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

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 9PDY entry

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

Chain ID	Initial residue	Terminal residue
A	LEU 19	SER 466
B	LEU 19	SER 466
C	LEU 19	SER 466
D	GLN 1	SER 121
G	ASP 1	LYS 107
E	GLN 1	SER 121
H	ASP 1	LYS 107
F	GLN 1	SER 121
I	ASP 1	LYS 107

There are 45 helices in PDB entry 9PDY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	65	83	Right-handed alpha
Helix 2	AA2	A	104	130	Right-handed alpha
Helix 3	AA3	A	130	141	Right-handed alpha
Helix 4	AA4	A	163	172	Right-handed alpha
Helix 5	AA5	A	172	177	Right-handed alpha
Helix 6	AA6	A	186	211	Right-handed alpha
Helix 7	AA7	A	223	233	Right-handed alpha
Helix 8	AA8	A	237	247	Right-handed alpha
Helix 9	AA9	A	247	255	Right-handed alpha
Helix 10	AB1	A	338	340	Right-handed 310
Helix 11	AB2	A	344	348	Right-handed 310
Helix 12	AB3	A	349	354	Right-handed alpha
Helix 13	AB4	A	441	446	Right-handed alpha
Helix 14	AB5	A	460	464	Right-handed alpha
Helix 15	AB6	B	65	83	Right-handed alpha
Helix 16	AB7	B	104	130	Right-handed alpha
Helix 17	AB8	B	130	141	Right-handed alpha
Helix 18	AB9	B	163	172	Right-handed alpha
Helix 19	AC1	B	172	177	Right-handed alpha
Helix 20	AC2	B	186	211	Right-handed alpha
Helix 21	AC3	B	223	233	Right-handed alpha
Helix 22	AC4	B	237	247	Right-handed alpha
Helix 23	AC5	B	247	255	Right-handed alpha
Helix 24	AC6	B	338	340	Right-handed 310
Helix 25	AC7	B	344	348	Right-handed 310
Helix 26	AC8	B	349	354	Right-handed alpha
Helix 27	AC9	B	441	446	Right-handed alpha
Helix 28	AD1	B	460	464	Right-handed alpha
Helix 29	AD2	C	65	83	Right-handed alpha
Helix 30	AD3	C	104	130	Right-handed alpha
Helix 31	AD4	C	130	141	Right-handed alpha
Helix 32	AD5	C	163	172	Right-handed alpha
Helix 33	AD6	C	172	177	Right-handed alpha
Helix 34	AD7	C	186	211	Right-handed alpha
Helix 35	AD8	C	223	233	Right-handed alpha
Helix 36	AD9	C	237	247	Right-handed alpha
Helix 37	AE1	C	247	255	Right-handed alpha
Helix 38	AE2	C	338	340	Right-handed 310
Helix 39	AE3	C	344	348	Right-handed 310
Helix 40	AE4	C	349	354	Right-handed alpha
Helix 41	AE5	C	441	446	Right-handed alpha
Helix 42	AE6	C	460	464	Right-handed alpha
Helix 43	AE7	D	88	92	Right-handed 310
Helix 44	AE8	E	88	92	Right-handed 310
Helix 45	AE9	F	88	92	Right-handed 310

There are 36 sheets in PDB entry 9PDY. 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,

There are 7 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	327	329	first strand
Strand 2	A	332	336	anti-parallel
Strand 3	A	29	40	parallel
Strand 4	A	278	288	anti-parallel
Strand 5	A	308	313	anti-parallel
Strand 6	A	316	320	anti-parallel
Strand 7	A	341	343	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	A	327	329	first strand
Strand 2	A	332	336	anti-parallel
Strand 3	A	29	40	parallel
Strand 4	A	20	24	anti-parallel
Strand 5	A	433	437	parallel

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There are 5 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	146	150	first strand
Strand 2	A	156	162	anti-parallel
Strand 3	A	44	51	parallel
Strand 4	A	266	273	anti-parallel
Strand 5	A	256	263	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	A	294	295	first strand
Strand 2	A	298	299	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	301	304	first strand
Strand 2	A	362	366	anti-parallel
Strand 3	A	455	459	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	A	372	375	first strand
Strand 2	A	379	384	anti-parallel
Strand 3	A	406	411	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	A	391	393	first strand
Strand 2	A	417	419	anti-parallel
Strand 3	A	424	426	anti-parallel

