Analysis of interatomic Contacts of Structural Units in PDB entry:
4Y5R

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 4Y5R entry

There are 7 chains in PDB entry 4Y5R (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 6	GLU 359
B	ALA 6	GLU 360
C	THR 7	SER 56
C	VAL 58	SER 131
D	GLN 11	GLY 386
E	THR 7	SER 56
E	VAL 58	LEU 89

There are 63 helices in PDB entry 4Y5R. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	6	18	Right-handed alpha
Helix 2	AA2	A	19	24	Right-handed 310
Helix 3	AA3	A	30	35	Right-handed alpha
Helix 4	AA4	A	36	40	Right-handed 310
Helix 5	AA5	A	72	76	Right-handed 310
Helix 6	AA6	A	99	110	Right-handed alpha
Helix 7	AA7	A	118	128	Right-handed alpha
Helix 8	AA8	A	129	141	Right-handed alpha
Helix 9	AA9	A	143	146	Right-handed 310
Helix 10	AB1	A	147	164	Right-handed alpha
Helix 11	AB2	A	173	180	Right-handed alpha
Helix 12	AB3	A	186	199	Right-handed alpha
Helix 13	AB4	A	200	204	Right-handed 310
Helix 14	AB5	A	231	239	Right-handed alpha
Helix 15	AB6	A	247	252	Right-handed 310
Helix 16	AB7	A	257	261	Right-handed 310
Helix 17	AB8	A	271	275	Right-handed 310
Helix 18	AB9	A	286	295	Right-handed alpha
Helix 19	AC1	A	296	298	Right-handed 310
Helix 20	AC2	A	301	306	Right-handed 310
Helix 21	AC3	A	324	329	Right-handed alpha
Helix 22	AC4	A	335	348	Right-handed alpha
Helix 23	AC5	A	349	350	Right-handed 310
Helix 24	AC6	A	351	359	Right-handed 310
Helix 25	AC7	B	7	19	Right-handed alpha
Helix 26	AC8	B	20	24	Right-handed 310
Helix 27	AC9	B	30	35	Right-handed alpha
Helix 28	AD1	B	36	40	Right-handed 310
Helix 29	AD2	B	72	76	Right-handed 310
Helix 30	AD3	B	99	110	Right-handed alpha
Helix 31	AD4	B	118	128	Right-handed alpha
Helix 32	AD5	B	129	141	Right-handed alpha
Helix 33	AD6	B	143	146	Right-handed 310
Helix 34	AD7	B	147	164	Right-handed alpha
Helix 35	AD8	B	173	180	Right-handed alpha
Helix 36	AD9	B	186	199	Right-handed alpha
Helix 37	AE1	B	200	204	Right-handed 310
Helix 38	AE2	B	231	239	Right-handed alpha
Helix 39	AE3	B	247	252	Right-handed 310
Helix 40	AE4	B	257	261	Right-handed 310
Helix 41	AE5	B	271	275	Right-handed 310
Helix 42	AE6	B	286	294	Right-handed alpha
Helix 43	AE7	B	295	298	Right-handed 310
Helix 44	AE8	B	301	306	Right-handed 310
Helix 45	AE9	B	324	329	Right-handed alpha
Helix 46	AF1	B	335	348	Right-handed alpha
Helix 47	AF2	B	349	350	Right-handed 310
Helix 48	AF3	B	351	359	Right-handed 310
Helix 49	AF4	C	25	29	Right-handed 310
Helix 50	AF5	C	36	40	Right-handed 310
Helix 51	AF6	C	99	103	Right-handed 310
Helix 52	AF7	C	112	116	Right-handed 310
Helix 53	AF8	D	13	29	Right-handed alpha
Helix 54	AF9	D	52	56	Right-handed 310
Helix 55	AG1	D	138	140	Right-handed 310
Helix 56	AG2	D	269	275	Right-handed alpha
Helix 57	AG3	E	25	29	Right-handed 310
Helix 58	AG4	E	36	40	Right-handed 310
Helix 59	AG5	E	99	103	Right-handed 310
Helix 60	AG6	E	112	116	Right-handed 310
Helix 61	AG7	F	13	29	Right-handed alpha
Helix 62	AG8	F	138	140	Right-handed 310
Helix 63	AG9	F	269	275	Right-handed alpha

