Biochemistry Mnemonics

Biochemistry Mnemonics

Essential amino acids PVT. TIM HALL:
Phe
Val
Thr
Trp
Ile
Met
His
Arg
Leu
Lys
· Pvt. is short for Private in the military.
· Arg and His are considered semiessential.
· Alternatively: "MATT VIL PHLy".

Dicarboxylic acids (alpha, omega) C2 through C10: common names
"Oh My, Such Good Apple Pie, Sweet
As Sugar!":
Oxalic
Malonic
Succinic
Glutaric
Adipic
Pimelic
Suberic
Azelaic
Sebacic

Phosphorylation cascade: action during low glucose "In the
Phasted State, Phosphorylate":
The phosphorylation cascade becomes active when blood glucose is low.

tRNA: molecular shape Fortunately, tRNA (Transfer
RNA) is shaped like a capital T.

Vitamins: which are fat soluble KADE:
Vitamin K
Vitamin A
Vitamin D
Vitamin E

Na/K pump: concentrations of Na vs. K on inside/outside of cell, pump
action, number of molecules moved HIKIN':
There is a HIgh K concentration INside the cell.
From this can deduce that the Na/K pump pumps K into cell and Na out of cell.
Alternatively: When I was learning this pump (circa 1992), a band that was "in"
was Kris Kross, and a band that was "out" was "Sha Na Na
Na":
So pump moves K K (2 K) in and Na Na Na (3 Na) out.
· Sadly, as infectious as their debut album was, Kris Kross can really no longer
be classed as "in".

Insulin: function INsulIN stimulates 2
things to go
IN 2cells: Potassium and Glucose.

Glycolysis steps "Goodness Gracious, Father
Franklin Did Go By Picking Pumpkins
(to) Prepare Pies":
Glucose
Glucose-6-P
Fructose-6-P
Fructose-1,6-diP
Dihydroxyacetone-P
Glyceraldehyde-P
1,3-Biphosphoglycerate
3-Phosphoglycerate
2-Phosphoglycerate (to)
Phosphoenolpyruvate [PEP]
Pyruvate
· 'Did', 'By' and 'Pies' tell you the first part of those three: di-, bi-, and
py-.
· 'PrEPare' tells location of PEP in the process.

Citric acid cycle compounds "Oh Citric Acid
Is Of (course) A SiLly STupid Funny
Molecule":
Oxaloacetate
Citrate
Aconitate
Isocitrate
Oxalosuccinate
Alpha-ketoglutarate
SuccinyL-CoA
SuccinaTe
Fumarate
Malate
· SilLy and sTupid used to differentiate succinyL and succinaTe

B vitamin names "The Rhythm Nearly Proved
Contagious":
· In increasing order:
Thiamine (B1)
Riboflavin (B2)
Niacin (B3)
Pyridoxine (B6)
Cobalamin (B12)

Testosterone conversion to DiHydroTestosterone
Dihydrotestosterone is an active form of testosterone. Its conversion needs an
enzyme :
Five
Alpha
Reductase
· This reaction occurs in the peripheral ("FAR") tissue such as adipose
tissue.

DKA: signs DKA:
Dehydrated
Ketones/ Kussmaul breathing/ K drops
Acidosis

Amino acids: properties · Sung to the Beverly Hillbillies
melody:

Come an' listen to my story about the a-mi-nos
Five Al-i-phats kick off our show
Glycine, Alanine, Valine and then
Leucine and Iso make up half of ten

Well the next thing you know are three aromats
phenylalanine(F) is right off the bat
tYrosine has alcohol next to its ring
And tryptophan(W) has indole double ring thing.

Sulfur in Cysteine; it loves to bond
Sulfur Methionine is much more a snob
Alcoholic Serine, well wouldn't you know,
And Threonine's OH gives a warm glow.

Acid-aspartic(D) and glutamic(E) are ionized
With pK of 4, their protons are lysed,
asparagine(N) and glutamine(Q) play a different role
With amides they're neutral but they both have poles

lysine(K) and aRginine are the basic kind,
But Histidine's imidazole can't make up its mind,
Proline, the last one, coming at the end
It's imine, an oddball, proteins use to bend.

