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

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 9YDW entry

There are 10 chains in PDB entry 9YDW (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 518	ASP 664
C	GLU 32	VAL 505
K	GLN 1	SER 112
L	ASP 1	LYS 107
M	GLN 1	SER 112
N	ASP 1	LYS 107
B	VAL 518	ASP 664
D	GLU 32	VAL 505
I	VAL 518	ASP 664
J	GLU 32	VAL 505

There are 48 helices in PDB entry 9YDW. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	529	534	Right-handed alpha
Helix 2	AA2	A	536	543	Right-handed alpha
Helix 3	AA3	A	569	595	Right-handed alpha
Helix 4	AA4	A	619	624	Right-handed alpha
Helix 5	AA5	A	627	635	Right-handed alpha
Helix 6	AA6	A	638	664	Right-handed alpha
Helix 7	AA7	C	57	63	Right-handed alpha
Helix 8	AA8	C	99	116	Right-handed alpha
Helix 9	AA9	C	139	151	Right-handed 310
Helix 10	AB1	C	195	198	Right-handed 310
Helix 11	AB2	C	335	354	Right-handed alpha
Helix 12	AB3	C	368	373	Right-handed alpha
Helix 13	AB4	C	425	429	Right-handed 310
Helix 14	AB5	C	460	463	Right-handed 310
Helix 15	AB6	C	476	481	Right-handed alpha
Helix 16	AB7	K	61	64	Right-handed 310
Helix 17	AB8	K	83	87	Right-handed 310
Helix 18	AB9	M	83	87	Right-handed 310
Helix 19	AC1	N	79	83	Right-handed 310
Helix 20	AC2	B	529	534	Right-handed alpha
Helix 21	AC3	B	536	543	Right-handed alpha
Helix 22	AC4	B	569	595	Right-handed alpha
Helix 23	AC5	B	618	622	Right-handed 310
Helix 24	AC6	B	627	636	Right-handed alpha
Helix 25	AC7	B	638	664	Right-handed alpha
Helix 26	AC8	D	57	63	Right-handed alpha
Helix 27	AC9	D	99	116	Right-handed alpha
Helix 28	AD1	D	122	126	Right-handed 310
Helix 29	AD2	D	139	151	Right-handed 310
Helix 30	AD3	D	335	350	Right-handed alpha
Helix 31	AD4	D	368	373	Right-handed alpha
Helix 32	AD5	D	425	429	Right-handed 310
Helix 33	AD6	D	460	463	Right-handed 310
Helix 34	AD7	D	476	481	Right-handed alpha
Helix 35	AD8	I	529	534	Right-handed alpha
Helix 36	AD9	I	536	542	Right-handed alpha
Helix 37	AE1	I	572	595	Right-handed alpha
Helix 38	AE2	I	618	623	Right-handed alpha
Helix 39	AE3	I	627	635	Right-handed alpha
Helix 40	AE4	I	638	664	Right-handed alpha
Helix 41	AE5	J	57	63	Right-handed alpha
Helix 42	AE6	J	99	116	Right-handed alpha
Helix 43	AE7	J	122	126	Right-handed 310
Helix 44	AE8	J	139	151	Right-handed 310
Helix 45	AE9	J	334	354	Right-handed alpha
Helix 46	AF1	J	368	373	Right-handed alpha
Helix 47	AF2	J	460	463	Right-handed 310
Helix 48	AF3	J	475	481	Right-handed alpha

There are 38 sheets in PDB entry 9YDW. 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, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2,

There are 3 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	603	609	first strand
Strand 2	C	35	40	anti-parallel
Strand 3	C	494	499	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	C	45	47	first strand
Strand 2	C	486	491	anti-parallel
Strand 3	C	223	227	anti-parallel
Strand 4	C	243	245	anti-parallel
Strand 5	C	83	85	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	C	75	76	first strand
Strand 2	C	53	56	parallel
Strand 3	C	216	218	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	C	91	94	first strand
Strand 2	C	236	239	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	C	129	130	first strand
Strand 2	C	190	193	anti-parallel
Strand 3	C	181	183	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	C	154	162	first strand
Strand 2	C	169	177	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	202	203	first strand
Strand 2	C	434	435	parallel
Strand 3	C	423	424	anti-parallel

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There are 5 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	272	274	first strand
Strand 2	C	284	287	anti-parallel
Strand 3	C	451	456	anti-parallel
Strand 4	C	465	470	anti-parallel
Strand 5	C	358	361	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	C	413	418	first strand
Strand 2	C	329	334	anti-parallel
Strand 3	C	294	298	anti-parallel
Strand 4	C	443	447	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	C	304	312	first strand
Strand 2	C	315	320	anti-parallel

