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

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 3DKU entry

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

Chain ID	Initial residue	Terminal residue
A	MET 1	ILE 153
B	MET 1	PRO 147
C	MET 1	ILE 153
D	MET 1	PHE 148
E	MET 1	VAL 152
F	MET 1	THR 149
G	MET 1	VAL 152
H	MET 1	PRO 147

There are 32 helices in PDB entry 3DKU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	43	57	Right-handed alpha
Helix 2	2	A	108	115	Right-handed alpha
Helix 3	3	A	121	133	Right-handed alpha
Helix 4	4	A	137	142	Right-handed 310
Helix 5	5	B	43	57	Right-handed alpha
Helix 6	6	B	108	115	Right-handed alpha
Helix 7	7	B	121	132	Right-handed alpha
Helix 8	8	B	137	142	Right-handed 310
Helix 9	9	C	43	57	Right-handed alpha
Helix 10	10	C	108	115	Right-handed alpha
Helix 11	11	C	120	132	Right-handed alpha
Helix 12	12	C	137	142	Right-handed 310
Helix 13	13	D	43	57	Right-handed alpha
Helix 14	14	D	108	115	Right-handed alpha
Helix 15	15	D	120	132	Right-handed alpha
Helix 16	16	D	137	142	Right-handed 310
Helix 17	17	E	43	57	Right-handed alpha
Helix 18	18	E	108	114	Right-handed alpha
Helix 19	19	E	120	132	Right-handed alpha
Helix 20	20	E	137	142	Right-handed 310
Helix 21	21	F	43	57	Right-handed alpha
Helix 22	22	F	108	114	Right-handed alpha
Helix 23	23	F	121	132	Right-handed alpha
Helix 24	24	F	137	142	Right-handed 310
Helix 25	25	G	43	57	Right-handed alpha
Helix 26	26	G	108	114	Right-handed alpha
Helix 27	27	G	120	133	Right-handed alpha
Helix 28	28	G	137	142	Right-handed 310
Helix 29	29	H	43	57	Right-handed alpha
Helix 30	30	H	108	115	Right-handed alpha
Helix 31	31	H	120	133	Right-handed alpha
Helix 32	32	H	137	142	Right-handed 310

There are 17 sheets in PDB entry 3DKU. 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 5 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	29	32	first strand
Strand 2	A	17	24	anti-parallel
Strand 3	A	5	14	anti-parallel
Strand 4	A	78	87	parallel
Strand 5	A	64	72	anti-parallel

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There are 4 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	35	37	first strand
Strand 2	A	5	14	anti-parallel
Strand 3	A	17	24	anti-parallel
Strand 4	A	103	107	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	B	29	32	first strand
Strand 2	B	17	24	anti-parallel
Strand 3	B	5	14	anti-parallel
Strand 4	B	78	87	parallel
Strand 5	B	64	72	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	35	37	first strand
Strand 2	B	5	14	anti-parallel
Strand 3	B	17	24	anti-parallel
Strand 4	B	101	107	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	C	29	32	first strand
Strand 2	C	17	24	anti-parallel
Strand 3	C	5	14	anti-parallel
Strand 4	C	78	87	parallel
Strand 5	C	64	72	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	35	37	first strand
Strand 2	C	5	14	anti-parallel
Strand 3	C	17	24	anti-parallel
Strand 4	C	101	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	29	32	first strand
Strand 2	D	17	24	anti-parallel
Strand 3	D	5	14	anti-parallel
Strand 4	D	78	87	parallel
Strand 5	D	64	72	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	35	37	first strand
Strand 2	D	5	14	anti-parallel
Strand 3	D	17	24	anti-parallel
Strand 4	D	101	107	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	E	35	37	first strand
Strand 2	E	5	14	anti-parallel
Strand 3	E	78	87	parallel
Strand 4	E	64	72	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	E	35	37	first strand
Strand 2	E	5	14	anti-parallel
Strand 3	E	17	19	anti-parallel
Strand 4	E	106	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	28	32	first strand
Strand 2	E	21	25	anti-parallel
Strand 3	E	101	103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	29	32	first strand
Strand 2	F	17	24	anti-parallel
Strand 3	F	5	14	anti-parallel
Strand 4	F	78	87	parallel
Strand 5	F	64	72	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	F	35	37	first strand
Strand 2	F	5	14	anti-parallel
Strand 3	F	17	24	anti-parallel
Strand 4	F	103	107	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	28	32	first strand
Strand 2	G	17	25	anti-parallel
Strand 3	G	5	14	anti-parallel
Strand 4	G	78	87	parallel
Strand 5	G	64	72	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	G	35	37	first strand
Strand 2	G	5	14	anti-parallel
Strand 3	G	17	25	anti-parallel
Strand 4	G	101	107	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	H	29	32	first strand
Strand 2	H	17	24	anti-parallel
Strand 3	H	5	14	anti-parallel
Strand 4	H	78	87	parallel
Strand 5	H	64	72	anti-parallel

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There are 4 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	35	37	first strand
Strand 2	H	5	14	anti-parallel
Strand 3	H	17	24	anti-parallel
Strand 4	H	103	107	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: 3DKU

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