Analysis of interatomic Contacts of Structural Units in PDB entry:
4YBQ

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 4YBQ entry

There are 6 chains in PDB entry 4YBQ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 7	VAL 480
B	GLU 7	VAL 480
C	GLU 1	THR 115
D	LEU 1	SER 120
E	GLU 1	THR 115
F	GLU 2	TRP 37

There are 46 helices in PDB entry 4YBQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	13	38	Right-handed alpha
Helix 2	AA2	A	62	87	Right-handed alpha
Helix 3	AA3	A	87	121	Right-handed alpha
Helix 4	AA4	A	123	153	Right-handed alpha
Helix 5	AA5	A	154	187	Right-handed alpha
Helix 6	AA6	A	190	209	Right-handed alpha
Helix 7	AA7	A	210	212	Right-handed 310
Helix 8	AA8	A	215	221	Right-handed alpha
Helix 9	AA9	A	225	238	Right-handed alpha
Helix 10	AB1	A	242	258	Right-handed alpha
Helix 11	AB2	A	263	270	Right-handed alpha
Helix 12	AB3	A	273	289	Right-handed alpha
Helix 13	AB4	A	291	307	Right-handed alpha
Helix 14	AB5	A	309	339	Right-handed alpha
Helix 15	AB6	A	339	368	Right-handed alpha
Helix 16	AB7	A	370	389	Right-handed alpha
Helix 17	AB8	A	392	402	Right-handed alpha
Helix 18	AB9	A	406	437	Right-handed alpha
Helix 19	AC1	A	439	458	Right-handed alpha
Helix 20	AC2	A	466	480	Right-handed alpha
Helix 21	AC3	B	13	38	Right-handed alpha
Helix 22	AC4	B	58	87	Right-handed alpha
Helix 23	AC5	B	87	121	Right-handed alpha
Helix 24	AC6	B	123	153	Right-handed alpha
Helix 25	AC7	B	154	187	Right-handed alpha
Helix 26	AC8	B	190	209	Right-handed alpha
Helix 27	AC9	B	210	212	Right-handed 310
Helix 28	AD1	B	215	221	Right-handed alpha
Helix 29	AD2	B	225	238	Right-handed alpha
Helix 30	AD3	B	242	257	Right-handed alpha
Helix 31	AD4	B	263	269	Right-handed alpha
Helix 32	AD5	B	273	289	Right-handed alpha
Helix 33	AD6	B	291	307	Right-handed alpha
Helix 34	AD7	B	309	339	Right-handed alpha
Helix 35	AD8	B	339	366	Right-handed alpha
Helix 36	AD9	B	370	389	Right-handed alpha
Helix 37	AE1	B	392	402	Right-handed alpha
Helix 38	AE2	B	405	437	Right-handed alpha
Helix 39	AE3	B	440	458	Right-handed alpha
Helix 40	AE4	B	466	480	Right-handed alpha
Helix 41	AE5	C	86	90	Right-handed 310
Helix 42	AE6	D	29	33	Right-handed 310
Helix 43	AE7	D	88	92	Right-handed 310
Helix 44	AE8	E	86	90	Right-handed 310
Helix 45	AE9	F	29	33	Right-handed 310
Helix 46	AF1	F	88	92	Right-handed 310

There are 12 sheets in PDB entry 4YBQ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	6	9	first strand
Strand 2	C	21	27	anti-parallel
Strand 3	C	77	82	anti-parallel
Strand 4	C	69	74	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	C	12	15	first strand
Strand 2	C	109	113	parallel
Strand 3	C	91	97	anti-parallel
Strand 4	C	40	45	anti-parallel
Strand 5	C	52	56	anti-parallel
Strand 6	C	60	61	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	C	12	15	first strand
Strand 2	C	109	113	parallel
Strand 3	C	91	97	anti-parallel
Strand 4	C	104	105	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	D	4	8	first strand
Strand 2	D	19	26	anti-parallel
Strand 3	D	79	84	anti-parallel
Strand 4	D	69	74	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	11	13	first strand
Strand 2	D	114	118	parallel
Strand 3	D	93	101	anti-parallel
Strand 4	D	34	40	anti-parallel
Strand 5	D	46	52	anti-parallel
Strand 6	D	59	61	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	D	11	13	first strand
Strand 2	D	114	118	parallel
Strand 3	D	93	101	anti-parallel
Strand 4	D	106	110	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	6	9	first strand
Strand 2	E	21	27	anti-parallel
Strand 3	E	77	82	anti-parallel
Strand 4	E	69	74	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	E	12	15	first strand
Strand 2	E	109	113	parallel
Strand 3	E	91	97	anti-parallel
Strand 4	E	40	45	anti-parallel
Strand 5	E	52	56	anti-parallel
Strand 6	E	60	61	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	E	12	15	first strand
Strand 2	E	109	113	parallel
Strand 3	E	91	97	anti-parallel
Strand 4	E	104	105	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	4	8	first strand
Strand 2	F	19	26	anti-parallel
Strand 3	F	79	84	anti-parallel
Strand 4	F	69	74	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	11	13	first strand
Strand 2	F	114	118	parallel
Strand 3	F	93	101	anti-parallel
Strand 4	F	34	40	anti-parallel
Strand 5	F	46	52	anti-parallel
Strand 6	F	59	61	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	F	11	13	first strand
Strand 2	F	114	118	parallel
Strand 3	F	93	101	anti-parallel
Strand 4	F	106	110	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: 4YBQ

Analysis of interatomic Contacts of Structural Units in PDB entry:
4YBQ