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

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 9YKA entry

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

Chain ID	Initial residue	Terminal residue
F	GLN 1	SER 113
G	ASP 1	ALA 107
H	GLN 1	SER 113
I	ASP 1	ALA 107
D	GLN 1	SER 113
E	ASP 1	ALA 107
A	THR 44	GLU 642
B	THR 44	GLU 642
C	THR 44	GLU 642

There are 21 helices in PDB entry 9YKA. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	F	61	64	Right-handed 310
Helix 2	AA2	F	83	87	Right-handed 310
Helix 3	AA3	F	100	100	Right-handed 310
Helix 4	AA4	G	79	83	Right-handed 310
Helix 5	AA5	H	61	64	Right-handed 310
Helix 6	AA6	H	83	87	Right-handed 310
Helix 7	AA7	H	100	100	Right-handed 310
Helix 8	AA8	I	79	83	Right-handed 310
Helix 9	AA9	D	61	64	Right-handed 310
Helix 10	AB1	D	83	87	Right-handed 310
Helix 11	AB2	D	100	100	Right-handed 310
Helix 12	AB3	E	79	83	Right-handed 310
Helix 13	AB4	A	456	501	Right-handed alpha
Helix 14	AB5	A	501	511	Right-handed alpha
Helix 15	AB6	A	617	619	Right-handed 310
Helix 16	AB7	B	456	501	Right-handed alpha
Helix 17	AB8	B	501	511	Right-handed alpha
Helix 18	AB9	B	617	619	Right-handed 310
Helix 19	AC1	C	456	501	Right-handed alpha
Helix 20	AC2	C	501	511	Right-handed alpha
Helix 21	AC3	C	617	619	Right-handed 310

There are 39 sheets in PDB entry 9YKA. 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, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2, AE3,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	3	6	first strand
Strand 2	F	18	25	anti-parallel
Strand 3	F	77	82	anti-parallel
Strand 4	F	67	72	anti-parallel

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There are 5 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	56	59	first strand
Strand 2	F	46	52	anti-parallel
Strand 3	F	34	39	anti-parallel
Strand 4	F	88	95	anti-parallel
Strand 5	F	100	103	anti-parallel

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There are 5 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	56	59	first strand
Strand 2	F	46	52	anti-parallel
Strand 3	F	34	39	anti-parallel
Strand 4	F	88	95	anti-parallel
Strand 5	F	107	109	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	F	100	100	first strand
Strand 2	F	100	100	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	G	4	6	first strand
Strand 2	G	19	25	anti-parallel
Strand 3	G	70	75	anti-parallel
Strand 4	G	62	67	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	10	13	first strand
Strand 2	G	102	106	parallel
Strand 3	G	85	90	anti-parallel
Strand 4	G	33	38	anti-parallel
Strand 5	G	45	48	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	10	13	first strand
Strand 2	G	102	106	parallel
Strand 3	G	85	90	anti-parallel
Strand 4	G	97	98	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3	6	first strand
Strand 2	H	18	25	anti-parallel
Strand 3	H	77	82	anti-parallel
Strand 4	H	67	72	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	H	56	59	first strand
Strand 2	H	46	52	anti-parallel
Strand 3	H	34	39	anti-parallel
Strand 4	H	88	95	anti-parallel
Strand 5	H	100	102	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	56	59	first strand
Strand 2	H	46	52	anti-parallel
Strand 3	H	34	39	anti-parallel
Strand 4	H	88	95	anti-parallel
Strand 5	H	107	109	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	H	100	100	first strand
Strand 2	H	100	100	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	I	4	6	first strand
Strand 2	I	19	25	anti-parallel
Strand 3	I	72	75	anti-parallel
Strand 4	I	62	65	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	13	first strand
Strand 2	I	102	106	parallel
Strand 3	I	85	90	anti-parallel
Strand 4	I	33	38	anti-parallel
Strand 5	I	45	48	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	I	10	13	first strand
Strand 2	I	102	106	parallel
Strand 3	I	85	90	anti-parallel
Strand 4	I	97	98	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	D	3	6	first strand
Strand 2	D	18	25	anti-parallel
Strand 3	D	77	82	anti-parallel
Strand 4	D	67	72	anti-parallel

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There are 5 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	56	59	first strand
Strand 2	D	46	52	anti-parallel
Strand 3	D	34	39	anti-parallel
Strand 4	D	88	95	anti-parallel
Strand 5	D	100	103	anti-parallel

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There are 5 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	56	59	first strand
Strand 2	D	46	52	anti-parallel
Strand 3	D	34	39	anti-parallel
Strand 4	D	88	95	anti-parallel
Strand 5	D	107	109	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	100	100	first strand
Strand 2	D	100	100	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	4	6	first strand
Strand 2	E	19	25	anti-parallel
Strand 3	E	70	75	anti-parallel
Strand 4	E	62	67	anti-parallel

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There are 5 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	13	first strand
Strand 2	E	102	106	parallel
Strand 3	E	85	90	anti-parallel
Strand 4	E	33	38	anti-parallel
Strand 5	E	45	48	anti-parallel

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There are 4 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	10	13	first strand
Strand 2	E	102	106	parallel
Strand 3	E	85	90	anti-parallel
Strand 4	E	97	98	anti-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	A	49	50	first strand
Strand 2	A	529	530	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	515	519	first strand
Strand 2	A	522	526	anti-parallel
Strand 3	A	58	62	anti-parallel
Strand 4	C	620	622	parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	77	79	first strand
Strand 2	A	307	310	anti-parallel
Strand 3	A	315	319	anti-parallel
Strand 4	A	324	326	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	A	537	538	first strand
Strand 2	A	556	559	anti-parallel
Strand 3	A	568	572	anti-parallel
Strand 4	A	578	579	anti-parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	550	551	first strand
Strand 2	A	586	587	anti-parallel

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There are 3 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	593	598	first strand
Strand 2	A	601	606	anti-parallel
Strand 3	A	609	615	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	620	622	first strand
Strand 2	B	58	62	parallel
Strand 3	B	522	526	anti-parallel
Strand 4	B	515	519	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	B	49	50	first strand
Strand 2	B	529	530	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	B	77	79	first strand
Strand 2	B	307	310	anti-parallel
Strand 3	B	315	319	anti-parallel
Strand 4	B	324	326	anti-parallel

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There are 4 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	537	538	first strand
Strand 2	B	556	559	anti-parallel
Strand 3	B	568	572	anti-parallel
Strand 4	B	578	579	anti-parallel

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There are 2 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	550	551	first strand
Strand 2	B	586	587	anti-parallel

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There are 3 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	593	598	first strand
Strand 2	B	601	606	anti-parallel
Strand 3	B	609	615	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	620	622	first strand
Strand 2	C	58	62	parallel
Strand 3	C	522	526	anti-parallel
Strand 4	C	515	519	anti-parallel

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There are 2 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	49	50	first strand
Strand 2	C	529	530	anti-parallel

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There are 4 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	77	79	first strand
Strand 2	C	307	310	anti-parallel
Strand 3	C	315	319	anti-parallel
Strand 4	C	324	326	anti-parallel

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There are 4 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	537	538	first strand
Strand 2	C	556	560	anti-parallel
Strand 3	C	567	572	anti-parallel
Strand 4	C	578	579	anti-parallel

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There are 2 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	550	551	first strand
Strand 2	C	586	587	anti-parallel

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There are 3 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	593	598	first strand
Strand 2	C	601	606	anti-parallel
Strand 3	C	609	615	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: 9YKA

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