Analysis of interatomic Contacts of Structural Units in PDB entry:
2YGD

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 2YGD entry

There are 24 chains in PDB entry 2YGD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	LYS 175
B	MET 1	LYS 175
C	MET 1	LYS 175
D	MET 1	LYS 175
E	MET 1	LYS 175
F	MET 1	LYS 175
G	MET 1	LYS 175
H	MET 1	LYS 175
I	MET 1	LYS 175
J	MET 1	LYS 175
K	MET 1	LYS 175
L	MET 1	LYS 175
M	MET 1	LYS 175
N	MET 1	LYS 175
O	MET 1	LYS 175
P	MET 1	LYS 175
Q	MET 1	LYS 175
R	MET 1	LYS 175
S	MET 1	LYS 175
T	MET 1	LYS 175
U	MET 1	LYS 175
V	MET 1	LYS 175
W	MET 1	LYS 175
X	MET 1	LYS 175

There are120 helices in PDB entry 2YGD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	8	14	Right-handed alpha
Helix 2	2	A	21	26	Right-handed alpha
Helix 3	3	A	52	59	Right-handed alpha
Helix 4	4	A	85	87	Right-handed alpha
Helix 5	5	A	167	171	Right-handed alpha
Helix 6	1	B	8	14	Right-handed alpha
Helix 7	2	B	21	26	Right-handed alpha
Helix 8	3	B	52	59	Right-handed alpha
Helix 9	4	B	85	87	Right-handed alpha
Helix 10	5	B	167	171	Right-handed alpha
Helix 11	1	C	8	14	Right-handed alpha
Helix 12	2	C	21	26	Right-handed alpha
Helix 13	3	C	52	59	Right-handed alpha
Helix 14	4	C	85	87	Right-handed alpha
Helix 15	5	C	167	171	Right-handed alpha
Helix 16	1	D	8	14	Right-handed alpha
Helix 17	2	D	21	26	Right-handed alpha
Helix 18	3	D	52	59	Right-handed alpha
Helix 19	4	D	85	87	Right-handed alpha
Helix 20	5	D	167	171	Right-handed alpha
Helix 21	1	E	8	14	Right-handed alpha
Helix 22	2	E	21	26	Right-handed alpha
Helix 23	3	E	52	59	Right-handed alpha
Helix 24	4	E	85	87	Right-handed alpha
Helix 25	5	E	167	171	Right-handed alpha
Helix 26	1	F	8	14	Right-handed alpha
Helix 27	2	F	21	26	Right-handed alpha
Helix 28	3	F	52	59	Right-handed alpha
Helix 29	4	F	85	87	Right-handed alpha
Helix 30	5	F	167	171	Right-handed alpha
Helix 31	1	G	8	14	Right-handed alpha
Helix 32	2	G	21	26	Right-handed alpha
Helix 33	3	G	52	59	Right-handed alpha
Helix 34	4	G	85	87	Right-handed alpha
Helix 35	5	G	167	171	Right-handed alpha
Helix 36	1	H	8	14	Right-handed alpha
Helix 37	2	H	21	26	Right-handed alpha
Helix 38	3	H	52	59	Right-handed alpha
Helix 39	4	H	85	87	Right-handed alpha
Helix 40	5	H	167	171	Right-handed alpha
Helix 41	1	I	8	14	Right-handed alpha
Helix 42	2	I	21	26	Right-handed alpha
Helix 43	3	I	52	59	Right-handed alpha
Helix 44	4	I	85	87	Right-handed alpha
Helix 45	5	I	167	171	Right-handed alpha
Helix 46	1	J	8	14	Right-handed alpha
Helix 47	2	J	21	26	Right-handed alpha
Helix 48	3	J	52	59	Right-handed alpha
Helix 49	4	J	85	87	Right-handed alpha
Helix 50	5	J	167	171	Right-handed alpha
Helix 51	1	K	8	14	Right-handed alpha
Helix 52	2	K	21	26	Right-handed alpha
Helix 53	3	K	52	59	Right-handed alpha
Helix 54	4	K	85	87	Right-handed alpha
Helix 55	5	K	167	171	Right-handed alpha
Helix 56	1	L	8	14	Right-handed alpha
Helix 57	2	L	21	26	Right-handed alpha
Helix 58	3	L	52	59	Right-handed alpha
Helix 59	4	L	85	87	Right-handed alpha
Helix 60	5	L	167	171	Right-handed alpha
Helix 61	1	M	8	14	Right-handed alpha
Helix 62	2	M	21	26	Right-handed alpha
Helix 63	3	M	52	59	Right-handed alpha
Helix 64	4	M	85	87	Right-handed alpha
Helix 65	5	M	167	171	Right-handed alpha
Helix 66	1	N	8	14	Right-handed alpha
Helix 67	2	N	21	26	Right-handed alpha
Helix 68	3	N	52	59	Right-handed alpha
Helix 69	4	N	85	87	Right-handed alpha
Helix 70	5	N	167	171	Right-handed alpha
Helix 71	1	O	8	14	Right-handed alpha
Helix 72	2	O	21	26	Right-handed alpha
Helix 73	3	O	52	59	Right-handed alpha
Helix 74	4	O	85	87	Right-handed alpha
Helix 75	5	O	167	171	Right-handed alpha
Helix 76	1	P	8	14	Right-handed alpha
Helix 77	2	P	21	26	Right-handed alpha
Helix 78	3	P	52	59	Right-handed alpha
Helix 79	4	P	85	87	Right-handed alpha
Helix 80	5	P	167	171	Right-handed alpha
Helix 81	1	Q	8	14	Right-handed alpha
Helix 82	2	Q	21	26	Right-handed alpha
Helix 83	3	Q	52	59	Right-handed alpha
Helix 84	4	Q	85	87	Right-handed alpha
Helix 85	5	Q	167	171	Right-handed alpha
Helix 86	1	R	8	14	Right-handed alpha
Helix 87	2	R	21	26	Right-handed alpha
Helix 88	3	R	52	59	Right-handed alpha
Helix 89	4	R	85	87	Right-handed alpha
Helix 90	5	R	167	171	Right-handed alpha
Helix 91	1	S	8	14	Right-handed alpha
Helix 92	2	S	21	26	Right-handed alpha
Helix 93	3	S	52	59	Right-handed alpha
Helix 94	4	S	85	87	Right-handed alpha
Helix 95	5	S	167	171	Right-handed alpha
Helix 96	1	T	8	14	Right-handed alpha
Helix 97	2	T	21	26	Right-handed alpha
Helix 98	3	T	52	59	Right-handed alpha
Helix 99	4	T	85	87	Right-handed alpha
Helix 100	5	T	167	171	Right-handed alpha
Helix 101	1	U	8	14	Right-handed alpha
Helix 102	2	U	21	26	Right-handed alpha
Helix 103	3	U	52	59	Right-handed alpha
Helix 104	4	U	85	87	Right-handed alpha
Helix 105	5	U	167	171	Right-handed alpha
Helix 106	1	V	8	14	Right-handed alpha
Helix 107	2	V	21	26	Right-handed alpha
Helix 108	3	V	52	59	Right-handed alpha
Helix 109	4	V	85	87	Right-handed alpha
Helix 110	5	V	167	171	Right-handed alpha
Helix 111	1	W	8	14	Right-handed alpha
Helix 112	2	W	21	26	Right-handed alpha
Helix 113	3	W	52	59	Right-handed alpha
Helix 114	4	W	85	87	Right-handed alpha
Helix 115	5	W	167	171	Right-handed alpha
Helix 116	1	X	8	14	Right-handed alpha
Helix 117	2	X	21	26	Right-handed alpha
Helix 118	3	X	52	59	Right-handed alpha
Helix 119	4	X	85	87	Right-handed alpha
Helix 120	5	X	167	171	Right-handed alpha

