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

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 5DUD entry

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

Chain ID	Initial residue	Terminal residue
A	MET 1	ARG 305
B	ARG 3	LYS 214
C	MET 1	GLN 212

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

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	21	25	Right-handed 310
Helix 2	AA2	A	33	45	Right-handed alpha
Helix 3	AA3	A	181	185	Right-handed 310
Helix 4	AA4	A	186	196	Right-handed alpha
Helix 5	AA5	A	265	272	Right-handed alpha
Helix 6	AA6	A	284	303	Right-handed alpha
Helix 7	AA7	B	23	39	Right-handed alpha
Helix 8	AA8	B	59	78	Right-handed alpha
Helix 9	AA9	B	101	110	Right-handed alpha
Helix 10	AB1	B	112	123	Right-handed alpha
Helix 11	AB2	B	143	147	Right-handed 310
Helix 12	AB3	C	21	25	Right-handed 310
Helix 13	AB4	C	33	45	Right-handed alpha
Helix 14	AB5	C	181	185	Right-handed 310
Helix 15	AB6	C	186	196	Right-handed alpha
Helix 16	AB7	C	265	272	Right-handed alpha
Helix 17	AB8	C	284	303	Right-handed alpha
Helix 18	AB9	D	23	39	Right-handed alpha
Helix 19	AC1	D	63	71	Right-handed alpha
Helix 20	AC2	D	101	110	Right-handed alpha
Helix 21	AC3	D	112	123	Right-handed alpha
Helix 22	AC4	D	143	147	Right-handed 310

There are 12 sheets in PDB entry 5DUD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 6 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	84	85	first strand
Strand 2	A	80	81	anti-parallel
Strand 3	A	99	102	anti-parallel
Strand 4	A	60	64	anti-parallel
Strand 5	A	2	4	anti-parallel
Strand 6	A	149	150	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	12	14	first strand
Strand 2	A	52	56	anti-parallel
Strand 3	A	110	115	anti-parallel
Strand 4	A	68	74	anti-parallel
Strand 5	A	92	94	anti-parallel

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There are 8 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	173	178	first strand
Strand 2	A	257	261	anti-parallel
Strand 3	A	233	235	anti-parallel
Strand 4	A	243	245	anti-parallel
Strand 5	A	208	212	anti-parallel
Strand 6	A	198	200	anti-parallel
Strand 7	A	277	282	anti-parallel
Strand 8	A	173	178	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	227	228	first strand
Strand 2	A	252	253	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	4	9	first strand
Strand 2	B	13	18	anti-parallel
Strand 3	B	53	56	anti-parallel
Strand 4	B	45	48	anti-parallel

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There are 8 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	87	94	first strand
Strand 2	B	182	187	anti-parallel
Strand 3	B	162	166	anti-parallel
Strand 4	B	169	173	anti-parallel
Strand 5	B	137	139	anti-parallel
Strand 6	B	125	130	anti-parallel
Strand 7	B	207	213	anti-parallel
Strand 8	B	87	94	parallel

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There are 6 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	84	85	first strand
Strand 2	C	80	81	anti-parallel
Strand 3	C	99	102	anti-parallel
Strand 4	C	60	64	anti-parallel
Strand 5	C	2	6	anti-parallel
Strand 6	C	149	150	anti-parallel

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There are 5 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	12	14	first strand
Strand 2	C	52	56	anti-parallel
Strand 3	C	110	115	anti-parallel
Strand 4	C	69	74	anti-parallel
Strand 5	C	92	93	anti-parallel

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There are 8 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	173	178	first strand
Strand 2	C	257	261	anti-parallel
Strand 3	C	233	235	anti-parallel
Strand 4	C	243	245	anti-parallel
Strand 5	C	208	212	anti-parallel
Strand 6	C	198	200	anti-parallel
Strand 7	C	277	282	anti-parallel
Strand 8	C	173	178	parallel

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There are 2 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	227	228	first strand
Strand 2	C	252	253	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	D	5	9	first strand
Strand 2	D	13	17	anti-parallel
Strand 3	D	52	57	anti-parallel
Strand 4	D	43	48	anti-parallel

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There are 7 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	137	139	first strand
Strand 2	D	125	130	anti-parallel
Strand 3	D	207	212	anti-parallel
Strand 4	D	87	94	parallel
Strand 5	D	182	187	anti-parallel
Strand 6	D	162	166	anti-parallel
Strand 7	D	169	173	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: 5DUD

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