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

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 5DMY entry

There are 3 chains in PDB entry 5DMY (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 22	PRO 880
B	SER 23	PRO 880
C	SER 22	PRO 880

There are 53 helices in PDB entry 5DMY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	79	83	Right-handed 310
Helix 2	AA2	A	100	103	Right-handed 310
Helix 3	AA3	A	142	145	Right-handed 310
Helix 4	AA4	A	197	202	Right-handed alpha
Helix 5	AA5	A	236	240	Right-handed 310
Helix 6	AA6	A	330	334	Right-handed 310
Helix 7	AA7	A	338	352	Right-handed alpha
Helix 8	AA8	A	365	376	Right-handed alpha
Helix 9	AA9	A	397	401	Right-handed 310
Helix 10	AB1	A	420	434	Right-handed alpha
Helix 11	AB2	A	458	474	Right-handed alpha
Helix 12	AB3	A	490	503	Right-handed alpha
Helix 13	AB4	A	513	524	Right-handed alpha
Helix 14	AB5	A	571	581	Right-handed alpha
Helix 15	AB6	A	633	643	Right-handed alpha
Helix 16	AB7	A	663	665	Right-handed 310
Helix 17	AB8	A	721	727	Right-handed 310
Helix 18	AB9	A	752	754	Right-handed 310
Helix 19	AC1	B	79	83	Right-handed 310
Helix 20	AC2	B	142	145	Right-handed 310
Helix 21	AC3	B	197	202	Right-handed alpha
Helix 22	AC4	B	236	240	Right-handed 310
Helix 23	AC5	B	330	334	Right-handed 310
Helix 24	AC6	B	338	352	Right-handed alpha
Helix 25	AC7	B	365	376	Right-handed alpha
Helix 26	AC8	B	397	401	Right-handed 310
Helix 27	AC9	B	420	434	Right-handed alpha
Helix 28	AD1	B	458	474	Right-handed alpha
Helix 29	AD2	B	485	489	Right-handed 310
Helix 30	AD3	B	490	503	Right-handed alpha
Helix 31	AD4	B	513	524	Right-handed alpha
Helix 32	AD5	B	571	581	Right-handed alpha
Helix 33	AD6	B	633	643	Right-handed alpha
Helix 34	AD7	B	663	665	Right-handed 310
Helix 35	AD8	B	721	727	Right-handed 310
Helix 36	AD9	B	752	754	Right-handed 310
Helix 37	AE1	C	79	83	Right-handed 310
Helix 38	AE2	C	142	145	Right-handed 310
Helix 39	AE3	C	197	202	Right-handed alpha
Helix 40	AE4	C	236	240	Right-handed 310
Helix 41	AE5	C	330	334	Right-handed 310
Helix 42	AE6	C	338	352	Right-handed alpha
Helix 43	AE7	C	365	376	Right-handed alpha
Helix 44	AE8	C	397	401	Right-handed 310
Helix 45	AE9	C	420	434	Right-handed alpha
Helix 46	AF1	C	458	474	Right-handed alpha
Helix 47	AF2	C	490	503	Right-handed alpha
Helix 48	AF3	C	513	524	Right-handed alpha
Helix 49	AF4	C	571	581	Right-handed alpha
Helix 50	AF5	C	633	643	Right-handed alpha
Helix 51	AF6	C	663	665	Right-handed 310
Helix 52	AF7	C	721	727	Right-handed 310
Helix 53	AF8	C	752	754	Right-handed 310

There are 39 sheets in PDB entry 5DMY. 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, AE3,

There are 4 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	24	25	first strand
Strand 2	A	88	98	parallel
Strand 3	A	39	43	anti-parallel
Strand 4	A	60	62	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	24	25	first strand
Strand 2	A	88	98	parallel
Strand 3	A	149	159	anti-parallel
Strand 4	A	118	122	anti-parallel
Strand 5	A	125	130	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	32	34	first strand
Strand 2	A	176	181	anti-parallel
Strand 3	A	106	111	anti-parallel
Strand 4	A	137	140	anti-parallel

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There are 3 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	184	194	first strand
Strand 2	A	205	216	anti-parallel
Strand 3	A	256	266	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	242	245	first strand
Strand 2	A	222	232	anti-parallel
Strand 3	A	249	251	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	A	242	245	first strand
Strand 2	A	222	232	anti-parallel
Strand 3	A	279	287	anti-parallel
Strand 4	A	290	299	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	304	307	first strand
Strand 2	A	311	314	anti-parallel
Strand 3	A	317	318	anti-parallel

