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

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 8AVD entry

There are 6 chains in PDB entry 8AVD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 21	CYS 167
B	VAL 234	MET 632
C	GLY 21	CYS 167
D	VAL 234	MET 632
E	GLY 21	CYS 167
F	VAL 234	VAL 331

There are 24 helices in PDB entry 8AVD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	23	44	Right-handed alpha
Helix 2	AA2	A	45	50	Right-handed alpha
Helix 3	AA3	A	71	88	Right-handed alpha
Helix 4	AA4	A	91	116	Right-handed alpha
Helix 5	AA5	A	130	138	Right-handed alpha
Helix 6	AA6	A	138	160	Right-handed alpha
Helix 7	AA7	B	375	377	Right-handed 310
Helix 8	AA8	B	528	533	Right-handed 310
Helix 9	AA9	C	23	45	Right-handed alpha
Helix 10	AB1	C	45	50	Right-handed alpha
Helix 11	AB2	C	71	89	Right-handed alpha
Helix 12	AB3	C	91	116	Right-handed alpha
Helix 13	AB4	C	130	138	Right-handed alpha
Helix 14	AB5	C	138	160	Right-handed alpha
Helix 15	AB6	D	375	377	Right-handed 310
Helix 16	AB7	D	528	533	Right-handed 310
Helix 17	AB8	E	23	45	Right-handed alpha
Helix 18	AB9	E	45	50	Right-handed alpha
Helix 19	AC1	E	71	89	Right-handed alpha
Helix 20	AC2	E	91	116	Right-handed alpha
Helix 21	AC3	E	130	138	Right-handed alpha
Helix 22	AC4	E	138	160	Right-handed alpha
Helix 23	AC5	F	375	377	Right-handed 310
Helix 24	AC6	F	528	533	Right-handed 310

There are 30 sheets in PDB entry 8AVD. 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,

There are 2 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	57	58	first strand
Strand 2	F	416	417	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	B	240	246	first strand
Strand 2	B	252	257	anti-parallel
Strand 3	B	290	293	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	279	286	first strand
Strand 2	B	266	275	anti-parallel
Strand 3	B	301	310	anti-parallel
Strand 4	B	324	327	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	331	334	first strand
Strand 2	B	346	352	anti-parallel
Strand 3	B	387	391	anti-parallel
Strand 4	B	379	381	anti-parallel

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There are 5 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	337	341	first strand
Strand 2	B	421	426	parallel
Strand 3	B	406	412	anti-parallel
Strand 4	B	364	368	anti-parallel
Strand 5	B	372	373	anti-parallel

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There are 2 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	416	417	first strand
Strand 2	C	57	58	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	432	436	first strand
Strand 2	B	443	447	anti-parallel
Strand 3	B	494	498	anti-parallel
Strand 4	B	487	488	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	482	484	first strand
Strand 2	B	459	467	anti-parallel
Strand 3	B	506	515	anti-parallel
Strand 4	B	518	521	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	482	484	first strand
Strand 2	B	459	467	anti-parallel
Strand 3	B	506	515	anti-parallel
Strand 4	B	525	527	anti-parallel

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There are 3 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	539	545	first strand
Strand 2	B	551	557	anti-parallel
Strand 3	B	593	597	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	582	586	first strand
Strand 2	B	566	574	anti-parallel
Strand 3	B	605	613	anti-parallel
Strand 4	B	627	628	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	D	240	246	first strand
Strand 2	D	252	257	anti-parallel
Strand 3	D	290	293	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	D	279	286	first strand
Strand 2	D	266	275	anti-parallel
Strand 3	D	301	310	anti-parallel
Strand 4	D	324	327	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	331	334	first strand
Strand 2	D	346	352	anti-parallel
Strand 3	D	387	391	anti-parallel
Strand 4	D	379	381	anti-parallel

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There are 5 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	337	341	first strand
Strand 2	D	421	426	parallel
Strand 3	D	406	412	anti-parallel
Strand 4	D	364	368	anti-parallel
Strand 5	D	372	373	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	416	417	first strand
Strand 2	E	57	58	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	D	433	436	first strand
Strand 2	D	443	447	anti-parallel
Strand 3	D	494	498	anti-parallel
Strand 4	D	487	488	anti-parallel

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There are 4 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	482	484	first strand
Strand 2	D	459	467	anti-parallel
Strand 3	D	506	515	anti-parallel
Strand 4	D	518	521	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	482	484	first strand
Strand 2	D	459	467	anti-parallel
Strand 3	D	506	515	anti-parallel
Strand 4	D	525	527	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	539	545	first strand
Strand 2	D	551	557	anti-parallel
Strand 3	D	593	597	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	582	586	first strand
Strand 2	D	566	574	anti-parallel
Strand 3	D	605	613	anti-parallel
Strand 4	D	627	628	anti-parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	240	246	first strand
Strand 2	F	252	257	anti-parallel
Strand 3	F	290	293	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	F	279	286	first strand
Strand 2	F	266	275	anti-parallel
Strand 3	F	301	310	anti-parallel
Strand 4	F	324	327	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	331	334	first strand
Strand 2	F	346	352	anti-parallel
Strand 3	F	387	391	anti-parallel
Strand 4	F	379	381	anti-parallel

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There are 5 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	337	341	first strand
Strand 2	F	421	426	parallel
Strand 3	F	406	412	anti-parallel
Strand 4	F	364	368	anti-parallel
Strand 5	F	372	373	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	432	436	first strand
Strand 2	F	443	447	anti-parallel
Strand 3	F	494	498	anti-parallel
Strand 4	F	487	488	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	482	483	first strand
Strand 2	F	459	467	anti-parallel
Strand 3	F	506	515	anti-parallel
Strand 4	F	518	521	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	482	483	first strand
Strand 2	F	459	467	anti-parallel
Strand 3	F	506	515	anti-parallel
Strand 4	F	525	527	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	F	539	545	first strand
Strand 2	F	551	557	anti-parallel
Strand 3	F	593	597	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	582	586	first strand
Strand 2	F	566	574	anti-parallel
Strand 3	F	605	613	anti-parallel
Strand 4	F	627	628	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: 8AVD

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