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

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 1YLO entry

There are 6 chains in PDB entry 1YLO (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 0	ARG 345
B	ALA 0	ARG 345
C	ALA 0	ARG 345
D	ALA 0	ARG 345
E	ALA 0	ARG 345
F	ALA 0	ARG 345

There are 62 helices in PDB entry 1YLO. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	2	12	Right-handed alpha
Helix 2	2	A	19	33	Right-handed alpha
Helix 3	3	A	88	92	Right-handed 310
Helix 4	4	A	131	138	Right-handed alpha
Helix 5	5	A	164	182	Right-handed alpha
Helix 6	6	A	202	213	Right-handed alpha
Helix 7	7	A	255	270	Right-handed alpha
Helix 8	8	A	284	290	Right-handed alpha
Helix 9	9	A	316	332	Right-handed alpha
Helix 10	10	A	334	341	Right-handed alpha
Helix 11	11	B	2	12	Right-handed alpha
Helix 12	12	B	19	33	Right-handed alpha
Helix 13	13	B	88	92	Right-handed 310
Helix 14	14	B	131	138	Right-handed alpha
Helix 15	15	B	164	182	Right-handed alpha
Helix 16	16	B	203	213	Right-handed alpha
Helix 17	17	B	255	270	Right-handed alpha
Helix 18	18	B	284	290	Right-handed alpha
Helix 19	19	B	316	331	Right-handed alpha
Helix 20	20	B	334	341	Right-handed alpha
Helix 21	21	C	2	12	Right-handed alpha
Helix 22	22	C	19	33	Right-handed alpha
Helix 23	23	C	88	92	Right-handed 310
Helix 24	24	C	131	138	Right-handed alpha
Helix 25	25	C	164	182	Right-handed alpha
Helix 26	26	C	202	213	Right-handed alpha
Helix 27	27	C	255	270	Right-handed alpha
Helix 28	28	C	283	290	Right-handed alpha
Helix 29	29	C	316	332	Right-handed alpha
Helix 30	30	C	334	341	Right-handed alpha
Helix 31	31	D	2	12	Right-handed alpha
Helix 32	32	D	19	33	Right-handed alpha
Helix 33	33	D	88	92	Right-handed 310
Helix 34	34	D	131	138	Right-handed alpha
Helix 35	35	D	164	182	Right-handed alpha
Helix 36	36	D	197	201	Right-handed 310
Helix 37	37	D	203	213	Right-handed alpha
Helix 38	38	D	255	270	Right-handed alpha
Helix 39	39	D	284	290	Right-handed alpha
Helix 40	40	D	316	332	Right-handed alpha
Helix 41	41	D	334	341	Right-handed alpha
Helix 42	42	E	2	12	Right-handed alpha
Helix 43	43	E	19	33	Right-handed alpha
Helix 44	44	E	88	92	Right-handed 310
Helix 45	45	E	131	138	Right-handed alpha
Helix 46	46	E	164	182	Right-handed alpha
Helix 47	47	E	202	213	Right-handed alpha
Helix 48	48	E	255	270	Right-handed alpha
Helix 49	49	E	284	290	Right-handed alpha
Helix 50	50	E	316	332	Right-handed alpha
Helix 51	51	E	334	341	Right-handed alpha
Helix 52	52	F	2	12	Right-handed alpha
Helix 53	53	F	19	33	Right-handed alpha
Helix 54	54	F	88	92	Right-handed 310
Helix 55	55	F	131	138	Right-handed alpha
Helix 56	56	F	164	182	Right-handed alpha
Helix 57	57	F	197	201	Right-handed 310
Helix 58	58	F	202	213	Right-handed alpha
Helix 59	59	F	255	270	Right-handed alpha
Helix 60	60	F	283	290	Right-handed alpha
Helix 61	61	F	316	332	Right-handed alpha
Helix 62	62	F	334	341	Right-handed alpha

There are 18 sheets in PDB entry 1YLO. 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,

There are 8 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	37	39	first strand
Strand 2	A	45	48	anti-parallel
Strand 3	A	189	195	anti-parallel
Strand 4	A	56	62	parallel
Strand 5	A	216	220	parallel
Strand 6	A	297	301	parallel
Strand 7	A	244	248	anti-parallel
Strand 8	A	274	277	parallel

