Analysis of interatomic Contacts of Structural Units in PDB entry:
8DN4

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 8DN4 entry

There are 5 chains in PDB entry 8DN4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
D	MET 8	ILE 419
A	MET 8	ILE 419
B	MET 8	ILE 419
C	MET 8	ILE 419
E	SER 33	LEU 475

There are 43 helices in PDB entry 8DN4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	D	9	18	Right-handed alpha
Helix 2	AA2	D	19	23	Right-handed 310
Helix 3	AA3	D	52	55	Right-handed 310
Helix 4	AA4	D	71	74	Right-handed 310
Helix 5	AA5	D	86	93	Right-handed 310
Helix 6	AA6	D	144	147	Right-handed 310
Helix 7	AA7	D	220	244	Right-handed alpha
Helix 8	AA8	D	248	274	Right-handed alpha
Helix 9	AA9	D	283	311	Right-handed alpha
Helix 10	AB1	D	385	418	Right-handed alpha
Helix 11	AB2	A	9	18	Right-handed alpha
Helix 12	AB3	A	19	23	Right-handed 310
Helix 13	AB4	A	71	74	Right-handed 310
Helix 14	AB5	A	86	93	Right-handed 310
Helix 15	AB6	A	220	244	Right-handed alpha
Helix 16	AB7	A	248	271	Right-handed alpha
Helix 17	AB8	A	282	309	Right-handed alpha
Helix 18	AB9	A	388	417	Right-handed alpha
Helix 19	AC1	B	9	18	Right-handed alpha
Helix 20	AC2	B	71	74	Right-handed 310
Helix 21	AC3	B	86	93	Right-handed 310
Helix 22	AC4	B	144	147	Right-handed 310
Helix 23	AC5	B	220	244	Right-handed alpha
Helix 24	AC6	B	248	274	Right-handed alpha
Helix 25	AC7	B	282	309	Right-handed alpha
Helix 26	AC8	B	386	418	Right-handed alpha
Helix 27	AC9	C	9	18	Right-handed alpha
Helix 28	AD1	C	19	23	Right-handed 310
Helix 29	AD2	C	71	74	Right-handed 310
Helix 30	AD3	C	86	93	Right-handed 310
Helix 31	AD4	C	220	243	Right-handed alpha
Helix 32	AD5	C	245	247	Right-handed 310
Helix 33	AD6	C	248	274	Right-handed alpha
Helix 34	AD7	C	282	310	Right-handed alpha
Helix 35	AD8	C	387	417	Right-handed alpha
Helix 36	AD9	E	34	43	Right-handed alpha
Helix 37	AE1	E	91	95	Right-handed 310
Helix 38	AE2	E	109	116	Right-handed alpha
Helix 39	AE3	E	244	251	Right-handed alpha
Helix 40	AE4	E	251	267	Right-handed alpha
Helix 41	AE5	E	275	296	Right-handed alpha
Helix 42	AE6	E	305	333	Right-handed alpha
Helix 43	AE7	E	447	475	Right-handed alpha

There are 22 sheets in PDB entry 8DN4. 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	D	83	85	first strand
Strand 2	D	116	120	anti-parallel
Strand 3	D	125	137	anti-parallel
Strand 4	D	106	107	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	D	83	85	first strand
Strand 2	D	116	120	anti-parallel
Strand 3	D	125	137	anti-parallel
Strand 4	D	57	69	anti-parallel
Strand 5	D	40	47	anti-parallel
Strand 6	D	169	170	parallel

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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	99	100	first strand
Strand 2	D	153	157	anti-parallel
Strand 3	D	209	213	anti-parallel

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There are 3 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	149	150	first strand
Strand 2	D	216	218	anti-parallel
Strand 3	D	187	189	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	201	202	first strand
Strand 2	D	205	206	anti-parallel

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There are 5 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	40	42	first strand
Strand 2	A	65	69	anti-parallel
Strand 3	A	125	130	anti-parallel
Strand 4	A	116	120	anti-parallel
Strand 5	A	83	84	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	45	47	first strand
Strand 2	A	57	62	anti-parallel
Strand 3	A	132	137	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	99	100	first strand
Strand 2	A	149	157	anti-parallel
Strand 3	A	209	217	anti-parallel
Strand 4	A	188	194	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	A	201	202	first strand
Strand 2	A	205	206	anti-parallel

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There are 6 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	83	85	first strand
Strand 2	B	116	120	anti-parallel
Strand 3	B	125	130	anti-parallel
Strand 4	B	65	69	anti-parallel
Strand 5	B	37	42	anti-parallel
Strand 6	B	166	169	parallel

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There are 3 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	45	47	first strand
Strand 2	B	57	62	anti-parallel
Strand 3	B	132	137	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	B	99	100	first strand
Strand 2	B	149	157	anti-parallel
Strand 3	B	209	217	anti-parallel
Strand 4	B	188	196	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	B	200	202	first strand
Strand 2	B	205	207	anti-parallel

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There are 5 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	40	47	first strand
Strand 2	C	57	69	anti-parallel
Strand 3	C	125	137	anti-parallel
Strand 4	C	116	120	anti-parallel
Strand 5	C	83	85	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	40	47	first strand
Strand 2	C	57	69	anti-parallel
Strand 3	C	125	137	anti-parallel
Strand 4	C	106	107	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	99	100	first strand
Strand 2	C	149	157	anti-parallel
Strand 3	C	209	217	anti-parallel
Strand 4	C	188	189	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	C	99	100	first strand
Strand 2	C	149	157	anti-parallel
Strand 3	C	209	217	anti-parallel
Strand 4	C	195	197	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	C	200	202	first strand
Strand 2	C	205	207	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	E	72	73	first strand
Strand 2	E	78	89	anti-parallel
Strand 3	E	149	160	anti-parallel
Strand 4	E	139	143	anti-parallel

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There are 5 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	126	129	first strand
Strand 2	E	149	160	anti-parallel
Strand 3	E	78	89	anti-parallel
Strand 4	E	58	62	anti-parallel
Strand 5	E	189	193	parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	122	123	first strand
Strand 2	E	172	180	anti-parallel
Strand 3	E	233	241	anti-parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	223	225	first strand
Strand 2	E	229	231	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: 8DN4

Analysis of interatomic Contacts of Structural Units in PDB entry:
8DN4