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

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 8GKP entry

There are 4 chains in PDB entry 8GKP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
I	ARG 27	ASP 121
C	ALA 122	ALA 403
J	GLN 31	ASP 121
D	ALA 122	ALA 403

There are 19 helices in PDB entry 8GKP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	I	46	67	Right-handed alpha
Helix 2	AA2	I	96	105	Right-handed alpha
Helix 3	AA3	C	130	137	Right-handed alpha
Helix 4	AA4	C	192	203	Right-handed alpha
Helix 5	AA5	C	227	244	Right-handed alpha
Helix 6	AA6	C	261	274	Right-handed alpha
Helix 7	AA7	C	288	290	Right-handed 310
Helix 8	AA8	C	347	364	Right-handed alpha
Helix 9	AA9	C	370	382	Right-handed alpha
Helix 10	AB1	J	46	67	Right-handed alpha
Helix 11	AB2	J	96	106	Right-handed alpha
Helix 12	AB3	D	130	137	Right-handed alpha
Helix 13	AB4	D	169	173	Right-handed 310
Helix 14	AB5	D	192	203	Right-handed alpha
Helix 15	AB6	D	227	244	Right-handed alpha
Helix 16	AB7	D	261	274	Right-handed alpha
Helix 17	AB8	D	288	290	Right-handed 310
Helix 18	AB9	D	347	366	Right-handed alpha
Helix 19	AC1	D	370	382	Right-handed alpha

There are 12 sheets in PDB entry 8GKP. 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 5 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	78	85	first strand
Strand 2	I	88	94	anti-parallel
Strand 3	I	32	41	anti-parallel
Strand 4	I	109	119	anti-parallel
Strand 5	C	224	226	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	123	126	first strand
Strand 2	C	146	149	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	C	176	181	first strand
Strand 2	C	213	218	parallel
Strand 3	C	157	162	parallel
Strand 4	C	250	254	parallel
Strand 5	C	277	281	parallel
Strand 6	C	301	306	parallel
Strand 7	C	324	327	parallel

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There are 2 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	258	259	first strand
Strand 2	C	292	293	anti-parallel

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There are 2 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	331	334	first strand
Strand 2	C	342	345	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	C	383	384	first strand
Strand 2	C	396	397	anti-parallel

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There are 5 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	78	85	first strand
Strand 2	J	88	94	anti-parallel
Strand 3	J	32	41	anti-parallel
Strand 4	J	109	119	anti-parallel
Strand 5	D	224	226	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	123	126	first strand
Strand 2	D	146	149	anti-parallel

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There are 7 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	176	181	first strand
Strand 2	D	213	218	parallel
Strand 3	D	157	162	parallel
Strand 4	D	250	254	parallel
Strand 5	D	278	281	parallel
Strand 6	D	301	306	parallel
Strand 7	D	324	327	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	D	258	259	first strand
Strand 2	D	292	293	anti-parallel

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There are 2 strands in AB2 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	342	345	anti-parallel

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There are 2 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	383	384	first strand
Strand 2	D	396	397	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: 8GKP

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