Analysis of interatomic Contacts of Structural Units in PDB entry:
6VMJ

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 6VMJ entry

There are 7 chains in PDB entry 6VMJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 1	GLU 213
B	GLU 1	PRO 213
E	ASP 1	GLU 213
F	GLU 1	PRO 213
I	ASP 1	GLU 213
J	GLU 1	PRO 213
L	ASP 1	TYR 49

There are 40 helices in PDB entry 6VMJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	79	83	Right-handed 310
Helix 2	AA2	A	121	126	Right-handed alpha
Helix 3	AA3	A	183	188	Right-handed alpha
Helix 4	AA4	B	28	32	Right-handed 310
Helix 5	AA5	B	60	65	Right-handed alpha
Helix 6	AA6	B	83	87	Right-handed 310
Helix 7	AA7	E	79	83	Right-handed 310
Helix 8	AA8	E	121	127	Right-handed alpha
Helix 9	AA9	E	183	187	Right-handed alpha
Helix 10	AB1	F	28	32	Right-handed 310
Helix 11	AB2	F	60	65	Right-handed alpha
Helix 12	AB3	F	83	87	Right-handed 310
Helix 13	AB4	F	156	158	Right-handed 310
Helix 14	AB5	F	187	189	Right-handed 310
Helix 15	AB6	I	79	83	Right-handed 310
Helix 16	AB7	I	121	126	Right-handed alpha
Helix 17	AB8	I	183	189	Right-handed alpha
Helix 18	AB9	J	28	32	Right-handed 310
Helix 19	AC1	J	60	65	Right-handed alpha
Helix 20	AC2	J	83	87	Right-handed 310
Helix 21	AC3	J	156	158	Right-handed 310
Helix 22	AC4	J	187	189	Right-handed 310
Helix 23	AC5	L	79	83	Right-handed 310
Helix 24	AC6	L	121	127	Right-handed alpha
Helix 25	AC7	L	183	187	Right-handed alpha
Helix 26	AC8	M	28	32	Right-handed 310
Helix 27	AC9	M	60	65	Right-handed alpha
Helix 28	AD1	M	83	87	Right-handed 310
Helix 29	AD2	M	156	158	Right-handed 310
Helix 30	AD3	W	55	60	Right-handed 310
Helix 31	AD4	W	164	170	Right-handed alpha
Helix 32	AD5	W	234	243	Right-handed alpha
Helix 33	AD6	X	55	60	Right-handed 310
Helix 34	AD7	X	164	170	Right-handed alpha
Helix 35	AD8	X	234	243	Right-handed alpha
Helix 36	AD9	Y	55	60	Right-handed 310
Helix 37	AE1	Y	164	169	Right-handed alpha
Helix 38	AE2	Y	234	243	Right-handed alpha
Helix 39	AE3	Z	164	169	Right-handed alpha
Helix 40	AE4	Z	234	243	Right-handed alpha

There are 48 sheets in PDB entry 6VMJ. 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,

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	4	7	first strand
Strand 2	A	19	25	anti-parallel
Strand 3	A	70	75	anti-parallel
Strand 4	A	62	65	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	13	first strand
Strand 2	A	102	106	parallel
Strand 3	A	85	90	anti-parallel
Strand 4	A	33	38	anti-parallel
Strand 5	A	45	49	anti-parallel
Strand 6	A	53	54	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	10	13	first strand
Strand 2	A	102	106	parallel
Strand 3	A	85	90	anti-parallel
Strand 4	A	97	98	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	114	118	first strand
Strand 2	A	129	139	anti-parallel
Strand 3	A	173	182	anti-parallel
Strand 4	A	159	163	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	144	150	first strand
Strand 2	A	191	198	anti-parallel
Strand 3	A	205	210	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	3	6	first strand
Strand 2	B	18	25	anti-parallel
Strand 3	B	77	82	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	12	first strand
Strand 2	B	107	111	parallel
Strand 3	B	88	95	anti-parallel
Strand 4	B	33	39	anti-parallel
Strand 5	B	46	51	anti-parallel
Strand 6	B	57	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	120	124	first strand
Strand 2	B	135	143	anti-parallel
Strand 3	B	180	185	anti-parallel
Strand 4	B	164	165	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	B	151	154	first strand
Strand 2	B	194	200	anti-parallel
Strand 3	B	205	211	anti-parallel

