Analysis of interatomic Contacts of Structural Units in PDB entry:
8PK1

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 8PK1 entry

There are 10 chains in PDB entry 8PK1 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	TYR 5	CYS 111
B	GLY 3	ARG 288
C	GLY 3	ILE 289
D	TYR 5	CYS 111
E	GLY 3	ARG 288
F	GLY 3	ILE 289
G	T 1	T 24
H	A 1	T 24
J	A 1	T 12
K	A 1	T 12

There are 60 helices in PDB entry 8PK1. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	18	24	Right-handed alpha
Helix 2	AA2	A	24	35	Right-handed alpha
Helix 3	AA3	A	51	65	Right-handed alpha
Helix 4	AA4	A	79	84	Right-handed alpha
Helix 5	AA5	A	95	99	Right-handed 310
Helix 6	AA6	B	52	62	Right-handed alpha
Helix 7	AA7	B	86	96	Right-handed alpha
Helix 8	AA8	B	98	124	Right-handed alpha
Helix 9	AA9	B	126	138	Right-handed alpha
Helix 10	AB1	B	147	161	Right-handed alpha
Helix 11	AB2	B	172	195	Right-handed alpha
Helix 12	AB3	B	212	219	Right-handed alpha
Helix 13	AB4	B	220	222	Right-handed 310
Helix 14	AB5	B	223	233	Right-handed alpha
Helix 15	AB6	B	237	246	Right-handed alpha
Helix 16	AB7	B	246	251	Right-handed alpha
Helix 17	AB8	B	262	279	Right-handed alpha
Helix 18	AB9	C	52	60	Right-handed alpha
Helix 19	AC1	C	89	95	Right-handed alpha
Helix 20	AC2	C	98	123	Right-handed alpha
Helix 21	AC3	C	126	137	Right-handed alpha
Helix 22	AC4	C	147	162	Right-handed alpha
Helix 23	AC5	C	171	176	Right-handed alpha
Helix 24	AC6	C	176	184	Right-handed alpha
Helix 25	AC7	C	184	195	Right-handed alpha
Helix 26	AC8	C	212	220	Right-handed alpha
Helix 27	AC9	C	223	233	Right-handed alpha
Helix 28	AD1	C	237	245	Right-handed alpha
Helix 29	AD2	C	246	251	Right-handed alpha
Helix 30	AD3	C	262	278	Right-handed alpha
Helix 31	AD4	D	18	23	Right-handed alpha
Helix 32	AD5	D	24	35	Right-handed alpha
Helix 33	AD6	D	51	65	Right-handed alpha
Helix 34	AD7	D	79	85	Right-handed alpha
Helix 35	AD8	D	95	99	Right-handed 310
Helix 36	AD9	E	52	61	Right-handed alpha
Helix 37	AE1	E	86	96	Right-handed alpha
Helix 38	AE2	E	98	124	Right-handed alpha
Helix 39	AE3	E	126	138	Right-handed alpha
Helix 40	AE4	E	147	161	Right-handed alpha
Helix 41	AE5	E	171	195	Right-handed alpha
Helix 42	AE6	E	212	219	Right-handed alpha
Helix 43	AE7	E	220	222	Right-handed 310
Helix 44	AE8	E	223	233	Right-handed alpha
Helix 45	AE9	E	237	246	Right-handed alpha
Helix 46	AF1	E	246	251	Right-handed alpha
Helix 47	AF2	E	262	279	Right-handed alpha
Helix 48	AF3	F	52	60	Right-handed alpha
Helix 49	AF4	F	89	95	Right-handed alpha
Helix 50	AF5	F	98	123	Right-handed alpha
Helix 51	AF6	F	126	137	Right-handed alpha
Helix 52	AF7	F	147	162	Right-handed alpha
Helix 53	AF8	F	171	176	Right-handed alpha
Helix 54	AF9	F	176	184	Right-handed alpha
Helix 55	AG1	F	184	195	Right-handed alpha
Helix 56	AG2	F	212	220	Right-handed alpha
Helix 57	AG3	F	223	233	Right-handed alpha
Helix 58	AG4	F	237	245	Right-handed alpha
Helix 59	AG5	F	246	251	Right-handed alpha
Helix 60	AG6	F	262	278	Right-handed alpha

There are 12 sheets in PDB entry 8PK1. 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 5 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	38	41	first strand
Strand 2	A	44	49	anti-parallel
Strand 3	A	6	13	anti-parallel
Strand 4	A	71	78	anti-parallel
Strand 5	D	86	89	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	86	89	first strand
Strand 2	D	71	78	anti-parallel
Strand 3	D	6	13	anti-parallel
Strand 4	D	44	49	anti-parallel
Strand 5	D	38	41	anti-parallel

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There are 9 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	103	106	first strand
Strand 2	B	5	9	parallel
Strand 3	B	38	43	parallel
Strand 4	B	64	68	parallel
Strand 5	B	74	80	anti-parallel
Strand 6	C	74	80	anti-parallel
Strand 7	C	64	68	anti-parallel
Strand 8	C	38	43	parallel
Strand 9	C	5	9	parallel

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There are 3 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	15	17	first strand
Strand 2	B	21	25	anti-parallel
Strand 3	B	30	34	anti-parallel

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There are 5 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	49	51	first strand
Strand 2	C	49	51	anti-parallel
Strand 3	C	14	17	parallel
Strand 4	C	21	25	anti-parallel
Strand 5	C	31	34	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	B	252	255	first strand
Strand 2	B	258	261	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	C	252	255	first strand
Strand 2	C	258	261	anti-parallel

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There are 9 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	103	106	first strand
Strand 2	E	5	9	parallel
Strand 3	E	38	43	parallel
Strand 4	E	64	68	parallel
Strand 5	E	74	80	anti-parallel
Strand 6	F	74	80	anti-parallel
Strand 7	F	64	68	anti-parallel
Strand 8	F	38	43	parallel
Strand 9	F	5	9	parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	14	17	first strand
Strand 2	E	21	25	anti-parallel
Strand 3	E	30	34	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	49	51	first strand
Strand 2	F	49	51	anti-parallel
Strand 3	F	14	17	parallel
Strand 4	F	21	25	anti-parallel
Strand 5	F	31	34	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	E	252	255	first strand
Strand 2	E	258	261	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	F	252	255	first strand
Strand 2	F	258	261	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: 8PK1

Analysis of interatomic Contacts of Structural Units in PDB entry:
8PK1