Analysis of interatomic Contacts of Structural Units in PDB entry:
8VYB

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 8VYB entry

There are 2 chains in PDB entry 8VYB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 19	PHE 981
B	ALA 2	SER 544

There are 22 helices in PDB entry 8VYB. 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	37	Right-handed alpha
Helix 2	AA2	A	51	56	Right-handed alpha
Helix 3	AA3	A	98	104	Right-handed alpha
Helix 4	AA4	A	116	123	Right-handed alpha
Helix 5	AA5	A	141	160	Right-handed alpha
Helix 6	AA6	A	199	203	Right-handed 310
Helix 7	AA7	A	204	217	Right-handed alpha
Helix 8	AA8	A	303	307	Right-handed 310
Helix 9	AA9	A	323	328	Right-handed alpha
Helix 10	AB1	A	329	332	Right-handed 310
Helix 11	AB2	A	782	782	Right-handed 310
Helix 12	AB3	A	783	800	Right-handed alpha
Helix 13	AB4	A	803	817	Right-handed alpha
Helix 14	AB5	A	825	854	Right-handed alpha
Helix 15	AB6	A	860	871	Right-handed alpha
Helix 16	AB7	A	888	901	Right-handed alpha
Helix 17	AB8	B	14	22	Right-handed alpha
Helix 18	AB9	B	73	78	Right-handed alpha
Helix 19	AC1	B	221	241	Right-handed alpha
Helix 20	AC2	B	276	288	Right-handed alpha
Helix 21	AC3	B	508	515	Right-handed alpha
Helix 22	AC4	B	539	544	Right-handed 310

There are 10 sheets in PDB entry 8VYB. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

There are 3 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	58	61	first strand
Strand 2	A	71	79	anti-parallel
Strand 3	A	64	66	anti-parallel

Back to list of sheets
Back to top of page

There are 13 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	58	61	first strand
Strand 2	A	71	79	anti-parallel
Strand 3	A	126	132	anti-parallel
Strand 4	A	165	169	parallel
Strand 5	A	176	183	anti-parallel
Strand 6	A	186	195	anti-parallel
Strand 7	A	968	977	anti-parallel
Strand 8	A	955	964	anti-parallel
Strand 9	A	936	945	anti-parallel
Strand 10	A	227	236	anti-parallel
Strand 11	A	276	285	anti-parallel
Strand 12	A	309	316	anti-parallel
Strand 13	A	880	881	anti-parallel

Back to list of sheets
Back to top of page

There are 4 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	4	10	first strand
Strand 2	B	531	536	anti-parallel
Strand 3	B	523	526	anti-parallel
Strand 4	B	496	498	anti-parallel

Back to list of sheets
Back to top of page

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	B	79	82	first strand
Strand 2	B	89	92	anti-parallel
Strand 3	B	96	101	anti-parallel
Strand 4	B	117	123	anti-parallel

Back to list of sheets
Back to top of page

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	104	106	first strand
Strand 2	B	112	114	anti-parallel

Back to list of sheets
Back to top of page

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	B	132	139	first strand
Strand 2	B	154	160	anti-parallel
Strand 3	B	164	168	anti-parallel
Strand 4	B	174	179	anti-parallel

Back to list of sheets
Back to top of page

There are 5 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	187	191	first strand
Strand 2	B	207	212	anti-parallel
Strand 3	B	215	220	anti-parallel
Strand 4	B	254	258	anti-parallel
Strand 5	B	372	374	parallel

Back to list of sheets
Back to top of page

There are 4 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	263	271	first strand
Strand 2	B	301	309	anti-parallel
Strand 3	B	313	319	anti-parallel
Strand 4	B	378	380	anti-parallel

Back to list of sheets
Back to top of page

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	B	387	392	first strand
Strand 2	B	398	403	anti-parallel
Strand 3	B	407	412	anti-parallel
Strand 4	B	418	423	anti-parallel

Back to list of sheets
Back to top of page

There are 4 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	429	435	first strand
Strand 2	B	462	469	anti-parallel
Strand 3	B	474	479	anti-parallel
Strand 4	B	487	490	anti-parallel

Back to list of sheets
Back to top of page

Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

Analysis of interatomic Contacts of Structural Units in PDB entry: 8VYB

Analysis of interatomic Contacts of Structural Units in PDB entry:
8VYB