Analysis of interatomic Contacts of Structural Units in PDB entry:
5Y3D

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 5Y3D entry

There are 3 chains in PDB entry 5Y3D (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 8	GLY 491
B	PRO 8	GLY 491
C	PRO 8	LEU 314

There are112 helices in PDB entry 5Y3D. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	61	71	Right-handed alpha
Helix 2	AA2	A	72	75	Right-handed 310
Helix 3	AA3	A	82	101	Right-handed alpha
Helix 4	AA4	A	108	115	Right-handed alpha
Helix 5	AA5	A	129	134	Right-handed 310
Helix 6	AA6	A	140	156	Right-handed alpha
Helix 7	AA7	A	175	180	Right-handed alpha
Helix 8	AA8	A	191	212	Right-handed alpha
Helix 9	AA9	A	223	237	Right-handed alpha
Helix 10	AB1	A	254	268	Right-handed alpha
Helix 11	AB2	A	271	284	Right-handed alpha
Helix 12	AB3	A	307	329	Right-handed alpha
Helix 13	AB4	A	331	338	Right-handed alpha
Helix 14	AB5	A	357	368	Right-handed alpha
Helix 15	AB6	A	410	419	Right-handed alpha
Helix 16	AB7	A	439	452	Right-handed alpha
Helix 17	AB8	A	454	470	Right-handed alpha
Helix 18	AB9	A	480	491	Right-handed alpha
Helix 19	AC1	B	61	71	Right-handed alpha
Helix 20	AC2	B	72	75	Right-handed 310
Helix 21	AC3	B	82	101	Right-handed alpha
Helix 22	AC4	B	108	115	Right-handed alpha
Helix 23	AC5	B	129	134	Right-handed 310
Helix 24	AC6	B	140	156	Right-handed alpha
Helix 25	AC7	B	175	180	Right-handed alpha
Helix 26	AC8	B	191	212	Right-handed alpha
Helix 27	AC9	B	227	237	Right-handed alpha
Helix 28	AD1	B	254	268	Right-handed alpha
Helix 29	AD2	B	271	284	Right-handed alpha
Helix 30	AD3	B	307	329	Right-handed alpha
Helix 31	AD4	B	331	338	Right-handed alpha
Helix 32	AD5	B	357	368	Right-handed alpha
Helix 33	AD6	B	410	419	Right-handed alpha
Helix 34	AD7	B	442	452	Right-handed alpha
Helix 35	AD8	B	454	470	Right-handed alpha
Helix 36	AD9	B	480	491	Right-handed alpha
Helix 37	AE1	C	61	71	Right-handed alpha
Helix 38	AE2	C	72	75	Right-handed 310
Helix 39	AE3	C	82	101	Right-handed alpha
Helix 40	AE4	C	108	115	Right-handed alpha
Helix 41	AE5	C	129	134	Right-handed 310
Helix 42	AE6	C	140	156	Right-handed alpha
Helix 43	AE7	C	175	180	Right-handed alpha
Helix 44	AE8	C	191	212	Right-handed alpha
Helix 45	AE9	C	223	236	Right-handed alpha
Helix 46	AF1	C	254	268	Right-handed alpha
Helix 47	AF2	C	271	284	Right-handed alpha
Helix 48	AF3	C	307	329	Right-handed alpha
Helix 49	AF4	C	331	338	Right-handed alpha
Helix 50	AF5	C	357	368	Right-handed alpha
Helix 51	AF6	C	410	419	Right-handed alpha
Helix 52	AF7	C	440	452	Right-handed alpha
Helix 53	AF8	C	454	470	Right-handed alpha
Helix 54	AF9	C	480	490	Right-handed alpha
Helix 55	AG1	D	61	71	Right-handed alpha
Helix 56	AG2	D	72	75	Right-handed 310
Helix 57	AG3	D	82	101	Right-handed alpha
Helix 58	AG4	D	108	115	Right-handed alpha
Helix 59	AG5	D	129	134	Right-handed 310
Helix 60	AG6	D	140	156	Right-handed alpha
Helix 61	AG7	D	175	180	Right-handed alpha
Helix 62	AG8	D	191	212	Right-handed alpha
Helix 63	AG9	D	227	237	Right-handed alpha
Helix 64	AH1	D	254	268	Right-handed alpha
Helix 65	AH2	D	271	284	Right-handed alpha
Helix 66	AH3	D	307	329	Right-handed alpha
Helix 67	AH4	D	331	338	Right-handed alpha
Helix 68	AH5	D	357	368	Right-handed alpha
Helix 69	AH6	D	410	419	Right-handed alpha
Helix 70	AH7	D	440	452	Right-handed alpha
Helix 71	AH8	D	454	468	Right-handed alpha
Helix 72	AH9	D	480	491	Right-handed alpha
Helix 73	AI1	E	61	71	Right-handed alpha
Helix 74	AI2	E	72	75	Right-handed 310
Helix 75	AI3	E	82	101	Right-handed alpha
Helix 76	AI4	E	108	115	Right-handed alpha
Helix 77	AI5	E	129	134	Right-handed 310
Helix 78	AI6	E	140	156	Right-handed alpha
Helix 79	AI7	E	175	180	Right-handed alpha
Helix 80	AI8	E	191	212	Right-handed alpha
Helix 81	AI9	E	223	237	Right-handed alpha
Helix 82	AJ1	E	254	268	Right-handed alpha
Helix 83	AJ2	E	271	284	Right-handed alpha
Helix 84	AJ3	E	307	329	Right-handed alpha
Helix 85	AJ4	E	331	338	Right-handed alpha
Helix 86	AJ5	E	357	368	Right-handed alpha
Helix 87	AJ6	E	410	419	Right-handed alpha
Helix 88	AJ7	E	441	452	Right-handed alpha
Helix 89	AJ8	E	454	471	Right-handed alpha
Helix 90	AJ9	E	480	490	Right-handed alpha
Helix 91	AK1	F	61	71	Right-handed alpha
Helix 92	AK2	F	72	75	Right-handed 310
Helix 93	AK3	F	82	101	Right-handed alpha
Helix 94	AK4	F	108	115	Right-handed alpha
Helix 95	AK5	F	129	134	Right-handed 310
Helix 96	AK6	F	140	156	Right-handed alpha
Helix 97	AK7	F	175	180	Right-handed alpha
Helix 98	AK8	F	191	212	Right-handed alpha
Helix 99	AK9	F	227	237	Right-handed alpha
Helix 100	AL1	F	254	268	Right-handed alpha
Helix 101	AL2	F	271	284	Right-handed alpha
Helix 102	AL3	F	307	329	Right-handed alpha
Helix 103	AL4	F	331	338	Right-handed alpha
Helix 104	AL5	F	357	368	Right-handed alpha
Helix 105	AL6	F	410	419	Right-handed alpha
Helix 106	AL7	F	440	452	Right-handed alpha
Helix 107	AL8	F	454	470	Right-handed alpha
Helix 108	AL9	F	480	491	Right-handed alpha
Helix 109	AM1	G	25	37	Right-handed alpha
Helix 110	AM2	G	41	56	Right-handed alpha
Helix 111	AM3	H	25	36	Right-handed alpha
Helix 112	AM4	H	41	56	Right-handed alpha

