Analysis of interatomic Contacts of Structural Units in PDB entry:
9YNR

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 9YNR entry

There are 4 chains in PDB entry 9YNR (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	THR 323	CYS 590
C	GLN 14	SER 591
D	GLU 1	LYS 229
E	ALA 2	SER 213

There are 18 helices in PDB entry 9YNR. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	338	343	Right-handed alpha
Helix 2	AA2	B	349	353	Right-handed 310
Helix 3	AA3	B	364	370	Right-handed alpha
Helix 4	AA4	B	383	389	Right-handed 310
Helix 5	AA5	B	406	410	Right-handed 310
Helix 6	AA6	B	417	422	Right-handed alpha
Helix 7	AA7	C	294	304	Right-handed alpha
Helix 8	AA8	C	337	343	Right-handed alpha
Helix 9	AA9	C	386	390	Right-handed 310
Helix 10	AB1	C	405	410	Right-handed 310
Helix 11	AB2	C	416	422	Right-handed alpha
Helix 12	AB3	D	65	68	Right-handed 310
Helix 13	AB4	D	147	150	Right-handed 310
Helix 14	AB5	D	171	173	Right-handed 310
Helix 15	AB6	E	81	85	Right-handed 310
Helix 16	AB7	E	122	128	Right-handed alpha
Helix 17	AB8	E	182	187	Right-handed alpha
Helix 18	AB9	E	208	213	Right-handed alpha

There are 29 sheets in PDB entry 9YNR. 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,

There are 5 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	324	328	first strand
Strand 2	B	538	543	parallel
Strand 3	B	546	554	anti-parallel
Strand 4	B	584	588	anti-parallel
Strand 5	B	575	577	anti-parallel

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There are 5 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	354	358	first strand
Strand 2	B	395	403	anti-parallel
Strand 3	B	507	515	anti-parallel
Strand 4	B	432	437	anti-parallel
Strand 5	B	376	379	anti-parallel

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There are 3 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	361	362	first strand
Strand 2	B	524	525	parallel
Strand 3	B	391	392	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	452	454	first strand
Strand 2	B	492	494	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	B	473	474	first strand
Strand 2	B	488	489	anti-parallel

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There are 2 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	565	566	first strand
Strand 2	C	42	43	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	C	28	30	first strand
Strand 2	C	61	63	anti-parallel

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There are 3 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	47	55	first strand
Strand 2	C	271	279	anti-parallel
Strand 3	C	285	290	anti-parallel

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There are 6 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	66	68	first strand
Strand 2	C	263	269	anti-parallel
Strand 3	C	89	94	anti-parallel
Strand 4	C	188	197	anti-parallel
Strand 5	C	200	209	anti-parallel
Strand 6	C	224	229	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	C	84	85	first strand
Strand 2	C	237	244	anti-parallel
Strand 3	C	141	142	parallel
Strand 4	C	156	157	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	84	85	first strand
Strand 2	C	237	244	anti-parallel
Strand 3	C	101	107	anti-parallel
Strand 4	C	116	118	anti-parallel
Strand 5	C	129	135	anti-parallel
Strand 6	C	160	168	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	126	127	first strand
Strand 2	C	171	172	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	C	354	358	first strand
Strand 2	C	394	403	anti-parallel
Strand 3	C	507	512	anti-parallel
Strand 4	C	433	437	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	354	358	first strand
Strand 2	C	394	403	anti-parallel
Strand 3	C	515	516	anti-parallel

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There are 2 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	452	454	first strand
Strand 2	C	492	494	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	473	474	first strand
Strand 2	C	488	489	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	C	539	543	first strand
Strand 2	C	546	550	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	C	565	566	first strand
Strand 2	C	575	577	anti-parallel
Strand 3	C	584	586	anti-parallel

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There are 4 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	3	7	first strand
Strand 2	D	21	25	anti-parallel
Strand 3	D	81	84	anti-parallel
Strand 4	D	73	76	anti-parallel

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There are 5 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	60	63	first strand
Strand 2	D	51	54	anti-parallel
Strand 3	D	34	37	anti-parallel
Strand 4	D	100	103	anti-parallel
Strand 5	D	114	118	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	46	48	first strand
Strand 2	D	40	42	anti-parallel
Strand 3	D	95	97	anti-parallel
Strand 4	D	122	124	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	D	135	139	first strand
Strand 2	D	151	160	anti-parallel
Strand 3	D	191	199	anti-parallel
Strand 4	D	184	185	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	166	169	first strand
Strand 2	D	210	215	anti-parallel
Strand 3	D	220	225	anti-parallel

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There are 5 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	9	12	first strand
Strand 2	E	103	107	parallel
Strand 3	E	87	93	anti-parallel
Strand 4	E	35	40	anti-parallel
Strand 5	E	47	51	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	E	9	12	first strand
Strand 2	E	103	107	parallel
Strand 3	E	87	93	anti-parallel
Strand 4	E	97	99	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	E	18	23	first strand
Strand 2	E	72	77	anti-parallel
Strand 3	E	64	69	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	E	115	119	first strand
Strand 2	E	131	140	anti-parallel
Strand 3	E	173	181	anti-parallel
Strand 4	E	160	162	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	E	115	119	first strand
Strand 2	E	131	140	anti-parallel
Strand 3	E	173	181	anti-parallel
Strand 4	E	166	167	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	154	155	first strand
Strand 2	E	146	151	anti-parallel
Strand 3	E	193	198	anti-parallel
Strand 4	E	201	203	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: 9YNR

Analysis of interatomic Contacts of Structural Units in PDB entry:
9YNR