There are 28 sheets in PDB entry 4Y5R. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1,

There are 2 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	80	81	first strand
Strand 2	A	87	88	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	223	224	first strand
Strand 2	A	264	265	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	80	81	first strand
Strand 2	B	87	88	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	223	224	first strand
Strand 2	B	264	265	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	32	34	first strand
Strand 2	C	87	89	anti-parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	51	52	first strand
Strand 2	C	69	78	anti-parallel
Strand 3	C	119	123	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	57	62	first strand
Strand 2	C	69	78	anti-parallel
Strand 3	C	126	129	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	70	77	first strand
Strand 2	D	59	65	anti-parallel
Strand 3	D	46	51	anti-parallel
Strand 4	D	379	381	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	82	85	first strand
Strand 2	D	92	101	anti-parallel
Strand 3	D	104	114	anti-parallel
Strand 4	D	121	127	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	142	144	first strand
Strand 2	D	150	155	anti-parallel
Strand 3	D	161	166	anti-parallel
Strand 4	D	171	177	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	181	188	first strand
Strand 2	D	191	196	anti-parallel
Strand 3	D	201	205	anti-parallel
Strand 4	D	213	216	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	232	234	first strand
Strand 2	D	239	243	anti-parallel
Strand 3	D	248	253	anti-parallel
Strand 4	D	260	261	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	232	234	first strand
Strand 2	D	239	243	anti-parallel
Strand 3	D	248	253	anti-parallel
Strand 4	D	265	266	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	277	279	first strand
Strand 2	D	293	300	anti-parallel
Strand 3	D	285	288	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	277	279	first strand
Strand 2	D	293	300	anti-parallel
Strand 3	D	310	317	anti-parallel
Strand 4	D	323	333	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	335	338	first strand
Strand 2	D	345	350	anti-parallel
Strand 3	D	355	360	anti-parallel
Strand 4	D	366	370	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	32	34	first strand
Strand 2	E	87	89	anti-parallel

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There are 3 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	51	52	first strand
Strand 2	E	69	78	anti-parallel
Strand 3	E	119	123	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	57	62	first strand
Strand 2	E	69	78	anti-parallel
Strand 3	E	126	129	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	70	77	first strand
Strand 2	F	59	65	anti-parallel
Strand 3	F	46	51	anti-parallel
Strand 4	F	379	381	anti-parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	82	85	first strand
Strand 2	F	92	114	anti-parallel
Strand 3	F	121	127	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	142	144	first strand
Strand 2	F	150	155	anti-parallel
Strand 3	F	161	166	anti-parallel
Strand 4	F	171	177	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	181	188	first strand
Strand 2	F	191	196	anti-parallel
Strand 3	F	200	205	anti-parallel
Strand 4	F	213	219	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	232	234	first strand
Strand 2	F	239	243	anti-parallel
Strand 3	F	248	253	anti-parallel
Strand 4	F	260	261	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	232	234	first strand
Strand 2	F	239	243	anti-parallel
Strand 3	F	248	253	anti-parallel
Strand 4	F	265	266	anti-parallel

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There are 3 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	277	279	first strand
Strand 2	F	293	300	anti-parallel
Strand 3	F	285	288	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	277	279	first strand
Strand 2	F	293	300	anti-parallel
Strand 3	F	310	317	anti-parallel
Strand 4	F	323	333	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	335	338	first strand
Strand 2	F	345	350	anti-parallel
Strand 3	F	355	360	anti-parallel
Strand 4	F	366	370	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: 4Y5R

Analysis of interatomic Contacts of Structural Units in PDB entry:
4Y5R