Analysis of interatomic Contacts of Structural Units in PDB entry:
5JYD

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 5JYD entry

There are 5 chains in PDB entry 5JYD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 24	PHE 314
B	GLY 23	PHE 314
C	LEU 24	PHE 314
D	LEU 24	PHE 314
E	GLY 23	ALA 199

There are134 helices in PDB entry 5JYD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	46	50	Right-handed 310
Helix 2	AA2	A	79	92	Right-handed alpha
Helix 3	AA3	A	101	103	Right-handed 310
Helix 4	AA4	A	104	118	Right-handed alpha
Helix 5	AA5	A	131	147	Right-handed alpha
Helix 6	AA6	A	164	168	Right-handed 310
Helix 7	AA7	A	169	181	Right-handed alpha
Helix 8	AA8	A	181	192	Right-handed alpha
Helix 9	AA9	A	193	195	Right-handed 310
Helix 10	AB1	A	207	212	Right-handed alpha
Helix 11	AB2	A	216	238	Right-handed alpha
Helix 12	AB3	A	239	241	Right-handed 310
Helix 13	AB4	A	254	259	Right-handed alpha
Helix 14	AB5	A	263	269	Right-handed alpha
Helix 15	AB6	A	281	284	Right-handed 310
Helix 16	AB7	A	285	294	Right-handed alpha
Helix 17	AB8	B	26	30	Right-handed 310
Helix 18	AB9	B	46	50	Right-handed 310
Helix 19	AC1	B	79	92	Right-handed alpha
Helix 20	AC2	B	101	103	Right-handed 310
Helix 21	AC3	B	104	118	Right-handed alpha
Helix 22	AC4	B	131	147	Right-handed alpha
Helix 23	AC5	B	164	168	Right-handed 310
Helix 24	AC6	B	169	181	Right-handed alpha
Helix 25	AC7	B	181	192	Right-handed alpha
Helix 26	AC8	B	193	195	Right-handed 310
Helix 27	AC9	B	207	212	Right-handed alpha
Helix 28	AD1	B	216	238	Right-handed alpha
Helix 29	AD2	B	239	241	Right-handed 310
Helix 30	AD3	B	254	259	Right-handed alpha
Helix 31	AD4	B	263	269	Right-handed alpha
Helix 32	AD5	B	281	284	Right-handed 310
Helix 33	AD6	B	285	294	Right-handed alpha
Helix 34	AD7	C	26	30	Right-handed 310
Helix 35	AD8	C	46	50	Right-handed 310
Helix 36	AD9	C	79	92	Right-handed alpha
Helix 37	AE1	C	101	103	Right-handed 310
Helix 38	AE2	C	104	118	Right-handed alpha
Helix 39	AE3	C	131	147	Right-handed alpha
Helix 40	AE4	C	164	168	Right-handed 310
Helix 41	AE5	C	169	181	Right-handed alpha
Helix 42	AE6	C	181	192	Right-handed alpha
Helix 43	AE7	C	193	195	Right-handed 310
Helix 44	AE8	C	207	212	Right-handed alpha
Helix 45	AE9	C	216	238	Right-handed alpha
Helix 46	AF1	C	239	241	Right-handed 310
Helix 47	AF2	C	254	259	Right-handed alpha
Helix 48	AF3	C	263	269	Right-handed alpha
Helix 49	AF4	C	281	284	Right-handed 310
Helix 50	AF5	C	285	294	Right-handed alpha
Helix 51	AF6	D	26	31	Right-handed 310
Helix 52	AF7	D	46	50	Right-handed 310
Helix 53	AF8	D	79	92	Right-handed alpha
Helix 54	AF9	D	101	103	Right-handed 310
Helix 55	AG1	D	104	118	Right-handed alpha
Helix 56	AG2	D	131	147	Right-handed alpha
Helix 57	AG3	D	164	168	Right-handed 310
Helix 58	AG4	D	169	181	Right-handed alpha
Helix 59	AG5	D	181	192	Right-handed alpha
Helix 60	AG6	D	193	195	Right-handed 310
Helix 61	AG7	D	207	212	Right-handed alpha
Helix 62	AG8	D	216	238	Right-handed alpha
Helix 63	AG9	D	239	241	Right-handed 310
Helix 64	AH1	D	254	259	Right-handed alpha
Helix 65	AH2	D	263	269	Right-handed alpha
Helix 66	AH3	D	281	284	Right-handed 310
Helix 67	AH4	D	285	294	Right-handed alpha
Helix 68	AH5	E	46	50	Right-handed 310
Helix 69	AH6	E	79	92	Right-handed alpha
Helix 70	AH7	E	101	103	Right-handed 310
Helix 71	AH8	E	104	118	Right-handed alpha
Helix 72	AH9	E	131	147	Right-handed alpha
Helix 73	AI1	E	164	168	Right-handed 310
Helix 74	AI2	E	169	181	Right-handed alpha
Helix 75	AI3	E	181	192	Right-handed alpha
Helix 76	AI4	E	193	195	Right-handed 310
Helix 77	AI5	E	207	212	Right-handed alpha
Helix 78	AI6	E	216	238	Right-handed alpha
Helix 79	AI7	E	239	241	Right-handed 310
Helix 80	AI8	E	254	259	Right-handed alpha
Helix 81	AI9	E	263	269	Right-handed alpha
Helix 82	AJ1	E	281	284	Right-handed 310
Helix 83	AJ2	E	285	294	Right-handed alpha
Helix 84	AJ3	F	46	50	Right-handed 310
Helix 85	AJ4	F	79	92	Right-handed alpha
Helix 86	AJ5	F	101	103	Right-handed 310
Helix 87	AJ6	F	104	118	Right-handed alpha
Helix 88	AJ7	F	131	147	Right-handed alpha
Helix 89	AJ8	F	164	168	Right-handed 310
Helix 90	AJ9	F	169	181	Right-handed alpha
Helix 91	AK1	F	181	192	Right-handed alpha
Helix 92	AK2	F	193	195	Right-handed 310
Helix 93	AK3	F	207	212	Right-handed alpha
Helix 94	AK4	F	213	215	Right-handed 310
Helix 95	AK5	F	216	238	Right-handed alpha
Helix 96	AK6	F	239	241	Right-handed 310
Helix 97	AK7	F	254	259	Right-handed alpha
Helix 98	AK8	F	263	269	Right-handed alpha
Helix 99	AK9	F	281	284	Right-handed 310
Helix 100	AL1	F	285	294	Right-handed alpha
Helix 101	AL2	G	26	31	Right-handed 310
Helix 102	AL3	G	46	50	Right-handed 310
Helix 103	AL4	G	79	92	Right-handed alpha
Helix 104	AL5	G	101	103	Right-handed 310
Helix 105	AL6	G	104	117	Right-handed alpha
Helix 106	AL7	G	131	147	Right-handed alpha
Helix 107	AL8	G	164	168	Right-handed 310
Helix 108	AL9	G	169	181	Right-handed alpha
Helix 109	AM1	G	181	192	Right-handed alpha
Helix 110	AM2	G	193	195	Right-handed 310
Helix 111	AM3	G	207	212	Right-handed alpha
Helix 112	AM4	G	216	238	Right-handed alpha
Helix 113	AM5	G	239	241	Right-handed 310
Helix 114	AM6	G	254	259	Right-handed alpha
Helix 115	AM7	G	263	269	Right-handed alpha
Helix 116	AM8	G	281	284	Right-handed 310
Helix 117	AM9	G	285	294	Right-handed alpha
Helix 118	AN1	H	26	30	Right-handed 310
Helix 119	AN2	H	46	50	Right-handed 310
Helix 120	AN3	H	79	92	Right-handed alpha
Helix 121	AN4	H	101	103	Right-handed 310
Helix 122	AN5	H	104	118	Right-handed alpha
Helix 123	AN6	H	131	147	Right-handed alpha
Helix 124	AN7	H	164	168	Right-handed 310
Helix 125	AN8	H	169	181	Right-handed alpha
Helix 126	AN9	H	181	192	Right-handed alpha
Helix 127	AO1	H	193	195	Right-handed 310
Helix 128	AO2	H	207	212	Right-handed alpha
Helix 129	AO3	H	216	238	Right-handed alpha
Helix 130	AO4	H	239	241	Right-handed 310
Helix 131	AO5	H	254	259	Right-handed alpha
Helix 132	AO6	H	263	269	Right-handed alpha
Helix 133	AO7	H	281	284	Right-handed 310
Helix 134	AO8	H	285	294	Right-handed alpha

