aminolookup - Find amino acid codes, integers, abbreviations, names, and codons

Syntax

aminolookup aminolookup(SeqAA) aminolookup('Code', CodeValue) aminolookup('Integer', IntegerValue) aminolookup('Abbreviation', AbbreviationValue) aminolookup('Name', NameValue)

Arguments

`SeqAA`	String of single-letter codes or three-letter abbreviations representing an amino acid sequence. For valid codes and abbreviations, see the table Amino Acid Lookup.
`CodeValue`	String specifying a single-letter code representing an amino acid. For valid single-letter codes, see the table Amino Acid Lookup.
`IntegerValue`	Single integer representing an amino acid. For valid integers, see the table Amino Acid Lookup.
`AbbreviationValue`	String specifying a three-letter abbreviation representing an amino acid. For valid three-letter abbreviations, see the table Amino Acid Lookup.
`NameValue`	String specifying an amino acid name. For valid amino acid names, see the table Amino Acid Lookup.

Description

aminolookup displays a table of amino acid codes, integers, abbreviations, names, and codons.

Amino Acid Lookup

Code	Integer	Abbreviation	Amino Acid Name	Codons
`A`	`1`	`Ala`	Alanine	`GCU GCC GCA GCG`
`R`	`2`	`Arg`	Arginine	`CGU CGC CGA CGG AGA AGG`
`N`	`3`	`Asn`	Asparagine	`AAU AAC`
`D`	`4`	`Asp`	Aspartic acid (Aspartate)	`GAU GAC`
`C`	`5`	`Cys`	Cysteine	`UGU UGC`
`Q`	`6`	`Gln`	Glutamine	`CAA CAG`
`E`	`7`	`Glu`	Glutamic acid (Glutamate)	`GAA GAG`
`G`	`8`	`Gly`	Glycine	`GGU GGC GGA GGG`
`H`	`9`	`His`	Histidine	`CAU CAC`
`I`	`10`	`Ile`	Isoleucine	`AUU AUC AUA`
`L`	`11`	`Leu`	Leucine	`UUA UUG CUU CUC CUA CUG`
`K`	`12`	`Lys`	Lysine	`AAA AAG`
`M`	`13`	`Met`	Methionine	`AUG`
`F`	`14`	`Phe`	Phenylalanine	`UUU UUC`
`P`	`15`	`Pro`	Proline	`CCU CCC CCA CCG`
`S`	`16`	`Ser`	Serine	`UCU UCC UCA UCG AGU AGC`
`T`	`17`	`Thr`	Threonine	`ACU ACC ACA ACG`
`W`	`18`	`Trp`	Tryptophan	`UGG`
`Y`	`19`	`Tyr`	Tyrosine	`UAU UAC`
`V`	`20`	`Val`	Valine	`GUU GUC GUA GUG`
`B`	`21`	`Asx`	Asparagine or Aspartic acid (Aspartate)	`AAU AAC GAU GAC`
`Z`	`22`	`Glx`	Glutamine or Glutamic acid (Glutamate)	`CAA CAG GAA GAG`
`X`	`23`	`Xaa`	Any amino acid	All codons
`*`	`24`	`END`	Termination codon (translation stop)	`UAA UAG UGA`
`-`	`25`	`GAP`	Gap of unknown length	`NA`

aminolookup(SeqAA) converts between single-letter codes and three-letter abbreviations for an amino acid sequence. If the input is a string of single-letter codes, then the output is a character string of three-letter abbreviations. If the input is a string of three-letter abbreviations, then the output is a string of the corresponding single-letter codes.

If you enter one of the ambiguous single-letter codes B, Z, or X, this function displays the corresponding abbreviation for the ambiguous amino acid character.

aminolookup('abc')

ans =

AlaAsxCys

aminolookup('Code', CodeValue) displays the corresponding amino acid three-letter abbreviation and name.

aminolookup('Integer', IntegerValue) displays the corresponding amino acid single-letter code, three-letter abbreviation, and name.

aminolookup('Abbreviation', AbbreviationValue) displays the corresponding amino acid single-letter code and name.

aminolookup('Name', NameValue) displays the corresponding amino acid single-letter code and three-letter abbreviation.

Examples

Convert an amino acid sequence in single-letter codes to the corresponding three-letter abbreviations.
```
aminolookup('MWKQAEDIRDIYDF')

ans =

MetTrpLysGlnAlaGluAspIleArgAspIleTyrAspPhe
```
Convert an amino acid sequence in three-letter abbreviations to the corresponding single-letter codes.
```
aminolookup('MetTrpLysGlnAlaGluAspIleArgAspIleTyrAspPhe')

ans =

MWKQAEDIRDIYDF
```
Display the three-letter abbreviation and name for the amino acid corresponding to the single-letter code R.
```
aminolookup('Code', 'R')

ans =

Arg Arginine
```
Display the single-letter code, three-letter abbreviation, and name for the amino acid corresponding to the integer 1.
```
aminolookup('Integer', 1)

ans =

A Ala Alanine
```
Display the single-letter code and name for the amino acid corresponding to the three-letter abbreviation asn.
```
aminolookup('Abbreviation', 'asn')

ans =

N Asparagine
```
Display the single-letter code and three-letter abbreviation for the amino acid proline.
```
aminolookup('Name','proline')

ans =

P Pro
```

aminolookup - Find amino acid codes, integers, abbreviations, names, and codons

Syntax

Arguments

Description

Examples

See Also

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