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There are 9 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	321	325	first strand
Strand 2	A	356	358	parallel
Strand 3	A	378	382	parallel
Strand 4	A	439	446	parallel
Strand 5	A	479	483	parallel
Strand 6	A	507	510	parallel
Strand 7	A	529	535	parallel
Strand 8	A	585	591	parallel
Strand 9	A	321	325	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	A	728	733	first strand
Strand 2	A	667	674	anti-parallel
Strand 3	A	647	652	anti-parallel
Strand 4	A	756	757	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	A	692	698	first strand
Strand 2	A	678	685	anti-parallel
Strand 3	A	737	744	anti-parallel
Strand 4	A	761	763	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	A	700	703	first strand
Strand 2	A	709	712	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	A	770	775	first strand
Strand 2	A	787	795	anti-parallel
Strand 3	A	844	851	anti-parallel
Strand 4	A	817	823	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	A	779	781	first strand
Strand 2	A	870	877	parallel
Strand 3	A	856	863	anti-parallel
Strand 4	A	808	815	anti-parallel
Strand 5	A	837	839	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	B	24	25	first strand
Strand 2	B	88	98	parallel
Strand 3	B	39	43	anti-parallel
Strand 4	B	60	62	anti-parallel

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There are 5 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	24	25	first strand
Strand 2	B	88	98	parallel
Strand 3	B	150	159	anti-parallel
Strand 4	B	118	122	anti-parallel
Strand 5	B	125	130	anti-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	B	32	34	first strand
Strand 2	B	176	181	anti-parallel
Strand 3	B	106	111	anti-parallel
Strand 4	B	137	140	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	184	194	first strand
Strand 2	B	205	216	anti-parallel
Strand 3	B	256	266	anti-parallel

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There are 3 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	242	245	first strand
Strand 2	B	222	232	anti-parallel
Strand 3	B	249	251	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	B	242	245	first strand
Strand 2	B	222	232	anti-parallel
Strand 3	B	279	287	anti-parallel
Strand 4	B	290	299	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	B	304	307	first strand
Strand 2	B	311	314	anti-parallel
Strand 3	B	317	318	anti-parallel

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There are 9 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	321	325	first strand
Strand 2	B	356	358	parallel
Strand 3	B	378	382	parallel
Strand 4	B	439	446	parallel
Strand 5	B	479	483	parallel
Strand 6	B	506	510	parallel
Strand 7	B	529	535	parallel
Strand 8	B	585	591	parallel
Strand 9	B	321	325	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	B	728	733	first strand
Strand 2	B	667	674	anti-parallel
Strand 3	B	647	652	anti-parallel
Strand 4	B	756	757	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	B	692	698	first strand
Strand 2	B	678	685	anti-parallel
Strand 3	B	737	744	anti-parallel
Strand 4	B	761	763	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	B	700	703	first strand
Strand 2	B	709	712	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	770	775	first strand
Strand 2	B	787	795	anti-parallel
Strand 3	B	844	851	anti-parallel
Strand 4	B	817	823	anti-parallel

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There are 5 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	779	781	first strand
Strand 2	B	870	877	parallel
Strand 3	B	856	863	anti-parallel
Strand 4	B	808	815	anti-parallel
Strand 5	B	837	839	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	C	23	25	first strand
Strand 2	C	88	98	parallel
Strand 3	C	39	43	anti-parallel
Strand 4	C	60	62	anti-parallel

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There are 5 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	23	25	first strand
Strand 2	C	88	98	parallel
Strand 3	C	149	159	anti-parallel
Strand 4	C	118	122	anti-parallel
Strand 5	C	125	130	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	C	32	34	first strand
Strand 2	C	176	181	anti-parallel
Strand 3	C	106	111	anti-parallel
Strand 4	C	137	140	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	C	184	194	first strand
Strand 2	C	205	216	anti-parallel
Strand 3	C	256	266	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	C	242	245	first strand
Strand 2	C	222	232	anti-parallel
Strand 3	C	249	251	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	242	245	first strand
Strand 2	C	222	232	anti-parallel
Strand 3	C	279	287	anti-parallel
Strand 4	C	290	299	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	C	304	307	first strand
Strand 2	C	311	314	anti-parallel
Strand 3	C	317	318	anti-parallel

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There are 9 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	321	326	first strand
Strand 2	C	356	359	parallel
Strand 3	C	378	382	parallel
Strand 4	C	439	446	parallel
Strand 5	C	479	483	parallel
Strand 6	C	506	510	parallel
Strand 7	C	529	535	parallel
Strand 8	C	585	591	parallel
Strand 9	C	321	326	parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	728	733	first strand
Strand 2	C	667	674	anti-parallel
Strand 3	C	647	652	anti-parallel
Strand 4	C	756	757	parallel

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There are 4 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	692	698	first strand
Strand 2	C	678	685	anti-parallel
Strand 3	C	737	744	anti-parallel
Strand 4	C	761	763	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	C	700	703	first strand
Strand 2	C	709	712	anti-parallel

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There are 4 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	770	775	first strand
Strand 2	C	787	795	anti-parallel
Strand 3	C	844	851	anti-parallel
Strand 4	C	817	823	anti-parallel

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There are 5 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	779	781	first strand
Strand 2	C	870	877	parallel
Strand 3	C	856	864	anti-parallel
Strand 4	C	808	815	anti-parallel
Strand 5	C	837	839	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: 5DMY

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