Analysis of interatomic Contacts of Structural Units in PDB entry:
5YA1

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 5YA1 entry

There are 4 chains in PDB entry 5YA1 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 10	LYS 504
B	SER 10	LYS 504
C	MET 1	GLU 85
D	MET 1	GLU 85

There are 56 helices in PDB entry 5YA1. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	58	78	Right-handed alpha
Helix 2	AA2	A	80	82	Right-handed 310
Helix 3	AA3	A	101	103	Right-handed 310
Helix 4	AA4	A	113	115	Right-handed 310
Helix 5	AA5	A	116	130	Right-handed alpha
Helix 6	AA6	A	130	140	Right-handed alpha
Helix 7	AA7	A	147	158	Right-handed alpha
Helix 8	AA8	A	158	163	Right-handed alpha
Helix 9	AA9	A	171	181	Right-handed alpha
Helix 10	AB1	A	186	191	Right-handed alpha
Helix 11	AB2	A	192	194	Right-handed 310
Helix 12	AB3	A	204	212	Right-handed alpha
Helix 13	AB4	A	214	219	Right-handed alpha
Helix 14	AB5	A	232	240	Right-handed alpha
Helix 15	AB6	A	253	261	Right-handed alpha
Helix 16	AB7	A	314	326	Right-handed alpha
Helix 17	AB8	A	326	337	Right-handed alpha
Helix 18	AB9	A	339	351	Right-handed alpha
Helix 19	AC1	A	354	358	Right-handed 310
Helix 20	AC2	A	389	417	Right-handed alpha
Helix 21	AC3	A	428	431	Right-handed 310
Helix 22	AC4	A	432	444	Right-handed alpha
Helix 23	AC5	A	455	468	Right-handed alpha
Helix 24	AC6	A	473	482	Right-handed alpha
Helix 25	AC7	A	491	502	Right-handed alpha
Helix 26	AC8	B	58	78	Right-handed alpha
Helix 27	AC9	B	80	82	Right-handed 310
Helix 28	AD1	B	101	103	Right-handed 310
Helix 29	AD2	B	113	115	Right-handed 310
Helix 30	AD3	B	116	130	Right-handed alpha
Helix 31	AD4	B	130	140	Right-handed alpha
Helix 32	AD5	B	147	158	Right-handed alpha
Helix 33	AD6	B	158	163	Right-handed alpha
Helix 34	AD7	B	171	181	Right-handed alpha
Helix 35	AD8	B	186	191	Right-handed alpha
Helix 36	AD9	B	192	194	Right-handed 310
Helix 37	AE1	B	204	212	Right-handed alpha
Helix 38	AE2	B	214	219	Right-handed alpha
Helix 39	AE3	B	232	240	Right-handed alpha
Helix 40	AE4	B	253	261	Right-handed alpha
Helix 41	AE5	B	314	326	Right-handed alpha
Helix 42	AE6	B	326	337	Right-handed alpha
Helix 43	AE7	B	339	351	Right-handed alpha
Helix 44	AE8	B	354	358	Right-handed 310
Helix 45	AE9	B	389	417	Right-handed alpha
Helix 46	AF1	B	428	431	Right-handed 310
Helix 47	AF2	B	432	444	Right-handed alpha
Helix 48	AF3	B	455	468	Right-handed alpha
Helix 49	AF4	B	473	482	Right-handed alpha
Helix 50	AF5	B	491	500	Right-handed alpha
Helix 51	AF6	C	15	27	Right-handed alpha
Helix 52	AF7	C	46	52	Right-handed alpha
Helix 53	AF8	C	69	84	Right-handed alpha
Helix 54	AF9	D	15	27	Right-handed alpha
Helix 55	AG1	D	46	52	Right-handed alpha
Helix 56	AG2	D	69	84	Right-handed alpha

There are 12 sheets in PDB entry 5YA1. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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	35	41	first strand
Strand 2	A	24	29	anti-parallel
Strand 3	A	13	19	anti-parallel
Strand 4	A	84	91	parallel
Strand 5	A	246	252	parallel
Strand 6	A	227	230	anti-parallel

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There are 3 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	105	109	first strand
Strand 2	A	96	99	anti-parallel
Strand 3	A	167	170	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	196	197	first strand
Strand 2	A	202	203	anti-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	A	295	298	first strand
Strand 2	A	305	311	anti-parallel
Strand 3	A	277	283	anti-parallel
Strand 4	A	269	273	anti-parallel
Strand 5	A	423	426	parallel
Strand 6	A	447	450	parallel
Strand 7	A	484	488	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	A	359	361	first strand
Strand 2	A	377	379	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	35	42	first strand
Strand 2	B	23	29	anti-parallel
Strand 3	B	13	19	anti-parallel
Strand 4	B	84	91	parallel
Strand 5	B	246	252	parallel
Strand 6	B	227	230	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	B	105	109	first strand
Strand 2	B	96	99	anti-parallel
Strand 3	B	167	170	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	196	197	first strand
Strand 2	B	202	203	anti-parallel

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There are 7 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	295	298	first strand
Strand 2	B	305	311	anti-parallel
Strand 3	B	277	283	anti-parallel
Strand 4	B	269	273	anti-parallel
Strand 5	B	423	426	parallel
Strand 6	B	447	450	parallel
Strand 7	B	484	488	anti-parallel

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There are 2 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	359	361	first strand
Strand 2	B	377	379	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	C	2	7	first strand
Strand 2	C	60	66	anti-parallel
Strand 3	C	32	37	anti-parallel
Strand 4	C	40	43	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	2	7	first strand
Strand 2	D	60	66	anti-parallel
Strand 3	D	32	37	anti-parallel
Strand 4	D	40	43	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: 5YA1

Analysis of interatomic Contacts of Structural Units in PDB entry:
5YA1