Analysis of interatomic Contacts of Structural Units in PDB entry:
9YBY

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 9YBY entry

There are 18 chains in PDB entry 9YBY (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLN 24	VAL 104
B	GLY 115	LEU 470
C	GLN 24	VAL 104
D	GLY 115	LEU 470
E	GLN 24	VAL 104
F	GLY 115	LEU 470
G	GLN 1	VAL 117
H	ASP 1	LEU 104
I	GLN 1	VAL 117
J	ASP 1	LEU 104
K	GLN 1	VAL 117
L	ASP 1	LEU 104
M	GLU 1	THR 120
N	ASP 1	ILE 106
O	GLU 1	THR 120
P	ASP 1	ILE 106
Q	GLU 1	THR 120
R	ASP 1	ILE 106

There are 66 helices in PDB entry 9YBY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	26	34	Right-handed alpha
Helix 2	AA2	A	65	68	Right-handed 310
Helix 3	AA3	A	69	97	Right-handed alpha
Helix 4	AA4	B	120	124	Right-handed alpha
Helix 5	AA5	B	128	141	Right-handed alpha
Helix 6	AA6	B	146	156	Right-handed alpha
Helix 7	AA7	B	178	185	Right-handed alpha
Helix 8	AA8	B	186	190	Right-handed 310
Helix 9	AA9	B	194	218	Right-handed alpha
Helix 10	AB1	B	242	250	Right-handed alpha
Helix 11	AB2	B	255	262	Right-handed alpha
Helix 12	AB3	B	352	361	Right-handed alpha
Helix 13	AB4	B	442	446	Right-handed 310
Helix 14	AB5	B	455	469	Right-handed alpha
Helix 15	AB6	C	26	34	Right-handed alpha
Helix 16	AB7	C	65	68	Right-handed 310
Helix 17	AB8	C	69	97	Right-handed alpha
Helix 18	AB9	C	102	104	Right-handed 310
Helix 19	AC1	D	120	124	Right-handed alpha
Helix 20	AC2	D	128	141	Right-handed alpha
Helix 21	AC3	D	146	156	Right-handed alpha
Helix 22	AC4	D	178	185	Right-handed alpha
Helix 23	AC5	D	194	218	Right-handed alpha
Helix 24	AC6	D	242	250	Right-handed alpha
Helix 25	AC7	D	255	262	Right-handed alpha
Helix 26	AC8	D	352	361	Right-handed alpha
Helix 27	AC9	D	362	366	Right-handed 310
Helix 28	AD1	D	442	446	Right-handed 310
Helix 29	AD2	D	455	470	Right-handed alpha
Helix 30	AD3	E	26	34	Right-handed alpha
Helix 31	AD4	E	65	68	Right-handed 310
Helix 32	AD5	E	69	97	Right-handed alpha
Helix 33	AD6	E	102	104	Right-handed 310
Helix 34	AD7	F	120	124	Right-handed alpha
Helix 35	AD8	F	128	141	Right-handed alpha
Helix 36	AD9	F	146	156	Right-handed alpha
Helix 37	AE1	F	178	185	Right-handed alpha
Helix 38	AE2	F	194	218	Right-handed alpha
Helix 39	AE3	F	219	222	Right-handed 310
Helix 40	AE4	F	242	250	Right-handed alpha
Helix 41	AE5	F	255	262	Right-handed alpha
Helix 42	AE6	F	352	361	Right-handed alpha
Helix 43	AE7	F	362	366	Right-handed 310
Helix 44	AE8	F	442	446	Right-handed 310
Helix 45	AE9	F	455	470	Right-handed alpha
Helix 46	AF1	G	87	91	Right-handed 310
Helix 47	AF2	H	79	83	Right-handed 310
Helix 48	AF3	I	87	91	Right-handed 310
Helix 49	AF4	J	79	83	Right-handed 310
Helix 50	AF5	K	87	91	Right-handed 310
Helix 51	AF6	L	79	83	Right-handed 310
Helix 52	AF7	M	28	32	Right-handed 310
Helix 53	AF8	M	53	56	Right-handed 310
Helix 54	AF9	M	62	65	Right-handed 310
Helix 55	AG1	M	87	91	Right-handed 310
Helix 56	AG2	N	79	83	Right-handed 310
Helix 57	AG3	O	28	32	Right-handed 310
Helix 58	AG4	O	53	56	Right-handed 310
Helix 59	AG5	O	62	65	Right-handed 310
Helix 60	AG6	O	87	91	Right-handed 310
Helix 61	AG7	P	79	83	Right-handed 310
Helix 62	AG8	Q	28	32	Right-handed 310
Helix 63	AG9	Q	53	56	Right-handed 310
Helix 64	AH1	Q	62	65	Right-handed 310
Helix 65	AH2	Q	87	91	Right-handed 310
Helix 66	AH3	R	79	83	Right-handed 310

