Analysis of interatomic Contacts of Structural Units in PDB entry:
5YK3

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 5YK3 entry

There are 13 chains in PDB entry 5YK3 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
m	MET 1	SER 124
l	MET 1	ALA 124
o	MET 1	ALA 90
n	ALA 5	ARG 92
k	ALA 77	PRO 161
C	ALA 1	VAL 123
B	ALA 1	ALA 125
E	MET 1	SER 91
D	ALA 2	ILE 97
A	ALA 77	PRO 161
H	MET 1	SER 124
G	ARG 3	SER 125
J	MET 1	LEU 55

There are 55 helices in PDB entry 5YK3. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	m	1	13	Right-handed alpha
Helix 2	AA2	m	14	16	Right-handed 310
Helix 3	AA3	m	41	45	Right-handed 310
Helix 4	AA4	m	46	51	Right-handed alpha
Helix 5	AA5	m	51	61	Right-handed alpha
Helix 6	AA6	m	99	110	Right-handed alpha
Helix 7	AA7	m	110	117	Right-handed alpha
Helix 8	AA8	m	117	122	Right-handed alpha
Helix 9	AA9	l	5	13	Right-handed alpha
Helix 10	AB1	l	41	58	Right-handed alpha
Helix 11	AB2	l	100	123	Right-handed alpha
Helix 12	AB3	o	2	14	Right-handed alpha
Helix 13	AB4	o	38	40	Right-handed 310
Helix 14	AB5	o	41	54	Right-handed alpha
Helix 15	AB6	n	6	11	Right-handed alpha
Helix 16	AB7	n	36	52	Right-handed alpha
Helix 17	AB8	k	79	99	Right-handed alpha
Helix 18	AB9	k	114	120	Right-handed alpha
Helix 19	AC1	k	125	145	Right-handed alpha
Helix 20	AC2	C	2	11	Right-handed alpha
Helix 21	AC3	C	12	16	Right-handed 310
Helix 22	AC4	C	41	45	Right-handed 310
Helix 23	AC5	C	46	51	Right-handed alpha
Helix 24	AC6	C	51	61	Right-handed alpha
Helix 25	AC7	C	99	116	Right-handed alpha
Helix 26	AC8	C	117	122	Right-handed alpha
Helix 27	AC9	B	4	13	Right-handed alpha
Helix 28	AD1	B	41	58	Right-handed alpha
Helix 29	AD2	B	100	116	Right-handed alpha
Helix 30	AD3	E	3	14	Right-handed alpha
Helix 31	AD4	E	38	40	Right-handed 310
Helix 32	AD5	E	41	53	Right-handed alpha
Helix 33	AD6	E	54	56	Right-handed 310
Helix 34	AD7	D	3	11	Right-handed alpha
Helix 35	AD8	D	37	52	Right-handed alpha
Helix 36	AD9	D	53	57	Right-handed 310
Helix 37	AE1	A	78	99	Right-handed alpha
Helix 38	AE2	A	114	121	Right-handed alpha
Helix 39	AE3	A	125	145	Right-handed alpha
Helix 40	AE4	H	2	13	Right-handed alpha
Helix 41	AE5	H	14	16	Right-handed 310
Helix 42	AE6	H	41	45	Right-handed 310
Helix 43	AE7	H	46	51	Right-handed alpha
Helix 44	AE8	H	51	61	Right-handed alpha
Helix 45	AE9	H	99	122	Right-handed alpha
Helix 46	AF1	G	5	13	Right-handed alpha
Helix 47	AF2	G	41	58	Right-handed alpha
Helix 48	AF3	G	100	121	Right-handed alpha
Helix 49	AF4	J	2	14	Right-handed alpha
Helix 50	AF5	J	38	54	Right-handed alpha
Helix 51	AF6	I	4	11	Right-handed alpha
Helix 52	AF7	I	36	51	Right-handed alpha
Helix 53	AF8	F	79	99	Right-handed alpha
Helix 54	AF9	F	114	121	Right-handed alpha
Helix 55	AG1	F	125	144	Right-handed alpha

There are 6 sheets in PDB entry 5YK3. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 10 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	m	31	36	first strand
Strand 2	m	19	25	anti-parallel
Strand 3	m	88	95	anti-parallel
Strand 4	m	78	85	anti-parallel
Strand 5	m	68	75	anti-parallel
Strand 6	l	69	76	anti-parallel
Strand 7	l	79	86	anti-parallel
Strand 8	l	89	95	anti-parallel
Strand 9	l	19	25	anti-parallel
Strand 10	l	31	36	anti-parallel

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There are 10 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	o	30	35	first strand
Strand 2	o	18	24	anti-parallel
Strand 3	o	82	89	anti-parallel
Strand 4	o	72	79	anti-parallel
Strand 5	o	64	68	anti-parallel
Strand 6	n	65	69	anti-parallel
Strand 7	n	73	80	anti-parallel
Strand 8	n	83	90	anti-parallel
Strand 9	n	15	22	anti-parallel
Strand 10	n	29	30	anti-parallel

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There are 10 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	31	36	first strand
Strand 2	C	19	25	anti-parallel
Strand 3	C	88	95	anti-parallel
Strand 4	C	78	85	anti-parallel
Strand 5	C	68	75	anti-parallel
Strand 6	B	69	76	anti-parallel
Strand 7	B	79	86	anti-parallel
Strand 8	B	89	95	anti-parallel
Strand 9	B	19	25	anti-parallel
Strand 10	B	31	35	anti-parallel

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There are 10 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	30	35	first strand
Strand 2	E	18	24	anti-parallel
Strand 3	E	82	89	anti-parallel
Strand 4	E	72	79	anti-parallel
Strand 5	E	64	68	anti-parallel
Strand 6	D	65	69	anti-parallel
Strand 7	D	73	80	anti-parallel
Strand 8	D	83	90	anti-parallel
Strand 9	D	17	22	anti-parallel
Strand 10	D	26	30	anti-parallel

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There are 10 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	31	36	first strand
Strand 2	H	19	25	anti-parallel
Strand 3	H	88	95	anti-parallel
Strand 4	H	78	85	anti-parallel
Strand 5	H	68	75	anti-parallel
Strand 6	G	69	76	anti-parallel
Strand 7	G	80	86	anti-parallel
Strand 8	G	89	95	anti-parallel
Strand 9	G	19	25	anti-parallel
Strand 10	G	31	35	anti-parallel

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There are 10 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	32	35	first strand
Strand 2	J	18	24	anti-parallel
Strand 3	J	82	89	anti-parallel
Strand 4	J	72	79	anti-parallel
Strand 5	J	64	68	anti-parallel
Strand 6	I	65	69	anti-parallel
Strand 7	I	73	80	anti-parallel
Strand 8	I	83	90	anti-parallel
Strand 9	I	15	22	anti-parallel
Strand 10	I	26	32	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: 5YK3

Analysis of interatomic Contacts of Structural Units in PDB entry:
5YK3