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

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 9BER entry

There are 12 chains in PDB entry 9BER (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
G	GLU 32	VAL 505
B	PHE 519	LEU 661
A	GLU 32	VAL 505
C	PHE 519	LEU 661
F	GLU 32	VAL 505
I	PHE 519	LEU 661
H	GLN 1	SER 113
L	THR 5	LEU 106
D	GLN 1	SER 113
E	THR 5	LEU 106
J	GLN 1	SER 113
K	THR 5	LEU 106

There are 54 helices in PDB entry 9BER. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	G	98	116	Right-handed alpha
Helix 2	AA2	G	122	126	Right-handed 310
Helix 3	AA3	G	338	349	Right-handed alpha
Helix 4	AA4	G	368	373	Right-handed alpha
Helix 5	AA5	G	387	391	Right-handed 310
Helix 6	AA6	G	475	480	Right-handed alpha
Helix 7	AA7	G	482	484	Right-handed 310
Helix 8	AA8	B	529	534	Right-handed alpha
Helix 9	AA9	B	537	545	Right-handed alpha
Helix 10	AB1	B	570	597	Right-handed alpha
Helix 11	AB2	B	618	623	Right-handed alpha
Helix 12	AB3	B	627	636	Right-handed alpha
Helix 13	AB4	B	638	645	Right-handed alpha
Helix 14	AB5	B	650	661	Right-handed alpha
Helix 15	AB6	A	99	116	Right-handed alpha
Helix 16	AB7	A	122	126	Right-handed 310
Helix 17	AB8	A	337	348	Right-handed alpha
Helix 18	AB9	A	368	373	Right-handed alpha
Helix 19	AC1	A	388	392	Right-handed 310
Helix 20	AC2	A	427	431	Right-handed alpha
Helix 21	AC3	A	474	482	Right-handed 310
Helix 22	AC4	C	529	535	Right-handed 310
Helix 23	AC5	C	537	542	Right-handed alpha
Helix 24	AC6	C	570	586	Right-handed alpha
Helix 25	AC7	C	589	594	Right-handed alpha
Helix 26	AC8	C	618	624	Right-handed alpha
Helix 27	AC9	C	627	635	Right-handed alpha
Helix 28	AD1	C	638	648	Right-handed alpha
Helix 29	AD2	C	652	661	Right-handed alpha
Helix 30	AD3	F	99	116	Right-handed alpha
Helix 31	AD4	F	122	126	Right-handed 310
Helix 32	AD5	F	338	350	Right-handed alpha
Helix 33	AD6	F	368	373	Right-handed alpha
Helix 34	AD7	F	427	431	Right-handed alpha
Helix 35	AD8	F	475	479	Right-handed 310
Helix 36	AD9	I	529	534	Right-handed alpha
Helix 37	AE1	I	537	541	Right-handed 310
Helix 38	AE2	I	570	589	Right-handed alpha
Helix 39	AE3	I	589	596	Right-handed alpha
Helix 40	AE4	I	618	623	Right-handed alpha
Helix 41	AE5	I	627	633	Right-handed alpha
Helix 42	AE6	I	634	637	Right-handed 310
Helix 43	AE7	I	638	647	Right-handed alpha
Helix 44	AE8	I	650	661	Right-handed alpha
Helix 45	AE9	H	28	32	Right-handed 310
Helix 46	AF1	H	61	64	Right-handed 310
Helix 47	AF2	H	83	87	Right-handed 310
Helix 48	AF3	L	79	83	Right-handed 310
Helix 49	AF4	D	28	32	Right-handed 310
Helix 50	AF5	D	83	87	Right-handed 310
Helix 51	AF6	E	79	83	Right-handed 310
Helix 52	AF7	J	61	64	Right-handed 310
Helix 53	AF8	J	83	87	Right-handed 310
Helix 54	AF9	K	79	83	Right-handed 310

There are 52 sheets in PDB entry 9BER. 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,

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	G	494	499	first strand
Strand 2	G	35	40	anti-parallel
Strand 3	B	603	605	anti-parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	84	85	first strand
Strand 2	G	242	245	anti-parallel
Strand 3	G	224	228	anti-parallel
Strand 4	G	486	489	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	91	93	first strand
Strand 2	G	237	239	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	G	129	130	first strand
Strand 2	G	190	193	anti-parallel
Strand 3	G	181	183	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	G	154	155	first strand
Strand 2	G	176	177	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	G	158	162	first strand
Strand 2	G	169	173	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	G	202	203	first strand
Strand 2	G	434	435	parallel
Strand 3	G	423	424	anti-parallel

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There are 7 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	259	261	first strand
Strand 2	G	444	457	anti-parallel
Strand 3	G	292	297	anti-parallel
Strand 4	G	329	334	anti-parallel
Strand 5	G	413	420	anti-parallel
Strand 6	G	381	385	anti-parallel
Strand 7	G	374	378	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	G	271	273	first strand
Strand 2	G	284	287	anti-parallel
Strand 3	G	444	457	anti-parallel
Strand 4	G	467	469	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	G	305	308	first strand
Strand 2	G	316	319	anti-parallel

