Analysis of interatomic Contacts of Structural Units in PDB entry:
8DP5

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 8DP5 entry

Note, this PDB entry contains modified residue(s) PHOSPHOSERINE (SEP) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 8 chains in PDB entry 8DP5 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 128	ASP 473
B	SER 130	TRP 472
C	MET 3	SER 232
D	ASP 3	SER 233
E	ARG 66	GLN 68
E	LEU 70	ARG 73
P	ARG 66	GLN 68
P	LEU 70	THR 72

There are 45 helices in PDB entry 8DP5. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	130	158	Right-handed alpha
Helix 2	AA2	A	214	222	Right-handed alpha
Helix 3	AA3	A	262	270	Right-handed alpha
Helix 4	AA4	A	273	299	Right-handed alpha
Helix 5	AA5	A	306	308	Right-handed 310
Helix 6	AA6	A	330	332	Right-handed 310
Helix 7	AA7	A	348	361	Right-handed alpha
Helix 8	AA8	A	368	385	Right-handed alpha
Helix 9	AA9	A	387	400	Right-handed alpha
Helix 10	AB1	A	420	442	Right-handed alpha
Helix 11	AB2	A	446	457	Right-handed alpha
Helix 12	AB3	A	460	473	Right-handed alpha
Helix 13	AB4	B	131	158	Right-handed alpha
Helix 14	AB5	B	214	224	Right-handed alpha
Helix 15	AB6	B	262	270	Right-handed alpha
Helix 16	AB7	B	276	298	Right-handed alpha
Helix 17	AB8	B	330	332	Right-handed 310
Helix 18	AB9	B	348	363	Right-handed alpha
Helix 19	AC1	B	368	385	Right-handed alpha
Helix 20	AC2	B	387	400	Right-handed alpha
Helix 21	AC3	B	419	441	Right-handed alpha
Helix 22	AC4	B	446	458	Right-handed alpha
Helix 23	AC5	B	460	472	Right-handed alpha
Helix 24	AC6	C	4	18	Right-handed alpha
Helix 25	AC7	C	20	33	Right-handed alpha
Helix 26	AC8	C	39	71	Right-handed alpha
Helix 27	AC9	C	74	106	Right-handed alpha
Helix 28	AD1	C	106	111	Right-handed alpha
Helix 29	AD2	C	113	133	Right-handed alpha
Helix 30	AD3	C	137	162	Right-handed alpha
Helix 31	AD4	C	166	183	Right-handed alpha
Helix 32	AD5	C	186	203	Right-handed alpha
Helix 33	AD6	C	204	208	Right-handed 310
Helix 34	AD7	C	209	232	Right-handed alpha
Helix 35	AD8	D	4	17	Right-handed alpha
Helix 36	AD9	D	19	32	Right-handed alpha
Helix 37	AE1	D	38	71	Right-handed alpha
Helix 38	AE2	D	75	107	Right-handed alpha
Helix 39	AE3	D	107	112	Right-handed alpha
Helix 40	AE4	D	114	136	Right-handed alpha
Helix 41	AE5	D	138	163	Right-handed alpha
Helix 42	AE6	D	167	184	Right-handed alpha
Helix 43	AE7	D	187	204	Right-handed alpha
Helix 44	AE8	D	205	209	Right-handed 310
Helix 45	AE9	D	210	233	Right-handed alpha

There are 8 sheets in PDB entry 8DP5. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 3 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	170	173	first strand
Strand 2	A	185	194	anti-parallel
Strand 3	A	180	181	anti-parallel

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There are 5 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	170	173	first strand
Strand 2	A	185	194	anti-parallel
Strand 3	A	197	206	anti-parallel
Strand 4	A	251	254	anti-parallel
Strand 5	A	233	237	anti-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	A	260	261	first strand
Strand 2	A	310	313	anti-parallel
Strand 3	A	325	328	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	300	302	first strand
Strand 2	A	334	336	anti-parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	170	173	first strand
Strand 2	B	185	194	anti-parallel
Strand 3	B	180	181	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	B	170	173	first strand
Strand 2	B	185	194	anti-parallel
Strand 3	B	197	206	anti-parallel
Strand 4	B	251	254	anti-parallel
Strand 5	B	233	237	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	B	260	261	first strand
Strand 2	B	311	313	anti-parallel
Strand 3	B	325	327	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	300	302	first strand
Strand 2	B	334	336	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: 8DP5

Analysis of interatomic Contacts of Structural Units in PDB entry:
8DP5