Analysis of interatomic Contacts of Structural Units in PDB entry:
5Y9S

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 5Y9S entry

There are 4 chains in PDB entry 5Y9S (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	LYS 299
B	ASN 3	ASP 298
C	MET 1	ASP 298
D	ASN 3	ASP 298

There are 52 helices in PDB entry 5Y9S. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	6	20	Right-handed alpha
Helix 2	AA2	A	21	29	Right-handed alpha
Helix 3	AA3	A	32	48	Right-handed alpha
Helix 4	AA4	A	62	87	Right-handed alpha
Helix 5	AA5	A	102	109	Right-handed alpha
Helix 6	AA6	A	109	117	Right-handed alpha
Helix 7	AA7	A	134	144	Right-handed alpha
Helix 8	AA8	A	205	215	Right-handed alpha
Helix 9	AA9	A	230	240	Right-handed alpha
Helix 10	AB1	A	252	258	Right-handed alpha
Helix 11	AB2	A	268	272	Right-handed 310
Helix 12	AB3	A	287	299	Right-handed alpha
Helix 13	AB4	B	7	20	Right-handed alpha
Helix 14	AB5	B	21	29	Right-handed alpha
Helix 15	AB6	B	32	48	Right-handed alpha
Helix 16	AB7	B	62	87	Right-handed alpha
Helix 17	AB8	B	108	116	Right-handed alpha
Helix 18	AB9	B	134	144	Right-handed alpha
Helix 19	AC1	B	205	216	Right-handed alpha
Helix 20	AC2	B	230	240	Right-handed alpha
Helix 21	AC3	B	252	258	Right-handed alpha
Helix 22	AC4	B	287	298	Right-handed alpha
Helix 23	AC5	C	7	20	Right-handed alpha
Helix 24	AC6	C	21	29	Right-handed alpha
Helix 25	AC7	C	32	48	Right-handed alpha
Helix 26	AC8	C	62	88	Right-handed alpha
Helix 27	AC9	C	89	91	Right-handed 310
Helix 28	AD1	C	102	108	Right-handed alpha
Helix 29	AD2	C	108	117	Right-handed alpha
Helix 30	AD3	C	117	122	Right-handed alpha
Helix 31	AD4	C	134	144	Right-handed alpha
Helix 32	AD5	C	155	159	Right-handed 310
Helix 33	AD6	C	161	166	Right-handed 310
Helix 34	AD7	C	205	217	Right-handed alpha
Helix 35	AD8	C	230	240	Right-handed alpha
Helix 36	AD9	C	252	258	Right-handed alpha
Helix 37	AE1	C	268	272	Right-handed 310
Helix 38	AE2	C	287	298	Right-handed alpha
Helix 39	AE3	D	6	19	Right-handed alpha
Helix 40	AE4	D	21	29	Right-handed alpha
Helix 41	AE5	D	32	48	Right-handed alpha
Helix 42	AE6	D	62	87	Right-handed alpha
Helix 43	AE7	D	102	109	Right-handed alpha
Helix 44	AE8	D	109	117	Right-handed alpha
Helix 45	AE9	D	117	122	Right-handed alpha
Helix 46	AF1	D	134	144	Right-handed alpha
Helix 47	AF2	D	183	190	Right-handed 310
Helix 48	AF3	D	205	217	Right-handed alpha
Helix 49	AF4	D	230	240	Right-handed alpha
Helix 50	AF5	D	252	258	Right-handed alpha
Helix 51	AF6	D	268	272	Right-handed 310
Helix 52	AF7	D	287	297	Right-handed alpha

There are 8 sheets in PDB entry 5Y9S. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 2 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	52	53	first strand
Strand 2	A	60	61	anti-parallel

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There are 11 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	262	263	first strand
Strand 2	A	168	182	anti-parallel
Strand 3	A	244	248	anti-parallel
Strand 4	A	197	201	parallel
Strand 5	A	223	228	parallel
Strand 6	B	125	129	parallel
Strand 7	B	96	100	parallel
Strand 8	B	149	153	parallel
Strand 9	B	273	282	anti-parallel
Strand 10	B	168	182	anti-parallel
Strand 11	B	262	263	anti-parallel

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There are 11 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	262	263	first strand
Strand 2	A	168	182	anti-parallel
Strand 3	A	273	282	anti-parallel
Strand 4	A	149	154	anti-parallel
Strand 5	A	96	101	parallel
Strand 6	A	125	130	parallel
Strand 7	B	222	228	parallel
Strand 8	B	196	201	parallel
Strand 9	B	244	248	parallel
Strand 10	B	168	182	anti-parallel
Strand 11	B	262	263	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	52	53	first strand
Strand 2	B	60	61	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	52	53	first strand
Strand 2	C	60	61	anti-parallel

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There are 11 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	262	263	first strand
Strand 2	C	168	182	anti-parallel
Strand 3	C	244	248	anti-parallel
Strand 4	C	196	201	parallel
Strand 5	C	222	228	parallel
Strand 6	D	125	130	parallel
Strand 7	D	96	101	parallel
Strand 8	D	149	153	parallel
Strand 9	D	273	282	anti-parallel
Strand 10	D	168	182	anti-parallel
Strand 11	D	262	263	anti-parallel

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There are 11 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	262	263	first strand
Strand 2	C	168	182	anti-parallel
Strand 3	C	273	282	anti-parallel
Strand 4	C	149	153	anti-parallel
Strand 5	C	96	101	parallel
Strand 6	C	125	130	parallel
Strand 7	D	221	228	parallel
Strand 8	D	195	201	parallel
Strand 9	D	244	248	parallel
Strand 10	D	168	182	anti-parallel
Strand 11	D	262	263	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	52	53	first strand
Strand 2	D	60	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: 5Y9S

Analysis of interatomic Contacts of Structural Units in PDB entry:
5Y9S