Analysis of interatomic Contacts of Structural Units in PDB entry:
5D4K

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 5D4K entry

There are 2 chains in PDB entry 5D4K (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 2	SER 549
B	SER 2	SER 549

There are 22 helices in PDB entry 5D4K. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	28	32	Right-handed 310
Helix 2	AA2	A	42	44	Right-handed 310
Helix 3	AA3	A	83	87	Right-handed 310
Helix 4	AA4	A	137	141	Right-handed 310
Helix 5	AA5	A	193	197	Right-handed 310
Helix 6	AA6	A	272	276	Right-handed 310
Helix 7	AA7	A	298	302	Right-handed 310
Helix 8	AA8	A	356	360	Right-handed 310
Helix 9	AA9	A	388	392	Right-handed 310
Helix 10	AB1	A	414	418	Right-handed 310
Helix 11	AB2	A	517	521	Right-handed 310
Helix 12	AB3	B	28	32	Right-handed 310
Helix 13	AB4	B	42	44	Right-handed 310
Helix 14	AB5	B	83	87	Right-handed 310
Helix 15	AB6	B	137	141	Right-handed 310
Helix 16	AB7	B	193	197	Right-handed 310
Helix 17	AB8	B	272	276	Right-handed 310
Helix 18	AB9	B	298	302	Right-handed 310
Helix 19	AC1	B	358	362	Right-handed 310
Helix 20	AC2	B	388	392	Right-handed 310
Helix 21	AC3	B	414	418	Right-handed 310
Helix 22	AC4	B	517	521	Right-handed 310

There are 20 sheets in PDB entry 5D4K. 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,

There are 5 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	9	13	first strand
Strand 2	A	102	110	parallel
Strand 3	A	88	94	anti-parallel
Strand 4	A	35	40	anti-parallel
Strand 5	A	46	51	anti-parallel

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There are 3 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	18	23	first strand
Strand 2	A	74	79	anti-parallel
Strand 3	A	64	69	anti-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	119	125	first strand
Strand 2	A	211	220	parallel
Strand 3	A	198	204	anti-parallel
Strand 4	A	145	150	anti-parallel
Strand 5	A	155	160	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	130	135	first strand
Strand 2	A	184	189	anti-parallel
Strand 3	A	173	177	anti-parallel

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There are 5 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	225	230	first strand
Strand 2	A	321	329	parallel
Strand 3	A	304	309	anti-parallel
Strand 4	A	250	255	anti-parallel
Strand 5	A	261	266	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	235	239	first strand
Strand 2	A	290	294	anti-parallel
Strand 3	A	279	281	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	A	339	343	first strand
Strand 2	A	433	439	parallel
Strand 3	A	419	424	anti-parallel
Strand 4	A	365	368	anti-parallel
Strand 5	A	379	382	anti-parallel

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There are 3 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	348	354	first strand
Strand 2	A	405	411	anti-parallel
Strand 3	A	395	401	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	A	451	455	first strand
Strand 2	A	533	545	parallel
Strand 3	A	522	530	anti-parallel
Strand 4	A	474	479	anti-parallel
Strand 5	A	486	487	anti-parallel

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There are 3 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	460	466	first strand
Strand 2	A	507	513	anti-parallel
Strand 3	A	490	492	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	B	9	13	first strand
Strand 2	B	102	110	parallel
Strand 3	B	88	94	anti-parallel
Strand 4	B	35	40	anti-parallel
Strand 5	B	46	51	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	18	23	first strand
Strand 2	B	74	79	anti-parallel
Strand 3	B	64	69	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	B	119	125	first strand
Strand 2	B	211	220	parallel
Strand 3	B	198	204	anti-parallel
Strand 4	B	145	151	anti-parallel
Strand 5	B	154	160	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	130	135	first strand
Strand 2	B	184	189	anti-parallel
Strand 3	B	173	177	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	225	230	first strand
Strand 2	B	321	329	parallel
Strand 3	B	304	309	anti-parallel
Strand 4	B	250	254	anti-parallel
Strand 5	B	262	266	anti-parallel

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There are 3 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	235	239	first strand
Strand 2	B	290	294	anti-parallel
Strand 3	B	279	281	anti-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	B	339	343	first strand
Strand 2	B	433	439	parallel
Strand 3	B	419	424	anti-parallel
Strand 4	B	365	368	anti-parallel
Strand 5	B	379	382	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	348	354	first strand
Strand 2	B	405	411	anti-parallel
Strand 3	B	395	401	anti-parallel

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There are 5 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	451	455	first strand
Strand 2	B	533	545	parallel
Strand 3	B	522	530	anti-parallel
Strand 4	B	474	479	anti-parallel
Strand 5	B	486	487	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	460	466	first strand
Strand 2	B	507	513	anti-parallel
Strand 3	B	490	492	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: 5D4K

Analysis of interatomic Contacts of Structural Units in PDB entry:
5D4K