Analysis of interatomic Contacts of Structural Units in PDB entry:
1YUP

Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
This page provides analyses of contacts formed by:

chains
helices
sheets
residues

For analysis of ligand-protein contacts, use:

LPC software

3D structure can be seen in additional window with STING software for 1YUP entry

There are 8 chains in PDB entry 1YUP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ILE 1	VAL 162
B	VAL 3	CYS 160
C	VAL 3	VAL 162
D	VAL 3	CYS 160
E	ASP 9	VAL 162
F	ILE 2	CYS 160
G	VAL 3	VAL 162
H	ASP 9	CYS 160

There are 35 helices in PDB entry 1YUP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	11	16	Right-handed 310
Helix 2	2	A	28	33	Right-handed alpha
Helix 3	3	A	129	141	Right-handed alpha
Helix 4	4	A	152	158	Right-handed alpha
Helix 5	5	B	28	33	Right-handed alpha
Helix 6	6	B	112	117	Right-handed alpha
Helix 7	7	B	129	142	Right-handed alpha
Helix 8	8	B	152	158	Right-handed alpha
Helix 9	9	C	11	16	Right-handed 310
Helix 10	10	C	28	32	Right-handed 310
Helix 11	11	C	129	141	Right-handed alpha
Helix 12	12	C	152	158	Right-handed alpha
Helix 13	13	D	11	16	Right-handed 310
Helix 14	14	D	28	32	Right-handed 310
Helix 15	15	D	112	116	Right-handed 310
Helix 16	16	D	129	142	Right-handed alpha
Helix 17	17	D	152	158	Right-handed alpha
Helix 18	18	E	11	16	Right-handed 310
Helix 19	19	E	28	32	Right-handed 310
Helix 20	20	E	113	116	Right-handed 310
Helix 21	21	E	129	141	Right-handed alpha
Helix 22	22	E	152	158	Right-handed alpha
Helix 23	23	F	11	16	Right-handed 310
Helix 24	24	F	28	33	Right-handed alpha
Helix 25	25	F	112	116	Right-handed 310
Helix 26	26	F	129	142	Right-handed alpha
Helix 27	27	F	152	159	Right-handed alpha
Helix 28	28	G	11	16	Right-handed 310
Helix 29	29	G	28	32	Right-handed 310
Helix 30	30	G	129	142	Right-handed alpha
Helix 31	31	G	152	158	Right-handed alpha
Helix 32	32	H	11	15	Right-handed 310
Helix 33	33	H	28	32	Right-handed 310
Helix 34	34	H	129	143	Right-handed alpha
Helix 35	35	H	154	159	Right-handed alpha

There are 6 sheets in PDB entry 1YUP. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 16 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	17	18	first strand
Strand 2	A	42	48	anti-parallel
Strand 3	A	54	61	anti-parallel
Strand 4	A	66	75	anti-parallel
Strand 5	A	81	83	anti-parallel
Strand 6	A	91	97	anti-parallel
Strand 7	A	102	108	anti-parallel
Strand 8	A	118	123	anti-parallel
Strand 9	A	20	26	anti-parallel
Strand 10	A	147	150	anti-parallel
Strand 11	B	147	150	anti-parallel
Strand 12	B	20	26	anti-parallel
Strand 13	B	118	123	anti-parallel
Strand 14	B	102	108	anti-parallel
Strand 15	B	89	97	anti-parallel
Strand 16	B	81	86	anti-parallel

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There are 4 strands in B sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	17	18	first strand
Strand 2	B	42	48	anti-parallel
Strand 3	B	54	61	anti-parallel
Strand 4	B	66	73	anti-parallel

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There are 20 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	17	18	first strand
Strand 2	C	42	48	anti-parallel
Strand 3	C	54	62	anti-parallel
Strand 4	C	65	75	anti-parallel
Strand 5	C	81	86	anti-parallel
Strand 6	C	89	97	anti-parallel
Strand 7	C	102	108	anti-parallel
Strand 8	C	118	123	anti-parallel
Strand 9	C	20	26	anti-parallel
Strand 10	C	147	150	anti-parallel
Strand 11	D	147	150	anti-parallel
Strand 12	D	20	26	anti-parallel
Strand 13	D	118	123	anti-parallel
Strand 14	D	102	108	anti-parallel
Strand 15	D	89	97	anti-parallel
Strand 16	D	81	86	anti-parallel
Strand 17	D	66	75	anti-parallel
Strand 18	D	54	61	anti-parallel
Strand 19	D	42	48	anti-parallel
Strand 20	D	17	18	anti-parallel

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There are 20 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	17	18	first strand
Strand 2	E	42	48	anti-parallel
Strand 3	E	54	62	anti-parallel
Strand 4	E	65	75	anti-parallel
Strand 5	E	81	86	anti-parallel
Strand 6	E	89	97	anti-parallel
Strand 7	E	102	108	anti-parallel
Strand 8	E	118	123	anti-parallel
Strand 9	E	20	26	anti-parallel
Strand 10	E	147	150	anti-parallel
Strand 11	F	147	150	anti-parallel
Strand 12	F	20	26	anti-parallel
Strand 13	F	118	123	anti-parallel
Strand 14	F	102	108	anti-parallel
Strand 15	F	89	97	anti-parallel
Strand 16	F	81	86	anti-parallel
Strand 17	F	66	75	anti-parallel
Strand 18	F	54	61	anti-parallel
Strand 19	F	42	48	anti-parallel
Strand 20	F	17	18	anti-parallel

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There are 16 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	17	18	first strand
Strand 2	G	42	48	anti-parallel
Strand 3	G	54	61	anti-parallel
Strand 4	G	66	75	anti-parallel
Strand 5	G	81	86	anti-parallel
Strand 6	G	89	97	anti-parallel
Strand 7	G	102	108	anti-parallel
Strand 8	G	118	123	anti-parallel
Strand 9	G	20	26	anti-parallel
Strand 10	G	147	150	anti-parallel
Strand 11	H	147	150	anti-parallel
Strand 12	H	20	26	anti-parallel
Strand 13	H	118	123	anti-parallel
Strand 14	H	102	108	anti-parallel
Strand 15	H	89	97	anti-parallel
Strand 16	H	81	86	anti-parallel

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There are 4 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	17	18	first strand
Strand 2	H	41	48	anti-parallel
Strand 3	H	54	61	anti-parallel
Strand 4	H	66	73	anti-parallel

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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

Analysis of interatomic Contacts of Structural Units in PDB entry: 1YUP

Analysis of interatomic Contacts of Structural Units in PDB entry:
1YUP