAMDYW GQGTLVTVSS ASTKGPSVFP LAPSSKSTSG GTAALGCLVK DYFPEPVTVS

WNSGALTSGV HTFPAVLQSS GLYSLSSVVT VPSSSLGTQT YICNVNHKPS NTKVDKKVEP KSCDKTHTCP PCPAPELLGG

PSVFLFPPKP KDTLMISRTP EVTCVVVDVS HEDPEVKFNW YVDGVEVHNA KTKPREEQYN STYRVVSVLT VLHQDWLNGK

EYKCKVSNKA LPAPIEKTIS KAKGQPREPQ VYTLPPSREE MTKNQVSLTC LVKGFYPSDI AVEWESNGQP ENNYKTTPPV

LDSDGSFFLY SKLTVDKSRW QQGNVFSCSV MHEALHNHYT QKSLSLSPG

EVQLVESGGG LVQPGGSLRL SCAASGFNIK DTYIHWVRQA PGKGLEWVAR IYPTNGYTRY ADSVKGRFTI SADTSKNTAY

LQMNSLRAED TAVYYCSRWG GDGFYAMDYW GQGTLVTVSS ASTKGPSVFP LAPSSKSTSG GTAALGCLVK DYFPEPVTVS

WNSGALTSGV HTFPAVLQSS GLYSLSSVVT VPSSSLGTQT YICNVNHKPS NTKVDKKVEP KSCDKTHTCP PCPAPELLGG

PSVFLFPPKP KDTLMISRTP EVTCVVVDVS HEDPEVKFNW YVDGVEVHNA KTKPREEQYN STYRVVSVLT VLHQDWLNGK

EYKCKVSNKA LPAPIEKTIS KAKGQPREPQ VYTLPPSREE MTKNQVSLTC LVKGFYPSDI AVEWESNGQP ENNYKTTPPV

LDSDGSFFLY SKLTVDKSRW QQGNVFSCSV MHEALHNHYT QKSLSLSPG

DIQMTQSPSS LSASVGDRVT ITCRASQDVN TAVAWYQQKP GKAPKLLIYS ASFLYSGVPS RFSGSRSGTD FTLTISSLQP

EDFATYYCQQ HYTTPPTFGQ GTKVEIKRTV AAPSVFIFPP SDEQLKSGTA SVVCLLNNFY PREAKVQWKV DNALQSGNSQ

ESVTEQDSKD STYSLSSTLT LSKADYEKHK VYACEVTHQG LSSPVTKSFN RGEC

June 26, 20188 Agilent Restricted

Page 9: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

HPLC Common Separation Mechanisms

Small Molecules

➢Reversed Phase*

➢ Ion Exchange

➢HILIC

➢Normal Phase

➢Chiral

Biomolecules – Intact Protein

➢Reversed Phase*

➢ Ion Exchange

➢Size Exclusion/Gel Filtration

➢Affinity

➢Hydrophobic Interaction (HIC)

June 26, 20189

*Of the many different HPLC separation mechanisms and column types, reverse phase is

commonly used for both small molecules and biomolecules

Agilent Restricted

Page 10: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Choosing the Right Column …

Sorbent characteristics–Particle size

–Plate count

–Back pressure

–Pore size

–Bonding chemistry•Small Molecule – C18, C8

•Proteins – C4, C8

Column characteristics–Internal diameter

–Length

–Material

Instrument compatibility

May 24, 201810 Agilent Restricted

Page 11: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Particle Size

Diameter

Plate count

Back pressure

10µm

5µm

3µm1.8µm

Diameter

(µm)

Reduced Plate

Height Plate Count Pressure

1.8 5.04 198000 380 bar

3 8.4 119000 140 bar

5 14 71000 50 bar

10 28 36000 12 bar

May 24, 201811 Agilent Restricted

Page 12: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Agilent InfinityLab Poroshell 120 Portfolio Small Molecules & Peptides

