Analysis of interatomic Contacts of Structural Units in PDB entry:
3VD2

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 3VD2 entry

There are 12 chains in PDB entry 3VD2 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	HIS 110	GLN 312
B	HIS 112	GLU 311
C	HIS 110	GLN 312
D	HIS 112	ARG 310
I	HIS 111	GLN 312
J	HIS 111	GLN 312
E	A 402	T 415
F	A 500	T 513
G	A 602	T 615
H	A 700	T 713
L	T 801	T 813
K	A 902	A 914

There are 18 helices in PDB entry 3VD2. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	183	188	Right-handed alpha
Helix 2	2	A	194	199	Right-handed alpha
Helix 3	3	A	297	311	Right-handed alpha
Helix 4	4	B	146	148	Right-handed 310
Helix 5	5	B	194	199	Right-handed alpha
Helix 6	6	B	297	300	Right-handed 310
Helix 7	7	B	301	307	Right-handed alpha
Helix 8	8	C	183	188	Right-handed alpha
Helix 9	9	C	194	199	Right-handed alpha
Helix 10	10	C	297	310	Right-handed alpha
Helix 11	11	D	194	200	Right-handed alpha
Helix 12	12	D	299	309	Right-handed alpha
Helix 13	13	I	194	200	Right-handed alpha
Helix 14	14	I	200	205	Right-handed alpha
Helix 15	15	I	297	312	Right-handed alpha
Helix 16	16	J	183	188	Right-handed alpha
Helix 17	17	J	194	199	Right-handed alpha
Helix 18	18	J	297	312	Right-handed alpha

There are 14 sheets in PDB entry 3VD2. 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,

There are 4 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	127	130	first strand
Strand 2	A	159	165	anti-parallel
Strand 3	A	250	256	anti-parallel
Strand 4	A	215	217	anti-parallel

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There are 7 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	142	145	first strand
Strand 2	A	150	153	anti-parallel
Strand 3	A	284	292	parallel
Strand 4	A	271	278	anti-parallel
Strand 5	A	174	181	anti-parallel
Strand 6	A	234	239	anti-parallel
Strand 7	A	224	227	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	129	130	first strand
Strand 2	B	158	163	anti-parallel
Strand 3	B	252	256	anti-parallel
Strand 4	B	215	216	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	142	145	first strand
Strand 2	B	150	153	anti-parallel
Strand 3	B	291	292	parallel
Strand 4	B	271	278	anti-parallel
Strand 5	B	174	181	anti-parallel
Strand 6	B	234	239	anti-parallel
Strand 7	B	224	227	anti-parallel

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There are 5 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	142	145	first strand
Strand 2	B	150	153	anti-parallel
Strand 3	B	291	292	parallel
Strand 4	B	271	278	anti-parallel
Strand 5	B	284	288	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	128	130	first strand
Strand 2	C	159	164	anti-parallel
Strand 3	C	250	256	anti-parallel
Strand 4	C	215	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	142	145	first strand
Strand 2	C	150	153	anti-parallel
Strand 3	C	284	294	parallel
Strand 4	C	271	278	anti-parallel
Strand 5	C	174	181	anti-parallel
Strand 6	C	236	239	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	128	130	first strand
Strand 2	D	159	164	anti-parallel
Strand 3	D	250	256	anti-parallel
Strand 4	D	215	216	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	144	145	first strand
Strand 2	D	150	151	anti-parallel
Strand 3	D	284	292	parallel
Strand 4	D	271	278	anti-parallel
Strand 5	D	174	181	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	224	226	first strand
Strand 2	D	235	237	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	128	130	first strand
Strand 2	I	158	164	anti-parallel
Strand 3	I	252	256	anti-parallel
Strand 4	I	215	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	144	145	first strand
Strand 2	I	150	151	anti-parallel
Strand 3	I	284	292	parallel
Strand 4	I	271	278	anti-parallel
Strand 5	I	174	181	anti-parallel
Strand 6	I	234	239	anti-parallel
Strand 7	I	226	227	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	128	130	first strand
Strand 2	J	159	164	anti-parallel
Strand 3	J	250	256	anti-parallel
Strand 4	J	215	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	142	143	first strand
Strand 2	J	150	153	anti-parallel
Strand 3	J	284	294	parallel
Strand 4	J	271	278	anti-parallel
Strand 5	J	174	181	anti-parallel
Strand 6	J	234	239	anti-parallel
Strand 7	J	224	227	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: 3VD2

Analysis of interatomic Contacts of Structural Units in PDB entry:
3VD2