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

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 5YGP entry

There are 3 chains in PDB entry 5YGP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 4	LEU 456
B	GLU 4	LEU 456
C	GLY 6	VAL 391

There are 90 helices in PDB entry 5YGP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	17	33	Right-handed alpha
Helix 2	AA2	A	43	52	Right-handed alpha
Helix 3	AA3	A	67	74	Right-handed alpha
Helix 4	AA4	A	83	88	Right-handed alpha
Helix 5	AA5	A	91	98	Right-handed alpha
Helix 6	AA6	A	129	131	Right-handed 310
Helix 7	AA7	A	132	143	Right-handed alpha
Helix 8	AA8	A	154	165	Right-handed alpha
Helix 9	AA9	A	186	202	Right-handed alpha
Helix 10	AB1	A	210	220	Right-handed alpha
Helix 11	AB2	A	229	231	Right-handed 310
Helix 12	AB3	A	232	239	Right-handed alpha
Helix 13	AB4	A	273	284	Right-handed alpha
Helix 14	AB5	A	287	298	Right-handed alpha
Helix 15	AB6	A	305	313	Right-handed alpha
Helix 16	AB7	A	315	328	Right-handed alpha
Helix 17	AB8	A	336	353	Right-handed alpha
Helix 18	AB9	A	357	374	Right-handed alpha
Helix 19	AC1	A	375	379	Right-handed 310
Helix 20	AC2	A	386	395	Right-handed alpha
Helix 21	AC3	A	398	423	Right-handed alpha
Helix 22	AC4	A	429	438	Right-handed alpha
Helix 23	AC5	A	440	455	Right-handed alpha
Helix 24	AC6	B	17	33	Right-handed alpha
Helix 25	AC7	B	43	52	Right-handed alpha
Helix 26	AC8	B	67	74	Right-handed alpha
Helix 27	AC9	B	83	88	Right-handed alpha
Helix 28	AD1	B	91	98	Right-handed alpha
Helix 29	AD2	B	132	142	Right-handed alpha
Helix 30	AD3	B	154	163	Right-handed alpha
Helix 31	AD4	B	186	202	Right-handed alpha
Helix 32	AD5	B	210	220	Right-handed alpha
Helix 33	AD6	B	229	231	Right-handed 310
Helix 34	AD7	B	232	239	Right-handed alpha
Helix 35	AD8	B	273	284	Right-handed alpha
Helix 36	AD9	B	287	296	Right-handed alpha
Helix 37	AE1	B	305	313	Right-handed alpha
Helix 38	AE2	B	315	328	Right-handed alpha
Helix 39	AE3	B	336	353	Right-handed alpha
Helix 40	AE4	B	357	374	Right-handed alpha
Helix 41	AE5	B	375	377	Right-handed 310
Helix 42	AE6	B	386	395	Right-handed alpha
Helix 43	AE7	B	398	424	Right-handed alpha
Helix 44	AE8	B	429	439	Right-handed alpha
Helix 45	AE9	B	440	456	Right-handed alpha
Helix 46	AF1	C	17	33	Right-handed alpha
Helix 47	AF2	C	43	52	Right-handed alpha
Helix 48	AF3	C	67	74	Right-handed alpha
Helix 49	AF4	C	83	88	Right-handed alpha
Helix 50	AF5	C	91	98	Right-handed alpha
Helix 51	AF6	C	131	142	Right-handed alpha
Helix 52	AF7	C	154	163	Right-handed alpha
Helix 53	AF8	C	186	202	Right-handed alpha
Helix 54	AF9	C	210	220	Right-handed alpha
Helix 55	AG1	C	229	231	Right-handed 310
Helix 56	AG2	C	232	239	Right-handed alpha
Helix 57	AG3	C	273	284	Right-handed alpha
Helix 58	AG4	C	287	298	Right-handed alpha
Helix 59	AG5	C	305	313	Right-handed alpha
Helix 60	AG6	C	315	328	Right-handed alpha
Helix 61	AG7	C	336	353	Right-handed alpha
Helix 62	AG8	C	357	374	Right-handed alpha
Helix 63	AG9	C	375	379	Right-handed 310
Helix 64	AH1	C	386	395	Right-handed alpha
Helix 65	AH2	C	398	424	Right-handed alpha
Helix 66	AH3	C	429	438	Right-handed alpha
Helix 67	AH4	C	441	454	Right-handed alpha
Helix 68	AH5	D	17	33	Right-handed alpha
Helix 69	AH6	D	43	52	Right-handed alpha
Helix 70	AH7	D	67	74	Right-handed alpha
Helix 71	AH8	D	83	88	Right-handed alpha
Helix 72	AH9	D	91	98	Right-handed alpha
Helix 73	AI1	D	129	131	Right-handed 310
Helix 74	AI2	D	132	144	Right-handed alpha
Helix 75	AI3	D	154	163	Right-handed alpha
Helix 76	AI4	D	186	202	Right-handed alpha
Helix 77	AI5	D	210	220	Right-handed alpha
Helix 78	AI6	D	229	231	Right-handed 310
Helix 79	AI7	D	232	238	Right-handed alpha
Helix 80	AI8	D	273	284	Right-handed alpha
Helix 81	AI9	D	287	298	Right-handed alpha
Helix 82	AJ1	D	305	313	Right-handed alpha
Helix 83	AJ2	D	315	328	Right-handed alpha
Helix 84	AJ3	D	336	354	Right-handed alpha
Helix 85	AJ4	D	357	374	Right-handed alpha
Helix 86	AJ5	D	375	379	Right-handed 310
Helix 87	AJ6	D	386	395	Right-handed alpha
Helix 88	AJ7	D	398	424	Right-handed alpha
Helix 89	AJ8	D	429	438	Right-handed alpha
Helix 90	AJ9	D	440	456	Right-handed alpha

