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

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 8DKB entry

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

Chain ID	Initial residue	Terminal residue
A	VAL 19	PHE 144
B	THR 20	GLN 145
C	THR 20	THR 148
D	THR 20	PHE 144
E	VAL 19	GLN 145
F	VAL 19	PHE 144
G	VAL 19	PHE 144
H	ILE 21	ASP 146

There are 17 helices in PDB entry 8DKB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	58	61	Right-handed 310
Helix 2	AA2	A	123	129	Right-handed alpha
Helix 3	AA3	B	58	61	Right-handed 310
Helix 4	AA4	B	123	129	Right-handed alpha
Helix 5	AA5	C	58	61	Right-handed 310
Helix 6	AA6	C	123	129	Right-handed alpha
Helix 7	AA7	D	58	61	Right-handed 310
Helix 8	AA8	D	123	129	Right-handed alpha
Helix 9	AA9	E	58	61	Right-handed 310
Helix 10	AB1	E	123	129	Right-handed alpha
Helix 11	AB2	F	58	61	Right-handed 310
Helix 12	AB3	F	123	128	Right-handed alpha
Helix 13	AB4	G	58	61	Right-handed 310
Helix 14	AB5	G	71	75	Right-handed 310
Helix 15	AB6	G	123	129	Right-handed alpha
Helix 16	AB7	H	58	61	Right-handed 310
Helix 17	AB8	H	123	129	Right-handed alpha

There are 16 sheets in PDB entry 8DKB. 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	86	92	first strand
Strand 2	A	45	53	anti-parallel
Strand 3	A	22	33	anti-parallel
Strand 4	A	134	143	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	A	78	81	first strand
Strand 2	A	63	69	anti-parallel
Strand 3	A	97	104	anti-parallel
Strand 4	A	112	117	anti-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	86	92	first strand
Strand 2	B	45	53	anti-parallel
Strand 3	B	21	33	anti-parallel
Strand 4	B	133	144	anti-parallel

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There are 4 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	78	81	first strand
Strand 2	B	63	69	anti-parallel
Strand 3	B	97	104	anti-parallel
Strand 4	B	112	117	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	C	86	92	first strand
Strand 2	C	45	53	anti-parallel
Strand 3	C	21	33	anti-parallel
Strand 4	C	133	144	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	78	81	first strand
Strand 2	C	63	69	anti-parallel
Strand 3	C	97	104	anti-parallel
Strand 4	C	112	117	anti-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	86	92	first strand
Strand 2	D	45	53	anti-parallel
Strand 3	D	22	33	anti-parallel
Strand 4	D	133	143	anti-parallel

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There are 4 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	78	81	first strand
Strand 2	D	63	69	anti-parallel
Strand 3	D	97	104	anti-parallel
Strand 4	D	112	117	anti-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	86	92	first strand
Strand 2	E	45	53	anti-parallel
Strand 3	E	22	33	anti-parallel
Strand 4	E	134	143	anti-parallel

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There are 4 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	78	81	first strand
Strand 2	E	63	69	anti-parallel
Strand 3	E	97	104	anti-parallel
Strand 4	E	112	117	anti-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	86	92	first strand
Strand 2	F	45	53	anti-parallel
Strand 3	F	22	33	anti-parallel
Strand 4	F	134	143	anti-parallel

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There are 4 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	78	81	first strand
Strand 2	F	63	69	anti-parallel
Strand 3	F	97	104	anti-parallel
Strand 4	F	112	117	anti-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	86	92	first strand
Strand 2	G	45	53	anti-parallel
Strand 3	G	22	33	anti-parallel
Strand 4	G	133	143	anti-parallel

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There are 4 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	78	81	first strand
Strand 2	G	63	69	anti-parallel
Strand 3	G	97	104	anti-parallel
Strand 4	G	112	117	anti-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	86	92	first strand
Strand 2	H	45	53	anti-parallel
Strand 3	H	22	33	anti-parallel
Strand 4	H	133	143	anti-parallel

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There are 4 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	78	81	first strand
Strand 2	H	63	69	anti-parallel
Strand 3	H	97	104	anti-parallel
Strand 4	H	112	117	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: 8DKB

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