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

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 8SKV entry

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

Chain ID	Initial residue	Terminal residue
A	CYS 242	ALA 465
B	CYS 242	TYR 472
C	CYS 242	TYR 472
D	CYS 242	MET 464
E	SER 2	GLU 546
J	ARG 5	ASP 137
a	ASP 45	GLU 73
b	ASP 45	GLU 73

There are 28 helices in PDB entry 8SKV. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	252	259	Right-handed alpha
Helix 2	AA2	A	311	318	Right-handed alpha
Helix 3	AA3	A	358	362	Right-handed 310
Helix 4	AA4	A	420	427	Right-handed alpha
Helix 5	AA5	B	252	258	Right-handed alpha
Helix 6	AA6	B	311	318	Right-handed alpha
Helix 7	AA7	B	357	362	Right-handed alpha
Helix 8	AA8	B	391	395	Right-handed 310
Helix 9	AA9	B	421	427	Right-handed alpha
Helix 10	AB1	C	252	258	Right-handed alpha
Helix 11	AB2	C	311	318	Right-handed alpha
Helix 12	AB3	C	355	359	Right-handed 310
Helix 13	AB4	C	421	425	Right-handed alpha
Helix 14	AB5	D	252	259	Right-handed alpha
Helix 15	AB6	D	355	360	Right-handed alpha
Helix 16	AB7	D	391	395	Right-handed 310
Helix 17	AB8	D	421	427	Right-handed alpha
Helix 18	AB9	E	27	33	Right-handed alpha
Helix 19	AC1	E	83	87	Right-handed 310
Helix 20	AC2	E	166	170	Right-handed 310
Helix 21	AC3	E	193	197	Right-handed 310
Helix 22	AC4	E	242	246	Right-handed 310
Helix 23	AC5	E	356	360	Right-handed 310
Helix 24	AC6	E	414	418	Right-handed 310
Helix 25	AC7	E	517	521	Right-handed 310
Helix 26	AC8	J	64	69	Right-handed alpha
Helix 27	AC9	a	46	73	Right-handed alpha
Helix 28	AD1	b	46	73	Right-handed alpha

There are 35 sheets in PDB entry 8SKV. 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, AD7, AD8,

There are 4 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	245	249	first strand
Strand 2	A	265	269	anti-parallel
Strand 3	A	301	307	anti-parallel
Strand 4	A	290	291	anti-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	A	245	249	first strand
Strand 2	A	265	269	anti-parallel
Strand 3	A	301	307	anti-parallel
Strand 4	A	295	297	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	280	281	first strand
Strand 2	A	321	325	anti-parallel
Strand 3	A	334	338	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	A	348	352	first strand
Strand 2	A	365	374	anti-parallel
Strand 3	A	411	419	anti-parallel
Strand 4	A	395	397	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	A	348	352	first strand
Strand 2	A	365	374	anti-parallel
Strand 3	A	411	419	anti-parallel
Strand 4	A	401	402	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	388	389	first strand
Strand 2	A	380	385	anti-parallel
Strand 3	A	430	435	anti-parallel
Strand 4	A	444	448	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	A	459	462	first strand
Strand 2	B	459	462	parallel
Strand 3	J	60	61	parallel

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There are 3 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	245	249	first strand
Strand 2	B	264	269	anti-parallel
Strand 3	B	306	308	anti-parallel

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There are 3 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	278	281	first strand
Strand 2	B	320	326	anti-parallel
Strand 3	B	334	339	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	348	352	first strand
Strand 2	B	364	372	anti-parallel
Strand 3	B	411	420	anti-parallel
Strand 4	B	396	397	anti-parallel

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There are 4 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	348	352	first strand
Strand 2	B	364	372	anti-parallel
Strand 3	B	411	420	anti-parallel
Strand 4	B	401	402	anti-parallel

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There are 4 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	388	389	first strand
Strand 2	B	380	385	anti-parallel
Strand 3	B	430	435	anti-parallel
Strand 4	B	443	448	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	245	249	first strand
Strand 2	C	264	269	anti-parallel
Strand 3	C	303	308	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	279	280	first strand
Strand 2	C	324	325	anti-parallel
Strand 3	C	334	335	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	C	320	321	first strand
Strand 2	C	338	339	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	C	350	352	first strand
Strand 2	C	364	372	anti-parallel
Strand 3	C	412	420	anti-parallel
Strand 4	C	395	397	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	C	388	389	first strand
Strand 2	C	380	385	anti-parallel
Strand 3	C	430	435	anti-parallel
Strand 4	C	443	448	anti-parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	459	463	first strand
Strand 2	C	457	465	parallel
Strand 3	J	33	43	parallel
Strand 4	J	16	23	anti-parallel
Strand 5	J	6	11	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	245	248	first strand
Strand 2	D	266	269	anti-parallel
Strand 3	D	301	306	anti-parallel
Strand 4	D	295	297	anti-parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	278	281	first strand
Strand 2	D	323	326	anti-parallel
Strand 3	D	334	335	anti-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	D	348	352	first strand
Strand 2	D	364	374	anti-parallel
Strand 3	D	410	420	anti-parallel
Strand 4	D	396	397	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	D	348	352	first strand
Strand 2	D	364	374	anti-parallel
Strand 3	D	410	420	anti-parallel
Strand 4	D	401	403	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	D	388	389	first strand
Strand 2	D	379	385	anti-parallel
Strand 3	D	430	436	anti-parallel
Strand 4	D	444	448	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	E	9	13	first strand
Strand 2	E	102	110	parallel
Strand 3	E	88	93	anti-parallel
Strand 4	E	36	39	anti-parallel
Strand 5	E	47	51	anti-parallel

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There are 3 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	18	23	first strand
Strand 2	E	74	79	anti-parallel
Strand 3	E	65	69	anti-parallel

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There are 5 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	122	125	first strand
Strand 2	E	213	220	parallel
Strand 3	E	198	204	anti-parallel
Strand 4	E	145	149	anti-parallel
Strand 5	E	156	159	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	130	135	first strand
Strand 2	E	184	189	anti-parallel
Strand 3	E	173	176	anti-parallel

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There are 5 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	225	229	first strand
Strand 2	E	321	328	parallel
Strand 3	E	304	309	anti-parallel
Strand 4	E	250	254	anti-parallel
Strand 5	E	262	266	anti-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	E	234	239	first strand
Strand 2	E	290	295	anti-parallel
Strand 3	E	279	281	anti-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	E	340	344	first strand
Strand 2	E	433	440	parallel
Strand 3	E	419	424	anti-parallel
Strand 4	E	365	368	anti-parallel
Strand 5	E	379	382	anti-parallel

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There are 3 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	348	354	first strand
Strand 2	E	405	411	anti-parallel
Strand 3	E	395	398	anti-parallel

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There are 2 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	460	462	first strand
Strand 2	E	511	513	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	486	487	first strand
Strand 2	E	474	479	anti-parallel
Strand 3	E	522	530	anti-parallel
Strand 4	E	533	542	anti-parallel

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There are 2 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	75	78	first strand
Strand 2	J	83	86	anti-parallel

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There are 2 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	111	116	first strand
Strand 2	J	123	128	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: 8SKV

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