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There are 7 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	327	329	first strand
Strand 2	B	332	336	anti-parallel
Strand 3	B	29	40	parallel
Strand 4	B	278	288	anti-parallel
Strand 5	B	308	313	anti-parallel
Strand 6	B	316	320	anti-parallel
Strand 7	B	341	343	anti-parallel

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There are 5 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	327	329	first strand
Strand 2	B	332	336	anti-parallel
Strand 3	B	29	40	parallel
Strand 4	B	20	24	anti-parallel
Strand 5	B	433	437	parallel

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There are 5 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	146	150	first strand
Strand 2	B	156	162	anti-parallel
Strand 3	B	44	51	parallel
Strand 4	B	266	273	anti-parallel
Strand 5	B	256	263	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	294	295	first strand
Strand 2	B	298	299	anti-parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	301	304	first strand
Strand 2	B	362	366	anti-parallel
Strand 3	B	455	459	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	372	375	first strand
Strand 2	B	379	384	anti-parallel
Strand 3	B	406	411	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	B	391	393	first strand
Strand 2	B	417	419	anti-parallel
Strand 3	B	424	426	anti-parallel

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There are 7 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	327	329	first strand
Strand 2	C	332	336	anti-parallel
Strand 3	C	29	40	parallel
Strand 4	C	278	288	anti-parallel
Strand 5	C	308	313	anti-parallel
Strand 6	C	316	320	anti-parallel
Strand 7	C	341	343	anti-parallel

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There are 5 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	327	329	first strand
Strand 2	C	332	336	anti-parallel
Strand 3	C	29	40	parallel
Strand 4	C	20	24	anti-parallel
Strand 5	C	433	437	parallel

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There are 5 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	146	150	first strand
Strand 2	C	156	162	anti-parallel
Strand 3	C	44	51	parallel
Strand 4	C	266	273	anti-parallel
Strand 5	C	256	263	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	C	294	295	first strand
Strand 2	C	298	299	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	C	301	304	first strand
Strand 2	C	362	366	anti-parallel
Strand 3	C	455	459	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	C	372	375	first strand
Strand 2	C	379	384	anti-parallel
Strand 3	C	406	411	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	C	391	393	first strand
Strand 2	C	417	419	anti-parallel
Strand 3	C	424	426	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	D	3	4	first strand
Strand 2	D	24	25	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	18	21	first strand
Strand 2	D	79	84	anti-parallel
Strand 3	D	72	74	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	D	59	61	first strand
Strand 2	D	48	53	anti-parallel
Strand 3	D	36	41	anti-parallel
Strand 4	D	94	100	anti-parallel
Strand 5	D	108	111	anti-parallel

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There are 6 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	9	12	first strand
Strand 2	G	102	106	parallel
Strand 3	G	84	89	anti-parallel
Strand 4	G	32	37	anti-parallel
Strand 5	G	44	48	anti-parallel
Strand 6	G	52	53	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	G	18	20	first strand
Strand 2	G	71	74	anti-parallel
Strand 3	G	61	64	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	E	3	4	first strand
Strand 2	E	24	25	anti-parallel

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There are 3 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	18	21	first strand
Strand 2	E	79	84	anti-parallel
Strand 3	E	72	74	anti-parallel

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There are 5 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	59	61	first strand
Strand 2	E	48	53	anti-parallel
Strand 3	E	36	41	anti-parallel
Strand 4	E	94	100	anti-parallel
Strand 5	E	108	111	anti-parallel

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There are 6 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	9	12	first strand
Strand 2	H	102	106	parallel
Strand 3	H	84	89	anti-parallel
Strand 4	H	32	37	anti-parallel
Strand 5	H	44	48	anti-parallel
Strand 6	H	52	53	anti-parallel

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There are 3 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	18	20	first strand
Strand 2	H	71	74	anti-parallel
Strand 3	H	61	64	anti-parallel

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There are 2 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	3	4	first strand
Strand 2	F	24	25	anti-parallel

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There are 3 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	18	21	first strand
Strand 2	F	79	84	anti-parallel
Strand 3	F	72	74	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	F	59	61	first strand
Strand 2	F	48	53	anti-parallel
Strand 3	F	36	41	anti-parallel
Strand 4	F	94	100	anti-parallel
Strand 5	F	108	111	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	I	9	12	first strand
Strand 2	I	102	106	parallel
Strand 3	I	84	89	anti-parallel
Strand 4	I	32	37	anti-parallel
Strand 5	I	44	48	anti-parallel
Strand 6	I	52	53	anti-parallel

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There are 3 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	18	20	first strand
Strand 2	I	71	74	anti-parallel
Strand 3	I	61	64	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: 9PDY

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