There are 40 sheets in PDB entry 2YGD. Click on sheet of interest to get list of strands forming it: AA, AB, AC, BA, CA, CB, A, EA, EB, FA, GA, GB, GC, HA, IA, IB, JA, KA, KB, LA, MA, MB, MC, NA, OA, OB, PA, QA, QB, RA, SA, SB, SC, TA, UA, UB, VA, WA, WB, XA,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	4	5	first strand
Strand 2	B	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	75	79	first strand
Strand 2	A	143	147	anti-parallel
Strand 3	A	134	137	anti-parallel

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There are 19 strands in AC sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	89	94	first strand
Strand 2	A	97	109	anti-parallel
Strand 3	A	112	122	anti-parallel
Strand 4	D	112	123	anti-parallel
Strand 5	D	97	109	anti-parallel
Strand 6	D	89	94	anti-parallel
Strand 7	C	89	94	anti-parallel
Strand 8	C	97	109	anti-parallel
Strand 9	C	112	122	anti-parallel
Strand 10	F	112	123	anti-parallel
Strand 11	F	97	109	anti-parallel
Strand 12	F	89	94	anti-parallel
Strand 13	E	89	94	anti-parallel
Strand 14	E	97	109	anti-parallel
Strand 15	E	112	122	anti-parallel
Strand 16	B	112	123	anti-parallel
Strand 17	B	97	109	anti-parallel
Strand 18	B	89	94	anti-parallel
Strand 19	A	89	94	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	74	80	first strand
Strand 2	B	142	148	anti-parallel
Strand 3	B	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	4	5	first strand
Strand 2	D	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	75	79	first strand
Strand 2	C	143	147	anti-parallel
Strand 3	C	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	74	80	first strand
Strand 2	D	142	148	anti-parallel
Strand 3	D	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	4	5	first strand
Strand 2	F	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	75	79	first strand
Strand 2	E	143	147	anti-parallel
Strand 3	E	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	74	80	first strand
Strand 2	F	142	148	anti-parallel
Strand 3	F	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	4	5	first strand
Strand 2	H	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	75	79	first strand
Strand 2	G	143	147	anti-parallel
Strand 3	G	134	137	anti-parallel

