Analysis of interatomic Contacts of Structural Units in PDB entry:
5YKC

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 5YKC entry

There are 3 chains in PDB entry 5YKC (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 2	GLY 505
B	ALA 2	LEU 506
C	ALA 2	ILE 259

There are 27 helices in PDB entry 5YKC. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	59	66	Right-handed alpha
Helix 2	AA2	A	100	110	Right-handed alpha
Helix 3	AA3	A	121	125	Right-handed 310
Helix 4	AA4	A	186	195	Right-handed alpha
Helix 5	AA5	A	337	341	Right-handed 310
Helix 6	AA6	A	366	387	Right-handed alpha
Helix 7	AA7	A	403	456	Right-handed alpha
Helix 8	AA8	A	473	483	Right-handed alpha
Helix 9	AA9	A	487	490	Right-handed 310
Helix 10	AB1	A	491	505	Right-handed alpha
Helix 11	AB2	B	59	66	Right-handed alpha
Helix 12	AB3	B	100	109	Right-handed alpha
Helix 13	AB4	B	121	125	Right-handed 310
Helix 14	AB5	B	186	195	Right-handed alpha
Helix 15	AB6	B	366	389	Right-handed alpha
Helix 16	AB7	B	403	456	Right-handed alpha
Helix 17	AB8	B	474	483	Right-handed alpha
Helix 18	AB9	B	487	505	Right-handed alpha
Helix 19	AC1	C	59	66	Right-handed alpha
Helix 20	AC2	C	70	74	Right-handed 310
Helix 21	AC3	C	100	109	Right-handed alpha
Helix 22	AC4	C	121	125	Right-handed 310
Helix 23	AC5	C	186	195	Right-handed alpha
Helix 24	AC6	C	366	386	Right-handed alpha
Helix 25	AC7	C	403	453	Right-handed alpha
Helix 26	AC8	C	476	483	Right-handed alpha
Helix 27	AC9	C	487	505	Right-handed alpha

There are 33 sheets in PDB entry 5YKC. 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, AD3, AD4, AD5, AD6,

There are 5 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	361	365	first strand
Strand 2	A	351	356	anti-parallel
Strand 3	A	5	10	anti-parallel
Strand 4	A	466	469	anti-parallel
Strand 5	A	459	461	anti-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	A	18	19	first strand
Strand 2	A	27	28	anti-parallel

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There are 2 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	32	34	first strand
Strand 2	A	315	317	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	A	36	37	first strand
Strand 2	A	294	295	parallel
Strand 3	A	307	308	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	44	47	first strand
Strand 2	A	274	279	parallel

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There are 3 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	53	54	first strand
Strand 2	A	82	84	parallel
Strand 3	A	267	269	parallel

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There are 5 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	96	98	first strand
Strand 2	A	228	236	parallel
Strand 3	A	174	183	anti-parallel
Strand 4	A	255	262	anti-parallel
Strand 5	A	111	118	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	A	96	98	first strand
Strand 2	A	228	236	parallel
Strand 3	A	174	183	anti-parallel
Strand 4	A	250	253	anti-parallel
Strand 5	A	150	152	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	135	139	first strand
Strand 2	A	144	145	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	163	168	first strand
Strand 2	A	241	246	anti-parallel
Strand 3	A	201	204	anti-parallel
Strand 4	A	209	212	anti-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	A	286	287	first strand
Strand 2	A	281	283	anti-parallel
Strand 3	A	302	303	anti-parallel

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There are 3 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	342	343	first strand
Strand 2	B	5	11	parallel
Strand 3	B	351	353	anti-parallel

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There are 4 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	342	343	first strand
Strand 2	B	5	11	parallel
Strand 3	B	466	469	anti-parallel
Strand 4	B	459	461	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	18	19	first strand
Strand 2	B	27	28	anti-parallel

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There are 2 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	32	34	first strand
Strand 2	B	315	317	anti-parallel

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There are 3 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	36	37	first strand
Strand 2	B	294	295	parallel
Strand 3	B	307	308	parallel

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There are 2 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	44	47	first strand
Strand 2	B	274	279	parallel

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There are 3 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	53	54	first strand
Strand 2	B	82	84	parallel
Strand 3	B	267	269	parallel

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There are 5 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	96	98	first strand
Strand 2	B	228	236	parallel
Strand 3	B	174	183	anti-parallel
Strand 4	B	255	262	anti-parallel
Strand 5	B	111	118	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	B	96	98	first strand
Strand 2	B	228	236	parallel
Strand 3	B	174	183	anti-parallel
Strand 4	B	250	253	anti-parallel
Strand 5	B	150	152	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	135	139	first strand
Strand 2	B	144	145	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	B	163	168	first strand
Strand 2	B	241	246	anti-parallel
Strand 3	B	201	204	anti-parallel
Strand 4	B	209	212	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	286	287	first strand
Strand 2	B	281	283	anti-parallel
Strand 3	B	302	303	anti-parallel

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There are 5 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	362	365	first strand
Strand 2	C	351	355	anti-parallel
Strand 3	C	5	10	anti-parallel
Strand 4	C	466	469	anti-parallel
Strand 5	C	459	461	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	18	19	first strand
Strand 2	C	27	28	anti-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	C	32	34	first strand
Strand 2	C	315	317	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	C	36	37	first strand
Strand 2	C	294	295	parallel
Strand 3	C	307	308	parallel

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There are 2 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	44	47	first strand
Strand 2	C	274	279	parallel

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There are 3 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	53	54	first strand
Strand 2	C	82	84	parallel
Strand 3	C	267	269	parallel

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There are 5 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	111	118	first strand
Strand 2	C	255	262	anti-parallel
Strand 3	C	175	183	anti-parallel
Strand 4	C	250	253	anti-parallel
Strand 5	C	150	152	anti-parallel

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There are 4 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	111	118	first strand
Strand 2	C	255	262	anti-parallel
Strand 3	C	175	183	anti-parallel
Strand 4	C	228	236	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	163	168	first strand
Strand 2	C	241	246	anti-parallel
Strand 3	C	201	204	anti-parallel
Strand 4	C	209	212	anti-parallel

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There are 2 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	282	283	first strand
Strand 2	C	286	287	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: 5YKC

Analysis of interatomic Contacts of Structural Units in PDB entry:
5YKC