Analysis of interatomic Contacts of Structural Units in PDB entry:
9EKD

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 9EKD entry

There are 6 chains in PDB entry 9EKD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 24	GLU 50
A	ASP 52	PRO 112
C	LYS 308	GLU 703
B	GLU 24	GLU 50
B	ASP 52	PRO 112
D	LYS 308	GLU 703

There are 24 helices in PDB entry 9EKD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	24	43	Right-handed alpha
Helix 2	AA2	A	49	53	Right-handed 310
Helix 3	AA3	A	55	67	Right-handed alpha
Helix 4	AA4	A	71	87	Right-handed alpha
Helix 5	AA5	A	93	105	Right-handed alpha
Helix 6	AA6	A	107	111	Right-handed 310
Helix 7	AA7	C	500	504	Right-handed 310
Helix 8	AA8	C	525	533	Right-handed alpha
Helix 9	AA9	C	581	586	Right-handed 310
Helix 10	AB1	C	616	627	Right-handed alpha
Helix 11	AB2	C	648	652	Right-handed 310
Helix 12	AB3	C	693	702	Right-handed alpha
Helix 13	AB4	B	25	43	Right-handed alpha
Helix 14	AB5	B	49	53	Right-handed 310
Helix 15	AB6	B	55	67	Right-handed alpha
Helix 16	AB7	B	71	87	Right-handed alpha
Helix 17	AB8	B	93	105	Right-handed alpha
Helix 18	AB9	B	106	111	Right-handed 310
Helix 19	AC1	D	500	504	Right-handed 310
Helix 20	AC2	D	525	533	Right-handed alpha
Helix 21	AC3	D	581	586	Right-handed 310
Helix 22	AC4	D	616	627	Right-handed alpha
Helix 23	AC5	D	648	652	Right-handed 310
Helix 24	AC6	D	693	702	Right-handed alpha

There are 13 sheets in PDB entry 9EKD. 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,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	319	322	first strand
Strand 2	C	333	338	anti-parallel
Strand 3	C	354	357	anti-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	C	342	343	first strand
Strand 2	C	372	373	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	C	385	389	first strand
Strand 2	C	401	406	anti-parallel
Strand 3	C	426	429	anti-parallel
Strand 4	C	435	436	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	411	413	first strand
Strand 2	C	447	449	anti-parallel

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There are 6 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	519	521	first strand
Strand 2	C	478	482	anti-parallel
Strand 3	C	486	492	anti-parallel
Strand 4	C	496	499	anti-parallel
Strand 5	C	559	563	anti-parallel
Strand 6	C	537	542	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	C	608	613	first strand
Strand 2	C	590	595	anti-parallel
Strand 3	C	657	662	anti-parallel
Strand 4	C	667	674	anti-parallel
Strand 5	C	685	689	anti-parallel
Strand 6	C	637	640	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	319	322	first strand
Strand 2	D	333	338	anti-parallel
Strand 3	D	354	357	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	D	342	343	first strand
Strand 2	D	372	373	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	D	385	389	first strand
Strand 2	D	401	406	anti-parallel
Strand 3	D	426	429	anti-parallel
Strand 4	D	435	436	anti-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	D	411	413	first strand
Strand 2	D	447	449	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	D	486	487	first strand
Strand 2	D	480	482	anti-parallel
Strand 3	D	519	520	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	D	490	492	first strand
Strand 2	D	496	499	anti-parallel
Strand 3	D	559	563	anti-parallel
Strand 4	D	537	542	anti-parallel

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There are 6 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	608	613	first strand
Strand 2	D	590	595	anti-parallel
Strand 3	D	657	662	anti-parallel
Strand 4	D	667	674	anti-parallel
Strand 5	D	685	689	anti-parallel
Strand 6	D	637	640	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: 9EKD

Analysis of interatomic Contacts of Structural Units in PDB entry:
9EKD