Analysis of interatomic Contacts of Structural Units in PDB entry:
5DKU

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 5DKU entry

There are 2 chains in PDB entry 5DKU (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 1	SER 626
B	ASP 1	SER 626

There are 52 helices in PDB entry 5DKU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	3	10	Right-handed 310
Helix 2	AA2	A	66	73	Right-handed 310
Helix 3	AA3	A	89	93	Right-handed 310
Helix 4	AA4	A	113	115	Right-handed 310
Helix 5	AA5	A	117	130	Right-handed alpha
Helix 6	AA6	A	139	150	Right-handed alpha
Helix 7	AA7	A	160	169	Right-handed alpha
Helix 8	AA8	A	177	186	Right-handed alpha
Helix 9	AA9	A	192	197	Right-handed 310
Helix 10	AB1	A	206	233	Right-handed alpha
Helix 11	AB2	A	235	256	Right-handed alpha
Helix 12	AB3	A	260	283	Right-handed alpha
Helix 13	AB4	A	334	348	Right-handed alpha
Helix 14	AB5	A	352	357	Right-handed alpha
Helix 15	AB6	A	384	388	Right-handed 310
Helix 16	AB7	A	391	396	Right-handed alpha
Helix 17	AB8	A	413	424	Right-handed alpha
Helix 18	AB9	A	425	434	Right-handed alpha
Helix 19	AC1	A	437	448	Right-handed alpha
Helix 20	AC2	A	450	454	Right-handed 310
Helix 21	AC3	A	455	470	Right-handed alpha
Helix 22	AC4	A	474	486	Right-handed alpha
Helix 23	AC5	A	491	506	Right-handed alpha
Helix 24	AC6	A	506	520	Right-handed alpha
Helix 25	AC7	A	538	566	Right-handed alpha
Helix 26	AC8	A	589	609	Right-handed alpha
Helix 27	AC9	B	7	10	Right-handed 310
Helix 28	AD1	B	66	73	Right-handed 310
Helix 29	AD2	B	89	93	Right-handed 310
Helix 30	AD3	B	113	115	Right-handed 310
Helix 31	AD4	B	117	130	Right-handed alpha
Helix 32	AD5	B	139	150	Right-handed alpha
Helix 33	AD6	B	160	169	Right-handed alpha
Helix 34	AD7	B	177	186	Right-handed alpha
Helix 35	AD8	B	192	197	Right-handed 310
Helix 36	AD9	B	206	233	Right-handed alpha
Helix 37	AE1	B	235	256	Right-handed alpha
Helix 38	AE2	B	260	286	Right-handed alpha
Helix 39	AE3	B	334	348	Right-handed alpha
Helix 40	AE4	B	352	357	Right-handed 310
Helix 41	AE5	B	384	388	Right-handed 310
Helix 42	AE6	B	391	396	Right-handed alpha
Helix 43	AE7	B	413	424	Right-handed alpha
Helix 44	AE8	B	425	434	Right-handed alpha
Helix 45	AE9	B	437	448	Right-handed alpha
Helix 46	AF1	B	450	454	Right-handed 310
Helix 47	AF2	B	455	471	Right-handed alpha
Helix 48	AF3	B	474	486	Right-handed alpha
Helix 49	AF4	B	491	506	Right-handed alpha
Helix 50	AF5	B	506	520	Right-handed alpha
Helix 51	AF6	B	538	566	Right-handed alpha
Helix 52	AF7	B	589	609	Right-handed alpha

There are 14 sheets in PDB entry 5DKU. 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,

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	12	13	first strand
Strand 2	A	204	205	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	19	27	first strand
Strand 2	A	37	45	anti-parallel

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There are 6 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	57	60	first strand
Strand 2	A	107	111	parallel
Strand 3	A	95	101	anti-parallel
Strand 4	A	78	85	anti-parallel
Strand 5	A	134	137	parallel
Strand 6	A	157	159	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	A	363	364	first strand
Strand 2	A	257	259	anti-parallel
Strand 3	A	398	399	anti-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	367	369	first strand
Strand 2	A	379	381	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	A	572	577	first strand
Strand 2	A	580	586	anti-parallel
Strand 3	A	404	411	anti-parallel
Strand 4	A	616	621	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	523	525	first strand
Strand 2	A	531	533	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	12	13	first strand
Strand 2	B	204	205	parallel

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There are 2 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	19	27	first strand
Strand 2	B	37	45	anti-parallel

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There are 6 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	57	60	first strand
Strand 2	B	107	111	parallel
Strand 3	B	95	101	anti-parallel
Strand 4	B	78	85	anti-parallel
Strand 5	B	134	137	parallel
Strand 6	B	157	159	parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	363	364	first strand
Strand 2	B	257	259	anti-parallel
Strand 3	B	398	399	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	B	367	369	first strand
Strand 2	B	379	381	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	B	572	577	first strand
Strand 2	B	580	586	anti-parallel
Strand 3	B	404	411	anti-parallel
Strand 4	B	616	621	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	B	523	525	first strand
Strand 2	B	531	533	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: 5DKU

Analysis of interatomic Contacts of Structural Units in PDB entry:
5DKU