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

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 5KDJ entry

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

Chain ID	Initial residue	Terminal residue
B	ASP 496	ALA 1004
A	ASP 496	ALA 1004

There are 46 helices in PDB entry 5KDJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	505	513	Right-handed alpha
Helix 2	AA2	B	601	605	Right-handed 310
Helix 3	AA3	B	628	646	Right-handed alpha
Helix 4	AA4	B	666	678	Right-handed alpha
Helix 5	AA5	B	680	699	Right-handed alpha
Helix 6	AA6	B	705	709	Right-handed 310
Helix 7	AA7	B	741	748	Right-handed alpha
Helix 8	AA8	B	751	763	Right-handed alpha
Helix 9	AA9	B	772	774	Right-handed 310
Helix 10	AB1	B	775	786	Right-handed alpha
Helix 11	AB2	B	789	794	Right-handed alpha
Helix 12	AB3	B	795	800	Right-handed alpha
Helix 13	AB4	B	800	806	Right-handed alpha
Helix 14	AB5	B	823	826	Right-handed 310
Helix 15	AB6	B	827	837	Right-handed alpha
Helix 16	AB7	B	839	851	Right-handed alpha
Helix 17	AB8	B	857	874	Right-handed alpha
Helix 18	AB9	B	877	885	Right-handed alpha
Helix 19	AC1	B	889	896	Right-handed alpha
Helix 20	AC2	B	897	899	Right-handed 310
Helix 21	AC3	B	905	909	Right-handed 310
Helix 22	AC4	B	910	914	Right-handed 310
Helix 23	AC5	B	946	949	Right-handed 310
Helix 24	AC6	A	505	513	Right-handed alpha
Helix 25	AC7	A	601	605	Right-handed 310
Helix 26	AC8	A	628	646	Right-handed alpha
Helix 27	AC9	A	666	678	Right-handed alpha
Helix 28	AD1	A	680	699	Right-handed alpha
Helix 29	AD2	A	705	709	Right-handed 310
Helix 30	AD3	A	741	748	Right-handed alpha
Helix 31	AD4	A	751	763	Right-handed alpha
Helix 32	AD5	A	772	774	Right-handed 310
Helix 33	AD6	A	775	786	Right-handed alpha
Helix 34	AD7	A	789	794	Right-handed alpha
Helix 35	AD8	A	795	800	Right-handed alpha
Helix 36	AD9	A	800	806	Right-handed alpha
Helix 37	AE1	A	823	826	Right-handed 310
Helix 38	AE2	A	827	837	Right-handed alpha
Helix 39	AE3	A	839	851	Right-handed alpha
Helix 40	AE4	A	857	874	Right-handed alpha
Helix 41	AE5	A	877	885	Right-handed alpha
Helix 42	AE6	A	889	896	Right-handed alpha
Helix 43	AE7	A	897	899	Right-handed 310
Helix 44	AE8	A	905	909	Right-handed 310
Helix 45	AE9	A	910	914	Right-handed 310
Helix 46	AF1	A	946	949	Right-handed 310

There are 12 sheets in PDB entry 5KDJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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	B	498	499	first strand
Strand 2	B	610	614	anti-parallel
Strand 3	B	533	539	anti-parallel
Strand 4	B	569	574	anti-parallel

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There are 5 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	562	565	first strand
Strand 2	B	548	553	anti-parallel
Strand 3	B	593	598	anti-parallel
Strand 4	B	522	528	anti-parallel
Strand 5	B	617	618	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	621	623	first strand
Strand 2	B	654	657	parallel
Strand 3	B	662	665	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	716	719	first strand
Strand 2	B	734	737	parallel
Strand 3	B	728	731	anti-parallel

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There are 3 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	927	932	first strand
Strand 2	B	938	944	anti-parallel
Strand 3	B	971	974	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	B	962	967	first strand
Strand 2	B	952	959	anti-parallel
Strand 3	B	985	991	anti-parallel
Strand 4	B	1000	1002	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	A	498	499	first strand
Strand 2	A	610	614	anti-parallel
Strand 3	A	533	539	anti-parallel
Strand 4	A	569	574	anti-parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	562	565	first strand
Strand 2	A	548	553	anti-parallel
Strand 3	A	593	598	anti-parallel
Strand 4	A	522	528	anti-parallel
Strand 5	A	617	618	anti-parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	621	623	first strand
Strand 2	A	654	657	parallel
Strand 3	A	662	665	anti-parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	716	719	first strand
Strand 2	A	734	737	parallel
Strand 3	A	728	731	anti-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	A	927	932	first strand
Strand 2	A	938	944	anti-parallel
Strand 3	A	971	974	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	A	962	967	first strand
Strand 2	A	952	959	anti-parallel
Strand 3	A	985	991	anti-parallel
Strand 4	A	1000	1002	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: 5KDJ

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