Analysis of interatomic Contacts of Structural Units in PDB entry:
5VF4

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 5VF4 entry

There are 4 chains in PDB entry 5VF4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MSE 1	LEU 381
B	MSE 1	LEU 381
C	ILE 2	LEU 381
D	ILE 2	ASN 197

There are 45 helices in PDB entry 5VF4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	4	17	Right-handed alpha
Helix 2	AA2	A	41	46	Right-handed alpha
Helix 3	AA3	A	47	50	Right-handed 310
Helix 4	AA4	A	54	56	Right-handed 310
Helix 5	AA5	A	94	104	Right-handed alpha
Helix 6	AA6	A	113	128	Right-handed alpha
Helix 7	AA7	A	164	168	Right-handed 310
Helix 8	AA8	A	179	183	Right-handed 310
Helix 9	AA9	A	218	222	Right-handed 310
Helix 10	AB1	A	302	304	Right-handed 310
Helix 11	AB2	A	313	319	Right-handed alpha
Helix 12	AB3	B	4	17	Right-handed alpha
Helix 13	AB4	B	41	45	Right-handed 310
Helix 14	AB5	B	46	50	Right-handed 310
Helix 15	AB6	B	54	56	Right-handed 310
Helix 16	AB7	B	94	104	Right-handed alpha
Helix 17	AB8	B	113	128	Right-handed alpha
Helix 18	AB9	B	164	168	Right-handed 310
Helix 19	AC1	B	179	183	Right-handed 310
Helix 20	AC2	B	218	222	Right-handed 310
Helix 21	AC3	B	302	304	Right-handed 310
Helix 22	AC4	B	313	319	Right-handed alpha
Helix 23	AC5	B	351	355	Right-handed 310
Helix 24	AC6	C	4	17	Right-handed alpha
Helix 25	AC7	C	41	46	Right-handed alpha
Helix 26	AC8	C	47	50	Right-handed 310
Helix 27	AC9	C	54	56	Right-handed 310
Helix 28	AD1	C	94	105	Right-handed alpha
Helix 29	AD2	C	113	128	Right-handed alpha
Helix 30	AD3	C	164	168	Right-handed 310
Helix 31	AD4	C	179	183	Right-handed 310
Helix 32	AD5	C	218	222	Right-handed 310
Helix 33	AD6	C	302	304	Right-handed 310
Helix 34	AD7	C	313	319	Right-handed alpha
Helix 35	AD8	D	4	17	Right-handed alpha
Helix 36	AD9	D	41	46	Right-handed alpha
Helix 37	AE1	D	47	50	Right-handed 310
Helix 38	AE2	D	54	56	Right-handed 310
Helix 39	AE3	D	94	104	Right-handed alpha
Helix 40	AE4	D	113	128	Right-handed alpha
Helix 41	AE5	D	164	168	Right-handed 310
Helix 42	AE6	D	179	183	Right-handed 310
Helix 43	AE7	D	218	222	Right-handed 310
Helix 44	AE8	D	302	304	Right-handed 310
Helix 45	AE9	D	313	319	Right-handed alpha

There are 25 sheets in PDB entry 5VF4. 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,

There are 5 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	21	25	first strand
Strand 2	A	31	38	anti-parallel
Strand 3	A	66	70	anti-parallel
Strand 4	A	377	379	anti-parallel
Strand 5	A	109	111	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	58	59	first strand
Strand 2	A	62	63	anti-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	75	77	first strand
Strand 2	A	80	82	anti-parallel

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There are 6 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	297	300	first strand
Strand 2	A	332	335	anti-parallel
Strand 3	A	360	362	parallel
Strand 4	A	344	345	anti-parallel
Strand 5	A	199	201	anti-parallel
Strand 6	A	373	374	parallel

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There are 5 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	244	245	first strand
Strand 2	A	235	237	anti-parallel
Strand 3	A	211	214	anti-parallel
Strand 4	A	205	208	anti-parallel
Strand 5	A	340	341	anti-parallel

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There are 3 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	254	256	first strand
Strand 2	A	276	278	anti-parallel
Strand 3	A	305	306	parallel

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There are 5 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	21	25	first strand
Strand 2	B	31	38	anti-parallel
Strand 3	B	66	70	anti-parallel
Strand 4	B	377	379	anti-parallel
Strand 5	B	109	111	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	58	59	first strand
Strand 2	B	62	63	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	75	77	first strand
Strand 2	B	80	82	anti-parallel

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There are 6 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	297	300	first strand
Strand 2	B	332	335	anti-parallel
Strand 3	B	356	362	parallel
Strand 4	B	344	346	anti-parallel
Strand 5	B	199	201	anti-parallel
Strand 6	B	373	374	parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	244	245	first strand
Strand 2	B	235	237	anti-parallel
Strand 3	B	211	214	anti-parallel
Strand 4	B	205	208	anti-parallel
Strand 5	B	340	341	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	B	254	256	first strand
Strand 2	B	276	278	anti-parallel
Strand 3	B	305	306	parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	21	25	first strand
Strand 2	C	31	38	anti-parallel
Strand 3	C	66	70	anti-parallel
Strand 4	C	377	379	anti-parallel
Strand 5	C	109	111	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	C	58	59	first strand
Strand 2	C	62	63	anti-parallel

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There are 2 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	75	77	first strand
Strand 2	C	80	82	anti-parallel

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There are 7 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	271	274	first strand
Strand 2	C	296	300	parallel
Strand 3	C	332	335	anti-parallel
Strand 4	C	360	362	parallel
Strand 5	C	344	345	anti-parallel
Strand 6	C	199	201	anti-parallel
Strand 7	C	373	374	parallel

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There are 5 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	244	245	first strand
Strand 2	C	235	237	anti-parallel
Strand 3	C	211	214	anti-parallel
Strand 4	C	205	208	anti-parallel
Strand 5	C	340	341	anti-parallel

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There are 3 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	254	256	first strand
Strand 2	C	276	278	anti-parallel
Strand 3	C	305	306	parallel

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There are 5 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	21	25	first strand
Strand 2	D	31	38	anti-parallel
Strand 3	D	66	70	anti-parallel
Strand 4	D	377	379	anti-parallel
Strand 5	D	109	111	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	D	58	59	first strand
Strand 2	D	62	63	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	74	76	first strand
Strand 2	D	81	83	anti-parallel

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There are 6 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	297	300	first strand
Strand 2	D	332	335	anti-parallel
Strand 3	D	360	362	parallel
Strand 4	D	344	345	anti-parallel
Strand 5	D	199	201	anti-parallel
Strand 6	D	373	374	parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	211	214	first strand
Strand 2	D	205	208	anti-parallel
Strand 3	D	340	341	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	236	237	first strand
Strand 2	D	244	245	anti-parallel

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There are 3 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	254	256	first strand
Strand 2	D	276	278	anti-parallel
Strand 3	D	305	306	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: 5VF4

Analysis of interatomic Contacts of Structural Units in PDB entry:
5VF4