Analysis of interatomic Contacts of Structural Units in PDB entry:
28YE

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 28YE entry

There are 30 chains in PDB entry 28YE (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
Z	MET 1	GLY 41
A	ALA 2	GLY 275
B	G 1	U 2722
C	PRO 2	ALA 67
D	MET 1	ALA 44
E	SER 4	ILE 54
F	ALA 2	THR 64
H	ASN 4	GLY 61
I	ASP 3	ASN 66
J	SER 2	ALA 100
K	GLY 13	ALA 84
L	MET 4	ALA 98
M	ALA 2	GLY 106
N	THR 2	LEU 112
O	SER 2	ALA 123
P	MET 1	ALA 104
Q	ALA 2	ASP 118
S	MET 1	PRO 129
T	MET 1	ILE 135
U	MET 1	ALA 153
V	MET 1	LEU 122
W	LYS 2	VAL 155
X	SER 2	ALA 162
Y	SER 2	LYS 176
a	MET 1	ALA 204
b	MET 1	THR 222
c	U 1	A 76
d	C 0	G 112
R	MET 1	PRO 118
G	VAL 34	GLY 136

There are 89 helices in PDB entry 28YE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	Z	7	12	Right-handed alpha
Helix 2	AA2	Z	33	37	Right-handed 310
Helix 3	AA3	A	131	135	Right-handed 310
Helix 4	AA4	A	207	213	Right-handed alpha
Helix 5	AA5	A	221	225	Right-handed 310
Helix 6	AA6	C	37	44	Right-handed alpha
Helix 7	AA7	C	51	59	Right-handed alpha
Helix 8	AA8	C	60	62	Right-handed 310
Helix 9	AA9	D	8	16	Right-handed alpha
Helix 10	AB1	D	17	22	Right-handed alpha
Helix 11	AB2	D	24	38	Right-handed alpha
Helix 12	AB3	F	9	17	Right-handed alpha
Helix 13	AB4	F	18	20	Right-handed 310
Helix 14	AB5	F	59	64	Right-handed 310
Helix 15	AB6	H	21	29	Right-handed alpha
Helix 16	AB7	H	43	53	Right-handed alpha
Helix 17	AB8	I	6	13	Right-handed alpha
Helix 18	AB9	I	16	36	Right-handed alpha
Helix 19	AC1	I	41	46	Right-handed 310
Helix 20	AC2	I	47	64	Right-handed alpha
Helix 21	AC3	J	53	62	Right-handed alpha
Helix 22	AC4	J	64	71	Right-handed alpha
Helix 23	AC5	J	73	77	Right-handed 310
Helix 24	AC6	J	78	81	Right-handed 310
Helix 25	AC7	J	82	93	Right-handed alpha
Helix 26	AC8	L	17	24	Right-handed alpha
Helix 27	AC9	L	25	27	Right-handed 310
Helix 28	AD1	L	46	57	Right-handed alpha
Helix 29	AD2	N	3	15	Right-handed alpha
Helix 30	AD3	N	17	23	Right-handed alpha
Helix 31	AD4	N	31	37	Right-handed alpha
Helix 32	AD5	N	38	41	Right-handed 310
Helix 33	AD6	N	54	64	Right-handed alpha
Helix 34	AD7	O	25	34	Right-handed alpha
Helix 35	AD8	O	42	50	Right-handed alpha
