Analysis of interatomic Contacts of Structural Units in PDB entry:
8K88

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 8K88 entry

There are 4 chains in PDB entry 8K88 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
C	A 4	T 26
D	A 1	G 21
A	SER 6	MET 473
B	GLY 325	GLY 582

There are 29 helices in PDB entry 8K88. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	22	24	Right-handed 310
Helix 2	AA2	A	29	37	Right-handed alpha
Helix 3	AA3	A	39	45	Right-handed 310
Helix 4	AA4	A	57	59	Right-handed 310
Helix 5	AA5	A	60	72	Right-handed alpha
Helix 6	AA6	A	89	95	Right-handed alpha
Helix 7	AA7	A	111	120	Right-handed alpha
Helix 8	AA8	A	121	133	Right-handed alpha
Helix 9	AA9	A	134	138	Right-handed 310
Helix 10	AB1	A	139	143	Right-handed 310
Helix 11	AB2	A	151	158	Right-handed 310
Helix 12	AB3	A	164	174	Right-handed alpha
Helix 13	AB4	A	184	189	Right-handed alpha
Helix 14	AB5	A	192	209	Right-handed alpha
Helix 15	AB6	A	276	295	Right-handed alpha
Helix 16	AB7	A	312	323	Right-handed alpha
Helix 17	AB8	A	417	429	Right-handed alpha
Helix 18	AB9	A	443	459	Right-handed alpha
Helix 19	AC1	A	460	463	Right-handed 310
Helix 20	AC2	A	470	472	Right-handed 310
Helix 21	AC3	B	355	367	Right-handed alpha
Helix 22	AC4	B	383	391	Right-handed alpha
Helix 23	AC5	B	406	414	Right-handed alpha
Helix 24	AC6	B	414	430	Right-handed alpha
Helix 25	AC7	B	455	457	Right-handed 310
Helix 26	AC8	B	458	465	Right-handed alpha
Helix 27	AC9	B	513	519	Right-handed 310
Helix 28	AD1	B	520	529	Right-handed alpha
Helix 29	AD2	B	532	549	Right-handed alpha

There are 11 sheets in PDB entry 8K88. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

There are 10 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	12	13	first strand
Strand 2	A	365	368	anti-parallel
Strand 3	A	373	376	anti-parallel
Strand 4	A	407	413	anti-parallel
Strand 5	A	328	335	anti-parallel
Strand 6	A	302	307	parallel
Strand 7	A	222	228	parallel
Strand 8	A	243	248	anti-parallel
Strand 9	A	256	260	anti-parallel
Strand 10	A	467	468	anti-parallel

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There are 3 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	26	27	first strand
Strand 2	A	19	20	anti-parallel
Strand 3	A	214	215	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	98	99	first strand
Strand 2	A	50	56	parallel
Strand 3	A	106	108	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	98	99	first strand
Strand 2	A	50	56	parallel
Strand 3	A	145	149	parallel
Strand 4	A	180	183	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	A	231	233	first strand
Strand 2	A	238	240	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	A	355	356	first strand
Strand 2	A	343	346	anti-parallel
Strand 3	B	330	332	anti-parallel
Strand 4	B	579	580	anti-parallel

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There are 2 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	381	382	first strand
Strand 2	A	394	395	anti-parallel

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There are 5 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	335	337	first strand
Strand 2	B	500	512	anti-parallel
Strand 3	B	485	497	anti-parallel
Strand 4	B	443	447	anti-parallel
Strand 5	B	436	440	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	335	337	first strand
Strand 2	B	500	512	anti-parallel
Strand 3	B	485	497	anti-parallel
Strand 4	B	475	477	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	370	374	first strand
Strand 2	B	378	382	anti-parallel
Strand 3	B	343	350	anti-parallel
Strand 4	B	396	404	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	B	556	561	first strand
Strand 2	B	569	574	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: 8K88

Analysis of interatomic Contacts of Structural Units in PDB entry:
8K88