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

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 8AFM entry

There are 12 chains in PDB entry 8AFM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 367	MET 443
B	LEU 367	MET 443
D	GLU 1	SER 887
C	GLU 1	SER 887
E	GLN 96	SER 163
F	GLN 96	ASP 154
G	LEU 367	MET 443
H	LEU 367	MET 443
J	GLU 1	SER 887
I	GLU 1	SER 887
K	GLN 96	SER 163
L	GLN 96	ASP 154

There are 32 helices in PDB entry 8AFM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	369	419	Right-handed alpha
Helix 2	AA2	A	420	434	Right-handed alpha
Helix 3	AA3	A	437	443	Right-handed alpha
Helix 4	AA4	B	368	401	Right-handed alpha
Helix 5	AA5	B	401	429	Right-handed alpha
Helix 6	AA6	B	429	434	Right-handed alpha
Helix 7	AA7	B	434	439	Right-handed alpha
Helix 8	AA8	B	440	443	Right-handed 310
Helix 9	AA9	D	833	837	Right-handed 310
Helix 10	AB1	D	859	863	Right-handed 310
Helix 11	AB2	C	859	863	Right-handed 310
Helix 12	AB3	E	97	155	Right-handed alpha
Helix 13	AB4	E	155	160	Right-handed alpha
Helix 14	AB5	E	161	163	Right-handed 310
Helix 15	AB6	F	97	139	Right-handed alpha
Helix 16	AB7	F	139	154	Right-handed alpha
Helix 17	AB8	G	369	419	Right-handed alpha
Helix 18	AB9	G	420	434	Right-handed alpha
Helix 19	AC1	G	437	443	Right-handed alpha
Helix 20	AC2	H	368	401	Right-handed alpha
Helix 21	AC3	H	401	429	Right-handed alpha
Helix 22	AC4	H	429	434	Right-handed alpha
Helix 23	AC5	H	434	439	Right-handed alpha
Helix 24	AC6	H	440	443	Right-handed 310
Helix 25	AC7	J	833	837	Right-handed 310
Helix 26	AC8	J	859	863	Right-handed 310
Helix 27	AC9	I	859	863	Right-handed 310
Helix 28	AD1	K	97	155	Right-handed alpha
Helix 29	AD2	K	155	160	Right-handed alpha
Helix 30	AD3	K	161	163	Right-handed 310
Helix 31	AD4	L	97	139	Right-handed alpha
Helix 32	AD5	L	139	154	Right-handed alpha

There are 12 sheets in PDB entry 8AFM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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	D	5	7	first strand
Strand 2	D	794	796	anti-parallel
Strand 3	D	850	855	anti-parallel
Strand 4	D	840	843	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	D	818	824	first strand
Strand 2	D	807	812	anti-parallel
Strand 3	D	864	866	anti-parallel
Strand 4	D	882	884	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	D	869	872	first strand
Strand 2	D	875	878	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	C	790	795	first strand
Strand 2	C	851	856	anti-parallel
Strand 3	C	840	843	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	C	830	832	first strand
Strand 2	C	818	824	anti-parallel
Strand 3	C	807	812	anti-parallel
Strand 4	C	864	871	anti-parallel
Strand 5	C	876	878	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	830	832	first strand
Strand 2	C	818	824	anti-parallel
Strand 3	C	807	812	anti-parallel
Strand 4	C	864	871	anti-parallel
Strand 5	C	883	884	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	J	5	7	first strand
Strand 2	J	794	796	anti-parallel
Strand 3	J	850	855	anti-parallel
Strand 4	J	840	843	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	J	818	824	first strand
Strand 2	J	807	812	anti-parallel
Strand 3	J	864	866	anti-parallel
Strand 4	J	882	884	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	J	869	872	first strand
Strand 2	J	875	878	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	I	790	795	first strand
Strand 2	I	851	856	anti-parallel
Strand 3	I	840	843	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	830	832	first strand
Strand 2	I	818	824	anti-parallel
Strand 3	I	807	812	anti-parallel
Strand 4	I	864	871	anti-parallel
Strand 5	I	876	878	anti-parallel

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There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	830	832	first strand
Strand 2	I	818	824	anti-parallel
Strand 3	I	807	812	anti-parallel
Strand 4	I	864	871	anti-parallel
Strand 5	I	883	884	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: 8AFM

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