Helix 36	AD9	O	55	70	Right-handed alpha
Helix 37	AE1	O	77	79	Right-handed 310
Helix 38	AE2	Q	6	19	Right-handed alpha
Helix 39	AE3	Q	25	30	Right-handed 310
Helix 40	AE4	Q	31	70	Right-handed alpha
Helix 41	AE5	Q	75	84	Right-handed alpha
Helix 42	AE6	Q	91	102	Right-handed alpha
Helix 43	AE7	Q	103	118	Right-handed alpha
Helix 44	AE8	S	13	32	Right-handed alpha
Helix 45	AE9	S	38	44	Right-handed alpha
Helix 46	AF1	S	45	58	Right-handed alpha
Helix 47	AF2	S	59	70	Right-handed alpha
Helix 48	AF3	S	72	87	Right-handed alpha
Helix 49	AF4	S	119	123	Right-handed 310
Helix 50	AF5	T	43	59	Right-handed alpha
Helix 51	AF6	T	110	121	Right-handed alpha
Helix 52	AF7	T	122	125	Right-handed 310
Helix 53	AF8	U	55	59	Right-handed 310
Helix 54	AF9	U	79	87	Right-handed alpha
Helix 55	AG1	U	98	103	Right-handed alpha
Helix 56	AG2	U	136	144	Right-handed alpha
Helix 57	AG3	V	111	117	Right-handed alpha
Helix 58	AG4	W	8	12	Right-handed 310
Helix 59	AG5	W	25	37	Right-handed alpha
Helix 60	AG6	W	68	73	Right-handed alpha
Helix 61	AG7	W	90	94	Right-handed alpha
Helix 62	AG8	W	100	109	Right-handed alpha
Helix 63	AG9	W	114	121	Right-handed alpha
Helix 64	AH1	W	144	148	Right-handed 310
Helix 65	AH2	X	25	32	Right-handed alpha
Helix 66	AH3	X	43	50	Right-handed alpha
Helix 67	AH4	X	53	68	Right-handed alpha
Helix 68	AH5	X	70	75	Right-handed alpha
Helix 69	AH6	X	97	109	Right-handed alpha
Helix 70	AH7	X	150	158	Right-handed alpha
Helix 71	AH8	Y	62	82	Right-handed alpha
Helix 72	AH9	Y	138	151	Right-handed alpha
Helix 73	AI1	a	19	24	Right-handed alpha
Helix 74	AI2	a	28	43	Right-handed alpha
Helix 75	AI3	a	101	118	Right-handed alpha
Helix 76	AI4	a	133	144	Right-handed alpha
Helix 77	AI5	a	157	163	Right-handed alpha
Helix 78	AI6	a	179	185	Right-handed alpha
Helix 79	AI7	a	193	203	Right-handed alpha
Helix 80	AI8	b	57	61	Right-handed 310
Helix 81	AI9	b	62	72	Right-handed alpha
Helix 82	AJ1	b	121	127	Right-handed alpha
Helix 83	AJ2	R	2	19	Right-handed alpha
Helix 84	AJ3	R	102	107	Right-handed 310
Helix 85	AJ4	G	35	44	Right-handed alpha
Helix 86	AJ5	G	44	49	Right-handed alpha
Helix 87	AJ6	G	75	90	Right-handed alpha
Helix 88	AJ7	G	122	130	Right-handed alpha
Helix 89	AJ8	G	130	135	Right-handed alpha

