Analysis of interatomic Contacts of Structural Units in PDB entry:
8DN5

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 8DN5 entry

There are 5 chains in PDB entry 8DN5 (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	SER 9	ILE 419
E	SER 33	LEU 475

There are 47 helices in PDB entry 8DN5. 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	71	74	Right-handed 310
Helix 4	AA4	D	89	93	Right-handed 310
Helix 5	AA5	D	144	147	Right-handed 310
Helix 6	AA6	D	220	243	Right-handed alpha
Helix 7	AA7	D	248	272	Right-handed alpha
Helix 8	AA8	D	281	310	Right-handed alpha
Helix 9	AA9	D	384	417	Right-handed alpha
Helix 10	AB1	A	9	18	Right-handed alpha
Helix 11	AB2	A	19	23	Right-handed 310
Helix 12	AB3	A	71	74	Right-handed 310
Helix 13	AB4	A	89	93	Right-handed 310
Helix 14	AB5	A	144	147	Right-handed 310
Helix 15	AB6	A	220	243	Right-handed alpha
Helix 16	AB7	A	248	271	Right-handed alpha
Helix 17	AB8	A	272	274	Right-handed 310
Helix 18	AB9	A	282	310	Right-handed alpha
Helix 19	AC1	A	385	418	Right-handed alpha
Helix 20	AC2	B	9	18	Right-handed alpha
Helix 21	AC3	B	19	23	Right-handed 310
Helix 22	AC4	B	71	74	Right-handed 310
Helix 23	AC5	B	89	93	Right-handed 310
Helix 24	AC6	B	144	148	Right-handed 310
Helix 25	AC7	B	162	164	Right-handed 310
Helix 26	AC8	B	220	243	Right-handed alpha
Helix 27	AC9	B	248	272	Right-handed alpha
Helix 28	AD1	B	281	308	Right-handed alpha
Helix 29	AD2	B	386	418	Right-handed alpha
Helix 30	AD3	C	10	18	Right-handed alpha
Helix 31	AD4	C	19	23	Right-handed 310
Helix 32	AD5	C	71	74	Right-handed 310
Helix 33	AD6	C	89	93	Right-handed 310
Helix 34	AD7	C	144	147	Right-handed 310
Helix 35	AD8	C	220	243	Right-handed alpha
Helix 36	AD9	C	248	273	Right-handed alpha
Helix 37	AE1	C	281	310	Right-handed alpha
Helix 38	AE2	C	387	417	Right-handed alpha
Helix 39	AE3	E	35	43	Right-handed alpha
Helix 40	AE4	E	92	95	Right-handed 310
Helix 41	AE5	E	109	116	Right-handed 310
Helix 42	AE6	E	167	170	Right-handed 310
Helix 43	AE7	E	244	251	Right-handed alpha
Helix 44	AE8	E	251	269	Right-handed alpha
Helix 45	AE9	E	272	296	Right-handed alpha
Helix 46	AF1	E	305	333	Right-handed alpha
Helix 47	AF2	E	447	475	Right-handed alpha

There are 29 sheets in PDB entry 8DN5. 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, AC5, AC6, AC7, AC8, AC9, AD1, AD2,

There are 6 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	130	anti-parallel
Strand 4	D	65	69	anti-parallel
Strand 5	D	37	42	anti-parallel
Strand 6	D	166	170	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	D	44	45	first strand
Strand 2	D	177	178	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	57	60	first strand
Strand 2	D	133	137	anti-parallel
Strand 3	D	106	107	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	D	99	100	first strand
Strand 2	D	149	157	anti-parallel
Strand 3	D	210	218	anti-parallel
Strand 4	D	187	189	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	D	99	100	first strand
Strand 2	D	149	157	anti-parallel
Strand 3	D	210	218	anti-parallel
Strand 4	D	195	197	anti-parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	200	202	first strand
Strand 2	D	205	207	anti-parallel

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There are 6 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	83	84	first strand
Strand 2	A	118	120	anti-parallel
Strand 3	A	125	129	anti-parallel
Strand 4	A	65	69	anti-parallel
Strand 5	A	39	45	anti-parallel
Strand 6	A	168	170	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	A	83	84	first strand
Strand 2	A	118	120	anti-parallel
Strand 3	A	125	129	anti-parallel
Strand 4	A	65	69	anti-parallel
Strand 5	A	39	45	anti-parallel
Strand 6	A	176	178	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	A	51	52	first strand
Strand 2	A	57	60	anti-parallel
Strand 3	A	133	137	anti-parallel
Strand 4	A	106	107	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	A	98	100	first strand
Strand 2	A	149	158	anti-parallel
Strand 3	A	209	218	anti-parallel
Strand 4	A	187	197	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	200	201	first strand
Strand 2	A	206	207	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	B	37	38	first strand
Strand 2	B	166	167	parallel

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There are 5 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	40	41	first strand
Strand 2	B	65	69	anti-parallel
Strand 3	B	125	129	anti-parallel
Strand 4	B	118	120	anti-parallel
Strand 5	B	83	84	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	B	43	45	first strand
Strand 2	B	176	178	parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	57	60	first strand
Strand 2	B	133	137	anti-parallel
Strand 3	B	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	B	99	100	first strand
Strand 2	B	150	157	anti-parallel
Strand 3	B	209	218	anti-parallel
Strand 4	B	187	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	B	99	100	first strand
Strand 2	B	150	157	anti-parallel
Strand 3	B	209	218	anti-parallel
Strand 4	B	194	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	B	200	202	first strand
Strand 2	B	205	207	anti-parallel

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There are 6 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	83	84	first strand
Strand 2	C	116	120	anti-parallel
Strand 3	C	125	130	anti-parallel
Strand 4	C	65	69	anti-parallel
Strand 5	C	39	41	anti-parallel
Strand 6	C	168	170	parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	44	45	first strand
Strand 2	C	177	178	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	C	51	52	first strand
Strand 2	C	57	60	anti-parallel
Strand 3	C	133	137	anti-parallel
Strand 4	C	106	107	anti-parallel

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There are 4 strands in AC4 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	218	anti-parallel
Strand 4	C	187	189	anti-parallel

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There are 4 strands in AC5 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	218	anti-parallel
Strand 4	C	195	197	anti-parallel

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There are 2 strands in AC6 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 5 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	141	143	first strand
Strand 2	E	148	151	anti-parallel
Strand 3	E	86	90	anti-parallel
Strand 4	E	58	63	anti-parallel
Strand 5	E	189	193	parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	66	69	first strand
Strand 2	E	81	83	anti-parallel

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There are 3 strands in AC9 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	176	180	anti-parallel
Strand 3	E	233	237	anti-parallel

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There are 3 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	172	173	first strand
Strand 2	E	240	242	anti-parallel
Strand 3	E	209	210	anti-parallel

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There are 2 strands in AD2 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: 8DN5

Analysis of interatomic Contacts of Structural Units in PDB entry:
8DN5