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

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 8VSD entry

There are 5 chains in PDB entry 8VSD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
I	CYS 26	ASP 591
A	PHE 1	LEU 593
B	ILE 72	CYS 425
E	THR 3	SER 361
F	LEU 1	SER 361

There are 44 helices in PDB entry 8VSD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	I	65	71	Right-handed alpha
Helix 2	AA2	I	92	96	Right-handed 310
Helix 3	AA3	I	108	112	Right-handed 310
Helix 4	AA4	I	139	145	Right-handed alpha
Helix 5	AA5	I	333	338	Right-handed alpha
Helix 6	AA6	I	509	513	Right-handed 310
Helix 7	AA7	I	579	587	Right-handed alpha
Helix 8	AA8	A	175	180	Right-handed alpha
Helix 9	AA9	A	187	192	Right-handed alpha
Helix 10	AB1	A	214	218	Right-handed 310
Helix 11	AB2	A	245	250	Right-handed alpha
Helix 12	AB3	A	366	370	Right-handed 310
Helix 13	AB4	A	427	429	Right-handed 310
Helix 14	AB5	A	513	517	Right-handed 310
Helix 15	AB6	B	117	122	Right-handed alpha
Helix 16	AB7	B	123	125	Right-handed 310
Helix 17	AB8	B	128	135	Right-handed alpha
Helix 18	AB9	B	169	173	Right-handed 310
Helix 19	AC1	B	191	201	Right-handed alpha
Helix 20	AC2	B	213	224	Right-handed alpha
Helix 21	AC3	B	224	229	Right-handed alpha
Helix 22	AC4	B	249	256	Right-handed 310
Helix 23	AC5	B	272	277	Right-handed 310
Helix 24	AC6	B	282	293	Right-handed alpha
Helix 25	AC7	B	305	312	Right-handed alpha
Helix 26	AC8	B	330	344	Right-handed alpha
Helix 27	AC9	E	8	28	Right-handed alpha
Helix 28	AD1	E	45	57	Right-handed alpha
Helix 29	AD2	E	90	95	Right-handed alpha
Helix 30	AD3	E	107	115	Right-handed alpha
Helix 31	AD4	E	117	119	Right-handed 310
Helix 32	AD5	E	171	182	Right-handed alpha
Helix 33	AD6	E	215	219	Right-handed 310
Helix 34	AD7	E	220	224	Right-handed 310
Helix 35	AD8	E	235	239	Right-handed 310
Helix 36	AD9	E	310	315	Right-handed 310
Helix 37	AE1	E	318	323	Right-handed alpha
Helix 38	AE2	F	9	28	Right-handed alpha
Helix 39	AE3	F	45	57	Right-handed alpha
Helix 40	AE4	F	108	115	Right-handed alpha
Helix 41	AE5	F	117	119	Right-handed 310
Helix 42	AE6	F	171	182	Right-handed alpha
Helix 43	AE7	F	235	239	Right-handed 310
Helix 44	AE8	F	310	318	Right-handed alpha

There are 31 sheets in PDB entry 8VSD. 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, AC8, AC9, AD1, AD2, AD3, AD4,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	27	29	first strand
Strand 2	I	32	34	anti-parallel
Strand 3	I	53	55	parallel
Strand 4	I	77	79	parallel

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There are 7 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	102	103	first strand
Strand 2	I	129	130	parallel
Strand 3	I	154	155	parallel
Strand 4	I	177	179	parallel
Strand 5	I	201	203	parallel
Strand 6	I	222	224	parallel
Strand 7	I	247	249	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	I	163	164	first strand
Strand 2	I	187	188	parallel

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There are 8 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	270	271	first strand
Strand 2	I	319	321	parallel
Strand 3	I	343	345	parallel
Strand 4	I	367	369	parallel
Strand 5	I	390	392	parallel
Strand 6	I	414	416	parallel
Strand 7	I	447	449	parallel
Strand 8	I	470	472	parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	353	354	first strand
Strand 2	I	377	378	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	I	540	542	first strand
Strand 2	I	565	567	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	3	12	first strand
Strand 2	A	431	437	anti-parallel
Strand 3	A	422	426	anti-parallel
Strand 4	A	409	410	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	23	26	first strand
Strand 2	A	35	40	anti-parallel
Strand 3	A	55	59	anti-parallel
Strand 4	A	67	69	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	79	81	first strand
Strand 2	A	84	85	anti-parallel

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There are 3 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	87	88	first strand
Strand 2	A	113	114	anti-parallel
Strand 3	A	123	124	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	98	100	first strand
Strand 2	A	104	109	anti-parallel
Strand 3	A	127	132	anti-parallel
Strand 4	A	135	139	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	160	164	first strand
Strand 2	A	168	173	anti-parallel
Strand 3	A	182	186	anti-parallel
Strand 4	A	208	209	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	225	229	first strand
Strand 2	A	238	243	anti-parallel
Strand 3	A	252	256	anti-parallel
Strand 4	A	263	268	anti-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	A	280	283	first strand
Strand 2	A	292	297	anti-parallel
Strand 3	A	314	320	anti-parallel
Strand 4	A	326	329	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	A	301	303	first strand
Strand 2	A	309	311	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	A	344	348	first strand
Strand 2	A	357	362	anti-parallel
Strand 3	A	372	378	anti-parallel
Strand 4	A	383	392	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	440	441	first strand
Strand 2	A	577	578	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	A	473	474	first strand
Strand 2	A	539	542	anti-parallel
Strand 3	A	511	512	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	490	491	first strand
Strand 2	A	527	528	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	76	77	first strand
Strand 2	B	94	97	anti-parallel
Strand 3	B	386	393	anti-parallel
Strand 4	B	90	91	anti-parallel

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There are 5 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	76	77	first strand
Strand 2	B	94	97	anti-parallel
Strand 3	B	386	393	anti-parallel
Strand 4	B	359	364	anti-parallel
Strand 5	B	370	371	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	80	85	first strand
Strand 2	B	417	423	parallel
Strand 3	B	406	410	anti-parallel
Strand 4	B	348	352	anti-parallel

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There are 6 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	183	189	first strand
Strand 2	B	142	149	anti-parallel
Strand 3	B	105	112	parallel
Strand 4	B	235	242	parallel
Strand 5	B	296	301	parallel
Strand 6	B	319	323	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	B	345	346	first strand
Strand 2	B	377	378	anti-parallel

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There are 7 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	165	170	first strand
Strand 2	E	121	130	anti-parallel
Strand 3	E	228	233	anti-parallel
Strand 4	E	77	83	anti-parallel
Strand 5	F	344	360	anti-parallel
Strand 6	F	327	341	anti-parallel
Strand 7	F	282	284	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	101	105	first strand
Strand 2	E	187	192	anti-parallel
Strand 3	E	137	143	anti-parallel
Strand 4	E	151	158	anti-parallel

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There are 2 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	265	268	first strand
Strand 2	E	291	294	anti-parallel

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There are 7 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	282	284	first strand
Strand 2	E	327	341	anti-parallel
Strand 3	E	344	360	anti-parallel
Strand 4	F	77	83	anti-parallel
Strand 5	F	228	233	anti-parallel
Strand 6	F	121	130	anti-parallel
Strand 7	F	165	170	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	101	107	first strand
Strand 2	F	185	192	anti-parallel
Strand 3	F	138	144	anti-parallel
Strand 4	F	150	157	anti-parallel

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There are 2 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	265	267	first strand
Strand 2	F	292	294	anti-parallel

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There are 2 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	270	272	first strand
Strand 2	F	287	289	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: 8VSD

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