Analysis of interatomic Contacts of Structural Units in PDB entry:
7PDY

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 7PDY entry

There are 6 chains in PDB entry 7PDY (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 3	PRO 189
B	PRO -27	PRO 190
C	ARG 3	GLU 188
D	PRO -27	PRO 190
E	ARG 3	GLU 188
F	ARG -28	PRO 189

There are 21 helices in PDB entry 7PDY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	51	56	Right-handed alpha
Helix 2	AA2	A	60	81	Right-handed alpha
Helix 3	AA3	A	145	147	Right-handed 310
Helix 4	AA4	B	50	52	Right-handed 310
Helix 5	AA5	B	53	63	Right-handed alpha
Helix 6	AA6	B	63	77	Right-handed alpha
Helix 7	AA7	B	77	86	Right-handed alpha
Helix 8	AA8	B	87	89	Right-handed 310
Helix 9	AA9	C	51	56	Right-handed alpha
Helix 10	AB1	C	60	81	Right-handed alpha
Helix 11	AB2	D	52	63	Right-handed alpha
Helix 12	AB3	D	63	77	Right-handed alpha
Helix 13	AB4	D	77	86	Right-handed alpha
Helix 14	AB5	D	87	89	Right-handed 310
Helix 15	AB6	E	51	55	Right-handed alpha
Helix 16	AB7	E	60	81	Right-handed alpha
Helix 17	AB8	E	145	147	Right-handed 310
Helix 18	AB9	F	52	63	Right-handed alpha
Helix 19	AC1	F	63	77	Right-handed alpha
Helix 20	AC2	F	77	86	Right-handed alpha
Helix 21	AC3	F	87	89	Right-handed 310

There are 23 sheets in PDB entry 7PDY. 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,

There are 8 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	44	47	first strand
Strand 2	A	33	39	anti-parallel
Strand 3	A	21	30	anti-parallel
Strand 4	A	4	16	anti-parallel
Strand 5	B	5	17	anti-parallel
Strand 6	B	22	31	anti-parallel
Strand 7	B	34	40	anti-parallel
Strand 8	B	45	48	anti-parallel

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There are 4 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	92	97	first strand
Strand 2	A	107	116	anti-parallel
Strand 3	A	148	157	anti-parallel
Strand 4	A	137	138	anti-parallel

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There are 4 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	92	97	first strand
Strand 2	A	107	116	anti-parallel
Strand 3	A	148	157	anti-parallel
Strand 4	A	142	144	anti-parallel

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There are 4 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	130	132	first strand
Strand 2	A	121	127	anti-parallel
Strand 3	A	165	171	anti-parallel
Strand 4	A	178	182	anti-parallel

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There are 4 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	97	104	first strand
Strand 2	B	111	121	anti-parallel
Strand 3	B	154	161	anti-parallel
Strand 4	B	141	143	anti-parallel

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There are 4 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	97	104	first strand
Strand 2	B	111	121	anti-parallel
Strand 3	B	154	161	anti-parallel
Strand 4	B	147	148	anti-parallel

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There are 4 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	135	137	first strand
Strand 2	B	127	132	anti-parallel
Strand 3	B	170	175	anti-parallel
Strand 4	B	183	187	anti-parallel

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There are 8 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	45	47	first strand
Strand 2	C	33	38	anti-parallel
Strand 3	C	21	30	anti-parallel
Strand 4	C	5	16	anti-parallel
Strand 5	D	5	17	anti-parallel
Strand 6	D	22	31	anti-parallel
Strand 7	D	34	40	anti-parallel
Strand 8	D	45	48	anti-parallel

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There are 2 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	57	58	first strand
Strand 2	D	-25	-24	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	92	97	first strand
Strand 2	C	107	116	anti-parallel
Strand 3	C	148	157	anti-parallel
Strand 4	C	137	138	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	92	97	first strand
Strand 2	C	107	116	anti-parallel
Strand 3	C	148	157	anti-parallel
Strand 4	C	142	144	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	C	130	132	first strand
Strand 2	C	121	127	anti-parallel
Strand 3	C	165	171	anti-parallel
Strand 4	C	178	182	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	D	97	104	first strand
Strand 2	D	111	121	anti-parallel
Strand 3	D	154	160	anti-parallel
Strand 4	D	141	143	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	D	97	104	first strand
Strand 2	D	111	121	anti-parallel
Strand 3	D	154	160	anti-parallel
Strand 4	D	147	148	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	D	135	136	first strand
Strand 2	D	127	132	anti-parallel
Strand 3	D	170	175	anti-parallel
Strand 4	D	183	187	anti-parallel

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There are 8 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	44	47	first strand
Strand 2	E	33	39	anti-parallel
Strand 3	E	21	30	anti-parallel
Strand 4	E	5	16	anti-parallel
Strand 5	F	5	16	anti-parallel
Strand 6	F	23	31	anti-parallel
Strand 7	F	34	40	anti-parallel
Strand 8	F	46	48	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	E	56	57	first strand
Strand 2	F	-26	-25	parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	92	97	first strand
Strand 2	E	107	116	anti-parallel
Strand 3	E	148	157	anti-parallel
Strand 4	E	137	138	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	E	92	97	first strand
Strand 2	E	107	116	anti-parallel
Strand 3	E	148	157	anti-parallel
Strand 4	E	142	144	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	130	132	first strand
Strand 2	E	121	127	anti-parallel
Strand 3	E	165	171	anti-parallel
Strand 4	E	178	182	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	F	97	104	first strand
Strand 2	F	111	121	anti-parallel
Strand 3	F	154	161	anti-parallel
Strand 4	F	141	143	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	F	97	104	first strand
Strand 2	F	111	121	anti-parallel
Strand 3	F	154	161	anti-parallel
Strand 4	F	147	148	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	135	136	first strand
Strand 2	F	127	132	anti-parallel
Strand 3	F	170	175	anti-parallel
Strand 4	F	183	187	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: 7PDY

Analysis of interatomic Contacts of Structural Units in PDB entry:
7PDY