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

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 8QDE entry

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

Chain ID	Initial residue	Terminal residue
A	ASN 20	LEU 341
B	ASN 20	HIS 343
C	ASN 20	TYR 337
D	ASN 20	GLU 342

There are 52 helices in PDB entry 8QDE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	29	43	Right-handed alpha
Helix 2	AA2	A	54	68	Right-handed alpha
Helix 3	AA3	A	69	72	Right-handed 310
Helix 4	AA4	A	82	87	Right-handed 310
Helix 5	AA5	A	105	108	Right-handed 310
Helix 6	AA6	A	109	128	Right-handed alpha
Helix 7	AA7	A	139	152	Right-handed alpha
Helix 8	AA8	A	163	179	Right-handed alpha
Helix 9	AA9	A	228	245	Right-handed alpha
Helix 10	AB1	A	249	265	Right-handed alpha
Helix 11	AB2	A	279	283	Right-handed 310
Helix 12	AB3	A	309	328	Right-handed alpha
Helix 13	AB4	B	29	42	Right-handed alpha
Helix 14	AB5	B	54	68	Right-handed alpha
Helix 15	AB6	B	69	72	Right-handed 310
Helix 16	AB7	B	82	87	Right-handed 310
Helix 17	AB8	B	107	128	Right-handed alpha
Helix 18	AB9	B	139	152	Right-handed alpha
Helix 19	AC1	B	154	156	Right-handed 310
Helix 20	AC2	B	163	179	Right-handed alpha
Helix 21	AC3	B	201	203	Right-handed 310
Helix 22	AC4	B	211	215	Right-handed alpha
Helix 23	AC5	B	226	245	Right-handed alpha
Helix 24	AC6	B	249	265	Right-handed alpha
Helix 25	AC7	B	309	328	Right-handed alpha
Helix 26	AC8	C	29	41	Right-handed alpha
Helix 27	AC9	C	54	68	Right-handed alpha
Helix 28	AD1	C	69	72	Right-handed 310
Helix 29	AD2	C	82	87	Right-handed 310
Helix 30	AD3	C	113	128	Right-handed alpha
Helix 31	AD4	C	139	152	Right-handed alpha
Helix 32	AD5	C	154	156	Right-handed 310
Helix 33	AD6	C	163	179	Right-handed alpha
Helix 34	AD7	C	201	203	Right-handed 310
Helix 35	AD8	C	211	215	Right-handed alpha
Helix 36	AD9	C	226	245	Right-handed alpha
Helix 37	AE1	C	249	265	Right-handed alpha
Helix 38	AE2	C	279	283	Right-handed 310
Helix 39	AE3	C	309	327	Right-handed alpha
Helix 40	AE4	D	29	41	Right-handed alpha
Helix 41	AE5	D	54	68	Right-handed alpha
Helix 42	AE6	D	69	72	Right-handed 310
Helix 43	AE7	D	82	87	Right-handed 310
Helix 44	AE8	D	113	128	Right-handed alpha
Helix 45	AE9	D	139	152	Right-handed alpha
Helix 46	AF1	D	163	179	Right-handed alpha
Helix 47	AF2	D	211	215	Right-handed alpha
Helix 48	AF3	D	227	245	Right-handed alpha
Helix 49	AF4	D	249	265	Right-handed alpha
Helix 50	AF5	D	310	319	Right-handed alpha
Helix 51	AF6	D	320	322	Right-handed 310
Helix 52	AF7	D	326	330	Right-handed 310

There are 16 sheets in PDB entry 8QDE. 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,

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	76	79	first strand
Strand 2	A	47	51	parallel
Strand 3	A	22	26	parallel
Strand 4	A	91	94	parallel
Strand 5	A	132	135	parallel
Strand 6	A	158	160	parallel

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There are 3 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	185	186	first strand
Strand 2	A	205	206	anti-parallel
Strand 3	A	209	210	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	189	191	first strand
Strand 2	A	197	199	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	A	269	276	first strand
Strand 2	A	288	296	anti-parallel
Strand 3	A	299	303	anti-parallel

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There are 6 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	76	79	first strand
Strand 2	B	47	51	parallel
Strand 3	B	22	26	parallel
Strand 4	B	91	94	parallel
Strand 5	B	132	135	parallel
Strand 6	B	158	160	parallel

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There are 3 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	185	186	first strand
Strand 2	B	205	206	anti-parallel
Strand 3	B	209	210	anti-parallel

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There are 2 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	189	191	first strand
Strand 2	B	197	199	anti-parallel

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There are 3 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	269	276	first strand
Strand 2	B	288	296	anti-parallel
Strand 3	B	299	303	anti-parallel

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There are 6 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	76	79	first strand
Strand 2	C	47	51	parallel
Strand 3	C	22	26	parallel
Strand 4	C	91	94	parallel
Strand 5	C	132	135	parallel
Strand 6	C	158	160	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	C	185	186	first strand
Strand 2	C	205	206	anti-parallel
Strand 3	C	209	210	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	C	189	191	first strand
Strand 2	C	197	199	anti-parallel

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There are 3 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	269	276	first strand
Strand 2	C	288	296	anti-parallel
Strand 3	C	299	303	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	D	76	79	first strand
Strand 2	D	47	51	parallel
Strand 3	D	22	26	parallel
Strand 4	D	91	94	parallel
Strand 5	D	132	135	parallel
Strand 6	D	158	160	parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	185	186	first strand
Strand 2	D	205	206	anti-parallel
Strand 3	D	209	210	anti-parallel

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There are 2 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	189	191	first strand
Strand 2	D	197	199	anti-parallel

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There are 3 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	269	276	first strand
Strand 2	D	288	296	anti-parallel
Strand 3	D	299	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: 8QDE

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