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There are 7 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	67	73	first strand
Strand 2	A	79	84	anti-parallel
Strand 3	A	119	126	anti-parallel
Strand 4	A	106	116	anti-parallel
Strand 5	A	95	100	anti-parallel
Strand 6	A	145	148	anti-parallel
Strand 7	A	67	73	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	153	155	first strand
Strand 2	A	159	162	anti-parallel
Strand 3	A	312	315	anti-parallel

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There are 8 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	37	39	first strand
Strand 2	B	45	48	anti-parallel
Strand 3	B	189	195	anti-parallel
Strand 4	B	56	62	parallel
Strand 5	B	216	220	parallel
Strand 6	B	297	301	parallel
Strand 7	B	244	248	anti-parallel
Strand 8	B	274	277	parallel

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There are 7 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	67	73	first strand
Strand 2	B	79	84	anti-parallel
Strand 3	B	119	126	anti-parallel
Strand 4	B	106	116	anti-parallel
Strand 5	B	95	100	anti-parallel
Strand 6	B	145	148	anti-parallel
Strand 7	B	67	73	anti-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	B	153	155	first strand
Strand 2	B	159	162	anti-parallel
Strand 3	B	312	315	anti-parallel

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There are 8 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	37	39	first strand
Strand 2	C	45	48	anti-parallel
Strand 3	C	189	195	anti-parallel
Strand 4	C	56	62	parallel
Strand 5	C	216	220	parallel
Strand 6	C	297	301	parallel
Strand 7	C	244	248	anti-parallel
Strand 8	C	274	277	parallel

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There are 7 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	67	73	first strand
Strand 2	C	79	84	anti-parallel
Strand 3	C	119	126	anti-parallel
Strand 4	C	106	116	anti-parallel
Strand 5	C	95	100	anti-parallel
Strand 6	C	145	148	anti-parallel
Strand 7	C	67	73	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	C	153	155	first strand
Strand 2	C	159	162	anti-parallel
Strand 3	C	312	315	anti-parallel

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There are 8 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	37	39	first strand
Strand 2	D	45	48	anti-parallel
Strand 3	D	189	195	anti-parallel
Strand 4	D	56	62	parallel
Strand 5	D	216	220	parallel
Strand 6	D	297	301	parallel
Strand 7	D	244	248	anti-parallel
Strand 8	D	274	277	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	67	73	first strand
Strand 2	D	79	84	anti-parallel
Strand 3	D	119	126	anti-parallel
Strand 4	D	106	116	anti-parallel
Strand 5	D	95	100	anti-parallel
Strand 6	D	145	148	anti-parallel
Strand 7	D	67	73	anti-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	D	153	155	first strand
Strand 2	D	159	162	anti-parallel
Strand 3	D	312	315	anti-parallel

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There are 8 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	37	39	first strand
Strand 2	E	45	48	anti-parallel
Strand 3	E	189	195	anti-parallel
Strand 4	E	56	62	parallel
Strand 5	E	216	220	parallel
Strand 6	E	297	301	parallel
Strand 7	E	244	248	anti-parallel
Strand 8	E	274	277	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	67	73	first strand
Strand 2	E	79	84	anti-parallel
Strand 3	E	119	126	anti-parallel
Strand 4	E	106	116	anti-parallel
Strand 5	E	95	100	anti-parallel
Strand 6	E	145	148	anti-parallel
Strand 7	E	67	73	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	E	153	155	first strand
Strand 2	E	159	162	anti-parallel
Strand 3	E	312	315	anti-parallel

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There are 8 strands in P sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	37	39	first strand
Strand 2	F	45	48	anti-parallel
Strand 3	F	189	195	anti-parallel
Strand 4	F	56	62	parallel
Strand 5	F	216	220	parallel
Strand 6	F	297	301	parallel
Strand 7	F	244	248	anti-parallel
Strand 8	F	274	277	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	67	73	first strand
Strand 2	F	79	84	anti-parallel
Strand 3	F	119	126	anti-parallel
Strand 4	F	106	116	anti-parallel
Strand 5	F	95	100	anti-parallel
Strand 6	F	145	148	anti-parallel
Strand 7	F	67	73	anti-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	F	153	155	first strand
Strand 2	F	159	162	anti-parallel
Strand 3	F	312	315	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: 1YLO

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