Analysis of interatomic Contacts of Structural Units in PDB entry:
5J8R

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 5J8R entry

There are 4 chains in PDB entry 5J8R (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 2	GLN 299
B	GLU 2	GLN 299
C	MET 1	GLN 299
D	MET 1	GLN 299

There are 35 helices in PDB entry 5J8R. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	2	18	Right-handed alpha
Helix 2	AA2	A	26	45	Right-handed alpha
Helix 3	AA3	A	55	62	Right-handed 310
Helix 4	AA4	A	70	72	Right-handed 310
Helix 5	AA5	A	110	112	Right-handed 310
Helix 6	AA6	A	113	124	Right-handed alpha
Helix 7	AA7	A	206	220	Right-handed alpha
Helix 8	AA8	A	236	253	Right-handed alpha
Helix 9	AA9	A	261	271	Right-handed alpha
Helix 10	AB1	A	279	298	Right-handed alpha
Helix 11	AB2	B	3	18	Right-handed alpha
Helix 12	AB3	B	26	45	Right-handed alpha
Helix 13	AB4	B	55	62	Right-handed 310
Helix 14	AB5	B	113	124	Right-handed alpha
Helix 15	AB6	B	206	220	Right-handed alpha
Helix 16	AB7	B	236	253	Right-handed alpha
Helix 17	AB8	B	261	270	Right-handed alpha
Helix 18	AB9	B	279	298	Right-handed alpha
Helix 19	AC1	C	2	17	Right-handed alpha
Helix 20	AC2	C	27	42	Right-handed alpha
Helix 21	AC3	C	50	55	Right-handed alpha
Helix 22	AC4	C	56	62	Right-handed 310
Helix 23	AC5	C	113	124	Right-handed alpha
Helix 24	AC6	C	207	220	Right-handed alpha
Helix 25	AC7	C	236	254	Right-handed alpha
Helix 26	AC8	C	261	270	Right-handed alpha
Helix 27	AC9	C	279	298	Right-handed alpha
Helix 28	AD1	D	2	14	Right-handed alpha
Helix 29	AD2	D	27	41	Right-handed alpha
Helix 30	AD3	D	51	62	Right-handed 310
Helix 31	AD4	D	113	124	Right-handed alpha
Helix 32	AD5	D	207	220	Right-handed alpha
Helix 33	AD6	D	236	253	Right-handed alpha
Helix 34	AD7	D	261	270	Right-handed alpha
Helix 35	AD8	D	279	298	Right-handed alpha

There are 8 sheets in PDB entry 5J8R. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 9 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	74	76	first strand
Strand 2	A	88	96	anti-parallel
Strand 3	A	99	106	anti-parallel
Strand 4	A	227	230	parallel
Strand 5	A	128	131	parallel
Strand 6	A	185	194	parallel
Strand 7	A	173	182	anti-parallel
Strand 8	A	160	170	anti-parallel
Strand 9	A	155	157	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	136	137	first strand
Strand 2	A	140	141	anti-parallel

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There are 9 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	74	76	first strand
Strand 2	B	88	96	anti-parallel
Strand 3	B	99	106	anti-parallel
Strand 4	B	227	230	parallel
Strand 5	B	128	131	parallel
Strand 6	B	185	194	parallel
Strand 7	B	173	182	anti-parallel
Strand 8	B	160	170	anti-parallel
Strand 9	B	155	157	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	136	137	first strand
Strand 2	B	140	141	anti-parallel

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There are 8 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	91	94	first strand
Strand 2	C	103	106	anti-parallel
Strand 3	C	227	230	parallel
Strand 4	C	128	131	parallel
Strand 5	C	187	194	parallel
Strand 6	C	173	181	anti-parallel
Strand 7	C	160	169	anti-parallel
Strand 8	C	155	157	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	136	137	first strand
Strand 2	C	140	141	anti-parallel

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There are 8 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	91	94	first strand
Strand 2	D	103	106	anti-parallel
Strand 3	D	227	230	parallel
Strand 4	D	128	131	parallel
Strand 5	D	188	194	parallel
Strand 6	D	173	181	anti-parallel
Strand 7	D	160	163	anti-parallel
Strand 8	D	155	157	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	136	137	first strand
Strand 2	D	140	141	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: 5J8R

Analysis of interatomic Contacts of Structural Units in PDB entry:
5J8R