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

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 5YVJ entry

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

Chain ID	Initial residue	Terminal residue
B	LEU 18	LYS 618
C	ALA 49	GLU 63

There are 18 helices in PDB entry 5YVJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	49	54	Right-handed alpha
Helix 2	AA2	B	202	214	Right-handed alpha
Helix 3	AA3	B	224	235	Right-handed alpha
Helix 4	AA4	B	262	272	Right-handed alpha
Helix 5	AA5	B	290	306	Right-handed alpha
Helix 6	AA6	B	348	354	Right-handed alpha
Helix 7	AA7	B	364	378	Right-handed alpha
Helix 8	AA8	B	389	400	Right-handed alpha
Helix 9	AA9	B	409	413	Right-handed 310
Helix 10	AB1	B	450	459	Right-handed alpha
Helix 11	AB2	B	485	496	Right-handed alpha
Helix 12	AB3	B	509	514	Right-handed alpha
Helix 13	AB4	B	526	539	Right-handed alpha
Helix 14	AB5	B	543	553	Right-handed alpha
Helix 15	AB6	B	560	564	Right-handed 310
Helix 16	AB7	B	567	571	Right-handed 310
Helix 17	AB8	B	597	601	Right-handed 310
Helix 18	AB9	B	603	615	Right-handed alpha

There are 7 sheets in PDB entry 5YVJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 8 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	63	65	first strand
Strand 2	B	58	60	anti-parallel
Strand 3	C	51	57	parallel
Strand 4	B	21	29	anti-parallel
Strand 5	B	32	42	anti-parallel
Strand 6	B	45	48	anti-parallel
Strand 7	B	76	79	anti-parallel
Strand 8	B	67	71	anti-parallel

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There are 6 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	107	111	first strand
Strand 2	B	95	99	anti-parallel
Strand 3	B	138	140	anti-parallel
Strand 4	B	146	150	anti-parallel
Strand 5	B	163	166	anti-parallel
Strand 6	B	125	126	anti-parallel

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There are 6 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	187	191	first strand
Strand 2	B	310	314	parallel
Strand 3	B	280	284	parallel
Strand 4	B	218	222	parallel
Strand 5	B	257	261	parallel
Strand 6	B	240	242	parallel

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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	332	336	first strand
Strand 2	B	470	474	parallel
Strand 3	B	421	424	parallel
Strand 4	B	358	361	parallel
Strand 5	B	404	407	parallel
Strand 6	B	382	385	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	B	427	434	first strand
Strand 2	B	440	448	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	B	573	574	first strand
Strand 2	B	577	578	anti-parallel

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There are 2 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	580	582	first strand
Strand 2	B	588	590	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: 5YVJ

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