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

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 5OPD entry

Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 4 chains in PDB entry 5OPD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 11	ARG 382
A	VAL 384	LEU 393
B	GLU 7	ARG 382
B	VAL 384	LEU 393

There are 23 helices in PDB entry 5OPD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	24	40	Right-handed alpha
Helix 2	AA2	A	46	52	Right-handed alpha
Helix 3	AA3	A	84	94	Right-handed alpha
Helix 4	AA4	A	113	127	Right-handed alpha
Helix 5	AA5	A	143	161	Right-handed alpha
Helix 6	AA6	A	174	181	Right-handed alpha
Helix 7	AA7	A	182	199	Right-handed alpha
Helix 8	AA8	A	205	209	Right-handed 310
Helix 9	AA9	A	283	287	Right-handed 310
Helix 10	AB1	A	313	317	Right-handed 310
Helix 11	AB2	B	24	40	Right-handed alpha
Helix 12	AB3	B	48	52	Right-handed alpha
Helix 13	AB4	B	84	94	Right-handed alpha
Helix 14	AB5	B	95	98	Right-handed 310
Helix 15	AB6	B	113	127	Right-handed alpha
Helix 16	AB7	B	137	141	Right-handed 310
Helix 17	AB8	B	143	161	Right-handed alpha
Helix 18	AB9	B	164	168	Right-handed 310
Helix 19	AC1	B	174	181	Right-handed alpha
Helix 20	AC2	B	182	199	Right-handed alpha
Helix 21	AC3	B	205	209	Right-handed 310
Helix 22	AC4	B	283	287	Right-handed 310
Helix 23	AC5	B	313	317	Right-handed 310

There are 10 sheets in PDB entry 5OPD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

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	66	71	first strand
Strand 2	A	76	81	anti-parallel
Strand 3	A	12	19	parallel
Strand 4	A	102	107	parallel
Strand 5	A	131	136	parallel
Strand 6	A	170	172	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	A	212	214	first strand
Strand 2	A	292	294	anti-parallel
Strand 3	A	242	246	anti-parallel
Strand 4	A	252	261	anti-parallel
Strand 5	A	274	279	anti-parallel
Strand 6	A	226	231	anti-parallel
Strand 7	A	217	220	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	212	214	first strand
Strand 2	A	292	294	anti-parallel
Strand 3	A	242	246	anti-parallel
Strand 4	A	252	261	anti-parallel
Strand 5	A	264	266	anti-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	236	238	first strand
Strand 2	A	268	270	anti-parallel

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There are 6 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	330	332	first strand
Strand 2	A	374	379	anti-parallel
Strand 3	A	382	392	anti-parallel
Strand 4	A	300	311	anti-parallel
Strand 5	A	356	369	anti-parallel
Strand 6	A	340	343	anti-parallel

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There are 6 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	66	71	first strand
Strand 2	B	76	81	anti-parallel
Strand 3	B	15	18	parallel
Strand 4	B	102	107	parallel
Strand 5	B	131	136	parallel
Strand 6	B	170	172	parallel

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There are 7 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	212	214	first strand
Strand 2	B	292	294	anti-parallel
Strand 3	B	242	246	anti-parallel
Strand 4	B	252	261	anti-parallel
Strand 5	B	274	279	anti-parallel
Strand 6	B	226	231	anti-parallel
Strand 7	B	217	220	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	B	212	214	first strand
Strand 2	B	292	294	anti-parallel
Strand 3	B	242	246	anti-parallel
Strand 4	B	252	261	anti-parallel
Strand 5	B	264	266	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	B	236	238	first strand
Strand 2	B	268	270	anti-parallel

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There are 7 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	301	311	first strand
Strand 2	B	356	368	anti-parallel
Strand 3	B	337	343	anti-parallel
Strand 4	B	330	332	anti-parallel
Strand 5	B	374	378	anti-parallel
Strand 6	B	383	392	anti-parallel
Strand 7	B	301	311	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: 5OPD

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