1YGU: Leukocyte common antigen

Crystal structure of the tandem phosphatase domains of RPTP CD45 with a pTyr peptide. Determined by X-ray diffraction at 2.9 Å resolution. Released 22 Feb 2005.

Method: X-ray diffraction
Resolution: 2.9 Å
Organism: Homo sapiens
Chains: 4
Atoms: 9,529
Mol. weight: 144.09 kDa
Released: 22 Feb 2005

Explore 1YGU in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1YGU contains 39 α-helices and 56 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 19 helices, 28 β-strands

Element	Residues	Length	Sheet
β-strand	608-609	2	1
α-helix	610-634	25
α-helix	650-652	3
β-strand	668	1	2
β-strand	685-688	4	2
β-strand	697-700	4	2
α-helix	701-703	3
α-helix	708-717	10
β-strand	722-726	5	2
β-strand	730-731	2	3
β-strand	734-735	2	3
β-strand	748-751	4	2
β-strand	754-763	10	2
β-strand	767-776	10	2
β-strand	784-791	8	2
α-helix	803-813	11
α-helix	822-823	2
β-strand	824-827	4	2
α-helix	833-851	19
β-strand	853-854	2	1
α-helix	856-863	8
α-helix	874-890	17
β-strand	895-896	2	4
α-helix	900-908	9
α-helix	918-925	8
α-helix	937-939	3
α-helix	941-944	4
β-strand	959	1	5
β-strand	995-999	5	5
β-strand	1006-1011	6	5
α-helix	1012-1014	3
α-helix	1018-1027	10
β-strand	1032-1035	4	5
β-strand	1040-1041	2	6
β-strand	1044-1045	2	6
β-strand	1057-1058	2	7
β-strand	1061-1062	2	7
β-strand	1065-1070	6	5
β-strand	1074-1081	8	5
β-strand	1082-1083	2	7
β-strand	1090-1097	8	5
α-helix	1109-1121	13
β-strand	1140-1144	5	5
α-helix	1151-1166	16
β-strand	1169-1170	2	4
α-helix	1172-1180	9
α-helix	1190-1202	13

Chain B: 20 helices, 28 β-strands

Element	Residues	Length	Sheet
β-strand	608-609	2	8
α-helix	610-634	25
α-helix	650-652	3
β-strand	668-670	3	9
β-strand	682-688	7	9
β-strand	697-700	4	9
α-helix	701-704	4
α-helix	705-707	3
α-helix	708-717	10
β-strand	722-725	4	9
β-strand	730-731	2	10
β-strand	734-735	2	10
β-strand	748-751	4	9
β-strand	754-763	10	9
β-strand	767-776	10	9
β-strand	784-791	8	9
α-helix	803-813	11
α-helix	822-823	2
β-strand	824-827	4	9
α-helix	833-851	19
β-strand	853-854	2	8
α-helix	856-866	11
α-helix	874-890	17
β-strand	895-896	2	11
α-helix	900-908	9
α-helix	918-925	8
α-helix	937-939	3
α-helix	941-944	4
β-strand	959	1	12
β-strand	995-999	5	12
β-strand	1006-1011	6	12
α-helix	1012-1014	3
α-helix	1018-1027	10
β-strand	1032-1035	4	12
β-strand	1040-1041	2	13
β-strand	1044-1045	2	13
β-strand	1057-1058	2	14
β-strand	1061-1062	2	14
β-strand	1065-1070	6	12
β-strand	1074-1081	8	12
β-strand	1082-1083	2	14
β-strand	1090-1097	8	12
α-helix	1109-1120	12
β-strand	1140-1144	5	12
α-helix	1151-1166	16
β-strand	1169-1170	2	11
α-helix	1172-1180	9
α-helix	1190-1202	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Leukocyte common antigen	A, B	protein	610	Homo sapiens	P08575 (AlphaFold model)
Polyoma Middle T antigen	C, D	protein	4		P03077

Sequence of entity 1 (A, B), FASTA

>1YGU_1 Leukocyte common antigen (chains A, B)
EKQLMNVEPIHADILLETYKRKIADEGRPFLAEFQSIPRVFSKFPIKEARKPFNQNKNRY
VDILPYDYNRVELSEINGDAGSNYINASYIDGFKEPRKYIAAQGPRDETVDDFWRMIWEQ
KATVIVMVTRCEEGNRNKCAEYWPSMEEGTRAFGDVVVKINQHKRCPDYIIQKLNIVNKK
EKATGREVTHIQFTSWPDHGVPEDPHLLLKLRRRVNAFSNFFSGPIVVHSSAGVGRTGTY
IGIDAMLEGLEAENKVDVYGYVVKLRRQRCLMVQVEAQYILIHQALVEYNQFGETEVNLS
ELHPYLHNMKKRDPPSEPSPLEAEFQRLPSYRSWRTQHIGNQEENKSKNRNSNVIPYDYN
RVPLKHELEMSKESEHDSDESSDDDSDSEEPSKYINASFIMSYWKPEVMIAAQGPLKETI
GDFWQMIFQRKVKVIVMLTELKHGDQEICAQYWGEGKQTYGDIEVDLKDTDKSSTYTLRV
FELRHSKRKDSRTVYQYQYTNWSVEQLPAEPKELISMIQVVKQKLPQKNSSEGNKHHKST
PLLIHCRDGSQQTGIFCALLNLLESAETEEVVDIFQVVKALRKARLGMVSTFEQYQFLYD
VIASTYPAQN

Sequence of entity 2 (C, D), FASTA

>1YGU_2 Polyoma Middle T antigen (chains C, D)
PTYS

Primary citation

Structural basis for the function and regulation of the receptor protein tyrosine phosphatase CD45. Nam, H.J., Poy, F., Saito, H. et al. J Exp Med (2005) 201:441-452. DOI 10.1084/jem.20041890 · PubMed

Other PDB entries of the same protein (UniProt P08575 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5FN7 2.3 Å, Crystal structure of human CD45 extracellular region, domains d1-d2
1YGR 2.9 Å, Crystal structure of the tandem phosphatase domain of RPTP CD45
5FMV 2.9 Å, Crystal structure of human CD45 extracellular region, domains d1-d4
5FN6 3.3 Å, Crystal structure of human CD45 extracellular region, domains d1-d3
8VSE 3.8 Å, Cryo-EM structure of human CD45 extracellular region in complex with adenoviral protein…

Browse structure collections

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