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

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 5YJA entry

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

Chain ID	Initial residue	Terminal residue
A	VAL 8	GLN 304
A	PHE 306	GLN 310
B	MET 9	GLN 304
B	PHE 306	LEU 313
C	VAL 8	PHE 45

There are 34 helices in PDB entry 5YJA. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	55	57	Right-handed 310
Helix 2	AA2	A	58	64	Right-handed alpha
Helix 3	AA3	A	72	87	Right-handed alpha
Helix 4	AA4	A	91	107	Right-handed alpha
Helix 5	AA5	A	215	221	Right-handed 310
Helix 6	AA6	A	223	227	Right-handed 310
Helix 7	AA7	A	229	244	Right-handed alpha
Helix 8	AA8	A	248	264	Right-handed alpha
Helix 9	AA9	B	55	57	Right-handed 310
Helix 10	AB1	B	58	64	Right-handed alpha
Helix 11	AB2	B	72	87	Right-handed alpha
Helix 12	AB3	B	91	107	Right-handed alpha
Helix 13	AB4	B	215	220	Right-handed 310
Helix 14	AB5	B	223	227	Right-handed 310
Helix 15	AB6	B	229	244	Right-handed alpha
Helix 16	AB7	B	248	264	Right-handed alpha
Helix 17	AB8	B	311	313	Right-handed 310
Helix 18	AB9	C	55	57	Right-handed 310
Helix 19	AC1	C	58	64	Right-handed alpha
Helix 20	AC2	C	72	87	Right-handed alpha
Helix 21	AC3	C	91	107	Right-handed alpha
Helix 22	AC4	C	215	220	Right-handed 310
Helix 23	AC5	C	223	227	Right-handed 310
Helix 24	AC6	C	229	244	Right-handed alpha
Helix 25	AC7	C	248	264	Right-handed alpha
Helix 26	AC8	C	311	313	Right-handed 310
Helix 27	AC9	D	55	57	Right-handed 310
Helix 28	AD1	D	58	64	Right-handed alpha
Helix 29	AD2	D	72	87	Right-handed alpha
Helix 30	AD3	D	91	107	Right-handed alpha
Helix 31	AD4	D	215	221	Right-handed 310
Helix 32	AD5	D	223	227	Right-handed 310
Helix 33	AD6	D	229	244	Right-handed alpha
Helix 34	AD7	D	248	264	Right-handed alpha

There are 6 sheets in PDB entry 5YJA. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 17 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	9	21	first strand
Strand 2	A	44	54	anti-parallel
Strand 3	A	112	119	anti-parallel
Strand 4	A	147	156	anti-parallel
Strand 5	A	162	178	anti-parallel
Strand 6	A	204	213	anti-parallel
Strand 7	A	267	276	anti-parallel
Strand 8	A	301	309	anti-parallel
Strand 9	B	10	21	anti-parallel
Strand 10	B	44	54	anti-parallel
Strand 11	B	112	119	anti-parallel
Strand 12	B	147	156	anti-parallel
Strand 13	B	162	178	anti-parallel
Strand 14	B	204	213	anti-parallel
Strand 15	B	267	276	anti-parallel
Strand 16	B	301	309	anti-parallel
Strand 17	A	9	21	anti-parallel

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There are 9 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	280	281	first strand
Strand 2	D	293	295	anti-parallel
Strand 3	A	9	21	anti-parallel
Strand 4	B	301	309	anti-parallel
Strand 5	B	267	276	anti-parallel
Strand 6	B	204	213	anti-parallel
Strand 7	B	162	178	anti-parallel
Strand 8	C	132	142	anti-parallel
Strand 9	C	122	129	anti-parallel

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There are 9 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	122	129	first strand
Strand 2	D	132	142	anti-parallel
Strand 3	A	162	178	anti-parallel
Strand 4	A	204	213	anti-parallel
Strand 5	A	267	276	anti-parallel
Strand 6	A	301	309	anti-parallel
Strand 7	B	10	21	anti-parallel
Strand 8	C	293	295	anti-parallel
Strand 9	C	280	281	anti-parallel

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There are 19 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	122	129	first strand
Strand 2	A	132	142	anti-parallel
Strand 3	D	162	178	anti-parallel
Strand 4	D	147	156	anti-parallel
Strand 5	D	112	120	anti-parallel
Strand 6	D	44	54	anti-parallel
Strand 7	D	9	21	anti-parallel
Strand 8	C	301	309	anti-parallel
Strand 9	C	267	276	anti-parallel
Strand 10	C	204	213	anti-parallel
Strand 11	C	162	178	anti-parallel
Strand 12	C	147	156	anti-parallel
Strand 13	C	112	119	anti-parallel
Strand 14	C	44	54	anti-parallel
Strand 15	C	9	21	anti-parallel
Strand 16	D	301	309	anti-parallel
Strand 17	D	267	276	anti-parallel
Strand 18	D	204	213	anti-parallel
Strand 19	D	162	178	anti-parallel

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There are 9 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	280	281	first strand
Strand 2	A	293	295	anti-parallel
Strand 3	D	9	21	anti-parallel
Strand 4	C	301	309	anti-parallel
Strand 5	C	267	276	anti-parallel
Strand 6	C	204	213	anti-parallel
Strand 7	C	162	178	anti-parallel
Strand 8	B	132	142	anti-parallel
Strand 9	B	122	129	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	280	281	first strand
Strand 2	B	294	295	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: 5YJA

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