Analysis of interatomic Contacts of Structural Units in PDB entry:
4YA8

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 4YA8 entry

There are 4 chains in PDB entry 4YA8 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 1	LEU 329
B	SER 1	LEU 329
C	SER 1	LEU 329
D	SER 2	TYR 273

There are 39 helices in PDB entry 4YA8. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	50	55	Right-handed 310
Helix 2	AA2	A	59	63	Right-handed 310
Helix 3	AA3	A	113	118	Right-handed alpha
Helix 4	AA4	A	128	132	Right-handed 310
Helix 5	AA5	A	138	146	Right-handed alpha
Helix 6	AA6	A	174	176	Right-handed 310
Helix 7	AA7	A	223	232	Right-handed alpha
Helix 8	AA8	A	269	273	Right-handed alpha
Helix 9	AA9	A	302	308	Right-handed alpha
Helix 10	AB1	B	50	55	Right-handed 310
Helix 11	AB2	B	59	63	Right-handed 310
Helix 12	AB3	B	108	112	Right-handed 310
Helix 13	AB4	B	113	118	Right-handed alpha
Helix 14	AB5	B	128	132	Right-handed 310
Helix 15	AB6	B	138	146	Right-handed alpha
Helix 16	AB7	B	174	176	Right-handed 310
Helix 17	AB8	B	223	232	Right-handed alpha
Helix 18	AB9	B	269	273	Right-handed alpha
Helix 19	AC1	B	302	308	Right-handed alpha
Helix 20	AC2	C	50	55	Right-handed 310
Helix 21	AC3	C	59	63	Right-handed 310
Helix 22	AC4	C	108	112	Right-handed 310
Helix 23	AC5	C	113	118	Right-handed alpha
Helix 24	AC6	C	128	132	Right-handed 310
Helix 25	AC7	C	138	146	Right-handed alpha
Helix 26	AC8	C	174	176	Right-handed 310
Helix 27	AC9	C	223	232	Right-handed alpha
Helix 28	AD1	C	269	273	Right-handed alpha
Helix 29	AD2	C	302	308	Right-handed alpha
Helix 30	AD3	D	50	55	Right-handed 310
Helix 31	AD4	D	59	63	Right-handed 310
Helix 32	AD5	D	108	112	Right-handed 310
Helix 33	AD6	D	113	118	Right-handed alpha
Helix 34	AD7	D	128	132	Right-handed 310
Helix 35	AD8	D	138	146	Right-handed alpha
Helix 36	AD9	D	174	178	Right-handed 310
Helix 37	AE1	D	223	232	Right-handed alpha
Helix 38	AE2	D	269	273	Right-handed alpha
Helix 39	AE3	D	302	308	Right-handed alpha

There are 24 sheets in PDB entry 4YA8. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X,

There are 9 strands in A 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	27	34	parallel
Strand 3	A	15	22	anti-parallel
Strand 4	A	4	11	anti-parallel
Strand 5	A	166	170	anti-parallel
Strand 6	A	153	157	anti-parallel
Strand 7	A	309	314	anti-parallel
Strand 8	A	319	324	anti-parallel
Strand 9	A	183	186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	41	43	first strand
Strand 2	A	96	107	parallel
Strand 3	A	81	93	anti-parallel
Strand 4	A	72	76	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	194	197	first strand
Strand 2	A	209	213	anti-parallel
Strand 3	A	298	301	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	204	206	first strand
Strand 2	A	198	201	anti-parallel
Strand 3	A	257	260	anti-parallel
Strand 4	A	265	268	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	220	222	first strand
Strand 2	A	289	291	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	246	248	first strand
Strand 2	A	284	287	anti-parallel
Strand 3	A	274	276	anti-parallel

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There are 9 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	122	125	first strand
Strand 2	B	27	34	parallel
Strand 3	B	15	22	anti-parallel
Strand 4	B	4	11	anti-parallel
Strand 5	B	166	170	anti-parallel
Strand 6	B	153	157	anti-parallel
Strand 7	B	309	314	anti-parallel
Strand 8	B	319	324	anti-parallel
Strand 9	B	183	186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	41	43	first strand
Strand 2	B	96	107	parallel
Strand 3	B	81	93	anti-parallel
Strand 4	B	72	76	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	194	197	first strand
Strand 2	B	209	213	anti-parallel
Strand 3	B	298	301	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	204	206	first strand
Strand 2	B	198	201	anti-parallel
Strand 3	B	257	260	anti-parallel
Strand 4	B	265	268	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	220	222	first strand
Strand 2	B	289	291	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	246	248	first strand
Strand 2	B	284	287	anti-parallel
Strand 3	B	274	276	anti-parallel

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There are 9 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	122	125	first strand
Strand 2	C	27	34	parallel
Strand 3	C	15	22	anti-parallel
Strand 4	C	4	11	anti-parallel
Strand 5	C	166	170	anti-parallel
Strand 6	C	153	157	anti-parallel
Strand 7	C	309	314	anti-parallel
Strand 8	C	319	324	anti-parallel
Strand 9	C	183	186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	41	43	first strand
Strand 2	C	96	107	parallel
Strand 3	C	81	93	anti-parallel
Strand 4	C	72	76	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	194	197	first strand
Strand 2	C	209	213	anti-parallel
Strand 3	C	298	301	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	204	206	first strand
Strand 2	C	198	201	anti-parallel
Strand 3	C	257	260	anti-parallel
Strand 4	C	265	268	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	220	222	first strand
Strand 2	C	289	291	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	246	248	first strand
Strand 2	C	284	287	anti-parallel
Strand 3	C	274	277	anti-parallel

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There are 9 strands in S sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	122	125	first strand
Strand 2	D	27	34	parallel
Strand 3	D	15	22	anti-parallel
Strand 4	D	4	11	anti-parallel
Strand 5	D	166	170	anti-parallel
Strand 6	D	153	157	anti-parallel
Strand 7	D	309	314	anti-parallel
Strand 8	D	319	324	anti-parallel
Strand 9	D	182	186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	41	43	first strand
Strand 2	D	96	107	parallel
Strand 3	D	81	93	anti-parallel
Strand 4	D	72	76	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	194	197	first strand
Strand 2	D	209	213	anti-parallel
Strand 3	D	298	301	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	204	206	first strand
Strand 2	D	198	201	anti-parallel
Strand 3	D	257	260	anti-parallel
Strand 4	D	265	268	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	220	222	first strand
Strand 2	D	289	291	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	246	248	first strand
Strand 2	D	284	287	anti-parallel
Strand 3	D	274	276	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: 4YA8

Analysis of interatomic Contacts of Structural Units in PDB entry:
4YA8