There are 8 sheets in PDB entry 5JYD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 7 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	122	126	first strand
Strand 2	A	95	100	parallel
Strand 3	A	71	74	parallel
Strand 4	A	151	154	parallel
Strand 5	A	200	204	parallel
Strand 6	A	243	249	parallel
Strand 7	A	304	307	parallel

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There are 7 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	122	126	first strand
Strand 2	B	95	100	parallel
Strand 3	B	71	74	parallel
Strand 4	B	151	154	parallel
Strand 5	B	200	204	parallel
Strand 6	B	243	249	parallel
Strand 7	B	304	307	parallel

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There are 7 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	122	126	first strand
Strand 2	C	95	100	parallel
Strand 3	C	71	74	parallel
Strand 4	C	151	154	parallel
Strand 5	C	200	204	parallel
Strand 6	C	243	249	parallel
Strand 7	C	304	307	parallel

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There are 7 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	122	126	first strand
Strand 2	D	95	100	parallel
Strand 3	D	71	74	parallel
Strand 4	D	151	154	parallel
Strand 5	D	200	204	parallel
Strand 6	D	243	249	parallel
Strand 7	D	304	307	parallel

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There are 7 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	122	126	first strand
Strand 2	E	95	100	parallel
Strand 3	E	71	74	parallel
Strand 4	E	151	154	parallel
Strand 5	E	200	204	parallel
Strand 6	E	243	249	parallel
Strand 7	E	304	307	parallel

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There are 7 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	122	126	first strand
Strand 2	F	95	100	parallel
Strand 3	F	71	74	parallel
Strand 4	F	151	154	parallel
Strand 5	F	200	204	parallel
Strand 6	F	243	249	parallel
Strand 7	F	304	307	parallel

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There are 7 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	122	126	first strand
Strand 2	G	95	100	parallel
Strand 3	G	71	74	parallel
Strand 4	G	151	154	parallel
Strand 5	G	200	204	parallel
Strand 6	G	243	249	parallel
Strand 7	G	304	307	parallel

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There are 7 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	122	126	first strand
Strand 2	H	95	100	parallel
Strand 3	H	71	74	parallel
Strand 4	H	151	154	parallel
Strand 5	H	200	204	parallel
Strand 6	H	243	249	parallel
Strand 7	H	304	307	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: 5JYD

Analysis of interatomic Contacts of Structural Units in PDB entry:
5JYD