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

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 5JYM entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 1	ASP 213
B	GLN 1	GLU 247
C	ASP 1	ASP 213
D	GLN 1	GLU 247

There are 16 helices in PDB entry 5JYM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	26	30	Right-handed 310
Helix 2	AA2	A	196	199	Right-handed 310
Helix 3	AA3	B	28	32	Right-handed 310
Helix 4	AA4	B	62	65	Right-handed 310
Helix 5	AA5	B	74	76	Right-handed 310
Helix 6	AA6	B	87	91	Right-handed 310
Helix 7	AA7	B	171	173	Right-handed 310
Helix 8	AA8	B	221	225	Right-handed 310
Helix 9	AA9	C	26	30	Right-handed 310
Helix 10	AB1	C	196	199	Right-handed 310
Helix 11	AB2	D	28	32	Right-handed 310
Helix 12	AB3	D	62	65	Right-handed 310
Helix 13	AB4	D	74	76	Right-handed 310
Helix 14	AB5	D	87	91	Right-handed 310
Helix 15	AB6	D	171	173	Right-handed 310
Helix 16	AB7	D	221	225	Right-handed 310

There are 22 sheets in PDB entry 5JYM. 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, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4,

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	A	7	10	first strand
Strand 2	A	92	99	parallel
Strand 3	A	73	82	anti-parallel
Strand 4	A	34	39	anti-parallel

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There are 3 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	19	23	first strand
Strand 2	A	59	62	anti-parallel
Strand 3	A	51	53	anti-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	A	107	108	first strand
Strand 2	A	132	133	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	A	112	118	first strand
Strand 2	A	202	212	parallel
Strand 3	A	186	194	anti-parallel
Strand 4	A	147	154	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	A	126	129	first strand
Strand 2	A	171	174	anti-parallel
Strand 3	A	163	165	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	3	5	first strand
Strand 2	B	18	25	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	68	73	anti-parallel

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There are 6 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	9	11	first strand
Strand 2	B	116	119	parallel
Strand 3	B	92	98	anti-parallel
Strand 4	B	34	39	anti-parallel
Strand 5	B	45	52	anti-parallel
Strand 6	B	57	60	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	9	11	first strand
Strand 2	B	116	119	parallel
Strand 3	B	92	98	anti-parallel
Strand 4	B	111	112	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	145	148	first strand
Strand 2	B	160	166	anti-parallel
Strand 3	B	212	217	anti-parallel
Strand 4	B	204	209	anti-parallel

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There are 6 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	151	153	first strand
Strand 2	B	244	247	parallel
Strand 3	B	227	232	anti-parallel
Strand 4	B	175	180	anti-parallel
Strand 5	B	187	191	anti-parallel
Strand 6	B	195	196	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	151	153	first strand
Strand 2	B	244	247	parallel
Strand 3	B	227	232	anti-parallel
Strand 4	B	239	240	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	7	10	first strand
Strand 2	C	92	99	parallel
Strand 3	C	73	81	anti-parallel
Strand 4	C	35	39	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	19	23	first strand
Strand 2	C	59	62	anti-parallel
Strand 3	C	51	53	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	107	108	first strand
Strand 2	C	132	133	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	112	118	first strand
Strand 2	C	202	212	parallel
Strand 3	C	186	194	anti-parallel
Strand 4	C	147	154	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	126	129	first strand
Strand 2	C	171	174	anti-parallel
Strand 3	C	163	165	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	3	5	first strand
Strand 2	D	18	25	anti-parallel
Strand 3	D	78	83	anti-parallel
Strand 4	D	68	73	anti-parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	57	60	first strand
Strand 2	D	45	52	anti-parallel
Strand 3	D	34	39	anti-parallel
Strand 4	D	92	98	anti-parallel
Strand 5	D	111	112	anti-parallel

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There are 5 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	57	60	first strand
Strand 2	D	45	52	anti-parallel
Strand 3	D	34	39	anti-parallel
Strand 4	D	92	98	anti-parallel
Strand 5	D	116	118	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	145	148	first strand
Strand 2	D	160	166	anti-parallel
Strand 3	D	212	217	anti-parallel
Strand 4	D	204	209	anti-parallel

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There are 6 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	151	153	first strand
Strand 2	D	244	247	parallel
Strand 3	D	227	232	anti-parallel
Strand 4	D	175	180	anti-parallel
Strand 5	D	187	191	anti-parallel
Strand 6	D	195	196	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	151	153	first strand
Strand 2	D	244	247	parallel
Strand 3	D	227	232	anti-parallel
Strand 4	D	239	240	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: 5JYM

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