Analysis of interatomic Contacts of Structural Units in PDB entry:
6DNF

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 6DNF entry

There are 4 chains in PDB entry 6DNF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 8	THR 309
B	THR 8	THR 309
C	THR 8	THR 309
D	THR 8	THR 309

There are 24 helices in PDB entry 6DNF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	44	56	Right-handed alpha
Helix 2	AA2	A	131	139	Right-handed alpha
Helix 3	AA3	A	158	164	Right-handed alpha
Helix 4	AA4	A	166	219	Right-handed alpha
Helix 5	AA5	A	223	251	Right-handed alpha
Helix 6	AA6	A	277	303	Right-handed alpha
Helix 7	AA7	B	44	56	Right-handed alpha
Helix 8	AA8	B	127	137	Right-handed alpha
Helix 9	AA9	B	158	164	Right-handed alpha
Helix 10	AB1	B	167	219	Right-handed alpha
Helix 11	AB2	B	223	251	Right-handed alpha
Helix 12	AB3	B	277	303	Right-handed alpha
Helix 13	AB4	C	44	56	Right-handed alpha
Helix 14	AB5	C	131	139	Right-handed alpha
Helix 15	AB6	C	158	164	Right-handed alpha
Helix 16	AB7	C	166	219	Right-handed alpha
Helix 17	AB8	C	223	251	Right-handed alpha
Helix 18	AB9	C	277	303	Right-handed alpha
Helix 19	AC1	D	44	56	Right-handed alpha
Helix 20	AC2	D	127	137	Right-handed alpha
Helix 21	AC3	D	158	164	Right-handed alpha
Helix 22	AC4	D	167	219	Right-handed alpha
Helix 23	AC5	D	223	251	Right-handed alpha
Helix 24	AC6	D	277	303	Right-handed alpha

There are 8 sheets in PDB entry 6DNF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

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	11	13	first strand
Strand 2	A	20	23	anti-parallel
Strand 3	A	35	38	anti-parallel
Strand 4	D	121	122	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	A	120	121	first strand
Strand 2	A	112	116	anti-parallel
Strand 3	A	141	145	anti-parallel
Strand 4	A	151	154	anti-parallel

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There are 3 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	11	13	first strand
Strand 2	B	20	23	anti-parallel
Strand 3	B	35	38	anti-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	112	115	first strand
Strand 2	B	141	145	anti-parallel
Strand 3	B	152	154	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	B	121	122	first strand
Strand 2	C	35	38	parallel
Strand 3	C	20	23	anti-parallel
Strand 4	C	11	13	anti-parallel

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There are 4 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	120	121	first strand
Strand 2	C	112	116	anti-parallel
Strand 3	C	141	145	anti-parallel
Strand 4	C	151	154	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	D	11	13	first strand
Strand 2	D	20	23	anti-parallel
Strand 3	D	35	38	anti-parallel

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There are 3 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	112	115	first strand
Strand 2	D	141	145	anti-parallel
Strand 3	D	152	154	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: 6DNF

Analysis of interatomic Contacts of Structural Units in PDB entry:
6DNF