Analysis of interatomic Contacts of Structural Units in PDB entry:
8W88

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 8W88 entry

There are 5 chains in PDB entry 8W88 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 8	LEU 392
B	GLU 16	ASN 353
G	ASN 4	PHE 60
N	GLN 2	SER 128
R	SER 19	LYS 316

There are 30 helices in PDB entry 8W88. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	8	37	Right-handed alpha
Helix 2	AA2	A	51	60	Right-handed alpha
Helix 3	AA3	A	234	238	Right-handed 310
Helix 4	AA4	A	263	278	Right-handed alpha
Helix 5	AA5	A	292	302	Right-handed alpha
Helix 6	AA6	A	306	311	Right-handed alpha
Helix 7	AA7	A	312	317	Right-handed 310
Helix 8	AA8	A	330	351	Right-handed alpha
Helix 9	AA9	A	368	390	Right-handed alpha
Helix 10	AB1	B	17	39	Right-handed alpha
Helix 11	AB2	B	42	47	Right-handed alpha
Helix 12	AB3	B	48	50	Right-handed 310
Helix 13	AB4	G	5	23	Right-handed alpha
Helix 14	AB5	G	28	43	Right-handed alpha
Helix 15	AB6	N	29	33	Right-handed 310
Helix 16	AB7	N	75	77	Right-handed 310
Helix 17	AB8	N	88	92	Right-handed 310
Helix 18	AB9	R	20	51	Right-handed alpha
Helix 19	AC1	R	52	55	Right-handed 310
Helix 20	AC2	R	56	76	Right-handed alpha
Helix 21	AC3	R	76	86	Right-handed alpha
Helix 22	AC4	R	92	127	Right-handed alpha
Helix 23	AC5	R	130	135	Right-handed alpha
Helix 24	AC6	R	136	160	Right-handed alpha
Helix 25	AC7	R	168	179	Right-handed alpha
Helix 26	AC8	R	187	199	Right-handed alpha
Helix 27	AC9	R	199	229	Right-handed alpha
Helix 28	AD1	R	248	277	Right-handed alpha
Helix 29	AD2	R	282	305	Right-handed alpha
Helix 30	AD3	R	308	316	Right-handed alpha

There are 10 sheets in PDB entry 8W88. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

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	A	206	213	first strand
Strand 2	A	216	223	anti-parallel
Strand 3	A	39	45	parallel
Strand 4	A	242	248	parallel
Strand 5	A	285	291	parallel
Strand 6	A	358	362	parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	59	64	first strand
Strand 2	B	349	353	anti-parallel
Strand 3	B	340	344	anti-parallel
Strand 4	B	328	333	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	B	71	76	first strand
Strand 2	B	82	87	anti-parallel
Strand 3	B	91	96	anti-parallel
Strand 4	B	101	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	B	113	118	first strand
Strand 2	B	124	129	anti-parallel
Strand 3	B	134	138	anti-parallel
Strand 4	B	147	152	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	B	159	164	first strand
Strand 2	B	169	174	anti-parallel
Strand 3	B	179	183	anti-parallel
Strand 4	B	188	193	anti-parallel

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There are 4 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	200	205	first strand
Strand 2	B	211	216	anti-parallel
Strand 3	B	221	225	anti-parallel
Strand 4	B	231	235	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	242	247	first strand
Strand 2	B	253	258	anti-parallel
Strand 3	B	263	267	anti-parallel
Strand 4	B	272	277	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	B	286	291	first strand
Strand 2	B	297	302	anti-parallel
Strand 3	B	307	311	anti-parallel
Strand 4	B	317	320	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	N	4	8	first strand
Strand 2	N	18	26	anti-parallel
Strand 3	N	79	85	anti-parallel
Strand 4	N	69	74	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	N	11	13	first strand
Strand 2	N	123	127	parallel
Strand 3	N	93	99	anti-parallel
Strand 4	N	35	40	anti-parallel
Strand 5	N	46	52	anti-parallel
Strand 6	N	59	61	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: 8W88

Analysis of interatomic Contacts of Structural Units in PDB entry:
8W88