June 26, 201812

Best all around

Best for low pH

mobile

phases

Best for high

pH mobile

phases

Best for

alternative

selectivity

Best for polar

AnalytesBest for Chiral

InfinityLab Poroshell

EC-C18

1.9 µm, 2.7 µm, 4 µm

InfinityLab Poroshell

SB-C18

2.7 µm

InfinityLab Poroshell

HPH-C18

1.9 µm, 2.7 µm, 4 µm

InfinityLab Poroshell

Bonus-RP

2.7 µm

InfinityLab Poroshell

HILIC

1.9 µm, 2.7 µm, 4 µm

InfinityLab Poroshell

Chiral-V

2.7 µm

InfinityLab Poroshell

EC-C8

1.9 µm, 2.7 µm, 4 µm

InfinityLab Poroshell

SB-C8

2.7 µm

InfinityLab Poroshell

HPH-C8

2.7 µm, 4 µm

InfinityLab Poroshell

PFP

1.9 µm, 2.7 µm, 4 µm

InfinityLab Poroshell

HILIC-Z

2.7 µm

InfinityLab Poroshell

Chiral-T

2.7 µm

InfinityLab Poroshell

Phenyl-Hexyl

1.9 µm, 2.7 µm, 4 µm

InfinityLab Poroshell

HILIC-OH5

2.7 µm

InfinityLab Poroshell

Chiral-CD

2.7 µm

InfinityLab Poroshell

SB-Aq

2.7 µm

InfinityLab Poroshell

Chiral-CF

2.7 µm

InfinityLab Poroshell

EC-CN

2.7 µmReversed Phase Chemistries

4µm 2.7µm 1.9µm

Agilent Restricted

Page 13: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Columns for Intact Protein Analysis No “One size fits all” Column …

m

1.8

µm

m

4.5

µm

0.2

m

m

3.5

µm

3.0

µm

0.2

m

May 24, 201813 Agilent Restricted

Page 14: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

0

0.02

0.04

0.06

0.08

0.1

0.12

0.14

0.16

0.18

0.2

300SB-C18 (300Å)

SB-C18 (80Å)

Pore Size & Molecular Size

Effect on Peak Width

Gradient Separations

PW

1/2

000970P2.PPT

Agilent Restricted

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Page 15

Choose Column Configuration for Application

Column TypeI.D.

(mm)

Lengths

(mm)

Particle

Sizes (mm)

Flow Rate

RangesApplications

Capillary 0.3, 0.5 35 – 250 <5 1 – 10 mL/minMax sensitivity

LC/MS

MicroBore 1.0 30 – 150 <5 30 – 60 mL/minHigher sensitivity

LC/MS

Narrow Bore 2.1 15 – 150 1.8 – 5 0.1 – 0.3 mL/minHigh sensitivity

LC/MS

Solvent Saver 3.0 100 - 250 1.8 – 5 0.3 – 1.0 mL/min Analytical

Analytical 4.6 15 – 250 1.8 – 5 1 – 4 mL/min Analytical

Semi-prep 9.4 50 – 250 >5 4 – 10 mL/minSmall scale

prep (mg)

Preparative >21.2 50 – 250 >5 20 – 100 mL/min Large scale prep

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Page 16: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Instrument

van Deemter

Recovery

June 26, 2018 Agilent Restricted 16

Things to Consider

Quick Connect fitting

Page 17: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Column and Instrument Materials

Nucleotide Phosphates on AdvanceBio MS Spent Media (HILIC stationary phase in PEEK lined SS hardware)

A: 10 mM Ammonium Formate pH 6.8 in water, B: acetonitrile + 10 mM Ammonium Formate pH 6.8, 95-30% B in 10 minutes, 0.25 mL/min, 0.2 μL injection (5 ng each on column),

MS Source: ESI-, m/z 191.02, 346.06, 426.02, 505.99, 521.99, 742.067, 743.067, 259.03

May 24, 201817 Agilent Restricted

Page 18: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Instrument Considerations

Bioinert system

• 100% Bio-inert

• Precious sample does not touch metal surfaces

• pH range 1-13 (short-term 14)

• 2 M salt, 8 M urea

• No stainless steel in mobile phase flow path

• New capillary technology

Phosphoric acid passivation

• Improve both peak shape and sensitivity

• Run 90:10 acetonitrile:water with 0.5% (v/v) phosphoric acid overnight through Channel B, column, and MS nebulizer

May 24, 201818

• Metal clad PEEK capillary design

• Mechanical interlock, molded tip

• 600 bar

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Page 19

Acid Wash Can Improve Peak Shape

OH

OH

OHHOOHHO OH

OH1. 2. 1. 2.