There are 47 sheets in PDB entry 28YE. 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,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	18	21	first strand
Strand 2	Z	26	29	anti-parallel
Strand 3	Z	38	39	anti-parallel

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There are 2 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	3	5	first strand
Strand 2	A	17	19	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	101	105	first strand
Strand 2	A	91	96	anti-parallel
Strand 3	A	76	81	anti-parallel
Strand 4	A	115	116	anti-parallel

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There are 5 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	184	185	first strand
Strand 2	A	171	175	anti-parallel
Strand 3	A	162	168	anti-parallel
Strand 4	A	140	142	anti-parallel
Strand 5	A	191	192	anti-parallel

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There are 2 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	145	first strand
Strand 2	A	152	154	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	181	182	first strand
Strand 2	A	268	270	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	15	16	first strand
Strand 2	C	22	24	anti-parallel
Strand 3	C	48	49	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	E	20	26	first strand
Strand 2	E	6	13	anti-parallel
Strand 3	E	45	53	anti-parallel
Strand 4	E	35	40	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	F	28	29	first strand
Strand 2	F	36	37	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	H	6	10	first strand
Strand 2	H	37	41	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	J	13	16	first strand
Strand 2	J	26	29	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	J	33	39	first strand
Strand 2	J	46	52	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	22	23	first strand
Strand 2	K	36	39	anti-parallel
Strand 3	K	59	60	anti-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	K	30	31	first strand
Strand 2	K	65	72	anti-parallel
Strand 3	K	76	83	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	5	6	first strand
Strand 2	L	63	66	parallel
Strand 3	L	73	82	anti-parallel
Strand 4	L	89	96	anti-parallel
Strand 5	L	29	34	parallel
Strand 6	L	41	45	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	65	66	first strand
Strand 2	M	34	37	anti-parallel
Strand 3	M	22	29	anti-parallel
Strand 4	M	10	13	anti-parallel
Strand 5	M	70	72	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	42	45	first strand
Strand 2	M	59	62	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	86	87	first strand
Strand 2	M	93	94	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	75	76	first strand
Strand 2	N	93	94	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	80	83	first strand
Strand 2	N	86	89	anti-parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	15	22	first strand
Strand 2	O	113	121	anti-parallel
Strand 3	O	81	90	anti-parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	94	98	first strand
Strand 2	O	106	110	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	P	11	14	first strand
Strand 2	P	2	6	anti-parallel
Strand 3	P	38	42	anti-parallel
Strand 4	P	48	49	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	P	19	22	first strand
Strand 2	P	94	102	anti-parallel
Strand 3	P	58	65	anti-parallel
Strand 4	P	32	35	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	P	72	76	first strand
Strand 2	P	85	89	anti-parallel

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There are 3 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	34	37	first strand
Strand 2	S	109	113	anti-parallel
Strand 3	S	97	102	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	T	102	104	first strand
Strand 2	T	32	36	anti-parallel
Strand 3	T	129	133	anti-parallel

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There are 2 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	T	72	75	first strand
Strand 2	T	90	94	anti-parallel

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There are 2 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	74	78	first strand
Strand 2	U	115	119	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	U	96	97	first strand
Strand 2	U	129	130	parallel
Strand 3	U	149	150	parallel

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There are 6 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	V	7	10	first strand
Strand 2	V	16	24	anti-parallel
Strand 3	V	38	46	anti-parallel
Strand 4	V	57	64	anti-parallel
Strand 5	V	83	85	anti-parallel
Strand 6	V	7	10	parallel

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There are 7 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	V	69	70	first strand
Strand 2	V	76	78	anti-parallel
Strand 3	R	72	79	anti-parallel
Strand 4	R	62	69	anti-parallel
Strand 5	R	43	55	anti-parallel
Strand 6	R	29	36	anti-parallel
Strand 7	R	85	92	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	V	101	103	first strand
Strand 2	V	120	122	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	W	124	126	first strand
Strand 2	W	54	58	parallel
Strand 3	W	16	20	parallel
Strand 4	W	140	141	parallel

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There are 2 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	74	78	first strand
Strand 2	W	85	89	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	X	21	23	first strand
Strand 2	X	5	8	anti-parallel
Strand 3	X	39	41	anti-parallel

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There are 3 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	79	83	first strand
Strand 2	X	143	148	parallel
Strand 3	X	127	131	anti-parallel

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There are 3 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	16	18	first strand
Strand 2	Y	25	27	anti-parallel
Strand 3	Y	32	34	anti-parallel

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There are 2 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	41	46	first strand
Strand 2	Y	49	54	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	Y	84	89	first strand
Strand 2	Y	131	136	anti-parallel
Strand 3	Y	123	128	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	Y	98	100	first strand
Strand 2	Y	103	106	anti-parallel
Strand 3	Y	114	117	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	a	3	4	first strand
Strand 2	a	15	16	anti-parallel

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There are 4 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	a	122	125	first strand
Strand 2	a	188	192	parallel
Strand 3	a	149	153	parallel
Strand 4	a	170	174	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	b	5	16	first strand
Strand 2	b	22	29	anti-parallel
Strand 3	b	187	191	anti-parallel
Strand 4	b	170	182	anti-parallel
Strand 5	b	107	113	anti-parallel
Strand 6	b	201	206	anti-parallel
Strand 7	b	5	16	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	b	34	38	first strand
Strand 2	b	48	55	anti-parallel
Strand 3	b	77	84	anti-parallel

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There are 2 strands in AF1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	b	116	120	first strand
Strand 2	b	164	167	anti-parallel

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There are 4 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	54	57	first strand
Strand 2	G	67	72	anti-parallel
Strand 3	G	118	121	parallel
Strand 4	G	109	111	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: 28YE

Analysis of interatomic Contacts of Structural Units in PDB entry:
28YE