Analysis of interatomic Contacts of Structural Units in PDB entry:
5YK4

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 5YK4 entry

There are 2 chains in PDB entry 5YK4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY -1	HIS 785
B	SER 4	LEU 529

There are 60 helices in PDB entry 5YK4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	7	18	Right-handed alpha
Helix 2	AA2	A	37	48	Right-handed alpha
Helix 3	AA3	A	71	82	Right-handed alpha
Helix 4	AA4	A	117	121	Right-handed 310
Helix 5	AA5	A	160	169	Right-handed alpha
Helix 6	AA6	A	194	198	Right-handed 310
Helix 7	AA7	A	199	212	Right-handed alpha
Helix 8	AA8	A	226	244	Right-handed alpha
Helix 9	AA9	A	266	274	Right-handed alpha
Helix 10	AB1	A	286	292	Right-handed alpha
Helix 11	AB2	A	296	309	Right-handed alpha
Helix 12	AB3	A	313	328	Right-handed alpha
Helix 13	AB4	A	330	339	Right-handed alpha
Helix 14	AB5	A	343	353	Right-handed alpha
Helix 15	AB6	A	357	373	Right-handed alpha
Helix 16	AB7	A	374	376	Right-handed 310
Helix 17	AB8	A	383	391	Right-handed alpha
Helix 18	AB9	A	394	405	Right-handed alpha
Helix 19	AC1	A	412	416	Right-handed 310
Helix 20	AC2	A	424	433	Right-handed alpha
Helix 21	AC3	A	434	453	Right-handed alpha
Helix 22	AC4	A	473	477	Right-handed alpha
Helix 23	AC5	A	497	532	Right-handed alpha
Helix 24	AC6	A	532	560	Right-handed alpha
Helix 25	AC7	A	581	586	Right-handed 310
Helix 26	AC8	A	612	628	Right-handed alpha
Helix 27	AC9	A	663	674	Right-handed alpha
Helix 28	AD1	A	695	709	Right-handed alpha
Helix 29	AD2	A	722	727	Right-handed 310
Helix 30	AD3	A	764	771	Right-handed 310
Helix 31	AD4	A	775	780	Right-handed alpha
Helix 32	AD5	B	7	18	Right-handed alpha
Helix 33	AD6	B	37	47	Right-handed alpha
Helix 34	AD7	B	71	82	Right-handed alpha
Helix 35	AD8	B	160	169	Right-handed alpha
Helix 36	AD9	B	194	198	Right-handed 310
Helix 37	AE1	B	199	212	Right-handed alpha
Helix 38	AE2	B	216	220	Right-handed 310
Helix 39	AE3	B	226	244	Right-handed alpha
Helix 40	AE4	B	266	273	Right-handed alpha
Helix 41	AE5	B	296	309	Right-handed alpha
Helix 42	AE6	B	318	328	Right-handed alpha
Helix 43	AE7	B	331	339	Right-handed alpha
Helix 44	AE8	B	343	354	Right-handed alpha
Helix 45	AE9	B	357	372	Right-handed alpha
Helix 46	AF1	B	382	391	Right-handed alpha
Helix 47	AF2	B	394	403	Right-handed alpha
Helix 48	AF3	B	424	432	Right-handed alpha
Helix 49	AF4	B	433	438	Right-handed 310
Helix 50	AF5	B	440	448	Right-handed alpha
Helix 51	AF6	B	499	502	Right-handed 310
Helix 52	AF7	B	503	525	Right-handed alpha
Helix 53	AF8	B	531	559	Right-handed alpha
Helix 54	AF9	B	582	587	Right-handed alpha
Helix 55	AG1	B	608	611	Right-handed 310
Helix 56	AG2	B	612	628	Right-handed alpha
Helix 57	AG3	B	670	674	Right-handed 310
Helix 58	AG4	B	693	708	Right-handed alpha
Helix 59	AG5	B	727	731	Right-handed 310
Helix 60	AG6	B	773	781	Right-handed alpha

There are 13 sheets in PDB entry 5YK4. 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,

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	52	57	first strand
Strand 2	A	60	68	anti-parallel
Strand 3	A	32	36	anti-parallel
Strand 4	A	24	29	anti-parallel
Strand 5	A	86	92	parallel
Strand 6	A	103	105	anti-parallel

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There are 6 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	52	57	first strand
Strand 2	A	60	68	anti-parallel
Strand 3	A	32	36	anti-parallel
Strand 4	A	24	29	anti-parallel
Strand 5	A	86	92	parallel
Strand 6	A	109	110	anti-parallel

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There are 6 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	189	193	first strand
Strand 2	A	172	176	parallel
Strand 3	A	129	134	parallel
Strand 4	A	139	145	anti-parallel
Strand 5	A	150	156	anti-parallel
Strand 6	A	255	257	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	459	462	first strand
Strand 2	A	466	472	anti-parallel
Strand 3	A	492	495	anti-parallel

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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	A	565	566	first strand
Strand 2	A	637	640	parallel
Strand 3	A	572	577	anti-parallel
Strand 4	A	592	596	anti-parallel

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There are 6 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	646	649	first strand
Strand 2	A	682	686	parallel
Strand 3	A	715	719	parallel
Strand 4	A	602	606	parallel
Strand 5	A	735	740	parallel
Strand 6	A	755	757	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	743	744	first strand
Strand 2	A	749	750	anti-parallel

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There are 6 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	52	57	first strand
Strand 2	B	60	68	anti-parallel
Strand 3	B	32	36	anti-parallel
Strand 4	B	24	29	anti-parallel
Strand 5	B	86	90	parallel
Strand 6	B	105	110	anti-parallel

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There are 5 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	151	157	first strand
Strand 2	B	138	144	anti-parallel
Strand 3	B	129	133	anti-parallel
Strand 4	B	172	175	parallel
Strand 5	B	190	192	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	459	460	first strand
Strand 2	B	468	469	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	561	562	first strand
Strand 2	B	633	634	anti-parallel

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There are 4 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	564	566	first strand
Strand 2	B	637	640	parallel
Strand 3	B	572	577	anti-parallel
Strand 4	B	592	596	anti-parallel

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There are 6 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	646	647	first strand
Strand 2	B	682	686	parallel
Strand 3	B	716	719	parallel
Strand 4	B	602	605	parallel
Strand 5	B	735	740	parallel
Strand 6	B	755	757	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: 5YK4

Analysis of interatomic Contacts of Structural Units in PDB entry:
5YK4