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

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 9DPD entry

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

Chain ID	Initial residue	Terminal residue
B	VAL 155	PRO 475
D	VAL 2	PRO 475
C	ARG 57	GLN 355

There are 32 helices in PDB entry 9DPD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	169	177	Right-handed alpha
Helix 2	AA2	B	198	218	Right-handed alpha
Helix 3	AA3	B	275	279	Right-handed 310
Helix 4	AA4	B	286	290	Right-handed 310
Helix 5	AA5	B	335	355	Right-handed alpha
Helix 6	AA6	B	400	402	Right-handed 310
Helix 7	AA7	B	433	445	Right-handed alpha
Helix 8	AA8	D	4	9	Right-handed 310
Helix 9	AA9	D	15	26	Right-handed alpha
Helix 10	AB1	D	31	49	Right-handed alpha
Helix 11	AB2	D	114	133	Right-handed alpha
Helix 12	AB3	D	148	153	Right-handed alpha
Helix 13	AB4	D	169	177	Right-handed alpha
Helix 14	AB5	D	198	218	Right-handed alpha
Helix 15	AB6	D	275	279	Right-handed alpha
Helix 16	AB7	D	335	355	Right-handed alpha
Helix 17	AB8	D	400	406	Right-handed alpha
Helix 18	AB9	D	433	445	Right-handed alpha
Helix 19	AC1	D	453	457	Right-handed 310
Helix 20	AC2	C	63	73	Right-handed alpha
Helix 21	AC3	C	85	92	Right-handed 310
Helix 22	AC4	C	114	119	Right-handed 310
Helix 23	AC5	C	120	125	Right-handed alpha
Helix 24	AC6	C	128	139	Right-handed alpha
Helix 25	AC7	C	146	158	Right-handed alpha
Helix 26	AC8	C	171	177	Right-handed alpha
Helix 27	AC9	C	205	214	Right-handed alpha
Helix 28	AD1	C	240	251	Right-handed alpha
Helix 29	AD2	C	268	270	Right-handed 310
Helix 30	AD3	C	271	276	Right-handed alpha
Helix 31	AD4	C	323	336	Right-handed alpha
Helix 32	AD5	C	337	355	Right-handed alpha

There are 9 sheets in PDB entry 9DPD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 7 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	157	159	first strand
Strand 2	B	359	362	anti-parallel
Strand 3	B	377	381	anti-parallel
Strand 4	B	390	399	anti-parallel
Strand 5	B	425	432	anti-parallel
Strand 6	B	322	329	anti-parallel
Strand 7	B	292	293	anti-parallel

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There are 7 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	157	159	first strand
Strand 2	B	359	362	anti-parallel
Strand 3	B	377	381	anti-parallel
Strand 4	B	390	399	anti-parallel
Strand 5	B	425	432	anti-parallel
Strand 6	B	322	329	anti-parallel
Strand 7	B	297	299	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	449	451	first strand
Strand 2	B	467	469	anti-parallel

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There are 7 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	154	159	first strand
Strand 2	D	359	363	anti-parallel
Strand 3	D	376	381	anti-parallel
Strand 4	D	390	399	anti-parallel
Strand 5	D	424	432	anti-parallel
Strand 6	D	321	330	anti-parallel
Strand 7	D	292	300	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	409	410	first strand
Strand 2	D	421	422	anti-parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	449	451	first strand
Strand 2	D	467	469	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	C	183	185	first strand
Strand 2	C	164	166	parallel
Strand 3	C	79	83	parallel
Strand 4	C	256	260	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	193	195	first strand
Strand 2	C	228	230	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	285	286	first strand
Strand 2	C	320	321	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: 9DPD

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