Analysis of interatomic Contacts of Structural Units in PDB entry:
6YPA

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 6YPA entry

There are 4 chains in PDB entry 6YPA (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	HIS 0	ARG 262
B	LEU -6	ARG 262
C	HIS 0	ARG 262
D	SER -1	ARG 262

There are 37 helices in PDB entry 6YPA. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	15	33	Right-handed alpha
Helix 2	AA2	A	52	58	Right-handed alpha
Helix 3	AA3	A	66	80	Right-handed alpha
Helix 4	AA4	A	119	124	Right-handed alpha
Helix 5	AA5	A	145	150	Right-handed 310
Helix 6	AA6	A	151	161	Right-handed alpha
Helix 7	AA7	A	176	189	Right-handed alpha
Helix 8	AA8	A	237	242	Right-handed alpha
Helix 9	AA9	A	251	255	Right-handed alpha
Helix 10	AB1	A	256	260	Right-handed 310
Helix 11	AB2	B	15	33	Right-handed alpha
Helix 12	AB3	B	52	58	Right-handed alpha
Helix 13	AB4	B	66	80	Right-handed alpha
Helix 14	AB5	B	119	124	Right-handed alpha
Helix 15	AB6	B	145	150	Right-handed 310
Helix 16	AB7	B	151	161	Right-handed alpha
Helix 17	AB8	B	176	189	Right-handed alpha
Helix 18	AB9	B	237	242	Right-handed alpha
Helix 19	AC1	B	256	260	Right-handed 310
Helix 20	AC2	C	15	33	Right-handed alpha
Helix 21	AC3	C	52	58	Right-handed alpha
Helix 22	AC4	C	66	80	Right-handed alpha
Helix 23	AC5	C	119	124	Right-handed alpha
Helix 24	AC6	C	145	150	Right-handed 310
Helix 25	AC7	C	151	161	Right-handed alpha
Helix 26	AC8	C	176	189	Right-handed alpha
Helix 27	AC9	C	237	242	Right-handed alpha
Helix 28	AD1	C	256	260	Right-handed 310
Helix 29	AD2	D	15	33	Right-handed alpha
Helix 30	AD3	D	52	58	Right-handed alpha
Helix 31	AD4	D	66	80	Right-handed alpha
Helix 32	AD5	D	119	124	Right-handed alpha
Helix 33	AD6	D	145	150	Right-handed 310
Helix 34	AD7	D	151	161	Right-handed alpha
Helix 35	AD8	D	176	189	Right-handed alpha
Helix 36	AD9	D	237	242	Right-handed alpha
Helix 37	AE1	D	256	260	Right-handed 310

There are 18 sheets in PDB entry 6YPA. 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,

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	A	61	62	first strand
Strand 2	A	82	91	parallel
Strand 3	A	94	103	anti-parallel
Strand 4	A	106	112	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	A	61	62	first strand
Strand 2	A	82	91	parallel
Strand 3	A	37	39	parallel
Strand 4	A	1	8	parallel
Strand 5	A	229	236	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	133	135	first strand
Strand 2	A	140	143	anti-parallel
Strand 3	A	165	170	parallel
Strand 4	A	191	196	parallel
Strand 5	A	211	213	anti-parallel
Strand 6	A	219	222	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	200	201	first strand
Strand 2	A	204	205	anti-parallel

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There are 2 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	244	246	first strand
Strand 2	A	249	250	anti-parallel

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There are 4 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	61	62	first strand
Strand 2	B	82	91	parallel
Strand 3	B	94	103	anti-parallel
Strand 4	B	106	112	anti-parallel

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There are 5 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	61	62	first strand
Strand 2	B	82	91	parallel
Strand 3	B	37	39	parallel
Strand 4	B	1	8	parallel
Strand 5	B	229	236	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	133	135	first strand
Strand 2	B	140	143	anti-parallel
Strand 3	B	165	170	parallel
Strand 4	B	191	196	parallel
Strand 5	B	211	213	anti-parallel
Strand 6	B	219	222	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	200	201	first strand
Strand 2	B	204	205	anti-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	244	246	first strand
Strand 2	B	249	250	anti-parallel

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There are 6 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	106	112	first strand
Strand 2	C	94	103	anti-parallel
Strand 3	C	82	91	anti-parallel
Strand 4	C	37	39	parallel
Strand 5	C	1	8	parallel
Strand 6	C	229	236	anti-parallel

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There are 6 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	133	135	first strand
Strand 2	C	140	143	anti-parallel
Strand 3	C	165	170	parallel
Strand 4	C	191	196	parallel
Strand 5	C	211	213	anti-parallel
Strand 6	C	219	222	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	200	201	first strand
Strand 2	C	204	205	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	244	246	first strand
Strand 2	C	249	250	anti-parallel

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There are 6 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	106	112	first strand
Strand 2	D	94	103	anti-parallel
Strand 3	D	82	91	anti-parallel
Strand 4	D	37	39	parallel
Strand 5	D	1	8	parallel
Strand 6	D	229	236	anti-parallel

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There are 6 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	133	135	first strand
Strand 2	D	140	143	anti-parallel
Strand 3	D	165	170	parallel
Strand 4	D	191	196	parallel
Strand 5	D	211	213	anti-parallel
Strand 6	D	219	222	anti-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	200	201	first strand
Strand 2	D	204	205	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	244	246	first strand
Strand 2	D	249	250	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: 6YPA

Analysis of interatomic Contacts of Structural Units in PDB entry:
6YPA