Analysis of interatomic Contacts of Structural Units in PDB entry:
5DN2

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 5DN2 entry

There are 7 chains in PDB entry 5DN2 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 274	VAL 429
B	MET 274	VAL 429
C	MET 274	VAL 429
D	MET 274	VAL 429
F	LYS 229	ARG 232
G	LYS 229	ARG 232
E	CYS 225	ARG 232

There are 8 helices in PDB entry 5DN2. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	289	291	Right-handed 310
Helix 2	AA2	A	305	309	Right-handed 310
Helix 3	AA3	B	289	291	Right-handed 310
Helix 4	AA4	B	305	309	Right-handed 310
Helix 5	AA5	C	289	291	Right-handed 310
Helix 6	AA6	C	305	309	Right-handed 310
Helix 7	AA7	D	289	291	Right-handed 310
Helix 8	AA8	D	305	309	Right-handed 310

There are 16 sheets in PDB entry 5DN2. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	293	295	first strand
Strand 2	A	329	332	anti-parallel
Strand 3	A	406	411	anti-parallel
Strand 4	A	361	366	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	402	404	first strand
Strand 2	A	337	345	anti-parallel
Strand 3	A	421	428	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	341	344	first strand
Strand 2	A	394	397	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	357	360	first strand
Strand 2	A	413	415	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	293	295	first strand
Strand 2	B	329	332	anti-parallel
Strand 3	B	406	411	anti-parallel
Strand 4	B	361	366	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	402	404	first strand
Strand 2	B	337	345	anti-parallel
Strand 3	B	421	428	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	341	344	first strand
Strand 2	B	394	397	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	357	360	first strand
Strand 2	B	413	415	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	293	295	first strand
Strand 2	C	329	332	anti-parallel
Strand 3	C	406	411	anti-parallel
Strand 4	C	360	366	anti-parallel
Strand 5	C	383	385	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	402	404	first strand
Strand 2	C	337	345	anti-parallel
Strand 3	C	421	427	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	341	344	first strand
Strand 2	C	394	397	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	357	360	first strand
Strand 2	C	413	415	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	293	295	first strand
Strand 2	D	329	332	anti-parallel
Strand 3	D	406	411	anti-parallel
Strand 4	D	361	366	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	402	404	first strand
Strand 2	D	337	345	anti-parallel
Strand 3	D	421	427	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	341	344	first strand
Strand 2	D	394	397	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	357	360	first strand
Strand 2	D	413	415	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: 5DN2

Analysis of interatomic Contacts of Structural Units in PDB entry:
5DN2