Analysis of interatomic Contacts of Structural Units in PDB entry:
3GEF

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 3GEF entry

There are 8 chains in PDB entry 3GEF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 435	GLY 521
A	GLY 523	ASP 552
B	SER 435	GLY 521
B	GLY 523	ASP 552
C	SER 435	GLY 521
C	GLY 523	ASP 552
D	SER 435	GLY 521
D	GLY 523	ASP 552

There are 3 helices in PDB entry 3GEF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	501	503	Right-handed 310
Helix 2	2	B	501	503	Right-handed 310
Helix 3	3	C	501	503	Right-handed 310

There are 10 sheets in PDB entry 3GEF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J,

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	440	445	first strand
Strand 2	A	451	456	anti-parallel
Strand 3	A	494	499	anti-parallel
Strand 4	A	511	514	parallel

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There are 2 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	462	463	first strand
Strand 2	A	488	489	anti-parallel

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There are 8 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	479	482	first strand
Strand 2	B	468	473	anti-parallel
Strand 3	B	526	531	anti-parallel
Strand 4	B	537	551	anti-parallel
Strand 5	D	537	551	anti-parallel
Strand 6	D	525	531	anti-parallel
Strand 7	D	468	473	anti-parallel
Strand 8	D	479	482	anti-parallel

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There are 10 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	479	482	first strand
Strand 2	A	468	473	anti-parallel
Strand 3	A	525	531	anti-parallel
Strand 4	A	537	551	anti-parallel
Strand 5	B	537	551	anti-parallel
Strand 6	D	537	551	anti-parallel
Strand 7	C	537	551	anti-parallel
Strand 8	C	526	531	anti-parallel
Strand 9	C	468	473	anti-parallel
Strand 10	C	479	482	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	440	445	first strand
Strand 2	B	451	456	anti-parallel
Strand 3	B	494	499	anti-parallel
Strand 4	B	511	514	parallel

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There are 2 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	462	463	first strand
Strand 2	B	488	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	440	445	first strand
Strand 2	C	451	456	anti-parallel
Strand 3	C	494	499	anti-parallel
Strand 4	C	511	514	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	C	462	463	first strand
Strand 2	C	488	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	440	445	first strand
Strand 2	D	451	456	anti-parallel
Strand 3	D	494	499	anti-parallel
Strand 4	D	511	514	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	462	463	first strand
Strand 2	D	488	489	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: 3GEF

Analysis of interatomic Contacts of Structural Units in PDB entry:
3GEF