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

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 8PNL entry

There are 4 chains in PDB entry 8PNL (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 16	GLY 510
B	GLN 1	VAL 116
C	THR 16	GLY 510
D	GLY 2	VAL 116

There are 48 helices in PDB entry 8PNL. 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	38	Right-handed alpha
Helix 2	AA2	A	39	41	Right-handed 310
Helix 3	AA3	A	42	51	Right-handed alpha
Helix 4	AA4	A	61	74	Right-handed alpha
Helix 5	AA5	A	74	86	Right-handed alpha
Helix 6	AA6	A	86	107	Right-handed alpha
Helix 7	AA7	A	110	140	Right-handed alpha
Helix 8	AA8	A	141	175	Right-handed alpha
Helix 9	AA9	A	177	199	Right-handed alpha
Helix 10	AB1	A	212	231	Right-handed alpha
Helix 11	AB2	A	244	266	Right-handed alpha
Helix 12	AB3	A	277	309	Right-handed alpha
Helix 13	AB4	A	313	320	Right-handed alpha
Helix 14	AB5	A	321	343	Right-handed alpha
Helix 15	AB6	A	343	363	Right-handed alpha
Helix 16	AB7	A	368	371	Right-handed 310
Helix 17	AB8	A	383	409	Right-handed alpha
Helix 18	AB9	A	414	456	Right-handed alpha
Helix 19	AC1	A	466	505	Right-handed alpha
Helix 20	AC2	A	506	508	Right-handed 310
Helix 21	AC3	B	61	64	Right-handed 310
Helix 22	AC4	B	86	90	Right-handed 310
Helix 23	AC5	C	17	37	Right-handed alpha
Helix 24	AC6	C	38	41	Right-handed 310
Helix 25	AC7	C	42	51	Right-handed alpha
Helix 26	AC8	C	53	60	Right-handed 310
Helix 27	AC9	C	61	74	Right-handed alpha
Helix 28	AD1	C	74	86	Right-handed alpha
Helix 29	AD2	C	86	107	Right-handed alpha
Helix 30	AD3	C	110	127	Right-handed alpha
Helix 31	AD4	C	127	140	Right-handed alpha
Helix 32	AD5	C	141	174	Right-handed alpha
Helix 33	AD6	C	177	199	Right-handed alpha
Helix 34	AD7	C	212	231	Right-handed alpha
Helix 35	AD8	C	244	263	Right-handed alpha
Helix 36	AD9	C	277	309	Right-handed alpha
Helix 37	AE1	C	313	320	Right-handed alpha
Helix 38	AE2	C	321	343	Right-handed alpha
Helix 39	AE3	C	343	363	Right-handed alpha
Helix 40	AE4	C	368	372	Right-handed 310
Helix 41	AE5	C	382	398	Right-handed alpha
Helix 42	AE6	C	398	408	Right-handed alpha
Helix 43	AE7	C	414	456	Right-handed alpha
Helix 44	AE8	C	466	506	Right-handed alpha
Helix 45	AE9	D	25	30	Right-handed alpha
Helix 46	AF1	D	61	64	Right-handed 310
Helix 47	AF2	D	86	90	Right-handed 310
Helix 48	AF3	D	101	104	Right-handed 310

There are 7 sheets in PDB entry 8PNL. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 2 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	373	375	first strand
Strand 2	A	380	382	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	B	5	7	first strand
Strand 2	B	18	23	anti-parallel
Strand 3	B	77	82	anti-parallel
Strand 4	B	67	72	anti-parallel

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There are 5 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	57	59	first strand
Strand 2	B	46	51	anti-parallel
Strand 3	B	34	39	anti-parallel
Strand 4	B	91	100	anti-parallel
Strand 5	B	105	108	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	B	57	59	first strand
Strand 2	B	46	51	anti-parallel
Strand 3	B	34	39	anti-parallel
Strand 4	B	91	100	anti-parallel
Strand 5	B	112	114	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	4	7	first strand
Strand 2	D	18	24	anti-parallel
Strand 3	D	77	82	anti-parallel
Strand 4	D	67	72	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	57	59	first strand
Strand 2	D	46	51	anti-parallel
Strand 3	D	34	38	anti-parallel
Strand 4	D	91	100	anti-parallel
Strand 5	D	105	107	anti-parallel

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There are 5 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	57	59	first strand
Strand 2	D	46	51	anti-parallel
Strand 3	D	34	38	anti-parallel
Strand 4	D	91	100	anti-parallel
Strand 5	D	112	114	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: 8PNL

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