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

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 8JII entry

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

Chain ID	Initial residue	Terminal residue
B	GLY 1	ASN 340
C	THR 6	ARG 62
D	GLY 2	PHE 354
S	VAL 2	LEU 247
A	PHE 10	SER 298

There are 32 helices in PDB entry 8JII. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	1	25	Right-handed alpha
Helix 2	AA2	B	29	35	Right-handed alpha
Helix 3	AA3	C	7	23	Right-handed alpha
Helix 4	AA4	C	29	43	Right-handed alpha
Helix 5	AA5	D	10	26	Right-handed alpha
Helix 6	AA6	D	45	53	Right-handed alpha
Helix 7	AA7	D	207	216	Right-handed 310
Helix 8	AA8	D	241	255	Right-handed alpha
Helix 9	AA9	D	270	281	Right-handed alpha
Helix 10	AB1	D	282	286	Right-handed 310
Helix 11	AB2	D	295	309	Right-handed alpha
Helix 12	AB3	D	329	349	Right-handed alpha
Helix 13	AB4	S	28	32	Right-handed 310
Helix 14	AB5	S	87	91	Right-handed 310
Helix 15	AB6	A	25	52	Right-handed alpha
Helix 16	AB7	A	65	72	Right-handed alpha
Helix 17	AB8	A	74	79	Right-handed alpha
Helix 18	AB9	A	79	89	Right-handed alpha
Helix 19	AC1	A	98	103	Right-handed alpha
Helix 20	AC2	A	106	111	Right-handed alpha
Helix 21	AC3	A	111	116	Right-handed alpha
Helix 22	AC4	A	120	131	Right-handed alpha
Helix 23	AC5	A	135	139	Right-handed 310
Helix 24	AC6	A	145	158	Right-handed alpha
Helix 25	AC7	A	159	163	Right-handed 310
Helix 26	AC8	A	190	215	Right-handed alpha
Helix 27	AC9	A	230	239	Right-handed alpha
Helix 28	AD1	A	240	245	Right-handed alpha
Helix 29	AD2	A	245	261	Right-handed alpha
Helix 30	AD3	A	265	268	Right-handed 310
Helix 31	AD4	A	269	280	Right-handed alpha
Helix 32	AD5	A	282	290	Right-handed alpha

There are 14 sheets in PDB entry 8JII. 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, AB5,

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	47	51	first strand
Strand 2	B	336	339	anti-parallel
Strand 3	B	327	331	anti-parallel
Strand 4	B	315	320	anti-parallel

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There are 4 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	58	63	first strand
Strand 2	B	70	74	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	88	94	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	B	102	105	first strand
Strand 2	B	111	115	anti-parallel
Strand 3	B	120	125	anti-parallel
Strand 4	B	134	140	anti-parallel

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There are 4 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	146	153	first strand
Strand 2	B	156	161	anti-parallel
Strand 3	B	165	169	anti-parallel
Strand 4	B	176	181	anti-parallel

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There are 4 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	187	192	first strand
Strand 2	B	198	203	anti-parallel
Strand 3	B	207	212	anti-parallel
Strand 4	B	220	223	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	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	250	254	anti-parallel
Strand 4	B	259	264	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	273	277	first strand
Strand 2	B	284	289	anti-parallel
Strand 3	B	294	298	anti-parallel
Strand 4	B	304	308	anti-parallel

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There are 6 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	185	190	first strand
Strand 2	D	195	200	anti-parallel
Strand 3	D	34	39	parallel
Strand 4	D	220	226	parallel
Strand 5	D	263	269	parallel
Strand 6	D	319	323	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	S	3	7	first strand
Strand 2	S	18	25	anti-parallel
Strand 3	S	78	83	anti-parallel
Strand 4	S	68	73	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	58	60	first strand
Strand 2	S	45	51	anti-parallel
Strand 3	S	33	39	anti-parallel
Strand 4	S	92	99	anti-parallel
Strand 5	S	115	117	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	146	148	first strand
Strand 2	S	243	246	parallel
Strand 3	S	226	231	anti-parallel
Strand 4	S	174	179	anti-parallel
Strand 5	S	186	190	anti-parallel
Strand 6	S	194	195	anti-parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	155	160	first strand
Strand 2	S	211	216	anti-parallel
Strand 3	S	203	208	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	11	13	first strand
Strand 2	A	17	19	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	169	170	first strand
Strand 2	A	175	176	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: 8JII

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