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

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 8DED entry

There are 10 chains in PDB entry 8DED (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PHE 1	ASP 395
B	PRO 14	GLN 344
F	PHE 1	ASP 395
G	PRO 14	GLN 344
J	PHE 1	ASP 395
K	PRO 14	GLN 344
H	GLU 1	SER 130
L	ASP 1	LYS 112
U	GLU 1	SER 130
V	ASP 1	LYS 112

There are 23 helices in PDB entry 8DED. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	238	246	Right-handed alpha
Helix 2	AA2	A	250	255	Right-handed alpha
Helix 3	AA3	A	256	259	Right-handed 310
Helix 4	AA4	A	283	287	Right-handed 310
Helix 5	AA5	B	225	227	Right-handed 310
Helix 6	AA6	F	238	246	Right-handed alpha
Helix 7	AA7	F	255	259	Right-handed 310
Helix 8	AA8	F	283	287	Right-handed 310
Helix 9	AA9	G	225	229	Right-handed 310
Helix 10	AB1	J	238	246	Right-handed alpha
Helix 11	AB2	J	250	255	Right-handed alpha
Helix 12	AB3	J	256	259	Right-handed 310
Helix 13	AB4	J	283	287	Right-handed 310
Helix 14	AB5	J	289	293	Right-handed 310
Helix 15	AB6	K	225	227	Right-handed 310
Helix 16	AB7	H	28	32	Right-handed 310
Helix 17	AB8	H	61	64	Right-handed 310
Helix 18	AB9	H	86	90	Right-handed 310
Helix 19	AC1	L	84	88	Right-handed 310
Helix 20	AC2	U	28	32	Right-handed 310
Helix 21	AC3	U	61	64	Right-handed 310
Helix 22	AC4	U	86	90	Right-handed 310
Helix 23	AC5	V	84	88	Right-handed 310

There are 66 sheets in PDB entry 8DED. 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, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2, AE3, AE4, AE5, AE6, AE7, AE8, AE9, AF1, AF2, AF3, AF4, AF5, AF6, AF7, AF8, AF9, AG1, AG2, AG3, AG4, AG5, AG6, AG7, AG8, AG9, AH1, AH2, AH3,

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	2	8	first strand
Strand 2	A	275	281	anti-parallel
Strand 3	A	159	163	anti-parallel
Strand 4	A	153	156	anti-parallel

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There are 5 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	14	19	first strand
Strand 2	A	27	48	anti-parallel
Strand 3	A	119	137	anti-parallel
Strand 4	A	176	180	anti-parallel
Strand 5	A	183	185	anti-parallel

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There are 5 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	140	147	first strand
Strand 2	A	119	137	anti-parallel
Strand 3	A	27	48	anti-parallel
Strand 4	A	267	269	anti-parallel
Strand 5	A	260	262	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	51	54	first strand
Strand 2	A	102	110	anti-parallel
Strand 3	A	59	60	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	51	54	first strand
Strand 2	A	102	110	anti-parallel
Strand 3	A	77	81	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	A	203	204	first strand
Strand 2	A	214	215	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	A	220	221	first strand
Strand 2	A	233	234	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	A	296	306	first strand
Strand 2	A	314	322	anti-parallel
Strand 3	A	349	358	anti-parallel
Strand 4	A	337	339	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	343	346	first strand
Strand 2	A	326	332	anti-parallel
Strand 3	A	362	369	anti-parallel
Strand 4	A	372	379	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	387	388	first strand
Strand 2	B	339	343	anti-parallel
Strand 3	B	329	333	anti-parallel
Strand 4	B	285	302	anti-parallel
Strand 5	B	278	282	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	387	388	first strand
Strand 2	B	339	343	anti-parallel
Strand 3	B	329	333	anti-parallel
Strand 4	B	285	302	anti-parallel
Strand 5	B	310	323	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	B	17	19	first strand
Strand 2	B	28	30	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	34	38	first strand
Strand 2	B	45	56	anti-parallel
Strand 3	B	62	70	anti-parallel
Strand 4	B	78	82	anti-parallel