Columns: ZORBAX SB-Phenyl

4.6 x 150 mm

Mobile Phase:75% 25mM Am phosphate

25% ACN

Flow Rate: 1.0 mL/min.

Temperature: RT

Sample Size: 5 uL

1

1

2

2

Tf: 1.2Tf: 3.7

Before Acid Wash After 1% H3PO4 Acid Wash

•Hint: Look for lone pair of electrons on “O” or “N” which can form 5 or 6 membered ring with metal

Metal sensitive compounds can chelate

1% H3PO4 is used on SB columns, 0.5 % on endcapped columns and system

Agilent Restricted

Page 20: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Factors Affecting Plate Countvan Deemter Equation

0.0

5.0

10.0

15.0

20.0

25.0

30.0

35.0

40.0

45.0

50.0

0.0 0.5 1.0 1.5 2.0 2.5 3.0 3.5 4.0 4.5 5.0

HE

TP

m)

Linear Velocity, u (mm/s)

ℎ = 𝑨 +𝑩

𝑢+ (𝑪 × 𝑢)

May 24, 201820

A, B, and C are constants for a particular compound and set of experimental conditions as flow rate is varied

__ A term, eddy diffusion__ B term, axial diffusion__ C term, Resistance to mass transfer__ Sum

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Page 21: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Factors Affecting Plate Count

A term Eddy diffusion (multiple path effect)

B term Molecular diffusion

C term Mass transfer (within particle)

May 24, 201821

weddy ~ λ dp λ: Quality of column packing

Increase in peak width due to

self-diffusion of the analyte

wC ~ dp2

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Page 22: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

van Deemter Equation – C term“Resistance to Mass Transfer”

wC ~ dp2

Different diffusion paths

Porous particle

Stationary layer of mobile phase

Superficially Porous

Poroshell is made of a solid core with a

porous outer layer. Reduces C term.

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Page 23: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Van Deemter Equation Measured for Different Particle Sizes

5.0 m

3.5 m

1.8 m

• Small particles = lower heights of theoretical plates higher separation efficiency

• For smaller particles, separation efficiency suffers less when increasing the flow

➢ Point where minimun is reached, is the “optimal” flow rate

at which maximal plate number is reached

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Page 24: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

van Deemter Equation Curves for Different Analytes

P. Petersson et al (AZ), J.Sep.Sci, 31, 2346-2357, 2008

• van Deemter equation for isocratic runs only

• Compound and instrument specific

• Even for sub-2-μm particles not horizontal

• Optimum flow rate depends on compound

Are proteins like small molecules ?

Agilent Restricted

Page 25: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Van Deemter Plots

0.0

50.0

100.0

150.0

200.0

250.0

0.0 1.0 2.0 3.0 4.0 5.0 6.0

HE

TP

m)

Linear Velocity, u (mm/sec)

• Are proteins like small molecules ? … NO !

Agilent RP-mAb Diphenyl - myoglobin

May 24, 201825

Page 26: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Slower Diffusion of Large Molecules Broadens Peaks at High Flow

Increase the Diffusion Rate

• Elevated operating temperature -- Works with StableBond

• Decreased solvent viscosity -- Helps but changes elution

Decrease the Diffusion Distance

• Small particles (<2-um) – Increased back pressure

• Limit diffusion distance into a particle!

So… decrease diffusion time for macromolecules!