Fabry disease: presentation FABRY:
Ferile episodes
Angiokeratomas/ Alpha galactosidase A deficiency
Burning pain
Renal failure
Youth death

Glycolysis enzymes "High Profile People
Act Too Glamorous, Picture Posing Every
Place":
Hexokinase
Phosphoglucose isomerase
Phosphofructokinase (PFK)
Aldase A
Triose phosphate isomerase
Glyceraldehyde-3-phosphate dehydrogenase
Phosphoglycerate mutase
Enolase
Pyruvate kinase

Porphyrias: acute intermittent porphyria symptoms 5 P's:
Pain in abdomen
Polyneuropathy
Psychologial abnormalities
Pink urine
Precipitated by drugs (eg barbiturates, oral contraceptives, sulpha
drugs)

BUN:creatinine elevation: causes ABCD:
Azotremia (pre-renal)
Bleeding (GI)
Catabolic status
Diet (high protein parenteral nutrition)

G6PD: oxidant drugs inducing hemolytic anemia AAA:
Antibiotic (eg: sufamethoxazole)
Antimalarial (eg: primaquine)
Antipyretics (eg: acetanilid, but not aspirin or acetaminophen)

Vitamin B3 (niacin, nicotinic acid) deficiency: pellagra The
3 D's of pellagra:
Dermatitis
Diarrhea
Dementia
· Note vitamin B3 is the 3D's.

Glycogen storage: Anderson's (IV) vs. Cori's (III) enzyme defect
ABCD:
Anderson's=Branching enzyme.
Cori's=Debranching enzyme.
· Otherwise, can't really distinguish clinically.

Tangier's disease: hallmark "Tangierene tonsils":
Hallmark is large orange tonsils.
· Important clinical note: there is no increased risk of atherosclerosis,
just like eating tangerenes.

Na+/K+ pump: movement of ions and quantity K+ and 
in each consist of 2 characters, so so 2 K+ are pumped in.
Na+ and out each consist of 3 characters, so 3 Na+ are
pumped out.

Hemoglobin binding curve: causes of shift to right "CADET,
face right!":
CO2
Acid
2,3-DPG (aka 2,3 BPG)
Exercise
Temperature

Coagulation common pathway: factors in order 10 + 5 - 2 =
13
Coagulation common pathway:
Factor X to Factor V to Factor II to Factor XIII

Vitamin K dependent cofactors "Several Tend 
To Nicely Stop Clots":
Factor Seven, Ten, Two, Nine.
Protein S, Protein C.

G protein type for respective receptors "KISS and 
KICK till you're SICK of SEX" (QISS and QIQ till you're SIQ of
SQS):
· This gives the G-protein type (Gq, Gi, or Gs) for all the
receptors. Receptors are in alphabetical order:
alpha1=Q
alpha2=I
beta1=S
beta3=S
M1=Q
M2=I
M3=Q
D1=S
D2=I
H1=Q
H2=S
V1=Q
V2=S

Folate deficiency: causes A FOLIC DROP:
Alcoholism
Folic acid antagonists
Oral contraceptives
Low dietary intake
Infection with Giardia
Celiac sprue
Dilatin
Relative folate deficiency
Old
Pregnant

Niacin deficiency: signs and symptoms The famous 4 D's:
Diarrhoea
Dermatitis
Dementia
Death (if untreated)

Citric acid cycle compounds "Our City Is
Kept Safe And Sound From Malice":
Oxaloacetate
Citrate
Isocitrate
alpha-Ketoglutarate
Succinyl-CoA
Succinate
Fumarate
Malate

Galactosaemia: enzyme deficiency GALIPUT:
Galactose 1 Phosphate Uridyl Transferase.
· There is an assay called the Galiput test for this.

Metabolic acidosis (normal anion-gap): causes · With
hyperkalemia: RAISE K+:
RTA type 4
Aldosterone or mineralocorticord deficiency
Iatrogenic: NH4Cl, HCl
"Stenosis": obstructive uropathy
Early uremia
· With hypokalemia: ReDUCE K+:
Renal TA type 1 and 2
Diarrhoea
Urine diversion into gut
Carbonate anhydrase inhibitor
Ex-hyperventilation

Creatine phosphate: amino acid precursors "Nice GAMs!":
Glycine
Arginine
Methionine
· Gam is slang for a person's leg, especiallay an attractive female's leg: "Nice
gams = nice legs!"
· Creatine phosphate is a muscle energy store, and spontaneously converts to
creatinine which is excreted in the urine in direct proportion to muscle mass:
clinically useful, such as in MS Dx.

Nitric oxide: amino acid precursor When the dentist works on
your teeth, you say, "AAArg! (Arginine)" before he administers Nitric
Oxide (NO) to take the pain away.
· Other players necessary for NO synthesis: NO synthase, Ca++, NADPH.

Heme synthesis: amino acid precursors to basic unit of porphyrins,
heme (pyrrole ring) "Dracula wants to Suck a Co-ed's
blood [think heme] with his Glystening teeth!":
Succinyl CoA and Glycine are precursor amino acids to pyrrole
rings, which is the basic unit of porphyrins and heme.

