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

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 5VAF entry

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

Chain ID	Initial residue	Terminal residue
A	MET 1	LYS 526
B	MET 1	ARG 533
C	MET 1	PRO 532
D	MET 1	LYS 526

There are 82 helices in PDB entry 5VAF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	22	26	Right-handed 310
Helix 2	AA2	A	33	45	Right-handed alpha
Helix 3	AA3	A	59	67	Right-handed alpha
Helix 4	AA4	A	77	82	Right-handed alpha
Helix 5	AA5	A	195	198	Right-handed 310
Helix 6	AA6	A	208	222	Right-handed alpha
Helix 7	AA7	A	240	245	Right-handed alpha
Helix 8	AA8	A	258	263	Right-handed alpha
Helix 9	AA9	A	267	269	Right-handed 310
Helix 10	AB1	A	270	277	Right-handed alpha
Helix 11	AB2	A	284	295	Right-handed alpha
Helix 12	AB3	A	296	300	Right-handed 310
Helix 13	AB4	A	336	349	Right-handed alpha
Helix 14	AB5	A	363	382	Right-handed alpha
Helix 15	AB6	A	383	388	Right-handed 310
Helix 16	AB7	A	418	429	Right-handed alpha
Helix 17	AB8	A	440	451	Right-handed alpha
Helix 18	AB9	A	474	476	Right-handed 310
Helix 19	AC1	A	477	487	Right-handed alpha
Helix 20	AC2	A	489	505	Right-handed alpha
Helix 21	AC3	A	507	526	Right-handed alpha
Helix 22	AC4	B	33	45	Right-handed alpha
Helix 23	AC5	B	59	67	Right-handed alpha
Helix 24	AC6	B	77	82	Right-handed alpha
Helix 25	AC7	B	195	201	Right-handed 310
Helix 26	AC8	B	208	224	Right-handed alpha
Helix 27	AC9	B	240	245	Right-handed alpha
Helix 28	AD1	B	258	263	Right-handed alpha
Helix 29	AD2	B	270	277	Right-handed alpha
Helix 30	AD3	B	284	295	Right-handed alpha
Helix 31	AD4	B	296	300	Right-handed 310
Helix 32	AD5	B	316	320	Right-handed 310
Helix 33	AD6	B	336	349	Right-handed alpha
Helix 34	AD7	B	363	382	Right-handed alpha
Helix 35	AD8	B	383	388	Right-handed 310
Helix 36	AD9	B	418	427	Right-handed alpha
Helix 37	AE1	B	440	449	Right-handed alpha
Helix 38	AE2	B	474	476	Right-handed 310
Helix 39	AE3	B	477	487	Right-handed alpha
Helix 40	AE4	B	489	505	Right-handed alpha
Helix 41	AE5	B	508	524	Right-handed alpha
Helix 42	AE6	C	33	46	Right-handed alpha
Helix 43	AE7	C	59	67	Right-handed alpha
Helix 44	AE8	C	77	82	Right-handed alpha
Helix 45	AE9	C	93	97	Right-handed 310
Helix 46	AF1	C	195	198	Right-handed 310
Helix 47	AF2	C	208	225	Right-handed alpha
Helix 48	AF3	C	240	245	Right-handed alpha
Helix 49	AF4	C	258	263	Right-handed alpha
Helix 50	AF5	C	267	269	Right-handed 310
Helix 51	AF6	C	270	277	Right-handed alpha
Helix 52	AF7	C	284	294	Right-handed alpha
Helix 53	AF8	C	336	350	Right-handed alpha
Helix 54	AF9	C	363	382	Right-handed alpha
Helix 55	AG1	C	383	388	Right-handed 310
Helix 56	AG2	C	418	428	Right-handed alpha
Helix 57	AG3	C	440	451	Right-handed alpha
Helix 58	AG4	C	474	476	Right-handed 310
Helix 59	AG5	C	477	487	Right-handed alpha
Helix 60	AG6	C	489	505	Right-handed alpha
Helix 61	AG7	C	508	526	Right-handed alpha
Helix 62	AG8	D	22	26	Right-handed 310
Helix 63	AG9	D	33	45	Right-handed alpha
Helix 64	AH1	D	59	67	Right-handed alpha
Helix 65	AH2	D	77	83	Right-handed alpha
Helix 66	AH3	D	195	201	Right-handed 310
Helix 67	AH4	D	208	224	Right-handed alpha
Helix 68	AH5	D	240	247	Right-handed alpha
Helix 69	AH6	D	258	263	Right-handed alpha
Helix 70	AH7	D	270	277	Right-handed alpha
Helix 71	AH8	D	284	295	Right-handed alpha
Helix 72	AH9	D	298	300	Right-handed 310
Helix 73	AI1	D	316	320	Right-handed 310
Helix 74	AI2	D	336	349	Right-handed alpha
Helix 75	AI3	D	363	382	Right-handed alpha
Helix 76	AI4	D	383	388	Right-handed 310
Helix 77	AI5	D	418	428	Right-handed alpha
Helix 78	AI6	D	440	451	Right-handed alpha
Helix 79	AI7	D	474	476	Right-handed 310
Helix 80	AI8	D	477	487	Right-handed alpha
Helix 81	AI9	D	489	504	Right-handed alpha
Helix 82	AJ1	D	508	523	Right-handed alpha