PorousShell

SolidCore

Agilent Restricted

Page 27: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

ResolutionFactors that Affect It

Selectivity impacts resolution the most

– Change bonded phase

– Change mobile phase

27

0.00

1.00

2.00

3.00

4.00

5.00

6.00

7.00

Resolu

tion

Increasing N

Increasing Alpha

Increasing k'

Plates: 5000 10000 15000 20000 25000

Alpha: 1.10 1.35 1.60 1.85 2.1

k 2.0 4.5 7.0 9.5 12.0

Typical Analytical Method Development Parameters

Resolution Efficiency Selectivity Retention

Agilent Restricted

Page 28: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Title of Presentation

DateAgilent Restricted

VR N

4k*a

Resolution Relationship for Gradient Elution

k* - represents the fact that k changes constantly during a gradient

87 tg F

S (D%B) Vm

k* =

D%B = difference between initial and final % B values

S = Constant that changes with MW: 4 for 100 - 500 Da; 10 < S < 1000 for peptides and proteins

F = flow rate (mL/min)tg = gradient time (min)Vm = column void volume (mL)

Page 29: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Lysozyme

s = 40

MW = 14,300

Leucine Enkephalin

s = 11

MW = 560

Benzene

s = 2.7

MW = 78

Log k*

100

10

1

0.14 0.18 0.22 0.26 0.30 0.34 0.38 0.42F

Volume Fraction of Organic

Larger Molecules v. Small Molecules More Sensitive to Changes in % Organic

➢ Lysozyme is 15X more sensitive to changes in organic modifier than benzene

➢ 4X more sensitive than leucine enkephalin.

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June 26, 2018 Agilent Restricted 30

Method Conditions

Mobile phase

• Organic Modifier

• Additives

pH

Temperature

Sample

Page 31: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Exploring Organic Modifiers – Small Molecules

Why?

✓ It’s easy – ACN & MeOH are readily available

✓ Works on any bonded phase – optimize separation no matter the column choice

MeOH – Higher pressure, generally better peak shape with bases, Protic solvent

Acetonitrile – Aprotic, wider UV window, stronger than MeOH

“Fast Analysis of Illicit Drug Residues on Currency using Agilent Poroshell 120”,

Anne E. Mack, James R. Evans and William J. Long, September 2010, 5990-6345EN.

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Page 32: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Mobile Phase: Organic Modifier

Agilent Confidential

AdvanceBio RP-mAb Diphenyl

Polyphenyl column (other vendor)

AdvanceBio RP-mAb Diphenyl

Polyphenyl column (other vendor)

Columns 2.1x50mm

Mobile phaseA: 0.1% TFA in water

B: 0.08% TFA in ACN

Temperature 80 °C

Flow rate 0.5 mL/min

Gradient 25 – 45% B in 10 min

Columns 2.1x50mm

Mobile phaseA: water:IPA 98:2 + 0.1% TFA

B: IPA:ACN:MPA 70:20:10

Temperature 80 °C

Flow rate 0.5 mL/min

Gradient 25 – 45% B in 10 min

May 24, 201832 Agilent Restricted

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Retention Time, (min.)

6 8 10 12 14 16 18 20 22 24

1.0 % TFA

P1P2P3

P4P5

0.25 % TFAP1 P2

P3P4 P5

0.05 % TFA

P1P2 P3 P4 P5

000288P1.CDR

Conditions: Column: Zorbax 300SB-C8, 4.6 x 150 mm, Mobile Phase: A= H2O and TFA, B= ACN and TFA,

Gradient: 0-30% B in 30 min., Flow: 1 mL/min.,Temp.: 40°C, Detect.: UV-254 nm, Sample: 6 µL injection volume,

Peptide Standards S1-S5, decapeptides differing slightly in hydrophobicity

TFA ConcentrationAffect on Reversed-Phase Peptide Separation

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min0 0.5 1 1.5 2 2.5 3 3.5

mAU

0

50

100

150

200

250

300

min0 0.5 1 1.5 2 2.5 3 3.5

mAU

0

50

100

150

200

250

300

min0 0.5 1 1.5 2 2.5 3 3.5

mAU

0

50

100

150

200

250

300

pH 3

10 mM HCO2NH4

pH 4.8

10 mM NH4HCO3

pH 10

10 mM NH4HCO3

1. Procainamide

2. Caffeine

3. Acetyl Salicylic Acid

4. Hexanophenone Deg.

5. Dipyrimadole

6. Diltiazem

7. Diflunisal

8. Hexanophenone

1

2

3 4

1

6

7

2 7

7

5

3 4

5

6

3

2

1

6

4

5

8

8

8

Poroshell HPH-C18 4.6 x 50 mm, 2.7 µm

June 26, 2018 Agilent Technologies34

Selectivity Can be Controlled by Changing pH

Time % Buffer % MeCN

0 10 90

5 90 10

7 10 90

2 ml/min 254 mn

Page 35: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Increasing Temperature

