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

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 8VRT entry

There are 4 chains in PDB entry 8VRT (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 23	ALA 536
B	SER 26	ALA 536
C	ARG 8	ALA 376
D	MET 1	THR 135

There are 56 helices in PDB entry 8VRT. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	41	56	Right-handed alpha
Helix 2	AA2	A	75	83	Right-handed alpha
Helix 3	AA3	A	83	91	Right-handed alpha
Helix 4	AA4	A	94	99	Right-handed alpha
Helix 5	AA5	A	108	121	Right-handed alpha
Helix 6	AA6	A	130	141	Right-handed alpha
Helix 7	AA7	A	143	157	Right-handed alpha
Helix 8	AA8	A	162	173	Right-handed alpha
Helix 9	AA9	A	175	188	Right-handed alpha
Helix 10	AB1	A	189	194	Right-handed 310
Helix 11	AB2	A	196	201	Right-handed alpha
Helix 12	AB3	A	203	213	Right-handed alpha
Helix 13	AB4	A	220	232	Right-handed alpha
Helix 14	AB5	A	232	237	Right-handed alpha
Helix 15	AB6	A	239	246	Right-handed alpha
Helix 16	AB7	A	475	481	Right-handed 310
Helix 17	AB8	B	41	56	Right-handed alpha
Helix 18	AB9	B	75	83	Right-handed alpha
Helix 19	AC1	B	83	91	Right-handed alpha
Helix 20	AC2	B	94	99	Right-handed alpha
Helix 21	AC3	B	108	122	Right-handed alpha
Helix 22	AC4	B	130	141	Right-handed alpha
Helix 23	AC5	B	143	158	Right-handed alpha
Helix 24	AC6	B	162	174	Right-handed alpha
Helix 25	AC7	B	175	189	Right-handed alpha
Helix 26	AC8	B	191	195	Right-handed 310
Helix 27	AC9	B	196	202	Right-handed alpha
Helix 28	AD1	B	203	213	Right-handed alpha
Helix 29	AD2	B	220	232	Right-handed alpha
Helix 30	AD3	B	236	238	Right-handed 310
Helix 31	AD4	B	239	247	Right-handed alpha
Helix 32	AD5	B	475	481	Right-handed 310
Helix 33	AD6	C	18	22	Right-handed 310
Helix 34	AD7	C	33	45	Right-handed alpha
Helix 35	AD8	C	46	51	Right-handed 310
Helix 36	AD9	C	60	65	Right-handed alpha
Helix 37	AE1	C	69	79	Right-handed alpha
Helix 38	AE2	C	80	86	Right-handed 310
Helix 39	AE3	C	87	95	Right-handed alpha
Helix 40	AE4	C	105	126	Right-handed alpha
Helix 41	AE5	C	154	164	Right-handed alpha
Helix 42	AE6	C	180	187	Right-handed alpha
Helix 43	AE7	C	216	220	Right-handed 310
Helix 44	AE8	C	233	253	Right-handed alpha
Helix 45	AE9	C	277	290	Right-handed alpha
Helix 46	AF1	C	304	320	Right-handed alpha
Helix 47	AF2	C	333	338	Right-handed 310
Helix 48	AF3	C	355	372	Right-handed alpha
Helix 49	AF4	D	15	17	Right-handed 310
Helix 50	AF5	D	18	26	Right-handed alpha
Helix 51	AF6	D	41	56	Right-handed alpha
Helix 52	AF7	D	59	70	Right-handed alpha
Helix 53	AF8	D	73	81	Right-handed alpha
Helix 54	AF9	D	92	107	Right-handed alpha
Helix 55	AG1	D	109	117	Right-handed alpha
Helix 56	AG2	D	121	133	Right-handed alpha

There are 21 sheets in PDB entry 8VRT. 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,

There are 2 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	34	38	first strand
Strand 2	B	123	127	anti-parallel

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There are 3 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	70	74	first strand
Strand 2	A	63	67	anti-parallel
Strand 3	A	101	104	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	123	127	first strand
Strand 2	B	34	38	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	215	216	first strand
Strand 2	A	249	250	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	A	281	289	first strand
Strand 2	A	268	275	anti-parallel
Strand 3	A	255	261	anti-parallel
Strand 4	A	530	534	anti-parallel

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There are 4 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	293	299	first strand
Strand 2	A	302	307	anti-parallel
Strand 3	A	315	320	anti-parallel
Strand 4	A	325	328	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	A	340	344	first strand
Strand 2	A	349	353	anti-parallel
Strand 3	A	366	370	anti-parallel
Strand 4	A	375	379	anti-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	A	390	394	first strand
Strand 2	A	397	401	anti-parallel
Strand 3	A	417	422	anti-parallel
Strand 4	A	427	434	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	A	404	407	first strand
Strand 2	A	411	414	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	441	446	first strand
Strand 2	A	449	454	anti-parallel
Strand 3	A	458	463	anti-parallel
Strand 4	A	468	472	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	A	485	490	first strand
Strand 2	A	493	498	anti-parallel
Strand 3	A	508	512	anti-parallel
Strand 4	A	517	520	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	70	74	first strand
Strand 2	B	63	67	anti-parallel
Strand 3	B	101	104	parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	215	216	first strand
Strand 2	B	249	250	parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	281	289	first strand
Strand 2	B	268	275	anti-parallel
Strand 3	B	255	261	anti-parallel
Strand 4	B	530	535	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	B	295	299	first strand
Strand 2	B	302	306	anti-parallel
Strand 3	B	316	319	anti-parallel
Strand 4	B	327	329	anti-parallel

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There are 4 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	340	344	first strand
Strand 2	B	349	353	anti-parallel
Strand 3	B	366	370	anti-parallel
Strand 4	B	375	378	anti-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	390	394	first strand
Strand 2	B	397	401	anti-parallel
Strand 3	B	417	422	anti-parallel
Strand 4	B	427	434	anti-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	404	406	first strand
Strand 2	B	412	414	anti-parallel

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There are 4 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	441	446	first strand
Strand 2	B	449	454	anti-parallel
Strand 3	B	458	463	anti-parallel
Strand 4	B	468	472	anti-parallel

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There are 4 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	485	490	first strand
Strand 2	B	493	498	anti-parallel
Strand 3	B	508	512	anti-parallel
Strand 4	B	517	520	anti-parallel

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There are 9 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	223	228	first strand
Strand 2	C	193	200	parallel
Strand 3	C	170	174	parallel
Strand 4	C	256	260	parallel
Strand 5	C	295	298	parallel
Strand 6	C	131	134	parallel
Strand 7	C	11	14	parallel
Strand 8	C	52	56	parallel
Strand 9	D	30	34	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: 8VRT

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