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

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 5YGR entry

There are 8 chains in PDB entry 5YGR (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLN 8	PHE 77
A	GLY 79	GLY 401
B	GLN 8	PHE 77
B	GLY 79	ALA 404
C	TYR 7	PHE 77
C	GLY 79	ALA 404
D	GLN 8	PHE 77
D	GLY 79	ALA 404

There are 75 helices in PDB entry 5YGR. 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	40	Right-handed alpha
Helix 2	AA2	A	51	59	Right-handed alpha
Helix 3	AA3	A	69	74	Right-handed 310
Helix 4	AA4	A	78	94	Right-handed alpha
Helix 5	AA5	A	108	113	Right-handed alpha
Helix 6	AA6	A	114	116	Right-handed 310
Helix 7	AA7	A	126	139	Right-handed alpha
Helix 8	AA8	A	154	161	Right-handed alpha
Helix 9	AA9	A	172	188	Right-handed alpha
Helix 10	AB1	A	201	224	Right-handed alpha
Helix 11	AB2	A	240	254	Right-handed alpha
Helix 12	AB3	A	255	258	Right-handed 310
Helix 13	AB4	A	270	279	Right-handed alpha
Helix 14	AB5	A	294	298	Right-handed 310
Helix 15	AB6	A	306	314	Right-handed alpha
Helix 16	AB7	A	321	334	Right-handed alpha
Helix 17	AB8	A	350	362	Right-handed alpha
Helix 18	AB9	A	365	372	Right-handed alpha
Helix 19	AC1	A	390	399	Right-handed alpha
Helix 20	AC2	B	26	39	Right-handed alpha
Helix 21	AC3	B	51	59	Right-handed alpha
Helix 22	AC4	B	69	74	Right-handed 310
Helix 23	AC5	B	78	94	Right-handed alpha
Helix 24	AC6	B	112	116	Right-handed 310
Helix 25	AC7	B	126	139	Right-handed alpha
Helix 26	AC8	B	152	161	Right-handed alpha
Helix 27	AC9	B	172	188	Right-handed alpha
Helix 28	AD1	B	201	224	Right-handed alpha
Helix 29	AD2	B	240	254	Right-handed alpha
Helix 30	AD3	B	255	258	Right-handed 310
Helix 31	AD4	B	270	278	Right-handed alpha
Helix 32	AD5	B	294	298	Right-handed 310
Helix 33	AD6	B	306	314	Right-handed alpha
Helix 34	AD7	B	321	334	Right-handed alpha
Helix 35	AD8	B	350	362	Right-handed alpha
Helix 36	AD9	B	363	366	Right-handed 310
Helix 37	AE1	B	390	399	Right-handed alpha
Helix 38	AE2	C	26	39	Right-handed alpha
Helix 39	AE3	C	51	59	Right-handed alpha
Helix 40	AE4	C	69	74	Right-handed 310
Helix 41	AE5	C	78	94	Right-handed alpha
Helix 42	AE6	C	111	116	Right-handed 310
Helix 43	AE7	C	126	139	Right-handed alpha
Helix 44	AE8	C	154	161	Right-handed alpha
Helix 45	AE9	C	172	188	Right-handed alpha
Helix 46	AF1	C	201	224	Right-handed alpha
Helix 47	AF2	C	240	254	Right-handed alpha
Helix 48	AF3	C	255	258	Right-handed 310
Helix 49	AF4	C	270	279	Right-handed alpha
Helix 50	AF5	C	294	298	Right-handed 310
Helix 51	AF6	C	306	314	Right-handed alpha
Helix 52	AF7	C	321	334	Right-handed alpha
Helix 53	AF8	C	350	362	Right-handed alpha
Helix 54	AF9	C	365	372	Right-handed alpha
Helix 55	AG1	C	390	399	Right-handed alpha
Helix 56	AG2	D	26	39	Right-handed alpha
Helix 57	AG3	D	51	59	Right-handed alpha
Helix 58	AG4	D	69	74	Right-handed 310
Helix 59	AG5	D	79	94	Right-handed alpha
Helix 60	AG6	D	104	107	Right-handed 310
Helix 61	AG7	D	108	114	Right-handed alpha
Helix 62	AG8	D	126	139	Right-handed alpha
Helix 63	AG9	D	152	161	Right-handed alpha
Helix 64	AH1	D	172	188	Right-handed alpha
Helix 65	AH2	D	201	211	Right-handed alpha
Helix 66	AH3	D	212	224	Right-handed alpha
Helix 67	AH4	D	240	254	Right-handed alpha
Helix 68	AH5	D	255	258	Right-handed 310
Helix 69	AH6	D	270	279	Right-handed alpha
Helix 70	AH7	D	294	298	Right-handed 310
Helix 71	AH8	D	306	314	Right-handed alpha
Helix 72	AH9	D	321	334	Right-handed alpha
Helix 73	AI1	D	350	362	Right-handed alpha
Helix 74	AI2	D	365	372	Right-handed alpha
Helix 75	AI3	D	390	399	Right-handed alpha

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

There are 7 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	9	13	first strand
Strand 2	A	316	320	anti-parallel
Strand 3	A	260	266	parallel
Strand 4	A	232	236	parallel
Strand 5	A	379	384	parallel
Strand 6	A	62	67	parallel
Strand 7	A	48	50	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	165	168	first strand
Strand 2	A	142	147	parallel
Strand 3	A	119	123	parallel
Strand 4	A	190	191	parallel

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There are 7 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	9	13	first strand
Strand 2	B	316	320	anti-parallel
Strand 3	B	260	266	parallel
Strand 4	B	232	236	parallel
Strand 5	B	379	384	parallel
Strand 6	B	62	67	parallel
Strand 7	B	48	50	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	B	165	168	first strand
Strand 2	B	142	147	parallel
Strand 3	B	119	123	parallel
Strand 4	B	190	191	parallel

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There are 7 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	9	13	first strand
Strand 2	C	316	320	anti-parallel
Strand 3	C	260	266	parallel
Strand 4	C	232	236	parallel
Strand 5	C	379	384	parallel
Strand 6	C	62	67	parallel
Strand 7	C	48	50	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	C	165	168	first strand
Strand 2	C	142	147	parallel
Strand 3	C	119	123	parallel
Strand 4	C	190	191	parallel

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There are 7 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	9	13	first strand
Strand 2	D	316	320	anti-parallel
Strand 3	D	260	266	parallel
Strand 4	D	232	236	parallel
Strand 5	D	379	384	parallel
Strand 6	D	62	67	parallel
Strand 7	D	48	50	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	D	165	168	first strand
Strand 2	D	142	147	parallel
Strand 3	D	119	123	parallel
Strand 4	D	190	191	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: 5YGR

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