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

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 3VPJ entry

There are 8 chains in PDB entry 3VPJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 3	CYS 148
B	LEU 4	CYS 148
E	ASP 21	GLN 168
F	ASP 21	CYS 167
C	LEU 4	CYS 148
D	SER 3	CYS 148
G	ASP 21	GLN 168
H	CYS 22	GLN 168

There are 40 helices in PDB entry 3VPJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	5	16	Right-handed alpha
Helix 2	2	A	25	28	Right-handed 310
Helix 3	3	A	29	41	Right-handed alpha
Helix 4	4	A	49	61	Right-handed alpha
Helix 5	5	A	66	76	Right-handed alpha
Helix 6	6	A	100	104	Right-handed 310
Helix 7	7	A	115	119	Right-handed 310
Helix 8	8	A	126	130	Right-handed alpha
Helix 9	9	A	133	137	Right-handed 310
Helix 10	10	B	5	16	Right-handed alpha
Helix 11	11	B	25	28	Right-handed 310
Helix 12	12	B	29	41	Right-handed alpha
Helix 13	13	B	49	61	Right-handed alpha
Helix 14	14	B	66	76	Right-handed alpha
Helix 15	15	B	100	104	Right-handed 310
Helix 16	16	B	115	119	Right-handed 310
Helix 17	17	B	133	137	Right-handed 310
Helix 18	18	E	151	153	Right-handed 310
Helix 19	19	E	163	167	Right-handed 310
Helix 20	20	F	151	153	Right-handed 310
Helix 21	21	F	163	167	Right-handed 310
Helix 22	22	C	5	18	Right-handed alpha
Helix 23	23	C	25	28	Right-handed 310
Helix 24	24	C	29	41	Right-handed alpha
Helix 25	25	C	49	61	Right-handed alpha
Helix 26	26	C	66	76	Right-handed alpha
Helix 27	27	C	102	104	Right-handed 310
Helix 28	28	C	115	119	Right-handed 310
Helix 29	29	C	126	130	Right-handed alpha
Helix 30	30	D	5	16	Right-handed alpha
Helix 31	31	D	25	28	Right-handed 310
Helix 32	32	D	29	42	Right-handed alpha
Helix 33	33	D	49	60	Right-handed alpha
Helix 34	34	D	66	76	Right-handed alpha
Helix 35	35	D	100	104	Right-handed 310
Helix 36	36	D	115	119	Right-handed 310
Helix 37	37	D	127	129	Right-handed 310
Helix 38	38	D	133	137	Right-handed 310
Helix 39	39	G	151	153	Right-handed 310
Helix 40	40	G	163	168	Right-handed alpha

There are 20 sheets in PDB entry 3VPJ. 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	62	64	first strand
Strand 2	A	139	142	anti-parallel
Strand 3	A	80	84	anti-parallel
Strand 4	A	91	95	anti-parallel
Strand 5	A	107	110	anti-parallel
Strand 6	A	120	125	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	62	64	first strand
Strand 2	B	139	142	anti-parallel
Strand 3	B	80	84	anti-parallel
Strand 4	B	91	95	anti-parallel
Strand 5	B	107	110	anti-parallel
Strand 6	B	120	125	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	24	26	first strand
Strand 2	E	87	95	anti-parallel
Strand 3	E	62	63	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	24	26	first strand
Strand 2	E	87	95	anti-parallel
Strand 3	E	100	107	anti-parallel
Strand 4	E	110	117	anti-parallel
Strand 5	E	123	128	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	E	30	31	first strand
Strand 2	E	38	42	anti-parallel
Strand 3	E	46	51	anti-parallel
Strand 4	E	68	72	anti-parallel
Strand 5	E	78	81	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	133	137	first strand
Strand 2	E	140	147	anti-parallel
Strand 3	E	155	161	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	24	26	first strand
Strand 2	F	87	95	anti-parallel
Strand 3	F	62	63	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	24	26	first strand
Strand 2	F	87	95	anti-parallel
Strand 3	F	100	107	anti-parallel
Strand 4	F	110	117	anti-parallel
Strand 5	F	123	128	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	F	30	31	first strand
Strand 2	F	38	42	anti-parallel
Strand 3	F	46	51	anti-parallel
Strand 4	F	68	72	anti-parallel
Strand 5	F	77	81	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	133	136	first strand
Strand 2	F	141	147	anti-parallel
Strand 3	F	155	161	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	62	64	first strand
Strand 2	C	139	142	anti-parallel
Strand 3	C	80	84	anti-parallel
Strand 4	C	91	101	anti-parallel
Strand 5	C	105	110	anti-parallel
Strand 6	C	120	125	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	62	64	first strand
Strand 2	D	139	142	anti-parallel
Strand 3	D	80	84	anti-parallel
Strand 4	D	91	95	anti-parallel
Strand 5	D	107	110	anti-parallel
Strand 6	D	120	125	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	24	26	first strand
Strand 2	G	87	95	anti-parallel
Strand 3	G	62	63	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	24	26	first strand
Strand 2	G	87	95	anti-parallel
Strand 3	G	100	107	anti-parallel
Strand 4	G	110	117	anti-parallel
Strand 5	G	123	128	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	30	31	first strand
Strand 2	G	38	42	anti-parallel
Strand 3	G	46	51	anti-parallel
Strand 4	G	68	72	anti-parallel
Strand 5	G	78	81	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	133	137	first strand
Strand 2	G	140	147	anti-parallel
Strand 3	G	155	161	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	24	26	first strand
Strand 2	H	87	95	anti-parallel
Strand 3	H	62	63	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	24	26	first strand
Strand 2	H	87	95	anti-parallel
Strand 3	H	100	107	anti-parallel
Strand 4	H	110	117	anti-parallel
Strand 5	H	123	128	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	30	31	first strand
Strand 2	H	38	42	anti-parallel
Strand 3	H	46	51	anti-parallel
Strand 4	H	68	72	anti-parallel
Strand 5	H	77	81	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	133	136	first strand
Strand 2	H	141	144	anti-parallel
Strand 3	H	158	161	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: 3VPJ

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