•Reduces Analysis Time

• May Change Selectivity

1/T (°K)001001P1.PPT

Agilent Restricted

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Chromatography Optimization: Column Temperature (Herceptin)

June 26, 201836

RT

80 °C

FWHM = 11s with significant tailing

FWHM = 5.5s with some tailing

Zorbax 300 diphenyl Column, 2.1× 50 mm (or 100mm), 1.8µm, 0.5ml/min

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Page 37: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

000822P1.PPT

Using Temperature to Improve Resolution

8. Myoglobin

9. Calmodulin

10. Carbonic

Anhydrase

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Page 38: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Solvent Application Comments

0.05-5% TFA in Water General Effective solubilization of manysamples

6 M Guanidine, bufferedat pH 6-8

General Very good for many proteins andpeptides

5-80% Acetic Acid orFormic Acid;0.1-0.5M Perchloric Acid

Peptides Frequently used to extractpeptides from tissues,precipitating many proteins andcellular debris

6 M Urea/ 5% Acetic aid HydrophobicPeptides,Proteins

Useful for membrane proteins,fragments, aggregating systems

Water-Miscible OrganicSolvents: Acetonitrile,Methanol, THF, Dioxane,DMSO; +/- TFA; +/- Water

HydrophobicPeptides,Polypeptides

Limit injection volume to avoidproblems; add water, as possible,to improve volume tolerance;acidify with TFA as required

Protein and PeptidesSelected Sample Solvents and Applications

Agilent Restricted

Page 39: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Recovery

• Molecule size

• Metals

Detection

• Chromophore

• MS

Column cleaning

June 26, 2018 Agilent Restricted 39

Troubleshooting

Page 40: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

What Affects Recovery?

Chain length

Hydrophobicity / Aggregation

Mobile Phase

Solubility of sample

Size

Agilent Restricted

Page 41: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

50%

60%

70%

80%

90%

100%

110%

300SB-C8 300SB-C3 300SB-CN

Parvalbumin

Myoglobin

RNase A

Insulin

Lysozyme

Carbonic Anhydrase

Calmodulin

Recovery of Polypeptides from

ZORBAX 300SB Columns

Columns: 4.6 x 150 mm

Mobile Phase: 5 - 40% B in 20 min.

A: 0.1% TFA / Water

B: 0.1% TFA / ACN

Flow Rate: 1 mL / min.

Temperature: 60°C

Sample: 4 µg each protein

25 µL injection

Rela

tive R

ecove

ry to 3

00

SB

-C18

001007P1.PPT

Agilent Restricted

Page 42: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Complications/Challenges Things to do

June 26, 2018 Agilent Restricted 42

Denature

• Chaotropes: Guanidine, Urea

• Reductants: DTT, BME, Ascorbic Acid

• Temperature

Digestion

Derivatize

Proteins and Mass Spec

Aggregation

Degradation

Folding/conformational changes

Size

Poor fragmentation within collision cell (QQQ)