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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	34	38	first strand
Strand 2	B	45	56	anti-parallel
Strand 3	B	93	107	anti-parallel
Strand 4	B	86	89	anti-parallel
Strand 5	B	111	120	anti-parallel
Strand 6	B	123	133	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	B	151	158	first strand
Strand 2	B	264	271	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	B	240	241	first strand
Strand 2	B	168	172	anti-parallel
Strand 3	B	256	259	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	183	186	first strand
Strand 2	B	189	192	anti-parallel
Strand 3	B	218	219	anti-parallel

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There are 3 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	209	214	first strand
Strand 2	B	200	205	anti-parallel
Strand 3	B	229	233	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2	8	first strand
Strand 2	F	275	281	anti-parallel
Strand 3	F	159	163	anti-parallel
Strand 4	F	153	156	anti-parallel

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There are 5 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	14	19	first strand
Strand 2	F	27	48	anti-parallel
Strand 3	F	119	137	anti-parallel
Strand 4	F	176	180	anti-parallel
Strand 5	F	183	185	anti-parallel

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There are 5 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	140	147	first strand
Strand 2	F	119	137	anti-parallel
Strand 3	F	27	48	anti-parallel
Strand 4	F	267	269	anti-parallel
Strand 5	F	260	262	anti-parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	51	54	first strand
Strand 2	F	102	110	anti-parallel
Strand 3	F	59	60	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	51	54	first strand
Strand 2	F	102	110	anti-parallel
Strand 3	F	74	81	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	203	204	first strand
Strand 2	F	214	215	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	220	221	first strand
Strand 2	F	233	234	anti-parallel

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There are 4 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	296	306	first strand
Strand 2	F	314	322	anti-parallel
Strand 3	F	349	358	anti-parallel
Strand 4	F	337	339	anti-parallel

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There are 3 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	330	332	first strand
Strand 2	F	362	369	anti-parallel
Strand 3	F	372	379	anti-parallel

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There are 5 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	387	388	first strand
Strand 2	G	339	343	anti-parallel
Strand 3	G	329	333	anti-parallel
Strand 4	G	285	302	anti-parallel
Strand 5	G	278	282	anti-parallel

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There are 5 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	387	388	first strand
Strand 2	G	339	343	anti-parallel
Strand 3	G	329	333	anti-parallel
Strand 4	G	285	302	anti-parallel
Strand 5	G	310	323	anti-parallel

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There are 2 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	17	19	first strand
Strand 2	G	28	30	anti-parallel

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There are 7 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	34	38	first strand
Strand 2	G	45	50	anti-parallel
Strand 3	G	103	107	anti-parallel
Strand 4	G	93	100	anti-parallel
Strand 5	G	86	89	anti-parallel
Strand 6	G	111	120	anti-parallel
Strand 7	G	123	133	anti-parallel

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There are 2 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	66	70	first strand
Strand 2	G	78	82	anti-parallel

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There are 2 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	151	158	first strand
Strand 2	G	264	271	anti-parallel

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There are 3 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	240	241	first strand
Strand 2	G	168	172	anti-parallel
Strand 3	G	256	259	anti-parallel

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There are 3 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	183	186	first strand
Strand 2	G	189	192	anti-parallel
Strand 3	G	218	219	anti-parallel

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There are 3 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	209	214	first strand
Strand 2	G	200	205	anti-parallel
Strand 3	G	230	233	anti-parallel

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There are 4 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	2	8	first strand
Strand 2	J	275	281	anti-parallel
Strand 3	J	159	163	anti-parallel
Strand 4	J	153	156	anti-parallel

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There are 5 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	14	19	first strand
Strand 2	J	27	48	anti-parallel
Strand 3	J	119	137	anti-parallel
Strand 4	J	176	180	anti-parallel
Strand 5	J	183	185	anti-parallel

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There are 5 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	140	147	first strand
Strand 2	J	119	137	anti-parallel
Strand 3	J	27	48	anti-parallel
Strand 4	J	267	269	anti-parallel
Strand 5	J	260	262	anti-parallel

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There are 3 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	51	54	first strand
Strand 2	J	102	110	anti-parallel
Strand 3	J	59	60	anti-parallel

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There are 3 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	51	54	first strand
Strand 2	J	102	110	anti-parallel
Strand 3	J	74	81	anti-parallel

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There are 2 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	203	204	first strand
Strand 2	J	214	215	anti-parallel

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There are 2 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	220	221	first strand
Strand 2	J	233	234	anti-parallel

