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

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 5YBF entry

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

Chain ID	Initial residue	Terminal residue
A	ASN 413	GLY 795
B	ASN 413	GLY 795
C	ASN 413	GLY 795
D	ASN 413	GLY 795
E	ASN 413	ALA 766

There are 70 helices in PDB entry 5YBF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	432	436	Right-handed 310
Helix 2	AA2	A	437	440	Right-handed 310
Helix 3	AA3	A	444	458	Right-handed alpha
Helix 4	AA4	A	482	490	Right-handed alpha
Helix 5	AA5	A	503	508	Right-handed alpha
Helix 6	AA6	A	656	662	Right-handed alpha
Helix 7	AA7	A	674	683	Right-handed alpha
Helix 8	AA8	A	685	698	Right-handed alpha
Helix 9	AA9	A	706	717	Right-handed alpha
Helix 10	AB1	A	727	735	Right-handed alpha
Helix 11	AB2	A	763	777	Right-handed alpha
Helix 12	AB3	A	778	789	Right-handed alpha
Helix 13	AB4	B	432	436	Right-handed 310
Helix 14	AB5	B	437	440	Right-handed 310
Helix 15	AB6	B	444	458	Right-handed alpha
Helix 16	AB7	B	482	490	Right-handed alpha
Helix 17	AB8	B	503	508	Right-handed alpha
Helix 18	AB9	B	656	663	Right-handed alpha
Helix 19	AC1	B	674	683	Right-handed alpha
Helix 20	AC2	B	685	698	Right-handed alpha
Helix 21	AC3	B	706	717	Right-handed alpha
Helix 22	AC4	B	727	735	Right-handed alpha
Helix 23	AC5	B	763	777	Right-handed alpha
Helix 24	AC6	B	778	789	Right-handed alpha
Helix 25	AC7	C	437	440	Right-handed 310
Helix 26	AC8	C	444	458	Right-handed alpha
Helix 27	AC9	C	482	490	Right-handed alpha
Helix 28	AD1	C	503	508	Right-handed alpha
Helix 29	AD2	C	656	662	Right-handed alpha
Helix 30	AD3	C	674	683	Right-handed alpha
Helix 31	AD4	C	685	698	Right-handed alpha
Helix 32	AD5	C	706	717	Right-handed alpha
Helix 33	AD6	C	727	735	Right-handed alpha
Helix 34	AD7	C	763	777	Right-handed alpha
Helix 35	AD8	C	778	789	Right-handed alpha
Helix 36	AD9	D	437	440	Right-handed 310
Helix 37	AE1	D	444	458	Right-handed alpha
Helix 38	AE2	D	482	490	Right-handed alpha
Helix 39	AE3	D	503	508	Right-handed alpha
Helix 40	AE4	D	656	662	Right-handed alpha
Helix 41	AE5	D	674	683	Right-handed alpha
Helix 42	AE6	D	685	698	Right-handed alpha
Helix 43	AE7	D	706	717	Right-handed alpha
Helix 44	AE8	D	727	735	Right-handed alpha
Helix 45	AE9	D	763	777	Right-handed alpha
Helix 46	AF1	D	778	789	Right-handed alpha
Helix 47	AF2	E	432	436	Right-handed 310
Helix 48	AF3	E	437	440	Right-handed 310
Helix 49	AF4	E	444	458	Right-handed alpha
Helix 50	AF5	E	482	490	Right-handed alpha
Helix 51	AF6	E	503	508	Right-handed alpha
Helix 52	AF7	E	656	662	Right-handed alpha
Helix 53	AF8	E	674	683	Right-handed alpha
Helix 54	AF9	E	685	698	Right-handed alpha
Helix 55	AG1	E	706	717	Right-handed alpha
Helix 56	AG2	E	727	735	Right-handed alpha
Helix 57	AG3	E	763	777	Right-handed alpha
Helix 58	AG4	E	778	789	Right-handed alpha
Helix 59	AG5	F	432	436	Right-handed 310
Helix 60	AG6	F	437	440	Right-handed 310
Helix 61	AG7	F	444	458	Right-handed alpha
Helix 62	AG8	F	482	490	Right-handed alpha
Helix 63	AG9	F	503	508	Right-handed alpha
Helix 64	AH1	F	656	663	Right-handed alpha
Helix 65	AH2	F	674	683	Right-handed alpha
Helix 66	AH3	F	685	698	Right-handed alpha
Helix 67	AH4	F	706	717	Right-handed alpha
Helix 68	AH5	F	727	735	Right-handed alpha
Helix 69	AH6	F	763	777	Right-handed alpha
Helix 70	AH7	F	778	789	Right-handed alpha

There are 30 sheets in PDB entry 5YBF. 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, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3,

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	461	465	first strand
Strand 2	A	416	420	parallel
Strand 3	A	495	496	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	428	429	first strand
Strand 2	A	442	443	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	510	512	first strand
Strand 2	A	756	758	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	517	519	first strand
Strand 2	A	751	753	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	667	670	first strand
Strand 2	A	721	726	parallel
Strand 3	A	521	526	anti-parallel
Strand 4	A	741	744	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	B	461	465	first strand
Strand 2	B	416	420	parallel
Strand 3	B	495	496	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	B	428	429	first strand
Strand 2	B	442	443	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	510	512	first strand
Strand 2	B	756	758	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	517	519	first strand
Strand 2	B	751	753	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	667	670	first strand
Strand 2	B	721	726	parallel
Strand 3	B	521	526	anti-parallel
Strand 4	B	741	744	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	461	465	first strand
Strand 2	C	416	420	parallel
Strand 3	C	495	496	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	C	428	429	first strand
Strand 2	C	442	443	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	510	512	first strand
Strand 2	C	756	758	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	517	519	first strand
Strand 2	C	751	753	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	667	669	first strand
Strand 2	C	721	726	parallel
Strand 3	C	521	526	anti-parallel
Strand 4	C	741	744	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	461	465	first strand
Strand 2	D	416	420	parallel
Strand 3	D	495	496	parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	428	429	first strand
Strand 2	D	442	443	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	510	512	first strand
Strand 2	D	756	758	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	517	519	first strand
Strand 2	D	751	753	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	667	669	first strand
Strand 2	D	721	726	parallel
Strand 3	D	521	526	anti-parallel
Strand 4	D	741	744	anti-parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	461	465	first strand
Strand 2	E	416	420	parallel
Strand 3	E	495	496	parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	428	429	first strand
Strand 2	E	442	443	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	510	512	first strand
Strand 2	E	756	758	anti-parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	517	519	first strand
Strand 2	E	751	753	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	667	669	first strand
Strand 2	E	721	726	parallel
Strand 3	E	521	526	anti-parallel
Strand 4	E	741	744	anti-parallel

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There are 3 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	461	465	first strand
Strand 2	F	416	420	parallel
Strand 3	F	495	496	parallel

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There are 2 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	428	429	first strand
Strand 2	F	442	443	anti-parallel

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There are 2 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	510	512	first strand
Strand 2	F	756	758	anti-parallel

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There are 2 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	517	519	first strand
Strand 2	F	751	753	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	667	670	first strand
Strand 2	F	721	726	parallel
Strand 3	F	521	526	anti-parallel
Strand 4	F	741	744	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: 5YBF

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