Analysis of interatomic Contacts of Structural Units in PDB entry:
4NKM

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 4NKM entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 1	SER 254
B	ASP 1	SER 254
C	ASP 1	SER 254
D	ASP 1	SER 254

There are 9 helices in PDB entry 4NKM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	196	199	Right-handed 310
Helix 2	2	A	221	225	Right-handed 310
Helix 3	3	B	195	199	Right-handed 310
Helix 4	4	B	221	225	Right-handed 310
Helix 5	5	B	235	239	Right-handed 310
Helix 6	6	C	195	199	Right-handed 310
Helix 7	7	C	235	239	Right-handed 310
Helix 8	8	D	195	199	Right-handed 310
Helix 9	9	D	221	225	Right-handed 310

There are 22 sheets in PDB entry 4NKM. 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, U, V,

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	136	139	first strand
Strand 2	A	151	158	anti-parallel
Strand 3	A	212	217	anti-parallel
Strand 4	A	203	207	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	A	143	145	first strand
Strand 2	A	249	253	parallel
Strand 3	A	226	233	anti-parallel
Strand 4	A	168	175	anti-parallel
Strand 5	A	179	186	anti-parallel
Strand 6	A	192	194	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	A	143	145	first strand
Strand 2	A	249	253	parallel
Strand 3	A	226	233	anti-parallel
Strand 4	A	242	245	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	A	10	13	first strand
Strand 2	A	107	111	parallel
Strand 3	A	89	95	anti-parallel
Strand 4	A	38	43	anti-parallel
Strand 5	A	50	53	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	10	13	first strand
Strand 2	A	107	111	parallel
Strand 3	A	89	95	anti-parallel
Strand 4	A	102	103	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	A	19	24	first strand
Strand 2	A	75	80	anti-parallel
Strand 3	A	68	69	anti-parallel

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There are 4 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	136	139	first strand
Strand 2	B	151	158	anti-parallel
Strand 3	B	212	217	anti-parallel
Strand 4	B	203	207	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	B	143	145	first strand
Strand 2	B	249	253	parallel
Strand 3	B	226	233	anti-parallel
Strand 4	B	168	175	anti-parallel
Strand 5	B	179	186	anti-parallel
Strand 6	B	192	193	anti-parallel

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There are 4 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	143	145	first strand
Strand 2	B	249	253	parallel
Strand 3	B	226	233	anti-parallel
Strand 4	B	242	245	anti-parallel

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There are 5 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	10	13	first strand
Strand 2	B	107	111	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	38	43	anti-parallel
Strand 5	B	50	53	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	B	10	13	first strand
Strand 2	B	107	111	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	102	103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	19	24	first strand
Strand 2	B	75	80	anti-parallel
Strand 3	B	68	69	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	C	136	139	first strand
Strand 2	C	151	158	anti-parallel
Strand 3	C	212	217	anti-parallel
Strand 4	C	203	207	anti-parallel

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There are 6 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	143	145	first strand
Strand 2	C	249	253	parallel
Strand 3	C	226	233	anti-parallel
Strand 4	C	168	174	anti-parallel
Strand 5	C	180	186	anti-parallel
Strand 6	C	192	193	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	143	145	first strand
Strand 2	C	249	253	parallel
Strand 3	C	226	233	anti-parallel
Strand 4	C	242	245	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	10	13	first strand
Strand 2	C	107	111	parallel
Strand 3	C	89	95	anti-parallel
Strand 4	C	38	43	anti-parallel
Strand 5	C	50	53	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	C	19	24	first strand
Strand 2	C	75	80	anti-parallel
Strand 3	C	68	69	anti-parallel

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There are 4 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	136	139	first strand
Strand 2	D	151	158	anti-parallel
Strand 3	D	212	217	anti-parallel
Strand 4	D	203	207	anti-parallel

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There are 6 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	143	145	first strand
Strand 2	D	249	253	parallel
Strand 3	D	226	233	anti-parallel
Strand 4	D	168	175	anti-parallel
Strand 5	D	179	186	anti-parallel
Strand 6	D	192	193	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	143	145	first strand
Strand 2	D	249	253	parallel
Strand 3	D	226	233	anti-parallel
Strand 4	D	242	245	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	10	13	first strand
Strand 2	D	107	111	parallel
Strand 3	D	89	95	anti-parallel
Strand 4	D	38	43	anti-parallel
Strand 5	D	50	53	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	19	24	first strand
Strand 2	D	75	80	anti-parallel
Strand 3	D	68	69	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: 4NKM

Analysis of interatomic Contacts of Structural Units in PDB entry:
4NKM