Analysis of interatomic Contacts of Structural Units in PDB entry:
3VD1

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 3VD1 entry

There are 16 chains in PDB entry 3VD1 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	HIS 111	GLN 312
B	PHE 114	GLN 312
C	HIS 112	GLN 312
D	PHE 114	GLN 312
I	PHE 114	GLN 312
J	PHE 114	GLN 312
K	HIS 111	GLN 312
L	HIS 111	GLN 312
E	C 398	G 409
F	C 410	G 421
G	C 500	G 511
H	C 512	G 523
M	C 600	G 611
N	C 612	G 623
O	C 700	G 711
P	C 712	G 723

There are 22 helices in PDB entry 3VD1. 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	200	Right-handed alpha
Helix 3	3	A	297	310	Right-handed alpha
Helix 4	4	B	183	188	Right-handed alpha
Helix 5	5	B	194	200	Right-handed alpha
Helix 6	6	B	297	312	Right-handed alpha
Helix 7	7	C	194	199	Right-handed alpha
Helix 8	8	C	297	312	Right-handed alpha
Helix 9	9	D	185	189	Right-handed 310
Helix 10	10	D	194	199	Right-handed alpha
Helix 11	11	D	297	312	Right-handed alpha
Helix 12	12	I	194	199	Right-handed alpha
Helix 13	13	I	297	311	Right-handed alpha
Helix 14	14	J	122	126	Right-handed 310
Helix 15	15	J	183	188	Right-handed alpha
Helix 16	16	J	194	200	Right-handed alpha
Helix 17	17	J	297	312	Right-handed alpha
Helix 18	18	K	194	199	Right-handed alpha
Helix 19	19	K	297	311	Right-handed alpha
Helix 20	20	L	183	187	Right-handed 310
Helix 21	21	L	194	200	Right-handed alpha
Helix 22	22	L	299	311	Right-handed alpha

There are 17 sheets in PDB entry 3VD1. 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,

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	128	130	first strand
Strand 2	A	159	164	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	143	first strand
Strand 2	A	150	153	anti-parallel
Strand 3	A	291	294	parallel
Strand 4	A	271	278	anti-parallel
Strand 5	A	174	181	anti-parallel
Strand 6	A	233	239	anti-parallel
Strand 7	A	224	228	anti-parallel

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There are 5 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	142	143	first strand
Strand 2	A	150	153	anti-parallel
Strand 3	A	291	294	parallel
Strand 4	A	271	278	anti-parallel
Strand 5	A	286	288	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	B	127	131	first strand
Strand 2	B	159	165	anti-parallel
Strand 3	B	250	256	anti-parallel
Strand 4	B	215	217	anti-parallel

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There are 7 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	284	294	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 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 7 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	154	anti-parallel
Strand 3	C	284	295	parallel
Strand 4	C	271	278	anti-parallel
Strand 5	C	174	181	anti-parallel
Strand 6	C	234	239	anti-parallel
Strand 7	C	224	227	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	217	anti-parallel

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There are 7 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	142	145	first strand
Strand 2	D	150	153	anti-parallel
Strand 3	D	288	294	parallel
Strand 4	D	271	279	anti-parallel
Strand 5	D	173	181	anti-parallel
Strand 6	D	234	239	anti-parallel
Strand 7	D	224	227	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	128	131	first strand
Strand 2	I	158	164	anti-parallel
Strand 3	I	250	256	anti-parallel
Strand 4	I	215	217	anti-parallel

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There are 7 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	142	145	first strand
Strand 2	I	150	153	anti-parallel
Strand 3	I	284	294	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	224	227	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	128	131	first strand
Strand 2	J	159	164	anti-parallel
Strand 3	J	252	256	anti-parallel
Strand 4	J	215	217	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	J	142	145	first strand
Strand 2	J	150	153	anti-parallel
Strand 3	J	284	292	parallel
Strand 4	J	271	279	anti-parallel
Strand 5	J	173	181	anti-parallel
Strand 6	J	236	238	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	K	142	145	first strand
Strand 2	K	150	154	anti-parallel
Strand 3	K	288	295	parallel
Strand 4	K	271	278	anti-parallel
Strand 5	K	174	181	anti-parallel
Strand 6	K	234	239	anti-parallel
Strand 7	K	225	227	anti-parallel

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There are 3 strands in O sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	159	163	first strand
Strand 2	K	250	256	anti-parallel
Strand 3	K	215	217	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	128	130	first strand
Strand 2	L	159	164	anti-parallel
Strand 3	L	250	256	anti-parallel
Strand 4	L	215	217	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	L	142	144	first strand
Strand 2	L	151	154	anti-parallel
Strand 3	L	284	295	parallel
Strand 4	L	271	278	anti-parallel
Strand 5	L	174	181	anti-parallel
Strand 6	L	234	239	anti-parallel
Strand 7	L	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: 3VD1

Analysis of interatomic Contacts of Structural Units in PDB entry:
3VD1