There are 22 sheets in PDB entry 5YGP. 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 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	35	39	first strand
Strand 2	A	7	11	parallel
Strand 3	A	60	64	parallel
Strand 4	A	259	267	anti-parallel
Strand 5	A	107	112	anti-parallel
Strand 6	A	302	303	anti-parallel

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There are 5 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	35	39	first strand
Strand 2	A	7	11	parallel
Strand 3	A	60	64	parallel
Strand 4	A	259	267	anti-parallel
Strand 5	A	329	330	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	99	100	first strand
Strand 2	A	103	104	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	146	148	first strand
Strand 2	A	223	228	parallel
Strand 3	A	115	119	anti-parallel
Strand 4	A	243	246	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	A	168	172	first strand
Strand 2	A	177	183	anti-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	A	250	251	first strand
Strand 2	A	254	255	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	35	39	first strand
Strand 2	B	7	11	parallel
Strand 3	B	60	64	parallel
Strand 4	B	259	267	anti-parallel
Strand 5	B	107	112	anti-parallel
Strand 6	B	302	303	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	35	39	first strand
Strand 2	B	7	11	parallel
Strand 3	B	60	64	parallel
Strand 4	B	259	267	anti-parallel
Strand 5	B	329	330	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	B	99	100	first strand
Strand 2	B	103	104	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	B	146	148	first strand
Strand 2	B	223	228	parallel
Strand 3	B	115	119	anti-parallel
Strand 4	B	243	246	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	B	168	173	first strand
Strand 2	B	176	183	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	250	251	first strand
Strand 2	B	254	255	anti-parallel

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There are 6 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	35	39	first strand
Strand 2	C	7	11	parallel
Strand 3	C	60	64	parallel
Strand 4	C	259	267	anti-parallel
Strand 5	C	107	112	anti-parallel
Strand 6	C	302	303	anti-parallel

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There are 5 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	35	39	first strand
Strand 2	C	7	11	parallel
Strand 3	C	60	64	parallel
Strand 4	C	259	267	anti-parallel
Strand 5	C	329	330	parallel

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There are 2 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	99	100	first strand
Strand 2	C	103	104	anti-parallel

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There are 4 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	146	148	first strand
Strand 2	C	223	228	parallel
Strand 3	C	115	119	anti-parallel
Strand 4	C	243	246	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	170	173	first strand
Strand 2	C	176	182	anti-parallel

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There are 6 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	35	39	first strand
Strand 2	D	7	11	parallel
Strand 3	D	60	64	parallel
Strand 4	D	259	267	anti-parallel
Strand 5	D	107	112	anti-parallel
Strand 6	D	302	303	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	35	39	first strand
Strand 2	D	7	11	parallel
Strand 3	D	60	64	parallel
Strand 4	D	259	267	anti-parallel
Strand 5	D	329	330	parallel

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There are 2 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	99	100	first strand
Strand 2	D	103	104	anti-parallel

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There are 4 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	146	148	first strand
Strand 2	D	223	228	parallel
Strand 3	D	115	119	anti-parallel
Strand 4	D	243	246	anti-parallel

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There are 2 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	170	173	first strand
Strand 2	D	176	182	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: 5YGP

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