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

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 5YGK entry

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

Chain ID	Initial residue	Terminal residue
A	MET 1	ARG 210
B	MET 1	ARG 208
C	MET 1	ALA 217
D	MET 1	ARG 208
E	MET 1	ARG 208
F	THR 2	ASP 209
G	THR 2	ASP 209
H	THR 2	ALA 217

There are 88 helices in PDB entry 5YGK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	10	18	Right-handed alpha
Helix 2	AA2	A	21	43	Right-handed alpha
Helix 3	AA3	A	55	60	Right-handed 310
Helix 4	AA4	A	61	80	Right-handed alpha
Helix 5	AA5	A	81	83	Right-handed 310
Helix 6	AA6	A	91	94	Right-handed 310
Helix 7	AA7	A	95	109	Right-handed alpha
Helix 8	AA8	A	124	137	Right-handed alpha
Helix 9	AA9	A	144	152	Right-handed alpha
Helix 10	AB1	A	189	193	Right-handed 310
Helix 11	AB2	A	194	208	Right-handed alpha
Helix 12	AB3	B	10	18	Right-handed alpha
Helix 13	AB4	B	21	43	Right-handed alpha
Helix 14	AB5	B	55	60	Right-handed 310
Helix 15	AB6	B	61	80	Right-handed alpha
Helix 16	AB7	B	81	83	Right-handed 310
Helix 17	AB8	B	91	94	Right-handed 310
Helix 18	AB9	B	95	108	Right-handed alpha
Helix 19	AC1	B	124	137	Right-handed alpha
Helix 20	AC2	B	144	152	Right-handed alpha
Helix 21	AC3	B	189	193	Right-handed 310
Helix 22	AC4	B	194	207	Right-handed alpha
Helix 23	AC5	C	10	19	Right-handed alpha
Helix 24	AC6	C	21	43	Right-handed alpha
Helix 25	AC7	C	55	60	Right-handed 310
Helix 26	AC8	C	61	80	Right-handed alpha
Helix 27	AC9	C	81	83	Right-handed 310
Helix 28	AD1	C	91	94	Right-handed 310
Helix 29	AD2	C	95	109	Right-handed alpha
Helix 30	AD3	C	124	137	Right-handed alpha
Helix 31	AD4	C	144	152	Right-handed alpha
Helix 32	AD5	C	189	193	Right-handed 310
Helix 33	AD6	C	194	209	Right-handed alpha
Helix 34	AD7	D	10	18	Right-handed alpha
Helix 35	AD8	D	21	43	Right-handed alpha
Helix 36	AD9	D	55	60	Right-handed 310
Helix 37	AE1	D	61	80	Right-handed alpha
Helix 38	AE2	D	91	94	Right-handed 310
Helix 39	AE3	D	95	109	Right-handed alpha
Helix 40	AE4	D	124	137	Right-handed alpha
Helix 41	AE5	D	144	152	Right-handed alpha
Helix 42	AE6	D	189	193	Right-handed 310
Helix 43	AE7	D	194	207	Right-handed alpha
Helix 44	AE8	E	10	18	Right-handed alpha
Helix 45	AE9	E	21	43	Right-handed alpha
Helix 46	AF1	E	55	60	Right-handed 310
Helix 47	AF2	E	61	80	Right-handed alpha
Helix 48	AF3	E	81	83	Right-handed 310
Helix 49	AF4	E	91	94	Right-handed 310
Helix 50	AF5	E	95	109	Right-handed alpha
Helix 51	AF6	E	124	137	Right-handed alpha
Helix 52	AF7	E	144	152	Right-handed alpha
Helix 53	AF8	E	189	193	Right-handed 310
Helix 54	AF9	E	194	208	Right-handed alpha
Helix 55	AG1	F	10	18	Right-handed alpha
Helix 56	AG2	F	21	43	Right-handed alpha
Helix 57	AG3	F	55	60	Right-handed 310
Helix 58	AG4	F	61	80	Right-handed alpha
Helix 59	AG5	F	81	83	Right-handed 310
Helix 60	AG6	F	91	94	Right-handed 310
Helix 61	AG7	F	95	108	Right-handed alpha
Helix 62	AG8	F	124	137	Right-handed alpha
Helix 63	AG9	F	144	152	Right-handed alpha
Helix 64	AH1	F	189	193	Right-handed 310
Helix 65	AH2	F	194	207	Right-handed alpha
Helix 66	AH3	G	10	19	Right-handed alpha
Helix 67	AH4	G	21	43	Right-handed alpha
Helix 68	AH5	G	55	60	Right-handed 310
Helix 69	AH6	G	61	80	Right-handed alpha
Helix 70	AH7	G	81	83	Right-handed 310
Helix 71	AH8	G	91	94	Right-handed 310
Helix 72	AH9	G	95	109	Right-handed alpha
Helix 73	AI1	G	124	137	Right-handed alpha
Helix 74	AI2	G	144	152	Right-handed alpha
Helix 75	AI3	G	189	193	Right-handed 310
Helix 76	AI4	G	194	207	Right-handed alpha
Helix 77	AI5	H	10	19	Right-handed alpha
Helix 78	AI6	H	21	43	Right-handed alpha
Helix 79	AI7	H	55	60	Right-handed 310
Helix 80	AI8	H	61	80	Right-handed alpha
Helix 81	AI9	H	81	83	Right-handed 310
Helix 82	AJ1	H	91	94	Right-handed 310
Helix 83	AJ2	H	95	109	Right-handed alpha
Helix 84	AJ3	H	124	137	Right-handed alpha
Helix 85	AJ4	H	144	152	Right-handed alpha
Helix 86	AJ5	H	170	174	Right-handed 310
Helix 87	AJ6	H	189	193	Right-handed 310
Helix 88	AJ7	H	194	207	Right-handed alpha

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

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	84	89	first strand
Strand 2	A	116	121	parallel
Strand 3	A	45	51	parallel
Strand 4	A	2	7	parallel
Strand 5	A	160	163	parallel
Strand 6	A	182	185	parallel

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There are 6 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	84	89	first strand
Strand 2	B	116	121	parallel
Strand 3	B	45	51	parallel
Strand 4	B	2	7	parallel
Strand 5	B	160	163	parallel
Strand 6	B	182	185	parallel

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There are 6 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	84	89	first strand
Strand 2	C	116	121	parallel
Strand 3	C	47	51	parallel
Strand 4	C	3	7	parallel
Strand 5	C	160	163	parallel
Strand 6	C	182	185	parallel

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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	84	89	first strand
Strand 2	D	116	121	parallel
Strand 3	D	45	51	parallel
Strand 4	D	2	7	parallel
Strand 5	D	160	163	parallel
Strand 6	D	182	185	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	E	84	89	first strand
Strand 2	E	116	121	parallel
Strand 3	E	45	51	parallel
Strand 4	E	2	7	parallel
Strand 5	E	160	163	parallel
Strand 6	E	182	185	parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	84	89	first strand
Strand 2	F	116	121	parallel
Strand 3	F	47	51	parallel
Strand 4	F	3	7	parallel
Strand 5	F	160	163	parallel
Strand 6	F	182	185	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	G	84	89	first strand
Strand 2	G	116	121	parallel
Strand 3	G	47	51	parallel
Strand 4	G	3	7	parallel
Strand 5	G	160	163	parallel
Strand 6	G	182	185	parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	84	89	first strand
Strand 2	H	116	121	parallel
Strand 3	H	47	51	parallel
Strand 4	H	3	7	parallel
Strand 5	H	160	163	parallel
Strand 6	H	182	185	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: 5YGK

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