Analysis of interatomic Contacts of Structural Units in PDB entry:
9DN4

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 9DN4 entry

There are 6 chains in PDB entry 9DN4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 20	PRO 241
B	ASP 20	GLY 231
C	ASP 20	GLY 231
D	GLU 20	PRO 241
E	C 1	G 20
F	C 1	G 20

There are 18 helices in PDB entry 9DN4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	47	51	Right-handed 310
Helix 2	AA2	A	106	110	Right-handed 310
Helix 3	AA3	A	120	125	Right-handed alpha
Helix 4	AA4	A	184	186	Right-handed 310
Helix 5	AA5	A	215	219	Right-handed 310
Helix 6	AA6	A	229	232	Right-handed 310
Helix 7	AA7	B	98	102	Right-handed 310
Helix 8	AA8	B	140	145	Right-handed alpha
Helix 9	AA9	B	202	208	Right-handed alpha
Helix 10	AB1	C	98	102	Right-handed 310
Helix 11	AB2	C	140	146	Right-handed alpha
Helix 12	AB3	C	202	207	Right-handed alpha
Helix 13	AB4	D	47	51	Right-handed 310
Helix 14	AB5	D	106	110	Right-handed 310
Helix 15	AB6	D	120	125	Right-handed alpha
Helix 16	AB7	D	184	186	Right-handed 310
Helix 17	AB8	D	215	217	Right-handed 310
Helix 18	AB9	D	229	232	Right-handed 310

There are 22 sheets in PDB entry 9DN4. 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, AC3, AC4,

There are 4 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	22	26	first strand
Strand 2	A	37	44	anti-parallel
Strand 3	A	97	102	anti-parallel
Strand 4	A	87	92	anti-parallel

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There are 6 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	29	31	first strand
Strand 2	A	135	139	parallel
Strand 3	A	111	118	anti-parallel
Strand 4	A	52	58	anti-parallel
Strand 5	A	64	70	anti-parallel
Strand 6	A	77	79	anti-parallel

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There are 4 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	29	31	first strand
Strand 2	A	135	139	parallel
Strand 3	A	111	118	anti-parallel
Strand 4	A	128	131	anti-parallel

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There are 4 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	148	152	first strand
Strand 2	A	163	173	anti-parallel
Strand 3	A	204	213	anti-parallel
Strand 4	A	191	193	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	148	152	first strand
Strand 2	A	163	173	anti-parallel
Strand 3	A	204	213	anti-parallel
Strand 4	A	197	198	anti-parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	179	182	first strand
Strand 2	A	223	228	anti-parallel
Strand 3	A	233	238	anti-parallel

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There are 4 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	26	first strand
Strand 2	B	38	44	anti-parallel
Strand 3	B	89	94	anti-parallel
Strand 4	B	81	86	anti-parallel

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There are 6 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	29	33	first strand
Strand 2	B	121	126	parallel
Strand 3	B	103	109	anti-parallel
Strand 4	B	52	57	anti-parallel
Strand 5	B	64	68	anti-parallel
Strand 6	B	72	73	anti-parallel

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There are 4 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	29	33	first strand
Strand 2	B	121	126	parallel
Strand 3	B	103	109	anti-parallel
Strand 4	B	116	117	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	133	137	first strand
Strand 2	B	148	158	anti-parallel
Strand 3	B	192	201	anti-parallel
Strand 4	B	178	182	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	172	173	first strand
Strand 2	B	164	169	anti-parallel
Strand 3	B	210	216	anti-parallel
Strand 4	B	224	229	anti-parallel

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There are 4 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	26	first strand
Strand 2	C	38	44	anti-parallel
Strand 3	C	89	94	anti-parallel
Strand 4	C	81	86	anti-parallel

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There are 6 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	29	33	first strand
Strand 2	C	121	126	parallel
Strand 3	C	103	109	anti-parallel
Strand 4	C	52	57	anti-parallel
Strand 5	C	64	68	anti-parallel
Strand 6	C	72	73	anti-parallel

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There are 4 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	29	33	first strand
Strand 2	C	121	126	parallel
Strand 3	C	103	109	anti-parallel
Strand 4	C	116	117	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	133	137	first strand
Strand 2	C	148	158	anti-parallel
Strand 3	C	192	201	anti-parallel
Strand 4	C	178	182	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	172	173	first strand
Strand 2	C	164	169	anti-parallel
Strand 3	C	210	216	anti-parallel
Strand 4	C	224	229	anti-parallel

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There are 4 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	22	26	first strand
Strand 2	D	37	44	anti-parallel
Strand 3	D	97	102	anti-parallel
Strand 4	D	87	92	anti-parallel

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There are 6 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	29	31	first strand
Strand 2	D	135	139	parallel
Strand 3	D	111	118	anti-parallel
Strand 4	D	53	58	anti-parallel
Strand 5	D	64	70	anti-parallel
Strand 6	D	77	79	anti-parallel

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There are 4 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	29	31	first strand
Strand 2	D	135	139	parallel
Strand 3	D	111	118	anti-parallel
Strand 4	D	128	131	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	148	152	first strand
Strand 2	D	163	173	anti-parallel
Strand 3	D	204	213	anti-parallel
Strand 4	D	191	193	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	148	152	first strand
Strand 2	D	163	173	anti-parallel
Strand 3	D	204	213	anti-parallel
Strand 4	D	197	198	anti-parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	179	182	first strand
Strand 2	D	223	228	anti-parallel
Strand 3	D	233	238	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: 9DN4

Analysis of interatomic Contacts of Structural Units in PDB entry:
9DN4