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

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 8SDM entry

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

Chain ID	Initial residue	Terminal residue
A	SER 164	ARG 370
B	SER 164	ARG 370
C	SER 164	ARG 370
I	PRO 4	VAL 36
X	PRO 4	GLY 37
Y	ASP 3	GLY 37

There are 15 helices in PDB entry 8SDM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	164	170	Right-handed alpha
Helix 2	AA2	A	170	180	Right-handed alpha
Helix 3	AA3	A	218	222	Right-handed 310
Helix 4	AA4	A	357	369	Right-handed alpha
Helix 5	AA5	B	165	170	Right-handed alpha
Helix 6	AA6	B	170	180	Right-handed alpha
Helix 7	AA7	B	218	222	Right-handed 310
Helix 8	AA8	B	357	369	Right-handed alpha
Helix 9	AA9	C	165	170	Right-handed alpha
Helix 10	AB1	C	170	180	Right-handed alpha
Helix 11	AB2	C	219	224	Right-handed alpha
Helix 12	AB3	C	357	370	Right-handed alpha
Helix 13	AB4	I	12	17	Right-handed alpha
Helix 14	AB5	X	12	17	Right-handed alpha
Helix 15	AB6	Y	12	17	Right-handed alpha

There are 10 sheets in PDB entry 8SDM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

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	198	200	first strand
Strand 2	A	183	191	anti-parallel
Strand 3	A	227	231	anti-parallel
Strand 4	A	237	239	anti-parallel

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There are 6 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	198	200	first strand
Strand 2	A	183	191	anti-parallel
Strand 3	A	204	208	anti-parallel
Strand 4	A	214	217	anti-parallel
Strand 5	A	251	255	anti-parallel
Strand 6	A	241	246	anti-parallel

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There are 7 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	278	286	first strand
Strand 2	A	289	299	anti-parallel
Strand 3	A	317	319	anti-parallel
Strand 4	A	352	356	anti-parallel
Strand 5	A	339	344	anti-parallel
Strand 6	A	331	334	anti-parallel
Strand 7	A	278	286	anti-parallel

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There are 7 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	183	190	first strand
Strand 2	B	199	208	anti-parallel
Strand 3	B	214	217	anti-parallel
Strand 4	B	251	255	anti-parallel
Strand 5	B	237	246	anti-parallel
Strand 6	B	227	231	anti-parallel
Strand 7	B	183	190	anti-parallel

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There are 6 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	289	296	first strand
Strand 2	B	278	286	anti-parallel
Strand 3	B	331	334	anti-parallel
Strand 4	B	339	343	anti-parallel
Strand 5	B	352	356	anti-parallel
Strand 6	B	317	319	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	C	199	200	first strand
Strand 2	C	183	190	anti-parallel
Strand 3	C	227	231	anti-parallel
Strand 4	C	237	239	anti-parallel

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There are 6 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	199	200	first strand
Strand 2	C	183	190	anti-parallel
Strand 3	C	204	208	anti-parallel
Strand 4	C	214	218	anti-parallel
Strand 5	C	251	255	anti-parallel
Strand 6	C	241	246	anti-parallel

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There are 7 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	278	286	first strand
Strand 2	C	289	299	anti-parallel
Strand 3	C	317	319	anti-parallel
Strand 4	C	352	356	anti-parallel
Strand 5	C	339	343	anti-parallel
Strand 6	C	331	334	anti-parallel
Strand 7	C	278	286	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	I	24	25	first strand
Strand 2	I	32	33	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	24	25	first strand
Strand 2	X	32	33	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: 8SDM

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