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

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 2YBR entry

There are 9 chains in PDB entry 2YBR (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 2	SER 117
B	GLY 128	LYS 239
C	LYS 1	CYS 65
D	GLU 1	VAL 115
E	SER 132	ILE 238
F	LYS 1	CYS 65
G	GLU 1	VAL 115
H	SER 127	ARG 240
I	LYS 1	SER 66

There are 18 helices in PDB entry 2YBR. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	28	32	Right-handed 310
Helix 2	2	A	53	56	Right-handed 310
Helix 3	3	A	62	64	Right-handed 310
Helix 4	4	A	87	91	Right-handed 310
Helix 5	5	B	211	215	Right-handed 310
Helix 6	6	C	22	34	Right-handed alpha
Helix 7	7	D	28	32	Right-handed 310
Helix 8	8	D	53	56	Right-handed 310
Helix 9	9	D	62	64	Right-handed 310
Helix 10	10	D	87	91	Right-handed 310
Helix 11	11	E	211	215	Right-handed 310
Helix 12	12	F	22	34	Right-handed alpha
Helix 13	13	G	28	32	Right-handed 310
Helix 14	14	G	53	56	Right-handed 310
Helix 15	15	G	62	64	Right-handed 310
Helix 16	16	G	87	91	Right-handed 310
Helix 17	17	H	211	215	Right-handed 310
Helix 18	18	I	22	34	Right-handed alpha

There are 27 sheets in PDB entry 2YBR. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, BA, BB, BC, BD, CA, A, DB, C, DD, EA, EB, EC, ED, FA, GA, GB, GC, GD, HA, HB, HC, HD, IA,

There are 4 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	3	7	first strand
Strand 2	A	18	25	anti-parallel
Strand 3	A	78	83	anti-parallel
Strand 4	A	68	73	anti-parallel

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There are 4 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	10	12	first strand
Strand 2	A	111	115	anti-parallel
Strand 3	A	92	100	anti-parallel
Strand 4	A	103	107	anti-parallel

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There are 6 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	10	12	first strand
Strand 2	A	111	115	anti-parallel
Strand 3	A	92	100	anti-parallel
Strand 4	A	34	39	anti-parallel
Strand 5	A	45	51	anti-parallel
Strand 6	A	58	60	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	103	107	first strand
Strand 2	A	92	100	anti-parallel

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There are 4 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	136	139	first strand
Strand 2	B	151	157	anti-parallel
Strand 3	B	202	207	anti-parallel
Strand 4	B	194	198	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	142	145	first strand
Strand 2	B	234	238	parallel
Strand 3	B	217	222	anti-parallel
Strand 4	B	229	230	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	142	145	first strand
Strand 2	B	234	238	parallel
Strand 3	B	217	222	anti-parallel
Strand 4	B	165	170	anti-parallel
Strand 5	B	177	180	anti-parallel

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There are 2 strands in BD 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	217	222	parallel

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There are 3 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	3	4	first strand
Strand 2	C	45	49	anti-parallel
Strand 3	C	38	42	anti-parallel

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There are 4 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	3	7	first strand
Strand 2	D	18	25	anti-parallel
Strand 3	D	78	83	anti-parallel
Strand 4	D	68	73	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	58	60	first strand
Strand 2	D	45	51	anti-parallel
Strand 3	D	34	39	anti-parallel
Strand 4	D	92	100	anti-parallel
Strand 5	D	103	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	58	60	first strand
Strand 2	D	45	51	anti-parallel
Strand 3	D	34	39	anti-parallel
Strand 4	D	92	100	anti-parallel
Strand 5	D	111	113	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	103	107	first strand
Strand 2	D	92	100	anti-parallel

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There are 4 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	136	139	first strand
Strand 2	E	151	157	anti-parallel
Strand 3	E	202	207	anti-parallel
Strand 4	E	194	198	anti-parallel

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There are 4 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	142	144	first strand
Strand 2	E	234	237	parallel
Strand 3	E	217	222	anti-parallel
Strand 4	E	229	230	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	142	144	first strand
Strand 2	E	234	237	parallel
Strand 3	E	217	222	anti-parallel
Strand 4	E	165	170	anti-parallel
Strand 5	E	177	180	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	229	230	first strand
Strand 2	E	217	222	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	3	4	first strand
Strand 2	F	45	49	anti-parallel
Strand 3	F	38	42	anti-parallel

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There are 4 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	3	7	first strand
Strand 2	G	18	25	anti-parallel
Strand 3	G	78	83	anti-parallel
Strand 4	G	68	73	anti-parallel

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There are 5 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	58	60	first strand
Strand 2	G	45	51	anti-parallel
Strand 3	G	34	39	anti-parallel
Strand 4	G	92	100	anti-parallel
Strand 5	G	103	107	anti-parallel

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There are 5 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	58	60	first strand
Strand 2	G	45	51	anti-parallel
Strand 3	G	34	39	anti-parallel
Strand 4	G	92	100	anti-parallel
Strand 5	G	111	113	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	103	107	first strand
Strand 2	G	92	100	anti-parallel

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There are 4 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	136	139	first strand
Strand 2	H	151	157	anti-parallel
Strand 3	H	202	207	anti-parallel
Strand 4	H	194	199	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	142	145	first strand
Strand 2	H	234	238	parallel
Strand 3	H	217	222	anti-parallel
Strand 4	H	229	230	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	142	145	first strand
Strand 2	H	234	238	parallel
Strand 3	H	217	222	anti-parallel
Strand 4	H	165	170	anti-parallel
Strand 5	H	177	182	anti-parallel
Strand 6	H	185	186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	229	230	first strand
Strand 2	H	217	222	anti-parallel

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There are 3 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	3	4	first strand
Strand 2	I	45	49	anti-parallel
Strand 3	I	38	42	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: 2YBR

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