Enzymes: classification "Over The HILL":
Oxidoreductases
Transferases
Hydrolases
Isomerases
Ligases
Lyases

Pompe's disease: type "Police = Po + lys":
Pompe's disease is a lysosomal storage disease (alpha 1,4
glucosidase).

Golgi complex: functions "Golgi Distributes A SPAM":
Distributes proteins and lipids from ER
Add mannose onto specific lysosome proteins
Sulfation of sugars and slected tyrosine
Proteoglycan assembly
Add O-oligosugars to serine and threnonine
Modify N-ologosugars on asparagine

Phenylketonuria: which enzyme is deficient PHenylketonuria
is caused by a deficiency of:
Phenylalanine
Hydroxylase

Malate-aspartate shuttle "MAD commute":
Malate in.
Alpha-ketoglutarate and D(Aspartate) out.

DNA bond strength (nucleotides) "Crazy Glue":
Strongest bonds are between Cytosine and Guanine, strong like Crazy
Glue (3 H-bonds), whereas the A=T only have 2 H-bonds.
· This is relevant to DNA replication, as the weaker A=T will be the site where
RNA primer makes the initial break.

Enzyme kinetics: competitive vs. non-competitive inhibition
With Kompetitive inhibition: Km increases; no change in Vmax.
With Non-kompetitive inhibition: No change in Km; 
Vmax decreases.

Sickle cell anemia: mutation "HbS isn't Very
Good":
At Sixth position of HB beta chain, Valine is present instead of
Glutamic acid.

Hyperglycemia: 3 classic signs and symptoms DKA:
Dehydrated
Ketoacidosis
Acetone breath

Vitamins: which are fat soluble "The FAT cat is in
the ADEK (attic)":
Fat soluble vitamins are A,D,E,K.

Citric acid cycle compounds "Oh! Can I
Keep Some Succinate For Myself?":
Oxaloacetate
Citrate
Isocitrate
Ketoglutarate
Succinyl coA
Succinate
Fumarate
Malate

Carbon monoxide: electron transport chain target "CO blocks
CO":
Carbon monoxide (CO) blocks Cytochrome Oxidase (CO)

Electron transport chain: Rotenone's site of action Rotenone
is a site specific inhibitor of complex one.

Catabolism steps of branched chain amino acids "Truck
hit the Ox to Death":
Transamination
Oxidative decarboxylation
Dehydrogenation

Adrenaline mechanism "ABC of Adrenaline":
Adrenaline--> activates Beta receptors--> increases Cyclic
AMP

Citric acid cycle compounds "Can I Keep
Selling Sex For Money, Officer?":
Citrate
Isocitrate
alpha Ketogluterate
Succinyl CoA
Succinate
Fumerate
Malate
Oxaloacetate

Sickle cell disease pathophysiology SICKle cell
disease is due to a Substitution of the SICKsth amino acid of the
B chain.

Glucagon function "Mr. Gluca has Gone to the
cAMP to bring out some Glucose":
· Glucagon elevates glucose by cAMP mechanism.

Infantile Beriberi symptoms Restlessness
Sleeplessness
Breathlessness
Soundlessness (aphonia)
Eatlessness (anorexia)
Great heartedness (dilated heart)
· Alternatively: Get 5 of 'em with BERI: Breathless/ Big
hearted, Eatless, Restless, Insomnia.

Hypervitaminosis A: signs and symptoms "Increased Vitamin A
makes you HARD":
Headache/ Hepatomegaly
Anorexia/ Alopecia
Really painful bones
Dry skin/ Drowsiness

Fasting state: branched-chain amino acids used by skeletal muscles
"Muscles LIVe fast":
Leucine
Isoleucine
Valine

Essential amino acids "PVT. TIM HALL always argues,
never tires":
Phe
Val
Thr
Trp
Ile
Met
His
Arg
Lue
Lys
· Always argues: the A is for Arg, not Asp.
· 'Never tires': T is not Tyr, but is both Thr and Trp.

Na/K pump action (Sing loudly to the chorus of "Kiss Him
Goodbye"): "Na, Na, Na -- out! Na, Na,
Na -- out! K, K goes...inside!"
Action of pump is 3 Na out and 2 K in

AcetylCoA and acetacetylCoA: amino acids forming them "A
Lighter Lease" (A LyTr LeIs):
A=AcetylCoA or Acetoacetyl CoA
Ly=Lysine
Tr=Tryptophan
Le=Leucine
Is=Isoleucine

Van den Bergh reaction (Jaundice test) "Indirect
reacting bilirubin = Unconjugated bilirubin":
Both start with vowels, so they go together: Indirect & Unconjugated.