There are 49 sheets in PDB entry 9YBY. 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,

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	B	161	164	first strand
Strand 2	B	172	175	anti-parallel
Strand 3	A	35	57	parallel
Strand 4	B	278	301	anti-parallel
Strand 5	B	318	322	anti-parallel
Strand 6	B	325	327	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	B	229	230	first strand
Strand 2	B	266	273	anti-parallel
Strand 3	B	278	301	anti-parallel
Strand 4	A	35	57	anti-parallel
Strand 5	B	341	343	parallel
Strand 6	B	334	335	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	98	100	first strand
Strand 2	B	116	119	anti-parallel
Strand 3	D	428	431	parallel
Strand 4	D	422	425	anti-parallel
Strand 5	D	395	397	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	B	126	127	first strand
Strand 2	D	379	382	anti-parallel
Strand 3	D	385	388	anti-parallel
Strand 4	D	413	415	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	B	304	306	first strand
Strand 2	B	309	311	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	413	415	first strand
Strand 2	B	385	388	anti-parallel
Strand 3	B	379	382	anti-parallel
Strand 4	F	126	127	anti-parallel

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There are 5 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	396	397	first strand
Strand 2	B	422	425	anti-parallel
Strand 3	B	428	431	anti-parallel
Strand 4	F	116	119	parallel
Strand 5	E	98	100	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	325	327	first strand
Strand 2	D	318	322	anti-parallel
Strand 3	D	288	301	anti-parallel
Strand 4	C	35	46	anti-parallel
Strand 5	D	341	343	parallel
Strand 6	D	334	335	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	D	161	164	first strand
Strand 2	D	172	175	anti-parallel
Strand 3	C	50	57	parallel
Strand 4	D	278	285	anti-parallel
Strand 5	D	266	273	anti-parallel
Strand 6	D	229	230	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	C	98	100	first strand
Strand 2	D	116	119	anti-parallel
Strand 3	F	428	431	parallel
Strand 4	F	422	425	anti-parallel
Strand 5	F	395	397	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	D	126	127	first strand
Strand 2	F	379	382	anti-parallel
Strand 3	F	385	388	anti-parallel
Strand 4	F	413	415	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	D	304	306	first strand
Strand 2	D	309	311	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	F	161	164	first strand
Strand 2	F	172	175	anti-parallel
Strand 3	E	35	57	parallel
Strand 4	F	278	301	anti-parallel
Strand 5	F	318	322	anti-parallel
Strand 6	F	325	327	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	F	229	230	first strand
Strand 2	F	266	273	anti-parallel
Strand 3	F	278	301	anti-parallel
Strand 4	E	35	57	anti-parallel
Strand 5	F	341	343	parallel
Strand 6	F	334	335	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	F	304	306	first strand
Strand 2	F	309	311	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	G	4	6	first strand
Strand 2	G	17	24	anti-parallel
Strand 3	G	78	84	anti-parallel
Strand 4	G	68	73	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	G	10	11	first strand
Strand 2	G	113	116	parallel
Strand 3	G	92	100	anti-parallel
Strand 4	G	32	39	anti-parallel
Strand 5	G	45	51	anti-parallel
Strand 6	G	58	60	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	G	10	11	first strand
Strand 2	G	113	116	parallel
Strand 3	G	92	100	anti-parallel
Strand 4	G	108	109	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	H	4	6	first strand
Strand 2	H	19	25	anti-parallel
Strand 3	H	70	75	anti-parallel
Strand 4	H	62	63	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	4	6	first strand
Strand 2	H	19	25	anti-parallel
Strand 3	H	70	75	anti-parallel
Strand 4	H	66	67	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	H	53	54	first strand
Strand 2	H	45	49	anti-parallel
Strand 3	H	33	38	anti-parallel
Strand 4	H	85	90	anti-parallel
Strand 5	H	102	103	anti-parallel

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There are 4 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	4	6	first strand
Strand 2	I	17	24	anti-parallel
Strand 3	I	78	84	anti-parallel
Strand 4	I	68	73	anti-parallel

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There are 6 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	11	first strand
Strand 2	I	113	116	parallel
Strand 3	I	92	100	anti-parallel
Strand 4	I	32	39	anti-parallel
Strand 5	I	45	51	anti-parallel
Strand 6	I	58	60	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	10	11	first strand
Strand 2	I	113	116	parallel
Strand 3	I	92	100	anti-parallel
Strand 4	I	108	109	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	J	4	6	first strand
Strand 2	J	19	25	anti-parallel
Strand 3	J	70	75	anti-parallel
Strand 4	J	62	63	anti-parallel

