Analysis of interatomic Contacts of Structural Units in PDB entry:
6VDF

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 6VDF entry

There are 2 chains in PDB entry 6VDF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 244	ASN 586
B	VAL 244	VAL 546

There are 54 helices in PDB entry 6VDF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	274	279	Right-handed alpha
Helix 2	AA2	A	279	288	Right-handed alpha
Helix 3	AA3	A	301	312	Right-handed alpha
Helix 4	AA4	A	314	316	Right-handed 310
Helix 5	AA5	A	317	323	Right-handed alpha
Helix 6	AA6	A	328	338	Right-handed alpha
Helix 7	AA7	A	351	356	Right-handed alpha
Helix 8	AA8	A	371	384	Right-handed alpha
Helix 9	AA9	A	408	437	Right-handed alpha
Helix 10	AB1	A	465	470	Right-handed alpha
Helix 11	AB2	A	491	501	Right-handed alpha
Helix 12	AB3	A	508	512	Right-handed 310
Helix 13	AB4	A	569	581	Right-handed alpha
Helix 14	AB5	B	274	279	Right-handed alpha
Helix 15	AB6	B	279	288	Right-handed alpha
Helix 16	AB7	B	301	312	Right-handed alpha
Helix 17	AB8	B	314	316	Right-handed 310
Helix 18	AB9	B	317	325	Right-handed alpha
Helix 19	AC1	B	328	336	Right-handed alpha
Helix 20	AC2	B	351	357	Right-handed alpha
Helix 21	AC3	B	371	383	Right-handed alpha
Helix 22	AC4	B	412	436	Right-handed alpha
Helix 23	AC5	B	457	461	Right-handed 310
Helix 24	AC6	B	465	470	Right-handed alpha
Helix 25	AC7	B	491	501	Right-handed alpha
Helix 26	AC8	B	508	512	Right-handed 310
Helix 27	AC9	B	569	581	Right-handed alpha
Helix 28	AD1	C	274	279	Right-handed alpha
Helix 29	AD2	C	279	288	Right-handed alpha
Helix 30	AD3	C	301	311	Right-handed alpha
Helix 31	AD4	C	314	316	Right-handed 310
Helix 32	AD5	C	317	325	Right-handed alpha
Helix 33	AD6	C	328	337	Right-handed alpha
Helix 34	AD7	C	351	357	Right-handed alpha
Helix 35	AD8	C	371	385	Right-handed alpha
Helix 36	AD9	C	405	409	Right-handed 310
Helix 37	AE1	C	412	437	Right-handed alpha
Helix 38	AE2	C	465	470	Right-handed alpha
Helix 39	AE3	C	491	502	Right-handed alpha
Helix 40	AE4	C	508	512	Right-handed 310
Helix 41	AE5	C	570	581	Right-handed alpha
Helix 42	AE6	D	274	279	Right-handed alpha
Helix 43	AE7	D	279	288	Right-handed alpha
Helix 44	AE8	D	301	312	Right-handed alpha
Helix 45	AE9	D	314	316	Right-handed 310
Helix 46	AF1	D	317	325	Right-handed alpha
Helix 47	AF2	D	328	337	Right-handed alpha
Helix 48	AF3	D	351	356	Right-handed alpha
Helix 49	AF4	D	371	384	Right-handed alpha
Helix 50	AF5	D	385	389	Right-handed 310
Helix 51	AF6	D	408	437	Right-handed alpha
Helix 52	AF7	D	465	470	Right-handed alpha
Helix 53	AF8	D	490	502	Right-handed alpha
Helix 54	AF9	D	569	581	Right-handed alpha

There are 10 sheets in PDB entry 6VDF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

There are 7 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	340	345	first strand
Strand 2	A	393	399	parallel
Strand 3	A	261	267	parallel
Strand 4	A	443	449	parallel
Strand 5	A	473	476	anti-parallel
Strand 6	A	290	292	anti-parallel
Strand 7	A	484	485	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	528	531	first strand
Strand 2	A	535	539	anti-parallel
Strand 3	A	543	548	anti-parallel
Strand 4	A	553	557	anti-parallel

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There are 7 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	340	345	first strand
Strand 2	B	393	399	parallel
Strand 3	B	261	270	parallel
Strand 4	B	443	452	parallel
Strand 5	B	473	476	anti-parallel
Strand 6	B	290	292	anti-parallel
Strand 7	B	484	485	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	295	296	first strand
Strand 2	B	489	490	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	528	531	first strand
Strand 2	B	535	540	anti-parallel
Strand 3	B	543	548	anti-parallel
Strand 4	B	553	556	anti-parallel

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There are 7 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	340	345	first strand
Strand 2	C	393	399	parallel
Strand 3	C	261	267	parallel
Strand 4	C	443	449	parallel
Strand 5	C	473	476	anti-parallel
Strand 6	C	290	292	anti-parallel
Strand 7	C	483	485	parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	295	296	first strand
Strand 2	C	489	490	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	C	528	531	first strand
Strand 2	C	535	539	anti-parallel
Strand 3	C	543	548	anti-parallel
Strand 4	C	554	557	anti-parallel

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There are 7 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	340	345	first strand
Strand 2	D	393	398	parallel
Strand 3	D	261	270	parallel
Strand 4	D	443	452	parallel
Strand 5	D	473	476	anti-parallel
Strand 6	D	290	292	anti-parallel
Strand 7	D	483	485	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	D	528	531	first strand
Strand 2	D	535	540	anti-parallel
Strand 3	D	543	548	anti-parallel
Strand 4	D	553	556	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: 6VDF

Analysis of interatomic Contacts of Structural Units in PDB entry:
6VDF