Analysis of interatomic Contacts of Structural Units in PDB entry:
4PNF

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 4PNF entry

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

Chain ID	Initial residue	Terminal residue
A	VAL 2	GLU 221
B	VAL 2	ALA 222
C	LYS 3	GLU 221
D	LYS 3	GLU 221
E	LYS 3	ALA 222
F	LYS 3	ALA 222
G	LEU 4	ALA 222
H	LYS 3	GLU 221

There are104 helices in PDB entry 4PNF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	12	25	Right-handed alpha
Helix 2	AA2	A	39	42	Right-handed 310
Helix 3	AA3	A	43	50	Right-handed alpha
Helix 4	AA4	A	67	80	Right-handed alpha
Helix 5	AA5	A	89	106	Right-handed alpha
Helix 6	AA6	A	107	112	Right-handed alpha
Helix 7	AA7	A	112	123	Right-handed alpha
Helix 8	AA8	A	128	147	Right-handed alpha
Helix 9	AA9	A	158	169	Right-handed alpha
Helix 10	AB1	A	170	174	Right-handed 310
Helix 11	AB2	A	182	194	Right-handed alpha
Helix 12	AB3	A	197	202	Right-handed alpha
Helix 13	AB4	A	202	216	Right-handed alpha
Helix 14	AB5	B	12	25	Right-handed alpha
Helix 15	AB6	B	39	42	Right-handed 310
Helix 16	AB7	B	43	50	Right-handed alpha
Helix 17	AB8	B	67	80	Right-handed alpha
Helix 18	AB9	B	89	106	Right-handed alpha
Helix 19	AC1	B	107	112	Right-handed alpha
Helix 20	AC2	B	112	122	Right-handed alpha
Helix 21	AC3	B	128	146	Right-handed alpha
Helix 22	AC4	B	158	169	Right-handed alpha
Helix 23	AC5	B	170	174	Right-handed 310
Helix 24	AC6	B	182	194	Right-handed alpha
Helix 25	AC7	B	197	202	Right-handed alpha
Helix 26	AC8	B	202	216	Right-handed alpha
Helix 27	AC9	C	12	25	Right-handed alpha
Helix 28	AD1	C	39	42	Right-handed 310
Helix 29	AD2	C	43	50	Right-handed alpha
Helix 30	AD3	C	67	80	Right-handed alpha
Helix 31	AD4	C	89	105	Right-handed alpha
Helix 32	AD5	C	107	112	Right-handed alpha
Helix 33	AD6	C	112	123	Right-handed alpha
Helix 34	AD7	C	128	146	Right-handed alpha
Helix 35	AD8	C	158	169	Right-handed alpha
Helix 36	AD9	C	170	174	Right-handed 310
Helix 37	AE1	C	182	194	Right-handed alpha
Helix 38	AE2	C	197	202	Right-handed alpha
Helix 39	AE3	C	202	217	Right-handed alpha
Helix 40	AE4	D	12	26	Right-handed alpha
Helix 41	AE5	D	35	42	Right-handed 310
Helix 42	AE6	D	43	50	Right-handed alpha
Helix 43	AE7	D	67	80	Right-handed alpha
Helix 44	AE8	D	89	106	Right-handed alpha
Helix 45	AE9	D	107	112	Right-handed alpha
Helix 46	AF1	D	112	122	Right-handed alpha
Helix 47	AF2	D	128	146	Right-handed alpha
Helix 48	AF3	D	158	169	Right-handed alpha
Helix 49	AF4	D	170	174	Right-handed 310
Helix 50	AF5	D	182	194	Right-handed alpha
Helix 51	AF6	D	197	202	Right-handed alpha
Helix 52	AF7	D	202	217	Right-handed alpha
Helix 53	AF8	E	12	25	Right-handed alpha
Helix 54	AF9	E	39	42	Right-handed 310
Helix 55	AG1	E	43	50	Right-handed alpha
Helix 56	AG2	E	67	80	Right-handed alpha
Helix 57	AG3	E	82	86	Right-handed 310
Helix 58	AG4	E	89	105	Right-handed alpha
Helix 59	AG5	E	107	112	Right-handed alpha
Helix 60	AG6	E	112	121	Right-handed alpha
Helix 61	AG7	E	128	146	Right-handed alpha
Helix 62	AG8	E	158	169	Right-handed alpha
Helix 63	AG9	E	170	174	Right-handed 310
Helix 64	AH1	E	182	194	Right-handed alpha
Helix 65	AH2	E	197	202	Right-handed alpha
Helix 66	AH3	E	202	217	Right-handed alpha
Helix 67	AH4	F	12	25	Right-handed alpha
Helix 68	AH5	F	39	42	Right-handed 310
Helix 69	AH6	F	43	50	Right-handed alpha
Helix 70	AH7	F	67	80	Right-handed alpha
Helix 71	AH8	F	89	106	Right-handed alpha
Helix 72	AH9	F	107	112	Right-handed alpha
Helix 73	AI1	F	112	122	Right-handed alpha
Helix 74	AI2	F	128	146	Right-handed alpha
Helix 75	AI3	F	158	172	Right-handed alpha
Helix 76	AI4	F	182	193	Right-handed alpha
Helix 77	AI5	F	197	202	Right-handed alpha
Helix 78	AI6	F	202	216	Right-handed alpha
Helix 79	AI7	G	12	25	Right-handed alpha
Helix 80	AI8	G	39	42	Right-handed 310
Helix 81	AI9	G	43	50	Right-handed alpha
Helix 82	AJ1	G	67	80	Right-handed alpha
Helix 83	AJ2	G	89	106	Right-handed alpha
Helix 84	AJ3	G	107	112	Right-handed alpha
Helix 85	AJ4	G	112	122	Right-handed alpha
Helix 86	AJ5	G	128	146	Right-handed alpha
Helix 87	AJ6	G	158	171	Right-handed alpha
Helix 88	AJ7	G	172	174	Right-handed 310
Helix 89	AJ8	G	182	194	Right-handed alpha
Helix 90	AJ9	G	197	202	Right-handed alpha
Helix 91	AK1	G	202	216	Right-handed alpha
Helix 92	AK2	H	12	25	Right-handed alpha
Helix 93	AK3	H	39	42	Right-handed 310
Helix 94	AK4	H	43	50	Right-handed alpha
Helix 95	AK5	H	67	80	Right-handed alpha
Helix 96	AK6	H	89	106	Right-handed alpha
Helix 97	AK7	H	107	112	Right-handed alpha
Helix 98	AK8	H	112	121	Right-handed alpha
Helix 99	AK9	H	128	146	Right-handed alpha
Helix 100	AL1	H	158	171	Right-handed alpha
Helix 101	AL2	H	172	174	Right-handed 310
Helix 102	AL3	H	182	194	Right-handed alpha
Helix 103	AL4	H	197	202	Right-handed alpha
Helix 104	AL5	H	202	215	Right-handed alpha

