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

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 8JBF entry

There are 6 chains in PDB entry 8JBF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	ASN 76	ARG 369
D	GLU 3	ASN 340
E	VAL 2	LEU 247
G	THR 6	ARG 62
A	ASP 8	ALA 15
C	ALA 7	VAL 361

There are 34 helices in PDB entry 8JBF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	81	100	Right-handed alpha
Helix 2	AA2	B	105	112	Right-handed alpha
Helix 3	AA3	B	121	137	Right-handed alpha
Helix 4	AA4	B	140	145	Right-handed alpha
Helix 5	AA5	B	156	162	Right-handed alpha
Helix 6	AA6	B	163	186	Right-handed alpha
Helix 7	AA7	B	196	220	Right-handed alpha
Helix 8	AA8	B	240	248	Right-handed alpha
Helix 9	AA9	B	248	253	Right-handed alpha
Helix 10	AB1	B	256	276	Right-handed alpha
Helix 11	AB2	B	290	295	Right-handed alpha
Helix 12	AB3	B	296	307	Right-handed alpha
Helix 13	AB4	B	312	324	Right-handed alpha
Helix 14	AB5	B	325	332	Right-handed 310
Helix 15	AB6	B	333	348	Right-handed alpha
Helix 16	AB7	B	350	360	Right-handed alpha
Helix 17	AB8	B	360	369	Right-handed alpha
Helix 18	AB9	D	4	24	Right-handed alpha
Helix 19	AC1	D	29	34	Right-handed alpha
Helix 20	AC2	E	28	32	Right-handed 310
Helix 21	AC3	E	87	91	Right-handed 310
Helix 22	AC4	E	220	224	Right-handed 310
Helix 23	AC5	G	8	19	Right-handed alpha
Helix 24	AC6	G	29	44	Right-handed alpha
Helix 25	AC7	C	8	26	Right-handed alpha
Helix 26	AC8	C	26	32	Right-handed alpha
Helix 27	AC9	C	45	50	Right-handed alpha
Helix 28	AD1	C	210	214	Right-handed 310
Helix 29	AD2	C	232	245	Right-handed alpha
Helix 30	AD3	C	260	269	Right-handed alpha
Helix 31	AD4	C	274	279	Right-handed alpha
Helix 32	AD5	C	280	283	Right-handed 310
Helix 33	AD6	C	298	319	Right-handed alpha
Helix 34	AD7	C	337	358	Right-handed alpha

There are 15 sheets in PDB entry 8JBF. 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, AB6,

There are 2 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	223	224	first strand
Strand 2	B	234	235	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	D	47	51	first strand
Strand 2	D	336	339	anti-parallel
Strand 3	D	327	330	anti-parallel
Strand 4	D	319	320	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	D	58	63	first strand
Strand 2	D	69	74	anti-parallel
Strand 3	D	78	83	anti-parallel
Strand 4	D	88	94	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	D	100	105	first strand
Strand 2	D	111	116	anti-parallel
Strand 3	D	120	125	anti-parallel
Strand 4	D	134	140	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	D	146	153	first strand
Strand 2	D	156	161	anti-parallel
Strand 3	D	166	169	anti-parallel
Strand 4	D	176	180	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	D	187	192	first strand
Strand 2	D	198	203	anti-parallel
Strand 3	D	208	212	anti-parallel
Strand 4	D	218	222	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	D	229	234	first strand
Strand 2	D	240	245	anti-parallel
Strand 3	D	249	254	anti-parallel
Strand 4	D	259	265	anti-parallel

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There are 4 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	273	278	first strand
Strand 2	D	284	289	anti-parallel
Strand 3	D	294	298	anti-parallel
Strand 4	D	304	308	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	E	4	7	first strand
Strand 2	E	18	24	anti-parallel
Strand 3	E	78	83	anti-parallel
Strand 4	E	68	73	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	58	60	first strand
Strand 2	E	45	51	anti-parallel
Strand 3	E	33	39	anti-parallel
Strand 4	E	98	99	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	92	94	first strand
Strand 2	E	115	117	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	E	146	148	first strand
Strand 2	E	243	246	parallel
Strand 3	E	226	227	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	155	160	first strand
Strand 2	E	211	216	anti-parallel
Strand 3	E	203	207	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	194	195	first strand
Strand 2	E	186	190	anti-parallel
Strand 3	E	174	178	anti-parallel
Strand 4	E	229	231	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	184	191	first strand
Strand 2	C	194	201	anti-parallel
Strand 3	C	33	40	parallel
Strand 4	C	220	226	parallel
Strand 5	C	253	259	parallel
Strand 6	C	327	330	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: 8JBF

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