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

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 1JYM entry

There are 10 chains in PDB entry 1JYM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 63	HIS 241
B	ASP 63	HIS 241
C	GLU 64	ALA 231
D	GLU 64	GLU 236
E	ASP 63	LEU 238
F	GLU 64	GLU 235
G	ASP 63	SER 234
H	GLU 64	GLU 236
I	ASP 63	SER 234
J	ASP 63	SER 234

There are 66 helices in PDB entry 1JYM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	72	77	Right-handed 310
Helix 2	2	A	88	102	Right-handed alpha
Helix 3	3	A	110	113	Right-handed 310
Helix 4	4	A	188	202	Right-handed alpha
Helix 5	5	A	211	217	Right-handed alpha
Helix 6	6	A	218	231	Right-handed alpha
Helix 7	7	A	232	234	Right-handed 310
Helix 8	8	B	72	77	Right-handed 310
Helix 9	9	B	88	102	Right-handed alpha
Helix 10	10	B	110	113	Right-handed 310
Helix 11	11	B	188	202	Right-handed alpha
Helix 12	12	B	205	209	Right-handed 310
Helix 13	13	B	211	217	Right-handed alpha
Helix 14	14	B	218	231	Right-handed alpha
Helix 15	15	B	236	240	Right-handed 310
Helix 16	16	C	72	77	Right-handed 310
Helix 17	17	C	89	101	Right-handed alpha
Helix 18	18	C	110	113	Right-handed 310
Helix 19	19	C	188	202	Right-handed alpha
Helix 20	20	C	211	229	Right-handed alpha
Helix 21	21	D	73	77	Right-handed 310
Helix 22	22	D	88	102	Right-handed alpha
Helix 23	23	D	110	113	Right-handed 310
Helix 24	24	D	188	201	Right-handed alpha
Helix 25	25	D	211	218	Right-handed alpha
Helix 26	26	D	218	234	Right-handed alpha
Helix 27	27	E	72	77	Right-handed 310
Helix 28	28	E	88	102	Right-handed alpha
Helix 29	29	E	110	113	Right-handed 310
Helix 30	30	E	188	201	Right-handed alpha
Helix 31	31	E	205	209	Right-handed 310
Helix 32	32	E	211	217	Right-handed alpha
Helix 33	33	E	218	230	Right-handed alpha
Helix 34	34	F	72	77	Right-handed 310
Helix 35	35	F	88	102	Right-handed alpha
Helix 36	36	F	110	113	Right-handed 310
Helix 37	37	F	129	133	Right-handed 310
Helix 38	38	F	188	201	Right-handed alpha
Helix 39	39	F	205	210	Right-handed 310
Helix 40	40	F	211	218	Right-handed alpha
Helix 41	41	F	218	230	Right-handed alpha
Helix 42	42	G	72	77	Right-handed 310
Helix 43	43	G	88	102	Right-handed alpha
Helix 44	44	G	110	113	Right-handed 310
Helix 45	45	G	189	201	Right-handed alpha
Helix 46	46	G	211	231	Right-handed alpha
Helix 47	47	H	72	77	Right-handed 310
Helix 48	48	H	89	102	Right-handed alpha
Helix 49	49	H	110	113	Right-handed 310
Helix 50	50	H	189	202	Right-handed alpha
Helix 51	51	H	205	210	Right-handed alpha
Helix 52	52	H	211	218	Right-handed alpha
Helix 53	53	H	218	231	Right-handed alpha
Helix 54	54	I	72	76	Right-handed 310
Helix 55	55	I	89	102	Right-handed alpha
Helix 56	56	I	110	113	Right-handed 310
Helix 57	57	I	187	201	Right-handed alpha
Helix 58	58	I	211	218	Right-handed alpha
Helix 59	59	I	218	231	Right-handed alpha
Helix 60	60	J	72	77	Right-handed 310
Helix 61	61	J	88	102	Right-handed alpha
Helix 62	62	J	110	113	Right-handed 310
Helix 63	63	J	188	203	Right-handed alpha
Helix 64	64	J	205	210	Right-handed 310
Helix 65	65	J	211	218	Right-handed alpha
Helix 66	66	J	218	231	Right-handed alpha

There are 21 sheets in PDB entry 1JYM. 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,

There are 5 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	106	108	first strand
Strand 2	A	118	121	anti-parallel
Strand 3	A	134	144	anti-parallel
Strand 4	A	169	175	anti-parallel
Strand 5	A	181	187	anti-parallel

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There are 2 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	148	154	first strand
Strand 2	A	161	167	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	B	106	108	first strand
Strand 2	B	118	121	anti-parallel
Strand 3	B	134	144	anti-parallel
Strand 4	B	169	175	anti-parallel
Strand 5	B	181	187	anti-parallel

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There are 2 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	148	155	first strand
Strand 2	B	158	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	106	108	first strand
Strand 2	C	118	121	anti-parallel
Strand 3	C	134	144	anti-parallel
Strand 4	C	169	175	anti-parallel
Strand 5	C	181	187	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	C	148	155	first strand
Strand 2	C	158	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	106	108	first strand
Strand 2	D	118	121	anti-parallel
Strand 3	D	134	144	anti-parallel
Strand 4	D	169	175	anti-parallel
Strand 5	D	181	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	148	155	first strand
Strand 2	D	158	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	106	108	first strand
Strand 2	E	118	121	anti-parallel
Strand 3	E	134	144	anti-parallel
Strand 4	E	169	175	anti-parallel
Strand 5	E	181	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	148	155	first strand
Strand 2	E	158	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	106	108	first strand
Strand 2	F	118	121	anti-parallel
Strand 3	F	134	144	anti-parallel
Strand 4	F	169	175	anti-parallel
Strand 5	F	181	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	148	155	first strand
Strand 2	F	158	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	106	108	first strand
Strand 2	G	118	121	anti-parallel
Strand 3	G	134	144	anti-parallel
Strand 4	G	169	175	anti-parallel
Strand 5	G	181	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	148	155	first strand
Strand 2	G	158	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	106	108	first strand
Strand 2	H	118	121	anti-parallel
Strand 3	H	134	144	anti-parallel
Strand 4	H	169	175	anti-parallel
Strand 5	H	181	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	148	155	first strand
Strand 2	H	158	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	106	108	first strand
Strand 2	I	118	121	anti-parallel
Strand 3	I	134	144	anti-parallel
Strand 4	I	170	175	anti-parallel
Strand 5	I	181	186	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	148	151	first strand
Strand 2	I	164	167	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	154	155	first strand
Strand 2	I	158	161	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	106	108	first strand
Strand 2	J	118	121	anti-parallel
Strand 3	J	134	144	anti-parallel
Strand 4	J	169	175	anti-parallel
Strand 5	J	181	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	148	155	first strand
Strand 2	J	158	167	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: 1JYM

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