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There are 5 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	53	54	first strand
Strand 2	J	45	49	anti-parallel
Strand 3	J	33	38	anti-parallel
Strand 4	J	85	90	anti-parallel
Strand 5	J	102	103	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	4	6	first strand
Strand 2	K	18	24	anti-parallel
Strand 3	K	78	83	anti-parallel
Strand 4	K	68	73	anti-parallel

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There are 6 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	10	11	first strand
Strand 2	K	113	116	parallel
Strand 3	K	92	100	anti-parallel
Strand 4	K	32	39	anti-parallel
Strand 5	K	45	51	anti-parallel
Strand 6	K	58	60	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	K	10	11	first strand
Strand 2	K	113	116	parallel
Strand 3	K	92	100	anti-parallel
Strand 4	K	108	109	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	4	6	first strand
Strand 2	L	19	25	anti-parallel
Strand 3	L	70	75	anti-parallel
Strand 4	L	62	63	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	53	54	first strand
Strand 2	L	45	49	anti-parallel
Strand 3	L	33	38	anti-parallel
Strand 4	L	85	90	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	3	7	first strand
Strand 2	M	18	25	anti-parallel
Strand 3	M	78	83	anti-parallel
Strand 4	M	69	73	anti-parallel

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There are 5 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	58	60	first strand
Strand 2	M	45	51	anti-parallel
Strand 3	M	33	39	anti-parallel
Strand 4	M	92	100	anti-parallel
Strand 5	M	109	113	anti-parallel

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There are 5 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	58	60	first strand
Strand 2	M	45	51	anti-parallel
Strand 3	M	33	39	anti-parallel
Strand 4	M	92	100	anti-parallel
Strand 5	M	117	119	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	N	4	6	first strand
Strand 2	N	19	25	anti-parallel
Strand 3	N	70	75	anti-parallel
Strand 4	N	62	67	anti-parallel

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There are 5 strands in AD9 sheet. Click on strand of interest for CSU analysis.

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

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There are 5 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	53	54	first strand
Strand 2	N	45	49	anti-parallel
Strand 3	N	33	38	anti-parallel
Strand 4	N	85	90	anti-parallel
Strand 5	N	102	103	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	O	3	7	first strand
Strand 2	O	17	25	anti-parallel
Strand 3	O	78	84	anti-parallel
Strand 4	O	69	73	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	O	58	60	first strand
Strand 2	O	45	51	anti-parallel
Strand 3	O	33	39	anti-parallel
Strand 4	O	92	100	anti-parallel
Strand 5	O	109	112	anti-parallel

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There are 5 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	58	60	first strand
Strand 2	O	45	51	anti-parallel
Strand 3	O	33	39	anti-parallel
Strand 4	O	92	100	anti-parallel
Strand 5	O	117	119	anti-parallel

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There are 4 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	4	6	first strand
Strand 2	P	19	25	anti-parallel
Strand 3	P	70	75	anti-parallel
Strand 4	P	62	67	anti-parallel

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There are 5 strands in AE6 sheet. Click on strand of interest for CSU analysis.

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

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There are 5 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	53	54	first strand
Strand 2	P	45	49	anti-parallel
Strand 3	P	33	38	anti-parallel
Strand 4	P	85	90	anti-parallel
Strand 5	P	102	103	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	Q	3	7	first strand
Strand 2	Q	18	25	anti-parallel
Strand 3	Q	78	83	anti-parallel
Strand 4	Q	69	73	anti-parallel

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There are 5 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	58	60	first strand
Strand 2	Q	45	51	anti-parallel
Strand 3	Q	33	39	anti-parallel
Strand 4	Q	92	100	anti-parallel
Strand 5	Q	109	113	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	Q	58	60	first strand
Strand 2	Q	45	51	anti-parallel
Strand 3	Q	33	39	anti-parallel
Strand 4	Q	92	100	anti-parallel
Strand 5	Q	117	119	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	R	4	6	first strand
Strand 2	R	19	25	anti-parallel
Strand 3	R	70	75	anti-parallel
Strand 4	R	62	67	anti-parallel

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There are 5 strands in AF3 sheet. Click on strand of interest for CSU analysis.

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

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There are 5 strands in AF4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	53	54	first strand
Strand 2	R	45	49	anti-parallel
Strand 3	R	33	38	anti-parallel
Strand 4	R	85	90	anti-parallel
Strand 5	R	102	103	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: 9YBY

Analysis of interatomic Contacts of Structural Units in PDB entry:
9YBY