Analysis of interatomic Contacts of Structural Units in PDB entry:
8UP3

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 8UP3 entry

There are 8 chains in PDB entry 8UP3 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 6	ASP 169
B	SER 4	ILE 168
C	SER 6	ASP 169
D	SER 6	ASP 170
E	PRO 5	ILE 168
F	SER 6	ILE 168
G	SER 6	ILE 168
H	PRO 5	ILE 168

There are 56 helices in PDB entry 8UP3. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	15	17	Right-handed 310
Helix 2	AA2	A	33	42	Right-handed alpha
Helix 3	AA3	A	62	75	Right-handed alpha
Helix 4	AA4	A	89	99	Right-handed alpha
Helix 5	AA5	A	100	104	Right-handed 310
Helix 6	AA6	A	123	138	Right-handed alpha
Helix 7	AA7	A	152	154	Right-handed 310
Helix 8	AA8	B	23	26	Right-handed 310
Helix 9	AA9	B	33	42	Right-handed alpha
Helix 10	AB1	B	57	61	Right-handed 310
Helix 11	AB2	B	62	76	Right-handed alpha
Helix 12	AB3	B	89	99	Right-handed alpha
Helix 13	AB4	B	100	104	Right-handed 310
Helix 14	AB5	B	123	138	Right-handed alpha
Helix 15	AB6	B	152	154	Right-handed 310
Helix 16	AB7	C	33	42	Right-handed alpha
Helix 17	AB8	C	62	76	Right-handed alpha
Helix 18	AB9	C	89	99	Right-handed alpha
Helix 19	AC1	C	100	104	Right-handed 310
Helix 20	AC2	C	123	138	Right-handed alpha
Helix 21	AC3	C	152	154	Right-handed 310
Helix 22	AC4	D	15	17	Right-handed 310
Helix 23	AC5	D	33	42	Right-handed alpha
Helix 24	AC6	D	62	76	Right-handed alpha
Helix 25	AC7	D	89	99	Right-handed alpha
Helix 26	AC8	D	100	104	Right-handed 310
Helix 27	AC9	D	123	138	Right-handed alpha
Helix 28	AD1	D	152	154	Right-handed 310
Helix 29	AD2	E	33	41	Right-handed alpha
Helix 30	AD3	E	57	61	Right-handed 310
Helix 31	AD4	E	62	76	Right-handed alpha
Helix 32	AD5	E	89	99	Right-handed alpha
Helix 33	AD6	E	100	104	Right-handed 310
Helix 34	AD7	E	123	138	Right-handed alpha
Helix 35	AD8	E	152	154	Right-handed 310
Helix 36	AD9	F	33	41	Right-handed alpha
Helix 37	AE1	F	57	61	Right-handed 310
Helix 38	AE2	F	62	76	Right-handed alpha
Helix 39	AE3	F	89	98	Right-handed alpha
Helix 40	AE4	F	99	104	Right-handed 310
Helix 41	AE5	F	123	138	Right-handed alpha
Helix 42	AE6	F	152	154	Right-handed 310
Helix 43	AE7	G	23	26	Right-handed 310
Helix 44	AE8	G	33	41	Right-handed alpha
Helix 45	AE9	G	62	75	Right-handed alpha
Helix 46	AF1	G	89	99	Right-handed alpha
Helix 47	AF2	G	100	104	Right-handed 310
Helix 48	AF3	G	123	138	Right-handed alpha
Helix 49	AF4	G	152	154	Right-handed 310
Helix 50	AF5	H	23	26	Right-handed 310
Helix 51	AF6	H	33	41	Right-handed alpha
Helix 52	AF7	H	62	76	Right-handed alpha
Helix 53	AF8	H	89	99	Right-handed alpha
Helix 54	AF9	H	100	104	Right-handed 310
Helix 55	AG1	H	123	138	Right-handed alpha
Helix 56	AG2	H	152	154	Right-handed 310

There are 23 sheets in PDB entry 8UP3. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5,

There are 6 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	51	52	first strand
Strand 2	A	8	12	parallel
Strand 3	A	80	84	parallel
Strand 4	A	107	111	parallel
Strand 5	A	141	146	parallel
Strand 6	A	149	151	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	A	19	22	first strand
Strand 2	A	27	30	anti-parallel

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There are 2 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	156	159	first strand
Strand 2	A	164	167	anti-parallel

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There are 6 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	49	56	first strand
Strand 2	B	8	14	parallel
Strand 3	B	80	84	parallel
Strand 4	B	107	111	parallel
Strand 5	B	141	146	parallel
Strand 6	B	149	151	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	B	19	22	first strand
Strand 2	B	27	30	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	B	156	159	first strand
Strand 2	B	164	167	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	49	56	first strand
Strand 2	C	9	14	parallel
Strand 3	C	80	84	parallel
Strand 4	C	107	111	parallel
Strand 5	C	141	146	parallel
Strand 6	C	149	151	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	C	19	22	first strand
Strand 2	C	27	30	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	C	156	159	first strand
Strand 2	C	164	167	anti-parallel

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There are 12 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	149	151	first strand
Strand 2	D	141	146	anti-parallel
Strand 3	D	107	111	parallel
Strand 4	D	80	84	parallel
Strand 5	D	8	12	parallel
Strand 6	D	48	52	parallel
Strand 7	E	48	56	parallel
Strand 8	E	8	14	parallel
Strand 9	E	80	84	parallel
Strand 10	E	107	111	parallel
Strand 11	E	141	146	parallel
Strand 12	E	149	151	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	19	22	first strand
Strand 2	D	27	30	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	156	159	first strand
Strand 2	D	164	167	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	19	22	first strand
Strand 2	E	27	30	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	156	159	first strand
Strand 2	E	164	167	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	48	56	first strand
Strand 2	F	8	14	parallel
Strand 3	F	80	84	parallel
Strand 4	F	107	111	parallel
Strand 5	F	141	146	parallel
Strand 6	F	149	151	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	19	22	first strand
Strand 2	F	27	30	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	156	159	first strand
Strand 2	F	164	167	anti-parallel

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There are 6 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	49	56	first strand
Strand 2	G	8	14	parallel
Strand 3	G	80	84	parallel
Strand 4	G	107	111	parallel
Strand 5	G	141	146	parallel
Strand 6	G	149	151	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	19	22	first strand
Strand 2	G	27	30	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	156	159	first strand
Strand 2	G	164	167	anti-parallel

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There are 6 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	48	56	first strand
Strand 2	H	8	14	parallel
Strand 3	H	80	84	parallel
Strand 4	H	107	111	parallel
Strand 5	H	141	146	parallel
Strand 6	H	149	151	anti-parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	19	22	first strand
Strand 2	H	27	30	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	156	159	first strand
Strand 2	H	164	167	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: 8UP3

Analysis of interatomic Contacts of Structural Units in PDB entry:
8UP3