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

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 8VJB entry

There are 2 chains in PDB entry 8VJB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	HIS 1	ASP 907
B	HIS 1	THR 593

There are 38 helices in PDB entry 8VJB. 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	24	Right-handed 310
Helix 2	AA2	A	42	46	Right-handed 310
Helix 3	AA3	A	139	143	Right-handed 310
Helix 4	AA4	A	148	153	Right-handed alpha
Helix 5	AA5	A	221	225	Right-handed 310
Helix 6	AA6	A	256	269	Right-handed alpha
Helix 7	AA7	A	315	318	Right-handed 310
Helix 8	AA8	A	323	329	Right-handed alpha
Helix 9	AA9	A	350	358	Right-handed alpha
Helix 10	AB1	A	435	447	Right-handed alpha
Helix 11	AB2	A	496	498	Right-handed 310
Helix 12	AB3	A	638	643	Right-handed alpha
Helix 13	AB4	A	692	714	Right-handed alpha
Helix 14	AB5	A	862	869	Right-handed alpha
Helix 15	AB6	B	16	24	Right-handed 310
Helix 16	AB7	B	42	46	Right-handed 310
Helix 17	AB8	B	139	143	Right-handed 310
Helix 18	AB9	B	148	153	Right-handed alpha
Helix 19	AC1	B	221	225	Right-handed 310
Helix 20	AC2	B	256	269	Right-handed alpha
Helix 21	AC3	B	315	318	Right-handed 310
Helix 22	AC4	B	323	329	Right-handed alpha
Helix 23	AC5	B	350	358	Right-handed alpha
Helix 24	AC6	B	435	447	Right-handed alpha
Helix 25	AC7	B	496	498	Right-handed 310
Helix 26	AC8	B	638	643	Right-handed alpha
Helix 27	AC9	B	692	714	Right-handed alpha
Helix 28	AD1	B	862	869	Right-handed alpha
Helix 29	AD2	C	13	22	Right-handed alpha
Helix 30	AD3	C	53	60	Right-handed alpha
Helix 31	AD4	D	11	17	Right-handed alpha
Helix 32	AD5	D	42	47	Right-handed alpha
Helix 33	AD6	D	52	58	Right-handed alpha
Helix 34	AD7	E	13	22	Right-handed alpha
Helix 35	AD8	E	53	60	Right-handed alpha
Helix 36	AD9	F	11	17	Right-handed alpha
Helix 37	AE1	F	42	47	Right-handed alpha
Helix 38	AE2	F	52	58	Right-handed alpha

There are 30 sheets in PDB entry 8VJB. 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, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3,

There are 6 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	12	14	first strand
Strand 2	A	33	38	parallel
Strand 3	A	61	66	parallel
Strand 4	A	93	96	parallel
Strand 5	A	117	120	parallel
Strand 6	A	144	146	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	A	28	29	first strand
Strand 2	A	56	57	parallel
Strand 3	A	81	82	parallel
Strand 4	A	111	112	parallel

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There are 2 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	171	173	first strand
Strand 2	A	178	180	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	A	245	248	first strand
Strand 2	A	252	255	anti-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	292	294	first strand
Strand 2	A	301	303	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	311	313	first strand
Strand 2	A	335	337	parallel
Strand 3	A	363	364	parallel
Strand 4	A	387	388	parallel
Strand 5	A	420	421	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	A	320	321	first strand
Strand 2	A	340	342	parallel
Strand 3	A	368	371	parallel
Strand 4	A	400	403	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	A	472	473	first strand
Strand 2	A	582	583	parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	479	480	first strand
Strand 2	A	485	487	anti-parallel
Strand 3	A	551	552	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	A	530	533	first strand
Strand 2	A	500	509	anti-parallel
Strand 3	A	561	570	anti-parallel
Strand 4	A	586	589	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	599	605	first strand
Strand 2	A	611	616	anti-parallel
Strand 3	A	767	770	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	759	762	first strand
Strand 2	A	627	633	anti-parallel
Strand 3	A	778	788	anti-parallel
Strand 4	A	794	795	anti-parallel

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There are 4 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	759	762	first strand
Strand 2	A	627	633	anti-parallel
Strand 3	A	778	788	anti-parallel
Strand 4	A	799	804	anti-parallel

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There are 3 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	815	822	first strand
Strand 2	A	828	833	anti-parallel
Strand 3	A	872	874	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	842	851	first strand
Strand 2	A	880	890	anti-parallel
Strand 3	A	901	905	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	12	13	first strand
Strand 2	B	33	38	parallel
Strand 3	B	61	66	parallel
Strand 4	B	93	96	parallel
Strand 5	B	117	120	parallel
Strand 6	B	144	146	parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	28	29	first strand
Strand 2	B	56	57	parallel
Strand 3	B	81	82	parallel
Strand 4	B	111	112	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	171	173	first strand
Strand 2	B	178	180	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	245	248	first strand
Strand 2	B	252	255	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	292	294	first strand
Strand 2	B	301	303	anti-parallel

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There are 5 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	311	313	first strand
Strand 2	B	335	337	parallel
Strand 3	B	363	364	parallel
Strand 4	B	387	388	parallel
Strand 5	B	420	421	parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	320	321	first strand
Strand 2	B	340	342	parallel
Strand 3	B	368	371	parallel
Strand 4	B	400	403	parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	472	473	first strand
Strand 2	B	582	583	parallel

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There are 3 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	479	480	first strand
Strand 2	B	485	487	anti-parallel
Strand 3	B	551	552	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	530	533	first strand
Strand 2	B	500	509	anti-parallel
Strand 3	B	561	570	anti-parallel
Strand 4	B	586	589	anti-parallel

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There are 3 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	599	605	first strand
Strand 2	B	611	616	anti-parallel
Strand 3	B	767	770	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	759	762	first strand
Strand 2	B	627	633	anti-parallel
Strand 3	B	778	788	anti-parallel
Strand 4	B	794	795	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	759	762	first strand
Strand 2	B	627	633	anti-parallel
Strand 3	B	778	788	anti-parallel
Strand 4	B	799	804	anti-parallel

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There are 3 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	815	822	first strand
Strand 2	B	828	833	anti-parallel
Strand 3	B	872	874	anti-parallel

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There are 3 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	842	851	first strand
Strand 2	B	880	890	anti-parallel
Strand 3	B	901	905	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: 8VJB

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