There are 12 sheets in PDB entry 5VAF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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	73	76	first strand
Strand 2	A	49	53	parallel
Strand 3	A	2	5	parallel
Strand 4	A	230	234	parallel
Strand 5	A	252	257	parallel
Strand 6	A	279	282	parallel
Strand 7	A	302	304	parallel

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There are 10 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	103	107	first strand
Strand 2	A	112	116	anti-parallel
Strand 3	A	119	126	anti-parallel
Strand 4	A	132	138	anti-parallel
Strand 5	A	143	150	anti-parallel
Strand 6	A	154	161	anti-parallel
Strand 7	A	166	172	anti-parallel
Strand 8	A	178	183	anti-parallel
Strand 9	A	191	193	anti-parallel
Strand 10	A	205	206	anti-parallel

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There are 6 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	411	416	first strand
Strand 2	A	353	360	parallel
Strand 3	A	323	328	parallel
Strand 4	A	431	434	parallel
Strand 5	A	454	456	parallel
Strand 6	A	469	471	parallel

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There are 7 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	73	76	first strand
Strand 2	B	49	53	parallel
Strand 3	B	2	5	parallel
Strand 4	B	230	234	parallel
Strand 5	B	252	257	parallel
Strand 6	B	279	282	parallel
Strand 7	B	302	304	parallel

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There are 10 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	104	107	first strand
Strand 2	B	112	115	anti-parallel
Strand 3	B	122	126	anti-parallel
Strand 4	B	132	139	anti-parallel
Strand 5	B	142	150	anti-parallel
Strand 6	B	154	162	anti-parallel
Strand 7	B	165	172	anti-parallel
Strand 8	B	178	183	anti-parallel
Strand 9	B	191	193	anti-parallel
Strand 10	B	205	206	anti-parallel

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There are 6 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	411	416	first strand
Strand 2	B	353	360	parallel
Strand 3	B	323	328	parallel
Strand 4	B	431	434	parallel
Strand 5	B	454	456	parallel
Strand 6	B	469	471	parallel

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There are 7 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	74	76	first strand
Strand 2	C	49	53	parallel
Strand 3	C	2	5	parallel
Strand 4	C	230	234	parallel
Strand 5	C	252	257	parallel
Strand 6	C	279	282	parallel
Strand 7	C	302	304	parallel

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There are 10 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	103	107	first strand
Strand 2	C	112	116	anti-parallel
Strand 3	C	119	126	anti-parallel
Strand 4	C	132	139	anti-parallel
Strand 5	C	142	150	anti-parallel
Strand 6	C	154	161	anti-parallel
Strand 7	C	166	172	anti-parallel
Strand 8	C	178	183	anti-parallel
Strand 9	C	191	193	anti-parallel
Strand 10	C	205	206	anti-parallel

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There are 6 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	411	416	first strand
Strand 2	C	353	360	parallel
Strand 3	C	323	328	parallel
Strand 4	C	431	434	parallel
Strand 5	C	454	456	parallel
Strand 6	C	469	471	parallel

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There are 7 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	73	76	first strand
Strand 2	D	49	53	parallel
Strand 3	D	2	5	parallel
Strand 4	D	230	234	parallel
Strand 5	D	252	257	parallel
Strand 6	D	279	282	parallel
Strand 7	D	302	304	parallel

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There are 9 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	111	115	first strand
Strand 2	D	120	126	anti-parallel
Strand 3	D	132	139	anti-parallel
Strand 4	D	142	149	anti-parallel
Strand 5	D	155	161	anti-parallel
Strand 6	D	166	172	anti-parallel
Strand 7	D	178	183	anti-parallel
Strand 8	D	191	193	anti-parallel
Strand 9	D	205	206	anti-parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	411	416	first strand
Strand 2	D	353	360	parallel
Strand 3	D	323	328	parallel
Strand 4	D	431	434	parallel
Strand 5	D	454	456	parallel
Strand 6	D	469	471	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: 5VAF

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