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

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 9YAP entry

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

Chain ID	Initial residue	Terminal residue
A	GLN 12	GLU 882
B	SER 2	ASN 340
G	SER 8	PHE 61

There are 36 helices in PDB entry 9YAP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	19	25	Right-handed alpha
Helix 2	AA2	A	83	90	Right-handed alpha
Helix 3	AA3	A	99	102	Right-handed 310
Helix 4	AA4	A	127	140	Right-handed alpha
Helix 5	AA5	A	141	146	Right-handed alpha
Helix 6	AA6	A	148	163	Right-handed alpha
Helix 7	AA7	A	171	179	Right-handed alpha
Helix 8	AA8	A	183	193	Right-handed alpha
Helix 9	AA9	A	209	220	Right-handed alpha
Helix 10	AB1	A	223	234	Right-handed alpha
Helix 11	AB2	A	242	254	Right-handed alpha
Helix 12	AB3	A	268	279	Right-handed alpha
Helix 13	AB4	A	292	302	Right-handed alpha
Helix 14	AB5	A	309	314	Right-handed alpha
Helix 15	AB6	A	322	326	Right-handed 310
Helix 16	AB7	A	347	355	Right-handed alpha
Helix 17	AB8	A	389	399	Right-handed alpha
Helix 18	AB9	A	418	434	Right-handed alpha
Helix 19	AC1	A	435	437	Right-handed 310
Helix 20	AC2	A	455	460	Right-handed 310
Helix 21	AC3	A	577	582	Right-handed 310
Helix 22	AC4	A	587	593	Right-handed alpha
Helix 23	AC5	A	604	612	Right-handed alpha
Helix 24	AC6	A	621	632	Right-handed alpha
Helix 25	AC7	A	632	641	Right-handed alpha
Helix 26	AC8	A	661	668	Right-handed alpha
Helix 27	AC9	A	680	690	Right-handed alpha
Helix 28	AD1	A	702	707	Right-handed alpha
Helix 29	AD2	A	754	758	Right-handed 310
Helix 30	AD3	A	814	816	Right-handed 310
Helix 31	AD4	A	869	878	Right-handed alpha
Helix 32	AD5	A	879	881	Right-handed 310
Helix 33	AD6	B	3	26	Right-handed alpha
Helix 34	AD7	B	29	35	Right-handed alpha
Helix 35	AD8	G	9	24	Right-handed alpha
Helix 36	AD9	G	29	45	Right-handed alpha

There are 14 sheets in PDB entry 9YAP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5,

There are 5 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	61	65	first strand
Strand 2	A	51	55	anti-parallel
Strand 3	A	41	45	anti-parallel
Strand 4	A	26	29	anti-parallel
Strand 5	A	121	122	anti-parallel

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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	A	69	74	first strand
Strand 2	A	104	108	anti-parallel
Strand 3	A	116	119	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	343	344	first strand
Strand 2	A	384	385	parallel

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There are 3 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	365	366	first strand
Strand 2	A	376	377	anti-parallel
Strand 3	A	387	388	anti-parallel

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There are 3 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	727	736	first strand
Strand 2	A	837	845	anti-parallel
Strand 3	A	821	823	anti-parallel

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There are 3 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	745	752	first strand
Strand 2	A	793	800	anti-parallel
Strand 3	A	804	812	anti-parallel

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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	47	51	first strand
Strand 2	B	336	339	anti-parallel
Strand 3	B	327	330	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	60	62	first strand
Strand 2	B	71	73	anti-parallel

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There are 3 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	111	112	first strand
Strand 2	B	121	125	anti-parallel
Strand 3	B	134	139	anti-parallel

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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	146	153	first strand
Strand 2	B	156	161	anti-parallel
Strand 3	B	165	170	anti-parallel
Strand 4	B	175	181	anti-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	187	192	first strand
Strand 2	B	199	203	anti-parallel

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There are 2 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	207	209	first strand
Strand 2	B	221	223	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	250	254	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	273	278	first strand
Strand 2	B	284	289	anti-parallel
Strand 3	B	294	298	anti-parallel
Strand 4	B	306	308	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: 9YAP

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