Analysis of interatomic Contacts of Structural Units in PDB entry:
6YS5

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 6YS5 entry

There are 10 chains in PDB entry 6YS5 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
3	G 924	G 1384
7	G 26	G 45
9	U 1	U 4
d	GLY 2	MET 211
h	ARG 3	ALA 145
j	ALA 2	ARG 128
k	GLN 4	GLY 103
n	ALA 2	ILE 116
o	ALA 2	TRP 101
t	PRO 2	GLY 84

There are 35 helices in PDB entry 6YS5. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	d	8	12	Right-handed 310
Helix 2	AA2	d	28	47	Right-handed alpha
Helix 3	AA3	d	72	78	Right-handed alpha
Helix 4	AA4	d	83	96	Right-handed alpha
Helix 5	AA5	d	112	125	Right-handed alpha
Helix 6	AA6	d	129	143	Right-handed alpha
Helix 7	AA7	d	156	160	Right-handed 310
Helix 8	AA8	h	20	31	Right-handed alpha
Helix 9	AA9	h	35	53	Right-handed alpha
Helix 10	AB1	h	57	70	Right-handed alpha
Helix 11	AB2	h	98	108	Right-handed alpha
Helix 12	AB3	h	115	129	Right-handed alpha
Helix 13	AB4	h	138	144	Right-handed alpha
Helix 14	AB5	j	32	37	Right-handed alpha
Helix 15	AB6	j	39	47	Right-handed alpha
Helix 16	AB7	j	47	53	Right-handed alpha
Helix 17	AB8	j	69	89	Right-handed alpha
Helix 18	AB9	j	92	99	Right-handed alpha
Helix 19	AC1	k	14	32	Right-handed alpha
Helix 20	AC2	k	82	89	Right-handed alpha
Helix 21	AC3	n	14	19	Right-handed alpha
Helix 22	AC4	n	20	22	Right-handed 310
Helix 23	AC5	n	26	38	Right-handed alpha
Helix 24	AC6	n	44	48	Right-handed 310
Helix 25	AC7	n	51	61	Right-handed alpha
Helix 26	AC8	n	65	84	Right-handed alpha
Helix 27	AC9	n	85	93	Right-handed alpha
Helix 28	AD1	o	3	20	Right-handed alpha
Helix 29	AD2	o	20	32	Right-handed alpha
Helix 30	AD3	o	37	49	Right-handed alpha
Helix 31	AD4	o	50	51	Right-handed 310
Helix 32	AD5	o	52	60	Right-handed 310
Helix 33	AD6	o	80	90	Right-handed alpha
Helix 34	AD7	t	12	26	Right-handed alpha
Helix 35	AD8	t	70	75	Right-handed 310

There are 7 sheets in PDB entry 6YS5. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	d	20	21	first strand
Strand 2	d	52	58	parallel
Strand 3	d	64	70	anti-parallel
Strand 4	d	99	103	parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	d	165	171	first strand
Strand 2	d	148	154	anti-parallel
Strand 3	d	194	206	anti-parallel
Strand 4	d	180	191	anti-parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	j	4	7	first strand
Strand 2	j	16	21	anti-parallel
Strand 3	j	59	64	anti-parallel
Strand 4	j	25	28	parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	k	40	52	first strand
Strand 2	k	62	76	anti-parallel
Strand 3	k	6	12	anti-parallel
Strand 4	k	96	101	anti-parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	k	40	52	first strand
Strand 2	k	62	76	anti-parallel
Strand 3	o	97	98	anti-parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	n	3	4	first strand
Strand 2	n	7	8	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	t	31	33	first strand
Strand 2	t	48	52	parallel
Strand 3	t	57	61	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: 6YS5

Analysis of interatomic Contacts of Structural Units in PDB entry:
6YS5