There are 30 sheets in PDB entry 5Y3D. 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, AD2, AD3,

There are 6 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	11	12	first strand
Strand 2	A	15	20	anti-parallel
Strand 3	A	293	297	anti-parallel
Strand 4	A	286	289	anti-parallel
Strand 5	A	163	168	parallel
Strand 6	A	186	189	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	30	34	first strand
Strand 2	A	420	426	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	A	46	47	first strand
Strand 2	A	172	173	anti-parallel

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There are 3 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	240	242	first strand
Strand 2	A	347	352	anti-parallel
Strand 3	A	339	344	anti-parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	392	393	first strand
Strand 2	A	396	401	anti-parallel
Strand 3	A	404	408	anti-parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	11	12	first strand
Strand 2	B	15	20	anti-parallel
Strand 3	B	293	297	anti-parallel
Strand 4	B	286	289	anti-parallel
Strand 5	B	163	168	parallel
Strand 6	B	186	189	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	30	34	first strand
Strand 2	B	420	426	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	46	47	first strand
Strand 2	B	172	173	anti-parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	240	242	first strand
Strand 2	B	347	352	anti-parallel
Strand 3	B	339	344	anti-parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	392	393	first strand
Strand 2	B	396	401	anti-parallel
Strand 3	B	404	409	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	11	12	first strand
Strand 2	C	15	20	anti-parallel
Strand 3	C	293	297	anti-parallel
Strand 4	C	286	289	anti-parallel
Strand 5	C	163	168	parallel
Strand 6	C	186	189	anti-parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	30	34	first strand
Strand 2	C	420	426	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	46	47	first strand
Strand 2	C	172	173	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	C	240	242	first strand
Strand 2	C	347	352	anti-parallel
Strand 3	C	339	344	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	392	393	first strand
Strand 2	C	396	401	anti-parallel
Strand 3	C	404	409	anti-parallel

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There are 6 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	11	12	first strand
Strand 2	D	15	20	anti-parallel
Strand 3	D	293	297	anti-parallel
Strand 4	D	286	289	anti-parallel
Strand 5	D	163	168	parallel
Strand 6	D	186	189	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	D	30	34	first strand
Strand 2	D	420	426	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	46	47	first strand
Strand 2	D	172	173	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	D	240	242	first strand
Strand 2	D	347	352	anti-parallel
Strand 3	D	339	344	anti-parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	392	393	first strand
Strand 2	D	396	401	anti-parallel
Strand 3	D	404	408	anti-parallel

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There are 6 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	11	12	first strand
Strand 2	E	15	20	anti-parallel
Strand 3	E	293	297	anti-parallel
Strand 4	E	286	289	anti-parallel
Strand 5	E	163	168	parallel
Strand 6	E	186	189	anti-parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	30	34	first strand
Strand 2	E	420	426	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	46	47	first strand
Strand 2	E	172	173	anti-parallel

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There are 3 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	240	242	first strand
Strand 2	E	347	352	anti-parallel
Strand 3	E	339	344	anti-parallel

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There are 3 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	392	393	first strand
Strand 2	E	396	401	anti-parallel
Strand 3	E	404	409	anti-parallel

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There are 6 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	11	12	first strand
Strand 2	F	15	20	anti-parallel
Strand 3	F	293	297	anti-parallel
Strand 4	F	286	289	anti-parallel
Strand 5	F	163	168	parallel
Strand 6	F	186	189	anti-parallel

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There are 2 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	30	34	first strand
Strand 2	F	420	426	anti-parallel

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There are 2 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	46	47	first strand
Strand 2	F	172	173	anti-parallel

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There are 3 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	240	242	first strand
Strand 2	F	347	352	anti-parallel
Strand 3	F	339	344	anti-parallel

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There are 3 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	392	393	first strand
Strand 2	F	396	401	anti-parallel
Strand 3	F	404	408	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: 5Y3D

Analysis of interatomic Contacts of Structural Units in PDB entry:
5Y3D