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There are 2 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	169	170	first strand
Strand 2	B	176	177	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	E	4	7	first strand
Strand 2	E	19	25	anti-parallel
Strand 3	E	70	75	anti-parallel
Strand 4	E	62	65	anti-parallel

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There are 6 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	13	first strand
Strand 2	E	102	106	parallel
Strand 3	E	85	90	anti-parallel
Strand 4	E	33	38	anti-parallel
Strand 5	E	45	49	anti-parallel
Strand 6	E	53	54	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	E	10	13	first strand
Strand 2	E	102	106	parallel
Strand 3	E	85	90	anti-parallel
Strand 4	E	97	98	anti-parallel

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There are 4 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	114	118	first strand
Strand 2	E	129	139	anti-parallel
Strand 3	E	173	182	anti-parallel
Strand 4	E	159	160	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	E	153	155	first strand
Strand 2	E	145	150	anti-parallel
Strand 3	E	191	197	anti-parallel
Strand 4	E	205	210	anti-parallel

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There are 4 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	3	6	first strand
Strand 2	F	18	25	anti-parallel
Strand 3	F	77	82	anti-parallel
Strand 4	F	67	72	anti-parallel

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There are 6 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	10	12	first strand
Strand 2	F	107	111	parallel
Strand 3	F	88	95	anti-parallel
Strand 4	F	33	39	anti-parallel
Strand 5	F	46	51	anti-parallel
Strand 6	F	57	59	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	F	120	124	first strand
Strand 2	F	135	145	anti-parallel
Strand 3	F	176	185	anti-parallel
Strand 4	F	164	165	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	120	124	first strand
Strand 2	F	135	145	anti-parallel
Strand 3	F	176	185	anti-parallel
Strand 4	F	169	170	anti-parallel

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There are 3 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	151	154	first strand
Strand 2	F	194	200	anti-parallel
Strand 3	F	205	211	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	7	first strand
Strand 2	I	19	25	anti-parallel
Strand 3	I	70	75	anti-parallel
Strand 4	I	62	65	anti-parallel

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There are 6 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	13	first strand
Strand 2	I	102	106	parallel
Strand 3	I	85	90	anti-parallel
Strand 4	I	33	38	anti-parallel
Strand 5	I	45	49	anti-parallel
Strand 6	I	53	54	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	13	first strand
Strand 2	I	102	106	parallel
Strand 3	I	85	90	anti-parallel
Strand 4	I	97	98	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	I	114	118	first strand
Strand 2	I	129	139	anti-parallel
Strand 3	I	173	182	anti-parallel
Strand 4	I	159	163	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	I	153	154	first strand
Strand 2	I	145	150	anti-parallel
Strand 3	I	191	197	anti-parallel
Strand 4	I	205	210	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	J	3	6	first strand
Strand 2	J	18	25	anti-parallel
Strand 3	J	77	82	anti-parallel
Strand 4	J	67	72	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	J	10	12	first strand
Strand 2	J	107	111	parallel
Strand 3	J	88	95	anti-parallel
Strand 4	J	33	39	anti-parallel
Strand 5	J	45	51	anti-parallel
Strand 6	J	57	59	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	120	124	first strand
Strand 2	J	135	145	anti-parallel
Strand 3	J	176	185	anti-parallel
Strand 4	J	163	165	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	120	124	first strand
Strand 2	J	135	145	anti-parallel
Strand 3	J	176	185	anti-parallel
Strand 4	J	169	170	anti-parallel

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There are 3 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	151	154	first strand
Strand 2	J	194	200	anti-parallel
Strand 3	J	205	211	anti-parallel

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There are 4 strands in AD4 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	70	75	anti-parallel
Strand 4	L	62	65	anti-parallel

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There are 6 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	14	first strand
Strand 2	L	102	107	parallel
Strand 3	L	84	90	anti-parallel
Strand 4	L	33	38	anti-parallel
Strand 5	L	45	49	anti-parallel
Strand 6	L	53	54	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	14	first strand
Strand 2	L	102	107	parallel
Strand 3	L	84	90	anti-parallel
Strand 4	L	97	98	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	114	118	first strand
Strand 2	L	129	139	anti-parallel
Strand 3	L	173	182	anti-parallel
Strand 4	L	159	163	anti-parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	153	154	first strand
Strand 2	L	145	150	anti-parallel
Strand 3	L	191	197	anti-parallel
Strand 4	L	205	210	anti-parallel