Poor solubility in organics

MP additives

PTMs; oxidation, isomerization, deamidation

• Little or no difference in mass

Multiple glycosylation sites

• Difficult to interpret/deconvolute

Page 43: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Page 43

Effect of Modifier on MS Response: 10 pmol BSA

m/z1000 1100 1200 1300 1400 1500 1600 1700 1800 1900

0

10000

20000

30000

40000

50000

60000

1254

.4

1187

.3

1231

.2

1146

.4

1303

.612

78.7

1166

.5

1356

.7

1208

.8

1108

.211

26.9

1329

.7

1090

.0

1189

.612

11.9

1445

.2

1128

.7

1257

.3

1385

.5

1233

.2

1414

.4

1149

.1

1306

.8

1168

.4

1331

.8

1110

.3

1360

.0

1510

.9

1545

.8

1477

.214

48.7

1055

.5

1282

.0

1621

.3

1075

.2

1582

.6

1661

.8

1704

.1

1749

.1

1023

.3

1796

.7

m/z1000 1200 1400 1600 1800 2000

0

500

1000

1500

2000

2500

3000

3500

4000

1385

.2

1796

.5

1513

.7

1704

.2

1955

.1

1624

.3

1749

.1

1303

.6

1546

.2

1414

.4

1665

.6

1480

.6

1621

.815

86.3

1388

.213

59.6

1705

.9

2004

.7

1510

.7

1801

.0

1904

.5

2144

.621

71.8

2076

.9

1848

.8

1734

.8

1254

.4

min0.5 1 1.5 2 2.5 3 3.5

0

5000000

10000000

15000000

20000000

25000000

Abundance

FA

TFA

TIC

Page 44: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Page 44

1. Mobile phase without buffer salts (water/organic)

2. 100% Organic (MeOH or ACN)

3. Is pressure back in normal range?

4. If not, discard column or consider more drastic conditions:

75% Acetonitrile:25% Isopropanol, then

5. 100% Isopropanol

6. 100% Methylene Chloride*

7. 100% Hexane*

Column Cleaning – Small Molecules

Flush with stronger solvents than your mobile phase Make sure

detector is taken out of flow path

Reversed-Phase Solvent Choices in Order of Increasing Strength

Use at least 10 x Vm of each solvent for analytical columns

* When using either Hexane or Methylene Chloride the column must be flushed with

Isopropanol before returning to your reversed-phase mobile phase.

Agilent Restricted

Page 45: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Routine Additional

Each Run

• Run out gradient

Daily

• Stronger protocol

Periodic

• Back flush (if column permits)

Storage

• >50% Organic

General : IPA ramp 0-100% and hold (1/2 flow rate)

Lipids and small hydrophobics : 100% MeCl

Synthetic Peptides : General followed by 100% MeCl

More drastic : Plug flow (repetitive injections) of 3M Guanidine in 50% IPA

Silica based RP columns only

Column Cleaning Suggestions - Biomolecules

Prior to using either Hexane or Methylene Chloride the column must be flushed with

Isopropanol and again before returning to your reversed-phase mobile phase.

Agilent Restricted

Page 46: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Summary

Chromatography of biomolecules is often different from small molecules

• Chemistry, Biology, Biochemistry• Temperature• pH

• Shearing• Folding, glycoforms, heterogeneity

Structural diversity

• Proteins

• Nucleic Acids

• Conjugates, complexes

Instrumentation

June 26, 2018 Agilent Restricted 46

Page 47: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Contact Agilent Chemistries and Supplies Technical Support

1-800-227-9770 Option 3, Option 3:

Option 1 for GC/GCMS Columns and Supplies

Option 2 for LC/LCMS Columns and Supplies

Option 3 for Sample Preparation, Filtration and QuEChERS

Option 4 for Spectroscopy Supplies

[email protected]

[email protected]

[email protected]

[email protected]

June 26, 2018 Agilent Restricted 47

Page 48: Making the Leap - Agilent · Title of Presentation Date Agilent Restricted R V N 4 ak* Resolution Relationship for Gradient Elution k* - represents the fact that k changes constantly

Resources for Support

• Agilent University http://www.agilent.com/crosslab/university

• Tech support http://www.agilent.com/chem/techsupport

• Resource page http://www.agilent.com/chem/agilentresources

– Quick Reference Guides

– Catalogs, Column User guides

– Online Selection Tools, How-to Videos

• InfinityLab Supplies Catalog (5991-8031EN)

• Your local FSE and Specialists

• Youtube – Agilent Channel

• Agilent Service Contracts

June 26, 201848 Agilent Restricted


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