There are 16 sheets in PDB entry 4PNF. 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,

There are 4 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	30	33	first strand
Strand 2	A	4	8	parallel
Strand 3	A	57	60	anti-parallel
Strand 4	A	63	66	anti-parallel

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There are 2 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	126	127	first strand
Strand 2	A	219	220	parallel

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There are 4 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	30	33	first strand
Strand 2	B	4	8	parallel
Strand 3	B	57	60	anti-parallel
Strand 4	B	63	66	anti-parallel

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There are 2 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	126	127	first strand
Strand 2	B	219	220	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	C	30	33	first strand
Strand 2	C	4	8	parallel
Strand 3	C	57	60	anti-parallel
Strand 4	C	63	66	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	C	126	127	first strand
Strand 2	C	219	220	parallel

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There are 4 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	30	33	first strand
Strand 2	D	4	8	parallel
Strand 3	D	57	60	anti-parallel
Strand 4	D	63	66	anti-parallel

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There are 2 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	126	127	first strand
Strand 2	D	219	220	parallel

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There are 4 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	29	33	first strand
Strand 2	E	4	8	parallel
Strand 3	E	57	60	anti-parallel
Strand 4	E	63	66	anti-parallel

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There are 2 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	126	127	first strand
Strand 2	E	219	220	parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	30	33	first strand
Strand 2	F	4	8	parallel
Strand 3	F	57	60	anti-parallel
Strand 4	F	63	66	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	126	127	first strand
Strand 2	F	219	220	parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	30	33	first strand
Strand 2	G	5	8	parallel
Strand 3	G	57	60	anti-parallel
Strand 4	G	63	66	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	126	127	first strand
Strand 2	G	219	220	parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	29	33	first strand
Strand 2	H	4	8	parallel
Strand 3	H	57	60	anti-parallel
Strand 4	H	63	66	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	126	127	first strand
Strand 2	H	219	220	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: 4PNF

Analysis of interatomic Contacts of Structural Units in PDB entry:
4PNF