Type 1 glycogen storage disease Type 1 = one (Von),
ie Von Giereke's disease

Enzymes: competitive inhibitors "Competition is hard
because we have to travel more kilometers (Km) with the same velocity":
With competitive inhibitors, velocity remains same but Km
increases

Fabry's disease FABRY'S:
Foam cells found in glomeruli and tubules/ Febrile episodes
Alpha galactosidase A deficiency/ Angiokeratomas
Burning pain in extremities/ BUN increased in serum/ Boys
Renal failure
YX genotype (male, X linked recessive)
Sphingolipidoses

Collagen concisely covered COLLAGEN:
C-terminal propeptide (procollagen)/ Covalent Cross links/
C vitamin/ Connective tissue/ Cartilage/ Chondroblasts/
Copper Cofactor (Covalent Cross linking)
Outside the cell is where collagen normally functions/ Osteoblasts/
Osteogenesis imperfecta
Lysyl hydroxylase/ Lysyl oxidase (oxidatively deaminates lysyl and
hydroxylysyl residues to form collagen cross links, last biosynthesis step)
Long triple helical fibers/ Ligaments
Alpha chains/ Attached by H bonds form triple helix/ Ascorbate
for hydroxylation of lysyl and prolyl residues of pro-Alpha chains (postranslational
modification)
Gly in every third position/ Glycosylation of hydroxyl group of
hydroxylysine with Glucose and Galactose; GOlgi allows
procollagen to GO outside of cell
Extracellular matrix/ Eye (cornea, sclera)/ Ehlers-Danlos
Syndrome
N-terminal propeptide (procollagen)/ Nonhelical terminal
extensions
· Note: Procollagen LEAVEs the cell to be cLEAVEd by procollagen peptidases

Metabolism sites "Use both arms to HUG":
Heme synthesis
Urea cycle
Gluconeogenesis
· These reactions occur in bothcytoplasm and mitochondria.

Mitochondrial DNA (mt DNA) properties "mt DNA".
mt stands for:
Maternal Transfer
Mutates Tremendously (high mutation rate)

Orbital names before alphabetical order begins "Sober
People Don't Find Good In Killing":
Orbital names for electrons are S,P,D,F,G,I,K.
After that, alphabetical order begins.

Oxidation vs. reduction: electron gain/loss "LEO the
lion says GER":
Lose Electrons = Oxidation.
Gain Electrons = Reduction.

Benzene ring: order of substituents Meta: the two
sticks representing functional groups make a capital letter M with the
ring.
Otho: can close the top of the functional groups and make a boxy capital
letter O.

Cis/trans (geometric) isomer nomenclature "Zame Zide.
Epposite.":
Z is the 2 functional groups on the same side of double bond.
E is for opposite sides.

Oxidation vs. reduction: electron gain/loss OIL RIG:
Oxidation Is Loss (of electrons).
Reduction Is Gain (of electrons).

Cation vs. anion: positive vs. negative The t in cation
looks like a plus sign: "ca+ion".
Cation is positive, anion is negative.

Oxidation vs. reduction: electrochemical cell and electron gain/loss
AN OIL RIG CAT:
At the ANode, Oxidation Involves Loss of electrons.
Reduction Involves Gaining electrons at the CAThode.

Gibb's free energy formula "Good Honey Tastes
Sweet":
(delta)G = H - T(delta)S

Anion vs. cation charge ANion is A Negative
ion.

Benzene ring: order of substituents "Benzene likes to 
ROMP":
· From R group moving around the ring:
R group
Ortho
Meta
Para

Benzene ring: effects of substituents on further additions
"Benzene likes to ROMP. We HOPED she's be safe, but now she's
knocked up. ADOPt or WEDD'M?":
ROMP: Substituents in order: R-group, Ortho, Meta,
Para.
HOPED: Halogens are Ortho, Para, Electron
withdrawing, Deactivating.
ADOPt: Addititive substituents Direct Ortho & Para.
WEDD'M: Withdrawing Electrons Deactivates, Directs
Meta.

Cathode: what happens during electrolysis Current 
Carries Cations to the Cathode for reduCtion.

Cis/trans (geometric) isomer nomenclature The letter "Z" is
written in a zigzag way. If you draw a vertical line splitting it down the
middle then its the same halves (same sides of double bond). The letter "E" is
written differently so a vertical line splits it into different halves
(different sides of double bond).

Cis/trans (geometric) isomers: arrangement of functional groups
Cis starts with a C and the functional groups form a C.
Trans, therefore is the other one by default.

Acids: Lewis acid vs. Bronsted acid BAD LATE:
BAD: Bronsted Acid Donates hydrogens
LATE: Lewis Acid Takes Electrons