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

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 9DER entry

There are 2 chains in PDB entry 9DER (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 5	PRO 452
B	GLY 1	SER 481

There are 17 helices in PDB entry 9DER. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	151	158	Right-handed alpha
Helix 2	AA2	A	187	192	Right-handed alpha
Helix 3	AA3	A	200	207	Right-handed alpha
Helix 4	AA4	A	227	231	Right-handed 310
Helix 5	AA5	B	12	19	Right-handed alpha
Helix 6	AA6	B	31	35	Right-handed 310
Helix 7	AA7	B	40	47	Right-handed alpha
Helix 8	AA8	B	123	146	Right-handed alpha
Helix 9	AA9	B	170	175	Right-handed alpha
Helix 10	AB1	B	199	210	Right-handed alpha
Helix 11	AB2	B	221	232	Right-handed alpha
Helix 12	AB3	B	259	264	Right-handed alpha
Helix 13	AB4	B	281	287	Right-handed 310
Helix 14	AB5	B	291	303	Right-handed alpha
Helix 15	AB6	B	314	325	Right-handed alpha
Helix 16	AB7	B	337	349	Right-handed alpha
Helix 17	AB8	B	436	441	Right-handed 310

There are 13 sheets in PDB entry 9DER. 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,

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	8	11	first strand
Strand 2	A	445	449	anti-parallel
Strand 3	A	434	437	anti-parallel
Strand 4	A	421	422	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	22	27	first strand
Strand 2	A	33	39	anti-parallel
Strand 3	A	52	57	anti-parallel

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There are 3 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	76	79	first strand
Strand 2	A	82	87	anti-parallel
Strand 3	A	112	116	anti-parallel

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There are 4 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	96	100	first strand
Strand 2	A	103	108	anti-parallel
Strand 3	A	129	134	anti-parallel
Strand 4	A	139	143	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	A	172	175	first strand
Strand 2	A	180	185	anti-parallel
Strand 3	A	194	199	anti-parallel
Strand 4	A	220	221	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	238	242	first strand
Strand 2	A	252	257	anti-parallel
Strand 3	A	266	270	anti-parallel
Strand 4	A	276	281	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	A	293	296	first strand
Strand 2	A	305	310	anti-parallel
Strand 3	A	327	331	anti-parallel
Strand 4	A	345	348	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	A	314	315	first strand
Strand 2	A	323	324	anti-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	360	362	first strand
Strand 2	A	373	378	anti-parallel
Strand 3	A	388	393	anti-parallel
Strand 4	A	405	408	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	B	61	65	first strand
Strand 2	B	87	92	anti-parallel
Strand 3	B	425	431	parallel
Strand 4	B	411	418	anti-parallel
Strand 5	B	357	360	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	83	84	first strand
Strand 2	B	96	105	anti-parallel
Strand 3	B	394	403	anti-parallel
Strand 4	B	367	373	anti-parallel
Strand 5	B	379	381	anti-parallel

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There are 6 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	190	197	first strand
Strand 2	B	149	156	anti-parallel
Strand 3	B	112	119	parallel
Strand 4	B	243	250	parallel
Strand 5	B	304	310	parallel
Strand 6	B	329	332	parallel

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There are 2 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	454	456	first strand
Strand 2	B	459	461	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: 9DER

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