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There are 3 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	494	499	first strand
Strand 2	A	35	40	anti-parallel
Strand 3	C	604	606	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	83	85	first strand
Strand 2	A	242	245	anti-parallel
Strand 3	A	223	228	anti-parallel
Strand 4	A	486	490	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	91	93	first strand
Strand 2	A	237	239	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	A	129	130	first strand
Strand 2	A	190	193	anti-parallel
Strand 3	A	181	183	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	A	154	155	first strand
Strand 2	A	176	177	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	158	160	first strand
Strand 2	A	171	173	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	A	201	203	first strand
Strand 2	A	433	435	parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	259	261	first strand
Strand 2	A	443	456	anti-parallel
Strand 3	A	467	469	anti-parallel
Strand 4	A	359	361	parallel
Strand 5	A	394	395	anti-parallel

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There are 5 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	259	261	first strand
Strand 2	A	443	456	anti-parallel
Strand 3	A	283	298	anti-parallel
Strand 4	A	331	334	anti-parallel
Strand 5	A	413	415	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	A	304	305	first strand
Strand 2	A	319	320	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	A	374	378	first strand
Strand 2	A	381	385	anti-parallel
Strand 3	A	418	420	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	496	499	first strand
Strand 2	F	35	38	anti-parallel
Strand 3	I	605	606	anti-parallel

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There are 2 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	84	85	first strand
Strand 2	F	243	244	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	92	93	first strand
Strand 2	F	237	238	anti-parallel

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There are 3 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	129	130	first strand
Strand 2	F	190	193	anti-parallel
Strand 3	F	181	182	anti-parallel

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There are 2 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	154	155	first strand
Strand 2	F	176	177	anti-parallel

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There are 2 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	158	161	first strand
Strand 2	F	170	173	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	F	215	216	first strand
Strand 2	F	250	251	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	F	223	227	first strand
Strand 2	F	486	490	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	F	259	261	first strand
Strand 2	F	443	456	anti-parallel
Strand 3	F	292	298	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	F	271	273	first strand
Strand 2	F	284	287	anti-parallel
Strand 3	F	443	456	anti-parallel
Strand 4	F	468	469	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	F	304	308	first strand
Strand 2	F	316	320	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	F	329	334	first strand
Strand 2	F	413	420	anti-parallel
Strand 3	F	381	385	anti-parallel
Strand 4	F	374	378	anti-parallel

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There are 2 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	360	361	first strand
Strand 2	F	393	394	anti-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	F	423	424	first strand
Strand 2	F	434	435	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	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 AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	11	12	first strand
Strand 2	H	107	111	parallel
Strand 3	H	88	100	anti-parallel
Strand 4	H	33	39	anti-parallel
Strand 5	H	46	51	anti-parallel
Strand 6	H	58	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	H	11	12	first strand
Strand 2	H	107	111	parallel
Strand 3	H	88	100	anti-parallel
Strand 4	H	100	100	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	L	6	13	first strand
Strand 2	L	103	106	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	L	19	22	first strand
Strand 2	L	72	75	anti-parallel
Strand 3	L	62	64	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	L	45	48	first strand
Strand 2	L	34	38	anti-parallel
Strand 3	L	85	89	anti-parallel

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There are 4 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	3	7	first strand
Strand 2	D	18	25	anti-parallel
Strand 3	D	77	82	anti-parallel
Strand 4	D	67	72	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	D	11	12	first strand
Strand 2	D	110	111	parallel

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There are 5 strands in AE8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	58	59	first strand
Strand 2	D	46	51	anti-parallel
Strand 3	D	33	39	anti-parallel
Strand 4	D	89	98	anti-parallel
Strand 5	D	100	103	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	D	58	59	first strand
Strand 2	D	46	51	anti-parallel
Strand 3	D	33	39	anti-parallel
Strand 4	D	89	98	anti-parallel
Strand 5	D	107	108	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	E	6	13	first strand
Strand 2	E	102	106	parallel
Strand 3	E	85	89	anti-parallel
Strand 4	E	34	38	anti-parallel
Strand 5	E	44	48	anti-parallel

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There are 3 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	19	26	first strand
Strand 2	E	70	75	anti-parallel
Strand 3	E	62	64	anti-parallel

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There are 4 strands in AF3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	3	7	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 2 strands in AF4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	11	12	first strand
Strand 2	J	110	111	parallel

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There are 5 strands in AF5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	58	59	first strand
Strand 2	J	46	51	anti-parallel
Strand 3	J	33	39	anti-parallel
Strand 4	J	89	95	anti-parallel
Strand 5	J	107	108	anti-parallel

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There are 5 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	6	13	first strand
Strand 2	K	102	106	parallel
Strand 3	K	85	89	anti-parallel
Strand 4	K	34	38	anti-parallel
Strand 5	K	45	48	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	19	21	first strand
Strand 2	K	73	75	anti-parallel
Strand 3	K	62	64	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: 9BER

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