Analysis of interatomic Contacts of Structural Units in PDB entry:
5DNC

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 5DNC entry

There are 4 chains in PDB entry 5DNC (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 8	PRO 361
B	GLU 8	THR 362
C	GLU 8	PRO 361
D	GLU 8	ALA 363

There are 52 helices in PDB entry 5DNC. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	19	22	Right-handed 310
Helix 2	AA2	A	34	41	Right-handed alpha
Helix 3	AA3	A	47	54	Right-handed alpha
Helix 4	AA4	A	84	88	Right-handed 310
Helix 5	AA5	A	89	103	Right-handed alpha
Helix 6	AA6	A	104	107	Right-handed 310
Helix 7	AA7	A	118	129	Right-handed alpha
Helix 8	AA8	A	152	167	Right-handed alpha
Helix 9	AA9	A	184	186	Right-handed 310
Helix 10	AB1	A	248	256	Right-handed alpha
Helix 11	AB2	A	276	289	Right-handed alpha
Helix 12	AB3	A	324	337	Right-handed alpha
Helix 13	AB4	A	342	351	Right-handed alpha
Helix 14	AB5	B	19	22	Right-handed 310
Helix 15	AB6	B	34	41	Right-handed alpha
Helix 16	AB7	B	47	54	Right-handed alpha
Helix 17	AB8	B	84	88	Right-handed 310
Helix 18	AB9	B	89	103	Right-handed alpha
Helix 19	AC1	B	104	107	Right-handed 310
Helix 20	AC2	B	118	129	Right-handed alpha
Helix 21	AC3	B	152	167	Right-handed alpha
Helix 22	AC4	B	184	186	Right-handed 310
Helix 23	AC5	B	248	256	Right-handed alpha
Helix 24	AC6	B	276	289	Right-handed alpha
Helix 25	AC7	B	324	337	Right-handed alpha
Helix 26	AC8	B	342	351	Right-handed alpha
Helix 27	AC9	C	19	22	Right-handed 310
Helix 28	AD1	C	34	41	Right-handed alpha
Helix 29	AD2	C	47	54	Right-handed alpha
Helix 30	AD3	C	84	88	Right-handed 310
Helix 31	AD4	C	89	103	Right-handed alpha
Helix 32	AD5	C	104	107	Right-handed 310
Helix 33	AD6	C	118	129	Right-handed alpha
Helix 34	AD7	C	152	167	Right-handed alpha
Helix 35	AD8	C	184	186	Right-handed 310
Helix 36	AD9	C	248	256	Right-handed alpha
Helix 37	AE1	C	276	289	Right-handed alpha
Helix 38	AE2	C	324	337	Right-handed alpha
Helix 39	AE3	C	342	351	Right-handed alpha
Helix 40	AE4	D	19	22	Right-handed 310
Helix 41	AE5	D	34	41	Right-handed alpha
Helix 42	AE6	D	47	54	Right-handed alpha
Helix 43	AE7	D	84	88	Right-handed 310
Helix 44	AE8	D	89	103	Right-handed alpha
Helix 45	AE9	D	104	107	Right-handed 310
Helix 46	AF1	D	118	129	Right-handed alpha
Helix 47	AF2	D	152	167	Right-handed alpha
Helix 48	AF3	D	184	186	Right-handed 310
Helix 49	AF4	D	248	256	Right-handed alpha
Helix 50	AF5	D	276	289	Right-handed alpha
Helix 51	AF6	D	324	338	Right-handed alpha
Helix 52	AF7	D	342	351	Right-handed alpha

There are 20 sheets in PDB entry 5DNC. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2,

There are 9 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	60	62	first strand
Strand 2	A	72	83	anti-parallel
Strand 3	A	9	17	parallel
Strand 4	A	109	113	parallel
Strand 5	A	137	140	parallel
Strand 6	A	172	176	parallel
Strand 7	A	179	182	anti-parallel
Strand 8	A	206	208	anti-parallel
Strand 9	A	212	214	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	23	25	first strand
Strand 2	A	28	30	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	130	131	first strand
Strand 2	A	229	230	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	187	188	first strand
Strand 2	A	197	198	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	238	242	first strand
Strand 2	A	262	267	parallel
Strand 3	A	292	297	parallel
Strand 4	A	317	319	parallel

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There are 9 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	60	62	first strand
Strand 2	B	72	83	anti-parallel
Strand 3	B	9	17	parallel
Strand 4	B	109	113	parallel
Strand 5	B	137	140	parallel
Strand 6	B	172	176	parallel
Strand 7	B	179	182	anti-parallel
Strand 8	B	206	208	anti-parallel
Strand 9	B	212	214	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	23	25	first strand
Strand 2	B	28	30	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	130	131	first strand
Strand 2	B	229	230	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	187	188	first strand
Strand 2	B	197	198	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	238	242	first strand
Strand 2	B	262	267	parallel
Strand 3	B	292	297	parallel
Strand 4	B	317	319	parallel

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There are 9 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	60	62	first strand
Strand 2	C	72	83	anti-parallel
Strand 3	C	9	17	parallel
Strand 4	C	109	113	parallel
Strand 5	C	137	140	parallel
Strand 6	C	172	176	parallel
Strand 7	C	179	182	anti-parallel
Strand 8	C	206	208	anti-parallel
Strand 9	C	212	214	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	23	25	first strand
Strand 2	C	28	30	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	130	131	first strand
Strand 2	C	229	230	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	187	188	first strand
Strand 2	C	197	198	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	238	242	first strand
Strand 2	C	262	267	parallel
Strand 3	C	292	297	parallel
Strand 4	C	317	319	parallel

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There are 9 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	60	62	first strand
Strand 2	D	72	83	anti-parallel
Strand 3	D	9	17	parallel
Strand 4	D	109	113	parallel
Strand 5	D	137	140	parallel
Strand 6	D	172	176	parallel
Strand 7	D	179	182	anti-parallel
Strand 8	D	206	208	anti-parallel
Strand 9	D	212	214	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	23	25	first strand
Strand 2	D	28	30	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	130	131	first strand
Strand 2	D	229	230	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	187	188	first strand
Strand 2	D	197	198	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	238	242	first strand
Strand 2	D	262	267	parallel
Strand 3	D	292	297	parallel
Strand 4	D	317	319	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: 5DNC

Analysis of interatomic Contacts of Structural Units in PDB entry:
5DNC