Analysis of interatomic Contacts of Structural Units in PDB entry:
3VZD

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 3VZD entry

There are 6 chains in PDB entry 3VZD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 6	GLY 364
B	GLY 9	GLY 364
C	MET 6	GLY 364
D	MET 6	GLY 364
E	GLY 9	GLY 364
F	MET 6	GLY 364

There are 83 helices in PDB entry 3VZD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	29	38	Right-handed alpha
Helix 2	2	A	38	45	Right-handed alpha
Helix 3	3	A	58	67	Right-handed alpha
Helix 4	4	A	68	72	Right-handed 310
Helix 5	5	A	80	93	Right-handed alpha
Helix 6	6	A	96	101	Right-handed alpha
Helix 7	7	A	114	124	Right-handed alpha
Helix 8	8	A	130	145	Right-handed alpha
Helix 9	9	A	173	181	Right-handed alpha
Helix 10	10	A	182	188	Right-handed 310
Helix 11	11	A	189	202	Right-handed alpha
Helix 12	12	A	216	218	Right-handed 310
Helix 13	13	A	295	307	Right-handed alpha
Helix 14	14	A	308	309	Right-handed 310
Helix 15	15	A	310	315	Right-handed 310
Helix 16	16	B	29	38	Right-handed alpha
Helix 17	17	B	38	46	Right-handed alpha
Helix 18	18	B	58	67	Right-handed alpha
Helix 19	19	B	68	72	Right-handed 310
Helix 20	20	B	80	93	Right-handed alpha
Helix 21	21	B	96	101	Right-handed alpha
Helix 22	22	B	114	124	Right-handed alpha
Helix 23	23	B	130	145	Right-handed alpha
Helix 24	24	B	173	182	Right-handed alpha
Helix 25	25	B	183	189	Right-handed 310
Helix 26	26	B	190	202	Right-handed alpha
Helix 27	27	B	295	307	Right-handed alpha
Helix 28	28	B	308	309	Right-handed 310
Helix 29	29	B	310	314	Right-handed 310
Helix 30	30	C	29	38	Right-handed alpha
Helix 31	31	C	38	45	Right-handed alpha
Helix 32	32	C	58	67	Right-handed alpha
Helix 33	33	C	68	72	Right-handed 310
Helix 34	34	C	80	93	Right-handed alpha
Helix 35	35	C	96	101	Right-handed alpha
Helix 36	36	C	114	124	Right-handed alpha
Helix 37	37	C	130	145	Right-handed alpha
Helix 38	38	C	173	181	Right-handed alpha
Helix 39	39	C	182	188	Right-handed 310
Helix 40	40	C	189	202	Right-handed alpha
Helix 41	41	C	295	306	Right-handed alpha
Helix 42	42	D	29	38	Right-handed alpha
Helix 43	43	D	38	45	Right-handed alpha
Helix 44	44	D	58	67	Right-handed alpha
Helix 45	45	D	68	72	Right-handed 310
Helix 46	46	D	80	93	Right-handed alpha
Helix 47	47	D	96	101	Right-handed alpha
Helix 48	48	D	114	124	Right-handed alpha
Helix 49	49	D	130	145	Right-handed alpha
Helix 50	50	D	173	181	Right-handed alpha
Helix 51	51	D	182	188	Right-handed 310
Helix 52	52	D	189	202	Right-handed alpha
Helix 53	53	D	216	218	Right-handed 310
Helix 54	54	D	295	307	Right-handed alpha
Helix 55	55	D	311	315	Right-handed 310
Helix 56	56	E	29	38	Right-handed alpha
Helix 57	57	E	38	46	Right-handed alpha
Helix 58	58	E	58	66	Right-handed alpha
Helix 59	59	E	68	72	Right-handed 310
Helix 60	60	E	80	93	Right-handed alpha
Helix 61	61	E	96	101	Right-handed alpha
Helix 62	62	E	114	124	Right-handed alpha
Helix 63	63	E	130	145	Right-handed alpha
Helix 64	64	E	173	181	Right-handed alpha
Helix 65	65	E	182	188	Right-handed 310
Helix 66	66	E	189	202	Right-handed alpha
Helix 67	67	E	295	306	Right-handed alpha
Helix 68	68	E	307	309	Right-handed 310
Helix 69	69	E	310	314	Right-handed 310
Helix 70	70	F	29	38	Right-handed alpha
Helix 71	71	F	38	46	Right-handed alpha
Helix 72	72	F	58	67	Right-handed alpha
Helix 73	73	F	68	72	Right-handed 310
Helix 74	74	F	80	93	Right-handed alpha
Helix 75	75	F	96	101	Right-handed alpha
Helix 76	76	F	114	124	Right-handed alpha
Helix 77	77	F	130	145	Right-handed alpha
Helix 78	78	F	173	181	Right-handed alpha
Helix 79	79	F	182	188	Right-handed 310
Helix 80	80	F	189	202	Right-handed alpha
Helix 81	81	F	295	306	Right-handed alpha
Helix 82	82	F	307	309	Right-handed 310
Helix 83	83	F	311	315	Right-handed 310

