Analysis of interatomic Contacts of Structural Units in PDB entry:
5J87

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 5J87 entry

There are 4 chains in PDB entry 5J87 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 396	GLU 658
B	PRO 385	GLU 658
C	GLU 396	ASP 656
D	GLU 396	GLU 658

There are 59 helices in PDB entry 5J87. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	398	402	Right-handed 310
Helix 2	AA2	A	438	451	Right-handed alpha
Helix 3	AA3	A	481	487	Right-handed alpha
Helix 4	AA4	A	494	515	Right-handed alpha
Helix 5	AA5	A	523	525	Right-handed 310
Helix 6	AA6	A	541	546	Right-handed 310
Helix 7	AA7	A	548	553	Right-handed alpha
Helix 8	AA8	A	560	564	Right-handed 310
Helix 9	AA9	A	565	572	Right-handed alpha
Helix 10	AB1	A	575	592	Right-handed alpha
Helix 11	AB2	A	602	612	Right-handed alpha
Helix 12	AB3	A	623	633	Right-handed alpha
Helix 13	AB4	A	637	641	Right-handed 310
Helix 14	AB5	A	643	658	Right-handed alpha
Helix 15	AB6	B	392	396	Right-handed 310
Helix 16	AB7	B	398	400	Right-handed 310
Helix 17	AB8	B	438	446	Right-handed alpha
Helix 18	AB9	B	446	451	Right-handed alpha
Helix 19	AC1	B	481	488	Right-handed alpha
Helix 20	AC2	B	494	515	Right-handed alpha
Helix 21	AC3	B	523	525	Right-handed 310
Helix 22	AC4	B	542	546	Right-handed 310
Helix 23	AC5	B	548	553	Right-handed alpha
Helix 24	AC6	B	560	564	Right-handed 310
Helix 25	AC7	B	565	572	Right-handed alpha
Helix 26	AC8	B	575	592	Right-handed alpha
Helix 27	AC9	B	602	612	Right-handed alpha
Helix 28	AD1	B	623	632	Right-handed alpha
Helix 29	AD2	B	633	635	Right-handed 310
Helix 30	AD3	B	637	641	Right-handed 310
Helix 31	AD4	B	643	658	Right-handed alpha
Helix 32	AD5	C	438	451	Right-handed alpha
Helix 33	AD6	C	481	488	Right-handed alpha
Helix 34	AD7	C	494	515	Right-handed alpha
Helix 35	AD8	C	523	525	Right-handed 310
Helix 36	AD9	C	542	546	Right-handed 310
Helix 37	AE1	C	548	553	Right-handed alpha
Helix 38	AE2	C	560	564	Right-handed 310
Helix 39	AE3	C	565	572	Right-handed alpha
Helix 40	AE4	C	575	592	Right-handed alpha
Helix 41	AE5	C	602	610	Right-handed alpha
Helix 42	AE6	C	623	633	Right-handed alpha
Helix 43	AE7	C	637	641	Right-handed 310
Helix 44	AE8	C	643	656	Right-handed alpha
Helix 45	AE9	D	398	400	Right-handed 310
Helix 46	AF1	D	439	451	Right-handed alpha
Helix 47	AF2	D	481	488	Right-handed alpha
Helix 48	AF3	D	494	515	Right-handed alpha
Helix 49	AF4	D	523	525	Right-handed 310
Helix 50	AF5	D	541	546	Right-handed 310
Helix 51	AF6	D	548	553	Right-handed alpha
Helix 52	AF7	D	560	564	Right-handed 310
Helix 53	AF8	D	565	572	Right-handed alpha
Helix 54	AF9	D	575	592	Right-handed alpha
Helix 55	AG1	D	602	610	Right-handed alpha
Helix 56	AG2	D	611	613	Right-handed 310
Helix 57	AG3	D	623	633	Right-handed alpha
Helix 58	AG4	D	637	641	Right-handed 310
Helix 59	AG5	D	643	658	Right-handed alpha

There are 8 sheets in PDB entry 5J87. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 5 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	406	411	first strand
Strand 2	A	414	421	anti-parallel
Strand 3	A	425	431	anti-parallel
Strand 4	A	471	475	anti-parallel
Strand 5	A	460	464	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	A	527	529	first strand
Strand 2	A	535	537	anti-parallel

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There are 5 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	402	411	first strand
Strand 2	B	414	421	anti-parallel
Strand 3	B	425	431	anti-parallel
Strand 4	B	471	475	anti-parallel
Strand 5	B	460	464	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	B	527	529	first strand
Strand 2	B	535	537	anti-parallel

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There are 5 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	406	411	first strand
Strand 2	C	414	421	anti-parallel
Strand 3	C	425	431	anti-parallel
Strand 4	C	471	475	anti-parallel
Strand 5	C	460	464	anti-parallel

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There are 2 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	527	529	first strand
Strand 2	C	535	537	anti-parallel

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There are 5 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	402	411	first strand
Strand 2	D	414	421	anti-parallel
Strand 3	D	425	431	anti-parallel
Strand 4	D	471	475	anti-parallel
Strand 5	D	460	464	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	527	529	first strand
Strand 2	D	535	537	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: 5J87

Analysis of interatomic Contacts of Structural Units in PDB entry:
5J87