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

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 8UPA entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 1	GLY 56
B	GLY 122	ALA 323
C	ASP 1	GLY 56
D	ASP 121	THR 321

There are 10 helices in PDB entry 8UPA. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	1	20	Right-handed alpha
Helix 2	AA2	A	21	40	Right-handed alpha
Helix 3	AA3	A	41	56	Right-handed alpha
Helix 4	AA4	B	215	218	Right-handed 310
Helix 5	AA5	B	247	252	Right-handed 310
Helix 6	AA6	C	2	20	Right-handed alpha
Helix 7	AA7	C	21	39	Right-handed alpha
Helix 8	AA8	C	41	56	Right-handed alpha
Helix 9	AA9	D	215	218	Right-handed 310
Helix 10	AB1	D	247	252	Right-handed 310

There are 10 sheets in PDB entry 8UPA. 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	B	181	183	first strand
Strand 2	B	143	147	anti-parallel
Strand 3	B	130	137	anti-parallel
Strand 4	B	220	221	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	B	167	168	first strand
Strand 2	B	157	164	anti-parallel
Strand 3	B	194	202	anti-parallel
Strand 4	B	205	208	anti-parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	172	173	first strand
Strand 2	B	157	164	anti-parallel
Strand 3	B	194	202	anti-parallel
Strand 4	B	212	214	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	B	226	230	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	283	286	anti-parallel

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There are 4 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	270	271	first strand
Strand 2	B	255	263	anti-parallel
Strand 3	B	294	303	anti-parallel
Strand 4	B	317	320	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	D	181	183	first strand
Strand 2	D	142	147	anti-parallel
Strand 3	D	130	137	anti-parallel
Strand 4	D	220	221	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	D	167	168	first strand
Strand 2	D	157	164	anti-parallel
Strand 3	D	194	202	anti-parallel
Strand 4	D	205	208	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	D	172	173	first strand
Strand 2	D	157	164	anti-parallel
Strand 3	D	194	202	anti-parallel
Strand 4	D	212	214	anti-parallel

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There are 3 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	226	229	first strand
Strand 2	D	240	245	anti-parallel
Strand 3	D	283	286	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	D	270	271	first strand
Strand 2	D	255	261	anti-parallel
Strand 3	D	297	303	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: 8UPA

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