There are 20 sheets in PDB entry 3VZD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	162	165	first strand
Strand 2	A	146	157	anti-parallel
Strand 3	A	350	362	anti-parallel
Strand 4	A	319	331	anti-parallel
Strand 5	A	206	214	anti-parallel
Strand 6	A	250	251	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	9	10	first strand
Strand 2	A	146	157	anti-parallel
Strand 3	A	350	362	anti-parallel
Strand 4	A	319	331	anti-parallel
Strand 5	A	285	291	anti-parallel
Strand 6	A	256	263	anti-parallel
Strand 7	A	168	172	anti-parallel
Strand 8	A	336	340	anti-parallel
Strand 9	A	343	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	250	251	first strand
Strand 2	A	206	214	anti-parallel
Strand 3	A	256	263	anti-parallel
Strand 4	A	168	172	anti-parallel
Strand 5	A	336	340	anti-parallel
Strand 6	A	343	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	47	53	first strand
Strand 2	A	15	21	parallel
Strand 3	A	74	79	parallel
Strand 4	A	105	109	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	105	109	first strand
Strand 2	B	74	79	parallel
Strand 3	B	15	21	parallel
Strand 4	B	47	53	parallel
Strand 5	C	47	53	anti-parallel
Strand 6	C	15	21	parallel
Strand 7	C	74	79	parallel
Strand 8	C	105	109	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	162	165	first strand
Strand 2	B	147	157	anti-parallel
Strand 3	B	350	362	anti-parallel
Strand 4	B	319	331	anti-parallel
Strand 5	B	208	214	anti-parallel
Strand 6	B	250	251	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	162	165	first strand
Strand 2	B	147	157	anti-parallel
Strand 3	B	350	362	anti-parallel
Strand 4	B	319	331	anti-parallel
Strand 5	B	285	291	anti-parallel
Strand 6	B	257	263	anti-parallel
Strand 7	B	168	172	anti-parallel
Strand 8	B	336	340	anti-parallel
Strand 9	B	343	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	162	165	first strand
Strand 2	C	147	157	anti-parallel
Strand 3	C	350	362	anti-parallel
Strand 4	C	319	331	anti-parallel
Strand 5	C	206	214	anti-parallel
Strand 6	C	250	251	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	162	165	first strand
Strand 2	C	147	157	anti-parallel
Strand 3	C	350	362	anti-parallel
Strand 4	C	319	331	anti-parallel
Strand 5	C	285	291	anti-parallel
Strand 6	C	256	263	anti-parallel
Strand 7	C	168	172	anti-parallel
Strand 8	C	336	340	anti-parallel
Strand 9	C	343	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	250	251	first strand
Strand 2	C	206	214	anti-parallel
Strand 3	C	256	263	anti-parallel
Strand 4	C	168	172	anti-parallel
Strand 5	C	336	340	anti-parallel
Strand 6	C	343	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	9	10	first strand
Strand 2	D	146	157	anti-parallel
Strand 3	D	350	362	anti-parallel
Strand 4	D	319	330	anti-parallel
Strand 5	D	285	291	anti-parallel
Strand 6	D	256	263	anti-parallel
Strand 7	D	168	172	anti-parallel
Strand 8	D	337	340	anti-parallel
Strand 9	D	343	346	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	162	165	first strand
Strand 2	D	146	157	anti-parallel
Strand 3	D	350	362	anti-parallel
Strand 4	D	319	330	anti-parallel
Strand 5	D	209	214	anti-parallel
Strand 6	D	250	251	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	250	251	first strand
Strand 2	D	209	214	anti-parallel
Strand 3	D	319	330	anti-parallel
Strand 4	D	285	291	anti-parallel
Strand 5	D	256	263	anti-parallel
Strand 6	D	206	207	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	47	53	first strand
Strand 2	D	15	21	parallel
Strand 3	D	74	79	parallel
Strand 4	D	105	109	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	105	109	first strand
Strand 2	E	74	79	parallel
Strand 3	E	15	21	parallel
Strand 4	E	47	53	parallel
Strand 5	F	47	53	anti-parallel
Strand 6	F	15	21	parallel
Strand 7	F	74	79	parallel
Strand 8	F	105	109	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	162	165	first strand
Strand 2	E	147	157	anti-parallel
Strand 3	E	350	362	anti-parallel
Strand 4	E	319	330	anti-parallel
Strand 5	E	285	291	anti-parallel
Strand 6	E	256	263	anti-parallel
Strand 7	E	209	214	first strand
Strand 8	E	250	251	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	206	207	first strand
Strand 2	E	256	263	anti-parallel
Strand 3	E	285	291	anti-parallel
Strand 4	E	319	330	anti-parallel
Strand 5	E	168	172	first strand
Strand 6	E	336	340	anti-parallel
Strand 7	E	343	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	343	347	first strand
Strand 2	F	336	340	anti-parallel
Strand 3	F	168	172	anti-parallel
Strand 4	F	256	263	anti-parallel
Strand 5	F	206	214	anti-parallel
Strand 6	F	250	251	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	343	347	first strand
Strand 2	F	336	340	anti-parallel
Strand 3	F	168	172	anti-parallel
Strand 4	F	256	263	anti-parallel
Strand 5	F	285	291	anti-parallel
Strand 6	F	319	331	anti-parallel
Strand 7	F	350	362	anti-parallel
Strand 8	F	147	157	anti-parallel
Strand 9	F	161	165	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	250	251	first strand
Strand 2	F	206	214	anti-parallel
Strand 3	F	319	331	anti-parallel
Strand 4	F	350	362	anti-parallel
Strand 5	F	147	157	anti-parallel
Strand 6	F	161	165	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: 3VZD

Analysis of interatomic Contacts of Structural Units in PDB entry:
3VZD