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

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 3NDV entry

There are 4 chains in PDB entry 3NDV (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 1	PRO 371
B	GLY 1	PRO 371
C	GLY 1	PRO 371
D	GLY 1	PRO 371

There are 44 helices in PDB entry 3NDV. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	3	8	Right-handed 310
Helix 2	2	A	20	24	Right-handed 310
Helix 3	3	A	81	89	Right-handed alpha
Helix 4	4	A	102	115	Right-handed alpha
Helix 5	5	A	122	127	Right-handed 310
Helix 6	6	A	148	159	Right-handed alpha
Helix 7	7	A	169	173	Right-handed 310
Helix 8	8	A	262	272	Right-handed alpha
Helix 9	9	A	272	280	Right-handed alpha
Helix 10	10	A	317	343	Right-handed alpha
Helix 11	11	A	358	370	Right-handed alpha
Helix 12	12	B	3	8	Right-handed 310
Helix 13	13	B	20	24	Right-handed 310
Helix 14	14	B	81	89	Right-handed alpha
Helix 15	15	B	102	115	Right-handed alpha
Helix 16	16	B	119	127	Right-handed 310
Helix 17	17	B	148	159	Right-handed alpha
Helix 18	18	B	169	173	Right-handed 310
Helix 19	19	B	262	272	Right-handed alpha
Helix 20	20	B	272	280	Right-handed alpha
Helix 21	21	B	317	343	Right-handed alpha
Helix 22	22	B	358	370	Right-handed alpha
Helix 23	23	C	3	8	Right-handed 310
Helix 24	24	C	20	24	Right-handed 310
Helix 25	25	C	81	89	Right-handed alpha
Helix 26	26	C	102	115	Right-handed alpha
Helix 27	27	C	119	127	Right-handed 310
Helix 28	28	C	148	159	Right-handed alpha
Helix 29	29	C	169	173	Right-handed 310
Helix 30	30	C	262	272	Right-handed alpha
Helix 31	31	C	272	280	Right-handed alpha
Helix 32	32	C	317	343	Right-handed alpha
Helix 33	33	C	358	370	Right-handed alpha
Helix 34	34	D	3	8	Right-handed 310
Helix 35	35	D	20	24	Right-handed 310
Helix 36	36	D	81	89	Right-handed alpha
Helix 37	37	D	102	115	Right-handed alpha
Helix 38	38	D	119	127	Right-handed 310
Helix 39	39	D	148	159	Right-handed alpha
Helix 40	40	D	169	173	Right-handed 310
Helix 41	41	D	262	272	Right-handed alpha
Helix 42	42	D	272	280	Right-handed alpha
Helix 43	43	D	317	343	Right-handed alpha
Helix 44	44	D	358	370	Right-handed alpha

There are 20 sheets in PDB entry 3NDV. 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 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	28	36	first strand
Strand 2	A	48	56	anti-parallel
Strand 3	A	95	99	anti-parallel
Strand 4	A	130	134	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	A	90	92	first strand
Strand 2	A	65	74	anti-parallel
Strand 3	A	290	301	anti-parallel
Strand 4	A	251	257	parallel
Strand 5	A	196	206	anti-parallel
Strand 6	A	183	193	anti-parallel

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There are 2 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	176	177	first strand
Strand 2	A	180	181	anti-parallel

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There are 2 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	215	216	first strand
Strand 2	A	219	220	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	235	236	first strand
Strand 2	A	231	232	anti-parallel
Strand 3	A	352	354	anti-parallel
Strand 4	A	346	347	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	B	28	36	first strand
Strand 2	B	48	56	anti-parallel
Strand 3	B	95	99	anti-parallel
Strand 4	B	130	134	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	B	90	92	first strand
Strand 2	B	65	74	anti-parallel
Strand 3	B	290	301	anti-parallel
Strand 4	B	251	257	parallel
Strand 5	B	196	206	anti-parallel
Strand 6	B	183	193	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	176	177	first strand
Strand 2	B	180	181	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	215	216	first strand
Strand 2	B	219	220	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	B	235	236	first strand
Strand 2	B	231	232	anti-parallel
Strand 3	B	352	354	anti-parallel
Strand 4	B	346	347	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	C	28	36	first strand
Strand 2	C	48	56	anti-parallel
Strand 3	C	95	99	anti-parallel
Strand 4	C	130	134	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	C	90	92	first strand
Strand 2	C	65	74	anti-parallel
Strand 3	C	290	301	anti-parallel
Strand 4	C	251	257	parallel
Strand 5	C	196	206	anti-parallel
Strand 6	C	183	193	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	176	177	first strand
Strand 2	C	180	181	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	215	216	first strand
Strand 2	C	219	220	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	235	236	first strand
Strand 2	C	231	232	anti-parallel
Strand 3	C	352	354	anti-parallel
Strand 4	C	346	347	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	D	28	36	first strand
Strand 2	D	48	56	anti-parallel
Strand 3	D	95	99	anti-parallel
Strand 4	D	130	134	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	90	92	first strand
Strand 2	D	65	74	anti-parallel
Strand 3	D	290	301	anti-parallel
Strand 4	D	251	257	parallel
Strand 5	D	196	206	anti-parallel
Strand 6	D	183	193	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	176	177	first strand
Strand 2	D	180	181	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	215	216	first strand
Strand 2	D	219	220	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	235	236	first strand
Strand 2	D	231	232	anti-parallel
Strand 3	D	352	354	anti-parallel
Strand 4	D	346	347	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: 3NDV

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