Analysis of interatomic Contacts of Structural Units in PDB entry:
8UP2

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 8UP2 entry

There are 6 chains in PDB entry 8UP2 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 1	PRO 218
B	ASP 1	GLY 217
C	GLY 13	LEU 256
D	GLU 1	PRO 218
E	ASP 1	ARG 216
F	GLY 13	LEU 256

There are 28 helices in PDB entry 8UP2. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	28	32	Right-handed 310
Helix 2	AA2	A	62	65	Right-handed 310
Helix 3	AA3	A	74	76	Right-handed 310
Helix 4	AA4	A	87	91	Right-handed 310
Helix 5	AA5	A	161	163	Right-handed 310
Helix 6	AA6	A	190	195	Right-handed 310
Helix 7	AA7	A	206	209	Right-handed 310
Helix 8	AA8	B	84	88	Right-handed 310
Helix 9	AA9	B	126	132	Right-handed alpha
Helix 10	AB1	B	188	194	Right-handed alpha
Helix 11	AB2	C	15	22	Right-handed alpha
Helix 12	AB3	C	64	68	Right-handed 310
Helix 13	AB4	C	140	144	Right-handed 310
Helix 14	AB5	C	186	190	Right-handed 310
Helix 15	AB6	D	28	32	Right-handed 310
Helix 16	AB7	D	62	65	Right-handed 310
Helix 17	AB8	D	74	76	Right-handed 310
Helix 18	AB9	D	87	91	Right-handed 310
Helix 19	AC1	D	161	163	Right-handed 310
Helix 20	AC2	D	190	194	Right-handed 310
Helix 21	AC3	D	206	209	Right-handed 310
Helix 22	AC4	E	84	88	Right-handed 310
Helix 23	AC5	E	126	132	Right-handed alpha
Helix 24	AC6	E	188	194	Right-handed alpha
Helix 25	AC7	F	15	22	Right-handed alpha
Helix 26	AC8	F	64	68	Right-handed 310
Helix 27	AC9	F	140	144	Right-handed 310
Helix 28	AD1	F	186	190	Right-handed 310

There are 28 sheets in PDB entry 8UP2. 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, AC6, AC7, AC8, AC9, AD1,

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	A	3	6	first strand
Strand 2	A	18	25	anti-parallel
Strand 3	A	78	83	anti-parallel
Strand 4	A	68	73	anti-parallel

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There are 6 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	10	12	first strand
Strand 2	A	112	116	parallel
Strand 3	A	92	98	anti-parallel
Strand 4	A	34	39	anti-parallel
Strand 5	A	45	51	anti-parallel
Strand 6	A	58	60	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	A	125	129	first strand
Strand 2	A	142	150	anti-parallel
Strand 3	A	181	188	anti-parallel
Strand 4	A	168	170	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	125	129	first strand
Strand 2	A	142	150	anti-parallel
Strand 3	A	181	188	anti-parallel
Strand 4	A	174	175	anti-parallel

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There are 3 strands in AA5 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	200	205	anti-parallel
Strand 3	A	210	215	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	B	4	7	first strand
Strand 2	B	19	25	anti-parallel
Strand 3	B	75	80	anti-parallel
Strand 4	B	67	72	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	B	10	14	first strand
Strand 2	B	107	112	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	38	43	anti-parallel
Strand 5	B	50	54	anti-parallel
Strand 6	B	58	59	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	B	10	14	first strand
Strand 2	B	107	112	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	102	103	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	B	30	32	first strand
Strand 2	B	35	36	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	119	123	first strand
Strand 2	B	134	144	anti-parallel
Strand 3	B	178	187	anti-parallel
Strand 4	B	164	168	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	158	159	first strand
Strand 2	B	150	155	anti-parallel
Strand 3	B	196	202	anti-parallel
Strand 4	B	210	215	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	C	34	35	first strand
Strand 2	C	62	63	anti-parallel

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There are 6 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	53	57	first strand
Strand 2	C	45	50	anti-parallel
Strand 3	C	73	84	anti-parallel
Strand 4	C	87	100	anti-parallel
Strand 5	C	104	116	anti-parallel
Strand 6	C	122	136	anti-parallel

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There are 9 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	149	158	first strand
Strand 2	C	161	171	anti-parallel
Strand 3	C	176	182	anti-parallel
Strand 4	C	192	200	anti-parallel
Strand 5	C	206	214	anti-parallel
Strand 6	C	217	227	anti-parallel
Strand 7	C	233	242	anti-parallel
Strand 8	C	245	254	anti-parallel
Strand 9	C	149	158	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	3	6	first strand
Strand 2	D	18	25	anti-parallel
Strand 3	D	78	83	anti-parallel
Strand 4	D	68	73	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	10	12	first strand
Strand 2	D	112	116	parallel
Strand 3	D	92	98	anti-parallel
Strand 4	D	34	39	anti-parallel
Strand 5	D	45	51	anti-parallel
Strand 6	D	58	60	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	125	129	first strand
Strand 2	D	142	150	anti-parallel
Strand 3	D	181	188	anti-parallel
Strand 4	D	168	170	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	125	129	first strand
Strand 2	D	142	150	anti-parallel
Strand 3	D	181	188	anti-parallel
Strand 4	D	174	175	anti-parallel

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There are 3 strands in AC1 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	199	205	anti-parallel
Strand 3	D	210	216	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	4	7	first strand
Strand 2	E	19	25	anti-parallel
Strand 3	E	75	80	anti-parallel
Strand 4	E	67	72	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	E	10	14	first strand
Strand 2	E	107	112	parallel
Strand 3	E	89	95	anti-parallel
Strand 4	E	38	43	anti-parallel
Strand 5	E	50	54	anti-parallel
Strand 6	E	58	59	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	14	first strand
Strand 2	E	107	112	parallel
Strand 3	E	89	95	anti-parallel
Strand 4	E	102	103	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	E	30	32	first strand
Strand 2	E	35	36	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	119	123	first strand
Strand 2	E	134	144	anti-parallel
Strand 3	E	178	187	anti-parallel
Strand 4	E	164	168	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	158	159	first strand
Strand 2	E	150	155	anti-parallel
Strand 3	E	196	202	anti-parallel
Strand 4	E	210	215	anti-parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	34	35	first strand
Strand 2	F	62	63	anti-parallel

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There are 6 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	53	57	first strand
Strand 2	F	45	50	anti-parallel
Strand 3	F	73	84	anti-parallel
Strand 4	F	87	100	anti-parallel
Strand 5	F	104	115	anti-parallel
Strand 6	F	123	136	anti-parallel

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There are 9 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	149	158	first strand
Strand 2	F	161	171	anti-parallel
Strand 3	F	176	182	anti-parallel
Strand 4	F	192	200	anti-parallel
Strand 5	F	206	214	anti-parallel
Strand 6	F	217	227	anti-parallel
Strand 7	F	233	242	anti-parallel
Strand 8	F	245	254	anti-parallel
Strand 9	F	149	158	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: 8UP2

Analysis of interatomic Contacts of Structural Units in PDB entry:
8UP2