Analysis of interatomic Contacts of Structural Units in PDB entry:
6VP4

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 6VP4 entry

There are 4 chains in PDB entry 6VP4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	LEU 333
B	MET 1	LYS 340
C	ASN 3	TYR 342
D	ASN 3	LEU 333

There are 38 helices in PDB entry 6VP4. 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	34	Right-handed alpha
Helix 2	AA2	A	41	60	Right-handed alpha
Helix 3	AA3	A	62	67	Right-handed alpha
Helix 4	AA4	A	106	111	Right-handed alpha
Helix 5	AA5	A	123	152	Right-handed alpha
Helix 6	AA6	A	159	163	Right-handed 310
Helix 7	AA7	A	252	259	Right-handed alpha
Helix 8	AA8	A	306	318	Right-handed alpha
Helix 9	AA9	A	321	330	Right-handed alpha
Helix 10	AB1	B	16	34	Right-handed alpha
Helix 11	AB2	B	41	60	Right-handed alpha
Helix 12	AB3	B	62	69	Right-handed alpha
Helix 13	AB4	B	106	111	Right-handed alpha
Helix 14	AB5	B	123	152	Right-handed alpha
Helix 15	AB6	B	159	163	Right-handed 310
Helix 16	AB7	B	252	259	Right-handed alpha
Helix 17	AB8	B	306	318	Right-handed alpha
Helix 18	AB9	B	321	330	Right-handed alpha
Helix 19	AC1	B	331	339	Right-handed alpha
Helix 20	AC2	C	16	34	Right-handed alpha
Helix 21	AC3	C	41	60	Right-handed alpha
Helix 22	AC4	C	62	67	Right-handed alpha
Helix 23	AC5	C	106	111	Right-handed alpha
Helix 24	AC6	C	123	152	Right-handed alpha
Helix 25	AC7	C	159	163	Right-handed 310
Helix 26	AC8	C	252	259	Right-handed alpha
Helix 27	AC9	C	306	318	Right-handed alpha
Helix 28	AD1	C	321	330	Right-handed alpha
Helix 29	AD2	C	331	341	Right-handed alpha
Helix 30	AD3	D	16	34	Right-handed alpha
Helix 31	AD4	D	41	60	Right-handed alpha
Helix 32	AD5	D	62	69	Right-handed alpha
Helix 33	AD6	D	106	111	Right-handed alpha
Helix 34	AD7	D	123	152	Right-handed alpha
Helix 35	AD8	D	159	163	Right-handed 310
Helix 36	AD9	D	252	259	Right-handed alpha
Helix 37	AE1	D	306	318	Right-handed alpha
Helix 38	AE2	D	321	330	Right-handed alpha

There are 16 sheets in PDB entry 6VP4. 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,

There are 8 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	6	7	first strand
Strand 2	A	36	39	parallel
Strand 3	A	246	251	anti-parallel
Strand 4	A	195	200	anti-parallel
Strand 5	A	277	284	anti-parallel
Strand 6	A	169	175	anti-parallel
Strand 7	A	94	98	anti-parallel
Strand 8	A	77	79	anti-parallel

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There are 2 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	85	86	first strand
Strand 2	A	89	90	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	184	189	first strand
Strand 2	A	268	271	anti-parallel
Strand 3	A	206	208	anti-parallel
Strand 4	A	238	239	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	291	292	first strand
Strand 2	A	304	305	anti-parallel

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There are 8 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	6	7	first strand
Strand 2	B	36	39	parallel
Strand 3	B	246	251	anti-parallel
Strand 4	B	195	200	anti-parallel
Strand 5	B	277	284	anti-parallel
Strand 6	B	169	175	anti-parallel
Strand 7	B	94	98	anti-parallel
Strand 8	B	77	79	anti-parallel

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There are 2 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	85	86	first strand
Strand 2	B	89	90	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	184	189	first strand
Strand 2	B	268	271	anti-parallel
Strand 3	B	206	208	anti-parallel
Strand 4	B	238	239	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	291	292	first strand
Strand 2	B	304	305	anti-parallel

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There are 8 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	6	7	first strand
Strand 2	C	36	39	parallel
Strand 3	C	246	251	anti-parallel
Strand 4	C	195	200	anti-parallel
Strand 5	C	277	284	anti-parallel
Strand 6	C	169	175	anti-parallel
Strand 7	C	94	98	anti-parallel
Strand 8	C	77	79	anti-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	C	85	86	first strand
Strand 2	C	89	90	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	184	189	first strand
Strand 2	C	268	271	anti-parallel
Strand 3	C	206	208	anti-parallel
Strand 4	C	238	239	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	291	292	first strand
Strand 2	C	304	305	anti-parallel

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There are 8 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	6	7	first strand
Strand 2	D	36	39	parallel
Strand 3	D	246	251	anti-parallel
Strand 4	D	195	200	anti-parallel
Strand 5	D	277	284	anti-parallel
Strand 6	D	169	175	anti-parallel
Strand 7	D	94	98	anti-parallel
Strand 8	D	77	79	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	D	85	86	first strand
Strand 2	D	89	90	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	184	189	first strand
Strand 2	D	268	271	anti-parallel
Strand 3	D	206	208	anti-parallel
Strand 4	D	238	239	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	291	292	first strand
Strand 2	D	304	305	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: 6VP4

Analysis of interatomic Contacts of Structural Units in PDB entry:
6VP4