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

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 8DNF entry

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

Chain ID	Initial residue	Terminal residue
A	GLU 1	GLU 71
A	GLY 73	PHE 374
B	GLU 1	GLU 71
B	GLY 73	PHE 374
C	GLU 1	GLU 71
C	GLY 73	PHE 374
D	GLU 1	GLU 71
D	GLY 73	PHE 374

There are 80 helices in PDB entry 8DNF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	54	60	Right-handed alpha
Helix 2	AA2	A	78	92	Right-handed alpha
Helix 3	AA3	A	113	125	Right-handed alpha
Helix 4	AA4	A	136	145	Right-handed alpha
Helix 5	AA5	A	170	174	Right-handed 310
Helix 6	AA6	A	180	193	Right-handed alpha
Helix 7	AA7	A	194	196	Right-handed 310
Helix 8	AA8	A	201	216	Right-handed alpha
Helix 9	AA9	A	221	232	Right-handed alpha
Helix 10	AB1	A	251	256	Right-handed alpha
Helix 11	AB2	A	257	261	Right-handed 310
Helix 12	AB3	A	262	267	Right-handed 310
Helix 13	AB4	A	272	283	Right-handed alpha
Helix 14	AB5	A	288	294	Right-handed alpha
Helix 15	AB6	A	300	305	Right-handed 310
Helix 16	AB7	A	307	320	Right-handed alpha
Helix 17	AB8	A	333	335	Right-handed 310
Helix 18	AB9	A	336	347	Right-handed alpha
Helix 19	AC1	A	348	352	Right-handed 310
Helix 20	AC2	A	358	373	Right-handed alpha
Helix 21	AC3	B	54	60	Right-handed alpha
Helix 22	AC4	B	78	92	Right-handed alpha
Helix 23	AC5	B	113	125	Right-handed alpha
Helix 24	AC6	B	136	145	Right-handed alpha
Helix 25	AC7	B	170	174	Right-handed 310
Helix 26	AC8	B	180	193	Right-handed alpha
Helix 27	AC9	B	194	196	Right-handed 310
Helix 28	AD1	B	201	216	Right-handed alpha
Helix 29	AD2	B	221	232	Right-handed alpha
Helix 30	AD3	B	251	256	Right-handed alpha
Helix 31	AD4	B	257	261	Right-handed 310
Helix 32	AD5	B	262	267	Right-handed 310
Helix 33	AD6	B	272	283	Right-handed alpha
Helix 34	AD7	B	288	294	Right-handed alpha
Helix 35	AD8	B	300	305	Right-handed 310
Helix 36	AD9	B	307	320	Right-handed alpha
Helix 37	AE1	B	333	335	Right-handed 310
Helix 38	AE2	B	336	347	Right-handed alpha
Helix 39	AE3	B	348	352	Right-handed 310
Helix 40	AE4	B	358	373	Right-handed alpha
Helix 41	AE5	C	54	60	Right-handed alpha
Helix 42	AE6	C	78	92	Right-handed alpha
Helix 43	AE7	C	113	125	Right-handed alpha
Helix 44	AE8	C	136	145	Right-handed alpha
Helix 45	AE9	C	170	174	Right-handed 310
Helix 46	AF1	C	180	193	Right-handed alpha
Helix 47	AF2	C	194	196	Right-handed 310
Helix 48	AF3	C	201	216	Right-handed alpha
Helix 49	AF4	C	221	232	Right-handed alpha
Helix 50	AF5	C	251	256	Right-handed alpha
Helix 51	AF6	C	257	261	Right-handed 310
Helix 52	AF7	C	262	267	Right-handed 310
Helix 53	AF8	C	272	283	Right-handed alpha
Helix 54	AF9	C	288	294	Right-handed alpha
Helix 55	AG1	C	300	305	Right-handed 310
Helix 56	AG2	C	307	320	Right-handed alpha
Helix 57	AG3	C	333	335	Right-handed 310
Helix 58	AG4	C	336	347	Right-handed alpha
Helix 59	AG5	C	348	352	Right-handed 310
Helix 60	AG6	C	358	373	Right-handed alpha
Helix 61	AG7	D	54	60	Right-handed alpha
Helix 62	AG8	D	78	92	Right-handed alpha
Helix 63	AG9	D	113	125	Right-handed alpha
Helix 64	AH1	D	136	145	Right-handed alpha
Helix 65	AH2	D	170	174	Right-handed 310
Helix 66	AH3	D	180	193	Right-handed alpha
Helix 67	AH4	D	194	196	Right-handed 310
Helix 68	AH5	D	201	216	Right-handed alpha
Helix 69	AH6	D	221	232	Right-handed alpha
Helix 70	AH7	D	251	256	Right-handed alpha
Helix 71	AH8	D	257	261	Right-handed 310
Helix 72	AH9	D	262	267	Right-handed 310
Helix 73	AI1	D	272	283	Right-handed alpha
Helix 74	AI2	D	288	294	Right-handed alpha
Helix 75	AI3	D	300	305	Right-handed 310
Helix 76	AI4	D	307	320	Right-handed alpha
Helix 77	AI5	D	333	335	Right-handed 310
Helix 78	AI6	D	336	347	Right-handed alpha
Helix 79	AI7	D	348	352	Right-handed 310
Helix 80	AI8	D	358	373	Right-handed alpha

