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

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 8YMR entry

There are 3 chains in PDB entry 8YMR (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 53	PHE 414
B	ARG 53	PHE 414
C	ARG 53	PHE 414

There are 33 helices in PDB entry 8YMR. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	53	84	Right-handed alpha
Helix 2	AA2	A	109	112	Right-handed 310
Helix 3	AA3	A	113	122	Right-handed alpha
Helix 4	AA4	A	129	136	Right-handed 310
Helix 5	AA5	A	140	147	Right-handed alpha
Helix 6	AA6	A	233	239	Right-handed alpha
Helix 7	AA7	A	240	245	Right-handed alpha
Helix 8	AA8	A	275	296	Right-handed alpha
Helix 9	AA9	A	313	330	Right-handed alpha
Helix 10	AB1	A	382	397	Right-handed alpha
Helix 11	AB2	A	403	414	Right-handed alpha
Helix 12	AB3	B	54	84	Right-handed alpha
Helix 13	AB4	B	109	112	Right-handed 310
Helix 14	AB5	B	113	124	Right-handed alpha
Helix 15	AB6	B	130	136	Right-handed 310
Helix 16	AB7	B	140	147	Right-handed alpha
Helix 17	AB8	B	233	240	Right-handed alpha
Helix 18	AB9	B	240	245	Right-handed alpha
Helix 19	AC1	B	275	296	Right-handed alpha
Helix 20	AC2	B	313	330	Right-handed alpha
Helix 21	AC3	B	382	397	Right-handed alpha
Helix 22	AC4	B	401	414	Right-handed alpha
Helix 23	AC5	C	54	83	Right-handed alpha
Helix 24	AC6	C	109	112	Right-handed 310
Helix 25	AC7	C	113	122	Right-handed alpha
Helix 26	AC8	C	129	136	Right-handed 310
Helix 27	AC9	C	140	147	Right-handed alpha
Helix 28	AD1	C	233	240	Right-handed alpha
Helix 29	AD2	C	240	245	Right-handed alpha
Helix 30	AD3	C	275	296	Right-handed alpha
Helix 31	AD4	C	313	330	Right-handed alpha
Helix 32	AD5	C	382	397	Right-handed alpha
Helix 33	AD6	C	403	414	Right-handed alpha

There are 12 sheets in PDB entry 8YMR. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 6 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	86	94	first strand
Strand 2	A	371	379	anti-parallel
Strand 3	A	255	264	parallel
Strand 4	A	361	366	parallel
Strand 5	A	204	210	anti-parallel
Strand 6	A	156	161	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	A	86	94	first strand
Strand 2	A	371	379	anti-parallel
Strand 3	A	255	264	parallel
Strand 4	A	342	351	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	97	98	first strand
Strand 2	A	197	198	anti-parallel

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There are 5 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	179	183	first strand
Strand 2	A	186	190	anti-parallel
Strand 3	A	104	107	anti-parallel
Strand 4	A	223	227	anti-parallel
Strand 5	A	246	249	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	86	94	first strand
Strand 2	B	371	379	anti-parallel
Strand 3	B	255	264	parallel
Strand 4	B	361	366	parallel
Strand 5	B	204	210	anti-parallel
Strand 6	B	156	161	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	86	94	first strand
Strand 2	B	371	379	anti-parallel
Strand 3	B	255	264	parallel
Strand 4	B	342	351	anti-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	B	97	98	first strand
Strand 2	B	197	198	anti-parallel

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There are 5 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	179	183	first strand
Strand 2	B	186	190	anti-parallel
Strand 3	B	104	107	anti-parallel
Strand 4	B	223	227	anti-parallel
Strand 5	B	246	249	anti-parallel

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There are 6 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	86	94	first strand
Strand 2	C	371	379	anti-parallel
Strand 3	C	255	264	parallel
Strand 4	C	361	366	parallel
Strand 5	C	204	210	anti-parallel
Strand 6	C	156	161	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	C	86	94	first strand
Strand 2	C	371	379	anti-parallel
Strand 3	C	255	264	parallel
Strand 4	C	342	351	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	97	98	first strand
Strand 2	C	197	198	anti-parallel

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There are 5 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	179	183	first strand
Strand 2	C	186	190	anti-parallel
Strand 3	C	104	107	anti-parallel
Strand 4	C	223	227	anti-parallel
Strand 5	C	246	249	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: 8YMR

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