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There are 4 strands in AE8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	296	306	first strand
Strand 2	J	314	322	anti-parallel
Strand 3	J	349	358	anti-parallel
Strand 4	J	337	339	anti-parallel

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There are 3 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	330	332	first strand
Strand 2	J	362	369	anti-parallel
Strand 3	J	372	379	anti-parallel

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There are 5 strands in AF1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	387	388	first strand
Strand 2	K	339	343	anti-parallel
Strand 3	K	329	333	anti-parallel
Strand 4	K	285	302	anti-parallel
Strand 5	K	278	282	anti-parallel

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There are 5 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	387	388	first strand
Strand 2	K	339	343	anti-parallel
Strand 3	K	329	333	anti-parallel
Strand 4	K	285	302	anti-parallel
Strand 5	K	310	323	anti-parallel

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There are 2 strands in AF3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	17	19	first strand
Strand 2	K	28	30	anti-parallel

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There are 6 strands in AF4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	34	38	first strand
Strand 2	K	45	54	anti-parallel
Strand 3	K	93	107	anti-parallel
Strand 4	K	86	89	anti-parallel
Strand 5	K	111	120	anti-parallel
Strand 6	K	123	133	anti-parallel

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There are 2 strands in AF5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	66	70	first strand
Strand 2	K	78	82	anti-parallel

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There are 2 strands in AF6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	151	158	first strand
Strand 2	K	264	271	anti-parallel

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There are 3 strands in AF7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	240	241	first strand
Strand 2	K	168	172	anti-parallel
Strand 3	K	256	259	anti-parallel

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There are 3 strands in AF8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	183	186	first strand
Strand 2	K	189	192	anti-parallel
Strand 3	K	218	219	anti-parallel

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There are 3 strands in AF9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	209	214	first strand
Strand 2	K	200	205	anti-parallel
Strand 3	K	229	233	anti-parallel

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There are 4 strands in AG1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3	7	first strand
Strand 2	H	18	25	anti-parallel
Strand 3	H	77	82	anti-parallel
Strand 4	H	67	72	anti-parallel

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There are 6 strands in AG2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	12	first strand
Strand 2	H	124	128	parallel
Strand 3	H	91	98	anti-parallel
Strand 4	H	34	39	anti-parallel
Strand 5	H	45	51	anti-parallel
Strand 6	H	57	59	anti-parallel

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There are 4 strands in AG3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	12	first strand
Strand 2	H	124	128	parallel
Strand 3	H	91	98	anti-parallel
Strand 4	H	117	120	anti-parallel

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There are 2 strands in AG4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	104	105	first strand
Strand 2	H	108	109	anti-parallel

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There are 4 strands in AG5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	4	7	first strand
Strand 2	L	19	25	anti-parallel
Strand 3	L	75	80	anti-parallel
Strand 4	L	67	72	anti-parallel

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There are 6 strands in AG6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	13	first strand
Strand 2	L	107	111	parallel
Strand 3	L	89	95	anti-parallel
Strand 4	L	38	43	anti-parallel
Strand 5	L	50	54	anti-parallel
Strand 6	L	58	59	anti-parallel

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There are 4 strands in AG7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	3	7	first strand
Strand 2	U	18	25	anti-parallel
Strand 3	U	77	82	anti-parallel
Strand 4	U	67	72	anti-parallel

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There are 6 strands in AG8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	10	12	first strand
Strand 2	U	124	128	parallel
Strand 3	U	91	98	anti-parallel
Strand 4	U	34	39	anti-parallel
Strand 5	U	45	51	anti-parallel
Strand 6	U	57	59	anti-parallel

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There are 4 strands in AG9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	10	12	first strand
Strand 2	U	124	128	parallel
Strand 3	U	91	98	anti-parallel
Strand 4	U	117	120	anti-parallel

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There are 2 strands in AH1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	104	105	first strand
Strand 2	U	108	109	anti-parallel

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There are 4 strands in AH2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	V	4	7	first strand
Strand 2	V	19	25	anti-parallel
Strand 3	V	75	80	anti-parallel
Strand 4	V	67	72	anti-parallel

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There are 6 strands in AH3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	V	10	13	first strand
Strand 2	V	107	111	parallel
Strand 3	V	89	95	anti-parallel
Strand 4	V	38	43	anti-parallel
Strand 5	V	50	54	anti-parallel
Strand 6	V	58	59	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: 8DED

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