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There are 19 strands in GC sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	89	94	first strand
Strand 2	G	97	109	anti-parallel
Strand 3	G	112	122	anti-parallel
Strand 4	J	112	123	anti-parallel
Strand 5	J	97	109	anti-parallel
Strand 6	J	89	94	anti-parallel
Strand 7	H	89	94	first strand
Strand 8	H	97	109	first strand
Strand 9	H	112	123	first strand
Strand 10	I	89	94	first strand
Strand 11	I	97	109	anti-parallel
Strand 12	I	112	122	first strand
Strand 13	K	89	94	first strand
Strand 14	K	97	109	anti-parallel
Strand 15	K	112	122	first strand
Strand 16	L	89	94	first strand
Strand 17	L	97	109	first strand
Strand 18	L	112	123	first strand
Strand 19	I	112	122	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	74	80	first strand
Strand 2	H	142	148	anti-parallel
Strand 3	H	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	5	first strand
Strand 2	J	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	75	79	first strand
Strand 2	I	143	147	anti-parallel
Strand 3	I	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	74	80	first strand
Strand 2	J	142	148	anti-parallel
Strand 3	J	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	4	5	first strand
Strand 2	L	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	75	79	first strand
Strand 2	K	143	147	anti-parallel
Strand 3	K	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	74	80	first strand
Strand 2	L	142	148	anti-parallel
Strand 3	L	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	4	5	first strand
Strand 2	N	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	75	79	first strand
Strand 2	M	143	147	anti-parallel
Strand 3	M	134	137	anti-parallel

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There are 19 strands in MC sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	89	94	first strand
Strand 2	M	97	109	anti-parallel
Strand 3	M	112	122	first strand
Strand 4	N	89	94	first strand
Strand 5	N	97	109	first strand
Strand 6	N	112	123	first strand
Strand 7	O	89	94	first strand
Strand 8	O	97	109	anti-parallel
Strand 9	O	112	122	first strand
Strand 10	P	89	94	first strand
Strand 11	P	97	109	first strand
Strand 12	P	112	123	first strand
Strand 13	Q	89	94	first strand
Strand 14	Q	97	109	anti-parallel
Strand 15	Q	112	122	first strand
Strand 16	R	89	94	first strand
Strand 17	R	97	109	first strand
Strand 18	R	112	123	first strand
Strand 19	O	112	122	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	74	80	first strand
Strand 2	N	142	148	anti-parallel
Strand 3	N	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	4	5	first strand
Strand 2	P	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	75	79	first strand
Strand 2	O	143	147	anti-parallel
Strand 3	O	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	74	80	first strand
Strand 2	P	142	148	anti-parallel
Strand 3	P	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	4	5	first strand
Strand 2	R	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	75	79	first strand
Strand 2	Q	143	147	anti-parallel
Strand 3	Q	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	74	80	first strand
Strand 2	R	142	148	anti-parallel
Strand 3	R	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	4	5	first strand
Strand 2	T	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	75	79	first strand
Strand 2	S	143	147	anti-parallel
Strand 3	S	134	137	anti-parallel

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There are 19 strands in SC sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	89	94	first strand
Strand 2	S	97	109	anti-parallel
Strand 3	S	112	122	first strand
Strand 4	T	89	94	first strand
Strand 5	T	97	109	first strand
Strand 6	T	112	123	first strand
Strand 7	U	89	94	first strand
Strand 8	U	97	109	anti-parallel
Strand 9	U	112	122	first strand
Strand 10	V	89	94	first strand
Strand 11	V	97	109	first strand
Strand 12	V	112	123	first strand
Strand 13	W	89	94	first strand
Strand 14	W	97	109	anti-parallel
Strand 15	W	112	122	first strand
Strand 16	X	89	94	first strand
Strand 17	X	97	109	first strand
Strand 18	X	112	123	first strand
Strand 19	U	112	122	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	T	74	80	first strand
Strand 2	T	142	148	anti-parallel
Strand 3	T	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	4	5	first strand
Strand 2	V	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	75	79	first strand
Strand 2	U	143	147	anti-parallel
Strand 3	U	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	V	74	80	first strand
Strand 2	V	142	148	anti-parallel
Strand 3	V	134	138	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	4	5	first strand
Strand 2	X	29	30	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	75	79	first strand
Strand 2	W	143	147	anti-parallel
Strand 3	W	134	137	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	74	80	first strand
Strand 2	X	142	148	anti-parallel
Strand 3	X	134	138	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: 2YGD

Analysis of interatomic Contacts of Structural Units in PDB entry:
2YGD