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

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 5DDY entry

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

Chain ID	Initial residue	Terminal residue
A	ALA 249	TRP 575
C	ALA 249	TRP 575
E	VAL 332	TRP 575
G	VAL 332	TRP 575

There are 54 helices in PDB entry 5DDY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	253	271	Right-handed alpha
Helix 2	AA2	A	272	288	Right-handed alpha
Helix 3	AA3	A	295	302	Right-handed alpha
Helix 4	AA4	A	308	319	Right-handed alpha
Helix 5	AA5	A	327	340	Right-handed alpha
Helix 6	AA6	A	345	356	Right-handed alpha
Helix 7	AA7	A	359	366	Right-handed alpha
Helix 8	AA8	A	370	379	Right-handed alpha
Helix 9	AA9	A	379	384	Right-handed alpha
Helix 10	AB1	A	389	405	Right-handed alpha
Helix 11	AB2	A	442	454	Right-handed alpha
Helix 12	AB3	A	498	508	Right-handed alpha
Helix 13	AB4	A	509	521	Right-handed alpha
Helix 14	AB5	A	555	563	Right-handed alpha
Helix 15	AB6	A	569	573	Right-handed 310
Helix 16	AB7	C	253	271	Right-handed alpha
Helix 17	AB8	C	272	289	Right-handed alpha
Helix 18	AB9	C	295	302	Right-handed alpha
Helix 19	AC1	C	308	320	Right-handed alpha
Helix 20	AC2	C	331	340	Right-handed alpha
Helix 21	AC3	C	345	356	Right-handed alpha
Helix 22	AC4	C	360	367	Right-handed alpha
Helix 23	AC5	C	370	376	Right-handed alpha
Helix 24	AC6	C	379	384	Right-handed alpha
Helix 25	AC7	C	389	407	Right-handed alpha
Helix 26	AC8	C	416	421	Right-handed 310
Helix 27	AC9	C	442	454	Right-handed alpha
Helix 28	AD1	C	495	497	Right-handed 310
Helix 29	AD2	C	498	508	Right-handed alpha
Helix 30	AD3	C	509	523	Right-handed alpha
Helix 31	AD4	C	555	563	Right-handed alpha
Helix 32	AD5	C	569	573	Right-handed 310
Helix 33	AD6	E	333	340	Right-handed alpha
Helix 34	AD7	E	345	356	Right-handed alpha
Helix 35	AD8	E	359	366	Right-handed alpha
Helix 36	AD9	E	370	379	Right-handed alpha
Helix 37	AE1	E	379	384	Right-handed alpha
Helix 38	AE2	E	389	407	Right-handed alpha
Helix 39	AE3	E	442	454	Right-handed alpha
Helix 40	AE4	E	498	508	Right-handed alpha
Helix 41	AE5	E	509	521	Right-handed alpha
Helix 42	AE6	E	555	563	Right-handed alpha
Helix 43	AE7	E	569	574	Right-handed 310
Helix 44	AE8	G	333	340	Right-handed alpha
Helix 45	AE9	G	345	356	Right-handed alpha
Helix 46	AF1	G	359	366	Right-handed alpha
Helix 47	AF2	G	370	379	Right-handed alpha
Helix 48	AF3	G	379	384	Right-handed alpha
Helix 49	AF4	G	389	407	Right-handed alpha
Helix 50	AF5	G	443	454	Right-handed alpha
Helix 51	AF6	G	498	508	Right-handed alpha
Helix 52	AF7	G	509	522	Right-handed alpha
Helix 53	AF8	G	555	563	Right-handed alpha
Helix 54	AF9	G	569	574	Right-handed 310

There are 15 sheets in PDB entry 5DDY. 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,

There are 2 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	387	388	first strand
Strand 2	A	424	425	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	411	414	first strand
Strand 2	A	428	433	anti-parallel
Strand 3	A	486	493	parallel
Strand 4	A	470	478	anti-parallel
Strand 5	A	457	467	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	525	527	first strand
Strand 2	A	532	534	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	537	538	first strand
Strand 2	A	544	546	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	C	387	388	first strand
Strand 2	C	424	425	anti-parallel

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There are 5 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	411	414	first strand
Strand 2	C	427	433	anti-parallel
Strand 3	C	486	493	parallel
Strand 4	C	470	473	anti-parallel
Strand 5	C	466	467	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	C	411	414	first strand
Strand 2	C	427	433	anti-parallel
Strand 3	C	486	493	parallel
Strand 4	C	476	478	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	C	525	527	first strand
Strand 2	C	532	534	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	E	387	388	first strand
Strand 2	E	424	425	anti-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	E	411	414	first strand
Strand 2	E	428	433	anti-parallel
Strand 3	E	487	493	parallel
Strand 4	E	470	477	anti-parallel
Strand 5	E	460	462	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	411	414	first strand
Strand 2	E	428	433	anti-parallel
Strand 3	E	487	493	parallel
Strand 4	E	470	477	anti-parallel
Strand 5	E	466	467	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	E	525	527	first strand
Strand 2	E	532	534	anti-parallel
Strand 3	E	550	551	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	411	414	first strand
Strand 2	G	428	433	anti-parallel
Strand 3	G	486	493	parallel
Strand 4	G	470	478	anti-parallel
Strand 5	G	457	462	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	411	414	first strand
Strand 2	G	428	433	anti-parallel
Strand 3	G	486	493	parallel
Strand 4	G	470	478	anti-parallel
Strand 5	G	466	467	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	525	527	first strand
Strand 2	G	532	534	anti-parallel
Strand 3	G	550	551	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: 5DDY

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