There are 20 sheets in PDB entry 8DNF. 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,

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	28	31	first strand
Strand 2	A	15	20	anti-parallel
Strand 3	A	7	10	anti-parallel
Strand 4	A	102	106	parallel
Strand 5	A	130	135	parallel
Strand 6	A	356	357	anti-parallel

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There are 3 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	52	53	first strand
Strand 2	A	34	37	anti-parallel
Strand 3	A	64	67	anti-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	70	71	first strand
Strand 2	A	74	75	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	A	175	177	first strand
Strand 2	A	159	164	anti-parallel
Strand 3	A	149	154	anti-parallel
Strand 4	A	296	299	parallel
Strand 5	A	328	329	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	237	240	first strand
Strand 2	A	246	249	anti-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	B	28	31	first strand
Strand 2	B	15	20	anti-parallel
Strand 3	B	7	10	anti-parallel
Strand 4	B	102	106	parallel
Strand 5	B	130	135	parallel
Strand 6	B	356	357	anti-parallel

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There are 3 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	52	53	first strand
Strand 2	B	34	37	anti-parallel
Strand 3	B	64	67	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	B	70	71	first strand
Strand 2	B	74	75	anti-parallel

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There are 5 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	175	177	first strand
Strand 2	B	159	164	anti-parallel
Strand 3	B	149	154	anti-parallel
Strand 4	B	296	299	parallel
Strand 5	B	328	329	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	B	237	240	first strand
Strand 2	B	246	249	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	28	31	first strand
Strand 2	C	15	20	anti-parallel
Strand 3	C	7	10	anti-parallel
Strand 4	C	102	106	parallel
Strand 5	C	130	135	parallel
Strand 6	C	356	357	anti-parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	52	53	first strand
Strand 2	C	34	37	anti-parallel
Strand 3	C	64	67	anti-parallel

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There are 2 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	70	71	first strand
Strand 2	C	74	75	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	175	177	first strand
Strand 2	C	159	164	anti-parallel
Strand 3	C	149	154	anti-parallel
Strand 4	C	296	299	parallel
Strand 5	C	328	329	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	237	240	first strand
Strand 2	C	246	249	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	28	31	first strand
Strand 2	D	15	20	anti-parallel
Strand 3	D	7	9	anti-parallel
Strand 4	D	102	106	parallel
Strand 5	D	130	135	parallel
Strand 6	D	356	357	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	52	53	first strand
Strand 2	D	34	37	anti-parallel
Strand 3	D	64	67	anti-parallel

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There are 2 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	70	71	first strand
Strand 2	D	74	75	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	175	177	first strand
Strand 2	D	159	164	anti-parallel
Strand 3	D	149	154	anti-parallel
Strand 4	D	296	299	parallel
Strand 5	D	328	329	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	237	240	first strand
Strand 2	D	246	249	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: 8DNF

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