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

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 9DDB entry

There are 3 chains in PDB entry 9DDB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
C	THR 109	THR 721
D	THR 109	THR 721
E	THR 109	THR 721

There are 33 helices in PDB entry 9DDB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	C	193	200	Right-handed alpha
Helix 2	AA2	C	315	317	Right-handed 310
Helix 3	AA3	C	403	408	Right-handed 310
Helix 4	AA4	C	409	428	Right-handed alpha
Helix 5	AA5	C	458	473	Right-handed alpha
Helix 6	AA6	C	510	546	Right-handed alpha
Helix 7	AA7	C	546	555	Right-handed alpha
Helix 8	AA8	C	577	579	Right-handed 310
Helix 9	AA9	C	660	664	Right-handed 310
Helix 10	AB1	C	685	692	Right-handed alpha
Helix 11	AB2	C	701	721	Right-handed alpha
Helix 12	AB3	D	193	200	Right-handed alpha
Helix 13	AB4	D	315	317	Right-handed 310
Helix 14	AB5	D	403	408	Right-handed 310
Helix 15	AB6	D	409	428	Right-handed alpha
Helix 16	AB7	D	458	473	Right-handed alpha
Helix 17	AB8	D	510	546	Right-handed alpha
Helix 18	AB9	D	546	555	Right-handed alpha
Helix 19	AC1	D	577	579	Right-handed 310
Helix 20	AC2	D	660	664	Right-handed 310
Helix 21	AC3	D	685	692	Right-handed alpha
Helix 22	AC4	D	701	721	Right-handed alpha
Helix 23	AC5	E	193	200	Right-handed alpha
Helix 24	AC6	E	315	317	Right-handed 310
Helix 25	AC7	E	403	408	Right-handed 310
Helix 26	AC8	E	409	428	Right-handed alpha
Helix 27	AC9	E	458	473	Right-handed alpha
Helix 28	AD1	E	510	546	Right-handed alpha
Helix 29	AD2	E	546	555	Right-handed alpha
Helix 30	AD3	E	577	579	Right-handed 310
Helix 31	AD4	E	660	664	Right-handed 310
Helix 32	AD5	E	685	692	Right-handed alpha
Helix 33	AD6	E	701	721	Right-handed alpha

There are 36 sheets in PDB entry 9DDB. 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 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	C	113	115	first strand
Strand 2	C	574	576	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	C	559	560	first strand
Strand 2	C	568	572	anti-parallel
Strand 3	C	123	126	anti-parallel
Strand 4	D	665	666	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	C	366	372	first strand
Strand 2	C	140	152	anti-parallel
Strand 3	C	449	457	anti-parallel
Strand 4	C	433	435	anti-parallel

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There are 6 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	395	396	first strand
Strand 2	C	383	388	anti-parallel
Strand 3	C	375	380	anti-parallel
Strand 4	C	140	152	anti-parallel
Strand 5	C	449	457	anti-parallel
Strand 6	C	440	443	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	C	157	159	first strand
Strand 2	C	278	280	anti-parallel
Strand 3	C	287	289	anti-parallel
Strand 4	C	294	295	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	C	188	191	first strand
Strand 2	C	162	169	anti-parallel
Strand 3	C	268	274	anti-parallel
Strand 4	C	247	248	anti-parallel

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There are 5 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	188	191	first strand
Strand 2	C	162	169	anti-parallel
Strand 3	C	351	355	anti-parallel
Strand 4	C	342	346	anti-parallel
Strand 5	C	319	322	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	206	207	first strand
Strand 2	C	232	233	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	211	215	first strand
Strand 2	C	218	222	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	581	583	first strand
Strand 2	C	601	604	anti-parallel
Strand 3	C	613	618	anti-parallel
Strand 4	C	622	624	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	C	596	597	first strand
Strand 2	C	630	631	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	C	638	643	first strand
Strand 2	C	646	651	anti-parallel
Strand 3	C	655	659	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	665	667	first strand
Strand 2	E	123	127	parallel
Strand 3	E	568	572	anti-parallel
Strand 4	E	559	560	anti-parallel

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There are 2 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	113	115	first strand
Strand 2	D	574	576	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	559	560	first strand
Strand 2	D	568	572	anti-parallel
Strand 3	D	123	127	anti-parallel
Strand 4	E	665	667	parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	366	372	first strand
Strand 2	D	140	152	anti-parallel
Strand 3	D	449	457	anti-parallel
Strand 4	D	433	435	anti-parallel

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There are 6 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	395	396	first strand
Strand 2	D	383	388	anti-parallel
Strand 3	D	375	380	anti-parallel
Strand 4	D	140	152	anti-parallel
Strand 5	D	449	457	anti-parallel
Strand 6	D	440	443	anti-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	D	157	159	first strand
Strand 2	D	278	280	anti-parallel
Strand 3	D	287	289	anti-parallel
Strand 4	D	294	295	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	188	191	first strand
Strand 2	D	162	169	anti-parallel
Strand 3	D	268	274	anti-parallel
Strand 4	D	247	248	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	188	191	first strand
Strand 2	D	162	169	anti-parallel
Strand 3	D	351	355	anti-parallel
Strand 4	D	342	346	anti-parallel
Strand 5	D	319	322	anti-parallel

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There are 2 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	206	207	first strand
Strand 2	D	232	233	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	211	215	first strand
Strand 2	D	218	222	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	D	581	583	first strand
Strand 2	D	601	604	anti-parallel
Strand 3	D	613	618	anti-parallel
Strand 4	D	622	624	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	596	597	first strand
Strand 2	D	630	631	anti-parallel

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There are 3 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	638	643	first strand
Strand 2	D	646	651	anti-parallel
Strand 3	D	655	659	anti-parallel

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There are 2 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	113	115	first strand
Strand 2	E	574	576	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	366	372	first strand
Strand 2	E	140	152	anti-parallel
Strand 3	E	449	457	anti-parallel
Strand 4	E	433	435	anti-parallel

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There are 6 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	395	396	first strand
Strand 2	E	383	388	anti-parallel
Strand 3	E	375	380	anti-parallel
Strand 4	E	140	152	anti-parallel
Strand 5	E	449	457	anti-parallel
Strand 6	E	440	443	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	157	159	first strand
Strand 2	E	278	280	anti-parallel
Strand 3	E	287	289	anti-parallel
Strand 4	E	294	295	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	188	191	first strand
Strand 2	E	162	169	anti-parallel
Strand 3	E	268	274	anti-parallel
Strand 4	E	247	248	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	E	188	191	first strand
Strand 2	E	162	169	anti-parallel
Strand 3	E	351	355	anti-parallel
Strand 4	E	342	346	anti-parallel
Strand 5	E	319	322	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	E	206	207	first strand
Strand 2	E	232	233	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	E	211	215	first strand
Strand 2	E	218	222	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	581	583	first strand
Strand 2	E	601	604	anti-parallel
Strand 3	E	613	618	anti-parallel
Strand 4	E	622	624	anti-parallel

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There are 2 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	596	597	first strand
Strand 2	E	630	631	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	E	638	643	first strand
Strand 2	E	646	651	anti-parallel
Strand 3	E	655	659	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: 9DDB

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