Analysis of interatomic Contacts of Structural Units in PDB entry:
9YCK

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 9YCK entry

There are 3 chains in PDB entry 9YCK (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 1	ASP 131
B	SER 1	THR 519
C	U 6	C 39

There are 20 helices in PDB entry 9YCK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	10	20	Right-handed alpha
Helix 2	AA2	A	22	33	Right-handed alpha
Helix 3	AA3	A	71	73	Right-handed 310
Helix 4	AA4	A	74	79	Right-handed alpha
Helix 5	AA5	A	85	89	Right-handed 310
Helix 6	AA6	A	106	114	Right-handed alpha
Helix 7	AA7	B	75	82	Right-handed alpha
Helix 8	AA8	B	143	155	Right-handed 310
Helix 9	AA9	B	158	175	Right-handed alpha
Helix 10	AB1	B	187	196	Right-handed alpha
Helix 11	AB2	B	226	230	Right-handed 310
Helix 12	AB3	B	245	248	Right-handed 310
Helix 13	AB4	B	252	258	Right-handed alpha
Helix 14	AB5	B	269	287	Right-handed alpha
Helix 15	AB6	B	301	323	Right-handed alpha
Helix 16	AB7	B	371	376	Right-handed 310
Helix 17	AB8	B	428	433	Right-handed 310
Helix 18	AB9	B	472	477	Right-handed alpha
Helix 19	AC1	B	481	502	Right-handed alpha
Helix 20	AC2	B	512	516	Right-handed 310

There are 8 sheets in PDB entry 9YCK. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

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	55	56	first strand
Strand 2	A	96	100	anti-parallel
Strand 3	A	65	69	anti-parallel

Back to list of sheets
Back to top of page

There are 3 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	53	55	first strand
Strand 2	B	122	126	anti-parallel
Strand 3	B	131	135	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	115	118	first strand
Strand 2	B	104	111	anti-parallel
Strand 3	B	86	96	anti-parallel
Strand 4	B	138	139	anti-parallel

Back to list of sheets
Back to top of page

There are 5 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	115	118	first strand
Strand 2	B	104	111	anti-parallel
Strand 3	B	86	96	anti-parallel
Strand 4	B	182	185	parallel
Strand 5	B	240	243	parallel

Back to list of sheets
Back to top of page

There are 4 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	199	200	first strand
Strand 2	B	235	237	parallel
Strand 3	B	216	218	anti-parallel
Strand 4	B	223	225	anti-parallel

Back to list of sheets
Back to top of page

There are 7 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	360	361	first strand
Strand 2	B	347	351	parallel
Strand 3	B	328	332	parallel
Strand 4	B	377	381	parallel
Strand 5	B	392	397	parallel
Strand 6	B	503	507	anti-parallel
Strand 7	B	436	437	anti-parallel

Back to list of sheets
Back to top of page

There are 3 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	406	408	first strand
Strand 2	B	414	417	anti-parallel
Strand 3	B	421	424	anti-parallel

Back to list of sheets
Back to top of page

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	442	443	first strand
Strand 2	B	470	471	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: 9YCK

Analysis of interatomic Contacts of Structural Units in PDB entry:
9YCK