Analysis of interatomic Contacts of Structural Units in PDB entry:
8J1J

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 8J1J entry

There are 5 chains in PDB entry 8J1J (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY -1	LYS 422
D	C 1	A 28
E	T -10	G 0
C	U -94	G 17
B	MET 1	ILE 421

There are 30 helices in PDB entry 8J1J. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	16	57	Right-handed alpha
Helix 2	AA2	A	61	66	Right-handed alpha
Helix 3	AA3	A	70	80	Right-handed alpha
Helix 4	AA4	A	87	105	Right-handed alpha
Helix 5	AA5	A	105	111	Right-handed alpha
Helix 6	AA6	A	128	130	Right-handed 310
Helix 7	AA7	A	150	155	Right-handed alpha
Helix 8	AA8	A	171	181	Right-handed alpha
Helix 9	AA9	A	251	268	Right-handed alpha
Helix 10	AB1	A	269	271	Right-handed 310
Helix 11	AB2	A	272	276	Right-handed 310
Helix 12	AB3	A	278	284	Right-handed alpha
Helix 13	AB4	A	285	291	Right-handed 310
Helix 14	AB5	A	292	316	Right-handed alpha
Helix 15	AB6	A	326	329	Right-handed 310
Helix 16	AB7	A	341	355	Right-handed alpha
Helix 17	AB8	A	404	409	Right-handed alpha
Helix 18	AB9	A	412	419	Right-handed alpha
Helix 19	AC1	B	16	46	Right-handed alpha
Helix 20	AC2	B	50	55	Right-handed 310
Helix 21	AC3	B	70	81	Right-handed alpha
Helix 22	AC4	B	87	105	Right-handed alpha
Helix 23	AC5	B	105	112	Right-handed alpha
Helix 24	AC6	B	150	158	Right-handed alpha
Helix 25	AC7	B	171	183	Right-handed alpha
Helix 26	AC8	B	247	264	Right-handed alpha
Helix 27	AC9	B	286	315	Right-handed alpha
Helix 28	AD1	B	341	354	Right-handed alpha
Helix 29	AD2	B	400	410	Right-handed alpha
Helix 30	AD3	B	412	421	Right-handed alpha

There are 10 sheets in PDB entry 8J1J. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

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	A	2	5	first strand
Strand 2	A	200	208	anti-parallel
Strand 3	A	190	195	anti-parallel
Strand 4	A	125	127	anti-parallel

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There are 3 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	2	5	first strand
Strand 2	A	200	208	anti-parallel
Strand 3	A	186	187	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	A	9	12	first strand
Strand 2	A	163	167	anti-parallel
Strand 3	A	142	146	anti-parallel
Strand 4	A	132	136	anti-parallel

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There are 5 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	242	245	first strand
Strand 2	A	232	236	anti-parallel
Strand 3	A	221	225	anti-parallel
Strand 4	A	320	324	parallel
Strand 5	A	359	363	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	388	390	first strand
Strand 2	A	397	399	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	2	3	first strand
Strand 2	B	204	208	anti-parallel
Strand 3	B	186	192	anti-parallel
Strand 4	B	125	128	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	B	9	12	first strand
Strand 2	B	163	167	anti-parallel
Strand 3	B	141	146	anti-parallel
Strand 4	B	132	137	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	194	195	first strand
Strand 2	B	200	201	anti-parallel

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There are 5 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	242	245	first strand
Strand 2	B	232	236	anti-parallel
Strand 3	B	217	225	anti-parallel
Strand 4	B	318	323	parallel
Strand 5	B	359	362	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	B	388	390	first strand
Strand 2	B	397	399	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: 8J1J

Analysis of interatomic Contacts of Structural Units in PDB entry:
8J1J