Analysis of interatomic Contacts of Structural Units in PDB entry:
8YJM

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 8YJM entry

There are 7 chains in PDB entry 8YJM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ILE 645	ASP 965
B	ASP 68	GLY 125
C	LYS 56	ARG 134
D	ARG 23	GLN 93
E	LYS 56	ALA 135
F	ILE 26	GLY 99
G	GLU 35	ALA 1103

There are 30 helices in PDB entry 8YJM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	761	791	Right-handed alpha
Helix 2	AA2	A	801	805	Right-handed 310
Helix 3	AA3	A	878	889	Right-handed alpha
Helix 4	AA4	A	901	912	Right-handed alpha
Helix 5	AA5	A	912	919	Right-handed alpha
Helix 6	AA6	A	921	926	Right-handed 310
Helix 7	AA7	A	941	945	Right-handed alpha
Helix 8	AA8	B	76	81	Right-handed 310
Helix 9	AA9	B	106	123	Right-handed alpha
Helix 10	AB1	C	63	79	Right-handed alpha
Helix 11	AB2	C	85	114	Right-handed alpha
Helix 12	AB3	C	120	132	Right-handed alpha
Helix 13	AB4	D	30	41	Right-handed alpha
Helix 14	AB5	D	49	76	Right-handed alpha
Helix 15	AB6	D	82	93	Right-handed alpha
Helix 16	AB7	E	63	76	Right-handed alpha
Helix 17	AB8	E	85	114	Right-handed alpha
Helix 18	AB9	E	120	132	Right-handed alpha
Helix 19	AC1	F	30	41	Right-handed alpha
Helix 20	AC2	F	49	76	Right-handed alpha
Helix 21	AC3	F	82	92	Right-handed alpha
Helix 22	AC4	G	37	49	Right-handed alpha
Helix 23	AC5	G	55	84	Right-handed alpha
Helix 24	AC6	G	90	102	Right-handed alpha
Helix 25	AC7	G	103	124	Right-handed alpha
Helix 26	AC8	G	1016	1021	Right-handed alpha
Helix 27	AC9	G	1026	1037	Right-handed alpha
Helix 28	AD1	G	1045	1073	Right-handed alpha
Helix 29	AD2	G	1079	1089	Right-handed alpha
Helix 30	AD3	G	1090	1098	Right-handed alpha

There are 9 sheets in PDB entry 8YJM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 8 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	696	700	first strand
Strand 2	A	686	691	anti-parallel
Strand 3	A	677	682	anti-parallel
Strand 4	A	661	668	anti-parallel
Strand 5	A	735	743	anti-parallel
Strand 6	A	717	728	anti-parallel
Strand 7	A	704	710	anti-parallel
Strand 8	A	797	798	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	748	750	first strand
Strand 2	D	45	47	anti-parallel
Strand 3	C	118	119	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	A	806	808	first strand
Strand 2	A	815	819	anti-parallel
Strand 3	A	823	826	anti-parallel
Strand 4	A	833	836	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	869	875	first strand
Strand 2	A	854	861	anti-parallel
Strand 3	A	840	846	anti-parallel
Strand 4	A	893	896	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	83	84	first strand
Strand 2	D	80	81	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	E	83	84	first strand
Strand 2	F	80	81	parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	118	119	first strand
Strand 2	F	45	46	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	G	53	54	first strand
Strand 2	G	1077	1078	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	G	88	89	first strand
Strand 2	G	1042	1043	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: 8YJM

Analysis of interatomic Contacts of Structural Units in PDB entry:
8YJM