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

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 6YPU entry

There are 15 chains in PDB entry 6YPU (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
2	U 3	G 923
4	C 1385	C 1530
c	MET 8	GLY 226
e	ALA 2	LYS 208
f	LEU 10	GLN 164
g	MET 1	ALA 103
i	SER 2	SER 131
l	VAL 15	VAL 128
m	ALA 2	LYS 123
p	ALA 2	ARG 89
q	MET 1	LYS 80
r	THR 5	ALA 83
s	ILE 21	ASN 73
u	ALA 2	ALA 87
v	PRO 2	ALA 61

There are 52 helices in PDB entry 6YPU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	c	26	30	Right-handed 310
Helix 2	AA2	c	44	64	Right-handed alpha
Helix 3	AA3	c	78	88	Right-handed alpha
Helix 4	AA4	c	105	122	Right-handed alpha
Helix 5	AA5	c	132	149	Right-handed alpha
Helix 6	AA6	c	150	154	Right-handed 310
Helix 7	AA7	c	171	182	Right-handed alpha
Helix 8	AA8	c	208	225	Right-handed alpha
Helix 9	AA9	e	9	16	Right-handed alpha
Helix 10	AB1	e	53	68	Right-handed alpha
Helix 11	AB2	e	70	82	Right-handed alpha
Helix 12	AB3	e	87	98	Right-handed alpha
Helix 13	AB4	e	99	107	Right-handed alpha
Helix 14	AB5	e	112	122	Right-handed alpha
Helix 15	AB6	e	148	152	Right-handed 310
Helix 16	AB7	e	155	165	Right-handed alpha
Helix 17	AB8	e	199	206	Right-handed alpha
Helix 18	AB9	f	54	67	Right-handed alpha
Helix 19	AC1	f	108	116	Right-handed alpha
Helix 20	AC2	f	131	145	Right-handed alpha
Helix 21	AC3	f	148	156	Right-handed alpha
Helix 22	AC4	g	12	15	Right-handed 310
Helix 23	AC5	g	18	32	Right-handed alpha
Helix 24	AC6	g	67	80	Right-handed alpha
Helix 25	AC7	i	6	20	Right-handed alpha
Helix 26	AC8	i	30	43	Right-handed alpha
Helix 27	AC9	i	95	100	Right-handed 310
Helix 28	AD1	i	114	121	Right-handed alpha
Helix 29	AD2	l	52	57	Right-handed 310
Helix 30	AD3	l	58	75	Right-handed alpha
Helix 31	AD4	l	89	91	Right-handed 310
Helix 32	AD5	l	92	101	Right-handed alpha
Helix 33	AD6	m	3	10	Right-handed alpha
Helix 34	AD7	m	21	25	Right-handed 310
Helix 35	AD8	m	113	117	Right-handed 310
Helix 36	AD9	p	4	16	Right-handed alpha
Helix 37	AE1	p	24	39	Right-handed alpha
Helix 38	AE2	p	39	44	Right-handed alpha
Helix 39	AE3	p	52	74	Right-handed alpha
Helix 40	AE4	p	74	86	Right-handed alpha
Helix 41	AE5	q	53	64	Right-handed alpha
Helix 42	AE6	q	70	78	Right-handed alpha
Helix 43	AE7	s	25	30	Right-handed alpha
Helix 44	AE8	s	31	33	Right-handed 310
Helix 45	AE9	s	41	46	Right-handed alpha
Helix 46	AF1	s	48	66	Right-handed alpha
Helix 47	AF2	u	4	42	Right-handed alpha
Helix 48	AF3	u	43	52	Right-handed alpha
Helix 49	AF4	u	54	64	Right-handed alpha
Helix 50	AF5	u	68	81	Right-handed alpha
Helix 51	AF6	v	15	23	Right-handed alpha
Helix 52	AF7	v	40	56	Right-handed alpha

There are 14 sheets in PDB entry 6YPU. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	c	18	21	first strand
Strand 2	c	40	43	anti-parallel
Strand 3	c	33	36	anti-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	c	70	72	first strand
Strand 2	c	163	165	parallel
Strand 3	c	185	189	parallel
Strand 4	c	200	203	parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	e	126	127	first strand
Strand 2	e	130	131	anti-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	f	11	23	first strand
Strand 2	f	28	39	anti-parallel
Strand 3	f	44	52	anti-parallel
Strand 4	f	71	72	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	f	84	88	first strand
Strand 2	f	91	97	anti-parallel
Strand 3	f	122	128	anti-parallel
Strand 4	f	104	105	parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	g	35	39	first strand
Strand 2	g	54	66	anti-parallel
Strand 3	g	44	51	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	g	35	39	first strand
Strand 2	g	54	66	anti-parallel
Strand 3	g	2	10	anti-parallel
Strand 4	g	84	92	anti-parallel

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There are 3 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	i	24	28	first strand
Strand 2	i	58	63	anti-parallel
Strand 3	i	48	53	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	i	66	67	first strand
Strand 2	i	70	71	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	i	76	78	first strand
Strand 2	i	125	130	anti-parallel
Strand 3	i	102	107	anti-parallel
Strand 4	i	110	113	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	l	40	45	first strand
Strand 2	l	29	34	anti-parallel
Strand 3	l	17	24	anti-parallel
Strand 4	l	80	86	parallel
Strand 5	l	105	111	parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	m	30	40	first strand
Strand 2	m	50	57	anti-parallel
Strand 3	m	62	66	anti-parallel
Strand 4	m	95	97	parallel
Strand 5	m	79	84	anti-parallel
Strand 6	m	30	40	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	q	50	52	first strand
Strand 2	q	34	39	anti-parallel
Strand 3	q	17	23	anti-parallel
Strand 4	q	2	8	anti-parallel
Strand 5	q	66	67	parallel

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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	r	8	18	first strand
Strand 2	r	21	30	anti-parallel
Strand 3	r	39	48	anti-parallel
Strand 4	r	72	81	parallel
Strand 5	r	59	69	anti-parallel
Strand 6	r	8	18	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: 6YPU

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