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There are 4 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	3	6	first strand
Strand 2	M	18	25	anti-parallel
Strand 3	M	77	82	anti-parallel
Strand 4	M	67	72	anti-parallel

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There are 6 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	10	12	first strand
Strand 2	M	107	111	parallel
Strand 3	M	88	95	anti-parallel
Strand 4	M	33	39	anti-parallel
Strand 5	M	45	51	anti-parallel
Strand 6	M	57	59	anti-parallel

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There are 4 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	120	124	first strand
Strand 2	M	135	145	anti-parallel
Strand 3	M	176	185	anti-parallel
Strand 4	M	164	165	anti-parallel

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There are 4 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	120	124	first strand
Strand 2	M	135	145	anti-parallel
Strand 3	M	176	185	anti-parallel
Strand 4	M	169	170	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	M	151	154	first strand
Strand 2	M	194	200	anti-parallel
Strand 3	M	205	211	anti-parallel

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There are 8 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	20	21	first strand
Strand 2	W	156	163	anti-parallel
Strand 3	W	180	183	anti-parallel
Strand 4	W	226	230	anti-parallel
Strand 5	W	208	213	anti-parallel
Strand 6	W	198	201	anti-parallel
Strand 7	W	135	140	anti-parallel
Strand 8	W	156	163	anti-parallel

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There are 7 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	30	35	first strand
Strand 2	W	39	48	anti-parallel
Strand 3	W	51	54	anti-parallel
Strand 4	W	104	108	anti-parallel
Strand 5	W	81	90	anti-parallel
Strand 6	W	64	68	anti-parallel
Strand 7	W	30	35	anti-parallel

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There are 8 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	20	21	first strand
Strand 2	X	156	163	anti-parallel
Strand 3	X	180	183	anti-parallel
Strand 4	X	226	230	anti-parallel
Strand 5	X	208	213	anti-parallel
Strand 6	X	198	201	anti-parallel
Strand 7	X	135	140	anti-parallel
Strand 8	X	156	163	anti-parallel

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There are 7 strands in AE8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	30	35	first strand
Strand 2	X	39	46	anti-parallel
Strand 3	X	51	54	anti-parallel
Strand 4	X	104	108	anti-parallel
Strand 5	X	81	90	anti-parallel
Strand 6	X	64	68	anti-parallel
Strand 7	X	30	35	anti-parallel

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There are 8 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	20	21	first strand
Strand 2	Y	156	163	anti-parallel
Strand 3	Y	180	183	anti-parallel
Strand 4	Y	226	230	anti-parallel
Strand 5	Y	208	213	anti-parallel
Strand 6	Y	198	201	anti-parallel
Strand 7	Y	135	140	anti-parallel
Strand 8	Y	156	163	anti-parallel

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There are 7 strands in AF1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	30	35	first strand
Strand 2	Y	39	48	anti-parallel
Strand 3	Y	51	54	anti-parallel
Strand 4	Y	104	108	anti-parallel
Strand 5	Y	81	90	anti-parallel
Strand 6	Y	64	68	anti-parallel
Strand 7	Y	30	35	anti-parallel

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There are 8 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	20	21	first strand
Strand 2	Z	156	163	anti-parallel
Strand 3	Z	180	183	anti-parallel
Strand 4	Z	226	230	anti-parallel
Strand 5	Z	208	213	anti-parallel
Strand 6	Z	198	201	anti-parallel
Strand 7	Z	135	140	anti-parallel
Strand 8	Z	156	163	anti-parallel

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There are 7 strands in AF3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	30	35	first strand
Strand 2	Z	39	48	anti-parallel
Strand 3	Z	51	54	anti-parallel
Strand 4	Z	104	108	anti-parallel
Strand 5	Z	81	90	anti-parallel
Strand 6	Z	64	68	anti-parallel
Strand 7	Z	30	35	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: 6VMJ

Analysis of interatomic Contacts of Structural Units in PDB entry:
6VMJ