Analysis of interatomic Contacts of Structural Units in PDB entry:
1YA4

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 1YA4 entry

There are 3 chains in PDB entry 1YA4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 22	LYS 553
B	SER 21	LYS 553
C	SER 21	LYS 553

There are 68 helices in PDB entry 1YA4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	60	64	Right-handed 310
Helix 2	2	A	90	102	Right-handed alpha
Helix 3	3	A	154	162	Right-handed alpha
Helix 4	4	A	172	178	Right-handed alpha
Helix 5	5	A	188	205	Right-handed alpha
Helix 6	6	A	206	208	Right-handed 310
Helix 7	7	A	221	233	Right-handed alpha
Helix 8	8	A	252	254	Right-handed 310
Helix 9	9	A	261	272	Right-handed alpha
Helix 10	10	A	278	289	Right-handed alpha
Helix 11	11	A	290	301	Right-handed alpha
Helix 12	12	A	331	336	Right-handed alpha
Helix 13	13	A	357	364	Right-handed alpha
Helix 14	14	A	367	371	Right-handed 310
Helix 15	15	A	374	385	Right-handed alpha
Helix 16	16	A	385	390	Right-handed alpha
Helix 17	17	A	395	405	Right-handed alpha
Helix 18	18	A	409	426	Right-handed alpha
Helix 19	19	A	426	439	Right-handed alpha
Helix 20	20	A	471	476	Right-handed alpha
Helix 21	21	A	477	481	Right-handed 310
Helix 22	22	A	486	507	Right-handed alpha
Helix 23	23	A	540	552	Right-handed alpha
Helix 24	24	B	60	64	Right-handed 310
Helix 25	25	B	90	102	Right-handed alpha
Helix 26	26	B	148	152	Right-handed 310
Helix 27	27	B	154	162	Right-handed alpha
Helix 28	28	B	172	178	Right-handed alpha
Helix 29	29	B	188	203	Right-handed alpha
Helix 30	30	B	204	208	Right-handed 310
Helix 31	31	B	221	233	Right-handed alpha
Helix 32	32	B	252	254	Right-handed 310
Helix 33	33	B	261	272	Right-handed alpha
Helix 34	34	B	278	289	Right-handed alpha
Helix 35	35	B	290	301	Right-handed alpha
Helix 36	36	B	331	338	Right-handed alpha
Helix 37	37	B	357	364	Right-handed alpha
Helix 38	38	B	374	385	Right-handed alpha
Helix 39	39	B	385	390	Right-handed alpha
Helix 40	40	B	395	405	Right-handed alpha
Helix 41	41	B	409	426	Right-handed alpha
Helix 42	42	B	426	439	Right-handed alpha
Helix 43	43	B	471	476	Right-handed alpha
Helix 44	44	B	477	481	Right-handed 310
Helix 45	45	B	486	507	Right-handed alpha
Helix 46	46	B	540	553	Right-handed alpha
Helix 47	47	C	60	64	Right-handed 310
Helix 48	48	C	90	102	Right-handed alpha
Helix 49	49	C	154	162	Right-handed alpha
Helix 50	50	C	172	178	Right-handed alpha
Helix 51	51	C	188	203	Right-handed alpha
Helix 52	52	C	204	208	Right-handed 310
Helix 53	53	C	221	233	Right-handed alpha
Helix 54	54	C	252	256	Right-handed 310
Helix 55	55	C	261	272	Right-handed alpha
Helix 56	56	C	278	289	Right-handed alpha
Helix 57	57	C	290	302	Right-handed alpha
Helix 58	58	C	331	338	Right-handed alpha
Helix 59	59	C	357	364	Right-handed alpha
Helix 60	60	C	374	385	Right-handed alpha
Helix 61	61	C	385	390	Right-handed alpha
Helix 62	62	C	395	405	Right-handed alpha
Helix 63	63	C	409	426	Right-handed alpha
Helix 64	64	C	426	439	Right-handed alpha
Helix 65	65	C	471	476	Right-handed alpha
Helix 66	66	C	477	482	Right-handed alpha
Helix 67	67	C	486	507	Right-handed alpha
Helix 68	68	C	540	552	Right-handed alpha

There are 8 sheets in PDB entry 1YA4. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 3 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	25	28	first strand
Strand 2	A	31	34	anti-parallel
Strand 3	A	77	79	parallel

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There are 11 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	36	38	first strand
Strand 2	A	47	54	anti-parallel
Strand 3	A	118	123	anti-parallel
Strand 4	A	164	168	anti-parallel
Strand 5	A	133	139	parallel
Strand 6	A	210	220	parallel
Strand 7	A	242	246	parallel
Strand 8	A	346	351	parallel
Strand 9	A	444	449	parallel
Strand 10	A	525	529	parallel
Strand 11	A	534	537	anti-parallel

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There are 2 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	256	257	first strand
Strand 2	A	321	322	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	25	28	first strand
Strand 2	B	31	34	anti-parallel
Strand 3	B	77	79	parallel

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There are 11 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	36	38	first strand
Strand 2	B	47	54	anti-parallel
Strand 3	B	118	123	anti-parallel
Strand 4	B	164	168	anti-parallel
Strand 5	B	133	139	parallel
Strand 6	B	210	220	parallel
Strand 7	B	242	246	parallel
Strand 8	B	346	351	parallel
Strand 9	B	444	449	parallel
Strand 10	B	525	529	parallel
Strand 11	B	534	537	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	256	257	first strand
Strand 2	B	321	322	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	25	28	first strand
Strand 2	C	31	34	anti-parallel
Strand 3	C	77	79	parallel

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There are 11 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	36	38	first strand
Strand 2	C	47	54	anti-parallel
Strand 3	C	118	123	anti-parallel
Strand 4	C	164	168	anti-parallel
Strand 5	C	133	139	parallel
Strand 6	C	210	220	parallel
Strand 7	C	242	246	parallel
Strand 8	C	346	351	parallel
Strand 9	C	444	449	parallel
Strand 10	C	525	529	parallel
Strand 11	C	534	537	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: 1YA4

Analysis of interatomic Contacts of Structural Units in PDB entry:
1YA4