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There are 3 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	374	378	first strand
Strand 2	C	381	385	anti-parallel
Strand 3	C	420	421	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	K	3	7	first strand
Strand 2	K	18	25	anti-parallel
Strand 3	K	77	82	anti-parallel
Strand 4	K	69	72	anti-parallel

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There are 6 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	10	12	first strand
Strand 2	K	107	111	parallel
Strand 3	K	88	98	anti-parallel
Strand 4	K	32	39	anti-parallel
Strand 5	K	46	51	anti-parallel
Strand 6	K	57	59	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	10	12	first strand
Strand 2	K	107	111	parallel
Strand 3	K	88	98	anti-parallel
Strand 4	K	100	100	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	L	5	7	first strand
Strand 2	L	19	24	anti-parallel
Strand 3	L	70	75	anti-parallel
Strand 4	L	62	67	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	L	10	11	first strand
Strand 2	L	102	104	parallel
Strand 3	L	85	90	anti-parallel
Strand 4	L	33	38	anti-parallel
Strand 5	L	45	49	anti-parallel
Strand 6	L	53	54	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	3	6	first strand
Strand 2	M	20	25	anti-parallel
Strand 3	M	77	80	anti-parallel
Strand 4	M	71	72	anti-parallel

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There are 6 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	10	12	first strand
Strand 2	M	107	111	parallel
Strand 3	M	88	97	anti-parallel
Strand 4	M	32	39	anti-parallel
Strand 5	M	46	51	anti-parallel
Strand 6	M	57	59	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	N	5	7	first strand
Strand 2	N	19	24	anti-parallel
Strand 3	N	70	75	anti-parallel
Strand 4	N	62	67	anti-parallel

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There are 6 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	11	13	first strand
Strand 2	N	102	106	parallel
Strand 3	N	85	90	anti-parallel
Strand 4	N	33	38	anti-parallel
Strand 5	N	45	49	anti-parallel
Strand 6	N	53	54	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	B	603	609	first strand
Strand 2	D	35	39	anti-parallel
Strand 3	D	495	499	anti-parallel

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There are 5 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	45	47	first strand
Strand 2	D	486	491	anti-parallel
Strand 3	D	223	227	anti-parallel
Strand 4	D	243	245	anti-parallel
Strand 5	D	83	85	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	75	76	first strand
Strand 2	D	53	56	parallel
Strand 3	D	216	218	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	91	94	first strand
Strand 2	D	236	239	anti-parallel

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There are 5 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	169	177	first strand
Strand 2	D	154	162	anti-parallel
Strand 3	D	129	133	anti-parallel
Strand 4	D	190	193	anti-parallel
Strand 5	D	181	183	anti-parallel

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There are 7 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	260	261	first strand
Strand 2	D	443	456	anti-parallel
Strand 3	D	284	298	anti-parallel
Strand 4	D	329	334	anti-parallel
Strand 5	D	413	421	anti-parallel
Strand 6	D	381	385	anti-parallel
Strand 7	D	374	378	anti-parallel

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There are 6 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	271	273	first strand
Strand 2	D	284	298	anti-parallel
Strand 3	D	443	456	anti-parallel
Strand 4	D	465	469	anti-parallel
Strand 5	D	358	361	parallel
Strand 6	D	393	395	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	D	304	312	first strand
Strand 2	D	315	320	anti-parallel

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There are 2 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	423	424	first strand
Strand 2	D	434	435	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	I	603	609	first strand
Strand 2	J	35	40	anti-parallel
Strand 3	J	494	499	anti-parallel

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There are 5 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	45	47	first strand
Strand 2	J	486	491	anti-parallel
Strand 3	J	223	227	anti-parallel
Strand 4	J	243	245	anti-parallel
Strand 5	J	83	85	anti-parallel

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There are 3 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	75	76	first strand
Strand 2	J	53	56	parallel
Strand 3	J	216	218	anti-parallel

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There are 2 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	91	94	first strand
Strand 2	J	236	239	anti-parallel

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There are 5 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	169	177	first strand
Strand 2	J	154	162	anti-parallel
Strand 3	J	129	133	anti-parallel
Strand 4	J	190	193	anti-parallel
Strand 5	J	181	183	anti-parallel

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There are 6 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	271	273	first strand
Strand 2	J	284	287	anti-parallel
Strand 3	J	451	456	anti-parallel
Strand 4	J	465	470	anti-parallel
Strand 5	J	358	361	parallel
Strand 6	J	394	395	anti-parallel

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There are 6 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	374	378	first strand
Strand 2	J	381	385	anti-parallel
Strand 3	J	416	420	anti-parallel
Strand 4	J	329	333	anti-parallel
Strand 5	J	294	298	anti-parallel
Strand 6	J	443	447	anti-parallel

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There are 2 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	304	312	first strand
Strand 2	J	315	320	anti-parallel

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There are 2 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	423	424	first strand
Strand 2	J	434	435	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: 9YDW

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