Analysis of interatomic Contacts of Structural Units in PDB entry:
6JAF

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 6JAF entry

There are 2 chains in PDB entry 6JAF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PHE -1	LYS 511
B	PHE -1	LYS 511

There are 35 helices in PDB entry 6JAF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	46	69	Right-handed alpha
Helix 2	AA2	A	109	120	Right-handed alpha
Helix 3	AA3	A	140	152	Right-handed alpha
Helix 4	AA4	A	152	162	Right-handed alpha
Helix 5	AA5	A	169	179	Right-handed alpha
Helix 6	AA6	A	186	191	Right-handed alpha
Helix 7	AA7	A	204	212	Right-handed alpha
Helix 8	AA8	A	237	243	Right-handed alpha
Helix 9	AA9	A	254	262	Right-handed alpha
Helix 10	AB1	A	320	330	Right-handed alpha
Helix 11	AB2	A	338	346	Right-handed alpha
Helix 12	AB3	A	383	411	Right-handed alpha
Helix 13	AB4	A	421	425	Right-handed 310
Helix 14	AB5	A	426	438	Right-handed alpha
Helix 15	AB6	A	448	461	Right-handed alpha
Helix 16	AB7	A	467	479	Right-handed alpha
Helix 17	AB8	A	489	505	Right-handed alpha
Helix 18	AB9	B	46	69	Right-handed alpha
Helix 19	AC1	B	109	122	Right-handed alpha
Helix 20	AC2	B	128	133	Right-handed alpha
Helix 21	AC3	B	140	152	Right-handed alpha
Helix 22	AC4	B	152	162	Right-handed alpha
Helix 23	AC5	B	169	178	Right-handed alpha
Helix 24	AC6	B	187	191	Right-handed alpha
Helix 25	AC7	B	204	212	Right-handed alpha
Helix 26	AC8	B	237	243	Right-handed alpha
Helix 27	AC9	B	254	262	Right-handed alpha
Helix 28	AD1	B	320	330	Right-handed alpha
Helix 29	AD2	B	337	346	Right-handed alpha
Helix 30	AD3	B	383	411	Right-handed alpha
Helix 31	AD4	B	422	425	Right-handed 310
Helix 32	AD5	B	426	438	Right-handed alpha
Helix 33	AD6	B	448	463	Right-handed alpha
Helix 34	AD7	B	467	479	Right-handed alpha
Helix 35	AD8	B	489	505	Right-handed alpha

There are 12 sheets in PDB entry 6JAF. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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	25	32	first strand
Strand 2	A	13	20	anti-parallel
Strand 3	A	3	9	anti-parallel
Strand 4	A	77	82	parallel
Strand 5	A	247	253	parallel
Strand 6	A	229	230	anti-parallel

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There are 2 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	44	45	first strand
Strand 2	A	101	102	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	A	87	91	first strand
Strand 2	A	164	168	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	196	197	first strand
Strand 2	A	202	203	anti-parallel

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There are 7 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	296	302	first strand
Strand 2	A	309	317	anti-parallel
Strand 3	A	278	285	anti-parallel
Strand 4	A	269	274	anti-parallel
Strand 5	A	416	420	parallel
Strand 6	A	441	444	parallel
Strand 7	A	481	484	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	354	357	first strand
Strand 2	A	373	378	anti-parallel
Strand 3	B	373	378	anti-parallel
Strand 4	B	354	356	anti-parallel

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There are 6 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	25	32	first strand
Strand 2	B	13	20	anti-parallel
Strand 3	B	3	9	anti-parallel
Strand 4	B	77	82	parallel
Strand 5	B	247	253	parallel
Strand 6	B	225	230	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	B	44	45	first strand
Strand 2	B	101	102	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	87	91	first strand
Strand 2	B	164	168	anti-parallel

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There are 2 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	184	186	first strand
Strand 2	B	220	222	parallel

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There are 2 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	196	197	first strand
Strand 2	B	202	203	anti-parallel

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There are 7 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	296	302	first strand
Strand 2	B	309	317	anti-parallel
Strand 3	B	278	285	anti-parallel
Strand 4	B	270	274	anti-parallel
Strand 5	B	417	420	parallel
Strand 6	B	441	444	parallel
Strand 7	B	481	484	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: 6JAF

Analysis of interatomic Contacts of Structural Units in PDB entry:
6JAF